Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167933.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_196, 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: 52939
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
File 2 of 2
Found at i:35095 original size:8 final size:8
Alignment explanation
Indices: 35073--35166 Score: 63
Period size: 8 Copynumber: 11.2 Consensus size: 8
35063 ATTTTAAATG
35073 ATTATAAT
1 ATTATAAT
35081 AATTATAAT
1 -ATTATAAT
35090 ATTATAAT
1 ATTATAAT
35098 ATTATTAAT
1 ATTA-TAAT
*
35107 -TGTTTAATT
1 AT-TATAA-T
35116 ATT-TAA-
1 ATTATAAT
35122 ATTATTAAT
1 ATTA-TAAT
35131 ATTATAAT
1 ATTATAAT
35139 -TTATTAAT
1 ATTA-TAAT
35147 ATATACTAAT
1 AT-TA-TAAT
35157 -TTAATAAT
1 ATT-ATAAT
35165 AT
1 AT
35167 AACAATTTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 24
0.73 0.02 0.25
Matches are distributed among these distances:
6 3 0.04
7 3 0.04
8 35 0.49
9 23 0.32
10 7 0.10
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (8 bp):
ATTATAAT
Found at i:35147 original size:16 final size:16
Alignment explanation
Indices: 35077--35180 Score: 88
Period size: 16 Copynumber: 6.2 Consensus size: 16
35067 TAAATGATTA
35077 TAATAATTATAATATTA-
1 TAAT-ATTATAAT-TTAT
35094 TAATATTATTAATTGT-T
1 TAATATTA-TAATT-TAT
*
35111 TAATTATT-TAAATTAT
1 TAA-TATTATAATTTAT
35127 TAATATTATAATTTAT
1 TAATATTATAATTTAT
*
35143 TAATATATACTAATTTAA
1 TAATAT-TA-TAATTTAT
* *
35161 TAATATAACAATTTAT
1 TAATATTATAATTTAT
35177 TAAT
1 TAAT
35181 TAATATTTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.07
16 36 0.49
17 15 0.21
18 17 0.23
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (16 bp):
TAATATTATAATTTAT
Found at i:35675 original size:15 final size:13
Alignment explanation
Indices: 35649--35682 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
35639 TTATAATTAA
35649 AATAAAGTTTTTT
1 AATAAAGTTTTTT
35662 AATAATAGTATTTTT
1 AATAA-AGT-TTTTT
35677 AATAAA
1 AATAAA
35683 TATTATGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
AATAAAGTTTTTT
Found at i:36415 original size:22 final size:21
Alignment explanation
Indices: 36381--36422 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
36371 ATATTAAATA
*
36381 TAATTAATAATTATAATTTAC
1 TAATTAAAAATTATAATTTAC
*
36402 TAATTAAAATATTATATTTTA
1 TAATTAAAA-ATTATAATTTA
36423 TGCGTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTAAAAATTATAATTTAC
Found at i:36575 original size:22 final size:20
Alignment explanation
Indices: 36550--36589 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36540 ATTAATTAAT
36550 ATTAATTTAATTATTTATTATA
1 ATTAATTT-A-TATTTATTATA
36572 ATTAATTTATATTTATTA
1 ATTAATTTATATTTATTA
36590 ACTTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAATTTATATTTATTATA
Found at i:36598 original size:20 final size:20
Alignment explanation
Indices: 36550--36603 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
36540 ATTAATTAAT
36550 ATTAATTTAATTATTTATTATA
1 ATTAA-TTAA-TATTTATTATA
*
36572 ATTAATTTATATTTATTA-A
1 ATTAATTAATATTTATTATA
*
36591 CTTAAATTAATAT
1 ATT-AATTAATAT
36604 ACTTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 3 0.11
22 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATTAATATTTATTATA
Found at i:36601 original size:28 final size:27
Alignment explanation
Indices: 36536--36601 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
36526 TTCATTGCTT
36536 TTAAATTAATTAATATTAATTTAATTA
1 TTAAATTAATTAATATTAATTTAATTA
* *
36563 TTTATTATAATTAAT-TTATATTT-ATTAA
1 TTAAAT-TAATTAATATTA-ATTTAATT-A
36591 CTTAAATTAAT
1 -TTAAATTAAT
36602 ATACTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
27 10 0.32
28 17 0.55
29 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTAAATTAATTAATATTAATTTAATTA
Found at i:36693 original size:15 final size:15
Alignment explanation
Indices: 36673--36704 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36663 CTCAGTGTAT
*
36673 TATATTAGATTATAA
1 TATATTAAATTATAA
36688 TATATTAAATTATAA
1 TATATTAAATTATAA
36703 TA
1 TA
36705 ATTTATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATATTAAATTATAA
Found at i:36780 original size:29 final size:27
Alignment explanation
Indices: 36749--36874 Score: 86
Period size: 29 Copynumber: 4.5 Consensus size: 27
36739 GTTACTATAT
36749 TATAATTATATAATATAATTAATATTAA
1 TATAATTATATAATATAATT-ATATTAA
*
36777 TTATTAATT-TAAAATTATAATTATATTAA
1 -TA-TAATTATATAA-TATAATTATATTAA
*
36806 TAT-TTTAT-TAAATACTAATTAT-TTAA
1 TATAATTATAT-AATA-TAATTATATTAA
36832 TA-AATT-TATAA-ATAATTATAATTATTAA
1 TATAATTATATAATATAA-T-T-A-TATTAA
36860 TATAATTATAATAAT
1 TATAATTAT-ATAAT
36875 TCGATCGTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 4 0.05
26 14 0.18
27 12 0.16
28 8 0.10
29 17 0.22
30 13 0.17
31 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
TATAATTATATAATATAATTATATTAA
Found at i:36784 original size:17 final size:16
Alignment explanation
Indices: 36757--36809 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
36747 ATTATAATTA
36757 TATAATATAATTAATAT
1 TATAAT-TAATTAATAT
* *
36774 TAATTATTAATTTAAAAT
1 T-ATAATTAA-TTAATAT
36792 TATAATTATATTAATAT
1 TATAATTA-ATTAATAT
36809 T
1 T
36810 TTATTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAATTAATTAATAT
Found at i:36839 original size:27 final size:26
Alignment explanation
Indices: 36772--36845 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
36762 TATAATTAAT
*
36772 ATTA-ATTATTAATTTA-AAATTA-TA
1 ATTATATTAATAATTTATAAA-TACTA
*
36796 ATTATATTAATATTTTATTAAATACTA
1 ATTATATTAATAATTTA-TAAATACTA
36823 ATTAT-TTAATAAATTTATAAATA
1 ATTATATTAAT-AATTTATAAATA
36846 ATTATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.10
25 10 0.24
26 13 0.31
27 15 0.36
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTATATTAATAATTTATAAATACTA
Found at i:36852 original size:18 final size:19
Alignment explanation
Indices: 36831--36870 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
36821 TAATTATTTA
36831 ATAAATT-TATAA-ATAATT
1 ATAAATTAT-TAATATAATT
36849 AT-AATTATTAATATAATT
1 ATAAATTATTAATATAATT
36867 ATAA
1 ATAA
36871 TAATTCGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.37
18 11 0.58
19 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAATTATTAATATAATT
Found at i:37680 original size:19 final size:21
Alignment explanation
Indices: 37658--37699 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
37648 TTTATATATA
37658 ATAAATAT-ATATTAGTAT-T
1 ATAAATATAATATTAGTATGT
*
37677 AT-AATTTAATATTAGTATGT
1 ATAAATATAATATTAGTATGT
37697 ATA
1 ATA
37700 TTAAATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
18 4 0.21
19 12 0.63
20 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
ATAAATATAATATTAGTATGT
Found at i:37854 original size:19 final size:19
Alignment explanation
Indices: 37830--37874 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37820 ATATATACAT
*
37830 TTAATTATATT-ATAATAA
1 TTAATTAAATTAATAATAA
*
37848 TTGAATTAAATTAATTATAA
1 TT-AATTAAATTAATAATAA
37868 TTAATTA
1 TTAATTA
37875 GTTTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATTAAATTAATAATAA
Found at i:38365 original size:21 final size:20
Alignment explanation
Indices: 38328--38386 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
38318 TTATAATATA
*
38328 ATTAAT-TATAATAATTATT
1 ATTAATATATAATTATTATT
38347 ATATAGATA-ATAATTATTATT
1 AT-TA-ATATATAATTATTATT
38368 -TTAATATATAATT-TTATT
1 ATTAATATATAATTATTATT
38386 A
1 A
38387 ATACTAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 8 0.24
19 10 0.29
20 3 0.09
21 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTAATATATAATTATTATT
Found at i:38486 original size:30 final size:28
Alignment explanation
Indices: 38411--38486 Score: 66
Period size: 30 Copynumber: 2.6 Consensus size: 28
38401 AGTTATTAAT
* *
38411 TATTTTAA-TAATTTATAATACTAATAA
1 TATTATAATTAATTAATAATACTAATAA
38438 TATTATAATT-ATCCTAATAATTACTAATAA
1 TATTATAATTAAT--TAATAA-TACTAATAA
**
38468 TGATTATCTTTAATTAATA
1 T-ATTATAATTAATTAATA
38487 TTATATATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 9 0.23
28 1 0.03
29 5 0.13
30 15 0.38
31 7 0.18
32 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (28 bp):
TATTATAATTAATTAATAATACTAATAA
Found at i:38555 original size:21 final size:21
Alignment explanation
Indices: 38500--38555 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
38490 TATATAGAAT
*
38500 TTAATATAAATAATTTATTAA
1 TTAATATAAATAATTTAATAA
* * *
38521 -TAGTAGATACTAATTTAATAA
1 TTAATATA-AATAATTTAATAA
38542 TTAATATAAATAAT
1 TTAATATAAATAAT
38556 AATTAACAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TTAATATAAATAATTTAATAA
Found at i:38694 original size:22 final size:22
Alignment explanation
Indices: 38668--38712 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38658 TATGAGTGGA
**
38668 AATATAGATTATCTATATTTAT
1 AATATAGATTATAAATATTTAT
*
38690 AATATAGTTTATAAATATTTAT
1 AATATAGATTATAAATATTTAT
38712 A
1 A
38713 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATATAGATTATAAATATTTAT
Found at i:38717 original size:17 final size:18
Alignment explanation
Indices: 38692--38725 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38682 ATATTTATAA
38692 TATAGTTT-ATAAATATT
1 TATAGTTTAATAAATATT
*
38709 TATATTTTAATAAATAT
1 TATAGTTTAATAAATAT
38726 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAGTTTAATAAATATT
Found at i:39000 original size:19 final size:19
Alignment explanation
Indices: 38898--39005 Score: 53
Period size: 19 Copynumber: 5.4 Consensus size: 19
38888 ATGCTTATTA
38898 ATAAA-TATAATTAATAAT
1 ATAAATTATAATTAATAAT
38916 AT-AATTAT--TTAATTAAAT
1 ATAAATTATAATTAA-T-AAT
* *
38934 AATAAATTAATAAATAGTGAACAT
1 -ATAAATT-ATAATTAAT--A-AT
*
38958 ATAATAGTATTAATTAATAAT
1 ATAA-ATTA-TAATTAATAAT
* * *
38979 ATATATTATAATTGATATT
1 ATAAATTATAATTAATAAT
38998 ATAAATTA
1 ATAAATTA
39006 ACTATATTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
16 4 0.06
17 3 0.04
18 8 0.12
19 18 0.26
20 7 0.10
21 7 0.10
22 2 0.03
23 9 0.13
24 10 0.15
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (19 bp):
ATAAATTATAATTAATAAT
Found at i:39251 original size:34 final size:35
Alignment explanation
Indices: 39179--39308 Score: 74
Period size: 34 Copynumber: 3.7 Consensus size: 35
39169 TTTATTACTA
* * * *
39179 AATTCAATATTATCTAATAA-ATTAAATATTAATTT
1 AATTCAATATTATATAATAATATTATATAAT-ATAT
39214 AATT-AATA-TATATTAATAATATTATATAATATAT
1 AATTCAATATTATA-TAATAATATTATATAATATAT
** * *
39248 AATTGGATATTAT-TAATTATTTTATATTAAT-TATT
1 AATTCAATATTATATAATAATATTATA-TAATATA-T
* *
39283 ATATGT-AATAATATATAAAAATATTA
1 A-AT-TCAATATTATATAATAATATTA
39309 CACATTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
33 3 0.04
34 30 0.41
35 21 0.28
36 11 0.15
37 9 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (35 bp):
AATTCAATATTATATAATAATATTATATAATATAT
Found at i:41174 original size:17 final size:18
Alignment explanation
Indices: 41130--41185 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
41120 TTAGATTACT
*
41130 TTATTAATATATAATATAA
1 TTATTAATAAATAAT-TAA
41149 -TATTAAT-AATAGATTAA
1 TTATTAATAAATA-ATTAA
41166 TTATT-ATAAATAATTAA
1 TTATTAATAAATAATTAA
41183 TTA
1 TTA
41186 CAATTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTATTAATAAATAATTAA
Found at i:41226 original size:14 final size:14
Alignment explanation
Indices: 41161--41232 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
41151 TTAATAATAG
*
41161 ATTAATT-ATTATA
1 ATTAATTAATTATT
* **
41174 AATAATTAATTACA
1 ATTAATTAATTATT
*
41188 ATT-ATTTA-TATT
1 ATTAATTAATTATT
*
41200 AGTTTATTCAATTATT
1 A-TTAATT-AATTATT
41216 ATTAATTAATTATT
1 ATTAATTAATTATT
41230 ATT
1 ATT
41233 TTGAAAATAG
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
12 3 0.07
13 12 0.26
14 20 0.43
15 6 0.13
16 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (14 bp):
ATTAATTAATTATT
Found at i:41291 original size:10 final size:9
Alignment explanation
Indices: 41277--41319 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
41267 TAATTTATCC
41277 TTTATTATA
1 TTTATTATA
41286 TCTTATTAATA
1 T-TTATT-ATA
*
41297 ATTATTATA
1 TTTATTATA
41306 TTATATTATA
1 TT-TATTATA
41316 TTTA
1 TTTA
41320 ATTAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 7 0.24
10 19 0.66
11 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTATTATA
Found at i:41343 original size:27 final size:26
Alignment explanation
Indices: 41279--41339 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
41269 ATTTATCCTT
*
41279 TATTATATCT-TA-TTAATAATTATTA
1 TATTATAT-TATATTTAATAATAATTA
41304 TATTATATTATATTTAATTAATAATTA
1 TATTATATTATATTTAA-TAATAATTA
41331 TATTA-ATTA
1 TATTATATTA
41340 ATATAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 1 0.03
25 10 0.31
26 8 0.25
27 13 0.41
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTATATTATATTTAATAATAATTA
Found at i:41357 original size:22 final size:21
Alignment explanation
Indices: 41289--41365 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
41279 TATTATATCT
*
41289 TATTAA-TAAT-TATTATATTA
1 TATTAATTAATATAATA-ATTA
41309 TATTATATTTAAT-TAATAATTA
1 TATTA-A-TTAATATAATAATTA
41331 TATTAATTAATATAATCAATT-
1 TATTAATTAATATAAT-AATTA
*
41352 TAATTACTTAATAT
1 T-ATTAATTAATAT
41366 TAAATATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
20 10 0.20
21 7 0.14
22 24 0.49
23 8 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAATTAATATAATAATTA
Found at i:41357 original size:27 final size:27
Alignment explanation
Indices: 41279--41350 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 27
41269 ATTTATCCTT
*
41279 TATTATATCT-TAT-TAAT-AATTATTA
1 TATTATAT-TATATATAATCAATAATTA
* *
41304 TATTATATTATATTTAATTAATAATTA
1 TATTATATTATATATAATCAATAATTA
41331 TATTA-ATTA-ATATAATCAAT
1 TATTATATTATATATAATCAAT
41351 TTAATTACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 20 0.49
26 8 0.20
27 12 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTATATTATATATAATCAATAATTA
Found at i:41392 original size:21 final size:20
Alignment explanation
Indices: 41368--41424 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
41358 CTTAATATTA
41368 AATA-TTAATATAAATAAAT
1 AATATTTAATATAAATAAAT
*
41387 AGAATATTTAA-ATAATTAAAT
1 --AATATTTAATATAAATAAAT
*
41408 AATATTTAATTTAAATA
1 AATATTTAATATAAATA
41425 GCAAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 13 0.42
22 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATTTAATATAAATAAAT
Found at i:42546 original size:28 final size:29
Alignment explanation
Indices: 42493--42552 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
42483 TTTATTAAGC
42493 TAATAAAATAGTTTAAATTGATATTAATTA
1 TAATAAAATAGTTTAAATTGATATTAA-TA
*
42523 TAAT-AAATA-TTTAAA-TGTTCATTAATA
1 TAATAAAATAGTTTAAATTGAT-ATTAATA
42550 TAA
1 TAA
42553 ACTAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.29
28 11 0.39
29 5 0.18
30 4 0.14
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (29 bp):
TAATAAAATAGTTTAAATTGATATTAATA
Found at i:43104 original size:13 final size:14
Alignment explanation
Indices: 43085--43117 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43075 ATATTTACTA
*
43085 AATTTAAGTATAAT
1 AATTTAACTATAAT
43099 -ATTTAACTATAAT
1 AATTTAACTATAAT
43112 AATTTA
1 AATTTA
43118 TTAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
AATTTAACTATAAT
Found at i:43161 original size:16 final size:16
Alignment explanation
Indices: 43140--43180 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
43130 TCTTATTATA
43140 TAATTAAT-TTAGTAAT
1 TAATTAATATTA-TAAT
*
43156 TAATTAATATTATTAT
1 TAATTAATATTATAAT
43172 TAATTAATA
1 TAATTAATA
43181 ATATCCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATTAATATTATAAT
Found at i:43190 original size:20 final size:20
Alignment explanation
Indices: 43152--43190 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43142 ATTAATTTAG
*
43152 TAATTAATTAATATTATTAT
1 TAATTAATTAATATCATTAT
43172 TAATTAA-TAATATCCATTA
1 TAATTAATTAATAT-CATTA
43191 ATTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTAATTAATATCATTAT
Found at i:44295 original size:30 final size:28
Alignment explanation
Indices: 44260--44374 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 28
44250 CTAAGTAATA
44260 ATTATTTAATTATATATAATTAAATAA-ACT
1 ATTATTTAATT-TATAT-ATT-AATAATACT
* *
44290 ATTATTAAATTTATATATTAATAATAGT
1 ATTATTTAATTTATATATTAATAATACT
* *
44318 -TTATTTAATATTTAAATATT-ATAATTAAAT
1 ATTATTT-A-ATTTATATATTAATAA-T-ACT
44348 ATTATATTAATTTATAAATATTAATAA
1 ATTAT-TTAATTTAT--ATATTAATAA
44375 CTGAATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 10 0.14
28 10 0.14
29 16 0.23
30 17 0.25
31 5 0.07
32 7 0.10
33 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
ATTATTTAATTTATATATTAATAATACT
Found at i:44387 original size:63 final size:63
Alignment explanation
Indices: 44262--44397 Score: 147
Period size: 63 Copynumber: 2.1 Consensus size: 63
44252 AAGTAATAAT
* * *
44262 TATTTAATTATATATAATTAAATAAACTATTATTAAATTTATATATTAATAATAGTTTATTTAA
1 TATTTAAATATATATAATTAAAT-AACTATTATTAAATTTATATATTAATAATAATTAATTTAA
*
44326 TATTTAAATAT-TATAATTAAAT-ATTA-TATT-AATTTATAAATATTAATAACTGAATTAATTT
1 TATTTAAATATATATAATTAAATAACTATTATTAAATTTAT--ATATTAATAA-T-AATTAATTT
44387 AA
62 AA
44389 T-TGTTAAAT
1 TAT-TTAAAT
44398 TAAATATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
59 7 0.11
60 4 0.06
61 13 0.21
62 2 0.03
63 27 0.43
64 10 0.16
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (63 bp):
TATTTAAATATATATAATTAAATAACTATTATTAAATTTATATATTAATAATAATTAATTTAA
Found at i:44397 original size:31 final size:28
Alignment explanation
Indices: 44255--44397 Score: 87
Period size: 29 Copynumber: 4.8 Consensus size: 28
44245 TATGACTAAG
* *
44255 TAATAA-TTATTTAATTATATATAATTAAA
1 TAATAATTTATTTAATTTTAAAT-ATT-AA
* * *
44284 TAA-ACTATTA-TTAAATTTATATATTAA
1 TAATAAT-TTATTTAATTTTAAATATTAA
*
44311 TAATAGTTTATTTAATATTTAAATATT-A
1 TAATAATTTATTTAAT-TTTAAATATTAA
44339 TAATTAAATATTATATTAATTTATAAATATTAA
1 TAA-T-AAT-TTAT-TTAATTT-TAAATATTAA
*
44372 TAACTGAATTAATTTAATTGTTAAAT
1 TAA-T-AATTTATTTAATT-TTAAAT
44398 TAAATATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
27 8 0.09
28 14 0.15
29 23 0.25
30 5 0.05
31 17 0.18
32 17 0.18
33 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (28 bp):
TAATAATTTATTTAATTTTAAATATTAA
Found at i:44873 original size:27 final size:28
Alignment explanation
Indices: 44841--44897 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
44831 GTAATTTTAA
44841 TAATTATT-TATAAATTAATTAAAT-ATT
1 TAATTATTAT-TAAATTAATTAAATAATT
* *
44868 TAATTATTATTTAATTAATTTAATAATT
1 TAATTATTATTAAATTAATTAAATAATT
44896 TA
1 TA
44898 TAGATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATTATTATTAAATTAATTAAATAATT
Found at i:44874 original size:23 final size:23
Alignment explanation
Indices: 44839--44885 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
44829 TTGTAATTTT
*
44839 AATAATTATTTATAAATTAATTA
1 AATAATTAATTATAAATTAATTA
* * *
44862 AATATTTAATTATTATTTAATTA
1 AATAATTAATTATAAATTAATTA
44885 A
1 A
44886 TTTAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATAATTAATTATAAATTAATTA
Found at i:45044 original size:18 final size:19
Alignment explanation
Indices: 45008--45048 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
44998 TTAATTTTAT
*
45008 ATTAATTTAACTAATATAA
1 ATTAATTTAAATAATATAA
45027 ATTAATTTAAAT-ATATAA
1 ATTAATTTAAATAATATAA
45045 ATTA
1 ATTA
45049 TTAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAAATAATATAA
Found at i:45062 original size:23 final size:25
Alignment explanation
Indices: 45033--45091 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
45023 ATAAATTAAT
45033 TTAAATATATAAATTATT-A-ATTA
1 TTAAATATATAAATTATTAATATTA
* *
45056 TTAAATATTTAATTTATTAATATTA
1 TTAAATATATAAATTATTAATATTA
*
45081 ATAAATATATA
1 TTAAATATATA
45092 TTTATTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.53
24 1 0.03
25 13 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAAATATATAAATTATTAATATTA
Found at i:45112 original size:23 final size:24
Alignment explanation
Indices: 45034--45105 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
45024 TAAATTAATT
* *
45034 TAAATATATAAATTATT-A-ATTAT
1 TAAATATAT-ATTTATTAATATTAA
*
45057 TAAATATTTAATTTATTAATATTAA
1 TAAATATAT-ATTTATTAATATTAA
*
45082 TAAATATATATTTATTGA-ATTAA
1 TAAATATATATTTATTAATATTAA
45105 T
1 T
45106 TGATATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 21 0.50
24 9 0.21
25 12 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
TAAATATATATTTATTAATATTAA
Found at i:45608 original size:180 final size:180
Alignment explanation
Indices: 45191--45668 Score: 512
Period size: 180 Copynumber: 2.6 Consensus size: 180
45181 TAATATCATT
* * * * * * **
45191 AATAATACTAATTTATTAATATTTAAAAAATTAATTAGTAAAAGATTTAAAAAGTAAATCTCCTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTAATT
** ** * * *
45256 ACCAAACCTTTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTCGAATCGTTATAACCTTT
66 ACCAAACCAGTTCAAATAGTTAAGACTA-TTGAATAATTATCTATTTCAAATCGTTATAACCTTT
* * * **
45321 TATTTTATCATCAAACAATTGGTTTTGTTTATACTATTTTATTCGAAATAA
130 TATTTTATCATAAAACAATTGGTTTTGTTCATACAAGCTTATTCGAAATAA
* * * * *
45372 AATAAAACTAATTTAATAATA-TTCTGAAACTTAATAACCAAGCA-AATTAAAAAATAAATCTAA
1 AATAATACTAATTTAATAATATTTC-AAAAATTAATAACTAAG-AGATTTAAAAAATAAATCTAA
**** * * *
45435 TTGTTGAACCAGTTGAAATAGTTAAGACTATATGAATGATTATCTATTTCAAATCGTTATGACCT
64 TTACCAAACCAGTTCAAATAGTTAAGACTAT-TGAATAATTATCTATTTCAAATCGTTATAACCT
* * * * *
45500 TTTCTTTTGTCATAAAACAATT-GTTTTGTTCATACAAGCTTATTTGGATTAA
128 TTTATTTTATCATAAAACAATTGGTTTTGTTCATACAAGCTTATTCGAAATAA
* **
45552 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTAATT
* *
45617 ACCAAATCAGTTCAAATGGTTAAGACTATTAGAATAATTATCTATTTCAAAT
66 ACCAAACCAGTTCAAATAGTTAAGACTATT-GAATAATTATCTATTTCAAAT
45669 TGTTCTGATA
Statistics
Matches: 238, Mismatches: 53, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
179 2 0.01
180 119 0.50
181 116 0.49
182 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (180 bp):
AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTAATT
ACCAAACCAGTTCAAATAGTTAAGACTATTGAATAATTATCTATTTCAAATCGTTATAACCTTTT
ATTTTATCATAAAACAATTGGTTTTGTTCATACAAGCTTATTCGAAATAA
Found at i:45757 original size:24 final size:23
Alignment explanation
Indices: 45716--45785 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
45706 TTATAATTGA
*
45716 TTAAAC-AATTAT-ACTAATAAT
1 TTAAACTAATTATAAATAATAAT
*
45737 TTATAACTATTTATAAATAATTAAT
1 TTA-AACTAATTATAAATAA-TAAT
* *
45762 TTAAAGTAATTATAATTAATAAT
1 TTAAACTAATTATAAATAATAAT
45785 T
1 T
45786 ATATTAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.08
22 3 0.08
23 10 0.25
24 17 0.43
25 7 0.17
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (23 bp):
TTAAACTAATTATAAATAATAAT
Found at i:45816 original size:59 final size:58
Alignment explanation
Indices: 45722--45855 Score: 134
Period size: 59 Copynumber: 2.3 Consensus size: 58
45712 TTGATTAAAC
* * *
45722 AATTATACTAATAATTTATAACTATTTATAAATAATTAATTTAAAGT-AATTATAATTAAT
1 AATTATATTAATTA-TTATAACAATTTATAAATAATTAATTT-AAGTCAA-TATAATTAAT
* * **
45782 AATTATATTAATTATTATAACAATTTA-AGTATAATTTATTTAAGTCAATATCTTTAAT
1 AATTATATTAATTATTATAACAATTTATA-AATAATTAATTTAAGTCAATATAATTAAT
45840 -ATTA-ATTAA-TATTATA
1 AATTATATTAATTATTATA
45856 TGATATATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
55 7 0.11
56 5 0.08
57 4 0.06
58 13 0.20
59 24 0.37
60 12 0.18
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (58 bp):
AATTATATTAATTATTATAACAATTTATAAATAATTAATTTAAGTCAATATAATTAAT
Found at i:47020 original size:23 final size:25
Alignment explanation
Indices: 46993--47047 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
46983 ATAAAATAAT
46993 ATTAATTTA-TTAAA-ATTCAAAAA
1 ATTAATTTACTTAAAGATTCAAAAA
* *
47016 ATTAA-TAACTTAAAGATTTAAAAA
1 ATTAATTTACTTAAAGATTCAAAAA
*
47040 ATAAATTT
1 ATTAATTT
47048 GTTTATCGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 10 0.40
24 12 0.48
25 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATTTACTTAAAGATTCAAAAA
Found at i:47187 original size:182 final size:179
Alignment explanation
Indices: 46769--47530 Score: 676
Period size: 182 Copynumber: 4.3 Consensus size: 179
46759 GAAACAATTG
* * * * *
46769 TAAAATAATTGTTT-AAGTTCATACAAGCTTATTTC-GAATAAAATAATA-TAAATTTACTAATA
1 TAAAACAATTGTTTCTA-TTCATACAAACTTA-TTCAAAATAAAATAATACT-AATTTATTAATA
** * * * * * * *
46831 TTCTAAGGATTAATAAGTAAAAATTTAAAAAATAAATCTATTTTCTAAA-CACGTTCAAATAGTT
63 TTCTAAAAATTAATAATTAGAGATTTAAAAAATAAATTTGTTTAC-AAACCA-ATTCAAATAGTT
* * * *
46895 ATGATTATTTGAACAATTATCTATTTCAAATCGTCATGAC-CTTT-TTTTGTCA
126 ATGACTATTTAAATAATTATCTATTTCAAATCGTCATGACATTTTGTTTTGTCA
* * * * * *
46947 TACACCAATT-TTTCTATTCATA-AAGGCTTATTCAGAATAAAATAATATTAATTTATTAAAATT
1 TAAAACAATTGTTTCTATTCATACAA-ACTTATTCAAAATAAAATAATACTAATTTATTAATATT
* * * * *
47010 CAAAAAATTAATAACTTAAAGATTTAAAAAATAAATTTGTTTATCGAGCGAATTCAAATAGTTAT
65 CTAAAAATTAATAA-TTAGAGATTTAAAAAATAAATTTGTTTA-CAAACCAATTCAAATAGTTAT
* * * * *
47075 GACTACTTAAATAATTATTTTATTTCAAATTGTTATGATATTTTGATTTT-TCA
128 GACTATTTAAATAATTA-TCTATTTCAAATCGTCATGACATTTTG-TTTTGTCA
* * ** *
47128 TAAACCAATAGTTTCTATTCATACAAGTTTATTCAAAATAAGATAATACTAATTTATTAATATTC
1 TAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAATACTAATTTATTAATATTC
* * * * *
47193 TAAAAATTAATAAGTTGGAGATTTAAATAATAAATATGTTTACCAAA-TAAGTTCAAATAGTCAT
66 TAAAAATTAATAA-TTAGAGATTTAAAAAATAAATTTGTTTA-CAAACCAA-TTCAAATAGTTAT
* * *
47257 GTCTATTTAAA-ACTATTATCTATTTCAAATCATCAGGACATTTTGTTTTGTCA
128 GACTATTTAAATA--ATTATCTATTTCAAATCGTCATGACATTTTGTTTTGTCA
* * * *
47310 TAAAACAATTGTTTCTATTCATACAAAATTATTCAGAATAAAATAATACTATTTTATTAATATTT
1 TAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAATACTAATTTATTAATATTC
* * * *
47375 TGAAAATTAAT-A--AGAGATTTAAAAACTAAATTTGTTTACCAAACCAGTTCAAATAATTATGA
66 TAAAAATTAATAATTAGAGATTTAAAAAATAAATTTGTTTA-CAAACCAATTCAAATAGTTATGA
* * * *
47437 CTATTTGATTAGTTATCTATTTCAAATTGAT-ATG--ATCTTTGTTTTGTCA
130 CTATTTAAATAATTATCTATTTCAAATCG-TCATGACAT-TTTGTTTTGTCA
* * * *
47486 TAAAATAATTGTTTATATTCATATAAACTTATTCAAAGTAAAATA
1 TAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATA
47531 TTGCTAAACT
Statistics
Matches: 480, Mismatches: 83, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
175 2 0.00
176 56 0.12
177 67 0.14
178 106 0.22
179 21 0.04
180 3 0.01
181 19 0.04
182 200 0.42
183 6 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAATACTAATTTATTAATATTC
TAAAAATTAATAATTAGAGATTTAAAAAATAAATTTGTTTACAAACCAATTCAAATAGTTATGAC
TATTTAAATAATTATCTATTTCAAATCGTCATGACATTTTGTTTTGTCA
Found at i:47621 original size:20 final size:20
Alignment explanation
Indices: 47598--47636 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47588 TGAGTTTAAT
*
47598 AATTATTACTATTAATTATC
1 AATTATTACTAATAATTATC
*
47618 AATTATTGCTAATAATTAT
1 AATTATTACTAATAATTAT
47637 AGGAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
AATTATTACTAATAATTATC
Found at i:47806 original size:16 final size:15
Alignment explanation
Indices: 47772--47813 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
47762 AAATGTTATT
* *
47772 TAATAATAATTAAAT
1 TAATAATTATTAAAA
47787 TAATAATTATATAAAA
1 TAATAATTAT-TAAAA
47803 TAATAATTATT
1 TAATAATTATT
47814 TTATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATTATTAAAA
Found at i:47823 original size:24 final size:25
Alignment explanation
Indices: 47792--47839 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47782 TAAATTAATA
47792 ATTATAT-AAAATAA-TAATTATTTT
1 ATTATATAAAAATAATTAA-TATTTT
47816 ATTATATAAAAATAATTAATATTT
1 ATTATATAAAAATAATTAATATTT
47840 AATAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 12 0.55
26 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATATAAAAATAATTAATATTTT
Found at i:48000 original size:19 final size:19
Alignment explanation
Indices: 47967--48005 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47957 GATAAACAAA
*
47967 AAAATATTTTAATTATAAT
1 AAAATATTTTAATTAAAAT
47986 AAAATAATTTT-ATTAAAAT
1 AAAAT-ATTTTAATTAAAAT
48005 A
1 A
48006 TTGTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATATTTTAATTAAAAT
Found at i:48484 original size:24 final size:25
Alignment explanation
Indices: 48457--48504 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
48447 TATTATTTAT
**
48457 TAATCATTTTATAAATT-TAATTAA
1 TAATCATAATATAAATTATAATTAA
*
48481 TAATTATAATATAAATTATAATTA
1 TAATCATAATATAAATTATAATTA
48505 CAAACTATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATCATAATATAAATTATAATTAA
Found at i:48549 original size:18 final size:17
Alignment explanation
Indices: 48518--48551 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48508 ACTATCAATA
48518 AATTAAATTAAATTTTT
1 AATTAAATTAAATTTTT
*
48535 AATTATAATTTAATTTT
1 AATTA-AATTAAATTTT
48552 ATCTATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAAATTAAATTTTT
Found at i:48776 original size:15 final size:15
Alignment explanation
Indices: 48756--48795 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
48746 TAAAATGAAT
*
48756 AATAATATTATTATC
1 AATAATATAATTATC
*
48771 AATAATATAATTATT
1 AATAATATAATTATC
48786 AA-AATATAAT
1 AATAATATAAT
48796 ATATAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATATAATTATC
Found at i:48873 original size:29 final size:27
Alignment explanation
Indices: 48820--48889 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 27
48810 TTGCTTTATT
* * *
48820 AACAAATT-AT-TAATTTATTATTATA
1 AACAAATTAATATTATTTAATAATATA
48845 AACAATATTAATAATTATTTAATAATATA
1 AACAA-ATTAAT-ATTATTTAATAATATA
*
48874 AATAAATTAATATTAT
1 AACAAATTAATATTAT
48890 AATATACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 7 0.19
28 6 0.16
29 16 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AACAAATTAATATTATTTAATAATATA
Found at i:48877 original size:20 final size:20
Alignment explanation
Indices: 48848--48910 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
48838 TATTATAAAC
*
48848 AATATTAATAATTATTTAAT
1 AATATAAATAATTATTTAAT
48868 AATATAAATAAATTAATATT-AT
1 AATATAAAT-AATT-AT-TTAAT
*
48890 AATATACAAT-ATTATATAAT
1 AATATA-AATAATTATTTAAT
48910 A
1 A
48911 TAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 1 0.03
20 13 0.36
21 7 0.19
22 10 0.28
23 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATAAATAATTATTTAAT
Found at i:48912 original size:22 final size:21
Alignment explanation
Indices: 48848--48915 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
48838 TATTATAAAC
* * *
48848 AATATTAATAATTATTTA-AT
1 AATATAAATAATTAATAATAT
*
48868 AATATAAATAAATTAATATTAT
1 AATATAAAT-AATTAATAATAT
48890 AATATACAAT-ATTATATAATAT
1 AATATA-AATAATTA-ATAATAT
48912 AATA
1 AATA
48916 ATTTTCACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.21
21 10 0.26
22 18 0.46
23 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAAATAATTAATAATAT
Found at i:49015 original size:48 final size:46
Alignment explanation
Indices: 48932--49025 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 46
48922 ACAATTTATT
*
48932 ATTATTTATAATATTAATTATAAATTTAATAAGTTAAATAAAATAA
1 ATTATTTATAATATTAATTAAAAATTTAATAAGTTAAATAAAATAA
* *
48978 ATTATTTTATAATTATTTATTAAAAATTTAA-ATAGTTAAATTAAATAA
1 ATTA-TTTATAA-TATTAATTAAAAATTTAATA-AGTTAAATAAAATAA
49026 TAAGATGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 4 0.10
47 8 0.19
48 30 0.71
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (46 bp):
ATTATTTATAATATTAATTAAAAATTTAATAAGTTAAATAAAATAA
Found at i:49458 original size:13 final size:12
Alignment explanation
Indices: 49435--49470 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
49425 AATTATTATT
49435 TTAATTAATAAG
1 TTAATTAATAAG
49447 TTAATATAATAAG
1 TTAAT-TAATAAG
49460 TTCAATTAATA
1 TT-AATTAATA
49471 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 14 0.64
14 3 0.14
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (12 bp):
TTAATTAATAAG
Found at i:50453 original size:12 final size:14
Alignment explanation
Indices: 50438--50469 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
50428 ATAATTATTC
50438 TTATAAATTA-AA-
1 TTATAAATTATAAG
50450 TTATAAATTATAAG
1 TTATAAATTATAAG
50464 TTATAA
1 TTATAA
50470 TTTGTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 2 0.11
14 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
TTATAAATTATAAG
Found at i:50667 original size:41 final size:40
Alignment explanation
Indices: 50567--50667 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
50557 TAAAGTCGAT
* * * *
50567 GAGCCTTTATTTGTCAAAGTTGTTGTGTCTTTGTTTAAAG
1 GAGCCTTTATTTTTCAAAGTTATGGTGCCTTTGTTTAAAG
* *
50607 GAGCATTTATCTTTCAAAGTTATGGTGCCTCTT-TTTAAAG
1 GAGCCTTTATTTTTCAAAGTTATGGTGCCT-TTGTTTAAAG
50647 GAGCCTTTTATTTTTCAAAGT
1 GAGCC-TTTATTTTTCAAAGT
50668 CGTTGAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 35 0.69
41 16 0.31
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (40 bp):
GAGCCTTTATTTTTCAAAGTTATGGTGCCTTTGTTTAAAG
Found at i:51108 original size:25 final size:25
Alignment explanation
Indices: 51080--51130 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
51070 ATAATTAATG
* *
51080 TTAATATA-TATAATTATTTATATAA
1 TTAATATATTAAAATTATATA-ATAA
51105 TTAATATATTAAAATTATATAATAA
1 TTAATATATTAAAATTATATAATAA
51130 T
1 T
51131 AAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATATTAAAATTATATAATAA
Found at i:51610 original size:10 final size:10
Alignment explanation
Indices: 51562--51635 Score: 60
Period size: 10 Copynumber: 7.2 Consensus size: 10
51552 ATTAATTTAG
51562 TAATAATTAT
1 TAATAATTAT
* *
51572 AAACAATTAT
1 TAATAATTAT
*
51582 TAAGTTATATAT
1 TAA-TAAT-TAT
*
51594 TATTAATTAT
1 TAATAATTAT
51604 TAATAATATAT
1 TAATAAT-TAT
* *
51615 TATTACTTAT
1 TAATAATTAT
51625 TAAT-ATTAT
1 TAATAATTAT
51634 TA
1 TA
51636 TGCTATTACT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
9 6 0.12
10 25 0.51
11 13 0.27
12 5 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (10 bp):
TAATAATTAT
Found at i:51614 original size:21 final size:20
Alignment explanation
Indices: 51576--51636 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
51566 AATTATAAAC
51576 AATTATTAAGTTATATATTATT
1 AATTATTAA--TATATATTATT
51598 AATTATTAATAATATATTATT
1 AATTATTAAT-ATATATTATT
*
51619 ACTTATTAATAT-TATTAT
1 AATTATTAATATATATTAT
51637 GCTATTACTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.16
20 3 0.08
21 19 0.51
22 9 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTATTAATATATATTATT
Found at i:52423 original size:32 final size:31
Alignment explanation
Indices: 52387--52447 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
52377 AAAATATACT
52387 TAATTATAATTAAAAACTATTAATAATATTTA
1 TAATTATAATTAAAAACTATTAAT-ATATTTA
* *
52419 TAATTATATTTATAAACTATTAATATATT
1 TAATTATAATTAAAAACTATTAATATATT
52448 AATCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATTATAATTAAAAACTATTAATATATTTA
Found at i:52716 original size:23 final size:23
Alignment explanation
Indices: 52690--52748 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
52680 TAATAATTAT
* *
52690 TTATATTATAAATTA-TTAAGTAA
1 TTAT-TTATAAATAATTTAAATAA
*
52713 TTATTTTTAAATAATTTAAATAA
1 TTATTTATAAATAATTTAAATAA
*
52736 TTATTAATAAATA
1 TTATTTATAAATA
52749 TAAATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 8 0.27
23 22 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATTTATAAATAATTTAAATAA
Done.