Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 62 of 64
Found at i:10561325 original size:11 final size:11
Alignment explanation
Indices: 10561291--10561329 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
10561281 ACAGTGATAC
10561291 AATATAAAAAT
1 AATATAAAAAT
10561302 AATATGAATAAAT
1 AATAT-AA-AAAT
10561315 AATATAAAAAT
1 AATATAAAAAT
10561326 AATA
1 AATA
10561330 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 13 0.50
12 4 0.15
13 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:10561460 original size:18 final size:19
Alignment explanation
Indices: 10561429--10561475 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10561419 TGTAATTTTT
*
10561429 ATATAAAATATTATACAA-
1 ATATAATATATTATACAAC
* *
10561447 ATATAATATTTTATATAAC
1 ATATAATATATTATACAAC
10561466 ATGATAATAT
1 AT-ATAATAT
10561476 GAATTGTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATAATATATTATACAAC
Found at i:10562170 original size:21 final size:21
Alignment explanation
Indices: 10562131--10562176 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10562121 TTATTAATTT
*
10562131 TAATTTTACTATTACAATACC
1 TAATTTTACTATTACAATAAC
*
10562152 TAATTTTACTACTT-TAATAAC
1 TAATTTTACTA-TTACAATAAC
10562173 TAAT
1 TAAT
10562177 CTCATCGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTTACTATTACAATAAC
Found at i:10569378 original size:12 final size:12
Alignment explanation
Indices: 10569361--10569390 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
10569351 TTAACTTAAA
10569361 TTTTTTTGTT-G
1 TTTTTTTGTTAG
10569372 TTTTTTTGTTAG
1 TTTTTTTGTTAG
10569384 TTTTTTT
1 TTTTTTT
10569391 CAGGCACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTTAG
Found at i:10570371 original size:15 final size:16
Alignment explanation
Indices: 10570331--10570368 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10570321 AACATAATTC
**
10570331 AATTAATTCAATTTTA
1 AATTAATTCAATTCAA
10570347 AA-TAATTCAATTCAA
1 AATTAATTCAATTCAA
10570362 AATTAAT
1 AATTAAT
10570369 CAAACCAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAATTCAATTCAA
Found at i:10573672 original size:4 final size:4
Alignment explanation
Indices: 10573663--10573689 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10573653 GCTAATAATA
10573663 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
10573690 ATATCCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:10575062 original size:2 final size:2
Alignment explanation
Indices: 10575055--10575081 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10575045 CATAATAACT
10575055 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
10575082 TATGCAACCT
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:10575619 original size:8 final size:8
Alignment explanation
Indices: 10575602--10575658 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
10575592 GTAAAGTAGC
*
10575602 ATATACAT
1 ATATATAT
10575610 ATATATAT
1 ATATATAT
10575618 ATATATAT
1 ATATATAT
*
10575626 GTATATAT
1 ATATATAT
* *
10575634 TTATATTT
1 ATATATAT
*
10575642 ATATTTAT
1 ATATATAT
*
10575650 ATTTATAT
1 ATATATAT
10575658 A
1 A
10575659 GGGAAACAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (8 bp):
ATATATAT
Found at i:10575625 original size:6 final size:6
Alignment explanation
Indices: 10575602--10575658 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
10575592 GTAAAGTAGC
* * * * *
10575602 ATATAC ATATAT ATATAT ATATAT GTATAT ATTTAT ATTTAT ATTTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
10575650 ATTTAT ATA
1 ATATAT ATA
10575659 GGGAAACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
ATATAT
Found at i:10575728 original size:108 final size:108
Alignment explanation
Indices: 10575611--10575827 Score: 389
Period size: 108 Copynumber: 2.0 Consensus size: 108
10575601 CATATACATA
* * * *
10575611 TATATATATATATATGTATATATTTATATTTATATTTATATTTATATAGGGAAACAAAGGGAAAT
1 TATAAATATATACATATATATATATATATTTATATTTATATTTATATAGGGAAACAAAGGGAAAT
10575676 GAAGGCTTACGTTGAAGTGAGGAAACCCCAAAATTTGCTATAT
66 GAAGGCTTACGTTGAAGTGAGGAAACCCCAAAATTTGCTATAT
*
10575719 TATAAATATATACATATATATGTATATATTTATATTTATATTTATATAGGGAAACAAAGGGAAAT
1 TATAAATATATACATATATATATATATATTTATATTTATATTTATATAGGGAAACAAAGGGAAAT
10575784 GAAGGCTTACGTTGAAGTGAGGAAACCCCAAAATTTGCTATAT
66 GAAGGCTTACGTTGAAGTGAGGAAACCCCAAAATTTGCTATAT
10575827 T
1 T
10575828 CACCACAATT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (108 bp):
TATAAATATATACATATATATATATATATTTATATTTATATTTATATAGGGAAACAAAGGGAAAT
GAAGGCTTACGTTGAAGTGAGGAAACCCCAAAATTTGCTATAT
Found at i:10578642 original size:13 final size:13
Alignment explanation
Indices: 10578624--10578648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10578614 ATCTCAATTA
10578624 TAAAGATTTATTG
1 TAAAGATTTATTG
10578637 TAAAGATTTATT
1 TAAAGATTTATT
10578649 TAATAGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TAAAGATTTATTG
Found at i:10579182 original size:37 final size:37
Alignment explanation
Indices: 10579132--10579205 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
10579122 CACAAAAAAT
*
10579132 TTGCCCCAATTAACCATAAAAGAATAGAAGCCATCTA
1 TTGCCCCAATTAACAATAAAAGAATAGAAGCCATCTA
10579169 TTGCCCCAATTAACAATAAAAGAATAGAAGCCATCTA
1 TTGCCCCAATTAACAATAAAAGAATAGAAGCCATCTA
10579206 CTTTTGGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.22
Consensus pattern (37 bp):
TTGCCCCAATTAACAATAAAAGAATAGAAGCCATCTA
Found at i:10580520 original size:16 final size:16
Alignment explanation
Indices: 10580499--10580532 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10580489 AACAAGGGTT
*
10580499 ATTTAAAGGGGAAGAA
1 ATTTAAAGGGCAAGAA
10580515 ATTTAAAGGGCAAGAA
1 ATTTAAAGGGCAAGAA
10580531 AT
1 AT
10580533 GTTACGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (16 bp):
ATTTAAAGGGCAAGAA
Found at i:10580581 original size:10 final size:10
Alignment explanation
Indices: 10580541--10580588 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
10580531 ATGTTACGTA
10580541 TATTTT-ATT
1 TATTTTAATT
10580550 TATTTTAATT
1 TATTTTAATT
10580560 ATATTTTAATT
1 -TATTTTAATT
10580571 TATTATT-ATT
1 TATT-TTAATT
10580581 TATTTTAA
1 TATTTTAA
10580589 ATTAGAGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 15 0.43
11 12 0.34
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTTAATT
Found at i:10580582 original size:15 final size:15
Alignment explanation
Indices: 10580541--10580587 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
10580531 ATGTTACGTA
10580541 TATT-TTATTTATTT
1 TATTATTATTTATTT
*
10580555 TAATTA-TATTTTAATT
1 T-ATTATTA-TTTATTT
10580571 TATTATTATTTATTT
1 TATTATTATTTATTT
10580586 TA
1 TA
10580588 AATTAGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 17 0.63
16 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTATTTATTT
Found at i:10586352 original size:18 final size:17
Alignment explanation
Indices: 10586329--10586362 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10586319 TTTTTATTTT
*
10586329 TTATTTTTTTATAAAATA
1 TTATTTATTT-TAAAATA
10586347 TTATTTATTTTAAAAT
1 TTATTTATTTTAAAAT
10586363 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTATTTTAAAATA
Found at i:10586406 original size:20 final size:20
Alignment explanation
Indices: 10586381--10586421 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10586371 AATAACATTT
*
10586381 AAAAAATACAAAATAAAGAA
1 AAAAAAAACAAAATAAAGAA
*
10586401 AAAAAAAACTAAATAAAGAA
1 AAAAAAAACAAAATAAAGAA
10586421 A
1 A
10586422 CAAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAAACAAAATAAAGAA
Found at i:10590778 original size:44 final size:44
Alignment explanation
Indices: 10590729--10590816 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
10590719 CTCATGGTAT
* *
10590729 AACCAATTTCCACGAAATTTCCTTTTTAAGGCGGTCCACAAAGA
1 AACCAATTTCCACGAAATCTCCTTTTTAACGCGGTCCACAAAGA
* **
10590773 AACCAATTTTCACGAAATCTCCTTTTTTTCGCGGTCCACAAAGA
1 AACCAATTTCCACGAAATCTCCTTTTTAACGCGGTCCACAAAGA
10590817 TATGACTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (44 bp):
AACCAATTTCCACGAAATCTCCTTTTTAACGCGGTCCACAAAGA
Found at i:10594510 original size:18 final size:20
Alignment explanation
Indices: 10594472--10594515 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
10594462 TTCAATATAT
10594472 ATATATTTATATTTAAAAATA
1 ATAT-TTTATATTTAAAAATA
10594493 ATATTTTATA-TT-AAAATA
1 ATATTTTATATTTAAAAATA
10594511 ATATT
1 ATATT
10594516 AAATAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 2 0.09
20 6 0.26
21 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTTTATATTTAAAAATA
Found at i:10595096 original size:23 final size:23
Alignment explanation
Indices: 10595036--10595101 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
10595026 ATCATTAATT
*
10595036 AATATTAAT-TTAATACTGATAAA
1 AATATTAATATTAATA-TAATAAA
* ** *
10595059 AAAATTAA-AAAAATAAAATAAA
1 AATATTAATATTAATATAATAAA
10595081 AATATTAATATTAATATAATA
1 AATATTAATATTAATATAATA
10595102 GGAAAAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATATTAATATTAATATAATAAA
Found at i:10600046 original size:27 final size:27
Alignment explanation
Indices: 10599989--10600046 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
10599979 ATCAAATGGC
* * *
10599989 AATAACTTGATTTTCATTTTGGTACTT
1 AATAACTTGATTTTCATCTTGCTACTA
*
10600016 AATAACTTGATTTTTATACTTGCTA-TA
1 AATAACTTGATTTTCAT-CTTGCTACTA
10600043 AATA
1 AATA
10600047 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (27 bp):
AATAACTTGATTTTCATCTTGCTACTA
Found at i:10605667 original size:17 final size:19
Alignment explanation
Indices: 10605647--10605683 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
10605637 TTTTATAGTT
10605647 TTAAATTTTA-ATT-TATA
1 TTAAATTTTATATTATATA
*
10605664 TTAATTTTTATATTATATA
1 TTAAATTTTATATTATATA
10605683 T
1 T
10605684 AGATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTTTATATTATATA
Found at i:10607598 original size:6 final size:6
Alignment explanation
Indices: 10607581--10607610 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10607571 AATAAAATAT
*
10607581 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
10607611 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:10611147 original size:58 final size:58
Alignment explanation
Indices: 10611057--10611174 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
10611047 GCTTTAACTA
10611057 TAAGTCTTTAACTCCATATACAGCAATAAGTAAGTTCAATTGATCTTGGCCACTTTTG
1 TAAGTCTTTAACTCCATATACAGCAATAAGTAAGTTCAATTGATCTTGGCCACTTTTG
* *
10611115 TAAGTCTTTAACTCCATATACTGCAATAAGTAAGTTCAATTGATCTTGGTCACTTTTG
1 TAAGTCTTTAACTCCATATACAGCAATAAGTAAGTTCAATTGATCTTGGCCACTTTTG
10611173 TA
1 TA
10611175 TGTTTTGTGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (58 bp):
TAAGTCTTTAACTCCATATACAGCAATAAGTAAGTTCAATTGATCTTGGCCACTTTTG
Found at i:10619111 original size:16 final size:16
Alignment explanation
Indices: 10619086--10619118 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10619076 GATTGAATAA
10619086 TAAATATA-TTTAAAC
1 TAAATATATTTTAAAC
10619101 TAAATTATATTTTAAAC
1 TAAA-TATATTTTAAAC
10619118 T
1 T
10619119 TTTAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 4 0.25
17 8 0.50
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATATATTTTAAAC
Found at i:10620782 original size:18 final size:18
Alignment explanation
Indices: 10620741--10620820 Score: 54
Period size: 18 Copynumber: 4.2 Consensus size: 18
10620731 ATGATATGAT
*
10620741 ATTAATATAATATAAAAA
1 ATTAATATAATTTAAAAA
* *
10620759 AATAATATAATTTAAAAT
1 ATTAATATAATTTAAAAA
*
10620777 TTTAATGATAATTATATATAAA
1 ATTAAT-ATAATT-TA-A-AAA
* *
10620799 TTTAATA-AAATTAATAAA
1 ATTAATATAATTTAA-AAA
10620817 ATTA
1 ATTA
10620821 TATTTTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 27 0.54
19 8 0.16
20 5 0.10
21 2 0.04
22 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
ATTAATATAATTTAAAAA
Found at i:10620786 original size:45 final size:44
Alignment explanation
Indices: 10620735--10620863 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 44
10620725 AAAATGATGA
10620735 TATGATATTAATAT-AATATAAAAAAATAATATAATTTAAAATTT
1 TATGATATTAATATAAATATAAAAAAATAATATAATTT-AAATTT
* * * *
10620779 TAATGATAATTATATATAAATTTAATAAAATTAATA-AAATTATATTT
1 T-ATGAT-ATTA-ATATAAATATAA-AAAAATAATATAATTTAAATTT
*
10620826 TAT-ATATTTATATAAATATAAATTAAAAT-ATATAATTT
1 TATGATATTAATATAAATATAAA--AAAATAATATAATTT
10620864 TTATATAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
42 1 0.01
43 14 0.20
44 12 0.17
45 7 0.10
46 6 0.09
47 10 0.14
48 10 0.14
49 9 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (44 bp):
TATGATATTAATATAAATATAAAAAAATAATATAATTTAAATTT
Found at i:10620866 original size:39 final size:35
Alignment explanation
Indices: 10620784--10620870 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 35
10620774 AATTTTAATG
* * *
10620784 ATAATTATATATAAATTTAATAAAATTAATAAAATT
1 ATAATT-TTTATATATTTAATAAAATAAATAAAATT
10620820 AT-A-TTTTATATATTTATATAAATATAAATTAAAATAT
1 ATAATTTTTATATATTTA-ATAAA-ATAAA-TAAAAT-T
10620857 ATAATTTTTATATA
1 ATAATTTTTATATA
10620871 AAATATGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
33 10 0.24
34 6 0.14
35 5 0.12
36 8 0.19
37 3 0.07
38 1 0.02
39 9 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATAATTTTTATATATTTAATAAAATAAATAAAATT
Found at i:10620867 original size:31 final size:32
Alignment explanation
Indices: 10620832--10620901 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
10620822 ATTTTATATA
10620832 TTTATAT-AAATATAA-ATTAAA-ATATATAATT
1 TTTATATAAAATATAATA-TAAATATATA-AATT
*
10620863 TTTATATAAAATATGATATAAATATATAAATT
1 TTTATATAAAATATAATATAAATATATAAATT
10620895 TTTATAT
1 TTTATAT
10620902 TTTACATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 7 0.20
32 22 0.63
33 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
TTTATATAAAATATAATATAAATATATAAATT
Found at i:10621688 original size:15 final size:16
Alignment explanation
Indices: 10621653--10621691 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10621643 CAAATATAAA
*
10621653 ATAAATATTTAAATGAT
1 ATAAATAATTAAA-GAT
10621670 ATAAATAATTAAA-AT
1 ATAAATAATTAAAGAT
10621685 ATAAATA
1 ATAAATA
10621692 TAATACGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAATAATTAAAGAT
Found at i:10622606 original size:12 final size:12
Alignment explanation
Indices: 10622591--10622632 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
10622581 ATTTTTAATA
10622591 TAAATATAAAAT
1 TAAATATAAAAT
10622603 TAAATTTATATAAA-
1 TAAA--TATA-AAAT
10622617 TAAATATAAAAT
1 TAAATATAAAAT
10622629 TAAA
1 TAAA
10622633 AAATAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 3 0.12
12 12 0.46
14 8 0.31
15 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:10629405 original size:2 final size:2
Alignment explanation
Indices: 10629398--10629424 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10629388 TCAACCCTTG
10629398 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
10629425 TTATTTTCAA
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:10645956 original size:15 final size:15
Alignment explanation
Indices: 10645936--10645965 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10645926 AAAAGTCTTC
10645936 GTTGCTTTTCTTTTA
1 GTTGCTTTTCTTTTA
10645951 GTTGCTTTTCTTTTA
1 GTTGCTTTTCTTTTA
10645966 TGGAGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (15 bp):
GTTGCTTTTCTTTTA
Found at i:10648181 original size:20 final size:19
Alignment explanation
Indices: 10648158--10648197 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10648148 ATAAAATTTG
10648158 AAATTTAAATAAAAAAATAT
1 AAATTT-AATAAAAAAATAT
*
10648178 AAATTTGATAAAAAAATAT
1 AAATTTAATAAAAAAATAT
10648197 A
1 A
10648198 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATTTAATAAAAAAATAT
Found at i:10661046 original size:13 final size:14
Alignment explanation
Indices: 10661030--10661061 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10661020 GCTTTTCATT
10661030 TTTGTTTTG-TTTG
1 TTTGTTTTGTTTTG
10661043 TTTG-TTTGTTTTG
1 TTTGTTTTGTTTTG
10661056 TTTGTT
1 TTTGTT
10661062 GAGATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 12 0.71
14 1 0.06
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (14 bp):
TTTGTTTTGTTTTG
Found at i:10669420 original size:30 final size:30
Alignment explanation
Indices: 10669386--10669445 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
10669376 GGAGAGTAAA
*
10669386 TTTCTCCTTTAATTAGCTATTTTAATGCAT
1 TTTCTCCTTTAATTAACTATTTTAATGCAT
10669416 TTTCTCCTTTAATTAACTATTTTAATGCAT
1 TTTCTCCTTTAATTAACTATTTTAATGCAT
10669446 GAAAATCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (30 bp):
TTTCTCCTTTAATTAACTATTTTAATGCAT
Found at i:10677087 original size:12 final size:12
Alignment explanation
Indices: 10677066--10677129 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
10677056 TATTTAATAA
* *
10677066 TAAAAATTTTGT
1 TAAAATTTTTAT
10677078 TAAAATTTTTAT
1 TAAAATTTTTAT
10677090 TAAAATTATTTATT
1 TAAAATT-TTTA-T
**
10677104 TAAAAAAATTTAT
1 T-AAAATTTTTAT
10677117 T-AAA-TTTTAT
1 TAAAATTTTTAT
10677127 TAA
1 TAA
10677130 GACTTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 6 0.14
11 4 0.09
12 17 0.40
13 6 0.14
14 6 0.14
15 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:10677103 original size:13 final size:13
Alignment explanation
Indices: 10677077--10677120 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
10677067 AAAAATTTTG
10677077 TTAAAATT-TTTA
1 TTAAAATTATTTA
10677089 TTAAAATTATTTA
1 TTAAAATTATTTA
**
10677102 TTTAAAAAAATTTA
1 -TTAAAATTATTTA
10677116 TTAAA
1 TTAAA
10677121 TTTTATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.29
13 9 0.32
14 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATTATTTA
Found at i:10684417 original size:7 final size:7
Alignment explanation
Indices: 10684405--10684433 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10684395 ATAATAAAAT
10684405 ATTATTA
1 ATTATTA
10684412 ATTATTA
1 ATTATTA
10684419 ATTATTA
1 ATTATTA
10684426 ATTATTA
1 ATTATTA
10684433 A
1 A
10684434 ATTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTATTA
Found at i:10706392 original size:12 final size:13
Alignment explanation
Indices: 10706370--10706402 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10706360 CAAATCTAGG
10706370 ACTATATTAATTA
1 ACTATATTAATTA
10706383 ACTA-ATTAATTAA
1 ACTATATTAATT-A
10706396 ACTATAT
1 ACTATAT
10706403 ACATATGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 9 0.50
14 2 0.11
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
ACTATATTAATTA
Found at i:10717869 original size:21 final size:21
Alignment explanation
Indices: 10717845--10717918 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
10717835 AATTAAATAA
10717845 TTATTAAAATTTTTTATTATT
1 TTATTAAAATTTTTTATTATT
* **
10717866 TTATTACAATTAATTA--ATT
1 TTATTAAAATTTTTTATTATT
10717885 TT-TTAAATATTTATTT-TTATT
1 TTATTAAA-ATTT-TTTATTATT
*
10717906 TAATTAAAATTTT
1 TTATTAAAATTTT
10717919 AAACATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.10
19 8 0.20
20 3 0.07
21 21 0.51
22 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTAAAATTTTTTATTATT
Found at i:10734000 original size:19 final size:18
Alignment explanation
Indices: 10733943--10734003 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
10733933 TTGATGAGAA
10733943 AAAAAATA-ATTATAAA-
1 AAAAAATATATTATAAAT
*
10733959 AAATAATGATATTA-AAGAT
1 AAAAAAT-ATATTATAA-AT
10733978 AAAAAATATATGTATAAAT
1 AAAAAATATAT-TATAAAT
10733997 AAAAAAT
1 AAAAAAT
10734004 GTAATATGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 6 0.16
17 3 0.08
18 9 0.24
19 17 0.46
20 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAAATATATTATAAAT
Found at i:10747773 original size:41 final size:41
Alignment explanation
Indices: 10747728--10747806 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
10747718 ATTACAAAAG
*
10747728 AAGATACTGAA-ACATAACACAGAAATTTACAAAATTTTTGA
1 AAGATACT-AAGACATAACAAAGAAATTTACAAAATTTTTGA
**
10747769 AAGATACTAAGACATATGAAAGAAATTTACAAAATTTT
1 AAGATACTAAGACATAACAAAGAAATTTACAAAATTTT
10747807 GGCACCCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (41 bp):
AAGATACTAAGACATAACAAAGAAATTTACAAAATTTTTGA
Found at i:10753696 original size:27 final size:25
Alignment explanation
Indices: 10753656--10753710 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
10753646 ATGAACGATA
*
10753656 TATTTTTTTATAATTTATTAACTTAAT
1 TATTTTTTTATAA-TTAATAA-TTAAT
10753683 TATTTTATTT-TAATTAATAATTAAT
1 TATTTT-TTTATAATTAATAATTAAT
10753708 TAT
1 TAT
10753711 AATGCAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 8 0.31
26 6 0.23
27 9 0.35
28 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTTTTATAATTAATAATTAAT
Found at i:10755077 original size:16 final size:17
Alignment explanation
Indices: 10755040--10755078 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10755030 TATAATTGTT
10755040 AAAAATAATAAATAAGA
1 AAAAATAATAAATAAGA
*
10755057 AAAAATAATTAAT-AGA
1 AAAAATAATAAATAAGA
10755073 AAAAAT
1 AAAAAT
10755079 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAATAAGA
Found at i:10756974 original size:2 final size:2
Alignment explanation
Indices: 10756967--10756995 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10756957 AGACTCCAAA
10756967 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10756996 AACACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10761653 original size:17 final size:17
Alignment explanation
Indices: 10761618--10761650 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10761608 ACCCAATCTA
*
10761618 AAATATTATTTATTATT
1 AAATAATATTTATTATT
10761635 AAATAATATTT-TTATT
1 AAATAATATTTATTATT
10761651 TAATTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATAATATTTATTATT
Found at i:10761949 original size:28 final size:28
Alignment explanation
Indices: 10761917--10761970 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
10761907 ATATTTTTAA
* *
10761917 TATTTCATTAACAAATAGTAACATATTT
1 TATTTCAATAACAAATAATAACATATTT
* *
10761945 TATTTTAATAATAAATAATAACATAT
1 TATTTCAATAACAAATAATAACATAT
10761971 ATAATAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (28 bp):
TATTTCAATAACAAATAATAACATATTT
Found at i:10762016 original size:42 final size:42
Alignment explanation
Indices: 10761944--10762023 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
10761934 GTAACATATT
*
10761944 TTATTTTAATAATAAATAATAACATATATAATAATATTTTTA
1 TTATTTTAATAATAAATAATAACAAATATAATAATATTTTTA
* **
10761986 TTATTTTAATAATTAATGTTAA-AAACTATAATAATATT
1 TTATTTTAATAATAAATAATAACAAA-TATAATAATATT
10762024 ATTTTCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (42 bp):
TTATTTTAATAATAAATAATAACAAATATAATAATATTTTTA
Found at i:10762199 original size:21 final size:24
Alignment explanation
Indices: 10762166--10762211 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
10762156 TAATTCAATA
*
10762166 ATAGATACTTTTAATA-TA-AAAT
1 ATAGATACATTTAATAGTATAAAT
10762188 ATAGATA-ATTTAATAGTATAAAT
1 ATAGATACATTTAATAGTATAAAT
10762211 A
1 A
10762212 GTTTAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
ATAGATACATTTAATAGTATAAAT
Found at i:10762212 original size:21 final size:21
Alignment explanation
Indices: 10762165--10762212 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
10762155 ATAATTCAAT
*
10762165 AATAGATACTTTTAATATAAA
1 AATAGATACATTTAATATAAA
*
10762186 ATATAGATA-ATTTAATAGTATA
1 A-ATAGATACATTTAATA-TAAA
10762208 AATAG
1 AATAG
10762213 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (21 bp):
AATAGATACATTTAATATAAA
Found at i:10762242 original size:41 final size:40
Alignment explanation
Indices: 10762208--10762289 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 40
10762198 TAATAGTATA
10762208 AATAGTTTAATAATA-AATATTATTTTAATATTAATAAAAT
1 AATAGTTTAA-AATAGAATATTATTTTAATATTAATAAAAT
* *
10762248 AATATTTTAAAATAGTAATATTATTTTAAATATT-TTAAAAT
1 AATAGTTTAAAATAG-AATATTATTTT-AATATTAATAAAAT
10762289 A
1 A
10762290 TTAATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
39 4 0.11
40 9 0.24
41 18 0.49
42 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (40 bp):
AATAGTTTAAAATAGAATATTATTTTAATATTAATAAAAT
Found at i:10762292 original size:22 final size:22
Alignment explanation
Indices: 10762222--10762292 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
10762212 GTTTAATAAT
10762222 AAATATTATTTT-AATATTAATA
1 AAATATTATTTTAAATATT-ATA
*
10762244 AAATAATATTTTAAA-A-TAGT-
1 AAATATTATTTTAAATATTA-TA
*
10762264 -AATATTATTTTAAATATTTTA
1 AAATATTATTTTAAATATTATA
10762285 AAATATTA
1 AAATATTA
10762293 ATATAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 13 0.32
20 3 0.08
21 3 0.08
22 19 0.47
23 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
AAATATTATTTTAAATATTATA
Found at i:10762423 original size:26 final size:26
Alignment explanation
Indices: 10762388--10762445 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
10762378 TTTTTAAATA
10762388 TTAATA-ATTTTAATAAT-AATGAATT
1 TTAATATATTTTAATAATAAAT-AATT
*
10762413 TTAATATATTTTAATAATAAATATTT
1 TTAATATATTTTAATAATAAATAATT
10762439 TTAATAT
1 TTAATAT
10762446 TTTAATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.20
26 21 0.70
27 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTAATATATTTTAATAATAAATAATT
Found at i:10762442 original size:16 final size:16
Alignment explanation
Indices: 10762321--10762444 Score: 61
Period size: 16 Copynumber: 7.9 Consensus size: 16
10762311 AGTTTGATTT
10762321 TAAATATTTTTATATTAA
1 TAAATATTTTTA-A-TAA
*
10762339 TATAATA-TTTTAATAC
1 TA-AATATTTTTAATAA
*
10762355 TAAATATTATT-ATGATA
1 TAAATATTTTTAAT-A-A
*
10762372 TAATTATTTTTAA-ATA
1 TAAATATTTTTAATA-A
* *
10762388 TTAATAATTTTAATAA
1 TAAATATTTTTAATAA
*
10762404 T-AATGA-ATTT--TAA
1 TAAAT-ATTTTTAATAA
10762417 T--ATA-TTTTAATAA
1 TAAATATTTTTAATAA
10762430 TAAATATTTTTAATA
1 TAAATATTTTTAATA
10762445 TTTTAATTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
11 4 0.05
12 2 0.02
13 8 0.10
15 15 0.18
16 32 0.38
17 11 0.13
18 8 0.10
19 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (16 bp):
TAAATATTTTTAATAA
Found at i:10763142 original size:3 final size:3
Alignment explanation
Indices: 10763136--10763174 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10763126 GAGGACAAAA
10763136 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10763175 CCATGAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10763334 original size:20 final size:21
Alignment explanation
Indices: 10763300--10763342 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
10763290 TTTTTATACT
*
10763300 ACTTAAAAAAGAAAAATTTTA
1 ACTTAAAAAAGAAAAAGTTTA
10763321 ACTTAAAAAA-AAAAAGTTTA
1 ACTTAAAAAAGAAAAAGTTTA
10763341 AC
1 AC
10763343 GTTTTCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (21 bp):
ACTTAAAAAAGAAAAAGTTTA
Found at i:10764206 original size:60 final size:60
Alignment explanation
Indices: 10764119--10764298 Score: 272
Period size: 60 Copynumber: 3.0 Consensus size: 60
10764109 GAAAAAATCA
* * *
10764119 AGCATAACAATCAAGGGCCTTCG-CTTTGAAGACCTTGACCTTAACAATTGAGAAAATGGT
1 AGCATAACAATCAAAGACCTT-GACTTTGAAGACCTTGACCTTAACAATTGAGAAAAGGGT
10764179 AGCATAACAATCAAAGACCTTGACTTTGAAGACCTTGACCTTAACAATTGAGAAAAGGGT
1 AGCATAACAATCAAAGACCTTGACTTTGAAGACCTTGACCTTAACAATTGAGAAAAGGGT
* * * *
10764239 GGCATATCAATCAAAGACCTTGACCTTGAAAGACCTTGACCTTAACAATTGAAAAAAGGG
1 AGCATAACAATCAAAGACCTTGACTTTG-AAGACCTTGACCTTAACAATTGAGAAAAGGG
10764299 GAGTACGATA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
59 1 0.01
60 80 0.72
61 30 0.27
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (60 bp):
AGCATAACAATCAAAGACCTTGACTTTGAAGACCTTGACCTTAACAATTGAGAAAAGGGT
Found at i:10764272 original size:16 final size:16
Alignment explanation
Indices: 10764251--10764281 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10764241 CATATCAATC
10764251 AAAGACCTTGACCTTG
1 AAAGACCTTGACCTTG
10764267 AAAGACCTTGACCTT
1 AAAGACCTTGACCTT
10764282 AACAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
AAAGACCTTGACCTTG
Found at i:10767474 original size:26 final size:26
Alignment explanation
Indices: 10767444--10767496 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10767434 GTTATAAATC
* * *
10767444 ATTATTTTTTAATATTATATTACTTA
1 ATTATTTATTAATAATATAATACTTA
*
10767470 ATTATTTATTATTAATATAATACTTA
1 ATTATTTATTAATAATATAATACTTA
10767496 A
1 A
10767497 CTAAATTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTTATTAATAATATAATACTTA
Found at i:10769257 original size:32 final size:33
Alignment explanation
Indices: 10769211--10769280 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 33
10769201 TTTTCTCTTA
* * *
10769211 AAATTGGATCATGGAAGATAAATTTTTATAA-T
1 AAATTAGATAATGGAAGACAAATTTTTATAATT
*
10769243 AAATTAGATAATGGAAGGCAAATTTTTATAATT
1 AAATTAGATAATGGAAGACAAATTTTTATAATT
10769276 AAATT
1 AAATT
10769281 TTCATTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (33 bp):
AAATTAGATAATGGAAGACAAATTTTTATAATT
Found at i:10770650 original size:19 final size:20
Alignment explanation
Indices: 10770614--10770667 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
10770604 AAATAAAAAT
10770614 AATTATTTT--ATATA-TAA
1 AATTATTTTAAATATATTAA
*
10770631 ATTTA-TTTAAATATATTAA
1 AATTATTTTAAATATATTAA
10770650 AATTATTTTAAA-ATATTA
1 AATTATTTTAAATATATTA
10770668 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 5 0.16
19 13 0.42
20 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTATTTTAAATATATTAA
Found at i:10776750 original size:33 final size:33
Alignment explanation
Indices: 10776703--10776769 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
10776693 CAACATTAGT
*
10776703 AATGGAGATCTAAAAGGTTTCAATTTCTCAAAC
1 AATGGAGATATAAAAGGTTTCAATTTCTCAAAC
*
10776736 AATGGAGATATAAAAGGTTTCATTTTCTCAAAC
1 AATGGAGATATAAAAGGTTTCAATTTCTCAAAC
10776769 A
1 A
10776770 TTAATAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
AATGGAGATATAAAAGGTTTCAATTTCTCAAAC
Found at i:10786947 original size:20 final size:18
Alignment explanation
Indices: 10786922--10786970 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
10786912 TCTTCCTATT
10786922 TTTATTACTTATATTTTTAA
1 TTTATTA-TTATATTTTT-A
*
10786942 TTTATTAATCA-ATTTTTA
1 TTTATT-ATTATATTTTTA
10786960 TTTATTATTAT
1 TTTATTATTAT
10786971 TTTATAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 6 0.24
20 8 0.32
21 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTATTATATTTTTA
Found at i:10786965 original size:29 final size:27
Alignment explanation
Indices: 10786933--10786992 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
10786923 TTATTACTTA
*
10786933 TATTTTTAATTTATTAATCAATTTTTATT
1 TATTATTAATTTA-TAA-CAATTTTTATT
* * *
10786962 TATTATTATTTTATAAGAATTTTTTTT
1 TATTATTAATTTATAACAATTTTTATT
10786989 TATT
1 TATT
10786993 GTATTGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.48
28 3 0.11
29 11 0.41
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TATTATTAATTTATAACAATTTTTATT
Found at i:10787174 original size:20 final size:21
Alignment explanation
Indices: 10787145--10787184 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10787135 TATTTTGGTA
*
10787145 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTCATTTTT
*
10787165 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
10787185 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTATTAAAGTTCATTTTT
Found at i:10787284 original size:9 final size:9
Alignment explanation
Indices: 10787270--10787301 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
10787260 TTAATAAAAT
10787270 AATAACCAA
1 AATAACCAA
10787279 AATAACCAA
1 AATAACCAA
10787288 AATAACCAA
1 AATAACCAA
10787297 AATAA
1 AATAA
10787302 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (9 bp):
AATAACCAA
Found at i:10787387 original size:10 final size:10
Alignment explanation
Indices: 10787372--10787399 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10787362 GGTTCGGATG
10787372 CGGTTTGACT
1 CGGTTTGACT
10787382 CGGTTTGACT
1 CGGTTTGACT
10787392 CGGTTTGA
1 CGGTTTGA
10787400 GCGTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.32, T:0.39
Consensus pattern (10 bp):
CGGTTTGACT
Found at i:10788364 original size:2 final size:2
Alignment explanation
Indices: 10788357--10788382 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10788347 GATGTCCACA
10788357 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
10788383 TTGCATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10796959 original size:29 final size:26
Alignment explanation
Indices: 10796914--10796966 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
10796904 TAATGAACGA
10796914 TATTTTTTTATAATTTATTAACTTAAT
1 TATTTTTTTATAATTTATTAA-TTAAT
*
10796941 TATTTTTTTTTAATTT-TT-ATTAAT
1 TATTTTTTTATAATTTATTAATTAAT
10796965 TA
1 TA
10796967 AAATATTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 1 0.04
26 2 0.08
27 15 0.60
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTTTTTATAATTTATTAATTAAT
Found at i:10796973 original size:29 final size:27
Alignment explanation
Indices: 10796913--10796973 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
10796903 ATAATGAACG
10796913 ATATTTTTTTATAATTTATTAACTTAA
1 ATATTTTTTTATAATTTATTAACTTAA
* *
10796940 TTATTTTTTTTTAATTTTTATTAA-TTAAA
1 ATATTTTTTTATAA--TTTATTAACTT-AA
10796969 ATATT
1 ATATT
10796974 AGCTAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.43
28 2 0.07
29 14 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
ATATTTTTTTATAATTTATTAACTTAA
Found at i:10798821 original size:58 final size:56
Alignment explanation
Indices: 10798757--10799055 Score: 285
Period size: 58 Copynumber: 5.1 Consensus size: 56
10798747 TTGTACAAGA
* * *
10798757 AAAATTGATACTTTCAACTTTTCCTCCAAAATTTTTTTTCAAAACTTTAATTTCGAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTT-AAAAC-TTATTTTCAAAG
* * * * *
10798815 AAAATTGATACTTTCAACTTTTTCTAAAAAACCTTTTTTTAGAAAATTATTTTCAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTTA-AAACTTATTTTCAAAG
* * * * *
10798873 AAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTCTGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTTTAAAACTTATTTTCAAAG
* *
10798931 AAGATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAAAAAACTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTT-------TAAAACTTATTTTCAAAG
* * * *
10798995 AAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAGTT-TTATTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTAAAACTTATT-TTCAAAG
10799051 AAAAT
1 AAAAT
10799056 CATTTTTAAA
Statistics
Matches: 200, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
55 2 0.01
56 19 0.09
57 9 0.05
58 98 0.49
59 20 0.10
60 1 0.00
63 5 0.03
64 46 0.23
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTAAAACTTATTTTCAAAG
Found at i:10798904 original size:116 final size:115
Alignment explanation
Indices: 10798757--10799055 Score: 327
Period size: 116 Copynumber: 2.5 Consensus size: 115
10798747 TTGTACAAGA
*
10798757 AAAATTGATACTTTCAACTTTTCCTCCAAAATTTTTTTTCAAAACTTTAATTTCGAAGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTT-AAAACTTTAATTTC-AAGAAAATTG
* *
10798822 ATACTTTCAACTTTTTCTAAAAAACCT-TTTTTTAG-AAAA-TTATTTTCAAAT
64 ATACTTTCAACTTTTCCTAAAAAA--TATTTTTTAGAAAAACTTATTTTCAAAG
* * * * * *
10798873 AAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTCTGAAAAC-TTATTTTCAAGGAAGATT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTTTAAAACTTTAATTTCAA-GAAAATT
*
10798937 GATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAAAAAACTTATTTTCAAAG
63 GATACTTTCAACTTTTCCTAAAAAATATTTTTTAG-----AAAAACTTATTTTCAAAG
* * * * *
10798995 AAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAGTTTTATTTAAAGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTAAAACTTTAATTTCAAGAAAAT
10799056 CATTTTTAAA
Statistics
Matches: 150, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
114 1 0.01
115 10 0.07
116 60 0.40
117 8 0.05
118 7 0.05
120 15 0.10
121 15 0.10
122 34 0.23
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTAAAACTTTAATTTCAAGAAAATTGAT
ACTTTCAACTTTTCCTAAAAAATATTTTTTAGAAAAACTTATTTTCAAAG
Found at i:10798992 original size:64 final size:64
Alignment explanation
Indices: 10798857--10799034 Score: 219
Period size: 64 Copynumber: 2.9 Consensus size: 64
10798847 CTTTTTTTAG
* * * * *
10798857 AAAA-TTATTTTCAAATAAAATTGATACTTTTAACTTTTTCTCGAAAATATTTTTCT-G------
1 AAAACTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAAAA
* * *
10798914 AAAACTTATTTTCAAGGAAGATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAA
1 AAAACTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAA
10798978 AAAACTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTA
1 AAAACTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTA
10799035 AAAGTTTTAT
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
57 5 0.05
58 45 0.43
64 54 0.52
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (64 bp):
AAAACTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAA
Found at i:10799075 original size:5 final size:5
Alignment explanation
Indices: 10799065--10799104 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
10799055 TCATTTTTAA
10799065 AAAAT AAAAT AAAAAT AAAAAT AAAAAT AAAAT AAAAT AA
1 AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAAAT AAAAT AA
10799105 GGAATACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 17 0.50
6 17 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10799079 original size:6 final size:6
Alignment explanation
Indices: 10799064--10799101 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
10799054 ATCATTTTTA
10799064 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
10799102 TAAGGAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:10799080 original size:11 final size:11
Alignment explanation
Indices: 10799064--10799101 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
10799054 ATCATTTTTA
10799064 AAAAATAAAAT
1 AAAAATAAAAT
10799075 AAAAATAAAAAT
1 AAAAAT-AAAAT
10799087 AAAAATAAAAT
1 AAAAATAAAAT
10799098 AAAA
1 AAAA
10799102 TAAGGAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:10799086 original size:17 final size:17
Alignment explanation
Indices: 10799064--10799101 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
10799054 ATCATTTTTA
10799064 AAAAAT-AAAATAAAAAT
1 AAAAATAAAAAT-AAAAT
10799081 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
10799098 AAAA
1 AAAA
10799102 TAAGGAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:10800031 original size:20 final size:19
Alignment explanation
Indices: 10799981--10800031 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
10799971 ATAAAAAATA
* *
10799981 AAATAATATATATTTTAAT
1 AAATAATAAATATATTAAT
10800000 AAATAATAAAATATATTAAT
1 AAATAAT-AAATATATTAAT
*
10800020 AGATAAATAAAT
1 AAAT-AATAAAT
10800032 TAAAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.26
20 17 0.63
21 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATAATAAATATATTAAT
Found at i:10800046 original size:53 final size:51
Alignment explanation
Indices: 10799940--10800090 Score: 141
Period size: 53 Copynumber: 3.0 Consensus size: 51
10799930 AAATAAAAAA
* * * * *
10799940 TATATATTAATAGATAAATAATACTAA-AA-AAATAAA-AAATAAAATAA-TA
1 TATATATTAATAAAT-AATAATAGTAATAATAGACAAATAAATAAAA-AATTT
* * *
10799989 TATATTTTAATAAATAATAAAATA-TATTAATAGATAAATAAATTAAAAAATTT
1 TATATATTAATAAATAAT--AATAGTAATAATAGACAAATAAA-TAAAAAATTT
*
10800042 TATATATTAATAAATAATAATAGTAATGATAGACAAATAAATAAAAAAT
1 TATATATTAATAAATAATAATAGTAATAATAGACAAATAAATAAAAAAT
10800091 AAAAATAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
48 3 0.04
49 15 0.18
50 6 0.07
51 18 0.21
52 20 0.24
53 23 0.27
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (51 bp):
TATATATTAATAAATAATAATAGTAATAATAGACAAATAAATAAAAAATTT
Found at i:10800428 original size:41 final size:41
Alignment explanation
Indices: 10800293--10800540 Score: 183
Period size: 41 Copynumber: 5.7 Consensus size: 41
10800283 TTTGATCAAA
* * **
10800293 GCTCCTCTAAGCAGAGACTCAACGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAA-AT-AA-ATG
* * *
10800338 GCTCTTCTAATCAGAGGCTCAACAACTTT-AAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* *
10800378 GCTCTTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * * *
10800419 GCTCATCTAATAAGAGGCTCAACAACTTTTGGAAACTTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTT-G-AA-------AAA-TAAATG
* * * *
10800471 GTTCCTCTAGTAAGAGGCTCAACGACTTTGAAAAATAAAAG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* *
10800512 GCTCCTCTAATCAGAAGCTCAATGACTTT
1 GCTCCTCTAATCAGAGGCTCAACGACTTT
10800541 TGGAAAGTAA
Statistics
Matches: 166, Mismatches: 25, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
40 28 0.17
41 62 0.37
42 8 0.05
43 4 0.02
44 3 0.02
45 25 0.15
49 2 0.01
50 1 0.01
51 6 0.04
52 27 0.16
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:10800532 original size:93 final size:93
Alignment explanation
Indices: 10800372--10800546 Score: 251
Period size: 93 Copynumber: 1.9 Consensus size: 93
10800362 ACTTTAAAAA
* * * * *
10800372 TAAATTGCTCTTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATGGCTCATCTAATAAGAGGC
1 TAAATTGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAAATAAAAGGCTCATCTAATAAGAAGC
10800437 TCAACAACTTTTGGAAACTTTTGGAAAG
66 TCAACAACTTTTGGAAACTTTTGGAAAG
* * * *
10800465 TAAATTGTTCCTCTAGTAAGAGGCTCAACGACTTTGAAAAATAAAAGGCTCCTCTAATCAGAAGC
1 TAAATTGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAAATAAAAGGCTCATCTAATAAGAAGC
**
10800530 TCAATGACTTTTGGAAA
66 TCAACAACTTTTGGAAA
10800547 GTAAATTGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (93 bp):
TAAATTGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAAATAAAAGGCTCATCTAATAAGAAGC
TCAACAACTTTTGGAAACTTTTGGAAAG
Found at i:10801657 original size:18 final size:16
Alignment explanation
Indices: 10801600--10801657 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 16
10801590 TTGAGTCCTC
*
10801600 TTTTTTCATTTCCACTTT
1 TTTTTTCATTTTCA--TT
10801618 TTTTTTCATTTTCATT
1 TTTTTTCATTTTCATT
10801634 TTTTTTCATTTTTCATT
1 TTTTTTCA-TTTTCATT
10801651 TTATTTT
1 TT-TTTT
10801658 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 10 0.27
17 10 0.27
18 17 0.46
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTCATTTTCATT
Found at i:10801662 original size:16 final size:17
Alignment explanation
Indices: 10801600--10801645 Score: 67
Period size: 16 Copynumber: 2.7 Consensus size: 17
10801590 TTGAGTCCTC
*
10801600 TTTTTTCATTTCCACTTT
1 TTTTTTCATTTTCAC-TT
10801618 TTTTTTCATTTTCA-TT
1 TTTTTTCATTTTCACTT
10801634 TTTTTTCATTTT
1 TTTTTTCATTTT
10801646 TCATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTCATTTTCACTT
Found at i:10801662 original size:23 final size:23
Alignment explanation
Indices: 10801619--10801661 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10801609 TTCCACTTTT
10801619 TTTTTCATTTTCATTTTTTTTCA
1 TTTTTCATTTTCATTTTTTTTCA
10801642 TTTTTCATTTT-ATTTTTTTT
1 TTTTTCATTTTCATTTTTTTT
10801662 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTCATTTTCATTTTTTTTCA
Found at i:10801663 original size:17 final size:17
Alignment explanation
Indices: 10801616--10801657 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
10801606 CATTTCCACT
10801616 TTTTTTTTCA-TTTTCA
1 TTTTTTTTCATTTTTCA
10801632 TTTTTTTTCATTTTTCA
1 TTTTTTTTCATTTTTCA
10801649 TTTTATTTT
1 TTTT-TTTT
10801658 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 10 0.42
18 4 0.17
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCATTTTTCA
Found at i:10801669 original size:23 final size:23
Alignment explanation
Indices: 10801615--10801668 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
10801605 TCATTTCCAC
10801615 TTTTTTTTTCATTTTCATTTTTT
1 TTTTTTTTTCATTTTCATTTTTT
**
10801638 TTCATTTTTCATTTT-ATTTTTT
1 TTTTTTTTTCATTTTCATTTTTT
10801660 TTTTTTTTT
1 TTTTTTTTT
10801669 TAAGCATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTCATTTTCATTTTTT
Found at i:10811830 original size:60 final size:60
Alignment explanation
Indices: 10811595--10811867 Score: 305
Period size: 58 Copynumber: 4.7 Consensus size: 60
10811585 TTTGTACAAA
* * *
10811595 GAAAATTGATACTTTCAACTTTTCCCTC---AA-ATTTTTTTTCG-AAACTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTAGAAAAC-TTATTTTCAAG
* ** *
10811652 AAAAATTGATACTTTCAACTTTTCCT-AAAAA-ACCCTTTTTTAGAAAA-TTATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTAGAAAACTTATTTTCAAG
* * * * *
10811710 GAACATTGATATTTTTAACTTTTCCTCGAAAATA-TTTTTCT-GAAAACTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAAAACTTATTTTCAAG
* *
10811768 GAAGATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTAGAAAACTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAAAACTTATTTTCAAG
* *
10811828 GAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10811868 AAAAATTTTA
Statistics
Matches: 183, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
56 3 0.02
57 27 0.15
58 77 0.42
59 17 0.09
60 59 0.32
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (60 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAAAACTTATTTTCAAG
Found at i:10811920 original size:17 final size:16
Alignment explanation
Indices: 10811898--10811938 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
10811888 ATCATTTTAA
*
10811898 AAAAATAGAATAAAAAT
1 AAAAATAAAAT-AAAAT
10811915 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
10811931 AAGAAATA
1 AA-AAATA
10811939 CTAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:10811980 original size:17 final size:17
Alignment explanation
Indices: 10811955--10811988 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10811945 AATTCTAATT
*
10811955 TAATCAATAAAAAATAA
1 TAATAAATAAAAAATAA
*
10811972 TAATAAATAAATAATAA
1 TAATAAATAAAAAATAA
10811989 ATGAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAATAAATAAAAAATAA
Found at i:10811983 original size:14 final size:13
Alignment explanation
Indices: 10811955--10811988 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10811945 AATTCTAATT
10811955 TAATCAATAAAAAA
1 TAAT-AATAAAAAA
10811969 TAATAATAAATAAA
1 TAATAATAAA-AAA
10811983 TAATAA
1 TAATAA
10811989 ATGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
TAATAATAAAAAA
Found at i:10812073 original size:13 final size:13
Alignment explanation
Indices: 10812055--10812079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10812045 AAAAAAGGTA
10812055 GCTCGGAGACGTG
1 GCTCGGAGACGTG
10812068 GCTCGGAGACGT
1 GCTCGGAGACGT
10812080 CAACTCGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.44, T:0.16
Consensus pattern (13 bp):
GCTCGGAGACGTG
Found at i:10812473 original size:20 final size:20
Alignment explanation
Indices: 10812448--10812485 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10812438 AATTTTCTAG
10812448 AAAAAAAACTCCAAAAATTC
1 AAAAAAAACTCCAAAAATTC
*
10812468 AAAAAAAACTTCAAAAAT
1 AAAAAAAACTCCAAAAAT
10812486 CCTATACTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAAACTCCAAAAATTC
Found at i:10812775 original size:4 final size:4
Alignment explanation
Indices: 10812763--10812948 Score: 52
Period size: 4 Copynumber: 47.5 Consensus size: 4
10812753 TATATATATT
* * * * *
10812763 AATA GATA AAT- AAT- AATA TATG AATA GATA AAT- AATA AA-A AAAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * * *
10812807 AACA TATA TATA TATT AATA GATA AAT- AATA AAT- AA-A AATA AA-A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * *
10812851 AATA TATATT AATA AAT- AATAA AATA TATT AATA GATA AATA AATA AAAA
1 AATA -A-ATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA
* * * *
10812901 AAT- TATA TATT AATA AAT- AATA ATAGTAA CAATA GATA AATA AATA
1 AATA AATA AATA AATA AATA AATA A-A-T-A -AATA AATA AATA AATA
10812947 AA
1 AA
10812949 AGTAAAAAAA
Statistics
Matches: 133, Mismatches: 32, Indels: 34
0.67 0.16 0.17
Matches are distributed among these distances:
3 30 0.23
4 89 0.67
5 7 0.05
6 4 0.03
7 2 0.02
8 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:10812827 original size:38 final size:38
Alignment explanation
Indices: 10812768--10812869 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
10812758 ATATTAATAG
* *
10812768 ATAAATAATAATATATGAATAGATAAATAATAAA-AAAA
1 ATAAAAAAT-ATATATTAATAGATAAATAATAAATAAAA
*
10812806 A-AACATATATATATATTAATAGATAAATAATAAATAAAA
1 ATAA-A-AAATATATATTAATAGATAAATAATAAATAAAA
*
10812845 ATAAAAAATATATATTAATAAATAA
1 ATAAAAAATATATATTAATAGATAA
10812870 TAAAATATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
37 2 0.04
38 43 0.78
39 8 0.15
40 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (38 bp):
ATAAAAAATATATATTAATAGATAAATAATAAATAAAA
Found at i:10812863 original size:27 final size:27
Alignment explanation
Indices: 10812833--10812957 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
10812823 AATAGATAAA
10812833 TAATAAATAAAAATAAAAAATATATAT
1 TAATAAATAAAAATAAAAAATATATAT
* *
10812860 TAATAAAT---AATAAAATATAT-TAA
1 TAATAAATAAAAATAAAAAATATATAT
*
10812883 TAGATAAATAAATAA-AAAAATTATATAT
1 TA-ATAAATAAA-AATAAAAAATATATAT
* * *
10812911 TAATAAATAATAATAGTAACAATAGATA-
1 TAATAAATAAAAATA--AAAAATATATAT
*
10812939 -AATAAATAAAAGTAAAAAA
1 TAATAAATAAAAATAAAAAA
10812958 AAATTACAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
23 4 0.05
24 17 0.22
25 4 0.05
26 2 0.03
27 36 0.47
28 6 0.08
29 8 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
TAATAAATAAAAATAAAAAATATATAT
Found at i:10812879 original size:24 final size:24
Alignment explanation
Indices: 10812838--10812923 Score: 104
Period size: 24 Copynumber: 3.5 Consensus size: 24
10812828 ATAAATAATA
10812838 AATAAA-AATAAAAAATATATATT
1 AATAAATAATAAAAAATATATATT
* *
10812861 AATAAATAATAAAATATAT-TAAT
1 AATAAATAATAAAAAATATATATT
10812884 AGATAAATAAATAAAAAAATTATATATT
1 A-ATAAAT-AAT-AAAAAA-TATATATT
10812912 AATAAATAATAA
1 AATAAATAATAA
10812924 TAGTAACAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.19
24 17 0.32
25 5 0.09
26 8 0.15
27 9 0.17
28 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (24 bp):
AATAAATAATAAAAAATATATATT
Found at i:10813684 original size:60 final size:60
Alignment explanation
Indices: 10813591--10813710 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
10813581 CCAAGGAAAA
* *
10813591 GTTTCCTTCGTGTTTCAAGGAAACCTCCTGGAACTTGCATGAATGGGACATTGCATGAAT
1 GTTTCCTTCATGTTTCAAGGAAACCTCCTGGAACTTACATGAATGGGACATTGCATGAAT
* *
10813651 GTTTCCTTCATGTTTCAAGGAAACTTCCTGGAACTTACATTAATGGGACATTGCATGAAT
1 GTTTCCTTCATGTTTCAAGGAAACCTCCTGGAACTTACATGAATGGGACATTGCATGAAT
10813711 ATCTTTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (60 bp):
GTTTCCTTCATGTTTCAAGGAAACCTCCTGGAACTTACATGAATGGGACATTGCATGAAT
Found at i:10817064 original size:26 final size:24
Alignment explanation
Indices: 10817009--10817065 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
10816999 ATGAATCTGA
* * *
10817009 TTATAAATTATTATTTTTTAATAT
1 TTATTAATTATTATTTATAAATAT
10817033 TATATTAATTACTTATTTATAAATCAT
1 T-TATTAATTA-TTATTTATAAAT-AT
10817060 TTATTA
1 TTATTA
10817066 TTAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 8 0.30
26 15 0.56
27 3 0.11
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATTAATTATTATTTATAAATAT
Found at i:10818743 original size:52 final size:52
Alignment explanation
Indices: 10818663--10818819 Score: 176
Period size: 52 Copynumber: 3.0 Consensus size: 52
10818653 TGGACAAAAA
*
10818663 GACTTGCAAAAGAAGAATTTTAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAGAAAGATGATTCTTAATAGGTAAGTTT
* * * *
10818715 GACTTGCAAGAGAAGAATTCTAAAAGAAAAGA-GATTTTTAATAAGTAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAGAG-AAAGATGATTCTTAATAGGTAAGTTT
* * * * *
10818767 GACTTAC-AGTAAAAAAATTTTAAGAGAAA-ATTGATTCTTAATGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTTTAAGAGAAAGA-TGATTCTTAATAGGTAAGTTT
10818819 G
1 G
10818820 TATGGTTATA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 5 0.06
52 76 0.87
53 5 0.06
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTTTAAGAGAAAGATGATTCTTAATAGGTAAGTTT
Found at i:10819563 original size:32 final size:33
Alignment explanation
Indices: 10819526--10819595 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
10819516 TCTTCTCTTA
*
10819526 AAATTGGATCATGGAAGATAAAATTTTATAA-T
1 AAATTGAATCATGGAAGATAAAATTTTATAATT
* *
10819558 AAATTGAATCATGGAAGGTAAATTTTTATAATT
1 AAATTGAATCATGGAAGATAAAATTTTATAATT
10819591 AAATT
1 AAATT
10819596 TTTATTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 28 0.82
33 6 0.18
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (33 bp):
AAATTGAATCATGGAAGATAAAATTTTATAATT
Found at i:10825298 original size:2 final size:2
Alignment explanation
Indices: 10825291--10825315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10825281 TGGTTGCACT
10825291 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 T
10825316 TTCATTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10830798 original size:79 final size:80
Alignment explanation
Indices: 10830666--10830817 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 80
10830656 ATCACCCTAT
* * *
10830666 TTCTTCAACTGATCTCATGTCTTGGGCTTCTCTTCATCCGAGCCTCGAGCAACCTCATGCTTGGT
1 TTCTTCAACAGATCTCATGTCTTGGGCTTCTCTTCATCCGAGCCTCGAACAACCCCATGCTTGGT
10830731 GCTACCTCATTGTTC
66 GCTACCTCATTGTTC
* *
10830746 TTCTTCAACAGATCTGATGTCTT-GGCTTCTCTTCATCCGAGCCTCGAACAACCCCATGCTTTGT
1 TTCTTCAACAGATCTCATGTCTTGGGCTTCTCTTCATCCGAGCCTCGAACAACCCCATGCTTGGT
*
10830810 TCTACCTC
66 GCTACCTC
10830818 TTACTGTTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 45 0.68
80 21 0.32
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (80 bp):
TTCTTCAACAGATCTCATGTCTTGGGCTTCTCTTCATCCGAGCCTCGAACAACCCCATGCTTGGT
GCTACCTCATTGTTC
Found at i:10835775 original size:212 final size:208
Alignment explanation
Indices: 10835412--10835792 Score: 577
Period size: 212 Copynumber: 1.8 Consensus size: 208
10835402 GAAATCAAAG
10835412 GAAGATTACAAAATTTGGTGACCTCATTAGGTTAATAAATCAATCTTTCTGACATGATTTTTGTC
1 GAAGATTACAAAATTTGGTGACCTCATTAGGTTAATAAATCAATCTTTCTGACATGATTTTTGTC
* * * * ** *
10835477 TTGGAGGATGGACTGTGGGCTGCGACGATTAAAGGAGGTGGGTCCATTGAGCTCAGTAGGGCACG
66 TTGGAGGATGGACTGTGGGCTGCGACGATGAAAGGAAGTGGGTCCATTGAGCTCAATAAGAAACA
*
10835542 AAAAGTCGTAAGGAAGTGGACAATGTTCCCATAACTTCACCATCAAAGTAGCCTTTGGGCAGGGA
131 AAAAGTCATAAGGAAGTGGACAATGTTCCCATAACTTCACCATCAAAGTAGCCTTTGGGCAGGGA
10835607 GCAGAGACAGGTC
196 GCAGAGACAGGTC
10835620 GAAGATTACAAAATTTGGTGACCTCATTAGGTTAATAAATAAATCAATCTTTCTTG-CATGATTT
1 GAAGATTACAAAATTTGGTGACCTCATTAGG-T--T-AATAAATCAATCTTTC-TGACATGATTT
* * * *
10835684 TTGTCTT-GAGGGATGGATTGTGGGTTGTGGCGATGAAAGGAAGTGGGTCCATTGAGCTCAATAA
61 TTGTCTTGGA-GGATGGACTGTGGGCTGCGACGATGAAAGGAAGTGGGTCCATTGAGCTCAATAA
*
10835748 GAAACAAAAAGTCATAAGGTAGTGGACAATGTTCCCATAACTTCA
125 GAAACAAAAAGTCATAAGGAAGTGGACAATGTTCCCATAACTTCA
10835793 TCAAAGTAAC
Statistics
Matches: 154, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
208 31 0.20
209 1 0.01
211 3 0.02
212 117 0.76
213 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (208 bp):
GAAGATTACAAAATTTGGTGACCTCATTAGGTTAATAAATCAATCTTTCTGACATGATTTTTGTC
TTGGAGGATGGACTGTGGGCTGCGACGATGAAAGGAAGTGGGTCCATTGAGCTCAATAAGAAACA
AAAAGTCATAAGGAAGTGGACAATGTTCCCATAACTTCACCATCAAAGTAGCCTTTGGGCAGGGA
GCAGAGACAGGTC
Found at i:10839834 original size:21 final size:21
Alignment explanation
Indices: 10839759--10839826 Score: 136
Period size: 21 Copynumber: 3.2 Consensus size: 21
10839749 TCCTAAAGAA
10839759 GGAAAATGTATGCAAGTTTGT
1 GGAAAATGTATGCAAGTTTGT
10839780 GGAAAATGTATGCAAGTTTGT
1 GGAAAATGTATGCAAGTTTGT
10839801 GGAAAATGTATGCAAGTTTGT
1 GGAAAATGTATGCAAGTTTGT
10839822 GGAAA
1 GGAAA
10839827 CTGAATGCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (21 bp):
GGAAAATGTATGCAAGTTTGT
Found at i:10850983 original size:32 final size:33
Alignment explanation
Indices: 10850935--10850999 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
10850925 ATGGACCAAA
10850935 CAAACAAGCGGAAATGAAGAAAAAGCATGAAGAT
1 CAAACAA-CGGAAATGAAGAAAAAGCATGAAGAT
*
10850969 CAAACAA-GGAAATGAAGAAATAGCATGAAGA
1 CAAACAACGGAAATGAAGAAAAAGCATGAAGA
10851000 AAGAGGGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 23 0.77
34 7 0.23
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.09
Consensus pattern (33 bp):
CAAACAACGGAAATGAAGAAAAAGCATGAAGAT
Found at i:10868304 original size:35 final size:36
Alignment explanation
Indices: 10868253--10868325 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 36
10868243 CAAAACTATG
* * *
10868253 CATTCTGATAGGGAGATGAACAACTTGGGTCAATTC
1 CATTCTGATAGAGAGATGAACAAATTGGGTCAACTC
*
10868289 CATT-TGATAGAGAGATGAATAAATTGGGTCAACTC
1 CATTCTGATAGAGAGATGAACAAATTGGGTCAACTC
10868324 CA
1 CA
10868326 ATCAACTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (36 bp):
CATTCTGATAGAGAGATGAACAAATTGGGTCAACTC
Found at i:10875093 original size:15 final size:15
Alignment explanation
Indices: 10875073--10875102 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10875063 TCTTAATTTC
10875073 AATTATAAATTATAT
1 AATTATAAATTATAT
10875088 AATTATAAATTATAT
1 AATTATAAATTATAT
10875103 TATAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATAAATTATAT
Found at i:10875110 original size:15 final size:15
Alignment explanation
Indices: 10875077--10875110 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10875067 AATTTCAATT
*
10875077 ATAAATTATATAATT
1 ATAAATTATATAATA
*
10875092 ATAAATTATATTATA
1 ATAAATTATATAATA
10875107 ATAA
1 ATAA
10875111 TATAACAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATTATATAATA
Found at i:10884403 original size:30 final size:30
Alignment explanation
Indices: 10884369--10884441 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
10884359 AAATTGAATC
* *
10884369 TAAATAAGCTTCTAACA-TTTAATTTATATT
1 TAAATAAACTTCTAA-ATTTTAATTTATACT
* *
10884399 TAAATAAATTTTTAAATTTTTAATTTATACT
1 TAAATAAACTTCTAAA-TTTTAATTTATACT
10884430 TAAATAAA-TTCT
1 TAAATAAACTTCT
10884442 TAATATAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
31 20 0.56
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (30 bp):
TAAATAAACTTCTAAATTTTAATTTATACT
Found at i:10884423 original size:31 final size:31
Alignment explanation
Indices: 10884386--10884444 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10884376 GCTTCTAACA
* *
10884386 TTTAATTTATATTTAAATAAATTTTTAAATT
1 TTTAATTTATACTTAAATAAATTCTTAAATT
10884417 TTTAATTTATACTTAAATAAATTCTTAA
1 TTTAATTTATACTTAAATAAATTCTTAA
10884445 TATAACTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTAATTTATACTTAAATAAATTCTTAAATT
Found at i:10884524 original size:28 final size:29
Alignment explanation
Indices: 10884465--10884527 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
10884455 TTTTTCATTT
*
10884465 AAAATA-AAAACTTATTTGAATACAAATC
1 AAAATATAAAACTTATTTGAATACAAATA
*
10884493 AAAATATAAAATTTATTT-AGATAC-AATA
1 AAAATATAAAACTTATTTGA-ATACAAATA
10884521 AAAATAT
1 AAAATAT
10884528 GAGTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATATAAAACTTATTTGAATACAAATA
Found at i:10886260 original size:26 final size:24
Alignment explanation
Indices: 10886209--10886255 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10886199 AAATACTAAA
*
10886209 AAAAATATATGATTAGATAAATTT
1 AAAAATATATAATTAGATAAATTT
* *
10886233 AAAAATATATAATTTGATTAATT
1 AAAAATATATAATTAGATAAATT
10886256 ATTAATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
AAAAATATATAATTAGATAAATTT
Found at i:10894726 original size:140 final size:140
Alignment explanation
Indices: 10894474--10894755 Score: 546
Period size: 140 Copynumber: 2.0 Consensus size: 140
10894464 TCTAAGCATG
*
10894474 TCCAGAACTCTTTGAAGACAAACAAAGGTTTTACTTCCAACATAAAAAAAGACAAGATAATTTCC
1 TCCAGAACTCTTTGAAGACAAACAAAGGTTTTACTTCCAACATAAAAAAACACAAGATAATTTCC
*
10894539 CTCTGGAACTGGTTTTGCCAATTCCAGCAAGGCAAGAGAAGAGAAAGCAATGAGAGAAAAAACTC
66 CTCTGGAACTGGTTTTGCAAATTCCAGCAAGGCAAGAGAAGAGAAAGCAATGAGAGAAAAAACTC
10894604 AGATTCAACT
131 AGATTCAACT
10894614 TCCAGAACTCTTTGAAGACAAACAAAGGTTTTACTTCCAACATAAAAAAACACAAGATAATTTCC
1 TCCAGAACTCTTTGAAGACAAACAAAGGTTTTACTTCCAACATAAAAAAACACAAGATAATTTCC
10894679 CTCTGGAACTGGTTTTGCAAATTCCAGCAAGGCAAGAGAAGAGAAAGCAATGAGAGAAAAAACTC
66 CTCTGGAACTGGTTTTGCAAATTCCAGCAAGGCAAGAGAAGAGAAAGCAATGAGAGAAAAAACTC
10894744 AGATTCAACT
131 AGATTCAACT
10894754 TC
1 TC
10894756 TATTCCCCAT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (140 bp):
TCCAGAACTCTTTGAAGACAAACAAAGGTTTTACTTCCAACATAAAAAAACACAAGATAATTTCC
CTCTGGAACTGGTTTTGCAAATTCCAGCAAGGCAAGAGAAGAGAAAGCAATGAGAGAAAAAACTC
AGATTCAACT
Found at i:10896791 original size:20 final size:23
Alignment explanation
Indices: 10896752--10896794 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
10896742 CAAATCTAAG
10896752 AAAAGGACAGAAATTATCAAATT
1 AAAAGGACAGAAATTATCAAATT
10896775 AAAAGGA-A-AAA-TATCAAATT
1 AAAAGGACAGAAATTATCAAATT
10896795 TAGGGTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 1 0.05
23 7 0.35
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (23 bp):
AAAAGGACAGAAATTATCAAATT
Found at i:10900301 original size:14 final size:14
Alignment explanation
Indices: 10900282--10900324 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 14
10900272 CAAATCCAAG
10900282 TAATACATTGATAC
1 TAATACATTGATAC
10900296 TAATACATGCATCGATAC
1 TAATACAT---T-GATAC
10900314 TAATACATTGA
1 TAATACATTGA
10900325 AAGCTTGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
17 1 0.04
18 13 0.52
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (14 bp):
TAATACATTGATAC
Found at i:10900977 original size:29 final size:28
Alignment explanation
Indices: 10900940--10901012 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
10900930 TTGCTCGCCC
*
10900940 CGAACCCGACCCGATTTTATATGCTTTAT
1 CGAATCCGACCCGATTTT-TATGCTTTAT
10900969 CGAATCCGACCCGA-TTTTATGCTTTAT
1 CGAATCCGACCCGATTTTTATGCTTTAT
* *
10900996 CAAATCCAATCCCGATT
1 CGAATCCGA-CCCGATT
10901013 CGATTCGATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 17 0.44
28 8 0.21
29 14 0.36
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (28 bp):
CGAATCCGACCCGATTTTTATGCTTTAT
Found at i:10901133 original size:30 final size:30
Alignment explanation
Indices: 10901097--10901153 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10901087 CGAAATTAAT
* *
10901097 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
*
10901127 AAAATATTATTATATAAATATATATAT
1 AAAATATTATTATATAAATATAAATAT
10901154 AAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATTTA
Found at i:10901162 original size:30 final size:30
Alignment explanation
Indices: 10901091--10901162 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
10901081 CCGATTCGAA
* *
10901091 ATTAATAAAATATTATTTTTTAAATATAAAT
1 ATTAA-AAAATATTATTATATAAATATAAAT
* *
10901122 ATTTAAAAATATTATTATATAAATATATAT
1 ATTAAAAAATATTATTATATAAATATAAAT
10901152 A-TAAATAAATA
1 ATTAAA-AAATA
10901163 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 28 0.80
31 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
ATTAAAAAATATTATTATATAAATATAAAT
Found at i:10902045 original size:15 final size:15
Alignment explanation
Indices: 10902017--10902060 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10902007 TTCAACTTCC
*
10902017 ATTTATTTTCCTTTT
1 ATTTTTTTTCCTTTT
* *
10902032 TTTTTTTTTACTTTT
1 ATTTTTTTTCCTTTT
10902047 ATTTTTTTTCCTTT
1 ATTTTTTTTCCTTT
10902061 GGGTTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTTTTCCTTTT
Done.