Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 57 of 325
Found at i:20737843 original size:30 final size:31
Alignment explanation
Indices: 20737773--20737855 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 31
20737763 GGTTCAATTT
* *
20737773 TAAAAAAATTATTAAAATGATATATCAATAACA
1 TAAAAAAA--ATTCAAATGATATATAAATAACA
* *
20737806 TAAAAAAAATTTAAATGATAT-TAAATAA-T
1 TAAAAAAAATTCAAATGATATATAAATAACA
20737835 TAATAAAAAATTCAAGATGAT
1 TAA-AAAAAATTCAA-ATGAT
20737856 GTGATGTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 3 0.07
30 16 0.36
31 17 0.39
33 8 0.18
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (31 bp):
TAAAAAAAATTCAAATGATATATAAATAACA
Found at i:20739002 original size:21 final size:22
Alignment explanation
Indices: 20738967--20739011 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
20738957 TTGTATTTTT
20738967 TATTTCATCATTTTT-A-ATTA
1 TATTTCATCATTTTTCATATTA
*
20738987 TATTTCACTTATTTTTCATATTA
1 TATTTCA-TCATTTTTCATATTA
20739010 TA
1 TA
20739012 ATAATGTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 1 0.05
23 6 0.29
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTCATCATTTTTCATATTA
Found at i:20744164 original size:24 final size:23
Alignment explanation
Indices: 20744110--20744172 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
20744100 TTCTAAAAAT
20744110 TAAA-AATAAATTAAATAAATTATA
1 TAAATAATAAATT-AA-AAATTATA
* * *
20744134 TACATAAATATATTAAAAATTATT
1 TAAAT-AATAAATTAAAAATTATA
20744158 TAAATAATAAATTAA
1 TAAATAATAAATTAA
20744173 GCTAATATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.28
24 14 0.44
25 2 0.06
26 7 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATAATAAATTAAAAATTATA
Found at i:20744246 original size:6 final size:7
Alignment explanation
Indices: 20744228--20744256 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20744218 AAGATGGGTT
20744228 ATTTTTA
1 ATTTTTA
20744235 ATTTTTA
1 ATTTTTA
20744242 ATTTTTA
1 ATTTTTA
20744249 ATTTTTA
1 ATTTTTA
20744256 A
1 A
20744257 ACACGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:20745351 original size:18 final size:18
Alignment explanation
Indices: 20745330--20745385 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
20745320 TTAAAATCAT
*
20745330 AATTATGAATTAAATCTA
1 AATTATGAATTAAATTTA
*
20745348 AATT-T-ATTTAAAATTTTA
1 AATTATGAATT-AAA-TTTA
20745366 AATTATGAATTAAATTTA
1 AATTATGAATTAAATTTA
20745384 AA
1 AA
20745386 ATCAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 17 0.55
19 4 0.13
20 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
AATTATGAATTAAATTTA
Found at i:20758862 original size:30 final size:30
Alignment explanation
Indices: 20758828--20758889 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20758818 CGATACTATT
20758828 AACATTTAATGTCTGATTCAGTGAT-CGTTA
1 AACATTTAATGTCTGATTCAGT-ATCCGTTA
20758858 AACATTTAATGTCTGATTCAGTATCCGTTA
1 AACATTTAATGTCTGATTCAGTATCCGTTA
20758888 AA
1 AA
20758890 GTTAGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (30 bp):
AACATTTAATGTCTGATTCAGTATCCGTTA
Found at i:20761348 original size:42 final size:42
Alignment explanation
Indices: 20761237--20761356 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
20761227 TACCATACTA
* * *
20761237 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* *
20761279 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
20761322 ATGCCATATCCCAGATATAGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
20761357 TAGTAACTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:20771239 original size:14 final size:14
Alignment explanation
Indices: 20771220--20771246 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20771210 ATTACAAGAA
20771220 AAATAAATATTTAT
1 AAATAAATATTTAT
20771234 AAATAAATATTTA
1 AAATAAATATTTA
20771247 ATGTATCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAAATATTTAT
Found at i:20775893 original size:24 final size:24
Alignment explanation
Indices: 20775861--20775913 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
20775851 TTTACTAGAG
*
20775861 ATTGAGGCTTGAGTTATTGTCGAT
1 ATTGTGGCTTGAGTTATTGTCGAT
20775885 ATTGTGGCTTGAGTTATTGTCGAT
1 ATTGTGGCTTGAGTTATTGTCGAT
20775909 ATTGT
1 ATTGT
20775914 TTAGATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.08, G:0.28, T:0.45
Consensus pattern (24 bp):
ATTGTGGCTTGAGTTATTGTCGAT
Found at i:20777644 original size:19 final size:20
Alignment explanation
Indices: 20777609--20777647 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20777599 CAAATACATT
20777609 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
20777629 TTAAAACA-AGAAACAAATA
1 TTAAAACATAAAAACAAATA
20777648 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:20778425 original size:23 final size:22
Alignment explanation
Indices: 20778366--20778427 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
20778356 TTATATACTA
*
20778366 AATAAAATAATAA-TAAAATAT
1 AATAAATTAATAATTAAAATAT
*
20778387 AATTAAATGTCA-AATTAAAATATT
1 AA-TAAAT-TAATAATTAAAATA-T
20778411 AATAAATTAATAATTAA
1 AATAAATTAATAATTAA
20778428 TTAATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
23 20 0.61
24 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AATAAATTAATAATTAAAATAT
Found at i:20778428 original size:15 final size:16
Alignment explanation
Indices: 20778398--20778436 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
20778388 ATTAAATGTC
*
20778398 AAATTAAAATATTAAT
1 AAATTAATATATTAAT
20778414 AAATTAATA-ATTAAT
1 AAATTAATATATTAAT
*
20778429 TAATTAAT
1 AAATTAAT
20778437 TTAAAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAATATATTAAT
Found at i:20793757 original size:17 final size:17
Alignment explanation
Indices: 20793735--20793767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20793725 AAAAGAAAAT
20793735 TAAAAATAT-AAAAATAA
1 TAAAAA-ATGAAAAATAA
20793752 TAAAAAATGAAAAATA
1 TAAAAAATGAAAAATA
20793768 TATATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAATGAAAAATAA
Found at i:20808385 original size:122 final size:122
Alignment explanation
Indices: 20808173--20808429 Score: 478
Period size: 122 Copynumber: 2.1 Consensus size: 122
20808163 ATTGATCACT
*
20808173 ATTTATTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
1 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
*
20808238 AGTCTTTCTGTTATAACATTGCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
66 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
20808295 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
1 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
*
20808360 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCTTTTTATTATTTTGATGTTA
66 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
*
20808417 ATTTAGTTATATG
1 ATTTAGTTGTATG
20808430 CTGCATTAGA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 131 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (122 bp):
ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
Found at i:20817689 original size:50 final size:51
Alignment explanation
Indices: 20817612--20817740 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
20817602 GACCATGGCA
*
20817612 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
20817663 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
20817713 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
20817741 CTAATCAGCG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:20817757 original size:31 final size:32
Alignment explanation
Indices: 20817716--20817858 Score: 195
Period size: 31 Copynumber: 4.6 Consensus size: 32
20817706 ACAAATGACA
*
20817716 AGTGAAAAGTGGTAGCTTC-AGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCTAGCTACCTGATC
*
20817747 AGCGAAAAGTGGTAGCTTCTA-CTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTAGCTACCTGATC
**
20817778 AGTGAAAAGTGGTAGC-TCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTAGCTACCTGATC
* *
20817809 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTAGCTACCTGATC
*
20817840 AGTGAATAGTGGTAGCTTC
1 AGTGAAAAGTGGTAGCTTC
20817859 GACTACAAGT
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.02
31 95 0.95
32 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (32 bp):
AGTGAAAAGTGGTAGCTTCTAGCTACCTGATC
Found at i:20818027 original size:42 final size:42
Alignment explanation
Indices: 20817976--20818073 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
20817966 TATGTGTTTC
* **
20817976 GTGTAAGACCATAGCTGGTCTATGACATCGA-TATATGAATTT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATGAAGAT
*
20818018 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
20818060 GTGTAAGACCATAG
1 GTGTAAGACCATAG
20818074 TTGAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
Found at i:20818083 original size:42 final size:42
Alignment explanation
Indices: 20817976--20818090 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
20817966 TATGTGTTTC
* **
20817976 GTGTAAGACCATAGCTGGTCTATGACATCGATATATGAATTT
1 GTGTAAGACCATAGCTGGACTATGACATCGATATATGAAGAT
* *
20818018 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGACTATGACATCGA-TATATGAAGAT
* * *
20818060 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGACTATGACATCGA
20818091 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGACTATGACATCGATATATGAAGAT
Found at i:20819477 original size:36 final size:36
Alignment explanation
Indices: 20819412--20819501 Score: 146
Period size: 36 Copynumber: 2.5 Consensus size: 36
20819402 TTGACATTTT
* **
20819412 TTATTTTTAATTTATAAT-GTTAATTGGAAATAATA
1 TTATTTTAAATTTATCTTGGTTAATTGGAAATAATA
20819447 TTATTTTAAATTTATCTTGGTTAATTGGAAATAATA
1 TTATTTTAAATTTATCTTGGTTAATTGGAAATAATA
20819483 TTATTTTAAATTTATCTTG
1 TTATTTTAAATTTATCTTG
20819502 CATATATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 15 0.29
36 36 0.71
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (36 bp):
TTATTTTAAATTTATCTTGGTTAATTGGAAATAATA
Found at i:20820224 original size:19 final size:19
Alignment explanation
Indices: 20820188--20820224 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20820178 TAATTAGGCT
* *
20820188 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
20820207 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
20820225 GAAGAAAAAA
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:20821345 original size:17 final size:18
Alignment explanation
Indices: 20821323--20821356 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20821313 TAAATGAGTT
20821323 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
20821340 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
20821357 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:20821860 original size:13 final size:14
Alignment explanation
Indices: 20821839--20821878 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
20821829 ATTTGATTGG
20821839 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
20821852 AATATGAATTAAAT
1 AAAATGAATTAAAT
20821866 AAAAGTGAATTAA
1 AAAA-TGAATTAA
20821879 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:20822262 original size:23 final size:21
Alignment explanation
Indices: 20822232--20822313 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
20822222 GCTTTGCCGA
* *
20822232 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTC--ATT
* *
20822255 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCATGTGTCATT
20822276 TCAGGCACCTCATGTGTCATT
1 TCAGGCACCTCATGTGTCATT
* *
20822297 TTAGGCA-CTTATGTGTC
1 TCAGGCACCTCATGTGTC
20822314 GTATACTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 9 0.18
21 27 0.53
23 15 0.29
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCATT
Found at i:20822616 original size:13 final size:13
Alignment explanation
Indices: 20822598--20822629 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
20822588 TGAATAATTG
20822598 AAATGAGAAAATC
1 AAATGAGAAAATC
20822611 AAATGAGAAAATC
1 AAATGAGAAAATC
20822624 AAATGA
1 AAATGA
20822630 ATTGATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.06, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAGAAAATC
Found at i:20835582 original size:6 final size:6
Alignment explanation
Indices: 20835572--20835603 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
20835562 AGAAAACCTT
*
20835572 GATGAT GATGAG GATGAG GATGAG GATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GATGAG GA
20835604 GATGTCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.47, T:0.19
Consensus pattern (6 bp):
GATGAG
Found at i:20844510 original size:20 final size:21
Alignment explanation
Indices: 20844488--20844561 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 21
20844478 ATTAATTATA
20844488 AAAATTATAAAAAAATCATA-
1 AAAATTATAAAAAAATCATAT
* *
20844508 AAAA--A-ATAAAAACCATAT
1 AAAATTATAAAAAAATCATAT
* *
20844526 AAAATTAT-AAATAATCAGAT
1 AAAATTATAAAAAAATCATAT
*
20844546 AAAATTATCAAAAAAT
1 AAAATTATAAAAAAAT
20844562 AAAATTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.24
18 5 0.12
20 21 0.50
21 6 0.14
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (21 bp):
AAAATTATAAAAAAATCATAT
Found at i:20844734 original size:19 final size:19
Alignment explanation
Indices: 20844712--20844752 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20844702 TAAATTCTAT
20844712 AAAATCATAAAAAATATTAA
1 AAAAT-ATAAAAAATATTAA
* *
20844732 AAAATATCAAAAATTTTAA
1 AAAATATAAAAAATATTAA
20844751 AA
1 AA
20844753 GCGATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATAAAAAATATTAA
Found at i:20845250 original size:19 final size:20
Alignment explanation
Indices: 20845213--20845250 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20845203 TTTATTTTAT
*
20845213 TTTATATAGGTTTTATATAG
1 TTTATATAGATTTTATATAG
*
20845233 TTTAT-TAGATTTTTTATA
1 TTTATATAGATTTTATATA
20845251 TTTTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (20 bp):
TTTATATAGATTTTATATAG
Found at i:20845272 original size:16 final size:17
Alignment explanation
Indices: 20845245--20845291 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
20845235 TATTAGATTT
20845245 TTTATATTTTTATAATA
1 TTTATATTTTTATAATA
20845262 TTTAT-TTTTTATAATA
1 TTTATATTTTTATAATA
*
20845278 TTTCTTATTTTTAT
1 TTT-ATATTTTTAT
20845292 GATTTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.52
17 6 0.22
18 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATATTTTTATAATA
Found at i:20848681 original size:31 final size:31
Alignment explanation
Indices: 20848646--20848723 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
20848636 TAAAAAAAAT
20848646 CTTATTTGAGCACTTTCGAAAATGA-TTCACC
1 CTTATTTGAGCACTTTCGAAAAT-ATTTCACC
* * **
20848677 CTTATTTGAGCATTTTCGAATATATTTGGCC
1 CTTATTTGAGCACTTTCGAAAATATTTCACC
*
20848708 CTTATTTGAACACTTT
1 CTTATTTGAGCACTTT
20848724 TGTAAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (31 bp):
CTTATTTGAGCACTTTCGAAAATATTTCACC
Found at i:20866688 original size:58 final size:57
Alignment explanation
Indices: 20866557--20866734 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 57
20866547 TGGGTCTAAT
* * * *
20866557 TTTTTTGTCCAATTTAGGTCTTGAACTT-GATAAATATTCTTACATTG-GGCTTGAAA
1 TTTTTTGTCCAAGTTAGGCCTTGAACTTAG-CAAATATTCTCACATTGAGGCTTGAAA
** * * *
20866613 TTATTTTACCCAAGTTAGGCCTTGAATTTAGCAAATATCCCCACATTGAGGCTTGAAA
1 TT-TTTTGTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
* * * *
20866671 TTTTTTGGTCCAAGTTAGGCATTGAACTTAGCAAATATTATCACATTGAGGCTTCAAC
1 TTTTTT-GTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
20866729 TTTTTT
1 TTTTTT
20866735 TTTTATCTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
56 2 0.02
57 38 0.38
58 60 0.60
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (57 bp):
TTTTTTGTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
Found at i:20874421 original size:26 final size:26
Alignment explanation
Indices: 20874387--20874443 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
20874377 GTTTGGACTA
*
20874387 TGTTCATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
20874413 TGTTAATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
20874439 TGTTA
1 TGTTA
20874444 TTCACTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.07, C:0.09, G:0.16, T:0.68
Consensus pattern (26 bp):
TGTTAATTTGTTTCCTTGTTTTTTGT
Found at i:20880480 original size:56 final size:56
Alignment explanation
Indices: 20880412--20880519 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
20880402 TGCTTAGATG
20880412 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
1 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
*
20880468 ATAGTGAAATTTTCTTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
1 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
20880520 ACTGGGCCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (56 bp):
ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
Found at i:20893760 original size:26 final size:26
Alignment explanation
Indices: 20893731--20893781 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20893721 TGTCTGCTAG
*
20893731 AAAAAAAAGAGAATTTAAAAAAAATT
1 AAAAAAAAGAGAATTCAAAAAAAATT
* * *
20893757 AAAAATAAGTGACTTCAAAAAAAAT
1 AAAAAAAAGAGAATTCAAAAAAAAT
20893782 GAATTTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.20
Consensus pattern (26 bp):
AAAAAAAAGAGAATTCAAAAAAAATT
Found at i:20894793 original size:17 final size:18
Alignment explanation
Indices: 20894771--20894805 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
20894761 GATGGATAGG
20894771 AAATAATGCCTA-TTTTT
1 AAATAATGCCTAGTTTTT
20894788 AAATAATGCCTAGTTTTT
1 AAATAATGCCTAGTTTTT
20894806 TAGTAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
AAATAATGCCTAGTTTTT
Found at i:20897053 original size:19 final size:20
Alignment explanation
Indices: 20897026--20897079 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
20897016 AAAATAATCT
20897026 TTAAATTTTAAATTAT-ATA
1 TTAAATTTTAAATTATGATA
* *
20897045 TTAATTTTTAGATTATGATA
1 TTAAATTTTAAATTATGATA
20897065 TGCTATAATTTTAAA
1 T--TA-AATTTTAAA
20897080 GTATCATGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 14 0.52
20 4 0.15
22 2 0.07
23 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
TTAAATTTTAAATTATGATA
Found at i:20898852 original size:16 final size:16
Alignment explanation
Indices: 20898827--20898857 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20898817 TTTTGTAGTT
*
20898827 TTTTATTAATTTAATA
1 TTTTAATAATTTAATA
20898843 TTTTAATAATTTAAT
1 TTTTAATAATTTAAT
20898858 CTTTAAATTT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATAATTTAATA
Found at i:20902576 original size:34 final size:34
Alignment explanation
Indices: 20902538--20902605 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
20902528 AATTTTGTGC
20902538 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
1 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
20902572 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
1 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
20902606 AGCTATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (34 bp):
CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
Found at i:20909091 original size:35 final size:35
Alignment explanation
Indices: 20909051--20909123 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
20909041 TCACCTTCTT
* *
20909051 TAAATTACTTGTGTTAATTTAAAAAATCAAAATTA
1 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
20909086 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
1 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
20909121 TAA
1 TAA
20909124 GACTTACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (35 bp):
TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
Found at i:20911012 original size:38 final size:38
Alignment explanation
Indices: 20910961--20911036 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
20910951 TTAGTATTGC
20910961 CAGAAAAATAAGATTAGTTGACTTAGGCTTCGTTTGGG
1 CAGAAAAATAAGATTAGTTGACTTAGGCTTCGTTTGGG
20910999 CAGAAAAATAAGATTAGTTGACTTAGGCTTCGTTTGGG
1 CAGAAAAATAAGATTAGTTGACTTAGGCTTCGTTTGGG
20911037 GCGACGGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (38 bp):
CAGAAAAATAAGATTAGTTGACTTAGGCTTCGTTTGGG
Found at i:20922303 original size:19 final size:19
Alignment explanation
Indices: 20922279--20922315 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20922269 TTTCTATTTT
*
20922279 CTAAAATATTAATTAATTA
1 CTAAAATACTAATTAATTA
20922298 CTAAAATACTAATTAATT
1 CTAAAATACTAATTAATT
20922316 TAATTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAAAATACTAATTAATTA
Found at i:20924214 original size:13 final size:13
Alignment explanation
Indices: 20924196--20924221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20924186 TTTTGTGCTT
20924196 ATTTTAATGTATG
1 ATTTTAATGTATG
20924209 ATTTTAATGTATG
1 ATTTTAATGTATG
20924222 TTGGGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTAATGTATG
Found at i:20927582 original size:5 final size:5
Alignment explanation
Indices: 20927568--20927607 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
20927558 CTAAAAACGA
*
20927568 AAAAG AAAAAG AAAAG AAAAG AAAAG AAAAG AACAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
20927608 AGACAGCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:20938588 original size:13 final size:13
Alignment explanation
Indices: 20938570--20938594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20938560 GTGGATTTGA
20938570 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
20938583 TTTCTTTTTTTC
1 TTTCTTTTTTTC
20938595 ACCTTTCGAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:20940096 original size:20 final size:20
Alignment explanation
Indices: 20940071--20940114 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
20940061 TTTCATTGCT
*
20940071 TTTAATTATTAATGTTAATA
1 TTTAATTATTAACGTTAATA
* *
20940091 TTTAATTGTTAGCGTTAATA
1 TTTAATTATTAACGTTAATA
20940111 TTTA
1 TTTA
20940115 TACATTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTAATTATTAACGTTAATA
Found at i:20950746 original size:16 final size:16
Alignment explanation
Indices: 20950725--20950758 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20950715 ATTGAAAATT
*
20950725 AAAAAATATATATTTA
1 AAAAAATATATATGTA
20950741 AAAAAATATATATGTA
1 AAAAAATATATATGTA
20950757 AA
1 AA
20950759 TGTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAAATATATATGTA
Found at i:20955634 original size:99 final size:101
Alignment explanation
Indices: 20955444--20955640 Score: 308
Period size: 102 Copynumber: 2.0 Consensus size: 101
20955434 GGCGTAAGCC
* ** *
20955444 GCATCCTCTTTGCTGCTGGTTGCTGGGATAACTCTCCCAGAGAATCATTGACAATGATGGCCTCC
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGA-GGCCTCC
20955509 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
65 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
* **
20955546 GCATCCTCTTTGCTGCCGGTTGCTCAGATAATTCTGTAAGAGAATCATTGACAAT-A-GCCTCCT
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGAGGCCTCCT
20955609 TGTTTTCAGCCACTTCAGAATCTTGATTCAAT
66 TGTTTTCAGCCACTTCAGAATCTTGATTCAAT
20955641 GGTACAGCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 39 0.44
101 1 0.01
102 48 0.55
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (101 bp):
GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGAGGCCTCCT
TGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
Found at i:20965879 original size:30 final size:30
Alignment explanation
Indices: 20965845--20965911 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
20965835 TAATTATTAA
20965845 TTATTAAATT-GCACCTTAAATTACATCTCT
1 TTATTAAATTGGCA-CTTAAATTACATCTCT
* * *
20965875 TTATTTAATTTGGTACTTAAATTATATCTCT
1 TTA-TTAAATTGGCACTTAAATTACATCTCT
*
20965906 TCATTA
1 TTATTA
20965912 CTTAAATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 6 0.19
31 23 0.74
32 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.49
Consensus pattern (30 bp):
TTATTAAATTGGCACTTAAATTACATCTCT
Found at i:20975567 original size:33 final size:33
Alignment explanation
Indices: 20975525--20975589 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
20975515 GCATGGGAGC
20975525 CCGCAACCATGACACATCTGTGTGAACCATCAT
1 CCGCAACCATGACACATCTGTGTGAACCATCAT
20975558 CCGCAACCATGACACATCTGTGTGAACCATCA
1 CCGCAACCATGACACATCTGTGTGAACCATCA
20975590 AGAAGGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (33 bp):
CCGCAACCATGACACATCTGTGTGAACCATCAT
Found at i:20975690 original size:15 final size:15
Alignment explanation
Indices: 20975670--20975739 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
20975660 GTTAGACAAA
20975670 TATAAGATATTATTT
1 TATAAGATATTATTT
*
20975685 TATAAGATTACATATCTT
1 TATAAGA-TA-TTAT-TT
*
20975703 AGATAAGATATGTAATTT
1 -TATAAGATAT-T-ATTT
* *
20975721 TAGAAGATATGATTT
1 TATAAGATATTATTT
20975736 TATA
1 TATA
20975740 TTTTTAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
15 14 0.33
16 2 0.05
17 11 0.26
18 7 0.17
19 8 0.19
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.44
Consensus pattern (15 bp):
TATAAGATATTATTT
Found at i:20979598 original size:25 final size:25
Alignment explanation
Indices: 20979564--20979613 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20979554 TCTACGATAT
20979564 GTTAGTATAGCTTTATTGCAATAAA
1 GTTAGTATAGCTTTATTGCAATAAA
20979589 GTTAGTATAGCTTTATTGCAATAAA
1 GTTAGTATAGCTTTATTGCAATAAA
20979614 TACCTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (25 bp):
GTTAGTATAGCTTTATTGCAATAAA
Found at i:20983218 original size:19 final size:19
Alignment explanation
Indices: 20983194--20983232 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
20983184 GGAAGATAAG
*
20983194 TTCAGTCAAGCTCCTTCTT
1 TTCAGTCAAGCTACTTCTT
20983213 TTCAGTCAAGCTACTTCTT
1 TTCAGTCAAGCTACTTCTT
20983232 T
1 T
20983233 GCATTTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.28, G:0.10, T:0.44
Consensus pattern (19 bp):
TTCAGTCAAGCTACTTCTT
Found at i:20990691 original size:46 final size:46
Alignment explanation
Indices: 20990641--20990948 Score: 393
Period size: 46 Copynumber: 6.7 Consensus size: 46
20990631 GAAATGTGTG
* * **
20990641 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
** *
20990687 AGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAATA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
* * * **
20990733 AGACCGTAGTTGAAATATACCATGGCAACATGACGGGAAATGAATA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
* * *
20990779 AGACCATGGTTGAAAGATAGCATGGCAGCATGACATGAAATGACTA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
** *
20990825 AGACCATGGTTGAAAGATACCATGATAGCATGACATGAAATGAATA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
*
20990871 AGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTA
1 AGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATA
* * * *
20990917 AGACCATAGTTGAAAGACACTATGGCATCATG
1 AGACCATGGTTGAAAGATACCATGGCAACATG
20990949 TCAAAGATAA
Statistics
Matches: 229, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 228 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
AGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATA
Found at i:20992903 original size:17 final size:18
Alignment explanation
Indices: 20992871--20992908 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
20992861 TTAAGGTTAA
20992871 AAAGGTAAATTAATAATT
1 AAAGGTAAATTAATAATT
*
20992889 AAAGGTTAA-TAATAATT
1 AAAGGTAAATTAATAATT
20992906 AAA
1 AAA
20992909 ACAAAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAGGTAAATTAATAATT
Found at i:20998273 original size:25 final size:24
Alignment explanation
Indices: 20998196--20998279 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
20998186 TGTTAACTAG
20998196 TTTATAACATCTTTACTTCAATTCA
1 TTTA-AACATCTTTACTTCAATTCA
* * * *
20998221 TTTAAAC-TCTATACATGCCATATAA
1 TTTAAACATCTTTAC-TTCAAT-TCA
20998246 TTTATAACATCTTTACTTCAATTCA
1 TTTA-AACATCTTTACTTCAATTCA
20998271 TTTAAACAT
1 TTTAAACAT
20998280 AAAACAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 6 0.13
24 12 0.26
25 16 0.34
26 7 0.15
27 6 0.13
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (24 bp):
TTTAAACATCTTTACTTCAATTCA
Found at i:20998775 original size:40 final size:37
Alignment explanation
Indices: 20998667--20998801 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 37
20998657 TTTTCCTCAT
* * *
20998667 TGAAATACTATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* * **
20998703 -GAAATGCGATACCTACATTTCTTAAC-CTAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTC-AGTATGGA
20998739 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
20998779 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
20998802 CTTTTTCATG
Statistics
Matches: 82, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
34 1 0.01
35 48 0.59
38 2 0.02
39 2 0.02
40 28 0.34
41 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:21002283 original size:38 final size:40
Alignment explanation
Indices: 21002240--21002316 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 40
21002230 ATGTTTAAGG
*
21002240 ATGAATTATATTATGATTA-TC-GTAATGTTTCAAAACTA
1 ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAACTA
* *
21002278 ATGAATTAGATTATGTTTATTCGGTAATGTTTCGAAACT
1 ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAACT
21002317 CTATTCCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.50
39 2 0.06
40 15 0.44
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (40 bp):
ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAACTA
Found at i:21004082 original size:50 final size:50
Alignment explanation
Indices: 21003958--21004206 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
21003948 GATAATAACA
* * ** * *
21003958 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
21004009 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
21004059 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
21004109 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
21004164 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
21004207 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:21004136 original size:100 final size:104
Alignment explanation
Indices: 21003957--21004206 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
21003947 TGATAATAAC
**
21003957 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
21004022 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
21004059 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
21004122 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
21004164 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21004207 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:21004322 original size:13 final size:13
Alignment explanation
Indices: 21004301--21004332 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21004291 GCTTGGATCA
*
21004301 TCATCAAATAAAT
1 TCATAAAATAAAT
21004314 TCATAAAATAAAT
1 TCATAAAATAAAT
21004327 TCATAA
1 TCATAA
21004333 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:21004578 original size:30 final size:30
Alignment explanation
Indices: 21004543--21004600 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21004533 CCTCGACTCT
*
21004543 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
21004573 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
21004601 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:21010005 original size:5 final size:5
Alignment explanation
Indices: 21010003--21010057 Score: 94
Period size: 5 Copynumber: 11.0 Consensus size: 5
21009993 TTTTATATTA
21010003 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATTAT TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
21010053 TATAT
1 TATAT
21010058 GACAAAGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.08
5 39 0.81
6 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:21010123 original size:40 final size:40
Alignment explanation
Indices: 21010066--21010161 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
21010056 ATGACAAAGA
21010066 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
21010107 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
21010147 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
21010162 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:21010595 original size:50 final size:50
Alignment explanation
Indices: 21010482--21010723 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
21010472 ATTTGGGTAA
* * *
21010482 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
21010538 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
21010588 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
21010638 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
21010688 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
21010724 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:21010671 original size:100 final size:103
Alignment explanation
Indices: 21010482--21010731 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
21010472 ATTTGGGTAA
21010482 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
21010547 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
21010588 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
21010650 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
21010688 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
21010732 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:21013077 original size:29 final size:30
Alignment explanation
Indices: 21013018--21013075 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21013008 TCCGAGCCTT
*
21013018 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* * *
21013048 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
21013076 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:21013513 original size:50 final size:50
Alignment explanation
Indices: 21013400--21013641 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
21013390 ATTTGGGTAA
* * *
21013400 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
21013456 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
21013506 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
21013556 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
21013606 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
21013642 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:21013589 original size:100 final size:103
Alignment explanation
Indices: 21013400--21013649 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
21013390 ATTTGGGTAA
21013400 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
21013465 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
21013506 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
21013568 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
21013606 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
21013650 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:21015653 original size:12 final size:12
Alignment explanation
Indices: 21015636--21015660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21015626 CATGTTATGT
21015636 GTATATATATAA
1 GTATATATATAA
21015648 GTATATATATAA
1 GTATATATATAA
21015660 G
1 G
21015661 AGTCAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GTATATATATAA
Found at i:21016105 original size:13 final size:13
Alignment explanation
Indices: 21016087--21016114 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21016077 TGATCTCTTC
21016087 TGGGTATTCTATA
1 TGGGTATTCTATA
21016100 TGGGTATTCTATA
1 TGGGTATTCTATA
21016113 TG
1 TG
21016115 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:21019031 original size:50 final size:50
Alignment explanation
Indices: 21018907--21019155 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
21018897 GATAATAACA
* * ** * *
21018907 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
21018958 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
21019008 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
21019058 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
21019113 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
21019156 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:21019085 original size:100 final size:104
Alignment explanation
Indices: 21018906--21019155 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
21018896 TGATAATAAC
**
21018906 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
21018971 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
21019008 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
21019071 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
21019113 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21019156 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:21019271 original size:13 final size:13
Alignment explanation
Indices: 21019250--21019281 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21019240 GCTTGGATCA
*
21019250 TCATCAAATAAAT
1 TCATAAAATAAAT
21019263 TCATAAAATAAAT
1 TCATAAAATAAAT
21019276 TCATAA
1 TCATAA
21019282 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:21019526 original size:30 final size:30
Alignment explanation
Indices: 21019491--21019548 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21019481 CCTCGACTCT
*
21019491 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
21019521 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
21019549 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:21037103 original size:16 final size:17
Alignment explanation
Indices: 21037082--21037115 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21037072 CTATTACAAG
21037082 TATTGAA-ATAACTTAA
1 TATTGAATATAACTTAA
*
21037098 TATTGAATTTAACTTAA
1 TATTGAATATAACTTAA
21037115 T
1 T
21037116 TAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TATTGAATATAACTTAA
Found at i:21052924 original size:15 final size:15
Alignment explanation
Indices: 21052904--21052934 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21052894 TTTTAATAAA
21052904 TGATAATTTCATCCC
1 TGATAATTTCATCCC
*
21052919 TGATAATTTCGTCCC
1 TGATAATTTCATCCC
21052934 T
1 T
21052935 ACTCAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.42
Consensus pattern (15 bp):
TGATAATTTCATCCC
Found at i:21057576 original size:29 final size:29
Alignment explanation
Indices: 21057543--21057600 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
21057533 TTAATTTAAT
21057543 ACCAATCATCTTATATCAATTAAATCATA
1 ACCAATCATCTTATATCAATTAAATCATA
21057572 ACCAATCATCTTATATCAATTAAATCATA
1 ACCAATCATCTTATATCAATTAAATCATA
21057601 CTATTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (29 bp):
ACCAATCATCTTATATCAATTAAATCATA
Found at i:21060408 original size:25 final size:23
Alignment explanation
Indices: 21060379--21060443 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 23
21060369 AATAAAAAAC
*
21060379 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
21060404 TTTAAAACATAAAAATAAATA-A
1 TTTAAAACATAAAAATAAATACA
21060426 --TAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
21060444 AATAATGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 7 0.18
22 1 0.03
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:21061956 original size:65 final size:66
Alignment explanation
Indices: 21061881--21062024 Score: 193
Period size: 65 Copynumber: 2.2 Consensus size: 66
21061871 CTACCGCAGA
* *
21061881 TCTTTGTGAGCGTCT-TGTTATATGATTGATTGTGATCCTGCACATATTGCAGATACAAACGCAA
1 TCTTTGTGAGCGTCTCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAACGCAA
21061945 C
66 C
* * * * * * *
21061946 TCTTTGTGAGCGT-TCTGTTTTATGATCGGTTGTGATCTTGCATATGTTGCAGACACAAATGCAG
1 TCTTTGTGAGCGTCTCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAACGCAA
21062010 C
66 C
21062011 TCTTTGTGAGCGTC
1 TCTTTGTGAGCGTC
21062025 CTAATATAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 1 0.01
65 67 0.99
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (66 bp):
TCTTTGTGAGCGTCTCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAACGCAA
C
Found at i:21062131 original size:26 final size:26
Alignment explanation
Indices: 21062073--21062132 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
21062063 CCAAAGCTCC
* *
21062073 CGATTAATGGCTCTTCGTGAGCTTCT
1 CGATTAAAGGCTCTTCATGAGCTTCT
* *
21062099 CGTTTAAAGGCTCTTTATGAGCTTCT
1 CGATTAAAGGCTCTTCATGAGCTTCT
*
21062125 TGATTAAA
1 CGATTAAA
21062133 AGTTATTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
CGATTAAAGGCTCTTCATGAGCTTCT
Found at i:21064374 original size:26 final size:26
Alignment explanation
Indices: 21064338--21064389 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21064328 AGTTACATAG
21064338 TGCATAATTATACATCAAGAACTATC
1 TGCATAATTATACATCAAGAACTATC
*
21064364 TGCATAATTATACATCAAGAATTATC
1 TGCATAATTATACATCAAGAACTATC
21064390 CTATATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (26 bp):
TGCATAATTATACATCAAGAACTATC
Found at i:21070335 original size:20 final size:18
Alignment explanation
Indices: 21070310--21070358 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
21070300 TAAAATGATG
21070310 AAAAATAAAATTTAACTAAA
1 AAAAATAAAA-TTAAC-AAA
* *
21070330 AAAAATCAAATTGACAAA
1 AAAAATAAAATTAACAAA
21070348 AAAATATAAAA
1 AAAA-ATAAAA
21070359 CTAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 9 0.36
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAATAAAATTAACAAA
Found at i:21072102 original size:27 final size:27
Alignment explanation
Indices: 21072072--21072125 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
21072062 GGGCGATGAA
*
21072072 GATTTGTTTGTGAAGTTTGGTGATTTT
1 GATTTGTTTGTGAAATTTGGTGATTTT
21072099 GATTTGTTTGTGAAATTTGGTGATTTT
1 GATTTGTTTGTGAAATTTGGTGATTTT
21072126 TCTTAGGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.56
Consensus pattern (27 bp):
GATTTGTTTGTGAAATTTGGTGATTTT
Found at i:21085109 original size:14 final size:14
Alignment explanation
Indices: 21085092--21085125 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
21085082 AAAAATAAAT
21085092 AAATATTTTTCTTA
1 AAATATTTTTCTTA
*
21085106 AAATTATTTTTTTTA
1 AAA-TATTTTTCTTA
21085121 AAATA
1 AAATA
21085126 CAAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATATTTTTCTTA
Found at i:21085115 original size:15 final size:15
Alignment explanation
Indices: 21085095--21085124 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21085085 AATAAATAAA
21085095 TATTTTTCTTAAAAT
1 TATTTTTCTTAAAAT
*
21085110 TATTTTTTTTAAAAT
1 TATTTTTCTTAAAAT
21085125 ACAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTTTCTTAAAAT
Found at i:21088567 original size:36 final size:36
Alignment explanation
Indices: 21088484--21088581 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 36
21088474 TACCTCTAAA
* *
21088484 ATAATAG-AAAA-AATAACAATAAAATAAGAGTTAT
1 ATAATAGCAAAATAATAACAATAAAATAATAGTAAT
* * *
21088518 ATAACATCTAAATAATAACAATAAAATAATAGTAAT
1 ATAATAGCAAAATAATAACAATAAAATAATAGTAAT
21088554 ATAATAGCAAAAT-A-AA-AATAAAATAATA
1 ATAATAGCAAAATAATAACAATAAAATAATA
21088582 ACGAAATGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 12 0.22
34 7 0.13
35 4 0.07
36 31 0.57
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (36 bp):
ATAATAGCAAAATAATAACAATAAAATAATAGTAAT
Found at i:21088579 original size:22 final size:22
Alignment explanation
Indices: 21088540--21088581 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21088530 TAATAACAAT
* * *
21088540 AAAATAATAGTAATATAATAGC
1 AAAATAAAAATAAAATAATAGC
21088562 AAAATAAAAATAAAATAATA
1 AAAATAAAAATAAAATAATA
21088582 ACGAAATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAATAAAAATAAAATAATAGC
Found at i:21092349 original size:26 final size:26
Alignment explanation
Indices: 21092313--21092369 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
21092303 TCTGTTAAGA
*
21092313 TAGAATAAAACATACCTCAACCCTTG
1 TAGATTAAAACATACCTCAACCCTTG
21092339 TAGATTAAAACATACCTCAACCCTTG
1 TAGATTAAAACATACCTCAACCCTTG
21092365 TAGAT
1 TAGAT
21092370 GACTTCTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (26 bp):
TAGATTAAAACATACCTCAACCCTTG
Found at i:21092825 original size:87 final size:87
Alignment explanation
Indices: 21092478--21092825 Score: 491
Period size: 87 Copynumber: 4.0 Consensus size: 87
21092468 TTGAGGTGAA
* ** *
21092478 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGGTTCTACTTTGTCCACATTCGT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
* *
21092543 TTCCTGCTGAAGCAGATTCTTT
66 TTCCTGCTGAACCAGATTCTTG
* * * *
21092565 TGTTTATTTTCCGT-GAATGATTCTTGCTTCTTCCCTTTCTCGGATTCAGCTTTGTCCACATTCG
1 TGTTTATTTGCCGTAG-ATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCA
* *
21092629 TTTCCTGCTGAACCGGATTCTTA
65 TTTCCTGCTGAACCAGATTCTTG
* *
21092652 TGTTTATTTGCTGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATCCAT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
21092717 TTCCTGCTGAACCAGATTCTTG
66 TTCCTGCTGAACCAGATTCTTG
* ** *
21092739 TGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCACCTTCCGCTTTGTCCACTTTCAT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
* * *
21092804 TTCCTTCTGCAGCAGATTCTTG
66 TTCCTGCTGAACCAGATTCTTG
21092826 GTTCAGAGAA
Statistics
Matches: 234, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 232 0.99
88 1 0.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (87 bp):
TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
TTCCTGCTGAACCAGATTCTTG
Found at i:21103071 original size:11 final size:11
Alignment explanation
Indices: 21103057--21103100 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
21103047 ATATTTCAAA
21103057 AAAAAAAAACT
1 AAAAAAAAACT
*
21103068 AAAAGAAAACT
1 AAAAAAAAACT
21103079 AAAGAAGAAAACT
1 AAA-AA-AAAACT
21103092 AAAAGAAAA
1 AAAA-AAAA
21103101 GAAAGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 13 0.46
12 5 0.18
13 10 0.36
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (11 bp):
AAAAAAAAACT
Found at i:21103098 original size:14 final size:13
Alignment explanation
Indices: 21103062--21103094 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21103052 TCAAAAAAAA
21103062 AAAACT-AA-AAG
1 AAAACTAAAGAAG
21103073 AAAACTAAAGAAG
1 AAAACTAAAGAAG
21103086 AAAACTAAA
1 AAAACTAAA
21103095 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 2 0.10
13 12 0.60
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAACTAAAGAAG
Found at i:21106953 original size:30 final size:31
Alignment explanation
Indices: 21106919--21106978 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
21106909 ATTTTAGGTT
21106919 AAAATATGAT-GTTAATCTT-TATACTTTAAC
1 AAAATATGATAGTTAAT-TTCTATACTTTAAC
* *
21106949 AAAATTTGATATTTAATTTCTATACTTTAA
1 AAAATATGATAGTTAATTTCTATACTTTAA
21106979 AAGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (31 bp):
AAAATATGATAGTTAATTTCTATACTTTAAC
Found at i:21107588 original size:3 final size:3
Alignment explanation
Indices: 21107580--21107625 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
21107570 TGTATGTCTC
*
21107580 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
21107626 TTGTGTGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:21109100 original size:24 final size:25
Alignment explanation
Indices: 21109040--21109101 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
21109030 CACATCACAA
*
21109040 CTCTTATGAGCTTCCTGATATTCAG
1 CTCTTATGAGCTTCCCGATATTCAG
** *
21109065 CTCACATTAGCTTCCCGAT-TTCAG
1 CTCTTATGAGCTTCCCGATATTCAG
*
21109089 CTTTTATGAGCTT
1 CTCTTATGAGCTT
21109102 TTCGTTTACT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (25 bp):
CTCTTATGAGCTTCCCGATATTCAG
Found at i:21112268 original size:16 final size:16
Alignment explanation
Indices: 21112247--21112277 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21112237 TCTTAAATAA
*
21112247 ATTTATGAAATAAAGT
1 ATTTATGAAAAAAAGT
21112263 ATTTATGAAAAAAAG
1 ATTTATGAAAAAAAG
21112278 CTCACGCTAA
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:0.00, G:0.13, T:0.32
Consensus pattern (16 bp):
ATTTATGAAAAAAAGT
Found at i:21123329 original size:109 final size:109
Alignment explanation
Indices: 21123138--21123356 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
21123128 GTATGCATGC
21123138 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
1 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
21123203 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
66 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
21123247 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
1 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
21123312 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
66 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
21123356 T
1 T
21123357 TAAGCTATAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (109 bp):
TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
Found at i:21129184 original size:13 final size:14
Alignment explanation
Indices: 21129140--21129186 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
21129130 TTTAGCGTTT
21129140 TATATTTTAATTTAA
1 TATATTTT-ATTTAA
* *
21129155 TAAATTTTATTT-T
1 TATATTTTATTTAA
21129168 TATATTTT-TTTAA
1 TATATTTTATTTAA
21129181 TATATT
1 TATATT
21129187 ACTTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 4 0.15
15 7 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATTTTATTTAA
Found at i:21134697 original size:4 final size:4
Alignment explanation
Indices: 21134688--21134712 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21134678 AGGCTACAAG
21134688 GACA GACA GACA GACA GACA GACA G
1 GACA GACA GACA GACA GACA GACA G
21134713 TGGGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.28, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:21141780 original size:20 final size:20
Alignment explanation
Indices: 21141755--21141798 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
21141745 ATCAAAGGTG
21141755 ATCTGTCAATTATTAAGTTT
1 ATCTGTCAATTATTAAGTTT
*
21141775 ATCTGTCAATTTTTAAGTTT
1 ATCTGTCAATTATTAAGTTT
21141795 ATCT
1 ATCT
21141799 CATTTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (20 bp):
ATCTGTCAATTATTAAGTTT
Found at i:21155948 original size:72 final size:72
Alignment explanation
Indices: 21155789--21156087 Score: 224
Period size: 72 Copynumber: 4.1 Consensus size: 72
21155779 CTAAAACAAT
* * ** * * * * *
21155789 GGTTTTATTTAATACCAAATTTCAATAAATAAAAAACTAAACTAACCTTCT-AAAAACATATTAC
1 GGTTTTACTTAATATCAAAACTCAATAAAT--CAAACTAAAATAACCTTCTCAAAAACACATAAT
*
21155853 CGAATAAAC
64 TGAATAAAC
* * * ** * **
21155862 GATTTTATTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTC-AAAACGTATAACTT
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAA-TT
*
21155926 GAATAAAT
65 GAATAAAC
* * ** * *
21155934 GGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTCAAAAACACATAATTG
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
21155999 AATAAAC
66 AATAAAC
* * * ** * * * *
21156006 AGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACGTTTTAAAAAACACATAATTG
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
* **
21156071 AACAAGT
66 AATAAAC
21156078 GGTTTTACTT
1 GGTTTTACTT
21156088 TGTATAATAG
Statistics
Matches: 180, Mismatches: 43, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
71 23 0.13
72 122 0.68
73 35 0.19
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (72 bp):
GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
AATAAAC
Found at i:21159169 original size:43 final size:43
Alignment explanation
Indices: 21159103--21159185 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
21159093 TGGTCCATAC
21159103 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
1 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
* *
21159146 ATGATCGATTTAACTTTGGTTACTTGCTAATATGGTTTGA
1 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGA
21159186 TTTTAATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (43 bp):
ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
Found at i:21163258 original size:3 final size:3
Alignment explanation
Indices: 21163250--21163315 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
21163240 GAAAAAGGAA
* * *
21163250 AAG AAG AAG AAT AAT AAG -AG GAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
21163297 GAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG A
21163316 GAAAAATGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:21164401 original size:21 final size:21
Alignment explanation
Indices: 21164377--21164449 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
21164367 CTTATTGATA
21164377 AGTTGGGGCATTAGGTAACTG
1 AGTTGGGGCATTAGGTAACTG
* *
21164398 AGTTGGGGCAGCTT-GTTGA-TG
1 AGTTGGGGCA--TTAGGTAACTG
*
21164419 AGTTGGGGCACTAGGTAACTG
1 AGTTGGGGCATTAGGTAACTG
21164440 AGTTGGGGCA
1 AGTTGGGGCA
21164450 GCTTGTTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 34 0.79
22 3 0.07
23 2 0.05
ACGTcount: A:0.21, C:0.11, G:0.41, T:0.27
Consensus pattern (21 bp):
AGTTGGGGCATTAGGTAACTG
Found at i:21164423 original size:42 final size:42
Alignment explanation
Indices: 21164361--21164458 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
21164351 TTTTCTCTTA
* *
21164361 GGGCAGCTTATTGATAAGTTGGGGCATTAGGTAACTGAGTTG
1 GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
*
21164403 GGGCAGCTTGTTGATGAGTTGGGGCACTAGGTAACTGAGTTG
1 GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
21164445 GGGCAGCTTGTTGA
1 GGGCAGCTTGTTGA
21164459 GTTGGGGTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.11, G:0.39, T:0.30
Consensus pattern (42 bp):
GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
Found at i:21164484 original size:21 final size:21
Alignment explanation
Indices: 21164451--21164506 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
21164441 GTTGGGGCAG
*
21164451 CTTGTTGAGTTGGGGTA-CTCT
1 CTTGCTGAGTTGGGGTAGCT-T
*
21164472 CTTGCTGATTTGGGGTAGCTT
1 CTTGCTGAGTTGGGGTAGCTT
*
21164493 GTTGCTGAGTTGGG
1 CTTGCTGAGTTGGG
21164507 ACACCAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.09, C:0.12, G:0.38, T:0.41
Consensus pattern (21 bp):
CTTGCTGAGTTGGGGTAGCTT
Found at i:21164956 original size:21 final size:21
Alignment explanation
Indices: 21164932--21165000 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
21164922 TATTATGATT
21164932 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
21164953 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
21164973 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
*
21164993 ATTGTTAT
1 ATTATTAT
21165001 TATTAGCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 3 0.08
21 17 0.47
22 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:21165413 original size:12 final size:12
Alignment explanation
Indices: 21165396--21165426 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21165386 GAAGCAGGGG
21165396 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
21165408 AGAAAAAGGGAA
1 AGAAAAAGAGAA
21165420 AGAAAAA
1 AGAAAAA
21165427 TAAAAGAGAA
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:21169765 original size:15 final size:15
Alignment explanation
Indices: 21169733--21169782 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
21169723 CTATCCTATT
**
21169733 AGACACATCACTTTC
1 AGACACATCACTACC
**
21169748 AGATGCATCACTACC
1 AGACACATCACTACC
21169763 AGACACATCACTACC
1 AGACACATCACTACC
21169778 AGACA
1 AGACA
21169783 TGTCTTATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:21170107 original size:88 final size:89
Alignment explanation
Indices: 21169997--21170162 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 89
21169987 ACACAACCAT
* * *
21169997 TTTTGCAACATACAATATAGCAGTTTGGATA-AAACAA-TGACAAATATATACAACAAACATCAG
1 TTTTGCAACATACAATATAGCAGCTTGGATATAAAAAATTG-CAAATATACACAACAAACATCAG
21170060 TTTGATAATGACATTCAAATTTTGA
65 TTTGATAATGACATTCAAATTTTGA
* * * *
21170085 TTTTGCCATATACAATATAGCAGCTTGGATATAAAAAATTGCAGATATACACAATAAACATCAGT
1 TTTTGCAACATACAATATAGCAGCTTGGATATAAAAAATTGCAAATATACACAACAAACATCAGT
21170150 TTGATAATGACAT
66 TTGATAATGACAT
21170163 CCATACAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
88 28 0.41
89 39 0.57
90 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (89 bp):
TTTTGCAACATACAATATAGCAGCTTGGATATAAAAAATTGCAAATATACACAACAAACATCAGT
TTGATAATGACATTCAAATTTTGA
Found at i:21170192 original size:48 final size:48
Alignment explanation
Indices: 21170121--21170243 Score: 174
Period size: 48 Copynumber: 2.6 Consensus size: 48
21170111 GGATATAAAA
* * *
21170121 AATTGCAGATATACACAATAAACATCAGTTTGATAATGACATCCATAC
1 AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
* *
21170169 AATTGCAGATACAAAAAATAAACATTAGTTTGATAATGGCATCCATAC
1 AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
* * *
21170217 AATGGCAGATACAAATAATAAATATCA
1 AATTGCAGATACAAAAAATAAACATCA
21170244 TGCACAATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (48 bp):
AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
Found at i:21170285 original size:6 final size:6
Alignment explanation
Indices: 21170270--21170435 Score: 82
Period size: 6 Copynumber: 26.7 Consensus size: 6
21170260 TGTGTCATAC
* * * * * * **
21170270 AAATCG AAATCC AAATCG AAATCA AAATCA AAATCT AAAGCT AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* ** *
21170318 AGATCA AAATTG AAACCA AAATCA AAATCA AAATCA ATGAGTATTTCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA A--A--A--TCA
** * *
21170366 AAATTG AAATCA AAATCA AAAT-A GAAATCG AAATCA AAATCA GAATCA
1 AAATCA AAATCA AAATCA AAATCA -AAATCA AAATCA AAATCA AAATCA
* * * *
21170414 GAATCA GAATCA GAATCG AAAT
1 AAATCA AAATCA AAATCA AAAT
21170436 AACCTTAAAT
Statistics
Matches: 125, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
5 1 0.01
6 116 0.93
8 2 0.02
10 2 0.02
12 4 0.03
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:21171028 original size:30 final size:31
Alignment explanation
Indices: 21170959--21171029 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
21170949 AAACTGGTAA
* * *
21170959 TTAGTGACTATTTTGTCACTTTTTCATAACG
1 TTAGTGACTGTTTTGTAACTTTTTCATAAAG
*
21170990 TTAATGACTGTTTTGTAAC-TTTTCA-AAAG
1 TTAGTGACTGTTTTGTAACTTTTTCATAAAG
21171019 TTGAGTGACTG
1 TT-AGTGACTG
21171030 AAATGAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 13 0.38
31 16 0.47
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTAACTTTTTCATAAAG
Found at i:21193572 original size:32 final size:30
Alignment explanation
Indices: 21193519--21193583 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 30
21193509 ACTTATTTTA
*
21193519 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
21193549 TTGTTAATTTATTATTATTATTTTAGAGGCAT
1 TTGTTAA-TT-TTATTATTATTTTAAAGGCAT
21193581 TTG
1 TTG
21193584 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 2 0.06
32 22 0.71
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:21196864 original size:28 final size:28
Alignment explanation
Indices: 21196826--21196881 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21196816 TTAACCAAGA
21196826 AAATCACCTAGGCTTAACGGTTAAGTAG
1 AAATCACCTAGGCTTAACGGTTAAGTAG
*
21196854 AAATCACCTAGGCTTAATGGTTAAGTAG
1 AAATCACCTAGGCTTAACGGTTAAGTAG
21196882 TTAGTGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (28 bp):
AAATCACCTAGGCTTAACGGTTAAGTAG
Found at i:21197106 original size:13 final size:13
Alignment explanation
Indices: 21197088--21197113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21197078 TAGTAAGTAT
21197088 AAAATAAGTAAAA
1 AAAATAAGTAAAA
21197101 AAAATAAGTAAAA
1 AAAATAAGTAAAA
21197114 TATACTAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAATAAGTAAAA
Found at i:21199552 original size:34 final size:34
Alignment explanation
Indices: 21199509--21199586 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
21199499 TATTGATCCA
* *
21199509 TTATAAGCATATTATTTGCTA-TCGTATCGAATTG
1 TTATAAGCATATAAATTGCTACT-GTATCGAATTG
* * *
21199543 TTATGAGCATATAAATTGCTACTGTATTGATTTG
1 TTATAAGCATATAAATTGCTACTGTATCGAATTG
21199577 TTATAAGCAT
1 TTATAAGCAT
21199587 TCTATATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (34 bp):
TTATAAGCATATAAATTGCTACTGTATCGAATTG
Found at i:21201334 original size:2 final size:2
Alignment explanation
Indices: 21201327--21201351 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21201317 TTTGTACGGT
21201327 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
21201352 TGGGTGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21219590 original size:25 final size:23
Alignment explanation
Indices: 21219538--21219592 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
21219528 TATAAATAGT
21219538 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
21219561 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
21219586 AATAGTG
1 AATAGTG
21219593 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:21219740 original size:21 final size:22
Alignment explanation
Indices: 21219703--21219747 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
21219693 ATATTAAAAT
*
21219703 AAAATAATAAGTGATAATAGTA
1 AAAATAATAAGTGATAATAATA
*
21219725 AAAATAATAGGT-ATAATAATA
1 AAAATAATAAGTGATAATAATA
21219746 AA
1 AA
21219748 TATGATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (22 bp):
AAAATAATAAGTGATAATAATA
Found at i:21220012 original size:9 final size:9
Alignment explanation
Indices: 21219998--21220034 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21219988 ATAACATTAA
21219998 AATATATAT
1 AATATATAT
*
21220007 AATATATAA
1 AATATATAT
*
21220016 AATACATAT
1 AATATATAT
21220025 AATATATAT
1 AATATATAT
21220034 A
1 A
21220035 TTAGAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AATATATAT
Done.