Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 22 of 193
Found at i:7438831 original size:41 final size:41
Alignment explanation
Indices: 7438772--7438863 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
7438762 TCATAGAGAG
* * * *
7438772 TTCTTGTCAATGTAGAGATTGTTAGAATTGGGTGATTAGAA
1 TTCTTGTTAAGGTAGAGATTGTTAGAATTGGGTGAATAAAA
*
7438813 TTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGAATAAAA
1 TTCTTGTTAAGGTAGAGATTGTTAGAATTGGGTGAATAAAA
7438854 TTCTTGTTAA
1 TTCTTGTTAA
7438864 AATAAAATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.40
Consensus pattern (41 bp):
TTCTTGTTAAGGTAGAGATTGTTAGAATTGGGTGAATAAAA
Found at i:7450218 original size:2 final size:2
Alignment explanation
Indices: 7450211--7450245 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7450201 GAAACACCCA
7450211 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7450246 AATATAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7450803 original size:2 final size:2
Alignment explanation
Indices: 7450796--7450822 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7450786 TGAACAATGC
7450796 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7450823 GACTTTCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7451175 original size:18 final size:17
Alignment explanation
Indices: 7451148--7451183 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7451138 CTTCCTCTTC
7451148 AAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAGAA
*
7451165 AAAAGAAAAAAGAAAGAA
1 AAAA-AAAAAAAAAAGAA
7451183 A
1 A
7451184 TTTTGGGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAA
Found at i:7451176 original size:7 final size:7
Alignment explanation
Indices: 7451149--7451179 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7451139 TTCCTCTTCA
*
7451149 AAAAAAA
1 AAAAAAG
7451156 AAAAAAG
1 AAAAAAG
7451163 AAAAAAG
1 AAAAAAG
7451170 AAAAAAG
1 AAAAAAG
7451177 AAA
1 AAA
7451180 GAAATTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:7452271 original size:25 final size:25
Alignment explanation
Indices: 7452237--7452284 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
7452227 AATGAAATAC
7452237 AGATAAATTGACACGTAGGTTATAT
1 AGATAAATTGACACGTAGGTTATAT
*
7452262 AGATAAATTGACATGTAGGTTAT
1 AGATAAATTGACACGTAGGTTAT
7452285 CACATCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (25 bp):
AGATAAATTGACACGTAGGTTATAT
Found at i:7455623 original size:28 final size:28
Alignment explanation
Indices: 7455570--7455627 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
7455560 CATTTTTCAC
*
7455570 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTAAGTTTATAATTGAAT
**
7455598 TTGGAATTAATTCTGTTTA-AATTTGAAT
1 TTGGAATTAATTAAGTTTATAA-TTGAAT
7455626 TT
1 TT
7455628 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAGTTTATAATTGAAT
Found at i:7455668 original size:26 final size:26
Alignment explanation
Indices: 7455619--7455668 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
7455609 TCTGTTTAAA
**
7455619 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
7455645 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
7455669 GCAAATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:7458288 original size:33 final size:35
Alignment explanation
Indices: 7458240--7458317 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 35
7458230 TTAATTTGTC
*
7458240 ATTTTAAAAATTTAAAAATA-TTTTTTTATTTT-AA
1 ATTTT-AATATTTAAAAATATTTTTTTTATTTTAAA
7458274 ATTTTAATATTTAAAAATATTTTTTTTATTTTAAA
1 ATTTTAATATTTAAAAATATTTTTTTTATTTTAAA
7458309 ATTTTAATA
1 ATTTTAATA
7458318 CAGTAGAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 13 0.32
34 17 0.41
35 11 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (35 bp):
ATTTTAATATTTAAAAATATTTTTTTTATTTTAAA
Found at i:7458335 original size:35 final size:34
Alignment explanation
Indices: 7458252--7458340 Score: 83
Period size: 35 Copynumber: 2.6 Consensus size: 34
7458242 TTTAAAAATT
* **
7458252 TAAAAATATT-TTTTTATTTTAAATTTTAATATT
1 TAAAAACATTATTTTTATTTTAAATTTTAATAAG
* *
7458285 TAAAAATATTTTTTTTATTTTAAAATTTTAATACAG
1 TAAAAACATTATTTTTATTTT-AAATTTTAATA-AG
*
7458321 TAGAAACA-TATTTTTCATTT
1 TAAAAACATTATTTTT-ATTT
7458341 ATTTAAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 10 0.21
34 10 0.21
35 17 0.36
36 10 0.21
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.55
Consensus pattern (34 bp):
TAAAAACATTATTTTTATTTTAAATTTTAATAAG
Found at i:7458833 original size:17 final size:17
Alignment explanation
Indices: 7458813--7458846 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7458803 TTTTACATGA
*
7458813 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
7458830 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
7458847 GGATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:7471412 original size:43 final size:43
Alignment explanation
Indices: 7471314--7471481 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
7471304 AATTACTTCA
* * * *
7471314 ACTTGTTCA-ATGATGCATTGTGTGTGCCATTATAATTGCCCCT-
1 ACTTG-TCAGATGATGCACTGCGTGTGCCAGTATAATTG-CCTTG
* *
7471357 ACTTGTCAGATGATGCATTGTGTGTGCCAGTATAATTGCCTTG
1 ACTTGTCAGATGATGCACTGCGTGTGCCAGTATAATTGCCTTG
* * ** * *
7471400 GCTAGTTC-GATGATGCACCACGTGTGCTAGTATAATTGCTTTG
1 ACTTG-TCAGATGATGCACTGCGTGTGCCAGTATAATTGCCTTG
* * *
7471443 ACTTGACTGATGATGCACTGCGTGTGCTAGTATAATTGC
1 ACTTGTCAGATGATGCACTGCGTGTGCCAGTATAATTGC
7471482 TTCGTCTTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 7 0.07
43 97 0.92
44 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (43 bp):
ACTTGTCAGATGATGCACTGCGTGTGCCAGTATAATTGCCTTG
Found at i:7491553 original size:108 final size:108
Alignment explanation
Indices: 7491364--7491573 Score: 339
Period size: 108 Copynumber: 1.9 Consensus size: 108
7491354 AACCAGACTG
* *
7491364 TTAGTAACTTTATGTTTTGGTCACTCAACTTGAAAATGTTACAAAATGATCATTAAACTATTCAG
1 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGATCACTAAACTATTCAG
* * *
7491429 AAGTTCTCATTTAAGTCTCCGGGCTGTTATAATCGCTACAGCA
66 AAGTTCTCATTTAAGTCACAGGGCTGTTATAACCGCTACAGCA
* * **
7491472 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTTCAAAATGGTCACTGGACTATTCAG
1 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGATCACTAAACTATTCAG
7491537 AAGTTCTCATTTAAGTCACAGGGCTGTTATAACCGCT
66 AAGTTCTCATTTAAGTCACAGGGCTGTTATAACCGCT
7491574 GCTGCATGGC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 93 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (108 bp):
TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGATCACTAAACTATTCAG
AAGTTCTCATTTAAGTCACAGGGCTGTTATAACCGCTACAGCA
Found at i:7500317 original size:49 final size:49
Alignment explanation
Indices: 7500258--7500354 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
7500248 AACTAATTGG
*
7500258 AATCATTCCTGTATG-TCATGGTTCGACAATCAAGTTGCAAAACAAAAGA
1 AATCATTCCTGTATGAT-ATGGTTCGACAATCAAGTCGCAAAACAAAAGA
* * * *
7500307 AATCGTTCCTGTATGATGTGGTTCGATAATCAAGTCGCAAAGCAAAAG
1 AATCATTCCTGTATGATATGGTTCGACAATCAAGTCGCAAAACAAAAG
7500355 GAGGAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (49 bp):
AATCATTCCTGTATGATATGGTTCGACAATCAAGTCGCAAAACAAAAGA
Found at i:7507362 original size:2 final size:2
Alignment explanation
Indices: 7507357--7507388 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7507347 CATATATATA
*
7507357 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7507389 GATTAGCTAA
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:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7514556 original size:42 final size:42
Alignment explanation
Indices: 7514509--7514593 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
7514499 TTACACTATA
* *
7514509 CAAACTCCATTGATTCTTTTATTAATCTTCAATCAATTCTCG
1 CAAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCG
7514551 CAAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCG
1 CAAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCG
7514593 C
1 C
7514594 TCCAATATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (42 bp):
CAAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCG
Found at i:7522289 original size:16 final size:15
Alignment explanation
Indices: 7522252--7522296 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
7522242 TTAAAAAAGT
* *
7522252 TAAAATTTTTATATA
1 TAAAATTTTAATAAA
7522267 TAAAATTTTAATAAA
1 TAAAATTTTAATAAA
* *
7522282 TAAAAATTTATTAAA
1 TAAAATTTTAATAAA
7522297 ATTAATATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAATTTTAATAAA
Found at i:7523428 original size:18 final size:19
Alignment explanation
Indices: 7523404--7523458 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 19
7523394 GTCCCTCTAA
7523404 AAAATTTTAAAATATCTTC
1 AAAATTTTAAAATATCTTC
7523423 -AAATTTTAAAATATTTCTTC
1 AAAATTTTAAAATA--TCTTC
7523443 AAAATTTTATAAATAT
1 AAAATTTTA-AAATAT
7523459 ATATTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 13 0.41
20 6 0.19
21 8 0.25
22 5 0.16
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTTAAAATATCTTC
Found at i:7523443 original size:20 final size:20
Alignment explanation
Indices: 7523404--7523469 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 20
7523394 GTCCCTCTAA
7523404 AAAATTTTAAAATA-TCTTC
1 AAAATTTTAAAATATTCTTC
7523423 -AAATTTTAAAATATTTCTTC
1 AAAATTTTAAAATA-TTCTTC
*
7523443 AAAATTTTATAAATATATATTC
1 AAAATTTTA-AAATAT-TCTTC
7523465 AAAAT
1 AAAAT
7523470 AATTATTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 13 0.32
20 5 0.12
21 9 0.22
22 14 0.34
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTTAAAATATTCTTC
Found at i:7526953 original size:28 final size:29
Alignment explanation
Indices: 7526922--7526978 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
7526912 AAGGTGGACA
*
7526922 ATCATTAAA-TTCAAAATTTTTGAAAACT
1 ATCATTAAACTTCAAAATTTTTAAAAACT
7526950 ATCATTAAACCTTTCAAAATTTTTAAAAA
1 ATCATTAAA-C-TTCAAAATTTTTAAAAA
7526979 TTTCAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
31 16 0.64
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (29 bp):
ATCATTAAACTTCAAAATTTTTAAAAACT
Found at i:7528530 original size:14 final size:14
Alignment explanation
Indices: 7528513--7528542 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7528503 AATTTAATCA
*
7528513 TAATTTTTAAAATT
1 TAATCTTTAAAATT
7528527 TAATCTTTAAAATT
1 TAATCTTTAAAATT
7528541 TA
1 TA
7528543 CAAACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATCTTTAAAATT
Found at i:7528638 original size:21 final size:20
Alignment explanation
Indices: 7528610--7528648 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7528600 AATATTTTTC
7528610 AAAAATAT-AATAATAAATTT
1 AAAAATATAAATAA-AAATTT
7528630 AAAATATATAAATAAAAAT
1 AAAA-ATATAAATAAAAAT
7528649 ATATTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATATAAATAAAAATTT
Found at i:7528721 original size:28 final size:27
Alignment explanation
Indices: 7528610--7528731 Score: 90
Period size: 28 Copynumber: 4.4 Consensus size: 27
7528600 AATATTTTTC
* *
7528610 AAAAATATAATAATAAATTTAAAATATAT
1 AAAAATA-AATAAT-ATTTTAAAAAATAT
7528639 AAATAA-AAAT-ATATTATTGACAAAAA-AT
1 AAA-AATAAATAATATT-TT-A-AAAAATAT
* *
7528667 AATAATATATAA-ATTTTAAAAACATAT
1 AAAAATAAATAATATTTTAAAAA-ATAT
*
7528694 AAAAATAAATAATATTTTCAGAAAATAT
1 AAAAATAAATAATATTTT-AAAAAATAT
*
7528722 AATAATAAAT
1 AAAAATAAAT
7528732 TAAAACTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 20 0.27
28 32 0.43
29 13 0.17
30 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAAATAAATAATATTTTAAAAAATAT
Found at i:7528724 original size:55 final size:52
Alignment explanation
Indices: 7528610--7528729 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 52
7528600 AATATTTTTC
* *
7528610 AAAAAT-ATAATAATAAATTTAAAATATATAAATAAAAATATATTATTGACA
1 AAAAATAATAATAATAAATTTAAAACATATAAATAAAAATATATTATTCACA
*
7528661 AAAAATAATAATATATAAATTTTAAAAACATATAAA-AATAAATAATATT-TTCAGA
1 AAAAATAATAATA-ATAAA-TTT-AAAACATATAAATAA-AAAT-ATATTATTCACA
*
7528716 AAATATAATAATAA
1 AAAAATAATAATAA
7528730 ATTAAAACTT
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
51 6 0.10
52 6 0.10
53 5 0.08
54 6 0.10
55 31 0.53
56 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (52 bp):
AAAAATAATAATAATAAATTTAAAACATATAAATAAAAATATATTATTCACA
Found at i:7540650 original size:12 final size:11
Alignment explanation
Indices: 7540618--7540673 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
7540608 AATAAAAAAA
7540618 TTATAACTTTTT
1 TTATAA-TTTTT
7540630 TTATAAATTTTGT
1 TTAT-AATTTT-T
*
7540643 TTATAATTATT
1 TTATAATTTTT
* *
7540654 TAATGATTTTT
1 TTATAATTTTT
7540665 TTA-AATTTT
1 TTATAATTTT
7540674 AAAAGGGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.14
11 11 0.31
12 13 0.36
13 7 0.19
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:7555115 original size:15 final size:15
Alignment explanation
Indices: 7555095--7555139 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
7555085 ACGTGAATGA
7555095 CATGTTAATATTGTT
1 CATGTTAATATTGTT
7555110 CATGTTAATATTGTT
1 CATGTTAATATTGTT
*
7555125 -AGTGTTAATACTGTT
1 CA-TGTTAATATTGTT
7555140 AACATTGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.51
Consensus pattern (15 bp):
CATGTTAATATTGTT
Found at i:7562256 original size:82 final size:82
Alignment explanation
Indices: 7562119--7562282 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
7562109 TTATTATATA
*
7562119 GTACTAAATAATTTTCAGAGCAGGTCAAACACTTCGTGGACCCCTGCCCTCATCGGAGATGGTAG
1 GTACTAAATAATTTCCAGAGCAGGTCAAACACTTCGTGGACCCCTGCCCTCATCGGAGATGGTAG
*
7562184 CTTTACTTGACCGGCCC
66 CTTTACTTGACCAGCCC
7562201 GTACTAAATAATTTCCAGAGCAGGTCAAACACTTCGTGGACCCCTGCCCTCATCGGAGATGGTAG
1 GTACTAAATAATTTCCAGAGCAGGTCAAACACTTCGTGGACCCCTGCCCTCATCGGAGATGGTAG
7562266 CTTTACTTGACCAGCCC
66 CTTTACTTGACCAGCCC
7562283 CCATACCCAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (82 bp):
GTACTAAATAATTTCCAGAGCAGGTCAAACACTTCGTGGACCCCTGCCCTCATCGGAGATGGTAG
CTTTACTTGACCAGCCC
Found at i:7562380 original size:34 final size:32
Alignment explanation
Indices: 7562342--7562408 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 32
7562332 TTTTTGTCAT
*
7562342 TAAAT-TAAATAATCTATATTTTAGTTTAAAATAA
1 TAAATATAAAT-ATCAATATTTTA--TTAAAATAA
*
7562376 TAAATATCAATATCAATATTTTATTAAAATAA
1 TAAATATAAATATCAATATTTTATTAAAATAA
7562408 T
1 T
7562409 TTAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.33
34 16 0.53
35 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (32 bp):
TAAATATAAATATCAATATTTTATTAAAATAA
Found at i:7562764 original size:29 final size:30
Alignment explanation
Indices: 7562710--7562785 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
7562700 ATACATTTGA
*
7562710 ATCACAATTAAAATTTCATGTGTATAATT-AC
1 ATCA-AATTAAAA-TTCATGTATATAATTAAC
7562741 ATCAAATTAAAATTCATGTATATAATTACAC
1 ATCAAATTAAAATTCATGTATATAATTA-AC
*
7562772 ATTAAATTAAAATT
1 ATCAAATTAAAATT
7562786 AAATTCTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 14 0.34
30 8 0.20
31 19 0.46
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (30 bp):
ATCAAATTAAAATTCATGTATATAATTAAC
Found at i:7598665 original size:16 final size:17
Alignment explanation
Indices: 7598639--7598680 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
7598629 ACCTATATTG
*
7598639 TAATATAAATATCTCAA
1 TAATATAAATACCTCAA
*
7598656 -AATATCAATACCTCAA
1 TAATATAAATACCTCAA
7598672 TAATA-AAAT
1 TAATATAAAT
7598681 CTAGTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATATAAATACCTCAA
Found at i:7603223 original size:29 final size:29
Alignment explanation
Indices: 7603188--7603255 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
7603178 TTATAAATTT
* *
7603188 GAAATTTAG-CTCATATATTTTTATTTTTA
1 GAAATTTAGTC-CATATACTTTTATTATTA
7603217 -AGAATTTAGTCCATATACTTTTATTATTA
1 GA-AATTTAGTCCATATACTTTTATTATTA
7603246 GAAATTTAGT
1 GAAATTTAGT
7603256 TTCTCTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 31 0.91
30 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (29 bp):
GAAATTTAGTCCATATACTTTTATTATTA
Found at i:7603900 original size:20 final size:19
Alignment explanation
Indices: 7603850--7603901 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
7603840 ATAAAAAATA
7603850 TTATATT-AATTATATATG
1 TTATATTAAATTATATATG
* * *
7603868 TTAAATAATAATTATATATAT
1 TTATATTA-AATTATATAT-G
7603889 TTATATTAAATTA
1 TTATATTAAATTA
7603902 CTAACTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
21 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATATTAAATTATATATG
Found at i:7604747 original size:19 final size:20
Alignment explanation
Indices: 7604723--7604766 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
7604713 AATAAGTTAT
7604723 TGAAAATTTTT-ATTTAAAA
1 TGAAAATTTTTCATTTAAAA
*
7604742 TGAAAATTTTTCATTTTAAA
1 TGAAAATTTTTCATTTAAAA
7604762 T-AAAA
1 TGAAAA
7604767 AAATTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
TGAAAATTTTTCATTTAAAA
Found at i:7604767 original size:20 final size:19
Alignment explanation
Indices: 7604725--7604767 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
7604715 TAAGTTATTG
*
7604725 AAAATTTTTATTTAAAATG
1 AAAATTTTTATTTAAAATA
*
7604744 AAAATTTTTCATTTTAAATA
1 AAAATTTTT-ATTTAAAATA
7604764 AAAA
1 AAAA
7604768 AATTACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTTTTATTTAAAATA
Found at i:7613772 original size:25 final size:25
Alignment explanation
Indices: 7613734--7613789 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7613724 GAAACGAATT
*
7613734 AATTTTTTTTTATGATTTAAAGAAA
1 AATTATTTTTTATGATTTAAAGAAA
*
7613759 GATTATTTTTTATGATTTAAAGAAA
1 AATTATTTTTTATGATTTAAAGAAA
7613784 AATTAT
1 AATTAT
7613790 AGATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (25 bp):
AATTATTTTTTATGATTTAAAGAAA
Found at i:7622451 original size:18 final size:18
Alignment explanation
Indices: 7622428--7622462 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7622418 AGGCTTTATT
* *
7622428 GAAGATTATGATGATGAA
1 GAAGATGATGACGATGAA
7622446 GAAGATGATGACGATGA
1 GAAGATGATGACGATGA
7622463 TGATGGACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (18 bp):
GAAGATGATGACGATGAA
Found at i:7622617 original size:2 final size:2
Alignment explanation
Indices: 7622610--7622634 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7622600 TGTAACCTCA
7622610 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7622635 TTCATCGTTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7631710 original size:14 final size:14
Alignment explanation
Indices: 7631691--7631724 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
7631681 ATAAAGAGAT
7631691 AAAGAGTAAATGAC
1 AAAGAGTAAATGAC
7631705 AAAGAGTAAATGAC
1 AAAGAGTAAATGAC
7631719 AAAGAG
1 AAAGAG
7631725 AATGAGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.24, T:0.12
Consensus pattern (14 bp):
AAAGAGTAAATGAC
Found at i:7633961 original size:6 final size:6
Alignment explanation
Indices: 7633952--7634049 Score: 89
Period size: 6 Copynumber: 16.8 Consensus size: 6
7633942 TTAGATTGGT
** *
7633952 TTTAAA TTTATT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
7633999 TTTAAA TTT-AG TTTAAA TTTGAAA TGTT--- TTTAAA CTTAAC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA T-TTAAA TTTAAA TTTAAA TTTAAA
7634045 TTTAA
1 TTTAA
7634050 TTTCAAAGTT
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 8 0.11
6 56 0.77
7 4 0.05
8 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:7633965 original size:29 final size:29
Alignment explanation
Indices: 7633933--7634018 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
7633923 GGATCAAACT
* * *
7633933 TTTTTAAGTTTAGATTGGTTTTAAATTTA
1 TTTTTAAATTTAAATTGATTTTAAATTTA
*
7633962 TTTTTAAATTTAAATTTATTTTAAATTTA
1 TTTTTAAATTTAAATTGATTTTAAATTTA
** * *
7633991 AATTTAAATTTAAATTTAGTTTAAATTT
1 TTTTTAAATTTAAATTGATTTTAAATTT
7634019 GAAATGTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (29 bp):
TTTTTAAATTTAAATTGATTTTAAATTTA
Found at i:7633984 original size:23 final size:23
Alignment explanation
Indices: 7633964--7634048 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
7633954 TAAATTTATT
7633964 TTTAAATTTAAATTTATTTTAAA
1 TTTAAATTTAAATTTATTTTAAA
* *
7633987 TTTAAATTTAAATTTAAATTT-AG
1 TTTAAATTTAAATTT-ATTTTAAA
*
7634010 TTTAAATTTGAAATGT-TTTTAAA
1 TTTAAATTT-AAATTTATTTTAAA
* *
7634033 CTTAACTTTAAATTTA
1 TTTAAATTTAAATTTA
7634049 ATTTCAAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
22 8 0.16
23 33 0.66
24 9 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTAAATTTAAATTTATTTTAAA
Found at i:7634023 original size:18 final size:18
Alignment explanation
Indices: 7633952--7634049 Score: 89
Period size: 17 Copynumber: 5.6 Consensus size: 18
7633942 TTAGATTGGT
**
7633952 TTTAAATTTATTTTTAAA
1 TTTAAATTTAAATTTAAA
*
7633970 TTTAAATTT-ATTTTAAA
1 TTTAAATTTAAATTTAAA
7633987 TTTAAATTTAAATTTAAA
1 TTTAAATTTAAATTTAAA
*
7634005 TTT-AGTTTAAATTTGAAA
1 TTTAAATTTAAATTT-AAA
* *
7634023 TGTT---TTTAAACTTAAC
1 T-TTAAATTTAAATTTAAA
7634039 TTTAAATTTAA
1 TTTAAATTTAA
7634050 TTTCAAAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.03
16 3 0.04
17 34 0.49
18 28 0.41
19 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAATTTAAATTTAAA
Found at i:7634030 original size:17 final size:15
Alignment explanation
Indices: 7633932--7634037 Score: 71
Period size: 17 Copynumber: 6.9 Consensus size: 15
7633922 TGGATCAAAC
* *
7633932 TTTTTTAAGTTTAGA
1 TTTTTTAAATTTAAA
7633947 TTGGTTTTAAATTT--A
1 TT--TTTTAAATTTAAA
7633962 -TTTTTAAATTTAAA
1 TTTTTTAAATTTAAA
7633976 TTTATTTTAAATTTAAA
1 -TT-TTTTAAATTTAAA
7633993 ---TTTAAATTTAAA
1 TTTTTTAAATTTAAA
7634005 TTTAGTTTAAATTTGAAA
1 TTT--TTTAAATTT-AAA
*
7634023 TGTTTTTAAACTTAA
1 T-TTTTTAAATTTAA
7634038 CTTTAAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 27
0.72 0.02 0.26
Matches are distributed among these distances:
12 22 0.29
14 2 0.03
15 3 0.04
16 3 0.04
17 39 0.52
18 4 0.05
19 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.56
Consensus pattern (15 bp):
TTTTTTAAATTTAAA
Found at i:7634775 original size:15 final size:15
Alignment explanation
Indices: 7634735--7634783 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
7634725 AATGAATGTT
7634735 TAATTATTAATAAA-
1 TAATTATTAATAAAG
*
7634749 TATAGTATTAATAAAG
1 TA-ATTATTAATAAAG
*
7634765 TAATTAATAATAAAAG
1 TAATTATTAAT-AAAG
7634781 TAA
1 TAA
7634784 GAAATGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 2 0.07
15 18 0.62
16 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
TAATTATTAATAAAG
Found at i:7636022 original size:28 final size:28
Alignment explanation
Indices: 7635909--7636157 Score: 208
Period size: 29 Copynumber: 8.6 Consensus size: 28
7635899 AAACTGTCTA
*
7635909 AAAATTATATTTTGA-CCTCCGAACTTTTCC
1 AAAATTACATTTTGACCCT-C-AAC-TTTCC
7635939 AAAATTACATTTTTG-CCAC-CAAACTTTCC
1 AAAATTACA-TTTTGACC-CTC-AACTTTCC
* *
7635968 AAAATTACATTTT-TCCCTAAACTTTCC
1 AAAATTACATTTTGACCCTCAACTTTCC
7635995 AAAATTACATTTTGACCCT-AACTTTTCC
1 AAAATTACATTTTGACCCTCAAC-TTTCC
* *
7636023 TAAAATTATATTTTTACCCTCGAACTTTCC
1 -AAAATTACATTTTGACCCTC-AACTTTCC
7636053 AAAATTACATTTTTTGA-CCTCAACTTTTCC
1 AAAATTACA--TTTTGACCCTCAAC-TTTCC
* *
7636083 AAAATTCCAATTTTGA-CCTCGAATTTTCC
1 AAAATTAC-ATTTTGACCCTC-AACTTTCC
* * * *
7636112 AAAATTACATTTTAACCTTGAACCTTCC
1 AAAATTACATTTTGACCCTCAACTTTCC
7636140 AAAATTACCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
7636158 CCAGATGTCT
Statistics
Matches: 185, Mismatches: 17, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
27 25 0.14
28 37 0.20
29 72 0.39
30 35 0.19
31 15 0.08
32 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.39
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTCAACTTTCC
Found at i:7636170 original size:144 final size:148
Alignment explanation
Indices: 7635918--7636211 Score: 343
Period size: 145 Copynumber: 2.0 Consensus size: 148
7635908 AAAAATTATA
* *
7635918 TTTTGACCTCCGAACTTTTCCAAAATTACATTTTTGCCACCAAACTTTCCAAAATTACATTTTTC
1 TTTTGACCTCCGAACTTTTCCAAAATTACAATTTTGCCACCAAACTTTCCAAAATTACATTTTAC
* * * * *
7635983 CCTAAACTTTCCAAAATTACATTTTGACCCTAACTTTTCCT-AAAATTATATTTTTACCCTCGAA
66 CCTAAACCTTCCAAAATTACATTTTGACCCCAACATGTCCTAAAAATTATATTTTAACCC-CGAA
*
7636047 C-TTTCCAAAATTAC-ATT
130 CTTTTCAAAAATTACTATT
* * * *
7636064 TTTTGACCT-C-AACTTTTCCAAAATTCCAATTTTGACC-TCGAATTTTCCAAAATTACATTTTA
1 TTTTGACCTCCGAACTTTTCCAAAATTACAATTTTG-CCACCAAACTTTCCAAAATTACATTTT-
* * * * *
7636126 ACCTTGAACCTTCCAAAATTACCATTTT-ACCCCCAGATGT-CTAAAAATTCTATTTTAACCCCG
64 ACCCTAAACCTTCCAAAATTA-CATTTTGACCCCAACATGTCCTAAAAATTATATTTTAACCCCG
7636189 AACTTTTCAAAAATTACTATT
128 AACTTTTCAAAAATTACTATT
7636210 TT
1 TT
7636212 ACCCCCGAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
144 50 0.40
145 55 0.44
146 20 0.16
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (148 bp):
TTTTGACCTCCGAACTTTTCCAAAATTACAATTTTGCCACCAAACTTTCCAAAATTACATTTTAC
CCTAAACCTTCCAAAATTACATTTTGACCCCAACATGTCCTAAAAATTATATTTTAACCCCGAAC
TTTTCAAAAATTACTATT
Found at i:7636172 original size:29 final size:30
Alignment explanation
Indices: 7636140--7636220 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
7636130 TGAACCTTCC
*
7636140 AAAATTACCATTTTACCCCC-AGA-TGTCT-A
1 AAAATTACTATTTTACCCCCGA-ACT-TCTCA
* *
7636169 AAAATT-CTATTTTAACCCCGAACTTTTCA
1 AAAATTACTATTTTACCCCCGAACTTCTCA
7636198 AAAATTACTATTTTACCCCCGAA
1 AAAATTACTATTTTACCCCCGAA
7636221 GAAACCTCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 14 0.32
29 15 0.34
30 15 0.34
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAATTACTATTTTACCCCCGAACTTCTCA
Found at i:7643894 original size:59 final size:59
Alignment explanation
Indices: 7643801--7643924 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 59
7643791 AATAAATATT
*
7643801 CAAAATAAATGTTTACCACTTTCAACCTAATTAAACATAAATTTATATTTTTTAATCTA
1 CAAAATAAATGTTTACCACTTTCAACCTAATTAAACATAAATTTATATTTTCTAATCTA
* * * ** * *
7643860 TAAAATAAATGTTTATCATTTTCAAGTTTATTAAACATAAATTTATATTTTCTAATGTA
1 CAAAATAAATGTTTACCACTTTCAACCTAATTAAACATAAATTTATATTTTCTAATCTA
7643919 CAAAAT
1 CAAAAT
7643925 TAACAATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (59 bp):
CAAAATAAATGTTTACCACTTTCAACCTAATTAAACATAAATTTATATTTTCTAATCTA
Found at i:7643911 original size:29 final size:28
Alignment explanation
Indices: 7643820--7643911 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 28
7643810 TGTTTACCAC
*
7643820 TTTCAACCTAATTAAACATAAATTTATATT
1 TTTCAATCT-ATTAAACATAAATTTATA-T
*
7643850 TTTTAATCTA-TAAA-ATAAATGTTTATCAT
1 TTTCAATCTATTAAACATAAA--TTTAT-AT
*
7643879 TTTCAAGTTTATTAAACATAAATTTATAT
1 TTTCAA-TCTATTAAACATAAATTTATAT
7643908 TTTC
1 TTTC
7643912 TAATGTACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 5 0.10
28 4 0.08
29 18 0.35
30 16 0.31
31 4 0.08
32 5 0.10
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (28 bp):
TTTCAATCTATTAAACATAAATTTATAT
Found at i:7646512 original size:25 final size:25
Alignment explanation
Indices: 7646478--7646528 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
7646468 ACTAATGCAA
*
7646478 ATTGCTTCAAGTGATTTAGTGACTT
1 ATTGCTTCAAGTGACTTAGTGACTT
*
7646503 ATTGCTTCAAGTGACTTGGTGACTT
1 ATTGCTTCAAGTGACTTAGTGACTT
7646528 A
1 A
7646529 CTCTTGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (25 bp):
ATTGCTTCAAGTGACTTAGTGACTT
Found at i:7651303 original size:15 final size:15
Alignment explanation
Indices: 7651281--7651313 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7651271 AGTTAAATAT
*
7651281 AGAAAAAAGAAAA-A
1 AGAAAAAAAAAAACA
7651295 AGAAAAAAAAAAACA
1 AGAAAAAAAAAAACA
7651310 AGAA
1 AGAA
7651314 TTGTTTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAAAACA
Found at i:7654920 original size:2 final size:2
Alignment explanation
Indices: 7654908--7654941 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7654898 ATTTTTAAAA
*
7654908 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7654942 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7655179 original size:13 final size:14
Alignment explanation
Indices: 7655156--7655184 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7655146 GTGGGATTTT
7655156 TTAAATAAATTTAA
1 TTAAATAAATTTAA
7655170 TTAAAT-AATTTAA
1 TTAAATAAATTTAA
7655183 TT
1 TT
7655185 TTTAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATAAATTTAA
Found at i:7655807 original size:26 final size:27
Alignment explanation
Indices: 7655778--7655983 Score: 139
Period size: 28 Copynumber: 7.4 Consensus size: 27
7655768 CACGTAAGCG
* * *
7655778 TTCCTTT-CCAAAGATCGCCACGAGGC
1 TTCCTTTAACAAAGATAGCCACAAGGC
*
7655804 TTCCTTTTAACAGAGATAGCCACAAGGC
1 TTCC-TTTAACAAAGATAGCCACAAGGC
* *
7655832 TTCCTTTAACTAAGATAACCACAAAGGC
1 TTCCTTTAACAAAGATAGCCAC-AAGGC
***
7655860 TTCCTTTAATTGAGATAGCCACAAAGGC
1 TTCCTTTAACAAAGATAGCCAC-AAGGC
* * **
7655888 TTCCTTTTAACAGAGATCGCCACAAAATC
1 TTCC-TTTAACAAAGATAGCCAC-AAGGC
* * *
7655917 TTCCTTTAACTAAGATAACCATAAAGGC
1 TTCCTTTAACAAAGATAGCCA-CAAGGC
* *
7655945 TTCTTTTTAACAGAA-ATCA-CCACAAAGGT
1 TTC-CTTTAACA-AAGAT-AGCCAC-AAGGC
7655974 TTCCTTTAAC
1 TTCCTTTAAC
7655984 TCAGATAACC
Statistics
Matches: 144, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.03
27 18 0.12
28 78 0.54
29 41 0.28
30 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (27 bp):
TTCCTTTAACAAAGATAGCCACAAGGC
Found at i:7655820 original size:28 final size:28
Alignment explanation
Indices: 7655800--7656131 Score: 244
Period size: 28 Copynumber: 11.7 Consensus size: 28
7655790 GATCGCCACG
7655800 AGGCTTCCTTTTAACAGAGATAGCCAC-A
1 AGGCTTCC-TTTAACAGAGATAGCCACAA
*
7655828 AGGCTTCCTTTAACTA-AGATAACCACAA
1 AGGCTTCCTTTAAC-AGAGATAGCCACAA
**
7655856 AGGCTTCCTTTAATTGAGATAGCCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
*
7655884 AGGCTTCCTTTTAACAGAGATCGCCACAA
1 AGGCTTCC-TTTAACAGAGATAGCCACAA
** * *
7655913 AATCTTCCTTTAACTA-AGATAACCATAA
1 AGGCTTCCTTTAAC-AGAGATAGCCACAA
* *
7655941 AGGCTTCTTTTTAACAGAAATCA-CCACAA
1 AGGCTTC-CTTTAACAGAGAT-AGCCACAA
* ** * *
7655970 AGGTTTCCTTTAACTCAGATAACCATAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
* *
7655998 AGGCTTCTTTTTAACAGAAATCA-CCACAA
1 AGGCTTC-CTTTAACAGAGAT-AGCCACAA
* * * * *
7656027 AAGTTTCCTTCAACTGAGATAACCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
* * *
7656055 AGACTTCTTTTTAACAAAGATCA-CCACAA
1 AGGCTTC-CTTTAACAGAGAT-AGCCACAA
* ** *
7656084 AAGCTTCCTTTAATTGAGATAGACACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
* * *
7656112 AAGCTTTCTTTAACTGAGAT
1 AGGCTTCCTTTAACAGAGAT
7656132 CGCCTAATCT
Statistics
Matches: 238, Mismatches: 51, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
27 18 0.08
28 134 0.56
29 83 0.35
30 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (28 bp):
AGGCTTCCTTTAACAGAGATAGCCACAA
Found at i:7655922 original size:57 final size:57
Alignment explanation
Indices: 7655803--7656132 Score: 332
Period size: 57 Copynumber: 5.8 Consensus size: 57
7655793 CGCCACGAGG
* * * **
7655803 CTTCCTTTTAACAGAGATAGCCAC-AAGGCTTCC-TTTAACTA-AGATAACCACAAAGG
1 CTTCC-TTTAACTGAGATAACCACAAAGGCTTCCTTTTAAC-AGAGATCACCACAAAAT
* * *
7655859 CTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACAGAGATCGCCACAAAAT
1 CTTCCTTTAACTGAGATAACCACAAAGGCTTCCTTTTAACAGAGATCACCACAAAAT
* * * * *
7655916 CTTCCTTTAACTAAGATAACCATAAAGGCTTCTTTTTAACAGAAATCACCACAAAGGT
1 CTTCCTTTAACTGAGATAACCACAAAGGCTTCCTTTTAACAGAGATCACCACAAA-AT
* * * *
7655974 -TTCCTTTAACTCAGATAACCATAAAGGCTTCTTTTTAACAGAAATCACCACAAAAGT
1 CTTCCTTTAACTGAGATAACCACAAAGGCTTCCTTTTAACAGAGATCACCACAAAA-T
* * * * *
7656031 -TTCCTTCAACTGAGATAACCACAAAGACTTCTTTTTAACAAAGATCACCACAAAAG
1 CTTCCTTTAACTGAGATAACCACAAAGGCTTCCTTTTAACAGAGATCACCACAAAAT
* * * *
7656087 CTTCCTTTAATTGAGATAGA-CACAAAAGCTTTC-TTTAACTGAGATC
1 CTTCCTTTAACTGAGATA-ACCACAAAGGCTTCCTTTTAACAGAGATC
7656133 GCCTAATCTA
Statistics
Matches: 236, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
55 16 0.07
56 26 0.11
57 192 0.81
58 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (57 bp):
CTTCCTTTAACTGAGATAACCACAAAGGCTTCCTTTTAACAGAGATCACCACAAAAT
Found at i:7655978 original size:114 final size:114
Alignment explanation
Indices: 7655836--7656135 Score: 390
Period size: 114 Copynumber: 2.6 Consensus size: 114
7655826 CAAGGCTTCC
* *
7655836 TTTAACTAAGATAACCACAAAGGCTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACAG
1 TTTAACAAAGATCACCACAAAGGCTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACAG
* * *
7655901 AGATCGCCACAAAA-TCTTCCTTTAACTAAGATAACCATAAAGGCTTCTT
66 AGATCGCCACAAAAGT-TTCCTTCAACTAAGATAACCACAAAGACTTCTT
* * * * * *
7655950 TTTAACAGAA-ATCACCACAAAGGTTTCCTTTAACTCAGATAACCATAAAGGCTTCTTTTTAACA
1 TTTAACA-AAGATCACCACAAAGGCTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACA
* * *
7656014 GAAATCACCACAAAAGTTTCCTTCAACTGAGATAACCACAAAGACTTCTT
65 GAGATCGCCACAAAAGTTTCCTTCAACTAAGATAACCACAAAGACTTCTT
* * * * *
7656064 TTTAACAAAGATCACCACAAAAGCTTCCTTTAATTGAGATAGACACAAAAGCTTTC-TTTAACTG
1 TTTAACAAAGATCACCACAAAGGCTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACAG
7656128 AGATCGCC
66 AGATCGCC
7656136 TAATCTACCG
Statistics
Matches: 156, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
113 15 0.10
114 138 0.88
115 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.28
Consensus pattern (114 bp):
TTTAACAAAGATCACCACAAAGGCTTCCTTTAATTGAGATAGCCACAAAGGCTTCCTTTTAACAG
AGATCGCCACAAAAGTTTCCTTCAACTAAGATAACCACAAAGACTTCTT
Found at i:7667391 original size:20 final size:20
Alignment explanation
Indices: 7667353--7667390 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7667343 TTTAAATTGA
*
7667353 TTTAAATTTATTATTAAAAT
1 TTTAAATTGATTATTAAAAT
7667373 TTTAAATTGA-TATTAAAA
1 TTTAAATTGATTATTAAAA
7667391 ACCCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAAATTGATTATTAAAAT
Found at i:7668054 original size:11 final size:9
Alignment explanation
Indices: 7668022--7668060 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
7668012 AATGATGTTT
7668022 TAATATTAA
1 TAATATTAA
*
7668031 TAATATTAC
1 TAATATTAA
7668040 TAATGCATTAA
1 TAAT--ATTAA
7668051 TAATATTAA
1 TAATATTAA
7668060 T
1 T
7668061 GATGGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (9 bp):
TAATATTAA
Found at i:7669134 original size:31 final size:30
Alignment explanation
Indices: 7669073--7669183 Score: 136
Period size: 30 Copynumber: 3.7 Consensus size: 30
7669063 CCTTAGAGGT
7669073 CCCTAAACTATCCAAAAATTATA-TTTTAAC
1 CCCTAAACT-TCCAAAAATTATATTTTTAAC
*
7669103 CCCTAAACTTCTTAAAAATTATATTTTTAAC
1 CCCTAAACTTC-CAAAAATTATATTTTTAAC
* *
7669134 CCTTAAACTTCCAAAAATT-TCATTTTTGAC
1 CCCTAAACTTCCAAAAATTAT-ATTTTTAAC
* *
7669164 CCCGAAACTTTCAAAAATTA
1 CCCTAAACTTCCAAAAATTA
7669184 CCATTTTACC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
29 3 0.04
30 50 0.71
31 17 0.24
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTCCAAAAATTATATTTTTAAC
Found at i:7669207 original size:29 final size:28
Alignment explanation
Indices: 7669175--7669269 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 28
7669165 CCGAAACTTT
7669175 CAAAAATTACCATTTTACCTTCGGATGTC
1 CAAAAATTACCATTTTACC-TCGGATGTC
* * *
7669204 CAAAAACT-CCATTTTTGACC-CGAACCT-TT
1 CAAAAATTACCA-TTTT-ACCTCGGA--TGTC
* *
7669233 AAAAAATTACCATTTTACCCTCGGGTGTC
1 CAAAAATTACCATTTTA-CCTCGGATGTC
7669262 CAAAAATT
1 CAAAAATT
7669270 CCGTTTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
28 8 0.16
29 32 0.65
30 9 0.18
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCTCGGATGTC
Found at i:7669247 original size:58 final size:59
Alignment explanation
Indices: 7669143--7669279 Score: 204
Period size: 58 Copynumber: 2.3 Consensus size: 59
7669133 CCCTTAAACT
* * *
7669143 TCCAAAAATTTCATTTTTGACCCCGAAACTTTCAAAAATTACCATTTTACCTTCGGATG
1 TCCAAAAATTCCATTTTTGACCCCGAAACTTTAAAAAATTACCATTTTACCCTCGGATG
* * *
7669202 TCCAAAAACTCCATTTTTGA-CCCGAACCTTTAAAAAATTACCATTTTACCCTCGGGTG
1 TCCAAAAATTCCATTTTTGACCCCGAAACTTTAAAAAATTACCATTTTACCCTCGGATG
*
7669260 TCCAAAAATTCCGTTTTTGA
1 TCCAAAAATTCCATTTTTGA
7669280 TCCTGATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 52 0.74
59 18 0.26
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (59 bp):
TCCAAAAATTCCATTTTTGACCCCGAAACTTTAAAAAATTACCATTTTACCCTCGGATG
Found at i:7669324 original size:29 final size:29
Alignment explanation
Indices: 7669234--7669325 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 29
7669224 CGAACCTTTA
* * *
7669234 AAAAATTACCATTTTAC-CCTCGGGTGTCC
1 AAAAATTACCGTTTTACTCCT-GGATGTCT
*
7669263 AAAAATT-CCGTTTTTGA-TCCT-GATTTTCCT
1 AAAAATTACCG-TTTT-ACTCCTGGA-TGT-CT
7669293 AAAAATTACCGTTTTACTCCTGGATGTCT
1 AAAAATTACCGTTTTACTCCTGGATGTCT
7669322 AAAA
1 AAAA
7669326 TGTCATTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
28 3 0.06
29 20 0.40
30 22 0.44
31 5 0.10
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (29 bp):
AAAAATTACCGTTTTACTCCTGGATGTCT
Found at i:7669401 original size:28 final size:28
Alignment explanation
Indices: 7669349--7669411 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
7669339 CCCAAATTTT
**
7669349 TCCAAAATTACCATTTTGTCATCGAG-A
1 TCCAAAATTACCATTTTACCATCGAGTA
*
7669376 GTCCAAAATTACCATTTTACCCTCGAGTA
1 -TCCAAAATTACCATTTTACCATCGAGTA
7669405 TCCAAAA
1 TCCAAAA
7669412 AGTCTCATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCATCGAGTA
Found at i:7678172 original size:13 final size:13
Alignment explanation
Indices: 7678152--7678195 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
7678142 TGCAAAAGAA
7678152 TCATTTCTCATTT
1 TCATTTCTCATTT
* *
7678165 TTATTTCTTATTT
1 TCATTTCTCATTT
7678178 TCATTT-TCATTT
1 TCATTTCTCATTT
*
7678190 CCATTT
1 TCATTT
7678196 TGAGAAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:7681108 original size:3 final size:3
Alignment explanation
Indices: 7681100--7681139 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7681090 ATAATTCTAC
7681100 TCT TCT 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 T
7681140 TTTGTGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7684265 original size:8 final size:7
Alignment explanation
Indices: 7684243--7684272 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7684233 TTTTTTTGTT
7684243 CCCCTTC
1 CCCCTTC
7684250 CCCCTTC
1 CCCCTTC
*
7684257 CCCCTTT
1 CCCCTTC
7684264 CCCCTTC
1 CCCCTTC
7684271 CC
1 CC
7684273 TTCTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
CCCCTTC
Found at i:7684757 original size:18 final size:18
Alignment explanation
Indices: 7684730--7684774 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
7684720 GAAAGGGAAA
*
7684730 GAAAAAGAGTATGAAAAC
1 GAAAAGGAGTATGAAAAC
7684748 GAAAAGGAGTATGAAAAC
1 GAAAAGGAGTATGAAAAC
7684766 GAAAAGGAG
1 GAAAAGGAG
7684775 AACTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.29, T:0.09
Consensus pattern (18 bp):
GAAAAGGAGTATGAAAAC
Found at i:7684914 original size:15 final size:15
Alignment explanation
Indices: 7684894--7684927 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
7684884 TAAAGAATTT
*
7684894 GAATGGAGAAGGAGA
1 GAATGGAGAAGGACA
7684909 GAATGGAGAAGGACA
1 GAATGGAGAAGGACA
7684924 GAAT
1 GAAT
7684928 TTGGGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.41, T:0.09
Consensus pattern (15 bp):
GAATGGAGAAGGACA
Found at i:7686515 original size:41 final size:42
Alignment explanation
Indices: 7686463--7686608 Score: 147
Period size: 41 Copynumber: 3.5 Consensus size: 42
7686453 AATCTTCCTT
* * *
7686463 TTTAAAC--AATCTTATGCTC-TACCAAGTCATAAGTCTTCA
1 TTTAAACATAATCTCATGCTCATTCCAAGTCACAAGTCTTCA
* * *
7686502 TTTAAACATAATCTCATACTCATTTCAGGTCACAAGTCTTC-
1 TTTAAACATAATCTCATGCTCATTCCAAGTCACAAGTCTTCA
* * ** *
7686543 CTTAAACATAATCTCCTGCTCATTCTGAGTCACGAGTCTTCCA
1 TTTAAACATAATCTCATGCTCATTCCAAGTCACAAGTCTT-CA
*
7686586 TTTATACATAATCTCATGCTCAT
1 TTTAAACATAATCTCATGCTCAT
7686609 CCCGAGACAT
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
39 7 0.08
41 42 0.49
42 16 0.19
43 20 0.24
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (42 bp):
TTTAAACATAATCTCATGCTCATTCCAAGTCACAAGTCTTCA
Found at i:7686607 original size:43 final size:43
Alignment explanation
Indices: 7686494--7686632 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 43
7686484 CCAAGTCATA
* * *
7686494 AGTCTT-CATTTAAACATAATCTCATACTCATT-TCAGGTCACA
1 AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGA-GTCACG
*
7686536 AGTCTTCC--TTAAACATAATCTCCTGCTCATTCTGAGTCACG
1 AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGTCACG
* * * * *
7686577 AGTCTTCCATTTATACATAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGTCACG
7686620 AGTCTTCCATTTA
1 AGTCTTCCATTTA
7686633 CGCCAAGTGA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 34 0.41
42 8 0.10
43 41 0.49
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (43 bp):
AGTCTTCCATTTAAACATAATCTCATGCTCATTCTGAGTCACG
Found at i:7687984 original size:24 final size:24
Alignment explanation
Indices: 7687957--7688081 Score: 131
Period size: 24 Copynumber: 5.5 Consensus size: 24
7687947 AATCATTCTT
7687957 ACTACCGATACATCAATACCATAA
1 ACTACCGATACATCAATACCATAA
* *
7687981 ACTATCGATAC-TTACAT--C-TAA
1 ACTACCGATACATCA-ATACCATAA
7688002 ACTACCGATACATCAATACCATAA
1 ACTACCGATACATCAATACCATAA
* *
7688026 ACTATCGATAC-TTACAT--C-TAA
1 ACTACCGATACATCA-ATACCATAA
7688047 ACTACCGATACATCAATACCATAA
1 ACTACCGATACATCAATACCATAA
*
7688071 ACTATCGATAC
1 ACTACCGATAC
7688082 TTACATCTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
21 30 0.37
22 6 0.07
23 6 0.07
24 40 0.49
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.26
Consensus pattern (24 bp):
ACTACCGATACATCAATACCATAA
Found at i:7688004 original size:21 final size:21
Alignment explanation
Indices: 7687978--7688102 Score: 110
Period size: 21 Copynumber: 5.7 Consensus size: 21
7687968 ATCAATACCA
*
7687978 TAAACTATCGATACTTACATC
1 TAAACTACCGATACTTACATC
*
7687999 TAAACTACCGATACAT-CAATACC
1 TAAACTACCGATACTTAC-AT--C
*
7688022 ATAAACTATCGATACTTACATC
1 -TAAACTACCGATACTTACATC
*
7688044 TAAACTACCGATACAT-CAATACC
1 TAAACTACCGATACTTAC-AT--C
*
7688067 ATAAACTATCGATACTTACATC
1 -TAAACTACCGATACTTACATC
*
7688089 TAAACGACCGATAC
1 TAAACTACCGATAC
7688103 AACCCAAGTC
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
20 2 0.02
21 44 0.52
22 2 0.02
23 2 0.02
24 32 0.38
25 2 0.02
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (21 bp):
TAAACTACCGATACTTACATC
Found at i:7688007 original size:45 final size:45
Alignment explanation
Indices: 7687957--7688103 Score: 285
Period size: 45 Copynumber: 3.3 Consensus size: 45
7687947 AATCATTCTT
7687957 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
1 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
7688002 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
1 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
7688047 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
1 ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
*
7688092 ACGACCGATACA
1 ACTACCGATACA
7688104 ACCCAAGTCA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 101 1.00
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.25
Consensus pattern (45 bp):
ACTACCGATACATCAATACCATAAACTATCGATACTTACATCTAA
Found at i:7692573 original size:24 final size:24
Alignment explanation
Indices: 7692546--7692602 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
7692536 TTTAGCCAAC
7692546 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
7692570 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
7692594 ACTAGCCCA
1 ACGAGCCCA
7692603 AACAGAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTAGCTCTT
Found at i:7699562 original size:18 final size:18
Alignment explanation
Indices: 7699541--7699598 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 18
7699531 AAAAATTACA
7699541 AAAAATTATAAAAATTTT
1 AAAAATTATAAAAATTTT
*
7699559 AAAAATTAT--ATATTTT
1 AAAAATTATAAAAATTTT
* *
7699575 TAAAATTATAAAAAAATTT
1 AAAAATTAT-AAAAATTTT
7699594 AAAAA
1 AAAAA
7699599 ATCTAAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 14 0.44
18 9 0.28
19 9 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAAAATTTT
Found at i:7700847 original size:17 final size:17
Alignment explanation
Indices: 7700813--7700852 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7700803 ACCTTAACTT
*
7700813 TAAAAAGTTATTATTAA
1 TAAAAAGTTATTAATAA
7700830 TAAATAAGTTA-TAATAA
1 TAAA-AAGTTATTAATAA
7700847 TAAAAA
1 TAAAAA
7700853 AAACTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TAAAAAGTTATTAATAA
Found at i:7700888 original size:22 final size:21
Alignment explanation
Indices: 7700854--7700894 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7700844 TAATAAAAAA
7700854 AACTATAAAATTTTCTATAAAT
1 AACTATAAAATTTT-TATAAAT
**
7700876 AACTATACTATTTTTATAA
1 AACTATAAAATTTTTATAA
7700895 TATATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
AACTATAAAATTTTTATAAAT
Found at i:7708603 original size:23 final size:23
Alignment explanation
Indices: 7708526--7708738 Score: 142
Period size: 23 Copynumber: 9.5 Consensus size: 23
7708516 TAAACGGAAC
* * *
7708526 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
7708548 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7708570 GGCAACAGAGAACACACAAAGTGCT
1 --AAACAGAGAGCACACAAAGTGCT
*
7708595 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
7708615 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7708634 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
7708657 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
7708680 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
7708705 AAACAGAGAGCACACACAA-TGCT
1 AAACAGAGAGCACACA-AAGTGCT
*
7708728 AATCAGAGAGC
1 AAACAGAGAGC
7708739 GCGCTAGTGT
Statistics
Matches: 149, Mismatches: 26, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 76 0.51
24 15 0.10
25 22 0.15
26 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:7708696 original size:46 final size:46
Alignment explanation
Indices: 7708618--7708738 Score: 163
Period size: 48 Copynumber: 2.6 Consensus size: 46
7708608 ACAAAGTACT
* * * *
7708618 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GACGTGCTAAACAGA
7708664 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGACGTGCTAAACAGA
*
7708712 GAGCACACACAATGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
7708739 GCGCTAGTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 26 0.39
48 40 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGACGTGCTAAACAGA
Found at i:7712655 original size:28 final size:27
Alignment explanation
Indices: 7712603--7712661 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
7712593 ATAAATACGA
*
7712603 AAAAAAAATCATAATACAAAATTAATTT
1 AAAAAAAACCATAATACAAAATTAA-TT
* **
7712631 AAAAAAAACCTTAATACAATGTTAATT
1 AAAAAAAACCATAATACAAAATTAATT
7712658 AAAA
1 AAAA
7712662 TGAGAGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAAAAACCATAATACAAAATTAATT
Found at i:7712699 original size:18 final size:18
Alignment explanation
Indices: 7712668--7712725 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 18
7712658 AAAATGAGAG
*
7712668 TTGAGAGAGGATTGAAAA
1 TTGAGAGAGAATTGAAAA
*
7712686 TTGAGTGAGAATTGAAAAAGGA
1 TTGAGAGAGAATTG--AAA--A
7712708 TTGAGAGAGAATTGAAAA
1 TTGAGAGAGAATTGAAAA
7712726 AGTAAGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 13 0.39
20 6 0.18
22 14 0.42
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (18 bp):
TTGAGAGAGAATTGAAAA
Found at i:7712710 original size:22 final size:22
Alignment explanation
Indices: 7712685--7712727 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7712675 AGGATTGAAA
*
7712685 ATTGAGTGAGAATTGAAAAAGG
1 ATTGAGAGAGAATTGAAAAAGG
7712707 ATTGAGAGAGAATTGAAAAAG
1 ATTGAGAGAGAATTGAAAAAG
7712728 TAAGAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (22 bp):
ATTGAGAGAGAATTGAAAAAGG
Found at i:7733072 original size:53 final size:53
Alignment explanation
Indices: 7733006--7733179 Score: 174
Period size: 61 Copynumber: 3.2 Consensus size: 53
7732996 GTTAGACAAA
*
7733006 AAAAAAT-TTGGTGTTGGTCATGCATTGGCCGACACTACATTTTTATCAGATT
1 AAAAAATATTGGTGTTGGTCATGCATTGGCCGACACCACATTTTTATCAGATT
* * * * * *
7733058 AAAAAATATTGGTGTTGGTCATACATTGACTGACACCACCTTTTTTATTTA-ATA
1 AAAAAATATTGGTGTTGGTCATGCATTGGCCGACACCA-CATTTTTA-TCAGATT
*
7733112 AAAAAATAATTTTTTTTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTATCAGA-T
1 AAAAAAT-A------TTGGTGTTGGTCATGCATTGGCCGACACCACATTTTTATCAGATT
7733171 AAAAAATAT
1 AAAAAATAT
7733180 ATTTTTTTGT
Statistics
Matches: 98, Mismatches: 13, Indels: 22
0.74 0.10 0.17
Matches are distributed among these distances:
52 8 0.08
53 26 0.27
54 16 0.16
55 3 0.03
58 1 0.01
59 9 0.09
60 8 0.08
61 27 0.28
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (53 bp):
AAAAAATATTGGTGTTGGTCATGCATTGGCCGACACCACATTTTTATCAGATT
Found at i:7733161 original size:61 final size:61
Alignment explanation
Indices: 7733066--7733230 Score: 198
Period size: 61 Copynumber: 2.8 Consensus size: 61
7733056 TTAAAAAATA
* * *
7733066 TTGGTGTTGGTCATACATTGACTGACACCACCTTTTTTATTTAATAAAAAAATA-ATTTTTT
1 TTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTTATTTAATAAAAAAATATA-TTTTT
*
7733127 TTGGTGTTGGTCATGCATTGGCCGACACCACC-TTTTTA-TCAGAT-AAAAAATATATTTTT
1 TTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTTATTTA-ATAAAAAAATATATTTTT
* * *
7733186 TT-GTGTTAGTCATTGC-TTGGTCGACACCACCTTTTTTATCTAATA
1 TTGGTGTTGGTCA-TGCATTGGCCGACACCACCTTTTTTATTTAATA
7733231 GAACCAATTC
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
58 23 0.26
59 28 0.31
60 10 0.11
61 29 0.32
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (61 bp):
TTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTTATTTAATAAAAAAATATATTTTT
Found at i:7733211 original size:58 final size:60
Alignment explanation
Indices: 7733066--7733221 Score: 178
Period size: 58 Copynumber: 2.6 Consensus size: 60
7733056 TTAAAAAATA
* * * * *
7733066 TTGGTGTTGGTCATACATTGACTGACACCACCTTTTTTATTTAATAAAAAAATAATTTTTT
1 TTGGTGTTAGTCATGCATTGGCCGACACCACC-TTTTTATTCAATAAAAAAATAATTTTTT
*
7733127 TTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTA-TCAGAT-AAAAAAT-ATATTTTT
1 TTGGTGTTAGTCATGCATTGGCCGACACCACCTTTTTATTCA-ATAAAAAAATAAT-TTTTT
*
7733186 TT-GTGTTAGTCATTGC-TTGGTCGACACCACCTTTTT
1 TTGGTGTTAGTCA-TGCATTGGCCGACACCACCTTTTT
7733222 TATCTAATAG
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
58 30 0.35
59 19 0.22
60 8 0.09
61 29 0.34
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (60 bp):
TTGGTGTTAGTCATGCATTGGCCGACACCACCTTTTTATTCAATAAAAAAATAATTTTTT
Found at i:7735904 original size:95 final size:95
Alignment explanation
Indices: 7735796--7736821 Score: 1392
Period size: 95 Copynumber: 11.0 Consensus size: 95
7735786 ATTTAAAATT
* *
7735796 AATTTTAACATTATTTAAATAAAAAAGTTTATTATAATATTTTAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* *
7735861 GATTTGACAATACATTATTTACCAAATTCA
66 GATTTGACAATACTTTTTTTACCAAATTCA
7735891 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATA-TTT-ATATTTTATCAAATAATGTGT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAAT-TTTTATCAAATAATGTGT
** * *
7735954 TGATTTGATTATTCTTTTTTTATCAAATTCA
65 TGATTTGACAATACTTTTTTTACCAAATTCA
*
7735985 AATTTTAAAATTATTTAAAT----AA-A--ATTATAATATTTCAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* *
7736043 GATTTGATAATTCTTTTTTATACCAAATTCA
66 GATTTGACAATACTTTTTT-TACCAAATTCA
* * *
7736074 AATTTTAAAATTATTTAAAT-AAAAAGATTATTATAATATTTCAATTTTTATCAAATGATGTATT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* *
7736138 GATTTGATAATTCTTTTTTTTACCAAATTCA
66 GATTTGACAATAC-TTTTTTTACCAAATTCA
*
7736169 AATTTTAAAATTATTTAAAT-AAAAAGATTATTATAATATTTTATTTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* * * **
7736233 GATTTGAAAATACATTATTTACCAAATTTT
66 GATTTGACAATACTTTTTTTACCAAATTCA
* ** * *
7736263 AATTTTAAAATAATTTAAAT-AAAAATTTTATTATAATATTTCAATTTTTATCAAATAATATGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* * *
7736327 GATTTGATAATTTCTTTTTTTATCAAATTCA
66 GATTTGACAA-TACTTTTTTTACCAAATTCA
*
7736358 AATTTTAAAATTATTTAAATAAAAAA-ATTATTATAATATTATAA-TTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* *
7736421 GATTTGACAATTCCTTTTTTTTACCAAATTAA
66 GATTTGACAA-TAC-TTTTTTTACCAAATTCA
* * *
7736453 AATTTTAAAATTATTTAAGTAAAAAAAATTATTTTAATATTTTAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
7736518 GATTTGACAAT--TTTTTTTACCAAATTCA
66 GATTTGACAATACTTTTTTTACCAAATTCA
*
7736546 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTCAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* * *
7736611 GAATTGACAATACATTATTTACCAAATTCA
66 GATTTGACAATACTTTTTTTACCAAATTCA
7736641 AATTTTAAAATTATTTAAATAAAAAA-ATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
*
7736705 GATTTGAC-A-A-TTTTTTTATCAAATTCA
66 GATTTGACAATACTTTTTTTACCAAATTCA
* * * * * * *
7736732 AAATTCAAAATTATTTAAAT-AAAAATATTATTATATTATTTCAATTTTTATAAAATAATGTGTA
1 AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* * *
7736796 AATTTGACAATACATTATTTACCAAA
66 GATTTGACAATACTTTTTTTACCAAA
7736822 ATACCCTTAA
Statistics
Matches: 838, Mismatches: 71, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
87 9 0.01
88 39 0.05
89 33 0.04
90 7 0.01
91 73 0.09
92 4 0.00
93 92 0.11
94 230 0.27
95 294 0.35
96 28 0.03
97 29 0.03
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (95 bp):
AATTTTAAAATTATTTAAATAAAAAAGATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
GATTTGACAATACTTTTTTTACCAAATTCA
Found at i:7736440 original size:284 final size:280
Alignment explanation
Indices: 7735796--7736821 Score: 1439
Period size: 284 Copynumber: 3.7 Consensus size: 280
7735786 ATTTAAAATT
* *
7735796 AATTTTAACATTATTTAAATAAAAAAGTTTATTATAATATTTTAATTTTTATCAAATAATGTGTT
1 AATTTTAAAATTATTTAAATAAAAAA-ATTATTATAATATTTTAATTTTTATCAAATAATGTGTT
* *
7735861 GATTTGACAATACATTATTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTAT
65 GATTTGACAAT-CTTTTTTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTAT
** * * * *
7735926 AATA-TTT-ATATTTTATCAAATAATGTGTTGATTTGATTATTCTTTTTTTATCAAATTCAAATT
129 AATATTTTAAT-TTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTCAAATT
7735989 TTAAAATTATTTAAAT--AAA--ATTATAATATTTCAATTTTTATCAAATAATGTGTTGATTTGA
193 TTAAAATTATTTAAATAAAAATTATTATAATATTTCAATTTTTATCAAATAATGTGTTGATTTGA
7736050 TAATTCTTTTTTATACCAAATTCA
258 TAATTCTTTTTT-TACCAAATTCA
* * * *
7736074 AATTTTAAAATTATTTAAATAAAAAGATTATTATAATATTTCAATTTTTATCAAATGATGTATTG
1 AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTTTAATTTTTATCAAATAATGTGTTG
*
7736139 ATTTGATAATTCTTTTTTTTACCAAATTCAAATTTTAAAATTATTTAAAT-AAAAAGATTATTAT
66 ATTTGACAA-TC-TTTTTTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTAT
* * **
7736203 AATATTTTATTTTTTATCAAATAATGTGTTGATTTGAAAATACATTATTTACCAAATTTTAATTT
129 AATATTTTAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTCAAATTT
* *
7736268 TAAAATAATTTAAATAAAAATTTTATTATAATATTTCAATTTTTATCAAATAATATGTTGATTTG
194 TAAAATTATTTAAATAAAAA--TTATTATAATATTTCAATTTTTATCAAATAATGTGTTGATTTG
*
7736333 ATAATTTCTTTTTTTATCAAATTCA
257 ATAA-TTCTTTTTTTACCAAATTCA
*
7736358 AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTATAA-TTTTATCAAATAATGTGTTG
1 AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTTTAATTTTTATCAAATAATGTGTTG
* * * *
7736422 ATTTGACAATTCCTTTTTTTTACCAAATTAAAATTTTAAAATTATTTAAGTAAAAAAAATTATTT
66 ATTTGACAA-T-C-TTTTTTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTA
* *
7736487 TAATATTTTAATTTTTATCAAATAATGTGTTGATTTGACAAT--TTTTTTTACCAAATTCAAATT
128 TAATATTTTAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTCAAATT
*
7736550 TTAAAATTATTTAAATAAAAAAGATTATTATAATATTTCAATTTTTATCAAATAATGTGTTGAAT
193 TTAAAATTATTTAAAT--AAAA-ATTATTATAATATTTCAATTTTTATCAAATAATGTGTTGATT
* * * *
7736615 TGACAATACATTATTTACCAAATTCA
255 TGATAATTCTTTTTTTACCAAATTCA
7736641 AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTTTAATTTTTATCAAATAATGTGTTG
1 AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTTTAATTTTTATCAAATAATGTGTTG
* * * * *
7736706 ATTTGACAA--TTTTTTTATCAAATTCAAAATTCAAAATTATTTAAAT-AAAAATATTATTATAT
66 ATTTGACAATCTTTTTTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTATAA
* * **
7736768 TATTTCAATTTTTATAAAATAATGTGTAAATTTGACAATACATTATTTACCAAA
131 TATTTTAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAA
7736822 ATACCCTTAA
Statistics
Matches: 669, Mismatches: 60, Indels: 36
0.87 0.08 0.05
Matches are distributed among these distances:
277 62 0.09
278 171 0.26
279 33 0.05
280 14 0.02
283 119 0.18
284 205 0.31
285 64 0.10
286 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (280 bp):
AATTTTAAAATTATTTAAATAAAAAAATTATTATAATATTTTAATTTTTATCAAATAATGTGTTG
ATTTGACAATCTTTTTTTACCAAATTCAAATTTTAAAATTATTTAAATAAAAAAGATTATTATAA
TATTTTAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTCAAATTTTA
AAATTATTTAAATAAAAATTATTATAATATTTCAATTTTTATCAAATAATGTGTTGATTTGATAA
TTCTTTTTTTACCAAATTCA
Found at i:7736917 original size:22 final size:22
Alignment explanation
Indices: 7736889--7736937 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
7736879 TAGCATTGGG
*
7736889 CCACCCAAATTTCAGCTT-ACCA
1 CCACCCAAATTCCAG-TTCACCA
7736911 CCACCCAAATTCCAGTTCACCA
1 CCACCCAAATTCCAGTTCACCA
7736933 CCACC
1 CCACC
7736938 TTCTGACTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.31, C:0.47, G:0.04, T:0.18
Consensus pattern (22 bp):
CCACCCAAATTCCAGTTCACCA
Found at i:7739461 original size:14 final size:15
Alignment explanation
Indices: 7739440--7739478 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
7739430 AAGAACCTAT
7739440 ATAATAAAATAAAAA
1 ATAATAAAATAAAAA
7739455 A-AATAAAATAAAAA
1 ATAATAAAATAAAAA
7739469 ATAA-AAAATA
1 ATAATAAAATA
7739479 TGAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAATAAAATAAAAA
Found at i:7739466 original size:19 final size:19
Alignment explanation
Indices: 7739442--7739478 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7739432 GAACCTATAT
7739442 AATAAAATAA-AAAAAATAA
1 AATAAAA-AATAAAAAATAA
7739461 AATAAAAAATAAAAAATA
1 AATAAAAAATAAAAAATA
7739479 TGAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (19 bp):
AATAAAAAATAAAAAATAA
Found at i:7739471 original size:21 final size:22
Alignment explanation
Indices: 7739440--7739490 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
7739430 AAGAACCTAT
7739440 ATAATAAAATAAAAAAAAT-AAA
1 ATAA-AAAATAAAAAAAATGAAA
*
7739462 ATAAAAAATAAAAAATATGAAA
1 ATAAAAAATAAAAAAAATGAAA
*
7739484 ACAAAAA
1 ATAAAAA
7739491 TGGATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
ATAAAAAATAAAAAAAATGAAA
Found at i:7741126 original size:20 final size:21
Alignment explanation
Indices: 7741087--7741139 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
7741077 GCAAATGATG
*
7741087 TAAAATATATTTTCGAATTTT
1 TAAAATATTTTTTCGAATTTT
*
7741108 TAAAATATTTTTTC-TATTTT
1 TAAAATATTTTTTCGAATTTT
**
7741128 CGAAATATTTTT
1 TAAAATATTTTT
7741140 AATATTTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TAAAATATTTTTTCGAATTTT
Found at i:7741145 original size:20 final size:20
Alignment explanation
Indices: 7741110--7741151 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7741100 CGAATTTTTA
**
7741110 AAATATTTTTTCTATTTTCG
1 AAATATTTTTAATATTTTCG
7741130 AAATATTTTTAATATTTTCG
1 AAATATTTTTAATATTTTCG
7741150 AA
1 AA
7741152 TTTTTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
AAATATTTTTAATATTTTCG
Found at i:7741283 original size:36 final size:37
Alignment explanation
Indices: 7741229--7741299 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
7741219 TGGCTTTTCG
7741229 AATTTTTTAAAAATTATTTTTTATATCTTCGAAATGA
1 AATTTTTTAAAAATTATTTTTTATATCTTCGAAATGA
* * *
7741266 AATTTTTTACATA-TATTTTTTATATTTTCGAAAT
1 AATTTTTTAAAAATTATTTTTTATATCTTCGAAAT
7741300 ATTAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (37 bp):
AATTTTTTAAAAATTATTTTTTATATCTTCGAAATGA
Found at i:7742417 original size:30 final size:30
Alignment explanation
Indices: 7742381--7742515 Score: 229
Period size: 29 Copynumber: 4.6 Consensus size: 30
7742371 TTTGAATTTT
* *
7742381 TTTCGTTTATTTTTTAAATTTAATTTGTAA
1 TTTCGTTTATATTTTAAATTTAATTTTTAA
7742411 TTTCGTTTATATTTT-AATTTAATTTTTAA
1 TTTCGTTTATATTTTAAATTTAATTTTTAA
7742440 TTTCGTTTATATTTT-AATTTAATTTTTAA
1 TTTCGTTTATATTTTAAATTTAATTTTTAA
7742469 TTTCGTTTATATTTTAAATTTAATTTTTAA
1 TTTCGTTTATATTTTAAATTTAATTTTTAA
*
7742499 TTTTGTTTATATTTTAA
1 TTTCGTTTATATTTTAA
7742516 GTTTCTTTTC
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 57 0.56
30 44 0.44
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTCGTTTATATTTTAAATTTAATTTTTAA
Found at i:7742428 original size:17 final size:17
Alignment explanation
Indices: 7742399--7742520 Score: 76
Period size: 17 Copynumber: 7.9 Consensus size: 17
7742389 ATTTTTTAAA
7742399 TTTA-ATTTGTAATTTCG
1 TTTATATTT-TAATTTCG
7742416 TTTATATTTTAA--T--
1 TTTATATTTTAATTTCG
*
7742429 TTAAT-TTTTAATTTCG
1 TTTATATTTTAATTTCG
7742445 TTTATATTTTAA--T--
1 TTTATATTTTAATTTCG
*
7742458 TTAAT-TTTTAATTTCG
1 TTTATATTTTAATTTCG
*
7742474 TTTATATTTTAA-AT--
1 TTTATATTTTAATTTCG
* *
7742488 TTAAT-TTTTAATTTTG
1 TTTATATTTTAATTTCG
7742504 TTTATATTTTAAGTTTC
1 TTTATATTTTAA-TTTC
7742521 TTTTCTAATT
Statistics
Matches: 80, Mismatches: 9, Indels: 31
0.67 0.08 0.26
Matches are distributed among these distances:
12 12 0.15
13 14 0.17
14 7 0.09
15 2 0.03
16 13 0.16
17 25 0.31
18 7 0.09
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (17 bp):
TTTATATTTTAATTTCG
Found at i:7742489 original size:59 final size:58
Alignment explanation
Indices: 7742381--7742515 Score: 225
Period size: 59 Copynumber: 2.3 Consensus size: 58
7742371 TTTGAATTTT
*
7742381 TTTCGTTTATTTTTTAAATTTAATTTGTAATTTCGTTTATATTTTAATTTAATTTTTAA
1 TTTCGTTTATATTTT-AATTTAATTTGTAATTTCGTTTATATTTTAATTTAATTTTTAA
*
7742440 TTTCGTTTATATTTTAATTTAATTTTTAATTTCGTTTATATTTTAAATTTAATTTTTAA
1 TTTCGTTTATATTTTAATTTAATTTGTAATTTCGTTTATATTTT-AATTTAATTTTTAA
*
7742499 TTTTGTTTATATTTTAA
1 TTTCGTTTATATTTTAA
7742516 GTTTCTTTTC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
58 28 0.39
59 44 0.61
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.65
Consensus pattern (58 bp):
TTTCGTTTATATTTTAATTTAATTTGTAATTTCGTTTATATTTTAATTTAATTTTTAA
Found at i:7743430 original size:58 final size:58
Alignment explanation
Indices: 7743339--7743921 Score: 504
Period size: 58 Copynumber: 9.8 Consensus size: 58
7743329 AATGCATGGT
* * *
7743339 CAACACACAAAAAAATATTTTTTTATCAGATAAATAAGGTAGTGTCAACCAAGCAATGAC
1 CAACACA-AAAAAAATA-TTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC
* * * * *
7743399 CAATATCAAAAAAAATA-TTTTTATCTGATAAAAAAGGTGGTGTCGGCTAA-TACATGAC
1 CAACA-CAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCA-ATGAC
* ** * * *
7743457 CAACACTAAAAAAAATTATTTTTTTATCAGATAAATAAGGCAGTGTCGGCCAAGCATTGGC
1 CAACAC-AAAAAAAA-TA-TTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC
* * * * *
7743518 CAACACCAAAAAAATATTTTTTATCTGAT-AAAAAGGTGGTGTCGGCTAA-TACATGAC
1 CAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCA-ATGAC
* ** * * *
7743575 TAACACAAAAAATTTTGATTTTTTAATCAGATAAAAAAAGTGGTGTCGGCCAAACAATGAC
1 CAACACAAAAAA-AAT-ATTTTTT-ATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC
* * *
7743636 TC-ACACCAAAAAAATATTTTTTATCTGATAAAAAAATGTTGGTGTCGACCAATGC-ATGAC
1 -CAACACAAAAAAAATATTTTTTATCAGAT-AAAAAA-GGTGGTGTCGACCAA-GCAATGAC
* *
7743696 CAATACCAAAAAAATTTGAATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAAT-AGC
1 CAACA-CAAAAAAA-AT--ATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGA-C
* * * *
7743758 CAACACAAAAAAAATTACATTTTTATCAGATAAAAAAGGTGGTGTCTACCAAGTAATGGC
1 CAACACAAAAAAAA-TA-TTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC
* *
7743818 CAACACCAAAAAAATTATTTTTTATCTA-AT-AAAAAGGTGGTGTCGACCAATGC-ATGGC
1 CAACA-CAAAAAAAATATTTTTTATC-AGATAAAAAAGGTGGTGTCGACCAA-GCAATGAC
* * *
7743876 CAACA-AAAAAAATTAATTTTTTATTAGATAAAAAAGGTAGTGTCGA
1 CAACACAAAAAAAAT-ATTTTTTATCAGATAAAAAAGGTGGTGTCGA
7743922 TCAATGCATG
Statistics
Matches: 430, Mismatches: 60, Indels: 68
0.77 0.11 0.12
Matches are distributed among these distances:
56 11 0.03
57 42 0.10
58 107 0.25
59 37 0.09
60 91 0.21
61 99 0.23
62 24 0.06
63 6 0.01
64 13 0.03
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (58 bp):
CAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC
Found at i:7743469 original size:118 final size:117
Alignment explanation
Indices: 7743343--7743931 Score: 599
Period size: 118 Copynumber: 5.0 Consensus size: 117
7743333 CATGGTCAAC
* * * *
7743343 ACACAAAAAAA-TATTTTTTTATCAGATAAATAAGGTAGTGTCAACCAAGCAATGACCAATATCA
1 ACACAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGACCAACA-CA
* *
7743407 AAAAAAATA-TTTTTATCTGATAAAAAAGGTGGTGTCGGCTAATACATGACCA
65 AAAAAAATATTTTTTATCTGATAAAAAAGGTGGTGTCGACCAATACATGACCA
* ** * * *
7743459 ACACTAAAAAAAATTATTTTTTTATCAGATAAATAAGGCAGTGTCGGCCAAGCATTGGCCAACAC
1 ACAC--AAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGACCAACAC
* * * *
7743524 CAAAAAAATATTTTTTATCTGAT-AAAAAGGTGGTGTCGGCTAATACATGACTA
64 AAAAAAAATATTTTTTATCTGATAAAAAAGGTGGTGTCGACCAATACATGACCA
* * * * *
7743577 ACACAAAAAATTTTGATTTTTTAATCAGATAAAAAAAGTGGTGTCGGCCAAACAATGACTC-ACA
1 ACACAAAAAA-ATT-ATTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGAC-CAACA
* * *
7743641 CCAAAAAAATATTTTTTATCTGATAAAAAAATGTTGGTGTCGACCAATGCATGACCA
63 CAAAAAAAATATTTTTTATCTGAT-AAAAAA-GGTGGTGTCGACCAATACATGACCA
* *
7743698 ATACCAAAAAAATTTGAATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAAT-AGCCAAC
1 ACA-CAAAAAAA-TT-ATTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGA-CCAAC
* * * *
7743762 ACAAAAAAAATTACATTTTTATCAGATAAAAAAGGTGGTGTCTACCAAGTA-ATGGCCA
62 ACAAAAAAAA-TA-TTTTTTATCTGATAAAAAAGGTGGTGTCGACCAA-TACATGACCA
*
7743820 ACACCAAAAAAATTA-TTTTTTATCTA-AT-AAAAAGGTGGTGTCGACCAATGC-ATGGCCAACA
1 ACA-CAAAAAAATTATTTTTTTATC-AGATAAAAAAGGTGGTGTCGACCAA-GCAATGACCAACA
* * * *
7743881 -AAAAAAATTAATTTTTTAT-TAGATAAAAAAGGTAGTGTCGATCAATGCATG
63 CAAAAAAAAT-ATTTTTTATCT-GATAAAAAAGGTGGTGTCGACCAATACATG
7743932 GCTAACACCA
Statistics
Matches: 405, Mismatches: 45, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
115 1 0.00
116 42 0.10
117 10 0.02
118 141 0.35
119 70 0.17
120 7 0.02
121 26 0.06
122 88 0.22
123 9 0.02
124 11 0.03
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (117 bp):
ACACAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCAATGACCAACACAA
AAAAAATATTTTTTATCTGATAAAAAAGGTGGTGTCGACCAATACATGACCA
Found at i:7748598 original size:22 final size:22
Alignment explanation
Indices: 7748542--7748601 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
7748532 ATTCCGATTG
* *
7748542 AATTAATTTAA-TTAATCAATT
1 AATTAAATTAATTTGATCAATT
* * *
7748563 GATTAACTAAATTTGATCAATT
1 AATTAAATTAATTTGATCAATT
7748585 AATTAAATTAATTTGAT
1 AATTAAATTAATTTGAT
7748602 TTTACTCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTAAATTAATTTGATCAATT
Found at i:7780959 original size:25 final size:26
Alignment explanation
Indices: 7780931--7780987 Score: 62
Period size: 31 Copynumber: 2.0 Consensus size: 26
7780921 AGCTTTGCCG
7780931 CTTC-ACATGACAGTATATAATTCAA
1 CTTCAACATGACAGTATATAATTCAA
7780956 CTTCAGTAATACATGACAGTATATAATTCAA
1 CTTC----A-ACATGACAGTATATAATTCAA
7780987 C
1 C
7780988 CCCGAAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.15
31 22 0.85
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (26 bp):
CTTCAACATGACAGTATATAATTCAA
Found at i:7784381 original size:13 final size:13
Alignment explanation
Indices: 7784365--7784399 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7784355 TCAATTCATT
7784365 TAATTAATTAAAA
1 TAATTAATTAAAA
* *
7784378 TAATTAATTATAC
1 TAATTAATTAAAA
7784391 TAATTAATT
1 TAATTAATT
7784400 TTTTTCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATTAAAA
Found at i:7786492 original size:51 final size:50
Alignment explanation
Indices: 7786413--7786596 Score: 217
Period size: 51 Copynumber: 3.6 Consensus size: 50
7786403 GAAAAAGTCC
*
7786413 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTTT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCC-TTACAGATTAAAGGTCT
* * *
7786464 GATGACTAAGTGTCATTGTGAGTGAATGAATTCCTTACGGATTAAAGGTCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTACAGATTAAAGGTCT
* * * *
7786515 AATGACCAAGTGTCATCGTGAGTAAATGAATCCATGAC-GAATTAAAGGTCA
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCC-TTACAG-ATTAAAGGTCT
* * * *
7786566 AATAACTCAGTGTCATCGTGAGTATATGAAT
1 GATGACTAAGTGTCATCGTGAGTAAATGAAT
7786597 TCCTATATGG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
50 4 0.03
51 109 0.94
52 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (50 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTACAGATTAAAGGTCT
Found at i:7786595 original size:102 final size:102
Alignment explanation
Indices: 7786414--7786600 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 102
7786404 AAAAAGTCCG
* * * *** *
7786414 ATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTTTGATGACTAAGTGTCA
1 ATGACCAAGTGTCATCGTGAGTAAATGAATCCATGACAGATTAAAGGTCAAATAACTAAGTGTCA
*
7786479 TTGTGAGTGAATGAATTCCTTACGGATTAAAGGTCTA
66 TCGTGAGTGAATGAATTCCTTACGGATTAAAGGTCTA
*
7786516 ATGACCAAGTGTCATCGTGAGTAAATGAATCCATGAC-GAATTAAAGGTCAAATAACTCAGTGTC
1 ATGACCAAGTGTCATCGTGAGTAAATGAATCCATGACAG-ATTAAAGGTCAAATAACTAAGTGTC
7786580 ATCGTGAGT-ATATGAATTCCT
65 ATCGTGAGTGA-ATGAATTCCT
7786601 ATATGGAACA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
101 2 0.03
102 72 0.97
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (102 bp):
ATGACCAAGTGTCATCGTGAGTAAATGAATCCATGACAGATTAAAGGTCAAATAACTAAGTGTCA
TCGTGAGTGAATGAATTCCTTACGGATTAAAGGTCTA
Found at i:7787420 original size:21 final size:22
Alignment explanation
Indices: 7787396--7787455 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
7787386 TAGTTGTATG
7787396 ACTTGTATCGGTAGAAATTA-T
1 ACTTGTATCGGTAGAAATTAGT
*
7787417 ACTTGTATCGTTAG-AATTAGT
1 ACTTGTATCGGTAGAAATTAGT
***
7787438 AAAAGTATCGGTAGAAAT
1 ACTTGTATCGGTAGAAAT
7787456 CTACACAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 24 0.75
22 3 0.09
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (22 bp):
ACTTGTATCGGTAGAAATTAGT
Found at i:7796776 original size:51 final size:52
Alignment explanation
Indices: 7796694--7796897 Score: 270
Period size: 51 Copynumber: 4.0 Consensus size: 52
7796684 GCTATAAACG
*
7796694 AAAGAGTCCGATGACTAAGTGTCATCATGAGTAAATGAA-TCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAACTCCTTTACGGATT
* *
7796746 AAAGGTCCGATGACTAACTGTCATCGTGAGTAAATGAATTCC-TTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAACTCCTTTACGGATT
* * * * *
7796797 AAAGGTCCTATGACCAAGTGTCATCGTGAGTAAATGAA-TCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAACTCCTTTACGGATT
* * * *
7796848 AAAGGTCTGATGACTCAGTGTCATCGTGAGTATATGAACTCCTATACGGA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAACTCCTTTACGGA
7796898 ACAAGGGGTC
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
50 3 0.02
51 116 0.87
52 14 0.11
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAACTCCTTTACGGATT
Found at i:7799139 original size:20 final size:20
Alignment explanation
Indices: 7799114--7799387 Score: 291
Period size: 20 Copynumber: 13.6 Consensus size: 20
7799104 CTAAATATTA
7799114 AGGCTTTGTGCCGGTGTTTC
1 AGGCTTTGTGCCGGTGTTTC
*
7799134 AGGCTTCGTGCCGGTGTTTC
1 AGGCTTTGTGCCGGTGTTTC
* *
7799154 AGGCTTAGTGCCGGTGTATC
1 AGGCTTTGTGCCGGTGTTTC
*
7799174 AGGCTTTGTGTCGGTGTTTC
1 AGGCTTTGTGCCGGTGTTTC
** *
7799194 AGGCTTTGTGCCAATGTATC
1 AGGCTTTGTGCCGGTGTTTC
*
7799214 AAGCTTTGTGCCGGTGTTTC
1 AGGCTTTGTGCCGGTGTTTC
* * * *
7799234 AGGCTTCGTGTCAGTGTATC
1 AGGCTTTGTGCCGGTGTTTC
7799254 AGGCTTTGTGCCGGTGTTTC
1 AGGCTTTGTGCCGGTGTTTC
* *
7799274 AGG-TTTCGTGCCAGTGTATC
1 AGGCTTT-GTGCCGGTGTTTC
* * *
7799294 AAGCTTAGTGCCAGTGTATT-
1 AGGCTTTGTGCCGGTGT-TTC
*
7799314 AGGCTTTGTGCAGGTGTATTC
1 AGGCTTTGTGCCGGTGT-TTC
* *
7799335 AGGCTTAGTGCCGGTGTATC
1 AGGCTTTGTGCCGGTGTTTC
* *
7799355 AAGCTTTGTGTCGGTGTATTC
1 AGGCTTTGTGCCGGTGT-TTC
*
7799376 AGGCTGTGTGCC
1 AGGCTTTGTGCC
7799388 TAGTAGGCTT
Statistics
Matches: 207, Mismatches: 42, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
19 3 0.01
20 175 0.85
21 29 0.14
ACGTcount: A:0.12, C:0.19, G:0.32, T:0.36
Consensus pattern (20 bp):
AGGCTTTGTGCCGGTGTTTC
Found at i:7799401 original size:16 final size:16
Alignment explanation
Indices: 7799375--7799418 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
7799365 TCGGTGTATT
*
7799375 CAGGCTGTGTGCCTAG
1 CAGGCTTTGTGCCTAG
*
7799391 TAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
*
7799407 CAAGCTTTGTGC
1 CAGGCTTTGTGC
7799419 TGGTGGTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.32
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:7806320 original size:2 final size:2
Alignment explanation
Indices: 7806315--7806341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7806305 AAAAAAAAAA
7806315 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7806342 ATAAGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7807412 original size:16 final size:16
Alignment explanation
Indices: 7807380--7807413 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7807370 AGATTGTGAC
7807380 AAAAAATGTTAAGAAT
1 AAAAAATGTTAAGAAT
7807396 AAAAGAATGTTAA-AAT
1 AAAA-AATGTTAAGAAT
7807412 AA
1 AA
7807414 TTATTTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAAAATGTTAAGAAT
Found at i:7812224 original size:27 final size:27
Alignment explanation
Indices: 7812201--7812250 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
7812191 ACTTTTGGCT
7812201 ACCCG-GGGGC-AAATGGAAATTTTGG
1 ACCCGCGGGGCAAAATGGAAATTTTGG
* *
7812226 ACGCGCGGGGCAAAATGGTAATTTT
1 ACCCGCGGGGCAAAATGGAAATTTT
7812251 TGGTGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 5 0.24
27 12 0.57
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (27 bp):
ACCCGCGGGGCAAAATGGAAATTTTGG
Found at i:7812280 original size:29 final size:28
Alignment explanation
Indices: 7812237--7812456 Score: 157
Period size: 29 Copynumber: 7.5 Consensus size: 28
7812227 CGCGCGGGGC
*
7812237 AAAATGGTAATTTTTGGTGAAACCGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTT
*
7812267 AAAAATGGAATTTT-G-GAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGTGAAA--TCGGGGTT
* *
7812296 AAAATGATAATTTTGGTGAAATCGAGGTT
1 AAAATG-GAATTTTGGTGAAATCGGGGTT
* *
7812325 AAAAATGGAATTTT-G-GAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGTGAAA--TCGGGGTT
* *
7812354 AAAATGATAATTTTGGTGAAATTGGGGTT
1 AAAATG-GAATTTTGGTGAAATCGGGGTT
*
7812383 AAAAATGGAATTTT-G-GAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGTGAAA--TCGGGGTT
*
7812412 AAAATGGTAATTTTTGATGAAA-CTGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATC-GGGGTT
7812442 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
7812457 AAAGTTTAGG
Statistics
Matches: 153, Mismatches: 17, Indels: 41
0.73 0.08 0.19
Matches are distributed among these distances:
27 12 0.08
28 27 0.18
29 63 0.41
30 32 0.21
31 15 0.10
32 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGTGAAATCGGGGTT
Found at i:7812293 original size:58 final size:59
Alignment explanation
Indices: 7812231--7812486 Score: 360
Period size: 58 Copynumber: 4.4 Consensus size: 59
7812221 TTTGGACGCG
*
7812231 CGGGGCAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAG-TT
1 CGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
7812289 CGGGGGTAAAATGATAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
1 C-GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * **
7812348 GGGGGTAAAATGATAA-TTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAG-TT
1 CGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* *
7812405 CGGGGGTAAAATGGTAATTTTTGATGAAACTGGGGTT-AAAATGGAATTTTGGAAAGTTT
1 C-GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
*
7812464 AGGGGTAAAATGGTAATTTTTGG
1 CGGGGTAAAATGGTAATTTTTGG
7812487 ACAGTTCAGG
Statistics
Matches: 180, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
57 2 0.01
58 144 0.80
59 34 0.19
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (59 bp):
CGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:7812468 original size:29 final size:27
Alignment explanation
Indices: 7812261--7812492 Score: 175
Period size: 29 Copynumber: 8.0 Consensus size: 27
7812251 TGGTGAAACC
7812261 GGGGTTAAAAATGGAATTTTGGAAAGTT
1 GGGGTT-AAAATGGAATTTTGGAAAGTT
* * *
7812289 CGGGGGTAAAATGATAATTTTGGTGAAA-TC
1 -GGGGTTAAAATG-GAATTTT-G-GAAAGTT
*
7812319 GAGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGTT-AAAATGGAATTTTGGAAAG-TT
* *
7812348 GGGGGTAAAATGATAATTTTGGTGAAA-TT
1 GGGGTTAAAATG-GAATTTT-G-GAAAGTT
7812377 GGGGTTAAAAATGGAATTTTGGAAAGTT
1 GGGGTT-AAAATGGAATTTTGGAAAGTT
* *
7812405 CGGGGGTAAAATGGTAATTTTTGATGAAA-CT
1 -GGGGTTAAAATGG-AA-TTTTG--GAAAGTT
7812436 GGGGTTAAAATGGAATTTTGGAAAGTTT
1 GGGGTTAAAATGGAATTTTGGAAAG-TT
*
7812464 AGGGG-TAAAATGGTAATTTTTGGACAGTT
1 -GGGGTTAAAATGG-AA-TTTTGGAAAGTT
7812493 CAGGGACCTA
Statistics
Matches: 165, Mismatches: 17, Indels: 42
0.74 0.08 0.19
Matches are distributed among these distances:
26 4 0.02
27 8 0.05
28 37 0.22
29 62 0.38
30 41 0.25
31 9 0.05
32 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (27 bp):
GGGGTTAAAATGGAATTTTGGAAAGTT
Found at i:7812870 original size:162 final size:161
Alignment explanation
Indices: 7812584--7812902 Score: 505
Period size: 162 Copynumber: 2.0 Consensus size: 161
7812574 GTAAATTTTG
* *
7812584 AAAAATTCTTAGGCCAATGTTGTAATTAAGCAGAAGTTGATTTGAGGATTAAATTAAAGCAAATT
1 AAAAATTCTTAGGCCAATGTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATT
* * * *
7812649 AAGAATGACGGGAACTAAATACTTAAATAAATCAAAAAATGACACGTGGCAGCCTCTGGTGTAGT
66 AAGAATAACGGGAACTAAATACATAAATAAACCAAAAAATGACACGTGGCAGCCTCTGGTGCAGT
7812714 CAAACAGTCAAAGGACTAATTTAAAAATCTC
131 CAAACAGTCAAAGGACTAATTTAAAAATCTC
* * * *
7812745 AAAAGATTCTTGGGTCAATTTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAATAAAT
1 AAAA-ATTCTTAGGCCAATGTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAAT
* *
7812810 TAAGAATAACAGGG-ACTAAATGCATAAATAAACCAAAAAGTGACACGTGGCAGCCTCTGGTGCA
65 TAAGAATAAC-GGGAACTAAATACATAAATAAACCAAAAAATGACACGTGGCAGCCTCTGGTGCA
7812874 GTCAAACAGTCAAAGGACTAATTTAAAAA
129 GTCAAACAGTCAAAGGACTAATTTAAAAA
7812903 CCAATTAAAA
Statistics
Matches: 144, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
161 4 0.03
162 137 0.95
163 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (161 bp):
AAAAATTCTTAGGCCAATGTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATT
AAGAATAACGGGAACTAAATACATAAATAAACCAAAAAATGACACGTGGCAGCCTCTGGTGCAGT
CAAACAGTCAAAGGACTAATTTAAAAATCTC
Found at i:7813661 original size:14 final size:14
Alignment explanation
Indices: 7813642--7813684 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7813632 GTCTTTTTAC
7813642 TATTTTATTATTAA
1 TATTTTATTATTAA
* *
7813656 TATTTTATTAATAT
1 TATTTTATTATTAA
*
7813670 TA-TTTAATATTAA
1 TATTTTATTATTAA
7813683 TA
1 TA
7813685 AATATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTATTATTAA
Found at i:7813688 original size:20 final size:21
Alignment explanation
Indices: 7813647--7813692 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
7813637 TTTACTATTT
* *
7813647 TATTA-TTAATATTTTATTAA
1 TATTATTTAATATTTAATAAA
7813667 TATTATTTAATA-TTAATAAA
1 TATTATTTAATATTTAATAAA
7813687 TATTAT
1 TATTAT
7813693 AATTGCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTTAATATTTAATAAA
Found at i:7813731 original size:25 final size:24
Alignment explanation
Indices: 7813687--7813734 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
7813677 TATTAATAAA
7813687 TATTATAATTGCTATCAATATTAC
1 TATTATAATTGCTATCAATATTAC
*
7813711 TATTATTAATTTGTTAT-AATATTA
1 TATTA-TAA-TTGCTATCAATATTA
7813735 AATATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 10 0.48
26 6 0.29
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTATAATTGCTATCAATATTAC
Found at i:7814433 original size:6 final size:6
Alignment explanation
Indices: 7814418--7814476 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
7814408 TTAAATTTGA
* * *
7814418 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT GAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
7814466 ATAAAT TTAAA
1 TTAAAT TTAAA
7814477 ACCCTCTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (6 bp):
TTAAAT
Done.