Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 21 of 204
Found at i:7837338 original size:14 final size:14
Alignment explanation
Indices: 7837319--7837349 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7837309 ATATGATAAT
*
7837319 TTAAAAAATTTTAG
1 TTAAAAAATTATAG
7837333 TTAAAAAATTATAG
1 TTAAAAAATTATAG
7837347 TTA
1 TTA
7837350 CAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
TTAAAAAATTATAG
Found at i:7840263 original size:154 final size:155
Alignment explanation
Indices: 7839967--7840292 Score: 368
Period size: 154 Copynumber: 2.1 Consensus size: 155
7839957 TTGGTTTTAA
* * * ** * *
7839967 CATGATATTTATATTTTAGTTTTATTATGCATTCTTTGTTACCTCCGTCAATTATATATCAATAC
1 CATGACATTTATATTTTAATTTTATCATGCATAATTTATTACCTCCATCAATTATATATCAATAC
* * * ** * * *
7840032 TATTATTTAACCTTGGTTGAGTTGGTGTCAAGTCAACCGGACACCAACTCAACCAAAACTAATTA
66 TATTATTTAACCTTGATTGAGTTGGTGTCAAATCAAACAAAAACCAACTCAACCAAAACCAAATA
*
7840097 AAATTTTATATATGGGATTTGAACC
131 AAATTATATATATGGGATTTGAACC
* * * *
7840122 CATGACATTTA-ATTTTAATTTTATCATGCATAATTTATTATCTCTATCAATTGTATATCTATAC
1 CATGACATTTATATTTTAATTTTATCATGCATAATTTATTACCTCCATCAATTATATATCAATAC
*
7840186 TATTATTTAACCTTGATTGAGTTGGTGTCACGAATCAAACAAAAATCAACTCAACCAAAACCAAA
66 TATTATTTAACCTTGATTGAGTTGGTGTCA--AATCAAACAAAAACCAACTCAACCAAAACCAAA
* * **
7840251 TATAA-TATTATATATGGAATTTGAGTC
129 TAAAATTA-TATATATGGGATTTGAACC
* *
7840278 CGTGACATTTGTATT
1 CATGACATTTATATT
7840293 GATAAAACTT
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
154 72 0.51
155 11 0.08
156 54 0.39
157 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (155 bp):
CATGACATTTATATTTTAATTTTATCATGCATAATTTATTACCTCCATCAATTATATATCAATAC
TATTATTTAACCTTGATTGAGTTGGTGTCAAATCAAACAAAAACCAACTCAACCAAAACCAAATA
AAATTATATATATGGGATTTGAACC
Found at i:7840906 original size:2 final size:2
Alignment explanation
Indices: 7840899--7840928 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7840889 TATTTTTACA
7840899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7840929 GATGAGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7849574 original size:16 final size:17
Alignment explanation
Indices: 7849553--7849585 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7849543 AAAAAAGTCC
*
7849553 TCAATT-AGGGGCAAAT
1 TCAATTAAGGGGAAAAT
7849569 TCAATTAAGGGGAAAAT
1 TCAATTAAGGGGAAAAT
7849586 AATAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
TCAATTAAGGGGAAAAT
Found at i:7866883 original size:3 final size:3
Alignment explanation
Indices: 7866875--7866921 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7866865 AAACAAAACA
7866875 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7866922 CCTCTATCGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7867355 original size:17 final size:17
Alignment explanation
Indices: 7867316--7867359 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7867306 AATAAAAATA
* *
7867316 AAAAAAGAAACGAAAAG
1 AAAAATGAAAAGAAAAG
7867333 AAAAATGAAAAGAAAAG
1 AAAAATGAAAAGAAAAG
7867350 AAAAAT-AAAA
1 AAAAATGAAAA
7867360 AAAGGAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAATGAAAAGAAAAG
Found at i:7887042 original size:53 final size:53
Alignment explanation
Indices: 7886962--7887067 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7886952 GCAAGTAATT
7886962 ATCATAACCGCTCTATACTCACTATCTAAAAGAAAAAAATTCACCCTATCTCG
1 ATCATAACCGCTCTATACTCACTATCTAAAAGAAAAAAATTCACCCTATCTCG
7887015 ATCATAACCGCTCTATACTCACTATCTAAAAGAAAAAAATTCACCCTATCTCG
1 ATCATAACCGCTCTATACTCACTATCTAAAAGAAAAAAATTCACCCTATCTCG
7887068 CTCTACATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (53 bp):
ATCATAACCGCTCTATACTCACTATCTAAAAGAAAAAAATTCACCCTATCTCG
Found at i:7888026 original size:5 final size:5
Alignment explanation
Indices: 7888018--7888045 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7888008 TTCTTTTAAT
7888018 AATGA AATGA AATGA AATGA AATGA AAT
1 AATGA AATGA AATGA AATGA AATGA AAT
7888046 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (5 bp):
AATGA
Found at i:7897548 original size:22 final size:22
Alignment explanation
Indices: 7897523--7897585 Score: 87
Period size: 20 Copynumber: 3.0 Consensus size: 22
7897513 TAGGGGTTTG
*
7897523 AGTTTTTTTCTATATTTTTTTA
1 AGTTTTTTTATATATTTTTTTA
*
7897545 AGTTTTTTTATATA-TTATTT-
1 AGTTTTTTTATATATTTTTTTA
7897565 AGTTTTTTTATA-ATTTTTTTA
1 AGTTTTTTTATATATTTTTTTA
7897586 GATGTAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
21 5 0.14
22 13 0.36
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (22 bp):
AGTTTTTTTATATATTTTTTTA
Found at i:7899289 original size:25 final size:26
Alignment explanation
Indices: 7899235--7899289 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
7899225 ATAATTCATG
* *
7899235 TATCTCATTTTCATGTTTCAATTCAC
1 TATCCCATTTTCATGTTTCAATTCAA
7899261 TATCCCATTTTCA-G-TTCACATTCAA
1 TATCCCATTTTCATGTTTCA-ATTCAA
7899286 TATC
1 TATC
7899290 ATCCAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 10 0.38
26 12 0.46
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (26 bp):
TATCCCATTTTCATGTTTCAATTCAA
Found at i:7904235 original size:9 final size:9
Alignment explanation
Indices: 7904221--7904315 Score: 120
Period size: 9 Copynumber: 10.4 Consensus size: 9
7904211 TTTGGTTAAA
7904221 AATTACCCG
1 AATTACCCG
7904230 AATTACCCG
1 AATTACCCG
*
7904239 AATTATCCG
1 AATTACCCG
7904248 AATTACCCG
1 AATTACCCG
7904257 AATTACCCG
1 AATTACCCG
* *
7904266 AATTAACCT
1 AATTACCCG
*
7904275 AATTAACCG
1 AATTACCCG
7904284 AATTA-CCG
1 AATTACCCG
*
7904292 AAAAATACCCG
1 --AATTACCCG
7904303 AATTACCCG
1 AATTACCCG
7904312 AATT
1 AATT
7904316 TTTTTTATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
8 3 0.04
9 66 0.87
10 4 0.05
11 3 0.04
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:7906270 original size:16 final size:16
Alignment explanation
Indices: 7906249--7906296 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
7906239 TCCATGTCAG
7906249 GATTTGTGTTTTAATT
1 GATTTGTGTTTTAATT
* *
7906265 GATTTGGAGTTTGAATT
1 GATTT-GTGTTTTAATT
*
7906282 AATTTGTGTTTTAAT
1 GATTTGTGTTTTAAT
7906297 GTTATAGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (16 bp):
GATTTGTGTTTTAATT
Found at i:7910413 original size:43 final size:43
Alignment explanation
Indices: 7910352--7910436 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
7910342 TTCAAATCTG
* * * *
7910352 CATATATAAACCAACATTAATTTAATTGTTCAGATGGAATAGA
1 CATATAGAAACCAACATTAACTTAATTGCTCAAATGGAATAGA
7910395 CATATAGAAACCAACATTAACTTAATTGCTCAAATGGAATAG
1 CATATAGAAACCAACATTAACTTAATTGCTCAAATGGAATAG
7910437 GAGGAGGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (43 bp):
CATATAGAAACCAACATTAACTTAATTGCTCAAATGGAATAGA
Found at i:7912303 original size:49 final size:49
Alignment explanation
Indices: 7912205--7912304 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 49
7912195 ACCTCCTGGG
7912205 TTTTGCCTATAAAACGCTGTCGTTAATTAGTAGGGGAACTTTGCAGGGT
1 TTTTGCCTATAAAACGCTGTCGTTAATTAGTAGGGGAACTTTGCAGGGT
*
7912254 TTTTGCCTATAAAAACGCTGTCGTTAATTCGTAGGGGAACTTTGC-GGGT
1 TTTTGCCTAT-AAAACGCTGTCGTTAATTAGTAGGGGAACTTTGCAGGGT
7912303 TT
1 TT
7912305 GGGCCTAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 16 0.33
50 33 0.67
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (49 bp):
TTTTGCCTATAAAACGCTGTCGTTAATTAGTAGGGGAACTTTGCAGGGT
Found at i:7915409 original size:22 final size:22
Alignment explanation
Indices: 7915384--7915427 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7915374 TCTCCAAACT
7915384 TTAAAACATTCTAA-TTATATCA
1 TTAAAACATTC-AAGTTATATCA
**
7915406 TTAAATTATTCAAGTTATATCA
1 TTAAAACATTCAAGTTATATCA
7915428 ATTTGGTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAAACATTCAAGTTATATCA
Found at i:7919887 original size:16 final size:16
Alignment explanation
Indices: 7919866--7919915 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
7919856 TTTTATTTTT
7919866 ATATAAAAAATTAAAA
1 ATATAAAAAATTAAAA
* *
7919882 ATATAATAAATCAAAA
1 ATATAAAAAATTAAAA
*
7919898 ACACTAAAAATATTAAAA
1 ATA-TAAAAA-ATTAAAA
7919916 TAAATGTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 16 0.59
17 5 0.19
18 6 0.22
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATAAAAAATTAAAA
Found at i:7920719 original size:9 final size:9
Alignment explanation
Indices: 7920705--7920757 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
7920695 NTTTTTGAAG
7920705 TATATTATA
1 TATATTATA
7920714 TATATTATA
1 TATATTATA
* *
7920723 TATGTAAATA
1 TATAT-TATA
7920733 TATTAATTATA
1 TA-T-ATTATA
7920744 TATATTAT-
1 TATATTATA
7920752 TATATT
1 TATATT
7920758 TCAAATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.16
9 18 0.49
10 6 0.16
11 6 0.16
12 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATTATA
Found at i:7920748 original size:13 final size:12
Alignment explanation
Indices: 7920705--7920756 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
7920695 NTTTTTGAAG
7920705 TATATTA-TATA
1 TATATTATTATA
*
7920716 TATTATATATGTAAA
1 TA-TAT-TAT-TATA
7920731 TATATTAATTATA
1 TATATT-ATTATA
7920744 TATATTATTATA
1 TATATTATTATA
7920756 T
1 T
7920757 TTCAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 2 0.06
12 10 0.29
13 12 0.35
14 5 0.15
15 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATTATTATA
Found at i:7920755 original size:21 final size:22
Alignment explanation
Indices: 7920707--7920757 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7920697 TTTTGAAGTA
*
7920707 TATTATA-TATATTATATATGT
1 TATTATATTATATTATATATAT
* *
7920728 AAATATATTA-ATTATATATAT
1 TATTATATTATATTATATATAT
7920749 TATTATATT
1 TATTATATT
7920758 TCAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATTATATTATATATAT
Found at i:7921664 original size:2 final size:2
Alignment explanation
Indices: 7921657--7921688 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7921647 ATCGAATGAA
*
7921657 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7921689 TGATATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7922222 original size:37 final size:36
Alignment explanation
Indices: 7922121--7922255 Score: 92
Period size: 39 Copynumber: 3.5 Consensus size: 36
7922111 CGACCTTGAG
7922121 TCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCA-AC--TTACTTCGGAT--AT
** ** *
7922162 TCGATGAGGTACTGGGTACCAACTTACTTCGGCT-T
1 TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
* *
7922197 TGCCGATGAGACACTGGGTGTCAACTATTGCTTCGAACTAT
1 T--CGATGAGACACTGGGTGTCAAC--TTACTTCGGA-TAT
* *
7922238 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
7922256 CCGTACTGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
35 2 0.03
37 18 0.24
38 10 0.14
39 23 0.31
40 3 0.04
41 18 0.24
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
Found at i:7922711 original size:17 final size:18
Alignment explanation
Indices: 7922680--7922713 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7922670 ATAAATAGAA
7922680 ATGATAATGAATGAGTTG
1 ATGATAATGAATGAGTTG
*
7922698 ATGA-AATGATTGAGTT
1 ATGATAATGAATGAGTT
7922714 TGTATGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (18 bp):
ATGATAATGAATGAGTTG
Found at i:7923993 original size:19 final size:20
Alignment explanation
Indices: 7923956--7923995 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7923946 TGTTACAATA
7923956 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
7923976 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
7923996 GGTGTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:7924003 original size:20 final size:20
Alignment explanation
Indices: 7923960--7924003 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7923950 ACAATATATT
* *
7923960 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTGATG
*
7923980 TTTAAAATAATTTTTTGGTG
1 TTTAAAATAATTTTTTGATG
7924000 TTTA
1 TTTA
7924004 TTAAAAAAAG
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:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTAAAATAATTTTTTGATG
Found at i:7931216 original size:3 final size:3
Alignment explanation
Indices: 7931208--7931232 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7931198 AAAAAAGGGG
7931208 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
7931233 AGAATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7951403 original size:129 final size:129
Alignment explanation
Indices: 7951173--7951430 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
7951163 CGAATGCTGA
7951173 CTTTTATTTTATAGCAGAAGTGTGTGTGCTTGAGGCCAATTTTAGGAAATACAATTGCTCTATCT
1 CTTTTATTTTATAGCAGAAGTGTGTGTGCTTGAGGCCAATTTTAGGAAATACAATTGCTCTATCT
7951238 TGTAGTCAAGCTGCCTAATATATTAGGTTAGCTCATTCAAGGTTATATGCGTATTCACTTTAAT
66 TGTAGTCAAGCTGCCTAATATATTAGGTTAGCTCATTCAAGGTTATATGCGTATTCACTTTAAT
7951302 CTTTTATTTTATAGCAGAAGTGTGTGTGCTTGAGGCCAATTTTAGGAAATACAATTGCTCTATCT
1 CTTTTATTTTATAGCAGAAGTGTGTGTGCTTGAGGCCAATTTTAGGAAATACAATTGCTCTATCT
7951367 TGTAGTCAAGCTGCCTAATATATTAGGTTAGCTCATTCAAGGTTATATGCGTATTCACTTTAAT
66 TGTAGTCAAGCTGCCTAATATATTAGGTTAGCTCATTCAAGGTTATATGCGTATTCACTTTAAT
7951431 TAGCTTACTG
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (129 bp):
CTTTTATTTTATAGCAGAAGTGTGTGTGCTTGAGGCCAATTTTAGGAAATACAATTGCTCTATCT
TGTAGTCAAGCTGCCTAATATATTAGGTTAGCTCATTCAAGGTTATATGCGTATTCACTTTAAT
Found at i:7965849 original size:14 final size:17
Alignment explanation
Indices: 7965816--7965852 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
7965806 ACATAATACA
7965816 TAATTAATATTAGAATT
1 TAATTAATATTAGAATT
7965833 TAATTAA-A-TAG-ATT
1 TAATTAATATTAGAATT
7965847 TAATTA
1 TAATTA
7965853 TTGTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 1 0.05
17 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TAATTAATATTAGAATT
Found at i:7966281 original size:24 final size:26
Alignment explanation
Indices: 7966238--7966291 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
7966228 TGAGTTAGTG
7966238 ATTTAATATAAATATATAAT-T-ATT
1 ATTTAATATAAATATATAATATAATT
*
7966262 ATTTAATATATATA-ATTAATATAATT
1 ATTTAATATAAATATA-TAATATAATT
7966288 ATTT
1 ATTT
7966292 CTTATAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 17 0.65
25 1 0.04
26 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTAATATAAATATATAATATAATT
Found at i:7993557 original size:31 final size:30
Alignment explanation
Indices: 7993522--7993585 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
7993512 TGTTTATGAT
*
7993522 TTTTAAAGAAATTTCATAAGTATTTATAAAA
1 TTTTAAAGAAATTTCATAAAT-TTTATAAAA
* ** *
7993553 TTTTAAATATGTTTTATAAATTTTATAAAA
1 TTTTAAAGAAATTTCATAAATTTTATAAAA
7993583 TTT
1 TTT
7993586 ATTAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
TTTTAAAGAAATTTCATAAATTTTATAAAA
Found at i:7993625 original size:29 final size:29
Alignment explanation
Indices: 7993593--7993654 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
7993583 TTTATTAGAA
7993593 TTTATTAGAATCAT-TATAATTTT-ATAATT
1 TTTATTAG-ATCATAT-TAATTTTCATAATT
* *
7993622 TTTATTAGTTTATATTAATTTTCATAATT
1 TTTATTAGATCATATTAATTTTCATAATT
7993651 TTTA
1 TTTA
7993655 ATATTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTATTAGATCATATTAATTTTCATAATT
Found at i:7993669 original size:29 final size:27
Alignment explanation
Indices: 7993607--7993672 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
7993597 TTAGAATCAT
*
7993607 TATAATTTTATAATTTTTATTAGTTTA
1 TATAATTTTATAATTTTTAATAGTTTA
* *
7993634 TATTAATTTTCATAATTTTTAATATTTTT
1 TA-TAATTTT-ATAATTTTTAATAGTTTA
7993663 TGATAATTTT
1 T-ATAATTTT
7993673 TTCTTATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 7 0.21
29 23 0.70
30 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TATAATTTTATAATTTTTAATAGTTTA
Found at i:7993673 original size:21 final size:22
Alignment explanation
Indices: 7993640--7993696 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
7993630 TTTATATTAA
*
7993640 TTTTCATAA-TTTTTAATAT-T
1 TTTTGATAATTTTTTAATATCT
**
7993660 TTTTGATAATTTTTTCTTATCT
1 TTTTGATAATTTTTTAATATCT
*
7993682 TTTTG-TGATTTTTTA
1 TTTTGATAATTTTTTA
7993697 TTTGAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.27
21 16 0.53
22 6 0.20
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTGATAATTTTTTAATATCT
Found at i:7994844 original size:86 final size:88
Alignment explanation
Indices: 7994673--7994844 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 88
7994663 TTATACTTTG
* *
7994673 GCTCCCTTTAAAAATATAAAAATTTGATTTAATTCTTTAAAAATTATAAAAATATAATCCATTAA
1 GCTCCCTTTAAAAATATAAAAAATTGATTTAATCCTTTAAAAATTATAAAAATATAATCCATTAA
*
7994738 AATAGTGAAATTGCATTTTTTTA
66 AATAGTGAAATTACATTTTTTTA
7994761 GCTCCC-TTAAAAATATAAAAAATTGATTTAATCCTTT-AAAATTATAAAAATATAATCCATT-A
1 GCTCCCTTTAAAAATATAAAAAATTGATTTAATCCTTTAAAAATTATAAAAATATAATCCATTAA
*
7994823 AATGGTGAAATTACATTTTTTT
66 AATAGTGAAATTACATTTTTTT
7994845 GTACAAATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
85 21 0.26
86 24 0.30
87 29 0.36
88 6 0.08
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (88 bp):
GCTCCCTTTAAAAATATAAAAAATTGATTTAATCCTTTAAAAATTATAAAAATATAATCCATTAA
AATAGTGAAATTACATTTTTTTA
Found at i:7996878 original size:21 final size:22
Alignment explanation
Indices: 7996854--7996903 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7996844 TTATGTGTCC
*
7996854 ATATTATATATT-ATAAAAATA
1 ATATTATATATTCATAAAAAAA
7996875 ATA-TACT-TATTCATAAAAAAA
1 ATATTA-TATATTCATAAAAAAA
7996896 ATATTATA
1 ATATTATA
7996904 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 6 0.25
21 16 0.67
22 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTATATATTCATAAAAAAA
Found at i:7998079 original size:24 final size:24
Alignment explanation
Indices: 7998052--7998110 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
7998042 ATGCTCATGC
7998052 GAGCATATAATAGGTAGCTCCGAA
1 GAGCATATAATAGGTAGCTCCGAA
**
7998076 GAGCACT-TAACGGGTAGCTCCGAA
1 GAGCA-TATAATAGGTAGCTCCGAA
* *
7998100 TAGCACATAAT
1 GAGCATATAAT
7998111 CAAGAAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
GAGCATATAATAGGTAGCTCCGAA
Found at i:8001023 original size:22 final size:22
Alignment explanation
Indices: 8000998--8001041 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8000988 TTAGTCATAT
8000998 AATAAATTATTAGTATAATAAA
1 AATAAATTATTAGTATAATAAA
* *
8001020 AATAAATTATTATTTTAATAAA
1 AATAAATTATTAGTATAATAAA
8001042 TTATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAAATTATTAGTATAATAAA
Found at i:8006799 original size:3 final size:3
Alignment explanation
Indices: 8006791--8006828 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8006781 TGGGAAGAGT
8006791 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8006829 GTGACAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8007236 original size:8 final size:8
Alignment explanation
Indices: 8007212--8007253 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
8007202 TTATTATGTT
8007212 TTATTACTA
1 TTATTA-TA
8007221 TATATTATA
1 T-TATTATA
8007230 TTATTATA
1 TTATTATA
8007238 TTATTATA
1 TTATTATA
8007246 TTA-TATA
1 TTATTATA
8007253 T
1 T
8007254 AAAGTAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.16
8 18 0.56
9 4 0.12
10 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:8007793 original size:86 final size:86
Alignment explanation
Indices: 8007703--8007886 Score: 233
Period size: 86 Copynumber: 2.1 Consensus size: 86
8007693 CATTCCCTAC
* * * * * * * **
8007703 AAACGCCGCTAAAGGTCATGTACTTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGATCATGTT
1 AAACGCCACTAAAGATCATGTACTTTAGCGGCGCTTTCTCCACAAACGCCACTAAAGACCATGAC
* **
8007768 CTTTAGCGGCGCTTCTTTTGG
66 CGTTAGCGGCGCTTCTTTTAA
* *
8007789 AAACGCCACTAAAGATCATGTTCTTTGGCGGCGCTTTCTCCACAAACGCCACTAAAGACCATGAC
1 AAACGCCACTAAAGATCATGTACTTTAGCGGCGCTTTCTCCACAAACGCCACTAAAGACCATGAC
*
8007854 CGTTAGCGGCGCTTTTTTTAA
66 CGTTAGCGGCGCTTCTTTTAA
8007875 AAACGCCACTAA
1 AAACGCCACTAA
8007887 TTTTGGCAGA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (86 bp):
AAACGCCACTAAAGATCATGTACTTTAGCGGCGCTTTCTCCACAAACGCCACTAAAGACCATGAC
CGTTAGCGGCGCTTCTTTTAA
Found at i:8007868 original size:43 final size:43
Alignment explanation
Indices: 8007681--8007886 Score: 184
Period size: 43 Copynumber: 4.8 Consensus size: 43
8007671 AAGGTCAGGG
* * * *
8007681 TCTTTAGCGGCGCATTC-CCTACAAACGCCGCTAAAGGTCATG-
1 TCTTTAGCGGCGCTTTCTTC-ACAAACGCCACTAAAGATCATGA
* * * *
8007723 TACTTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGATCATGT
1 T-CTTTAGCGGCGCTTTCTTCACAAACGCCACTAAAGATCATGA
*** *
8007767 TCTTTAGCGGCGC-TTCTTTTGGAAACGCCACTAAAGATCATGT
1 TCTTTAGCGGCGCTTTC-TTCACAAACGCCACTAAAGATCATGA
* * *
8007810 TCTTTGGCGGCGCTTTCTCCACAAACGCCACTAAAGACCATGA
1 TCTTTAGCGGCGCTTTCTTCACAAACGCCACTAAAGATCATGA
* * * * *
8007853 CCGTTAGCGGCGCTTTTTTTAAAAACGCCACTAA
1 TCTTTAGCGGCGCTTTCTTCACAAACGCCACTAA
8007887 TTTTGGCAGA
Statistics
Matches: 136, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.02
43 128 0.94
44 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTCTTCACAAACGCCACTAAAGATCATGA
Found at i:8008233 original size:21 final size:21
Alignment explanation
Indices: 8008207--8008256 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
8008197 TTTTACGCTG
8008207 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
8008228 CTCTGCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
8008249 ATCTGCTT
1 CTCTGCTT
8008257 TAAGCTGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:8009984 original size:9 final size:9
Alignment explanation
Indices: 8009970--8010139 Score: 74
Period size: 9 Copynumber: 19.7 Consensus size: 9
8009960 ATAATGTAAT
8009970 TAAGTTATG
1 TAAGTTATG
*
8009979 TAAGTTGTG
1 TAAGTTATG
8009988 T-A-TTAT-
1 TAAGTTATG
*
8009994 TAAAGTTAAG
1 T-AAGTTATG
8010004 T-A-TTATG
1 TAAGTTATG
* *
8010011 TAATTTATT
1 TAAGTTATG
8010020 TAAGTTATG
1 TAAGTTATG
**
8010029 TAAGTGGTG
1 TAAGTTATG
8010038 T-A-TTATG
1 TAAGTTATG
*
8010045 TAAGTTAAG
1 TAAGTTATG
8010054 TAAGTTATG
1 TAAGTTATG
* *
8010063 TAGGCTATG
1 TAAGTTATG
8010072 T-A-TTATG
1 TAAGTTATG
* *
8010079 CAAGTTATT
1 TAAGTTATG
* *
8010088 TATGTCAGTGG
1 TAAGTTA-T-G
* *
8010099 TGTA-TTATC
1 T-AAGTTATG
*
8010108 TAAGTT-TT
1 TAAGTTATG
*
8010116 TAAGTTATA
1 TAAGTTATG
8010125 TAAGTTATG
1 TAAGTTATG
8010134 TAAGTT
1 TAAGTT
8010140 TCTATATAAG
Statistics
Matches: 115, Mismatches: 31, Indels: 30
0.65 0.18 0.17
Matches are distributed among these distances:
6 1 0.01
7 16 0.14
8 15 0.13
9 77 0.67
10 3 0.03
11 3 0.03
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:8009999 original size:25 final size:24
Alignment explanation
Indices: 8009968--8010064 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
8009958 GTATAATGTA
* *
8009968 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
8009992 ATTAAAGTTAAGT-A-TTATGTAATTT
1 ATT-AAGTTAAGTAAGTTATGT-A-TT
* **
8010017 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
8010042 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
8010065 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.09
24 6 0.10
25 39 0.67
26 4 0.07
27 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:8010044 original size:34 final size:34
Alignment explanation
Indices: 8010003--8010129 Score: 115
Period size: 34 Copynumber: 3.9 Consensus size: 34
8009993 TTAAAGTTAA
*
8010003 GTATTATGTAATTTATTTAAGTTATGTAAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGTGGT
** * *
8010037 GTATTATGTAAGTTAAGTAAGTTATGTAGGCT-AT
1 GTATTATGTAAGTTATTTAAGTTATGTAAG-TGGT
* *
8010071 GTATTATGCAAGTTA--T---TTATGTCAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGTGGT
* *
8010100 GTATTATCTAAGTT-TTTAAGTTATATAAGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT
8010130 TATGTAAGTT
Statistics
Matches: 73, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
28 1 0.01
29 20 0.27
30 1 0.01
32 1 0.01
33 8 0.11
34 41 0.56
35 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (34 bp):
GTATTATGTAAGTTATTTAAGTTATGTAAGTGGT
Found at i:8010078 original size:50 final size:50
Alignment explanation
Indices: 8009970--8010073 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 50
8009960 ATAATGTAAT
* ** *
8009970 TAAGTTATGTAAGTTGTGTATTATTAAAGTTAAGTATTATGTAATTTATT
1 TAAGTTATGTAAGTGGTGTATTATTAAAGTTAAGTATTATGTAAGCTATG
*
8010020 TAAGTTATGTAAGTGGTGTATTATGT-AAGTTAAGTAAGTTATGTAGGCTATG
1 TAAGTTATGTAAGTGGTGTATTAT-TAAAGTTAAGT-A-TTATGTAAGCTATG
8010072 TA
1 TA
8010074 TTATGCAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 32 0.70
51 2 0.04
52 12 0.26
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (50 bp):
TAAGTTATGTAAGTGGTGTATTATTAAAGTTAAGTATTATGTAAGCTATG
Found at i:8010123 original size:17 final size:18
Alignment explanation
Indices: 8010103--8010143 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
8010093 CAGTGGTGTA
*
8010103 TTATCTAAGTT-TTTAAG
1 TTATCTAAGTTATGTAAG
*
8010120 TTATATAAGTTATGTAAG
1 TTATCTAAGTTATGTAAG
8010138 TT-TCTA
1 TTATCTA
8010144 TATAAGTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (18 bp):
TTATCTAAGTTATGTAAG
Found at i:8010151 original size:12 final size:12
Alignment explanation
Indices: 8010134--8010163 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8010124 ATAAGTTATG
8010134 TAAGTTTCTATA
1 TAAGTTTCTATA
*
8010146 TAAGTTTCTATG
1 TAAGTTTCTATA
8010158 TAAGTT
1 TAAGTT
8010164 ATGTAGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (12 bp):
TAAGTTTCTATA
Found at i:8012605 original size:105 final size:107
Alignment explanation
Indices: 8012484--8012707 Score: 344
Period size: 105 Copynumber: 2.1 Consensus size: 107
8012474 GCAAAATATT
* *
8012484 ATTTCATTTTGAACAAAATGACACCGTTTTGCTATGGACAAAATTTTTAATTTTGATCTTT-TAA
1 ATTTCATTTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTAATTTTGATATTTATAA
8012548 ATTGATTTA-TTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
66 ATTGATTTACTTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
* * * *
8012589 ATTTCAATTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAA
1 ATTTCATTTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTAATTTTGATATTTATAA
* ** *
8012654 ATTGATTTACTTTTTTGCGGCGTTTTTATTAAAAACGCCGCT
66 ATTGATTTACTTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
8012696 ATTTCATTTTGA
1 ATTTCATTTTGA
8012708 TCGAAAACGG
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 55 0.52
106 12 0.11
107 39 0.37
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (107 bp):
ATTTCATTTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTAATTTTGATATTTATAA
ATTGATTTACTTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
Found at i:8012662 original size:358 final size:356
Alignment explanation
Indices: 8012105--8012873 Score: 1184
Period size: 358 Copynumber: 2.2 Consensus size: 356
8012095 GCGTTTTTGT
*
8012105 CAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGTCGTTTTGCTATGCACAAAATT
1 CAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATT
* * * * *
8012170 TTTTATTTTGTTTTTTTAAAATTGATTTATTTTTTACGGCGTTTTTAGGGAAAACGCCGCAACAT
66 TTTAATTTTGATCTTTTAAAATTGATTTATTTTTTACGGCGTTTGTAGGAAAAACGCCGCAACAT
* * *
8012235 CAATTTGAACAAAATGCCATCGTTTTGCTATGCACAAAATTTTTTATTTTGTTTTTTATAAATTG
131 CAATTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAAATTG
*
8012300 ATTTAC-TTTTTGCGACGTTTTTTGTTAAAAACGCCGCTATTTCATTTTGATCAAAAACAGCGCC
196 ATTTACTTTTTTGCGACG-TTTTTATTAAAAACGCCGCTATTTCATTTTGATCAAAAACAGCGCC
* * * **
8012364 GTTTTTCTATGTAAATTTTTTTTTATAATTTATTTATTCCTTTTGCGGCGTTTTTTTATATAAAA
260 ATTTTGCTACGTAAATAATTTTTTATAATTTATTTATTCCTTTTGCGGCG--TTTTTATATAAAA
8012429 GCGCCGCTATTGCCTATCTTTTACGGCATTTTTGC-
323 -CGCCGCTATTGCCTATCTTTTACGGCATTTTT-CA
* * * *
8012464 GATAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACACCGTTTTGCTATGGACAAAATT
1 CAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATT
* **
8012529 TTTAATTTTGATCTTTT-AAATTGATTTATTTTTTGCGGCGTTTGTAGGAAAAACGCCGCAATTT
66 TTTAATTTTGATCTTTTAAAATTGATTTATTTTTTACGGCGTTTGTAGGAAAAACGCCGCAACAT
*
8012593 CAATTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAAATTG
131 CAATTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAAATTG
* * *
8012658 ATTTACTTTTTTGCGGCGTTTTTATTAAAAACGCCGCTATTTCATTTTGATCGAAAACGGCGCCA
196 ATTTACTTTTTTGCGACGTTTTTATTAAAAACGCCGCTATTTCATTTTGATCAAAAACAGCGCCA
* *
8012723 TTTTGCTACGTAAATAATTTTTTATAATTTATTTATTTCTTTTGCGGCGTTTTTATATCAAACGC
261 TTTTGCTACGTAAATAATTTTTTATAATTTATTTATTCCTTTTGCGGCGTTTTTATATAAAACGC
* *
8012788 CGCTATTGCCTATCTTTTGCGGCGTTTTTCA
326 CGCTATTGCCTATCTTTTACGGCATTTTTCA
* *
8012819 CAAAAACGCCGCACAATATTATTTCATTTTGAACAAAATGACGCTGTTTTGCTAT
1 CAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
8012874 TTTGTTTTCT
Statistics
Matches: 373, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
354 1 0.00
355 80 0.21
356 12 0.03
358 196 0.53
359 84 0.23
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (356 bp):
CAAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATT
TTTAATTTTGATCTTTTAAAATTGATTTATTTTTTACGGCGTTTGTAGGAAAAACGCCGCAACAT
CAATTTGAACAAAATGACACCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAAATTG
ATTTACTTTTTTGCGACGTTTTTATTAAAAACGCCGCTATTTCATTTTGATCAAAAACAGCGCCA
TTTTGCTACGTAAATAATTTTTTATAATTTATTTATTCCTTTTGCGGCGTTTTTATATAAAACGC
CGCTATTGCCTATCTTTTACGGCATTTTTCA
Found at i:8012744 original size:107 final size:105
Alignment explanation
Indices: 8012484--8012732 Score: 300
Period size: 105 Copynumber: 2.3 Consensus size: 105
8012474 GCAAAATATT
* * * * * * *
8012484 ATTTCATTTTGAACAAAATGACACCGTTTTGCTATGGACAAAATTTTTAATTTTGATCTTTTAAA
1 ATTTCAATTTGAACAAAACGACGCCATTTTGCTACGCACAAAATTTTTAATTTTGATATTTTAAA
8012549 TTGATTTATTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
66 TTGATTTATTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
* * * * *
8012589 ATTTCAATTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTTGTTATTTATAA
1 ATTTCAATTTGAACAAAACGACGCCATTTTGCTACGCACAAAATTTTTAATTTTGATATTT-TAA
* ** *
8012654 ATTGATTTACTTTTTTGCGGCGTTTTTATTAAAAACGCCGCT
65 ATTGATTTA-TTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
* * *
8012696 ATTTCATTTTGATCGAAAACGGCGCCATTTTGCTACG
1 ATTTCAATTTGAAC-AAAACGACGCCATTTTGCTACG
8012733 TAAATAATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
105 55 0.44
106 12 0.10
107 40 0.32
108 18 0.14
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (105 bp):
ATTTCAATTTGAACAAAACGACGCCATTTTGCTACGCACAAAATTTTTAATTTTGATATTTTAAA
TTGATTTATTTTTTGCGGCGTTTGTAGGAAAAACGCCGCA
Found at i:8012912 original size:136 final size:138
Alignment explanation
Indices: 8012740--8012995 Score: 358
Period size: 136 Copynumber: 1.9 Consensus size: 138
8012730 ACGTAAATAA
* * *
8012740 TTTTTTATAATTTATTTATTTCTTTTGCGGCGTTTTTATATCAAACGCCGCTA-TTGCCTATCTT
1 TTTTCTATAATTGATTTATTTCTTTTGCGGCGTTTTTATAGCAAACGCCGCTATTTG-CTATCTT
* * *
8012804 TTGCGGCGTTTTTCACAAAAACGCCGCACAATATTATTTCATTTTGAACAAAATGACGCTGTTTT
65 TTGCGGCGTTTTGCACAAAAACGCCACAAAATATTATTTCATTTTGAACAAAATGACGCTGTTTT
8012869 GCTATTTTG
130 GCTATTTTG
* * *
8012878 TTTTCTATAAATTGATTTA-TT-TTTTGCGGC-TTTTTATAGGAAATGCCGCTATTTGTTATCTT
1 TTTTCTAT-AATTGATTTATTTCTTTTGCGGCGTTTTTATAGCAAACGCCGCTATTTGCTATCTT
** *
8012940 TTGCGGCGTTTTGCGTATAAACGCCACAAAATATTATTTCATTTTGAACAAAATGA
65 TTGCGGCGTTTTGCACAAAAACGCCACAAAATATTATTTCATTTTGAACAAAATGA
8012996 TGTCGTTTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
136 74 0.71
137 12 0.12
138 9 0.09
139 9 0.09
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (138 bp):
TTTTCTATAATTGATTTATTTCTTTTGCGGCGTTTTTATAGCAAACGCCGCTATTTGCTATCTTT
TGCGGCGTTTTGCACAAAAACGCCACAAAATATTATTTCATTTTGAACAAAATGACGCTGTTTTG
CTATTTTG
Found at i:8013338 original size:7 final size:7
Alignment explanation
Indices: 8013293--8013358 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
8013283 CCTTAACTCG
8013293 ACCCCTGA
1 ACCCCT-A
8013301 ACCCCTA
1 ACCCCTA
* *
8013308 AACCTTAA
1 ACCCCT-A
*
8013316 ATCCCTA
1 ACCCCTA
* *
8013323 ACTCTTA
1 ACCCCTA
8013330 ACCCCTA
1 ACCCCTA
**
8013337 ACATCTA
1 ACCCCTA
8013344 ACCCCTA
1 ACCCCTA
8013351 ACCCCTA
1 ACCCCTA
8013358 A
1 A
8013359 ACCTTAAATC
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
7 33 0.75
8 11 0.25
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (7 bp):
ACCCCTA
Found at i:8013419 original size:15 final size:15
Alignment explanation
Indices: 8013377--8013425 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
8013367 TCCCAAGCCT
*
8013377 TAAA-CCATAGTCCC
1 TAAACCCATAATCCC
*
8013391 T-AATCCATAATCCC
1 TAAACCCATAATCCC
*
8013405 TAAACCCATACTCCC
1 TAAACCCATAATCCC
8013420 TAAACC
1 TAAACC
8013426 TTAAAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 17 0.57
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:8013656 original size:15 final size:15
Alignment explanation
Indices: 8013636--8013669 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8013626 CCCCAAATGT
8013636 CTAACCC-CTAAACCC
1 CTAACCCTCT-AACCC
8013651 CTAACCCTCTAACCC
1 CTAACCCTCTAACCC
8013666 CTAA
1 CTAA
8013670 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (15 bp):
CTAACCCTCTAACCC
Found at i:8013672 original size:8 final size:7
Alignment explanation
Indices: 8013636--8013669 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
8013626 CCCCAAATGT
8013636 CTAACCC
1 CTAACCC
8013643 CTAAACCC
1 CT-AACCC
8013651 CTAACCC
1 CTAACCC
8013658 TCTAACCC
1 -CTAACCC
8013666 CTAA
1 CTAA
8013670 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:8013709 original size:14 final size:14
Alignment explanation
Indices: 8013692--8013718 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8013682 AACCCTTAAA
8013692 CCATAATCCCTAAT
1 CCATAATCCCTAAT
8013706 CCATAATCCCTAA
1 CCATAATCCCTAA
8013719 ACCCATACTC
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:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:8014113 original size:115 final size:113
Alignment explanation
Indices: 8013814--8014259 Score: 486
Period size: 114 Copynumber: 3.9 Consensus size: 113
8013804 ATGTTTTTTT
* * * * *
8013814 GCGGCGCTTTCCTAAAAACCGCCGCTAAATCCCCCGAAAGCTCAGAAAACAGCGTCGTTGAGCTT
1 GCGGCGCTTTCCTAAAAA--GTCACTAAAT-CCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* *
8013879 ATGTCT-TTTTGCGGCGCTTTC-TCACAAACGCCGCTAAAGCCCTGAGCATTA
63 A-GTTTATTTTGCGGCGC-TTCATCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
8013930 GCGGCG-TATCCCAAAAAGTGACACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCCTAAAAAGT--CACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * * *
8013994 GTTTATTTTACGGCACTTCCTTAAAAACGCCGCTAAAGCCCTCAGCATTA
64 GTTTATTTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTGAGCATTA
** * * * * *
8014044 GCGGCGCTTTATTAAGAAACGTCACTAAATCCGTGAAAGATAAAAAAAGGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCCTAA-AAA-GTCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * *
8014109 GTTTATTTTGCGGCGCTTTATCAAAAATGCCGCAAAAGCCCTGGGCATTA
64 GTTTATTTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
8014159 GCGGCGC-TTCCTAAAAAATGCCACTAAATCCGCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTA
1 GCGGCGCTTTCCT-AAAAA-GTCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
8014223 GATTATTTTGCGGCGCTTCATCAAAAGCGCCGCTAAA
64 GTTTATTTTGCGGCGCTTCATCAAAAACGCCGCTAAA
8014260 TCCCCGAAAG
Statistics
Matches: 273, Mismatches: 49, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
113 7 0.03
114 149 0.55
115 106 0.39
116 9 0.03
117 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCCTAAAAAGTCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGT
TTATTTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:8014294 original size:73 final size:73
Alignment explanation
Indices: 8014159--8014332 Score: 194
Period size: 73 Copynumber: 2.4 Consensus size: 73
8014149 CTGGGCATTA
* * * * *
8014159 GCGGCGCTTCCTAAAAAATGCCACTAAATCCGCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAG
1 GCGGCGCTTCATAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGCCGTTAGGCTTAG
8014224 ATTATTTT
66 ATTATTTT
* * *
8014232 GCGGCGCTTCATCAAAAGCGCCGCTAAATCCCCGAAAGCTCAGAAAAC-GACGCCGTTAGGCTTA
1 GCGGCGCTTCATAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAG-CGCCGTTAGGCTTA
8014296 TG-TCT-TTTT
65 -GAT-TATTTT
* *
8014305 ACGGCGCTTTC-TAAAAAACGCCGCTAAA
1 GCGGCGC-TTCATAAAAAACGCCACTAAA
8014333 AGCCCTGACC
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
72 1 0.01
73 80 0.93
74 5 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (73 bp):
GCGGCGCTTCATAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGCCGTTAGGCTTAG
ATTATTTT
Found at i:8014436 original size:115 final size:115
Alignment explanation
Indices: 8014232--8014442 Score: 282
Period size: 115 Copynumber: 1.8 Consensus size: 115
8014222 AGATTATTTT
* * * * *
8014232 GCGGCGCTTCATCAAAAGCGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTAGGCTTAT
1 GCGGCGCTTCATAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGACGCCGTTAGGCTTAG
*
8014297 GTCTTTTTACGGCGCTTTCTAAAAAACGCCGCTAAAAGCCCTGACCATTA
66 GTCTTATTACGGCGCTTTCTAAAAAACGCCGCTAAAAGCCCTGACCATTA
* * * * *
8014347 GCGGCGCTT-ACTAAAAAACGCCACTAAATCTACGAAAGCTCAGAATACGGCGTCGTTGGGCTTA
1 GCGGCGCTTCA-TAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGACGCCGTTAGGCTTA
* *
8014411 GGT-TTATTGCGGCGCTTTTTAAAAAACGCCGC
65 GGTCTTATTACGGCGCTTTCTAAAAAACGCCGC
8014443 CAATGCTTAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
114 27 0.33
115 55 0.67
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (115 bp):
GCGGCGCTTCATAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGACGCCGTTAGGCTTAG
GTCTTATTACGGCGCTTTCTAAAAAACGCCGCTAAAAGCCCTGACCATTA
Found at i:8015100 original size:36 final size:35
Alignment explanation
Indices: 8015060--8015152 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
8015050 TATTTGTGTG
* *
8015060 GAATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATGAAAAAGT
*
8015096 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
8015133 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
8015153 AATTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 15 0.31
ACGTcount: A:0.44, C:0.01, G:0.24, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:8017726 original size:16 final size:16
Alignment explanation
Indices: 8017702--8017740 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8017692 ATTAATTATT
*
8017702 TATATTTAGTCATATAA
1 TATA-TTAGTAATATAA
8017719 TATATTAGTAATATAA
1 TATATTAGTAATATAA
*
8017735 TTTATT
1 TATATT
8017741 GTTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
TATATTAGTAATATAA
Found at i:8018643 original size:17 final size:18
Alignment explanation
Indices: 8018617--8018653 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8018607 TTCTAAAATT
8018617 AAATTGAGAAAAAT-ATA
1 AAATTGAGAAAAATAATA
*
8018634 AAATTTAGAAAAATAATA
1 AAATTGAGAAAAATAATA
8018652 AA
1 AA
8018654 TTATTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATTGAGAAAAATAATA
Found at i:8018654 original size:17 final size:16
Alignment explanation
Indices: 8018611--8018655 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
8018601 GCTAATTTCT
8018611 AAAAT-TAAATTGAGA
1 AAAATATAAATTGAGA
*
8018626 AAAATATAAAATTTAGA
1 AAAATAT-AAATTGAGA
8018643 AAAATAATAAATT
1 AAAAT-ATAAATT
8018656 ATTTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 5 0.19
16 1 0.04
17 18 0.69
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (16 bp):
AAAATATAAATTGAGA
Found at i:8027412 original size:7 final size:7
Alignment explanation
Indices: 8027400--8027424 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8027390 AAATCGATTT
8027400 TGGATCC
1 TGGATCC
8027407 TGGATCC
1 TGGATCC
8027414 TGGATCC
1 TGGATCC
8027421 TGGA
1 TGGA
8027425 CCCATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (7 bp):
TGGATCC
Found at i:8032019 original size:14 final size:13
Alignment explanation
Indices: 8031981--8032020 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
8031971 GTCACTGACG
8031981 AAGGATGGGCCCC
1 AAGGATGGGCCCC
8031994 AAGGATGGGCCCC
1 AAGGATGGGCCCC
*
8032007 AAGGATGGGGCCC
1 AAGGATGGGCCCC
8032020 A
1 A
8032021 TCTTCATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.25, C:0.28, G:0.40, T:0.07
Consensus pattern (13 bp):
AAGGATGGGCCCC
Found at i:8032904 original size:31 final size:31
Alignment explanation
Indices: 8032866--8032938 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
8032856 TGATTGGGCC
*
8032866 AAGACTAAAATTT-CAAATTTTAAAAAGTACA
1 AAGACTAAAATTTACAAA-TTCAAAAAGTACA
* *
8032897 AGGACTAAAATTTACCAATTCAAAAAGTACA
1 AAGACTAAAATTTACAAATTCAAAAAGTACA
*
8032928 AAAACTAAAAT
1 AAGACTAAAAT
8032939 CGATCAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.25
Consensus pattern (31 bp):
AAGACTAAAATTTACAAATTCAAAAAGTACA
Found at i:8034987 original size:20 final size:22
Alignment explanation
Indices: 8034959--8035008 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
8034949 AATTTAATAA
* *
8034959 ATTAAAAAAATAT-TTAAAATT
1 ATTATAAAAATATATAAAAATT
*
8034980 -TTATAAAAATGTATAAAAATT
1 ATTATAAAAATATATAAAAATT
8035001 ATTATAAA
1 ATTATAAA
8035009 CTTATACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 7 0.29
22 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTATAAAAATATATAAAAATT
Found at i:8035756 original size:10 final size:10
Alignment explanation
Indices: 8035703--8035763 Score: 60
Period size: 9 Copynumber: 6.4 Consensus size: 10
8035693 ATCTTTCAAG
8035703 AATTTTTAT-
1 AATTTTTATA
8035712 AATTTTTATA
1 AATTTTTATA
8035722 GAA--TTTA-A
1 -AATTTTTATA
*
8035730 ATATTTTTATT
1 A-ATTTTTATA
8035741 AA-TTTTATA
1 AATTTTTATA
8035750 AATTTTTATA
1 AATTTTTATA
8035760 AATT
1 AATT
8035764 ATAAATTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
7 1 0.02
8 2 0.05
9 21 0.49
10 16 0.37
11 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
AATTTTTATA
Found at i:8035774 original size:9 final size:9
Alignment explanation
Indices: 8035706--8035775 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
8035696 TTTCAAGAAT
*
8035706 TTTTATAAT
1 TTTTATAAA
8035715 TTTTATAGAA
1 TTTTATA-AA
8035725 -TTTA-AATA
1 TTTTATAA-A
*
8035733 TTTTTATTAA
1 -TTTTATAAA
8035743 TTTTATAAA
1 TTTTATAAA
8035752 TTTTTATAAA
1 -TTTTATAAA
8035762 --TTATAAA
1 TTTTATAAA
8035769 TTTTATA
1 TTTTATA
8035776 TTTTTATATG
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
7 8 0.16
8 2 0.04
9 24 0.48
10 15 0.30
11 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTATAAA
Found at i:8035782 original size:17 final size:17
Alignment explanation
Indices: 8035706--8035797 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 17
8035696 TTTCAAGAAT
8035706 TTTTATAATTTTTATAGAA
1 TTTTAT-ATTTTTATA-AA
* *
8035725 TTTAAATATTTTTATTAA
1 TTT-TATATTTTTATAAA
8035743 TTTTATAAATTTTTATAAA
1 TTTTAT--ATTTTTATAAA
* * *
8035762 TTATA-AATTTTAT-AT
1 TTTTATATTTTTATAAA
*
8035777 TTTTATATGTTTATAATA
1 TTTTATATTTTTATAA-A
8035795 TTT
1 TTT
8035798 ATAAGTTTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
15 5 0.09
16 13 0.23
17 3 0.05
18 8 0.14
19 25 0.45
20 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTATATTTTTATAAA
Found at i:8036006 original size:91 final size:88
Alignment explanation
Indices: 8035840--8036045 Score: 277
Period size: 91 Copynumber: 2.3 Consensus size: 88
8035830 CAAAAGAAAT
* * *
8035840 TCAAACTTTTTCAAAAAAGTAATTAAACCATTGTTTTTTTTTTCACTCATTTGGATACTTGAACT
1 TCAAACTTTTTCAAAAAAGTAATTAAACCATTCTTTTTTTTTGCACTCAATTGGATACTTGAACT
* *
8035905 TTTAAAATGCATCAAAAAGGCCC
66 TTCAAAATGCATCAAAAAGACCC
* * * * *
8035928 TCAAACCTTTTCAAAAAAAGTAATTAAGCCTTTACCTTTTTTTTTGCATTCAATTGGGTACTTGA
1 TCAAACTTTTTC-AAAAAAGTAATTAAACCATT--CTTTTTTTTTGCACTCAATTGGATACTTGA
8035993 ACTTTCAAAATGCATCAAAAAGACCC
63 ACTTTCAAAATGCATCAAAAAGACCC
*
8036019 TCAAACTTTTTCGAAAAAAGCAATTAA
1 TCAAACTTTTTC-AAAAAAGTAATTAA
8036046 CCCCCTACAT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
88 11 0.11
89 18 0.18
91 73 0.72
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (88 bp):
TCAAACTTTTTCAAAAAAGTAATTAAACCATTCTTTTTTTTTGCACTCAATTGGATACTTGAACT
TTCAAAATGCATCAAAAAGACCC
Found at i:8036111 original size:19 final size:18
Alignment explanation
Indices: 8036060--8036140 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
8036050 CTACATTTAT
8036060 TAAAAATTAGAAAAAAATA
1 TAAAAATT-GAAAAAAATA
* *
8036079 TAATAATCGAAAAAAATA
1 TAAAAATTGAAAAAAATA
***
8036097 TGAAAAATTGTAAAATTTTA
1 T-AAAAATTG-AAAAAAATA
*
8036117 TAAAAATAGAAAAAAATTA
1 TAAAAATTGAAAAAAA-TA
8036136 TAAAA
1 TAAAA
8036141 TATATAGAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 15 0.31
19 26 0.54
20 7 0.15
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAATTGAAAAAAATA
Found at i:8036146 original size:28 final size:28
Alignment explanation
Indices: 8036060--8036157 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
8036050 CTACATTTAT
**
8036060 TAAAAATTAGAAAAAAA-TATAATAATCGA
1 TAAAAA-TAGAAAAAAATTATAA-AATATA
* * *
8036089 AAAAAATATG--AAAAATTGTAAAATTTTA
1 TAAAAATA-GAAAAAAATTATAAAA-TATA
8036117 TAAAAATAGAAAAAAATTATAAAATATA
1 TAAAAATAGAAAAAAATTATAAAATATA
* *
8036145 TAGAAATATAAAA
1 TAAAAATAGAAAA
8036158 TTTTATAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
27 8 0.15
28 29 0.53
29 18 0.33
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (28 bp):
TAAAAATAGAAAAAAATTATAAAATATA
Found at i:8036463 original size:19 final size:17
Alignment explanation
Indices: 8036409--8036465 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
8036399 TTTTTTTACG
*
8036409 ATTTTTATAAAAAATTCTA
1 ATTTTTAT-TAAAATT-TA
* *
8036428 ATTTTTAATAAATTTTA
1 ATTTTTATTAAAATTTA
8036445 TATTTTTATTAATAATTTA
1 -ATTTTTATTAA-AATTTA
8036464 AT
1 AT
8036466 AATTTTCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.06
18 17 0.55
19 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTATTAAAATTTA
Found at i:8036470 original size:21 final size:21
Alignment explanation
Indices: 8036432--8036471 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8036422 ATTCTAATTT
*
8036432 TTAATAAATTTTATATTTTTA
1 TTAATAAATTTAATATTTTTA
*
8036453 TTAAT-AATTTAATAATTTT
1 TTAATAAATTTAATATTTTT
8036472 CTATAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATAAATTTAATATTTTTA
Found at i:8036513 original size:31 final size:31
Alignment explanation
Indices: 8036431--8036516 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
8036421 AATTCTAATT
* *
8036431 TTTAATAAATTT-TAT-ATTTTT-ATTAATAA
1 TTTAATAATTTTCTATAATTTTTAATT-TTAA
*
8036460 TTTAATAATTTTCTATAGTTTTTAATTTTAA
1 TTTAATAATTTTCTATAATTTTTAATTTTAA
* * *
8036491 TTTTATAATTTTTTCTAATTTTTAAT
1 TTTAATAATTTTCTATAATTTTTAAT
8036517 AAGACNNNNN
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.23
30 3 0.06
31 30 0.64
32 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTAATAATTTTCTATAATTTTTAATTTTAA
Found at i:8045333 original size:25 final size:27
Alignment explanation
Indices: 8045276--8045345 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 27
8045266 TATTTATATC
* *
8045276 TTTTTTTATAAATTTTTAGTCTTTTAG
1 TTTTTTTATAAATTTATAGTATTTTAG
* *
8045303 TCTTTTTATATATTTATA-TATTTTA-
1 TTTTTTTATAAATTTATAGTATTTTAG
8045328 TTTTTTTATAAATTTATA
1 TTTTTTTATAAATTTATA
8045346 AATTATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 16 0.43
26 6 0.16
27 15 0.41
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTTTTTATAAATTTATAGTATTTTAG
Found at i:8045430 original size:25 final size:27
Alignment explanation
Indices: 8045380--8045436 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
8045370 TATTATAGGC
*
8045380 TTTTTATACATTTTTAATTGTCTATAT
1 TTTTTATAAATTTTTAATTGTCTATAT
* *
8045407 TTTTTATAAATTTATT-ATTTTATATAT
1 TTTTTATAAATTT-TTAATTGTCTATAT
8045434 TTT
1 TTT
8045437 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTATAAATTTTTAATTGTCTATAT
Found at i:8049608 original size:24 final size:24
Alignment explanation
Indices: 8049559--8049610 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8049549 AATCAAAGTC
* *
8049559 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
8049583 AAATATATTATACTCATACATACT
1 AAATATATTATACTAATAAATACT
8049607 AAAT
1 AAAT
8049611 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:8053588 original size:24 final size:24
Alignment explanation
Indices: 8053573--8053624 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8053563 AATTAAAGTC
8053573 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
8053597 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
8053621 AAAT
1 AAAT
8053625 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:8067787 original size:25 final size:28
Alignment explanation
Indices: 8067758--8067809 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
8067748 TATATTAGTA
8067758 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
8067783 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
8067810 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:8072530 original size:20 final size:19
Alignment explanation
Indices: 8072494--8072531 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8072484 ATAAATAAGT
8072494 ATTTTCAAATTACAAATTA
1 ATTTTCAAATTACAAATTA
8072513 ATTTATCAATATTA-AAATT
1 ATTT-TCAA-ATTACAAATT
8072532 TTAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTCAAATTACAAATTA
Found at i:8080910 original size:17 final size:17
Alignment explanation
Indices: 8080873--8080920 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
8080863 GAATTTAGAA
*
8080873 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
8080889 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
8080906 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
8080921 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:8082062 original size:46 final size:46
Alignment explanation
Indices: 8082009--8082148 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
8081999 CCATGGCAAA
* *
8082009 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACTATACTCAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
8082055 TTGTGAAAAGTAGGTATGATGTTTTAGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
8082101 TAGTGAAAAGTAAGTATGGTGTTTGAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
8082147 TT
1 TT
8082149 ATAGCATTGT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:8082646 original size:12 final size:12
Alignment explanation
Indices: 8082629--8082658 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8082619 ATTTTCGATA
8082629 TGAATTAACTAT
1 TGAATTAACTAT
8082641 TGAATTAACTAT
1 TGAATTAACTAT
8082653 TGAATT
1 TGAATT
8082659 GGTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (12 bp):
TGAATTAACTAT
Found at i:8083541 original size:22 final size:23
Alignment explanation
Indices: 8083503--8083547 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
8083493 AGTCAGGTAA
*
8083503 TGTAATATCTCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
8083526 TGTAATA-CCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
8083548 AATAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:8084702 original size:37 final size:37
Alignment explanation
Indices: 8084556--8084694 Score: 228
Period size: 37 Copynumber: 3.8 Consensus size: 37
8084546 TACGCATGAT
* *
8084556 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
8084591 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
8084628 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
8084665 CACTTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTTGTTTCTTGATCAGATAA
8084695 CTATAGCCGA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 84 0.88
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:8084718 original size:46 final size:46
Alignment explanation
Indices: 8084665--8084835 Score: 216
Period size: 46 Copynumber: 3.6 Consensus size: 46
8084655 TAAGTGTAGC
** *
8084665 CACTTATCACTTTGTTTCTTGATCAGATAACTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
8084711 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
8084757 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
8084809 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8084836 AGTACTCAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
46 68 0.62
48 1 0.01
50 1 0.01
52 40 0.36
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:8084787 original size:52 final size:52
Alignment explanation
Indices: 8084708--8084821 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 52
8084698 TAGCCGAAGC
* **
8084708 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
8084761 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
8084813 TATCACTTT
1 TATCACTTT
8084822 GTCACTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 44 0.80
53 11 0.20
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:8092507 original size:23 final size:23
Alignment explanation
Indices: 8092476--8092528 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8092466 AGTGTTCTTG
8092476 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
8092499 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
8092522 ATCAGTG
1 ATCAGTG
8092529 TGGCTTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:8094445 original size:13 final size:13
Alignment explanation
Indices: 8094427--8094460 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
8094417 TGATTGGTTA
*
8094427 GTCCAGTGGAACT
1 GTCCAGCGGAACT
8094440 GTCCAGCGGAACT
1 GTCCAGCGGAACT
8094453 GTCCAGCG
1 GTCCAGCG
8094461 TGGTAGGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (13 bp):
GTCCAGCGGAACT
Found at i:8097170 original size:20 final size:21
Alignment explanation
Indices: 8097137--8097177 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8097127 TTAAACTGAA
8097137 AAGATAAAAATATT-TTTTGT
1 AAGATAAAAATATTGTTTTGT
* *
8097157 AAGATTAAATTATTGTTTTGT
1 AAGATAAAAATATTGTTTTGT
8097178 TTATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
AAGATAAAAATATTGTTTTGT
Found at i:8099126 original size:25 final size:25
Alignment explanation
Indices: 8099075--8099127 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8099065 ACTTTAGCGC
* ***
8099075 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGGCAGT
8099100 GCTCTCTGATTACTAGCACGGCAGT
1 GCTCTCTGATTACTAGCACGGCAGT
8099125 GCT
1 GCT
8099128 ATCTATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGGCAGT
Found at i:8099170 original size:22 final size:23
Alignment explanation
Indices: 8099122--8099178 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
8099112 CTAGCACGGC
* *
8099122 AGTGCTATCTATTTAGCACATGT
1 AGTGCTCTCTGTTTAGCACATGT
*
8099145 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATGT
8099166 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
8099179 CATTAGCACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATGT
Found at i:8102384 original size:25 final size:25
Alignment explanation
Indices: 8102335--8102384 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8102325 AATTTTTTAA
*
8102335 ATTTATTTTCAATTTATTAGGATAT
1 ATTTATTTTCAATATATTAGGATAT
*
8102360 ATTTATTTT-AATATATGTAGTATAT
1 ATTTATTTTCAATATAT-TAGGATAT
8102385 TTGATGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (25 bp):
ATTTATTTTCAATATATTAGGATAT
Found at i:8108218 original size:22 final size:20
Alignment explanation
Indices: 8108177--8108224 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
8108167 CATATTATTT
8108177 TTTAATTTATTTTTTAAATA
1 TTTAATTTATTTTTTAAATA
8108197 TTTATATTATATTATTTT-AATA
1 TTTA-ATT-TATT-TTTTAAATA
8108219 TTTAAT
1 TTTAAT
8108225 AATTTTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.16
21 5 0.20
22 12 0.48
23 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATTTATTTTTTAAATA
Found at i:8109494 original size:2 final size:2
Alignment explanation
Indices: 8109487--8109527 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8109477 TCGCCTCTTT
8109487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8109528 ACATTACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8109951 original size:27 final size:24
Alignment explanation
Indices: 8109889--8109952 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 24
8109879 CAAAATCGAA
*
8109889 AATAATTTCATTTATTTTTACTCT
1 AATAATTTAATTTATTTTTACTCT
* * *
8109913 -ATATTTTTATTTATTTTTTTATTCTT
1 AATAATTTAATTTA--TTTTTACTC-T
8109939 AATAATTTAATTTA
1 AATAATTTAATTTA
8109953 AGTATTCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 11 0.35
25 8 0.26
26 1 0.03
27 11 0.35
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (24 bp):
AATAATTTAATTTATTTTTACTCT
Found at i:8111642 original size:83 final size:84
Alignment explanation
Indices: 8111545--8111748 Score: 238
Period size: 83 Copynumber: 2.4 Consensus size: 84
8111535 TTACATAAAG
*
8111545 AAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGC-TTAGAAAAAAACGCCCCT-AAAGATCATGT
1 AAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTTAGAAAAAAACGCCCCTAAAAG-TAATGT
*
8111608 TCTTTAGCGACGCTTAAAAT
65 TCTATAGCGACGCTTAAAAT
* * * *
8111628 AAACGTCGCTAAAGCTCATGTTCTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAAAGTAATGTT
1 AAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTTAGAAAAAAACGCCCCTAAAAGTAATGTT
* **
8111693 CTATAGCGGCGCTTCTTCAA-
66 CTATAGCGACGC-T-TAAAAT
*
8111713 ACACGCCGCTAAAAG-T-AGTGTTCTTTAGCGGCGCTT
1 AAACGCCGCT-AAAGCTCA-TGTTCTTTAGCGGCGCTT
8111749 ATTTCACAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
83 33 0.32
84 32 0.31
85 32 0.31
86 7 0.07
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (84 bp):
AAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTTAGAAAAAAACGCCCCTAAAAGTAATGTT
CTATAGCGACGCTTAAAAT
Found at i:8111647 original size:41 final size:42
Alignment explanation
Indices: 8111523--8111749 Score: 219
Period size: 42 Copynumber: 5.4 Consensus size: 42
8111513 ACGTCGATAA
* *
8111523 CTTTTGCGGCGCTTACATAAAGAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTAGA-AAA-AAACGCCGCTAAAGCTCATGTT
* *
8111567 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGCTCATGTT
* * *
8111609 CTTTAGCGACGCTTA-AAATAAACGTCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGCTCATGTT
* * * *
8111650 CTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAAAG-TAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCT-AAAGCTCATGTT
* **** *
8111693 CTATAGCGGCGCTTCTTCAAACACGCCGCTAAAAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCT-AAAGCTCA-TGTT
8111735 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
8111750 TTTCACAAAC
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
41 34 0.22
42 70 0.46
43 30 0.20
44 19 0.12
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGCTCATGTT
Found at i:8112196 original size:21 final size:21
Alignment explanation
Indices: 8112166--8112205 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8112156 TTCTTTTGAA
*
8112166 CCTCTGCTTCTCTCGCTGCGG
1 CCTCTACTTCTCTCGCTGCGG
8112187 CCTCTACTTCTCTCGCTGC
1 CCTCTACTTCTCTCGCTGC
8112206 TTCTCTCGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.45, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCTACTTCTCTCGCTGCGG
Found at i:8112206 original size:33 final size:33
Alignment explanation
Indices: 8112169--8112236 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
8112159 TTTTGAACCT
* *
8112169 CTGCTTCTCTCGCTGCGGCCTCTACTTCTCTCG
1 CTGCTTCTCTCGCTGCGACATCTACTTCTCTCG
8112202 CTGCTTCTCTCGCTGCGACATCTACTTCTCTCG
1 CTGCTTCTCTCGCTGCGACATCTACTTCTCTCG
8112235 CT
1 CT
8112237 ATAGCCTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.06, C:0.41, G:0.16, T:0.37
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCGACATCTACTTCTCTCG
Found at i:8112210 original size:12 final size:12
Alignment explanation
Indices: 8112193--8112217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8112183 GCGGCCTCTA
8112193 CTTCTCTCGCTG
1 CTTCTCTCGCTG
8112205 CTTCTCTCGCTG
1 CTTCTCTCGCTG
8112217 C
1 C
8112218 GACATCTACT
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:0.00, C:0.44, G:0.16, T:0.40
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:8117165 original size:24 final size:24
Alignment explanation
Indices: 8117100--8117176 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
8117090 ATAAGTGCAA
8117100 CACTGAATATGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
*
8117124 CACTG-TTATGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
* *
8117147 CACTGAAAACGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
8117171 CACTGA
1 CACTGA
8117177 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 22 0.46
24 26 0.54
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (24 bp):
CACTGAATATGTAGCCGAAGCTAC
Found at i:8118739 original size:27 final size:27
Alignment explanation
Indices: 8118709--8119227 Score: 526
Period size: 27 Copynumber: 18.6 Consensus size: 27
8118699 TGTATGCCCC
* * * * *
8118709 ATGTAAGTAATGTAAGCTATGTAAGTA
1 ATGTAAGTTATGTAAGATATTTAATTT
* * ** * *
8118736 ATGTAAGATATTTAATTTATGTAAGTT
1 ATGTAAGTTATGTAAGATATTTAATTT
* *
8118763 ATGTAAGTTATGTAAGTTATGTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
* ** *
8118790 ATGTAAGTTATTTAATTTACTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
8118817 ATGTAAGTTATGTAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
8118844 ATGTAAGTTATGTAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
8118871 ATGTAAGTTATGTAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8118898 ATGTAAGTTATGCAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8118925 ATGTAAGTTATGTAA-ATTACTTAATTT
1 ATGTAAGTTATGTAAGA-TATTTAATTT
*
8118952 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8118979 ACT-TAATTTATGTAAGTTATTTAATTAACTTAATTT
1 A-TGTAAGTTATGTAAG--A--T-A-T---TTAATTT
* *
8119015 ACGTAAGTTATGCAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8119042 ATGTAAGTTATGTAA-ATTACTTAATTT
1 ATGTAAGTTATGTAAGA-TATTTAATTT
*
8119069 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8119096 ACT-TAATTTATGTAAGTTATTTAATTAACTTAATTT
1 A-TGTAAGTTATGTAAG--A--T-A-T---TTAATTT
* *
8119132 ACGTAAGTTATGCAAGATATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
8119159 ATGTAAGTTATGTAA-ATTATTTAATTT
1 ATGTAAGTTATGTAAGA-TATTTAATTT
*
8119186 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGATATTTAATTT
*
8119213 TTGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
8119228 TTAACCAAAT
Statistics
Matches: 422, Mismatches: 42, Indels: 56
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.01
27 365 0.86
28 2 0.00
30 2 0.00
31 4 0.01
32 4 0.01
33 2 0.00
34 2 0.00
36 38 0.09
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGATATTTAATTT
Found at i:8118857 original size:117 final size:117
Alignment explanation
Indices: 8118726--8119227 Score: 717
Period size: 117 Copynumber: 4.4 Consensus size: 117
8118716 TAATGTAAGC
* * *
8118726 TATGTAAGTAATGTAAGATATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT-A-TGTAATT
1 TATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAA-TTAACT-TAATT
* ** ** * *
8118789 TATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGA-TATTTAATT
64 TACGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAA-ATTACTTAATT
*
8118843 TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAG--A--T-A-T---TTAATTTA
1 TATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTAACTTAATTTA
*
8118899 TGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
66 CGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
*
8118951 TATGTAAGTTATGTAAGTTATTTAATTTACT-TAATTTATGTAAGTTATTTAATTAACTTAATTT
1 TATGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTATGTAAGTTATTTAATTAACTTAATTT
8119015 ACGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
65 ACGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
*
8119068 TATGTAAGTTATGTAAGTTATTTAATTTACT-TAATTTATGTAAGTTATTTAATTAACTTAATTT
1 TATGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTATGTAAGTTATTTAATTAACTTAATTT
*
8119132 ACGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTATTTAATT
65 ACGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
*
8119185 TATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAA
1 TATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAA
8119228 TTAACCAAAT
Statistics
Matches: 360, Mismatches: 13, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
107 1 0.00
108 91 0.25
109 2 0.01
110 2 0.01
112 2 0.01
113 2 0.01
114 1 0.00
115 1 0.00
116 1 0.00
117 257 0.71
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (117 bp):
TATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTAACTTAATTTA
CGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAATTACTTAATT
Found at i:8122561 original size:21 final size:20
Alignment explanation
Indices: 8122531--8122569 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8122521 AACACATATT
*
8122531 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
8122551 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
8122570 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:8140546 original size:15 final size:15
Alignment explanation
Indices: 8140526--8140555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8140516 TCCAAATTGT
*
8140526 TTGTTGAAGCTTCCA
1 TTGTTGAAGATTCCA
8140541 TTGTTGAAGATTCCA
1 TTGTTGAAGATTCCA
8140556 GAAAACATTT
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:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (15 bp):
TTGTTGAAGATTCCA
Found at i:8143441 original size:20 final size:20
Alignment explanation
Indices: 8143392--8143441 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
8143382 ACAATTTAAA
*
8143392 ATATAAAAAGTTATTAATAT
1 ATATAAAAATTTATTAATAT
* *
8143412 GTATATAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
8143432 ATGTAAAAAT
1 ATATAAAAAT
8143442 AACTTTTTCG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (20 bp):
ATATAAAAATTTATTAATAT
Found at i:8143554 original size:20 final size:20
Alignment explanation
Indices: 8143529--8143568 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8143519 AAATATTTTC
8143529 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
* *
8143549 AGTAAATTATTTTTCAGAAA
1 AGTAAATCATTTTCCAGAAA
8143569 TTATTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:8149041 original size:30 final size:31
Alignment explanation
Indices: 8148981--8149050 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
8148971 ATACACAAAT
8148981 AATTTTATGTGTATGACTGAATCAAAATCAA
1 AATTTTATGTGTATGACTGAATCAAAATCAA
* * * *
8149012 AATTTTATGTTTATGATTGCA-CCAAATCAA
1 AATTTTATGTGTATGACTGAATCAAAATCAA
8149042 AA-TTTATGT
1 AATTTTATGT
8149051 ATCAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 7 0.20
30 10 0.29
31 18 0.51
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (31 bp):
AATTTTATGTGTATGACTGAATCAAAATCAA
Found at i:8153060 original size:8 final size:8
Alignment explanation
Indices: 8153049--8153115 Score: 50
Period size: 8 Copynumber: 8.8 Consensus size: 8
8153039 CTTTTATACA
8153049 TATATATT
1 TATATATT
*
8153057 TATAAATT
1 TATATATT
*
8153065 T-TTTATT
1 TATATATT
* *
8153072 TTTTTATT
1 TATATATT
8153080 TAT-T-TT
1 TATATATT
* *
8153086 TATTTTTT
1 TATATATT
8153094 TATATATT
1 TATATATT
8153102 TATATATT
1 TATATATT
*
8153110 TTTATA
1 TATATA
8153116 GATTTATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
6 5 0.10
7 7 0.14
8 37 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATATATT
Found at i:8153087 original size:18 final size:18
Alignment explanation
Indices: 8153064--8153140 Score: 84
Period size: 18 Copynumber: 4.2 Consensus size: 18
8153054 ATTTATAAAT
*
8153064 TTTTTATTTTTTTATTTA
1 TTTTTATTTTTTTATATA
8153082 TTTTTATTTTTTTATATA
1 TTTTTATTTTTTTATATA
* * *
8153100 TTTATATATTTTTATAGA
1 TTTTTATTTTTTTATATA
*
8153118 TTTATATTTGTTATTA-ATA
1 TTTTTATTT-TT-TTATATA
8153137 TTTT
1 TTTT
8153141 ATTAATAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
18 40 0.80
19 7 0.14
20 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTTTTATATA
Found at i:8153103 original size:26 final size:26
Alignment explanation
Indices: 8153049--8153114 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
8153039 CTTTTATACA
* * * *
8153049 TATATATTTATAAATTTTTTATTTTTT
1 TATATATTT-TTATTTTTTTATATATT
*
8153076 TATTTATTTTTATTTTTTTATATATT
1 TATATATTTTTATTTTTTTATATATT
8153102 TATATATTTTTAT
1 TATATATTTTTAT
8153115 AGATTTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 25 0.76
27 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TATATATTTTTATTTTTTTATATATT
Found at i:8153115 original size:10 final size:10
Alignment explanation
Indices: 8153048--8153120 Score: 66
Period size: 10 Copynumber: 7.8 Consensus size: 10
8153038 TCTTTTATAC
*
8153048 ATATATATTT
1 ATATATTTTT
*
8153058 ATAAATTTTT
1 ATATATTTTT
*
8153068 -TATTTTTTT
1 ATATATTTTT
*
8153077 ATTTATTTTT
1 ATATATTTTT
8153087 AT-T-TTTTT
1 ATATATTTTT
8153095 ATATA--TTT
1 ATATATTTTT
8153103 ATATATTTTT
1 ATATATTTTT
*
8153113 ATAGATTT
1 ATATATTT
8153121 ATATTTGTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
8 15 0.29
9 9 0.18
10 27 0.53
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (10 bp):
ATATATTTTT
Found at i:8153352 original size:16 final size:17
Alignment explanation
Indices: 8153331--8153364 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8153321 GTTTCTCTTA
8153331 TATCTCT-GTCTTTTAT
1 TATCTCTAGTCTTTTAT
*
8153347 TATCTCTATTCTTTTAT
1 TATCTCTAGTCTTTTAT
8153364 T
1 T
8153365 TCATAACAAG
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:0.15, C:0.18, G:0.03, T:0.65
Consensus pattern (17 bp):
TATCTCTAGTCTTTTAT
Found at i:8156000 original size:112 final size:113
Alignment explanation
Indices: 8155788--8156008 Score: 270
Period size: 112 Copynumber: 2.0 Consensus size: 113
8155778 CAGTGAAAGT
* * *
8155788 ATATAAGAATTATTTTGAAGTGATTTGAATTTAATATTAAAATCTAATTAATAGATAAATTATTT
1 ATATAAGAATTATTGTGAAGTGATTTGAATATAATATTAAAATCTAATTAATAGATAAATTAGTT
* * *
8155853 AATTCAAAAGTTAATTCTTTGAAAAATCGTAATAA-TAATTTTTTTAA
66 AATTCAAAAGCTAATTATTTGAAAAAGCGTAATAATTAATTTTTTTAA
* ** *
8155900 ATATAATAATTATTGTGAAGTGATTTGAGA-ATAATATTAATTTTTAATTAATAGATAAATT-GT
1 ATATAAGAATTATTGTGAAGTGATTTGA-ATATAATATTAAAATCTAATTAATAGATAAATTAGT
* * *
8155963 TAAGTTGAAAAGCTAATTATTT-TAAAAGCAGTGATAATTAATTTTT
65 TAA-TTCAAAAGCTAATTATTTGAAAAAGC-GTAATAATTAATTTTT
8156009 AATTTTTTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
111 9 0.10
112 74 0.80
113 9 0.10
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (113 bp):
ATATAAGAATTATTGTGAAGTGATTTGAATATAATATTAAAATCTAATTAATAGATAAATTAGTT
AATTCAAAAGCTAATTATTTGAAAAAGCGTAATAATTAATTTTTTTAA
Found at i:8161101 original size:44 final size:43
Alignment explanation
Indices: 8160873--8161160 Score: 169
Period size: 44 Copynumber: 6.7 Consensus size: 43
8160863 TTTTTTGTCT
* *** *
8160873 GCTCCACTGCAACTTCAGGGAGATAAG--ACTGGATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATACTGGCTTTAATCC
* * * *
8160914 GCTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TACTGGCTTTAATCC
* ** *** * * *
8160958 TCTCCACTATAACTTCAGGGAGATAAGATTCACAATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-T-ACTGGCTTTAATCC
* * * *
8161003 GCCCCCACTGCAACTTCAGGGGGATAAG--ACTAG--TTACGATCT
1 G-CTCCACTGCAACTTCAGGGAGATAAGATACTGGCTTTA--ATCC
* * *
8161045 GCT-CTCTGCAACTTCAGAGAGATAAGAT-CTGTCATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATACTGGC--TTTAATCC
* * * *
8161088 GCTCCGCTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TACTGGCTTTAATCC
*
8161132 GCTCCACTACAACTTCAGGGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
8161161 TCGCCATCTT
Statistics
Matches: 188, Mismatches: 43, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
40 22 0.12
41 28 0.15
42 7 0.04
43 7 0.04
44 87 0.46
45 12 0.06
46 25 0.13
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATACTGGCTTTAATCC
Found at i:8161103 original size:130 final size:131
Alignment explanation
Indices: 8160876--8161117 Score: 319
Period size: 130 Copynumber: 1.9 Consensus size: 131
8160866 TTTGTCTGCT
* * * *
8160876 CCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGGGAGATAGG
1 CCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAG
* ** *
8160941 ATTATTGGCTTTAATCTTCTCCACTATAACTTCAGGGAGATAAGATTCACAATCTTCAGTCTGCC
66 ATTACTGGCTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTCACAATCTTCAGTCTGCC
8161006 C
131 C
* *
8161007 CCACTGCAACTTCAGGGGGATAAGACTAGTTACGATCTGCTCT-CTGCAACTTCAGAGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAG
* * * *
8161071 A-T-CTGTCATTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATT
66 ATTACTGGC--TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATT
8161118 ATTGGCTTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
128 3 0.03
129 1 0.01
130 52 0.55
131 39 0.41
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (131 bp):
CCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTACTGCAACTTCAGAGAGATAAG
ATTACTGGCTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTCACAATCTTCAGTCTGCC
C
Found at i:8162836 original size:11 final size:11
Alignment explanation
Indices: 8162817--8162849 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8162807 TGCCTCTCAT
8162817 TTTTC-TTTTC
1 TTTTCTTTTTC
8162827 TTTTCTTTTTC
1 TTTTCTTTTTC
8162838 TTTTCATTTTTC
1 TTTTC-TTTTTC
8162850 ATCATTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 10 0.48
12 6 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Done.