Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 54 of 295
Found at i:16060144 original size:44 final size:44
Alignment explanation
Indices: 16060081--16060169 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
16060071 AAAATGTTAT
16060081 ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
1 ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
* ** *
16060125 ATCCATTAAAGAAATAGTCAATCATAGAGTGCCACATCATGTAA
1 ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
16060169 A
1 A
16060170 CATTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (44 bp):
ATCCATTAAAAAAATAGTCAATCATAGACCGCCACATCATATAA
Found at i:16072533 original size:21 final size:21
Alignment explanation
Indices: 16072508--16072556 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
16072498 TACAAGGATC
16072508 ACATGCCCGTGTGG-CCAAGGG
1 ACATGCCCGTGTGGTCCAA-GG
*
16072529 ACATGCCCGTGTGGTCCAATG
1 ACATGCCCGTGTGGTCCAAGG
16072550 ACATGCC
1 ACATGCC
16072557 TGTGCTTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (21 bp):
ACATGCCCGTGTGGTCCAAGG
Found at i:16073886 original size:42 final size:42
Alignment explanation
Indices: 16073827--16073990 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
16073817 TAAGGGTTAC
*
16073827 TGAGACTAT-GTGTAAGACCATATCTATGATATGGCATCTATA
1 TGAGACT-TCGTGTAAGACCATATCTATGATATGGCATCGATA
*
16073869 TGAGACTTCGTGTAAGACCATATCTGTGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTATGATATGGCATCGATA
* * ** * *
16073911 TGAGACTTCATGTAAGACCATAGCTGGGGTATTGGCATTGATA
1 TGAGACTTCGTGTAAGACCATATCTATGATA-TGGCATCGATA
* * * * *
16073954 CGAGA-TCCCATGTAAGACCATATCTAGGATACGGCAT
1 TGAGACT-TCGTGTAAGACCATATCTATGATATGGCAT
16073991 TGGTATGGTA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 71 0.67
43 34 0.32
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTATGATATGGCATCGATA
Found at i:16075973 original size:3 final size:3
Alignment explanation
Indices: 16075965--16076045 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
16075955 TTAGATTTTC
* * * * *
16075965 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TACT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* *
16076010 TAT TAT TAT TTT TAT TAT TAT TGT TACT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
16076046 CTTTTGCATC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.06
3 58 0.85
4 6 0.09
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:16076014 original size:30 final size:30
Alignment explanation
Indices: 16075965--16076045 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
16075955 TTAGATTTTC
* *
16075965 TATTATTATTA-TTATTATTATTATTGTTGT
1 TATTATTGTTACTTA-TATTATTATTGTTAT
* * *
16075995 TGTTGTTGTTACTTATATTATTATTTTTAT
1 TATTATTGTTACTTATATTATTATTGTTAT
16076025 TATTATTGTTACTTATATTAT
1 TATTATTGTTACTTATATTAT
16076046 CTTTTGCATC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.65
Consensus pattern (30 bp):
TATTATTGTTACTTATATTATTATTGTTAT
Found at i:16082521 original size:24 final size:25
Alignment explanation
Indices: 16082471--16082521 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
16082461 ATTTATTTTT
*
16082471 TTATTTTAAGATGTTTTATTATGTG
1 TTATTTTAAGATATTTTATTATGTG
16082496 TTATTTTAA-ATATTTTA-TATGATG
1 TTATTTTAAGATATTTTATTATG-TG
16082520 TT
1 TT
16082522 TACGTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (25 bp):
TTATTTTAAGATATTTTATTATGTG
Found at i:16083065 original size:9 final size:9
Alignment explanation
Indices: 16083051--16083076 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16083041 AAATATTTTA
16083051 TATTTTATT
1 TATTTTATT
16083060 TATTTTATT
1 TATTTTATT
16083069 TATTTTAT
1 TATTTTAT
16083077 ACTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTTATT
Found at i:16095788 original size:17 final size:17
Alignment explanation
Indices: 16095766--16095799 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16095756 CAAATATATT
16095766 TCATTCGATTCGAATTA
1 TCATTCGATTCGAATTA
16095783 TCATTCGATTCGAATTA
1 TCATTCGATTCGAATTA
16095800 CATCTCACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TCATTCGATTCGAATTA
Found at i:16096193 original size:5 final size:5
Alignment explanation
Indices: 16096183--16096220 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
16096173 TCTTATGTTT
16096183 TATTA TATTA TATTA TATTA TATTA TTATT- TATT- TATT
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATT
16096221 CCGAATTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.25
5 20 0.62
6 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TATTA
Found at i:16102894 original size:34 final size:35
Alignment explanation
Indices: 16102850--16102916 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
16102840 CAGTAAAATA
* * *
16102850 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
16102884 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
16102917 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:16102903 original size:20 final size:20
Alignment explanation
Indices: 16102865--16102903 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16102855 CGTAAAATGA
**
16102865 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
16102885 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
16102904 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:16104290 original size:27 final size:27
Alignment explanation
Indices: 16104260--16104329 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
16104250 AATAATCAAT
*
16104260 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
16104287 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
16104315 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
16104330 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:16107215 original size:8 final size:8
Alignment explanation
Indices: 16107202--16107226 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16107192 CCATTACCAG
16107202 GAACAACA
1 GAACAACA
16107210 GAACAACA
1 GAACAACA
16107218 GAACAACA
1 GAACAACA
16107226 G
1 G
16107227 GAACGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (8 bp):
GAACAACA
Found at i:16108054 original size:24 final size:24
Alignment explanation
Indices: 16108027--16108099 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
16108017 TGCAATCGAT
*
16108027 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
16108051 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
*
16108075 AGGATGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
16108099 A
1 A
16108100 ATGTCTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.04, G:0.45, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:16109604 original size:45 final size:45
Alignment explanation
Indices: 16109537--16109652 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
16109527 CCTAAACAAT
* *
16109537 AATCAGTAATAGTAACAATAACAGTATTCAACACACAAAGTACT-G
1 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGT-CTCG
* * * *
16109582 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCG
1 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTCTCG
*
16109627 AATCAGTAACAGTAACAGTAATAGTA
1 AATCAGTAACAGTAACAGTAACAGTA
16109653 GTCGGCACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTCTCG
Found at i:16110667 original size:13 final size:13
Alignment explanation
Indices: 16110644--16110674 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16110634 TTCTCTTTTA
16110644 TTTTC-TTTCTCT
1 TTTTCTTTTCTCT
16110656 TTTTCTTTTCTCT
1 TTTTCTTTTCTCT
16110669 TTTTCT
1 TTTTCT
16110675 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTCTCT
Found at i:16112610 original size:89 final size:89
Alignment explanation
Indices: 16112431--16112722 Score: 247
Period size: 89 Copynumber: 3.3 Consensus size: 89
16112421 TTTAATCTGT
* * * * * *
16112431 TCCACTGCAACTTCAGGGAAATAAGA-TACGCTAATTTCAA-CTTGCTCCACTGCAACTTCATGA
1 TCCACTGCAACTTCAGGGAGATAAGACT-TG-TAACTTCAATC-TACTCCACTGCAACTTCAAGG
* *
16112494 AAATACA-ACTTGTAA-CTTCTA-TCTAC
63 AGATA-AGACTTGTAATC-TATAGTCTAC
* * * ** * *
16112520 TCCATTGCAACTTCAGGGATATTAGTTTTGTAACTTCTATCTATTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGA
*
16112585 TAAGATTTGTAATCTATAGTCTAC
66 TAAGACTTGTAATCTATAGTCTAC
* * * * *
16112609 TCCACTGTAATTTTAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGA
** * *
16112674 TAAGACTTGT-GGCT-TCAATCTGC
66 TAAGACTTGTAATCTAT-AGTCTAC
*
16112697 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
16112723 TTCACCTTGG
Statistics
Matches: 162, Mismatches: 35, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
87 2 0.01
88 67 0.41
89 92 0.57
90 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGA
TAAGACTTGTAATCTATAGTCTAC
Found at i:16112629 original size:45 final size:44
Alignment explanation
Indices: 16112412--16112722 Score: 270
Period size: 44 Copynumber: 7.0 Consensus size: 44
16112402 AGTACTTGTA
* * ** *
16112412 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG
1 ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
16112456 A-TACGCTAATTTCAA-CTTGCTCCACTGCAACTTCATGAAAATACA-
1 ACT-TG-TAACTTCAATC-TACTCCACTGCAACTTCAGGGAGATA-AG
* * * *
16112501 ACTTGTAACTTCTATCTACTCCATTGCAACTTCAGGGATATTAG
1 ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
** * * *
16112545 TTTTGTAACTTCTATCTATTCCACTGCAACTTCAAGGAGATAAG
1 ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * *
16112589 ATTTGTAATCTAT-AGTCTACTCCACTGTAATTTTAGGGAGATAAG
1 ACTTGTAA-CT-TCAATCTACTCCACTGCAACTTCAGGGAGATAAG
*
16112634 ACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
** * *
16112678 ACTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
1 ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
16112722 A
1 A
16112723 TTCACCTTGG
Statistics
Matches: 217, Mismatches: 40, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
43 3 0.01
44 145 0.67
45 66 0.30
46 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
ACTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
Found at i:16115217 original size:46 final size:44
Alignment explanation
Indices: 16115066--16115217 Score: 214
Period size: 44 Copynumber: 3.4 Consensus size: 44
16115056 TGTCTTTGAC
** * *
16115066 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
*
16115110 ATGGACTTACATGGCTCAATCTTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
* * *
16115154 ATGGACTTGCATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATA--TATAAT
16115200 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16115218 TTTCTGTTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 74 0.77
46 22 0.23
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
Found at i:16120753 original size:22 final size:22
Alignment explanation
Indices: 16120696--16120757 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
16120686 CTCCGATTAT
*
16120696 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTA
* * **
16120718 TAACACATTCGTGCTCTTTGTA
1 TAGCACATTAGTGCTCTCCGTA
*
16120740 TAGCACTTTAGTGCTCTC
1 TAGCACATTAGTGCTCTC
16120758 TGTTCAATAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTA
Found at i:16135179 original size:7 final size:7
Alignment explanation
Indices: 16135167--16135204 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
16135157 GAGACACTGT
16135167 TCATCAC
1 TCATCAC
16135174 TCATCAC
1 TCATCAC
16135181 TCATCAC
1 TCATCAC
16135188 TCATCAC
1 TCATCAC
16135195 TCATCAC
1 TCATCAC
16135202 TCA
1 TCA
16135205 AACAGTAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.42, G:0.00, T:0.29
Consensus pattern (7 bp):
TCATCAC
Found at i:16136891 original size:16 final size:15
Alignment explanation
Indices: 16136865--16136899 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16136855 TGATGTGAAT
16136865 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16136880 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16136896 AATA
1 AATA
16136900 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16137070 original size:20 final size:20
Alignment explanation
Indices: 16137013--16137072 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16137003 AATACTACAT
16137013 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16137032 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16137055 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16137073 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16137080 original size:23 final size:23
Alignment explanation
Indices: 16137054--16137190 Score: 111
Period size: 25 Copynumber: 5.8 Consensus size: 23
16137044 GATAATATTA
* *
16137054 AAAATATGTACATAATATAGTGT
1 AAAATATATACATAATATAATGT
*
16137077 AAAAAATACATACATAATATAAT-T
1 --AAAATATATACATAATATAATGT
*
16137101 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAATAT-A-ATGT
16137126 AAAATATAT--ATAATATAGTAT-T
1 AAAATATATACATAATATA--ATGT
* *
16137148 AAAGATATATACATAAAATAATAT
1 AAA-ATATATACATAATATAATGT
* *
16137172 AATATATATACGTAATATA
1 AAAATATATACATAATATA
16137191 GAATTTAGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
22 21 0.23
23 31 0.33
24 6 0.06
25 35 0.38
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATAATGT
Found at i:16137140 original size:70 final size:70
Alignment explanation
Indices: 16137062--16137241 Score: 195
Period size: 70 Copynumber: 2.6 Consensus size: 70
16137052 TAAAAATATG
*
16137062 TACATAATATAGTGTAAAAAATACATACATAATATAAT-TAAAATATATACATAAGATA-ACATG
1 TACATAATATAGT-TAAAAAATATATACATAATATAATATAAAATATATACATAAGATAGA-ATG
16137125 TAAAATA
64 TAAAATA
* * * * * * * *
16137132 TATATAATATAGTATTAAAGATATATACATAAAATAATATAATATATATACGTAATATAGAATTT
1 TACATAATATAGT-TAAAAAATATATACATAATATAATATAAAATATATACATAAGATAGAATGT
*
16137197 AGAATA
65 AAAATA
* *
16137203 TACCTAATATA-TTAAAAGAATATATATATAATATAATAT
1 TACATAATATAGTTAAAA-AATATATACATAATATAATAT
16137242 TAAGAAATAT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
69 4 0.04
70 51 0.57
71 34 0.38
72 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (70 bp):
TACATAATATAGTTAAAAAATATATACATAATATAATATAAAATATATACATAAGATAGAATGTA
AAATA
Found at i:16137180 original size:25 final size:23
Alignment explanation
Indices: 16137050--16137182 Score: 76
Period size: 22 Copynumber: 5.7 Consensus size: 23
16137040 ACGTGATAAT
* * *
16137050 ATTAAAAATATGTACATAATATA
1 ATTAAATATATATACATAAAATA
* * * *
16137073 GTGTAAAAAATACATACATAATATA
1 AT-T-AAATATATATACATAAAATA
*
16137098 ATTAAA-ATATATACATAAGATAA
1 ATTAAATATATATACATAAAAT-A
* *
16137121 CATGTAAAATATATATA-ATATAGT-
1 -AT-T-AAATATATATACATAAAATA
*
16137145 ATTAAAGATATATACATAAAATA
1 ATTAAATATATATACATAAAATA
16137168 A-TATAATATATATAC
1 ATTA-AATATATATAC
16137183 GTAATATAGA
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
21 10 0.11
22 21 0.24
23 18 0.21
24 4 0.05
25 20 0.23
26 7 0.08
27 7 0.08
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
ATTAAATATATATACATAAAATA
Found at i:16137181 original size:48 final size:46
Alignment explanation
Indices: 16137080--16137256 Score: 132
Period size: 48 Copynumber: 3.8 Consensus size: 46
16137070 ATAGTGTAAA
* * * * *
16137080 AAATACATACATAATATA--ATTAAAATATATACATAAGATAACATGT
1 AAATATATATATAATATAGTATTAAGATATATACATAAAAT-A-ATAT
16137126 AAA-ATATATATAATATAGTATTAAAGATATATACATAAAATAATAT
1 AAATATATATATAATATAGTATT-AAGATATATACATAAAATAATAT
* * * * * *
16137172 -AATATATATACGTAATATAGAATTTAGA-ATATACCTAATATATTAAA
1 AAATATATATA--TAATATAGTATTAAGATATATACATAAAATAAT-AT
* *
16137219 AGAATATATATATAATATAATATTAAGAAATATA-ATAA
1 A-AATATATATATAATATAGTATTAAGATATATACATAA
16137257 TAACAAAAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
45 14 0.13
46 26 0.25
47 24 0.23
48 32 0.30
49 10 0.09
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (46 bp):
AAATATATATATAATATAGTATTAAGATATATACATAAAATAATAT
Found at i:16137234 original size:24 final size:23
Alignment explanation
Indices: 16137207--16137258 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16137197 AGAATATACC
*
16137207 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
16137231 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
16137254 TAATA
1 TAATA
16137259 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:16137763 original size:18 final size:18
Alignment explanation
Indices: 16137740--16137823 Score: 66
Period size: 18 Copynumber: 5.3 Consensus size: 18
16137730 ACAAGTGGTG
16137740 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
16137758 GT-G-G--AGTG-GG-TA
1 GTGGAGCAAGTGTGGCTA
*
16137770 GTAGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
16137788 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
16137800 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
16137818 GTGGAG
1 GTGGAG
16137824 TTGGTGGTGG
Statistics
Matches: 52, Mismatches: 2, Indels: 24
0.67 0.03 0.31
Matches are distributed among these distances:
12 7 0.13
13 7 0.13
14 9 0.17
16 9 0.17
17 7 0.13
18 13 0.25
ACGTcount: A:0.20, C:0.07, G:0.49, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:16137825 original size:30 final size:30
Alignment explanation
Indices: 16137735--16137833 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
16137725 TAGGTACAAG
16137735 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
16137765 GGGTAGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16137795 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16137825 TGGTGGTGG
1 TGGTGGTGG
16137834 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16138764 original size:88 final size:88
Alignment explanation
Indices: 16138479--16138796 Score: 282
Period size: 88 Copynumber: 3.6 Consensus size: 88
16138469 TGTGATCCTG
* * **
16138479 AGCTCAACTCATTTCTCGCAATATGAA-TTGACTCTTTAAAAC-TAGACATT--AAAAACAGAAA
1 AGCTCAACTCATTTCTCGCAATAT-AAGTTGATTCTTGAAAACATA-A-ATTGAAAAAACATTAA
* *
16138540 TTGAAAATAGCTCAGCACGTGAGCC-A
63 TTGAAAATACCTCAG-ACGTGACCCGA
* * *
16138566 AGGCTCAACTCA-TTCTCGCAATATGAGTTGATGT-TT-AAAACA-AAATTTGTAAAACAGATT-
1 A-GCTCAACTCATTTCTCGCAATATAAGTTGAT-TCTTGAAAACATAAA-TTG-AAAAAACATTA
* *
16138626 -TTGAAAATACCTCGGTATGTGACCCGA
62 ATTGAAAATACCTCAG-ACGTGACCCGA
* *
16138653 GGCTCAACTCATTTCTCGTAATATAAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATT
1 AGCTCAACTCATTTCTCGCAATATAAGTTGATTCTTGAAAA-CATAAATTGAAAAAACATTAATT
*
16138718 GAAAATACCTCAG-CGTGCCCCGA
65 GAAAATACCTCAGACGTGACCCGA
** * *
16138741 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAA
1 AGCTCAACTCATTTCTCGCAATATAAGTTGA-TTCTTG-AAAACATAAATTGAAAA
16138797 CACCTCAGCG
Statistics
Matches: 188, Mismatches: 25, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
86 38 0.20
87 40 0.21
88 62 0.33
89 23 0.12
90 21 0.11
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (88 bp):
AGCTCAACTCATTTCTCGCAATATAAGTTGATTCTTGAAAACATAAATTGAAAAAACATTAATTG
AAAATACCTCAGACGTGACCCGA
Found at i:16138840 original size:76 final size:76
Alignment explanation
Indices: 16138705--16139330 Score: 651
Period size: 71 Copynumber: 8.2 Consensus size: 76
16138695 CATAAATTGA
** * * *
16138705 AAAAACATTAATTGAAAATACCTCAGC--GTGCCCCGAAGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
16138768 TTGATTTTTTG
66 TTGATTTTTTG
*
16138779 AAAAACATAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
16138844 TTGATTTTTTG
66 TTGATTTTTTG
** * * *
16138855 ATGAACAGAAATT-AAAACTACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAACATGA
1 AAAAACAGAAATTGAAAAC-ACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
16138917 GTTGATTTTTTTG
65 GTTGA-TTTTTTG
*
16138930 AAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
16138995 TTGATTTTTTTG
66 TTGA-TTTTTTG
* * * * *
16139007 ACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTG-AAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
16139072 GTTGATTTTTTG
65 GTTGATTTTTTG
* *
16139084 AAAAATAGAAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
16139144 TTGA-TTTTTG
66 TTGATTTTTTG
* * * * **
16139154 AAAAACATAAATTGAGCAGAAATTGAAAATACCTCA--ATGGGTCTTGAGG-TACAACTCACCTC
1 ------A-AAA---A-CAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCT-CAACTCACCTC
16139216 TCGCAATATGAGTTGATTTTTTG
54 TCGCAATATGAGTTGATTTTTTG
** * * * ** *
16139239 ---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
16139299 TTGATTTTTTG
66 TTGATTTTTTG
16139310 AATTAAAACAGAAATTGAAAA
1 -A--AAAACAGAAATTGAAAA
16139331 TAGAAATGGA
Statistics
Matches: 481, Mismatches: 38, Indels: 63
0.83 0.07 0.11
Matches are distributed among these distances:
70 6 0.01
71 95 0.20
72 1 0.00
74 59 0.12
75 34 0.07
76 87 0.18
77 88 0.18
78 51 0.11
79 3 0.01
80 1 0.00
81 18 0.04
83 1 0.00
84 31 0.06
85 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTG
Found at i:16139068 original size:229 final size:220
Alignment explanation
Indices: 16138716--16139330 Score: 659
Period size: 229 Copynumber: 2.7 Consensus size: 220
16138706 AAAACATTAA
* *
16138716 TTGAAAATACCTCAGCGTGCCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 TTGAAAACACCTCAGCGTGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
* * *
16138781 AAACATAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAACAGAAATTGAAAACACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
** *
16138846 GATTTTTTGATGAACAGAAATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
131 GATTTTTTGAAAAACAGAAATTGAAAAC-ACCTCAACATG---TGAGGCTCAACTCACCTCTCGC
16138910 AACATGAGTTGATTTTTTTGAAAAACAGAAG
192 AACATGAGTTGA--TTTTTGAAAAACAGAAG
*
16138941 TTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAACACCTCAGC--GTGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * *
16139006 GACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATG
63 GAAAAACAGAAATTG-AAAACACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATG
* *
16139071 AGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGC
127 AGTTGATTTTTTGAAAAACAGAAATTGAAAACACCTCAACATGTGAGGCTCAACTCACCTCTCGC
*
16139136 AATATGAGTTGATTTTTGAAAAACATAAATTGAGCAG
192 AACATGAGTTGATTTTTGAAAAAC----A--GA--AG
* ** * * ** *
16139173 AAATTGAAAATACCTCAATGGGTCTTG-AGGTACAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ---TTGAAAACACCTCAGCGTGACCCGAAGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTT
** * * * * *** *
16139237 TG---ATGATAAATTGAAAATACCTCA--ATGTGACTTGAGGTTCAACTCACCTCTCGCAATATG
62 TGAAAAACAGAAATTGAAAACACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATG
16139297 AGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
127 AGTTGATTTTTTG-A--AAAACAGAAATTGAAAA
16139331 TAGAAATGGA
Statistics
Matches: 335, Mismatches: 35, Indels: 36
0.83 0.09 0.09
Matches are distributed among these distances:
224 12 0.04
225 15 0.04
226 75 0.22
227 39 0.12
228 31 0.09
229 101 0.30
230 7 0.02
232 11 0.03
233 31 0.09
235 13 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (220 bp):
TTGAAAACACCTCAGCGTGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAACAGAAATTGAAAACACCTCAGCGTGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAACAGAAATTGAAAACACCTCAACATGTGAGGCTCAACTCACCTCTCGCAACA
TGAGTTGATTTTTGAAAAACAGAAG
Found at i:16139209 original size:155 final size:151
Alignment explanation
Indices: 16138651--16139400 Score: 592
Period size: 155 Copynumber: 4.8 Consensus size: 151
16138641 TATGTGACCC
** * * * * **
16138651 GAGGCTCAACTCATTTCTCGTAATATAAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTG-----ACAGAAA
** *
16138716 TTGAAAATACCTCAGCGTGCCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
60 TTGAAAATACCTCAGCGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
* * *
16138781 AAACATAAATTGAAAACACCTCAGCGTGT
123 AAATAGAAATTGAAAACACCTCAGCATGT
16138810 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---------A-TGAACAGAA
1 -----GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAATTG-ACAGAA
* * *
16138865 ATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTT
59 ATTGAAAA-TACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * *
16138929 GAAAAACAGAAGTTGAAAACACCTCAGCGTGT
120 GAAAAATAGAAATTGAAAACACCTCAGCATGT
***
16138961 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGAC--AA---ACAGAAAT
1 -----GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTGACAGAAAT
* *
16139019 TGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
61 TG-AAAATACCTCAGCGTCT-TG---AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
16139084 AAAAATAGAAATTGAAAACACCTCAGCATGT
121 AAAAATAGAAATTGAAAACACCTCAGCATGT
16139115 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAATTGA-CAGAAATTGA
* **
16139180 AAATACCTCAATGGGTCTTGAGG-TACAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGA
64 AAATACCTC-A-GCGTCTTGAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
* *
16139243 T--AAATTGAAAATACCTCAATGTGACT-T
126 TAGAAATTGAAAACACCTC-A-G-CA-TGT
* *
16139270 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A--AAAACA-AAATTG---ACAGA
* * * * *
16139335 AATGGAAAACACCTCAGCATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA
58 AATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
16139400 A
123 A
16139401 CACATAAATT
Statistics
Matches: 504, Mismatches: 40, Indels: 88
0.80 0.06 0.14
Matches are distributed among these distances:
149 42 0.08
150 52 0.10
151 80 0.16
152 29 0.06
153 7 0.01
154 48 0.10
155 104 0.21
156 7 0.01
157 12 0.02
158 11 0.02
159 58 0.12
160 3 0.01
161 16 0.03
162 1 0.00
164 29 0.06
165 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (151 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAATTGACAGAAATTGAAA
ATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAA
ATTGAAAACACCTCAGCATGT
Found at i:16139550 original size:75 final size:74
Alignment explanation
Indices: 16139424--16139742 Score: 360
Period size: 77 Copynumber: 4.3 Consensus size: 74
16139414 AAAAAAGAAA
* * ** *
16139424 TTAAAAACAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATAT
1 TTAAAAACAAAAATTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
*
16139488 GAGTTGATTCTT
63 GAGTTGATTTTT
16139500 TTAAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTAAAAA-CAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
16139565 GTTGATTTTT
65 GTTGATTTTT
* * *
16139575 TTGATAAAA-ATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 TT-A-AAAACA-A-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
16139639 TGAGTTGA-TTTT
62 TGAGTTGATTTTT
* * * ** *
16139651 TGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAG
1 TTAAAAACAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
16139714 TTGATTTTT
66 TTGATTTTT
** * *
16139723 TTTGAAACATAAATTAAAAA
1 TTAAAAACAAAAATTGAAAA
16139743 ACGAAAATTG
Statistics
Matches: 213, Mismatches: 22, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
71 36 0.17
72 18 0.08
73 16 0.08
74 4 0.02
75 44 0.21
76 14 0.07
77 80 0.38
78 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTAAAAACAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:16139623 original size:77 final size:76
Alignment explanation
Indices: 16139466--16139808 Score: 369
Period size: 77 Copynumber: 4.4 Consensus size: 76
16139456 TGGCCCGAGA
*
16139466 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT-A-AAAAGCAA-AAATTGAAAATACCTCA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAA--AAGAAATTGAAAATACCTCA
*
16139528 GCGTGTCCCGAGG
64 GCGTGTCCTGAGG
* *
16139541 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAA-AGAAATTGAAAATACCTCAG
16139606 CGTGTCCTGAGG
65 CGTGTCCTGAGG
* * *
16139618 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAA-AAATTGAAATTACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
*
16139680 --GTCTTGAGG
66 GTGTCCTGAGG
* * * **
16139689 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAACGAAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGATA-A-AAA--AGAAATTG---A----
*
16139754 AAATACCTCGGCGTGTCCTGAGG
54 AAATACCTCAGCGTGTCCTGAGG
16139777 CTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTT
16139809 GAAAAGCAGA
Statistics
Matches: 228, Mismatches: 19, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
71 36 0.16
73 16 0.07
74 9 0.04
75 48 0.21
76 4 0.02
77 60 0.26
78 1 0.00
79 4 0.02
82 1 0.00
86 10 0.04
87 3 0.01
88 36 0.16
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (76 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAAGAAATTGAAAATACCTCAGC
GTGTCCTGAGG
Found at i:16139946 original size:14 final size:13
Alignment explanation
Indices: 16139911--16139957 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
16139901 TTGATTTTTG
*
16139911 AAAAACAGAAATT
1 AAAAATAGAAATT
*
16139924 AAAAGTAGAAATT
1 AAAAATAGAAATT
16139937 GAAAAATAGAAATT
1 -AAAAATAGAAATT
16139951 AAAAATA
1 AAAAATA
16139958 CCTCGGCGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:16139976 original size:100 final size:101
Alignment explanation
Indices: 16139733--16140027 Score: 409
Period size: 100 Copynumber: 3.0 Consensus size: 101
16139723 TTTGAAACAT
* *
16139733 AAATTAAAAAAC-GAAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTGAAAAACAG-AAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* * *
16139797 ATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
65 ATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
** *
16139832 AAATTGAAAAACAGAAATTGAAAATACCTAAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* * *
16139897 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGTAG
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
* * * *
16139932 AAATTGAAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
16139997 TGAGTTGATTTTTGAAAAGCATAAATTGAAA
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAA
16140028 TTACCTTAGC
Statistics
Matches: 172, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
99 66 0.38
100 88 0.51
101 18 0.10
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (101 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
Found at i:16140058 original size:73 final size:73
Alignment explanation
Indices: 16139946--16140158 Score: 284
Period size: 73 Copynumber: 2.9 Consensus size: 73
16139936 TGAAAAATAG
** * * *
16139946 AAATT-AAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAAA-ACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16140010 GAAAAGCAT
65 GAAAAGCAT
**
16140019 AAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAAAACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
16140084 GAAAAGCAT
65 GAAAAGCAT
* * * *
16140093 AAATTGAAAAAACCTTAGCGTGTGACCTAAGGCCCAACTCACCTCTCGTAGTATGAGTTGATTTT
1 AAATTGAAAAAACCTTAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
16140158 T
64 T
16140159 TTGAAAGACA
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
73 48 0.39
74 38 0.31
75 5 0.04
76 32 0.26
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (73 bp):
AAATTGAAAAAACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCAT
Found at i:16147136 original size:16 final size:15
Alignment explanation
Indices: 16147110--16147144 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16147100 TGATGTGAAT
16147110 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16147125 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16147141 AATA
1 AATA
16147145 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16147316 original size:20 final size:20
Alignment explanation
Indices: 16147259--16147318 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16147249 AATACTACAT
16147259 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
16147278 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
16147301 AAATATGTACATAATATA
1 AAATATGTACATAATATA
16147319 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:16147327 original size:25 final size:25
Alignment explanation
Indices: 16147272--16147505 Score: 117
Period size: 25 Copynumber: 9.5 Consensus size: 25
16147262 TATGTACATA
* * *
16147272 TATAAAAAATAAATACGTGATA-A-
1 TATAAAAAATATATACATAATATAG
* *
16147295 TATTAAAAATATGTACATAATATAG
1 TATAAAAAATATATACATAATATAG
* *
16147320 TGTAAAAAATACATACATAATATA-
1 TATAAAAAATATATACATAATATAG
* * *
16147344 -AT-TAAAATATATACATAAGATAACA
1 TATAAAAAATATATACATAATAT-A-G
* * *
16147369 TGTAAATATATATATAAATAATATAG
1 TATAAA-AAATATATACATAATATAG
* * *
16147395 TATTAAAGATATATACATAAAATAG
1 TATAAAAAATATATACATAATATAG
* * *
16147420 TATAATATATATATACGTAATATAG
1 TATAAAAAATATATACATAATATAG
* ** * *
16147445 AAT-TTAGA-ATATACCTAATATA-
1 TATAAAAAATATATACATAATATAG
* *
16147467 T-TAAAAGAATATATATATAATATAA
1 TATAAAA-AATATATACATAATATAG
*
16147492 TATTAAGAAATATA
1 TA-TAAAAAATATA
16147506 ATAATAACAA
Statistics
Matches: 157, Mismatches: 40, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.01
22 17 0.11
23 33 0.21
24 16 0.10
25 59 0.38
26 11 0.07
27 6 0.04
28 14 0.09
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
TATAAAAAATATATACATAATATAG
Found at i:16147348 original size:48 final size:49
Alignment explanation
Indices: 16147274--16147505 Score: 154
Period size: 50 Copynumber: 4.7 Consensus size: 49
16147264 TGTACATATA
* * * * *
16147274 TAAAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATATAGTG
1 TAAAAAATATATACATAATATATATTAAAAATATATACATAAAATAGTG
* * *
16147322 TAAAAAATACATACATAATATA-ATT-AAAATATATACATAAGATAACATG
1 TAAAAAATATATACATAATATATATTAAAAATATATACATAAAAT-A-GTG
* * * *
16147371 TAAATATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTA
1 TAAA-AAATATATACATAATATA-TATTAAAAATATATACATAAAATAGTG
* * * * * * * *
16147422 TAATATATATATACGTAATATAGAATT-TAGA-ATATACCTAATATA-T-
1 TAAAAAATATATACATAATATA-TATTAAAAATATATACATAAAATAGTG
*
16147468 TAAAAGAATATATATATAATATAATATTAAGAAATATA
1 TAAAA-AATATATACATAATAT-ATATTAA-AAATATA
16147506 ATAATAACAA
Statistics
Matches: 145, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
46 4 0.03
47 33 0.23
48 34 0.23
49 12 0.08
50 38 0.26
51 4 0.03
52 4 0.03
53 16 0.11
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (49 bp):
TAAAAAATATATACATAATATATATTAAAAATATATACATAAAATAGTG
Found at i:16147487 original size:24 final size:23
Alignment explanation
Indices: 16147460--16147511 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
16147450 AGAATATACC
*
16147460 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
16147484 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
16147507 TAATA
1 TAATA
16147512 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:16148069 original size:30 final size:30
Alignment explanation
Indices: 16147979--16148077 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
16147969 TAGGTACAAG
16147979 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
16148009 AGGTAGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
16148039 TGGTGGTGGAGCAAGTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16148069 TGGTGGTGG
1 TGGTGGTGG
16148078 CAAAGCTAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16149231 original size:16 final size:14
Alignment explanation
Indices: 16149210--16149243 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
16149200 ATTGGACAAT
16149210 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
16149226 TTATAAATTTTATA
1 TTATAAATTTTATA
16149240 TTAT
1 TTAT
16149244 TTTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:16150857 original size:25 final size:25
Alignment explanation
Indices: 16150829--16150889 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
16150819 TCTTGTTTTA
*
16150829 ATATTTTATTT-TTATGTTTTTAAAT
1 ATATTTTATTTATTAT-ATTTTAAAT
*
16150854 ATATTTAATTTATTATATTTTAAAT
1 ATATTTTATTTATTATATTTTAAAT
*
16150879 -TTTTTTATTTA
1 ATATTTTATTTA
16150890 ATAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 9 0.29
25 18 0.58
26 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
ATATTTTATTTATTATATTTTAAAT
Found at i:16150902 original size:20 final size:20
Alignment explanation
Indices: 16150879--16150918 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16150869 TATTTTAAAT
16150879 TTTTTTATTTAATAAAATAA
1 TTTTTTATTTAATAAAATAA
*
16150899 TTTTTTATTTAATGAAATAA
1 TTTTTTATTTAATAAAATAA
16150919 GCTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTTTATTTAATAAAATAA
Found at i:16160050 original size:79 final size:80
Alignment explanation
Indices: 16159939--16160242 Score: 395
Period size: 79 Copynumber: 3.8 Consensus size: 80
16159929 GCTACTCGTT
* * *
16159939 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
16160004 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * *
16160019 CAAACGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACATAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
16160082 G-TTATAGTAACTCGCA
65 GATT-TAGTAACTCGCA
* * *
16160098 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAACGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
16160162 AATTAGTATCTCGCA
66 ATTTAGTAACTCGCA
* * * *
16160177 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
16160240 GGA
64 GGA
16160243 CATCATTCAA
Statistics
Matches: 196, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
78 6 0.03
79 123 0.63
80 67 0.34
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:16160117 original size:119 final size:119
Alignment explanation
Indices: 16159939--16160242 Score: 513
Period size: 119 Copynumber: 2.6 Consensus size: 119
16159929 GCTACTCGTT
16159939 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
16160004 ATTTAGTAACTCGCACAAACGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
66 ATTTAGTAACTCGCACAAACGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
16160058 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
16160123 ATTTAGTAACTCGCACAAACGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
66 ATTTAGTAACTCGCACAAACGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * * * * *
16160177 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
16160240 GGA
64 GGA
16160243 CATCATTCAA
Statistics
Matches: 176, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 3 0.02
119 165 0.94
120 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCACAAACGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:16160242 original size:40 final size:40
Alignment explanation
Indices: 16159920--16160242 Score: 390
Period size: 40 Copynumber: 8.1 Consensus size: 40
16159910 CAGAATTTAA
** *
16159920 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16159960 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16160000 CCGGATTTAGTAACTCGCACAAACGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16160039 CCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACATAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16160079 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16160119 CCGGATTTAGTAACTCGCACAAACGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16160158 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16160198 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16160238 CCGGA
1 CCGGA
16160243 CATCATTCAA
Statistics
Matches: 243, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.27
40 162 0.67
41 13 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16178382 original size:43 final size:43
Alignment explanation
Indices: 16178328--16178441 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
16178318 GATTTAAGCC
* *
16178328 TCAAGCTTTATCTCTCTGAGGTAGCAAGAGAACAGGTT-AAAGA
1 TCAAGCCTTATCTCTCTGAGGTAGCAAGAGAACAAGTTGAAA-A
* *
16178371 TCAAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAAGTTGAAAA
1 TCAAGCCTTATCTCTCTGAGGTAGCAAGAGAACAAGTTGAAAA
** *
16178414 TTGAGTCTTATCT-TCCTGAGGTAGCAAG
1 TCAAGCCTTATCTCT-CTGAGGTAGCAAG
16178442 GAAGCAGACT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 57 0.93
44 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
TCAAGCCTTATCTCTCTGAGGTAGCAAGAGAACAAGTTGAAAA
Found at i:16178643 original size:43 final size:45
Alignment explanation
Indices: 16178596--16178697 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 45
16178586 AAAATCAAGC
* *
16178596 CTTATCTCTCTAAGGT-AGCAAGAAAGCAGGTTGAGGATTG-AG-T
1 CTTATCTCTCTAAGGTCA-CAAGAAAGCAGATTGAAGATTGTAGAT
* * * *
16178639 CTTATCTTTTTGAGGTCACAAGGAAGCAGATTGAAGATTGTAGAT
1 CTTATCTCTCTAAGGTCACAAGAAAGCAGATTGAAGATTGTAGAT
*
16178684 CTTATCTCCCTAAG
1 CTTATCTCTCTAAG
16178698 CAGTAGTGGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
43 32 0.70
44 3 0.07
45 11 0.24
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTCACAAGAAAGCAGATTGAAGATTGTAGAT
Found at i:16178663 original size:219 final size:219
Alignment explanation
Indices: 16178243--16178875 Score: 838
Period size: 219 Copynumber: 2.9 Consensus size: 219
16178233 GTAAAGTCAA
** * * * * * *
16178243 ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGGAAAAGGCAAATCTTATCTCCATGTATCGA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGGAAGAGGCGAATCTTATCTCCATGTATCGG
* * * * *
16178308 TAATGGAGCAGATTTAAGCCTCAAGCTTTATCTCTCTGAGGTAGCAAGAGAACAGGTTAAAGATC
65 CAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATC
* * * *
16178373 AAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAAGTTGAAAATTGAGTCTTATCTTCCTGAGGTAG
130 AAGCCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAAAATTGAGTCTTATCTTCCTGAGGTAG
16178438 CAAGGAAGCAGACTGAAGATTGAAG
195 CAAGGAAGCAGACTGAAGATTGAAG
*
16178463 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGGAAGAGGCGGATCTTATCTCCATGTATCGGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGGAAGAGGCGAATCTTATCTCCATGTATCGGC
* * * *
16178528 AATAGAGGAGATTTAAGCCCCAAGCCTTATCTATCTGAGGTAGCAAAAGAGCAGGTTAAAAATCA
66 AATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATCA
** **
16178593 AGCCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAGGATTGAGTCTTATCTTTTTGAGGTCA-
131 AGCCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAAAATTGAGTCTTATCTTCCTGAGGT-AG
* *
16178657 CAAGGAAGCAGATTGAAGATTGTAG
195 CAAGGAAGCAGACTGAAGATTGAAG
* *
16178682 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGTGAATCTTATCTCCATGTATCGGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGGAAGAGGCGAATCTTATCTCCATGTATCGGC
* *
16178747 AATGGAGTAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT-
66 AATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT-AAAAATC
* * * * ** * * *
16178811 GAGTCATATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAGGT
130 AAGCCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAAAATTG-AG-TCTTATCTTCCTGAGGT
16178876 TGCAGTGGAG
Statistics
Matches: 362, Mismatches: 47, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
219 327 0.90
220 21 0.06
221 14 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (219 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGGAAGAGGCGAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAAATCA
AGCCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAAAATTGAGTCTTATCTTCCTGAGGTAGC
AAGGAAGCAGACTGAAGATTGAAG
Found at i:16178958 original size:177 final size:177
Alignment explanation
Indices: 16178595--16179298 Score: 977
Period size: 177 Copynumber: 4.0 Consensus size: 177
16178585 AAAAATCAAG
* * * * *
16178595 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAGGATTGAGTCTTATCTTTTTGAGGTCA-CA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGT-AGCA
* * * * ** *
16178659 AGGAAGCAGATTGAAGATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAAGA-G
65 AGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCG-AAGATG
* *
16178722 GTGAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCC-CCAA
129 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* *
16178770 GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCATATCTTTCTAAGGTAGCA
1 -CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCA
* *
16178835 AGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGATGG
65 AGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGG
*
16178900 CGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAA
130 CGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* * * *
16178948 CCTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGTAGCAA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
* * *
16179013 GAAAGCAGACTGAAGATTA-AAGATCTTATCTCCCTGAGGTTGTAGTGGAGTAGATCGAAGATGG
66 GAAAGCAGACTGAAGA-TAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGG
* * *
16179077 TGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACCAG
130 CGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
*
16179125 TCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
* * * * * *
16179190 GAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATCGAATATGTC
66 GAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGC
* * * *
16179255 AAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCAC
131 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCAC
16179299 TAGCATTATC
Statistics
Matches: 472, Mismatches: 50, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 92 0.19
177 373 0.79
178 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (177 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
GAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGC
GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
Found at i:16179029 original size:43 final size:43
Alignment explanation
Indices: 16178949--16179052 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
16178939 AGCCACCAAC
* * * **
16178949 CTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTAAAGATTGAGT
1 CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
* * *
16178992 CTTATCTTTCCGAGGTAGCAAGAAAGCAGACTGAAGATTAAAGAT
1 CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATT-GAG-T
16179037 CTTATCTC-CCTGAGGT
1 CTTATCTCTCC-GAGGT
16179053 TGTAGTGGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 32 0.65
44 4 0.08
45 13 0.27
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
Found at i:16179401 original size:311 final size:311
Alignment explanation
Indices: 16178993--16179621 Score: 779
Period size: 311 Copynumber: 2.0 Consensus size: 311
16178983 AGATTGAGTC
* * * **
16178993 TTATCTTTCCGAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTGAGGTTGTAG
1 TTATCTTTCCGAGATAGCAAAAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTGAAGCAGTAG
* * *
16179058 TGGAGTAGATCGAAGATGGTGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
66 TGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCC-CC
* * * * *
16179123 -AGTCTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGAAGAAT-GAGTCTTATCTTTCTGAGGT
130 AAGCCTTATCTCTCTGAAGTAGC-AGTAGAGCAGGTTCAA-AATAAAGTCTTATCTTCCTGAGGT
* **
16179185 AGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATCGAAT
193 AGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTCCCT-AAGCAGCAGCGGAGCAGATCGAA-
* * * *
16179250 A-TGTCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT-AGCA
256 AGAGGCAAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACTAAGCA
** *
16179304 TTATCTTTTTGAGATAGCAAAAGAAGCAGACTGAAGATTGAAA-ATCTTATCTTCCT-AAGCAGT
1 TTATCTTTCCGAGATAGCAAAA-AAGCAGACTGAAGATT-AAAGATCTTATCTCCCTGAAGCAGT
* * ** *
16179367 TGTGGAGCAGATCGAAAGA-GGCGAATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCC
64 AGTGGAGCAGATCG-AAGATGGCGAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCC
* *
16179431 CCAAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGG
128 CCAAGCCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTCAAAATA-AAGTCTTATCTTCCTGAGG
* * * * *
16179496 TAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
192 TAGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAA
* * *
16179561 GAGGCGAATCTTATTTCCATGTATCGGCAATGGAGTAGATTTAAGCCACTAAGCC
257 GAGGCAAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACTAAGCA
16179616 TTATCT
1 TTATCT
16179622 CCCTAAAGTG
Statistics
Matches: 271, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
310 8 0.03
311 165 0.61
312 95 0.35
313 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (311 bp):
TTATCTTTCCGAGATAGCAAAAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTGAAGCAGTAG
TGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCCCA
AGCCTTATCTCTCTGAAGTAGCAGTAGAGCAGGTTCAAAATAAAGTCTTATCTTCCTGAGGTAGC
AAGAAAGCAGACTGAACATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAAGAGG
CAAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCACTAAGCA
Found at i:16179410 original size:134 final size:134
Alignment explanation
Indices: 16179170--16179414 Score: 332
Period size: 134 Copynumber: 1.8 Consensus size: 134
16179160 AGAATGAGTC
* * * **
16179170 TTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAG
1 TTATCTTTCTGAGATAGCAAAAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
* *
16179235 CGGAGCAGATCGAATATGTCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
66 CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
16179300 AGCA
131 AGCA
* * **
16179304 TTATCTTTTTGAGATAGCAAAAGAAGCAGACTGAAGATTGAAAATCTTATCTTCCT-AAGCAGTT
1 TTATCTTTCTGAGATAGCAAAA-AAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCA
* * *
16179368 GTGGAGCAGATCGAA-AGAGGCGAATGTTATCTCCATGTATCGGTAAT
65 GCGGAGCAGATCGAATA-AGGCAAATCTTATCTCCATGTATCGGTAAT
16179415 AGAGCGGATT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
133 1 0.01
134 63 0.66
135 31 0.33
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (134 bp):
TTATCTTTCTGAGATAGCAAAAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
AGCA
Found at i:16179425 original size:134 final size:134
Alignment explanation
Indices: 16179170--16179449 Score: 330
Period size: 134 Copynumber: 2.1 Consensus size: 134
16179160 AGAATGAGTC
* * * **
16179170 TTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAG
1 TTATCTTTCTGAGATAGCAAAAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
* * * * *
16179235 CGGAGCAGATCGAATATGTCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
66 CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCCACT
16179300 AGCA
131 AGCA
* * **
16179304 TTATCTTTTTGAGATAGCAAAAGAAGCAGACTGAAGATTGAAAATCTTATCTTCCT-AAGCAGTT
1 TTATCTTTCTGAGATAGCAAAA-AAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCA
* * * * *
16179368 GTGGAGCAGATCGAA-AGAGGCGAATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCCC
65 GCGGAGCAGATCGAATA-AGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCCA
* *
16179432 CAAGCC
129 CTAGCA
*
16179438 TTATCTCTCTGA
1 TTATCTTTCTGA
16179450 AGTTGCAGTG
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
133 1 0.01
134 89 0.74
135 31 0.26
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (134 bp):
TTATCTTTCTGAGATAGCAAAAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCCACT
AGCA
Found at i:16179530 original size:177 final size:178
Alignment explanation
Indices: 16179326--16179649 Score: 506
Period size: 177 Copynumber: 1.8 Consensus size: 178
16179316 GATAGCAAAA
* *
16179326 GAAGCAGACTGAAGATTGAAAATCTTATCTTCCTAAGCAGTTGTGGAGCAGATCGAAAGAGGCGA
1 GAAGCAGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
* * * * * *
16179391 ATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCC-CCAAGCCTTATCTCTCTGAAGTTG
66 ATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAAGTGG
* *
16179455 CAGTGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
131 CAATGAAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
*
16179503 GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
1 GAAGCAGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
* * * *
16179568 ATCTTATTTCCATGTATCGGCAATGGAGTAGATTTAAGCCACTAAGCCTTATCTCCCTAAAGTGG
66 ATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAAGTGG
16179633 CAATGAAGCAGGTTCAA
131 CAATGAAGCAGGTTCAA
16179650 GTGAAGCAGG
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
177 96 0.73
178 35 0.27
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (178 bp):
GAAGCAGACTGAAGATTGAAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
ATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTAAAGTGG
CAATGAAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
Found at i:16181210 original size:20 final size:19
Alignment explanation
Indices: 16181179--16181217 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 19
16181169 TATATTTCAG
16181179 TTTTTTTTATTC-TTTGTT
1 TTTTTTTTATTCATTTGTT
16181197 TTTTTTTTAAATTCATTTGTT
1 TTTTTTTT--ATTCATTTGTT
16181218 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTTTATTCATTTGTT
Found at i:16181483 original size:16 final size:16
Alignment explanation
Indices: 16181458--16181488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16181448 TATTGATTTC
16181458 ATATTATTCTATGTAA
1 ATATTATTCTATGTAA
*
16181474 ATATTTTTCTATGTA
1 ATATTATTCTATGTA
16181489 TGTATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTATTCTATGTAA
Found at i:16181622 original size:17 final size:17
Alignment explanation
Indices: 16181593--16181625 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16181583 TTTCATATAT
*
16181593 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
16181610 TATTATCTATATGTAT
1 TATTATCTATATGTAT
16181626 CATTAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:16186919 original size:35 final size:35
Alignment explanation
Indices: 16186873--16186943 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
16186863 AAGGTTGATG
16186873 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
1 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
*
16186908 TTGGATAATGTGTTGTTAGCTTATGAAATTCTACA
1 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
16186943 T
1 T
16186944 ACTCTCAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
Found at i:16190821 original size:11 final size:11
Alignment explanation
Indices: 16190801--16190831 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16190791 TTGTTTTTCT
16190801 TTATTT-TTTA
1 TTATTTATTTA
16190811 TTATTTATTTA
1 TTATTTATTTA
16190822 TTATTTATTT
1 TTATTTATTT
16190832 TATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:16190863 original size:9 final size:10
Alignment explanation
Indices: 16190827--16190873 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
16190817 ATTTATTATT
16190827 TATTTTATAA
1 TATTTTATAA
*
16190837 TATTTTAAATGTA
1 TATTTT--AT-AA
16190850 TATTTTA-AA
1 TATTTTATAA
16190859 TATTTTATAA
1 TATTTTATAA
16190869 TATTT
1 TATTT
16190874 ATTTATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
10 13 0.42
11 1 0.03
12 2 0.06
13 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:16190876 original size:23 final size:23
Alignment explanation
Indices: 16190823--16190877 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
16190813 ATTTATTTAT
16190823 TATTTATTTTATAATATTTTAAA
1 TATTTATTTTATAATATTTTAAA
* *
16190846 TGTATATTTTA-AATATTTTATAA
1 TATTTATTTTATAATATTTTA-AA
16190869 TATTTATTT
1 TATTTATTT
16190878 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTATTTTATAATATTTTAAA
Found at i:16190921 original size:16 final size:17
Alignment explanation
Indices: 16190862--16190922 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 17
16190852 TTTTAAATAT
16190862 TTTATAATATTTATTTA
1 TTTATAATATTTATTTA
* *
16190879 TTCA-AAAATTTATTTAA
1 TTTATAATATTTATTT-A
* *
16190896 TTTGT-TTA-TTATTTA
1 TTTATAATATTTATTTA
16190911 TTTATAATATTT
1 TTTATAATATTT
16190923 TAAAAAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
17 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTATAATATTTATTTA
Found at i:16190942 original size:23 final size:22
Alignment explanation
Indices: 16190916--16190962 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16190906 ATTTATTTAT
*
16190916 AATATTTTAAAA-AAATTAAAATA
1 AATATTATAAAACAAA-T-AAATA
16190939 AATATTATAAAACAAATAAATA
1 AATATTATAAAACAAATAAATA
16190961 AA
1 AA
16190963 CAAATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 12 0.55
24 3 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AATATTATAAAACAAATAAATA
Found at i:16193330 original size:19 final size:18
Alignment explanation
Indices: 16193317--16193352 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16193307 TTAAAAATCA
16193317 TAAA-ATTTTATAAAAAT
1 TAAATATTTTATAAAAAT
16193334 TAAATTATTTTATAAAAAT
1 TAAA-TATTTTATAAAAAT
16193353 ATTTTCCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATTTTATAAAAAT
Found at i:16193949 original size:17 final size:19
Alignment explanation
Indices: 16193913--16193949 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
16193903 ATTACTTTTG
*
16193913 ACATAAAAAAGTACTTTTA
1 ACATAAAAAAGTACTGTTA
16193932 ACAT-AAAAA-TACTGTTA
1 ACATAAAAAAGTACTGTTA
16193949 A
1 A
16193950 ATTTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
ACATAAAAAAGTACTGTTA
Found at i:16197796 original size:13 final size:13
Alignment explanation
Indices: 16197778--16197802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16197768 ATAAATTATA
16197778 ATAATATAATAAT
1 ATAATATAATAAT
16197791 ATAATATAATAA
1 ATAATATAATAA
16197803 AACATAAAGT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:16200431 original size:19 final size:19
Alignment explanation
Indices: 16200407--16200444 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16200397 GAAATGAATA
*
16200407 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16200426 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16200445 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16202013 original size:44 final size:44
Alignment explanation
Indices: 16201950--16202691 Score: 1116
Period size: 44 Copynumber: 17.4 Consensus size: 44
16201940 CCCCGTCTAA
*
16201950 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16201994 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202038 TAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202081 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CGCC-C
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202123 TACAGAGATGCCAAATC----AT-TTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
***
16202162 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCATTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202206 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
16202250 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202290 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
16202334 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCTGCAGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202378 TACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202422 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202466 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16202506 TACAGAGATGCCAAAT-TGTTATCTTCGATCTACTCTCC-CCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202548 TAC--AGA-GCCAAATCTGTTATCTTCGATCTGCTCT-CGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202588 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG-CGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
16202631 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202675 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
16202692 ATCTTGGATT
Statistics
Matches: 641, Mismatches: 34, Indels: 46
0.89 0.05 0.06
Matches are distributed among these distances:
37 13 0.02
38 6 0.01
39 25 0.04
40 104 0.16
42 26 0.04
43 134 0.21
44 333 0.52
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:16202365 original size:172 final size:171
Alignment explanation
Indices: 16201950--16202691 Score: 1021
Period size: 172 Copynumber: 4.4 Consensus size: 171
16201940 CCCCGTCTAA
*
16201950 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAAT-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
16202015 ATCTTCGATCTGCTCTCCGCCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCA
65 ATCTTCGATCTGCTCTCCACCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
16202080 CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CGCC-C
130 CTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGC
* * *
16202123 TACAGAGATGCCAAA---TCAT-TTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTA
1 TACAGAGACGCCAAATTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
** * *
16202184 TCTTCGATCTGCTCTCCATTGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCG
66 TCTTCGATCTGCTCTCCACCGCTAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
*
16202249 CTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCCGCCGC
130 CTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGC
*
16202290 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGTTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAA-TTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* ** * * *
16202355 ATCTTCGATCTGCTTTCTGCAGCTACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCC
65 ATCTTCGATCTGCTCTCCACCGCTAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
16202420 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
129 GCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGC
* * * *
16202466 TACAGAGATGCCAAA---TCATCTTCGATCTGCTCTCCGCTGCTACAGAGATGCCAAAT-TGTTA
1 TACAGAGACGCCAAATTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
*
16202527 TCTTCGATCTACTCTCC-CCGCTAC-AGA-GCCAAATCTGTTATCTTCGATCTGCTCT-CGCCGC
66 TCTTCGATCTGCTCTCCACCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16202588 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG-CGC
131 TACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGC
*
16202631 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
1 TACAGAGACGCCAAAT-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
16202692 ATCTTGGATT
Statistics
Matches: 510, Mismatches: 42, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
165 33 0.06
166 50 0.10
167 41 0.08
168 65 0.13
169 92 0.18
170 6 0.01
171 22 0.04
172 150 0.29
173 14 0.03
176 37 0.07
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (171 bp):
TACAGAGACGCCAAATTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
TCTTCGATCTGCTCTCCACCGCTACGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
TACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGC
Found at i:16202426 original size:216 final size:214
Alignment explanation
Indices: 16201950--16202705 Score: 1160
Period size: 216 Copynumber: 3.6 Consensus size: 214
16201940 CCCCGTCTAA
16201950 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
*
16202015 ATCTTCGATCTGCTCTCCGCCGCTAC-GAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC----ATCTTCGATCTGCTCTCCGCC
* *
16202079 ACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCT-CGCC-CTACAGAGATGCCAAATC--
127 GCTACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGA-GCCAAATCTG
16202140 --AT-TTCGATCTGCTCTTCGCCGC
191 TTATCTTCGATCTGCT-TTCGCCGC
* * *
16202162 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCATTGCTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
* *
16202227 ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTA
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTA
*
16202292 CAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGTTACAGAGACGCCAAATCTGTTAT
131 CAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGA-GCCAAATCTGTTAT
*
16202357 CTTCGATCTGCTTTCTGCAGC
195 CTTCGATCTGCTTTC-GCCGC
* * *
16202378 TACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
* *
16202443 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCTGCTA
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTA
* *
16202508 CAGAGATGCCAAA-TTGTTATCTTCGATCTACTCTCC-CCGCTAC--AGAGCCAAATCTGTTATC
131 CAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAGCCAAATCTGTTATC
*
16202569 TTCGATCTGCTCTCGCCGC
196 TTCGATCTGCTTTCGCCGC
16202588 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG-CGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
* * *
16202652 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCATCTTGGATTTGCT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCTGCT
16202706 TCAACATAAA
Statistics
Matches: 505, Mismatches: 30, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
209 131 0.26
210 46 0.09
211 44 0.09
212 90 0.18
213 12 0.02
214 6 0.01
215 27 0.05
216 149 0.30
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (214 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTA
CAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAGCCAAATCTGTTATC
TTCGATCTGCTTTCGCCGC
Found at i:16214808 original size:19 final size:19
Alignment explanation
Indices: 16214784--16214821 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16214774 GAAATGAATA
*
16214784 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16214803 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16214822 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16216008 original size:16 final size:16
Alignment explanation
Indices: 16215982--16216025 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16215972 GAGGTTAGGT
16215982 TTTTTTCTTTTTCTTCA
1 TTTTTT-TTTTTCTTCA
* *
16215999 TTTTTTTTTTTTTTTA
1 TTTTTTTTTTTCTTCA
*
16216015 TTTTTTATTTT
1 TTTTTTTTTTT
16216026 GGGTTGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTTCTTCA
Found at i:16217737 original size:19 final size:19
Alignment explanation
Indices: 16217635--16217739 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 19
16217625 TAATATAATA
16217635 TTTAAATTTATTATTATATT
1 TTTAAATTTATTA-TATATT
*
16217655 CTTTGAAA-TTATTTATGTATT
1 -TTT-AAATTTA-TTATATATT
*
16217676 TTTATA-TTA-TATAT-TT
1 TTTAAATTTATTATATATT
* *
16217692 TTTCAATAATCATT-TTTTATTTT
1 TTT--A-AAT--TTATTATATATT
16217715 TTTAAATTTATTATATATT
1 TTTAAATTTATTATATATT
16217734 TTTAAA
1 TTTAAA
16217740 AATATTTATG
Statistics
Matches: 66, Mismatches: 7, Indels: 24
0.68 0.07 0.25
Matches are distributed among these distances:
16 5 0.08
17 4 0.06
18 3 0.05
19 19 0.29
20 6 0.09
21 12 0.18
22 12 0.18
23 5 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTATTATATATT
Found at i:16217754 original size:41 final size:41
Alignment explanation
Indices: 16217635--16217756 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 41
16217625 TAATATAATA
* *
16217635 TTTAAATTTATTATTATATTCTTTGAAATTATTTATGTA--TT
1 TTTAAATTTATTA-TATATT-TTTAAAAATATTTATGTATTTT
* * *
16217676 TTTATA-TTA-TATAT-TTTTTCAATAATCATTT-TTTATTTT
1 TTTAAATTTATTATATATTTTT-AAAAAT-ATTTATGTATTTT
16217715 TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
1 TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
16217756 T
1 T
16217757 ATATATTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
36 3 0.05
37 8 0.12
38 7 0.11
39 9 0.14
40 10 0.15
41 23 0.35
42 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (41 bp):
TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
Found at i:16217773 original size:32 final size:32
Alignment explanation
Indices: 16217720--16217780 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
16217710 ATTTTTTTAA
16217720 ATTTATTATATATTTTTAAAAAT-ATTTATGT
1 ATTTATTATATATTTTTAAAAATAATTTATGT
16217751 ATTT-TTATATATTTCTTAAAAAATAATTTA
1 ATTTATTATATATTT-TT-AAAAATAATTTA
16217781 GAATTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 10 0.37
31 6 0.22
32 6 0.22
33 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTATTATATATTTTTAAAAATAATTTATGT
Found at i:16225620 original size:17 final size:18
Alignment explanation
Indices: 16225590--16225623 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16225580 AATGAAAATG
16225590 AAAATAAGTAATATATAT
1 AAAATAAGTAATATATAT
16225608 AAAATAA-TAATATATA
1 AAAATAAGTAATATATA
16225624 AATGAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATAAGTAATATATAT
Found at i:16227659 original size:45 final size:44
Alignment explanation
Indices: 16227334--16228134 Score: 285
Period size: 45 Copynumber: 17.7 Consensus size: 44
16227324 CCAACCTGTC
* * * * **
16227334 CCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCTTGCT
1 CCACTACAACTTCAGGGAGATAAGATTTGT-AACTTCAATC-TGCT
* * * ** *
16227380 CTACTGCAACTTCAGAGAGATAAGGA-TTGTCGCTTCGATCTGCT
1 CCACTACAACTTCAGGGAGATAA-GATTTGTAACTTCAATCTGCT
* ** * * * * * *
16227424 CCAATGTAATTTCAGGGAGA-AGACATTTATAGCTTCGATCTACT
1 CCACTACAACTTCAGGGAGATA-AGATTTGTAACTTCAATCTGCT
* * * * * * * *
16227468 CCGCTAGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTACT
1 CCACTACAACTTCAGGGAGATAAG-ATTTGTAACTTCAATCTGCT
* * * * **
16227513 CCATTGCAACTTCAAGGAGATAAGGTTTG---CTAT-GGTCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTTGTAACT-TCAATCTGCT
* * * * * *
16227554 CTACTGCAACTTCAGAGAGCTAAGATCTATTTATTTAGCTTCAATCTGTT
1 CCACTACAACTTCAGGGAGATAAGAT-T-TGTA---A-CTTCAATCTGCT
* * * * *
16227604 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCT
1 CCACTACAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * *
16227649 CCACTACAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGTT
1 CCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * **
16227692 CCACTGCAACTTCAGGGAGATAAGGTTTAGTGGCTTCAATCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTT-GTAACTTCAATCTGCT
* * *
16227737 CCACTACAACTTCAGGGAGATAAGATTTGGTAATTTCAACCTACT
1 CCACTACAACTTCAGGGAGATAAGATTT-GTAACTTCAATCTGCT
* * * * * * * *
16227782 TCATTGCAACTTCATGGTGATAAGGTTTGTTA--T-GATCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * * *
16227823 CTATTGCAACTTCAGAGAGATAAGATCTATTTATTTAGCTTCAATCTGTT
1 CCACTACAACTTCAGGGAGATAAGAT-T-TGTA---A-CTTCAATCTGCT
* * * * * * *
16227873 CCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTT-GTAACTTCAATCTGCT
* * *
16227918 CCACTACAACTTCAGGGAGATAAGGTTTAGTGGA-TTCAATTTGCT
1 CCACTACAACTTCAGGGAGATAAGATTT-GT-AACTTCAATCTGCT
* * * * * *
16227963 CTACTGCAACTTTAGGGAGATAAGATTTTCCATAATTTGTAGCTTTAATCTGTT
1 CCACTACAACTTCAGGGAGATAAG----------ATTTGTAACTTCAATCTGCT
* * * *
16228017 CCACTGCAACTTTAGGGAAATAAGATTTGCTATA-TTCAGTCTGCT
1 CCACTACAACTTCAGGGAGATAAGATTTG-TA-ACTTCAATCTGCT
* ** ** * ** *
16228062 CCGCTGGAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCT
1 CCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* *
16228106 TCACTGCAACTTCAGGGAGATAAGATTTG
1 CCACTACAACTTCAGGGAGATAAGATTTG
16228135 CCATCTTTAG
Statistics
Matches: 554, Mismatches: 157, Indels: 90
0.69 0.20 0.11
Matches are distributed among these distances:
41 50 0.09
42 4 0.01
43 40 0.07
44 93 0.17
45 240 0.43
46 26 0.05
47 1 0.00
48 2 0.00
49 8 0.01
50 55 0.10
54 32 0.06
55 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
Found at i:16227703 original size:88 final size:87
Alignment explanation
Indices: 16227587--16227941 Score: 331
Period size: 88 Copynumber: 4.0 Consensus size: 87
16227577 GATCTATTTA
* * *
16227587 TTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCTCCA
1 TTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTG-TATCTTCAGTCTGCTCCA
16227652 CTACAACTTCAGGGAGATAAGAC
65 CTACAACTTCAGGGAGATAAGAC
* * ** *
16227675 TTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTAGTGGCTTCAATCTGCTCCA
1 TTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTT-GTATCTTCAGTCTGCTCCA
*
16227740 CTACAACTTCAGGGAGATAAGAT
65 CTACAACTTCAGGGAGATAAGAC
* * * * ** * * *
16227763 TTGGTAATTTCAACCTACTT-CATTGCAACTTCATGGTGATAAGGTTTGT-T-ATGA-TCTGCTC
1 TT--TAACTTCAACCT-GTTCCACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAGTCTGCTC
* * * *
16227824 TATTGCAACTTCAGAGAGATAAGATC
63 CACTACAACTTCAGGGAGATAAGA-C
* * * *
16227850 TATTTATTTAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCT
1 --TTTA---A-CTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTT-GTATCTTCAGTCT
16227915 GCTCCACTACAACTTCAGGGAGATAAG
59 GCTCCACTACAACTTCAGGGAGATAAG
16227942 GTTTAGTGGA
Statistics
Matches: 212, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
86 27 0.13
87 4 0.02
88 79 0.37
89 5 0.02
90 38 0.18
91 29 0.14
92 1 0.00
93 1 0.00
94 2 0.01
95 26 0.12
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (87 bp):
TTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAGTCTGCTCCAC
TACAACTTCAGGGAGATAAGAC
Found at i:16227865 original size:269 final size:269
Alignment explanation
Indices: 16227455--16227941 Score: 812
Period size: 269 Copynumber: 1.8 Consensus size: 269
16227445 GACATTTATA
* * * *
16227455 GCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTACTCCATTGC
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
* *
16227520 AACTTCAAGGAGATAAGGTTTGCTATGGTCTGCTCTACTGCAACTTCAGAGAGCTAAGATCTATT
66 AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATT
* * *
16227585 TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCTC
131 TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
16227650 CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
196 CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
16227715 GGTTTAGTG
261 GGTTTAGTG
* * * *
16227724 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGGTAATTTCAACCTACTTCATTGC
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
* * * *
16227789 AACTTCATGGTGATAAGGTTTGTTATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTATT
66 AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATT
*
16227854 TATTTAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
131 TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
16227919 CACTACAACTTCAGGGAGATAAG
196 CACTACAACTTCAGGGAGATAAG
16227942 GTTTAGTGGA
Statistics
Matches: 200, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
269 200 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (269 bp):
GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATT
TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
GGTTTAGTG
Found at i:16228027 original size:144 final size:143
Alignment explanation
Indices: 16227858--16228138 Score: 413
Period size: 144 Copynumber: 2.0 Consensus size: 143
16227848 TCTATTTATT
*
16227858 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
* *
16227923 ACAACTTCAGGGAGATAAGGTTTAGTGGATTCAAT-TTGC-TCTACTGCAACTTTAGGGAGATAA
66 ACAACTTCAGGGAGATAAGG-CTAGTGGATTCAATCTT-CTTC-ACTGCAACTTCAGGGAGATAA
*
16227986 GATTTTCCATAATTTG
128 GATTTGCCATAATTTG
* * * *
16228002 TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCGCT
1 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
** * *
16228067 GGAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
66 ACAACTTCAGGGAGATAAGGCTAGTGGATTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
16228132 TTGCCAT
131 TTGCCAT
16228139 CTTTAGTCTG
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
143 41 0.33
144 82 0.67
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (143 bp):
TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
ACAACTTCAGGGAGATAAGGCTAGTGGATTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
TTGCCATAATTTG
Found at i:16229879 original size:27 final size:26
Alignment explanation
Indices: 16229820--16229899 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
16229810 ATTTGCTTTG
** * *
16229820 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
16229846 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
16229873 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
16229899 T
1 T
16229900 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:16231670 original size:45 final size:46
Alignment explanation
Indices: 16231592--16231737 Score: 197
Period size: 46 Copynumber: 3.2 Consensus size: 46
16231582 GGTTTTTTCC
* * * * *
16231592 ATCCATCCCACTGTAACTCAAAGGTAT-GAGATTTATATCATCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAG-GATTTGTATCTTCTTCA
*
16231638 ATCTATCCCACTGCAGCTC-AGGGTATAGGATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
**
16231683 ATCCATCCCACTGCAGCTCAAGGGTATATAATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
16231729 ATCCATCCC
1 ATCCATCCC
16231738 TCTGTAATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
45 39 0.44
46 50 0.56
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (46 bp):
ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
Found at i:16231750 original size:91 final size:92
Alignment explanation
Indices: 16231592--16231777 Score: 207
Period size: 91 Copynumber: 2.0 Consensus size: 92
16231582 GGTTTTTTCC
* * * *
16231592 ATCCATCCCACTGTAACTCAAAGGTATGAGATTTATATCATCTTCAATCTATCCCACTGCAGCTC
1 ATCCATCCCACTGCAACTCAAAGGTATGAAATTTATATCATCTTCAATCCATCCCACTGCAACTC
* *
16231657 AGGG-TATAGG-ATTTGTATCTTCTTCA
66 AGGGATAT-GGAACTTGTAGCTTCTTCA
* * * * * * *
16231683 ATCCATCCCACTGCAGCTCAAGGGTAT-ATAATTTGTATCTTCTTCAATCCATCCCTCTGTAATT
1 ATCCATCCCACTGCAACTCAAAGGTATGA-AATTTATATCATCTTCAATCCATCCCACTGCAACT
*
16231747 CAGGGATATGGAACTTGTGGCTTCTTCA
65 CAGGGATATGGAACTTGTAGCTTCTTCA
16231775 ATC
1 ATC
16231778 ACTTGATCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
90 1 0.01
91 58 0.74
92 19 0.24
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (92 bp):
ATCCATCCCACTGCAACTCAAAGGTATGAAATTTATATCATCTTCAATCCATCCCACTGCAACTC
AGGGATATGGAACTTGTAGCTTCTTCA
Found at i:16232602 original size:24 final size:24
Alignment explanation
Indices: 16232575--16232628 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
16232565 CTTCTTCTCT
16232575 TTTTTTGATTATTT-TT-TTGATTGA
1 TTTTTT-ATTATTTATTATT-ATTGA
*
16232599 TTTTTTATTATTTATTATTTTTGA
1 TTTTTTATTATTTATTATTATTGA
16232623 TTTTTT
1 TTTTTT
16232629 TAGTCTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTATTATTTATTATTATTGA
Found at i:16234121 original size:19 final size:19
Alignment explanation
Indices: 16234099--16234135 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16234089 AAAGAGATTC
*
16234099 TAAAGAACCAAAGAATATA
1 TAAAGAACAAAAGAATATA
*
16234118 TAAAGAATAAAAGAATAT
1 TAAAGAACAAAAGAATAT
16234136 TTGCTAAAAA
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:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (19 bp):
TAAAGAACAAAAGAATATA
Found at i:16236117 original size:19 final size:20
Alignment explanation
Indices: 16236093--16236137 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16236083 TTGTGACATT
* *
16236093 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATAAAATG
16236112 CAATGCAGATGCATAAAATG
1 CAATGCAGATGCATAAAATG
16236132 -AATGCA
1 CAATGCA
16236138 AAAAAAGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATAAAATG
Found at i:16238278 original size:15 final size:16
Alignment explanation
Indices: 16238212--16238275 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
16238202 TGTAAGTTTG
16238212 AAATAAATAATATATGA
1 AAAT-AATAATATATGA
* *
16238229 AAAAAATAA-AAATGA
1 AAATAATAATATATGA
*
16238244 AAATAAGTAATATATATA
1 AAATAA-TAATATAT-GA
16238262 AAATAATAATATAT
1 AAATAATAATATAT
16238276 AAATGAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 10 0.26
16 8 0.21
17 14 0.36
18 7 0.18
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
AAATAATAATATATGA
Found at i:16238496 original size:22 final size:22
Alignment explanation
Indices: 16238468--16238543 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 22
16238458 AAGTTTTAAA
16238468 AAAATAATATATAAAACAATTT
1 AAAATAATATATAAAACAATTT
* *
16238490 AAAATAAATAATGTATGAAATAATTT
1 AAAAT-AAT-A--TATAAAACAATTT
*
16238516 AAAATAATATATCTAAACAATTT
1 AAAATAATATAT-AAAACAATTT
16238539 AAAAT
1 AAAAT
16238544 CGTTTAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
22 8 0.18
23 16 0.36
24 2 0.04
25 3 0.07
26 16 0.36
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (22 bp):
AAAATAATATATAAAACAATTT
Found at i:16238501 original size:53 final size:50
Alignment explanation
Indices: 16238425--16238543 Score: 132
Period size: 53 Copynumber: 2.3 Consensus size: 50
16238415 AAAGCAAATG
** *
16238425 ATAAAACAATTTAAAATGGATAATACATGGAACAAGTTTTAAAAAAATAATAT
1 ATAAAACAATTTAAAATAAATAATACATGAAACAA--TTTAAAAAAAT-ATAT
** * *
16238478 ATAAAACAATTTAAAATAAATAATGTATGAAATAATTTAAAATAATATAT
1 ATAAAACAATTTAAAATAAATAATACATGAAACAATTTAAAAAAATATAT
*
16238528 CT-AAACAATTTAAAAT
1 ATAAAACAATTTAAAAT
16238544 CGTTTAATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 14 0.24
50 5 0.09
51 10 0.17
53 29 0.50
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (50 bp):
ATAAAACAATTTAAAATAAATAATACATGAAACAATTTAAAAAAATATAT
Found at i:16238514 original size:26 final size:26
Alignment explanation
Indices: 16238425--16238543 Score: 111
Period size: 26 Copynumber: 4.7 Consensus size: 26
16238415 AAAGCAAATG
** *
16238425 ATAAAACAATTTAAAATGGATAATAC
1 ATAAAACAATTTAAAATAAATAATAT
**
16238451 ATGGAACAAGTTTTAAAA-AAATAATAT
1 ATAAAACAA--TTTAAAATAAATAATAT
*
16238478 ATAAAACAATTTAAAATAAATAATGT
1 ATAAAACAATTTAAAATAAATAATAT
* *
16238504 ATGAAATAATTTAAAAT-AAT-ATAT
1 ATAAAACAATTTAAAATAAATAATAT
*
16238528 CT-AAACAATTTAAAAT
1 ATAAAACAATTTAAAAT
16238544 CGTTTAATAC
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
23 13 0.17
24 4 0.05
25 10 0.13
26 30 0.39
27 13 0.17
28 7 0.09
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAT
Found at i:16242735 original size:24 final size:24
Alignment explanation
Indices: 16242708--16242754 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16242698 TTCAATTCAA
* *
16242708 AAGTTGAGAGATGTTGGATGAGAT
1 AAGTGGAGAGATGATGGATGAGAT
16242732 AAGTGGAGAGATGATGGATGAGA
1 AAGTGGAGAGATGATGGATGAGA
16242755 AGAATTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.23
Consensus pattern (24 bp):
AAGTGGAGAGATGATGGATGAGAT
Found at i:16243733 original size:19 final size:19
Alignment explanation
Indices: 16243709--16243798 Score: 127
Period size: 19 Copynumber: 4.9 Consensus size: 19
16243699 ATAATCTTCA
16243709 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16243728 ATGATATGCAATCTTAGACT
1 ATGATATGCAATCTTAGA-T
16243748 A--ATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16243763 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
16243781 TTGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16243799 AGATATGATT
Statistics
Matches: 64, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
15 2 0.03
16 10 0.16
17 2 0.03
18 18 0.28
19 30 0.47
20 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:16244109 original size:17 final size:17
Alignment explanation
Indices: 16244085--16244119 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16244075 TGTTTCCCTG
*
16244085 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
16244103 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
16244120 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:16247114 original size:12 final size:12
Alignment explanation
Indices: 16247099--16247129 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16247089 TTCTCTTTTA
16247099 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
16247111 TTTTTCTTTCTC
1 TTTTTCTTTCCC
16247123 TTTTTCT
1 TTTTTCT
16247130 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:16247230 original size:16 final size:16
Alignment explanation
Indices: 16247209--16247239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16247199 TTTATTATTT
16247209 TATTAACATAATATAA
1 TATTAACATAATATAA
*
16247225 TATTAATATAATATA
1 TATTAACATAATATA
16247240 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:16255042 original size:220 final size:220
Alignment explanation
Indices: 16254659--16255248 Score: 957
Period size: 220 Copynumber: 2.7 Consensus size: 220
16254649 CAGGCTAAAG
* * * * * * *
16254659 CATAGCAGATTTGACCTTCAGGTGTTTACACTGAAGCGGATCCAAGATGATTTAACATCTCTGTG
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
*
16254724 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* * *
16254789 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCTT
*
16254854 GCGTTGACAAGGAGCAGATCGAAGA
196 GCATTGACAAGGAGCAGATCGAAGA
16254879 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
*
16254944 TTGTCAGAGAACAAATCGAAGAAACA-ATTTTGGCATCTCCATATTCGACAGAGAGCAGATCGAA
66 TTGTCAGAGAACAAATCGAAGAAACAGA-TTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* *
16255008 GACATAGCAGATCTAACCTTTGAATGTCTTCACATTGAAGTAGATCCAAGATGATTTGGAATCCT
130 GACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCT
16255073 TGCATTGACAAGGAGCAGATCGAAGA
195 TGCATTGACAAGGAGCAGATCGAAGA
* * **
16255099 TATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
* *
16255164 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
16255229 ACATAGCAAATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
16255249 ATTGAAGCAG
Statistics
Matches: 343, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
219 1 0.00
220 341 0.99
221 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCTT
GCATTGACAAGGAGCAGATCGAAGA
Found at i:16255300 original size:78 final size:78
Alignment explanation
Indices: 16255190--16255484 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
16255180 CGAAGAAACA
** * * *
16255190 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
16255255 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
16255268 GATTTGGCATCTCTGTATTATACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
16255333 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
16255346 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
*
16255410 AGCAGATCCAAGAA
65 AGCAGATCCAAGAT
* * * **
16255424 GGTTTGACACCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
16255485 GTGTTTACAT
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:16255625 original size:44 final size:45
Alignment explanation
Indices: 16255498--16255697 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
16255488 TTTACATCGA
* * *
16255498 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * * *
16255543 AGCAAATCGGAGATAACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * * * *
16255588 ACCAGATTGAAGA-AGCAAATTTGACGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
*
16255632 AGTAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* *
16255677 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
16255698 ATCGCCTTCC
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 36 0.27
45 95 0.73
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:16256429 original size:18 final size:17
Alignment explanation
Indices: 16256406--16256439 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16256396 TTTCCCTAAT
*
16256406 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
16256424 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
16256440 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:16270691 original size:48 final size:48
Alignment explanation
Indices: 16270541--16270723 Score: 164
Period size: 48 Copynumber: 3.9 Consensus size: 48
16270531 TAAGGATATG
* *
16270541 TGTGATCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* ** * * *
16270589 TGAGATATCGTGTAAGACCATAG-CT-----AT-GCTATCGGCTTCGATA
1 TGTGATCCCATGTAAGACCAT-GTCTGGGACATGGC-ATTGGCATCGATA
* *
16270632 TGCATGATCCCATGTAAGGCCATGTCTGGGACATGGCATTGACATCGATA
1 TG--TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
16270682 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16270724 GCCTATTATG
Statistics
Matches: 103, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 14 0.14
44 1 0.01
45 16 0.16
48 53 0.51
49 1 0.01
50 14 0.14
51 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:16272053 original size:31 final size:31
Alignment explanation
Indices: 16272007--16272083 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
16271997 GTGTCCCAAG
* *
16272007 CCACACAGGCATGTGTGATCACACAGCCTAC
1 CCACACGGGCGTGTGTGATCACACAGCCTAC
*
16272038 CCACACGGGCGTGTGTGATCACACAGCCTAT
1 CCACACGGGCGTGTGTGATCACACAGCCTAC
*
16272069 CCATACGGGCGTGTG
1 CCACACGGGCGTGTG
16272084 ACTCTCCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.18
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGATCACACAGCCTAC
Found at i:16276187 original size:14 final size:14
Alignment explanation
Indices: 16276164--16276193 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16276154 TTGAAAATAT
16276164 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
16276178 GTTGATTTGGATTG
1 GTTGAATTGGATTG
16276192 GT
1 GT
16276194 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:16280827 original size:22 final size:22
Alignment explanation
Indices: 16280802--16280865 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
16280792 TTGTATGGGT
*
16280802 TTAGCACTTCGGTGCTCTTTGC
1 TTAGCACTTCGATGCTCTTTGC
* * *
16280824 TTAGCACTTAGATGCTATTTGT
1 TTAGCACTTCGATGCTCTTTGC
16280846 TTAGCA-TTCGATGCTCTTTG
1 TTAGCACTTCGATGCTCTTTG
16280866 GTGCGGTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (22 bp):
TTAGCACTTCGATGCTCTTTGC
Found at i:16281463 original size:9 final size:9
Alignment explanation
Indices: 16281449--16281483 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
16281439 TTTTATATAA
16281449 AGAGAGTTT
1 AGAGAGTTT
16281458 AGAGAGTTT
1 AGAGAGTTT
*
16281467 AGAAAGTTT
1 AGAGAGTTT
16281476 AGAGAGTT
1 AGAGAGTT
16281484 CAACTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (9 bp):
AGAGAGTTT
Found at i:16281557 original size:20 final size:19
Alignment explanation
Indices: 16281531--16281605 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 19
16281521 TAAATATTTA
*
16281531 ATTTAATATTAAGTTAATC
1 ATTTAATATTAAATTAATC
16281550 ATTTTAATATTAAATTAA--
1 A-TTTAATATTAAATTAATC
16281568 ATTTAATATTAAGA-TAATC
1 ATTTAATATTAA-ATTAATC
16281587 ACTTTAATATTAAATTAAT
1 A-TTTAATATTAAATTAAT
16281606 AAAATACATC
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 14 0.29
18 2 0.04
19 3 0.06
20 30 0.61
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTTAATATTAAATTAATC
Found at i:16281576 original size:37 final size:37
Alignment explanation
Indices: 16281530--16281604 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
16281520 ATAAATATTT
* *
16281530 AATTTAATATTAAGTTAATCATTTTAATATTAAATTA
1 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
16281567 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
1 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
16281604 A
1 A
16281605 TAAAATACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
AATTTAATATTAAGATAATCACTTTAATATTAAATTA
Found at i:16281652 original size:25 final size:25
Alignment explanation
Indices: 16281624--16281672 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16281614 TCAAGATATG
*
16281624 TATTAAATTAA-ATTTAATATCGAAT
1 TATTAAAATAATA-TTAATATCGAAT
*
16281649 TATTAAAATAATATTAATTTCGAA
1 TATTAAAATAATATTAATATCGAA
16281673 ATAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
TATTAAAATAATATTAATATCGAAT
Found at i:16282870 original size:26 final size:26
Alignment explanation
Indices: 16282832--16282888 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
16282822 TGAGTTGTTT
* *
16282832 TATTTTTATAGTTTTAATTTTTAAAA
1 TATTTTTAAAGTTATAATTTTTAAAA
* **
16282858 TATTTTTAAAGTTATATTTTTTTGAA
1 TATTTTTAAAGTTATAATTTTTAAAA
16282884 TATTT
1 TATTT
16282889 AGAATAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (26 bp):
TATTTTTAAAGTTATAATTTTTAAAA
Found at i:16283808 original size:9 final size:9
Alignment explanation
Indices: 16283794--16283820 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16283784 TCAATTTGAT
16283794 TAAAATTAA
1 TAAAATTAA
16283803 TAAAATTAA
1 TAAAATTAA
16283812 TAAAATTAA
1 TAAAATTAA
16283821 GTTCAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAATTAA
Found at i:16284442 original size:15 final size:15
Alignment explanation
Indices: 16284419--16284457 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
16284409 GGCGCCGAAA
16284419 GCCGAGAAGAAGCCC
1 GCCGAGAAGAAGCCC
* *
16284434 GCTGAGAAGAAGCCT
1 GCCGAGAAGAAGCCC
16284449 GCCGAGAAG
1 GCCGAGAAG
16284458 CCAACGGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.36, T:0.05
Consensus pattern (15 bp):
GCCGAGAAGAAGCCC
Found at i:16292879 original size:13 final size:13
Alignment explanation
Indices: 16292847--16292892 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
16292837 TATGAGTGGT
*
16292847 TAAGTCTGTTAGC
1 TAAGTTTGTTAGC
16292860 -AAGTTTGTTAGC
1 TAAGTTTGTTAGC
*
16292872 TCAGTTTGTTAGC
1 TAAGTTTGTTAGC
16292885 TAAGTTTG
1 TAAGTTTG
16292893 CTAAGTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (13 bp):
TAAGTTTGTTAGC
Found at i:16295574 original size:21 final size:21
Alignment explanation
Indices: 16295550--16295597 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16295540 TATACGAAAG
*
16295550 AATTTAAAATCAATTCAATAC
1 AATTCAAAATCAATTCAATAC
* * *
16295571 AATTCACATTCAATTCAATCC
1 AATTCAAAATCAATTCAATAC
16295592 AATTCA
1 AATTCA
16295598 CATCTTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTCAAAATCAATTCAATAC
Found at i:16295586 original size:5 final size:5
Alignment explanation
Indices: 16295559--16295597 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16295549 GAATTTAAAA
* *
16295559 TCAAT TCAAT ACAAT TCACAT TCAAT TCAAT CCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
16295598 CATCTTAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (5 bp):
TCAAT
Found at i:16295598 original size:21 final size:21
Alignment explanation
Indices: 16295559--16295600 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16295549 GAATTTAAAA
16295559 TCAATTCAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
*
16295580 TCAATTCAATCCAATTCACAT
1 TCAATTCAATACAATTCACAT
16295601 CTTAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Done.