Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 9 of 17
Found at i:833764 original size:28 final size:27
Alignment explanation
Indices: 833730--833783 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
833720 TTTAAAATCT
833730 AAAATATTTTTATAATTAAATTTAAATA
1 AAAATATTTTTATAATTAAA-TTAAATA
833758 AAAATATTTTTATAATTAAATTAAAT
1 AAAATATTTTTATAATTAAATTAAAT
833784 TAATTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATATTTTTATAATTAAATTAAATA
Found at i:834115 original size:15 final size:14
Alignment explanation
Indices: 834095--834140 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
834085 TAATTATATT
834095 TTTAATATATTTAAA
1 TTTAATATATTT-AA
834110 TTTAATATATTT-A
1 TTTAATATATTTAA
*
834123 TTTAAAATATTTATA
1 TTTAATATATTTA-A
834138 TTT
1 TTT
834141 TTTTCGAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATATATTTAA
Found at i:834125 original size:13 final size:13
Alignment explanation
Indices: 834068--834136 Score: 61
Period size: 13 Copynumber: 5.0 Consensus size: 13
834058 AAATATTGAG
834068 TTAATTATATTATATT
1 TTAA-TATATT-TA-T
834084 TTAAT-TATATT-T
1 TTAATATAT-TTAT
834096 TTAATATATTTAAAT
1 TTAATATATTT--AT
834111 TTAATATATTTAT
1 TTAATATATTTAT
*
834124 TTAAAATATTTAT
1 TTAATATATTTAT
834137 ATTTTTTTCG
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
12 8 0.17
13 17 0.36
14 4 0.09
15 14 0.30
16 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAATATATTTAT
Found at i:834126 original size:28 final size:27
Alignment explanation
Indices: 834083--834140 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
834073 TATATTATAT
*
834083 TTTAATTATATTTTTAATATATTTAAA
1 TTTAATTATATTTTTAAAATATTTAAA
*
834110 TTTAA-TATATTTATTTAAAATATTTATA
1 TTTAATTATA-TT-TTTAAAATATTTAAA
834138 TTT
1 TTT
834141 TTTTCGAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 4 0.15
27 7 0.26
28 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTAATTATATTTTTAAAATATTTAAA
Found at i:834353 original size:23 final size:23
Alignment explanation
Indices: 834326--834374 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
834316 AATTTTAAGT
*
834326 TTAAA-AAATTAATATTTAATACA
1 TTAAATAAATAAATATTT-ATACA
*
834349 TTAAATATATAAATATTTATACA
1 TTAAATAAATAAATATTTATACA
834372 TTA
1 TTA
834375 TCCGTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAATAAATAAATATTTATACA
Found at i:835081 original size:5 final size:5
Alignment explanation
Indices: 835071--835095 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
835061 ATTTTAAAAA
835071 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
835096 CATGTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:835083 original size:32 final size:33
Alignment explanation
Indices: 835008--835090 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 33
834998 AATATAATTT
*
835008 AATATATTTTA-TAT-TTATATAAATTTTAATA
1 AATATATTATATTATATTATATAAATTTTAATA
** *
835039 CGT-TAATA-ATTATATTATATAAATTTTAA-A
1 AATATATTATATTATATTATATAAATTTTAATA
835069 AATATATTATATTATATTATAT
1 AATATATTATATTATATTATAT
835091 TATATCATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 8 0.20
31 20 0.49
32 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (33 bp):
AATATATTATATTATATTATATAAATTTTAATA
Found at i:836157 original size:17 final size:16
Alignment explanation
Indices: 836112--836179 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 16
836102 ACCATTAATC
* *
836112 ATATTTAAAATATTAT
1 ATATTAAAAATTTTAT
836128 ATATTATATAAATTTTGAT
1 ATATTA-A-AAATTTT-AT
836147 ATATTAAAAA-TTTAT
1 ATATTAAAAATTTTAT
* *
836162 GT-TTACAAATTTT-T
1 ATATTAAAAATTTTAT
836176 ATAT
1 ATAT
836180 GTTTATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
14 8 0.19
15 7 0.17
16 8 0.19
17 4 0.10
18 7 0.17
19 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATTAAAAATTTTAT
Found at i:836201 original size:11 final size:11
Alignment explanation
Indices: 836185--836239 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
836175 TATATGTTTA
*
836185 TATTTTTAAAT
1 TATTTTTATAT
836196 TATTTTTTATAT
1 TA-TTTTTATAT
*
836208 TATATTTATAT
1 TATTTTTATAT
836219 TATTTAATTATAT
1 TATTT--TTATAT
*
836232 TATATTTA
1 TATTTTTA
836240 AAATTATCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 17 0.46
12 10 0.27
13 10 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:836419 original size:4 final size:4
Alignment explanation
Indices: 836410--836434 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
836400 AGTAGCATGG
836410 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
836435 TCTTTTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:837320 original size:17 final size:18
Alignment explanation
Indices: 837298--837402 Score: 62
Period size: 17 Copynumber: 5.9 Consensus size: 18
837288 ATATTTTTAT
837298 ATTTTATTATATT-TA-AA
1 ATTTTA-TATATTATATAA
837315 ATTTTATAT-TTATATAA
1 ATTTTATATATTATATAA
*
837332 ATTTTAATATATATATATAT
1 ATTTT-ATATAT-TATATAA
*** *
837352 ATAACATATATTATA-AT
1 ATTTTATATATTATATAA
*
837369 ATTATATAT-TTA-AT-A
1 ATTTTATATATTATATAA
837384 ATATTTATATATTTATATA
1 AT-TTTATATA-TTATATA
837403 TTATTTTTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.07
16 14 0.20
17 22 0.32
18 11 0.16
19 9 0.13
20 8 0.12
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTATATATTATATAA
Found at i:837329 original size:20 final size:20
Alignment explanation
Indices: 837271--837401 Score: 65
Period size: 18 Copynumber: 7.1 Consensus size: 20
837261 TAATTAATAA
837271 ATTTAATATTTTAT-TTTAT
1 ATTTAATATTTTATATTTAT
*
837290 ATTT-TTATATTT-TA-TTAT
1 ATTTAATAT-TTTATATTTAT
*
837308 ATTTAAAATTTTATATTTAT
1 ATTTAATATTTTATATTTAT
*
837328 A--TAA-ATTTTA-ATATAT
1 ATTTAATATTTTATATTTAT
* * **
837344 ATAT-ATA-TATA-ACATAT
1 ATTTAATATTTTATATTTAT
*
837361 ATTATAATATTATATATTTA-
1 ATT-TAATATTTTATATTTAT
837381 A--TAATATTTATATATTTAT
1 ATTTAATATTT-TATATTTAT
837400 AT
1 AT
837402 ATTATTTTTC
Statistics
Matches: 87, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
16 6 0.07
17 24 0.28
18 29 0.33
19 15 0.17
20 10 0.11
21 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTAATATTTTATATTTAT
Found at i:837343 original size:2 final size:2
Alignment explanation
Indices: 837338--837403 Score: 54
Period size: 2 Copynumber: 36.0 Consensus size: 2
837328 ATAAATTTTA
*
837338 AT AT AT AT AT AT AT AT A- AC AT AT AT -T AT A- AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
837376 AT TT A- AT A- AT AT TT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
837404 TATTTTTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
1 6 0.12
2 45 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:837374 original size:26 final size:25
Alignment explanation
Indices: 837338--837403 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
837328 ATAAATTTTA
837338 ATATATATATATATATAAC-ATATATT
1 ATATAT-TATATATATAACAATAT-TT
* *
837364 ATAATATTATATATTTAATAATATTT
1 AT-ATATTATATATATAACAATATTT
837390 ATATATT-TATATAT
1 ATATATTATATATAT
837404 TATTTTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 16 0.46
27 8 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATATTATATATATAACAATATTT
Found at i:837404 original size:8 final size:8
Alignment explanation
Indices: 837271--837404 Score: 84
Period size: 8 Copynumber: 16.4 Consensus size: 8
837261 TAATTAATAA
837271 ATTTA-AT
1 ATTTATAT
837278 ATTT-TAT
1 ATTTATAT
837285 -TTTATAT
1 ATTTATAT
*
837292 TTTTATAT
1 ATTTATAT
837300 -TTTATTAT
1 ATTTA-TAT
*
837308 ATTTA-AA
1 ATTTATAT
837315 ATTT-TAT
1 ATTTATAT
837322 ATTTATAT
1 ATTTATAT
837330 AAATTTTAATAT
1 --A-TTT-ATAT
*
837342 ATATATAT
1 ATTTATAT
* *
837350 ATATAACAT
1 AT-TTATAT
837359 ATATTATA-
1 AT-TTATAT
837367 ATATTATAT
1 AT-TTATAT
837376 ATTTAATAAT
1 ATTT-AT-AT
837386 ATTTATAT
1 ATTTATAT
837394 ATTTATAT
1 ATTTATAT
837402 ATT
1 ATT
837405 ATTTTTCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 29
0.74 0.06 0.21
Matches are distributed among these distances:
6 3 0.03
7 23 0.22
8 42 0.40
9 21 0.20
10 8 0.08
11 3 0.03
12 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTTATAT
Found at i:838421 original size:4 final size:4
Alignment explanation
Indices: 838412--838443 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
838402 TGAATTTATA
838412 ATTT ATTT ATTT ATTT ATTTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATT
838444 AAAGTTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:840074 original size:73 final size:72
Alignment explanation
Indices: 839991--840132 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 72
839981 TCAATCTCAT
*
839991 TCATTTAATTTAATATAACATATTAAATTCATTAATTACTTTTTAAATTACATTTTAATTCTTTT
1 TCATTAAATTTAATATAACATATTAAATTCATTAATTACTTTTTAAATTACATTTTAATT-TTTT
840056 TAGTAGAA
65 TAGTAGAA
* * * *
840064 TCATTAAATTTAATATAATATATTAATTTTATTAATTACTTTTTAAATTATATTTTAATTTTTTT
1 TCATTAAATTTAATATAACATATTAAATTCATTAATTACTTTTTAAATTACATTTTAATTTTTTT
840129 AGTA
66 AGTA
840133 AAATTTAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 9 0.14
73 55 0.86
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (72 bp):
TCATTAAATTTAATATAACATATTAAATTCATTAATTACTTTTTAAATTACATTTTAATTTTTTT
AGTAGAA
Found at i:840635 original size:2 final size:2
Alignment explanation
Indices: 840628--840666 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
840618 ACCTCATTTT
840628 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
840667 GAAGTTTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:841002 original size:15 final size:17
Alignment explanation
Indices: 840982--841017 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
840972 AATTTATGTT
840982 TTTATATTAT-A-TTTA
1 TTTATATTATAATTTTA
840997 TTTATATTATAATTTTA
1 TTTATATTATAATTTTA
841014 TTTA
1 TTTA
841018 AAATATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATAATTTTA
Found at i:841023 original size:20 final size:19
Alignment explanation
Indices: 841000--841104 Score: 73
Period size: 19 Copynumber: 5.7 Consensus size: 19
840990 ATATTTATTT
* *
841000 ATATTATAATTTTATTTAAA
1 ATATTAT-ATATTATATAAA
841020 ATATTATATATTATATAAA
1 ATATTATATATTATATAAA
841039 AT-TTA-ATATGT-TAT---
1 ATATTATATAT-TATATAAA
841053 -TATTATATATTATATAAA
1 ATATTATATATTATATAAA
* * *
841071 ATTTTAAATATTTATATATTA
1 ATATTATATA-TTATATA-AA
841092 ATATTATAT-TTAT
1 ATATTATATATTAT
841105 TTTTTATGAC
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
13 1 0.01
14 4 0.06
15 7 0.10
17 7 0.10
18 4 0.06
19 23 0.34
20 14 0.21
21 8 0.12
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
ATATTATATATTATATAAA
Found at i:841057 original size:32 final size:34
Alignment explanation
Indices: 841020--841100 Score: 125
Period size: 32 Copynumber: 2.5 Consensus size: 34
841010 TTTATTTAAA
841020 ATATTATATATTATATAAAA-TTT-AATATGTTAT
1 ATATTATATATTATATAAAATTTTAAATAT-TTAT
841053 -TATTATATATTATATAAAATTTTAAATATTTAT
1 ATATTATATATTATATAAAATTTTAAATATTTAT
841086 ATATTA-ATATTATAT
1 ATATTATATATTATAT
841101 TTATTTTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
32 19 0.42
33 16 0.36
34 10 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
ATATTATATATTATATAAAATTTTAAATATTTAT
Found at i:844829 original size:5 final size:5
Alignment explanation
Indices: 844819--844955 Score: 56
Period size: 5 Copynumber: 26.8 Consensus size: 5
844809 AAATAATTAA
* *
844819 AATAT AATAT AATAT AAAAAT AATATT AATAT GATAT AA-AT -ATAT GAATTTAT
1 AATAT AATAT AATAT -AATAT AATA-T AATAT AATAT AATAT AATAT -AA--TAT
* * * *
844872 AACATT TATAT AACAT AA-AT TAT-T AATAT AATTAT AA-AT AAATTAT
1 AATA-T AATAT AATAT AATAT AATAT AATAT AA-TAT AATAT -AA-TAT
*
844918 AATAT AA-AT AACAT AAATAT AATAT -ATA- ATATAT AATA
1 AATAT AATAT AATAT -AATAT AATAT AATAT A-ATAT AATA
844956 ATTTAAAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
3 1 0.01
4 19 0.19
5 49 0.49
6 25 0.25
7 4 0.04
8 3 0.03
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:844830 original size:16 final size:16
Alignment explanation
Indices: 844811--844850 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
844801 ACACATAAAA
844811 ATAAT-TAAAATATAAT
1 ATAATATAAAA-ATAAT
844827 ATAATATAAAAATAAT
1 ATAATATAAAAATAAT
844843 ATTAATAT
1 A-TAATAT
844851 GATATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATATAAAAATAAT
Found at i:844849 original size:27 final size:28
Alignment explanation
Indices: 844805--844862 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
844795 ATAATAACAC
844805 ATAAAAATAATTAAAATATAATAT-AAT
1 ATAAAAATAATTAAAATATAATATAAAT
* *
844832 ATAAAAATAA-TATTAATATGATATAAAT
1 ATAAAAATAATTA-AAATATAATATAAAT
844860 ATA
1 ATA
844863 TGAATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 19 0.70
28 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
ATAAAAATAATTAAAATATAATATAAAT
Found at i:844860 original size:11 final size:11
Alignment explanation
Indices: 844819--844950 Score: 78
Period size: 11 Copynumber: 12.1 Consensus size: 11
844809 AAATAATTAA
844819 AATAT-AATAT
1 AATATAAATAT
*
844829 AATATAAAAAT
1 AATATAAATAT
*
844840 AATATTAATAT
1 AATATAAATAT
*
844851 GATATAAATAT
1 AATATAAATAT
**
844862 -ATGA-ATTTAT
1 AAT-ATAAATAT
* **
844872 AACATTTATAT
1 AATATAAATAT
*
844883 AACATAAATTATT
1 AATATAAA-TA-T
*
844896 AATATAATTAT
1 AATATAAATAT
844907 AA-ATAAATTAT
1 AATATAAA-TAT
844918 AATAT-AA-AT
1 AATATAAATAT
*
844927 AACATAAATAT
1 AATATAAATAT
844938 AATATATAATAT
1 AATATA-AATAT
844950 A
1 A
844951 TAATAATTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
9 6 0.06
10 18 0.19
11 51 0.54
12 12 0.13
13 7 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
AATATAAATAT
Found at i:844916 original size:20 final size:21
Alignment explanation
Indices: 844893--844946 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 21
844883 AACATAAATT
844893 ATTAATATAATTATAAATAA-
1 ATTAATATAATTATAAATAAC
844913 A-T--TATAA-TATAAATAAC
1 ATTAATATAATTATAAATAAC
*
844930 ATAAATATAATATATAA
1 ATTAATATAAT-TATAA
844947 TATATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
19 1 0.04
20 6 0.22
22 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAATATAATTATAAATAAC
Found at i:844946 original size:7 final size:7
Alignment explanation
Indices: 844897--844955 Score: 58
Period size: 7 Copynumber: 9.1 Consensus size: 7
844887 TAAATTATTA
844897 ATATAAT
1 ATATAAT
844904 -TATAA-
1 ATATAAT
844909 ATA-AAT
1 ATATAAT
844915 -TATAAT
1 ATATAAT
844921 ATA-AAT
1 ATATAAT
*
844927 AACATAA-
1 -ATATAAT
844934 ATATAAT
1 ATATAAT
844941 ATATAAT
1 ATATAAT
844948 ATATAAT
1 ATATAAT
844955 A
1 A
844956 ATTTAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
5 4 0.09
6 18 0.42
7 19 0.44
8 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (7 bp):
ATATAAT
Found at i:844953 original size:25 final size:24
Alignment explanation
Indices: 844881--844950 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 24
844871 TAACATTTAT
*
844881 ATAACATAAATTATTAATATAAT--T
1 ATAA-ATAAATTA-TAATATAATAAC
844905 ATAAATAAATTATAATATAAATAAC
1 ATAAATAAATTATAATAT-AATAAC
844930 ATAAATATAATATATAATATA
1 ATAAATA-AAT-TATAATATA
844951 TAATAATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 4 0.10
25 7 0.17
26 4 0.10
27 8 0.20
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATAAATTATAATATAATAAC
Found at i:846103 original size:16 final size:16
Alignment explanation
Indices: 846053--846120 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
846043 TAATAATTTG
*
846053 ATAT-AATTTAAATATA
1 ATATAAATTTTAAT-TA
*
846069 AAATAAATTATATATATTA
1 ATATAAATT-T-TA-ATTA
846088 ATATAAATTTTAATTA
1 ATATAAATTTTAATTA
**
846104 ATATGTATTTT-ATTA
1 ATATAAATTTTAATTA
846119 AT
1 AT
846121 TAATTTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.14
16 16 0.37
17 6 0.14
18 2 0.05
19 11 0.26
20 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
ATATAAATTTTAATTA
Found at i:846121 original size:19 final size:17
Alignment explanation
Indices: 846097--846132 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
846087 AATATAAATT
846097 TTAATTAATATGTATTTTA
1 TTAATTAAT-T-TATTTTA
846116 TTAATTAATTTATTTTA
1 TTAATTAATTTATTTTA
846133 AAGTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTAATTAATTTATTTTA
Found at i:846813 original size:18 final size:17
Alignment explanation
Indices: 846768--846814 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
846758 ATATATTTTT
846768 TAAATATATTTTAAAATA
1 TAAATA-ATTTTAAAATA
* *
846786 TAAAT-TTTTTTAAATA
1 TAAATAATTTTAAAATA
846802 TATAATAATTTTA
1 TA-AATAATTTTA
846815 TAATTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.48
17 3 0.13
18 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATAATTTTAAAATA
Found at i:847986 original size:12 final size:12
Alignment explanation
Indices: 847969--848035 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 12
847959 ATTTAATTCG
847969 ATTTAAATTATT
1 ATTTAAATTATT
847981 ATTTAAA-TATT
1 ATTTAAATTATT
* *
847992 ATTTTAATT-TA
1 ATTTAAATTATT
848003 ATTATAAA-TATT
1 ATT-TAAATTATT
*
848015 AATATTAAAATAATT
1 -AT-TT-AAATTATT
848030 ATTTAA
1 ATTTAA
848036 TACTTTAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
11 15 0.35
12 14 0.33
13 5 0.12
14 6 0.14
15 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTAAATTATT
Found at i:848015 original size:34 final size:38
Alignment explanation
Indices: 847954--848033 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 38
847944 TTTTAATTTA
* *
847954 AATTAATTTAATTCGATTTAAATTATT-AT-TT-AAAT
1 AATTATTTTAATTCAATTTAAATTATTAATATTAAAAT
*
847989 -ATTATTTTAATTTAATTATAAA-TATTAATATTAAAAT
1 AATTATTTTAATTCAATT-TAAATTATTAATATTAAAAT
848026 AATTATTT
1 AATTATTT
848034 AATACTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 18 0.49
35 6 0.16
36 2 0.05
37 4 0.11
38 7 0.19
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (38 bp):
AATTATTTTAATTCAATTTAAATTATTAATATTAAAAT
Found at i:848028 original size:24 final size:23
Alignment explanation
Indices: 847984--848031 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
847974 AATTATTATT
* **
847984 TAAATATTATTTTAATTTAATTA
1 TAAATATTATATTAAAATAATTA
848007 TAAATATTAATATTAAAATAATTA
1 TAAATATT-ATATTAAAATAATTA
848031 T
1 T
848032 TTAATACTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTATATTAAAATAATTA
Found at i:848139 original size:3 final size:3
Alignment explanation
Indices: 848131--848172 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
848121 CCGAGAGGTG
848131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
848173 TTTTATCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:854826 original size:2 final size:2
Alignment explanation
Indices: 854814--854851 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
854804 TAGTCTTTGG
854814 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
854852 AATGAAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:854940 original size:2 final size:2
Alignment explanation
Indices: 854933--854963 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
854923 ATCCTCGTAA
854933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
854964 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:855178 original size:25 final size:25
Alignment explanation
Indices: 855150--855234 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
855140 CCTTGTCGAG
855150 TGATTACCCAATTCACTAACCGAAT
1 TGATTACCCAATTCACTAACCGAAT
* *** *
855175 TGATTACCTTTACACTTC-CTTGTCG-AG
1 TGATTACC----CAATTCACTAACCGAAT
855202 TGATTACCCAATTCACTAACCGAAT
1 TGATTACCCAATTCACTAACCGAAT
855227 TGATTACC
1 TGATTACC
855235 TTTAAGGTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
23 5 0.11
24 4 0.09
25 17 0.39
27 9 0.20
28 4 0.09
29 5 0.11
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (25 bp):
TGATTACCCAATTCACTAACCGAAT
Found at i:855212 original size:52 final size:52
Alignment explanation
Indices: 855134--855238 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
855124 TCTCTCCTCG
855134 ACACTTCCTTGTCGAGTGATTACCCAATTCACTAACCGAATTGATTACCTTT
1 ACACTTCCTTGTCGAGTGATTACCCAATTCACTAACCGAATTGATTACCTTT
855186 ACACTTCCTTGTCGAGTGATTACCCAATTCACTAACCGAATTGATTACCTTT
1 ACACTTCCTTGTCGAGTGATTACCCAATTCACTAACCGAATTGATTACCTTT
855238 A
1 A
855239 AGGTAAAGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (52 bp):
ACACTTCCTTGTCGAGTGATTACCCAATTCACTAACCGAATTGATTACCTTT
Found at i:855788 original size:13 final size:13
Alignment explanation
Indices: 855770--855795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
855760 CAATTTTTTG
855770 TGTATCGATACAT
1 TGTATCGATACAT
855783 TGTATCGATACAT
1 TGTATCGATACAT
855796 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:856984 original size:20 final size:21
Alignment explanation
Indices: 856933--856984 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
856923 ATATATTTTA
856933 AATTAAAATAAATAAAAAAATT
1 AATT-AAATAAATAAAAAAATT
* * *
856955 AATTATATAAA-ATAAAATTT
1 AATTAAATAAATAAAAAAATT
*
856975 ATTTAAATAA
1 AATTAAATAA
856985 TGATATAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 15 0.60
21 6 0.24
22 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTAAATAAATAAAAAAATT
Found at i:857023 original size:13 final size:12
Alignment explanation
Indices: 857003--857027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
856993 AGTGTAAATT
857003 TAAATTTTTAGA
1 TAAATTTTTAGA
857015 TAAATTTTTAGA
1 TAAATTTTTAGA
857027 T
1 T
857028 TTTTGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAAATTTTTAGA
Found at i:857485 original size:8 final size:8
Alignment explanation
Indices: 857465--857523 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
857455 AATATAATTT
857465 TTTTAAAGA
1 TTTTAAA-A
*
857474 -TTTAATA
1 TTTTAAAA
*
857481 TTTTAAGAG
1 TTTTAA-AA
857490 TTTTAAAA
1 TTTTAAAA
857498 -TTTAAAA
1 TTTTAAAA
857505 -TTTAAAA
1 TTTTAAAA
*
857512 TTTAAAAA
1 TTTTAAAA
857520 TTTT
1 TTTT
857524 TAATTATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 15 0.37
8 20 0.49
9 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (8 bp):
TTTTAAAA
Found at i:857494 original size:17 final size:16
Alignment explanation
Indices: 857465--857514 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
857455 AATATAATTT
*
857465 TTTTAAAGATTTAATA
1 TTTTAAAGATTTAAAA
*
857481 TTTTAAGAGTTTTAAAA
1 TTTTAA-AGATTTAAAA
857498 -TTTAAA-ATTTAAAA
1 TTTTAAAGATTTAAAA
857512 TTT
1 TTT
857515 AAAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 3 0.10
16 11 0.38
17 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTTAAAGATTTAAAA
Found at i:857501 original size:7 final size:7
Alignment explanation
Indices: 857491--857518 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
857481 TTTTAAGAGT
857491 TTTAAAA
1 TTTAAAA
857498 TTTAAAA
1 TTTAAAA
857505 TTTAAAA
1 TTTAAAA
857512 TTTAAAA
1 TTTAAAA
857519 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:857525 original size:31 final size:32
Alignment explanation
Indices: 857466--857526 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
857456 ATATAATTTT
* * *
857466 TTTAAAGATTTAATATTTTAAGAGTTTTAAAA
1 TTTAAAGATTTAAAATTTAAAAAGTTTTAAAA
*
857498 TTTAAA-ATTTAAAATTTAAAAATTTTTAA
1 TTTAAAGATTTAAAATTTAAAAAGTTTTAA
857527 TTATAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
TTTAAAGATTTAAAATTTAAAAAGTTTTAAAA
Found at i:857528 original size:15 final size:15
Alignment explanation
Indices: 857491--857522 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
857481 TTTTAAGAGT
857491 TTTAAAATTT-AAAA
1 TTTAAAATTTAAAAA
857505 TTTAAAATTTAAAAA
1 TTTAAAATTTAAAAA
857520 TTT
1 TTT
857523 TTAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAATTTAAAAA
Found at i:857592 original size:9 final size:9
Alignment explanation
Indices: 857580--857610 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
857570 TAAATTATAA
857580 TTTAATTTT
1 TTTAATTTT
857589 TTTAATTTT
1 TTTAATTTT
*
857598 TTTAAATTT
1 TTTAATTTT
857607 TTTA
1 TTTA
857611 TATCAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTAATTTT
Found at i:857703 original size:21 final size:21
Alignment explanation
Indices: 857679--857718 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
857669 AATTAATTAA
857679 AAATATTTTATAATTAAATTT
1 AAATATTTTATAATTAAATTT
*
857700 AAATATTTTATCATTAAAT
1 AAATATTTTATAATTAAAT
857719 AATAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATTTTATAATTAAATTT
Found at i:858523 original size:32 final size:34
Alignment explanation
Indices: 858458--858525 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 34
858448 AATTTTTAAA
* * *
858458 TTTTATAAATAAAATTAATAAATTAATATATATT
1 TTTTATAAATAAAATTAATAAAATAAAAAATATT
*
858492 TTTTA-AAATATAATTAA-AAAATAAAAAATATT
1 TTTTATAAATAAAATTAATAAAATAAAAAATATT
858524 TT
1 TT
858526 AAAAAATGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 14 0.47
33 11 0.37
34 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
TTTTATAAATAAAATTAATAAAATAAAAAATATT
Found at i:858532 original size:32 final size:33
Alignment explanation
Indices: 858464--858532 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
858454 TAAATTTTAT
* * * **
858464 AAATAAAATTAATAAATTAATATATATTTTTTA
1 AAATAAAATTAATAAAATAAAAAATATTTTAAA
*
858497 AAATATAATTAA-AAAATAAAAAATATTTTAAA
1 AAATAAAATTAATAAAATAAAAAATATTTTAAA
858529 AAAT
1 AAAT
858533 GGGGATAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATAAAATTAATAAAATAAAAAATATTTTAAA
Found at i:859055 original size:5 final size:5
Alignment explanation
Indices: 859045--859103 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
859035 TATATTTTGT
* * * *
859045 ATTAA ATTAA ATTTAA ATAAA ATATTA AGTAA TTTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA A-TTAA ATTAA AT-TAA ATTAA ATTAA ATTAA ATTAA ATTAA
*
859097 TTTAA AT
1 ATTAA AT
859104 AATTATTGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 35 0.83
6 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATTAA
Found at i:859250 original size:16 final size:16
Alignment explanation
Indices: 859231--859277 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
859221 TAATACGAAT
859231 AAAATATAAAAAAATA
1 AAAATATAAAAAAATA
*
859247 AAAATATATTATAAAATA
1 AAAATATA--AAAAAATA
859265 AAAATAATAAAAA
1 AAAAT-ATAAAAA
859278 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 12 0.46
19 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATATAAAAAAATA
Found at i:859268 original size:27 final size:28
Alignment explanation
Indices: 859229--859284 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
859219 TATAATACGA
859229 ATAAAATATAAAAAAATAAAAATATATT
1 ATAAAATATAAAAAAATAAAAATATATT
*
859257 ATAAAATA-AAAATAATAAAAATATATT
1 ATAAAATATAAAAAAATAAAAATATATT
859284 A
1 A
859285 AATTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (28 bp):
ATAAAATATAAAAAAATAAAAATATATT
Found at i:859286 original size:11 final size:9
Alignment explanation
Indices: 859231--859279 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
859221 TAATACGAAT
859231 AAAAT-ATA
1 AAAATAATA
859239 AAAA-AATA
1 AAAATAATA
*
859247 AAAATATATT
1 AAAATA-ATA
*
859257 ATAA-AATA
1 AAAATAATA
859265 AAAATAATA
1 AAAATAATA
859274 AAAATA
1 AAAATA
859280 TATTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 16 0.48
9 12 0.36
10 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATAATA
Found at i:860710 original size:209 final size:209
Alignment explanation
Indices: 860350--860765 Score: 528
Period size: 209 Copynumber: 2.0 Consensus size: 209
860340 CTTAGCTAGA
* * * *
860350 CTTTTATAAGGGTTGGCATGCTCGAACCTTATATAAAGTTTATGTGAATTCAAGTTAGCCCATAG
1 CTTTTATAAGGGTCGGCATGCTCAAACCTTATATAAAGTTTATGTAAATTCAAGCTAGCCCATAG
* * * *
860415 ACAAATCTAGTCTTAGTTTTGAGATAAAGTAAAAGATTACAAATATTAAAATTTAAACTTTAAAT
66 ACAAATCTAGTCTTAGTATGGAGATAAAGTAAAAGATTACAAATATTAAAATTCAAACTTCAAAT
** * * ** * * * *
860480 AAATTAAATACAATTTCTTTAAGGTGGTTGGTTGAACTAACTAAATTAAACTTTAAGTTTTTTAT
131 AAATTAAATACAACCTCTTTAAAGTGATTGCATGAACCAACTAAATTAAACTTCAAGTTCTTTAC
860545 ATCAATTTTCTTAT
196 ATCAATTTTCTTAT
* * *
860559 CTTTTATAAGGGTCGGCATGCTTAAACTTTATATAAAGTTTATGTAAATTCAAGCTAGTCCATAG
1 CTTTTATAAGGGTCGGCATGCTCAAACCTTATATAAAGTTTATGTAAATTCAAGCTAGCCCATAG
* * * * * * *
860624 ACGAGTCTAG-CTTTAGTATGGGGATAAAGTAAAAGATTATAGATATTAATATTCGAACTTCAAA
66 ACAAATCTAGTC-TTAGTATGGAGATAAAGTAAAAGATTACAAATATTAAAATTCAAACTTCAAA
* * * *
860688 TAAATTAAGTACTACCTCTTTAAAGTGATTGCATGAACCAACTAAATTAAGCTTCGAGTTCTTTA
130 TAAATTAAATACAACCTCTTTAAAGTGATTGCATGAACCAACTAAATTAAACTTCAAGTTCTTTA
860753 CATCAATTTTCTT
195 CATCAATTTTCTT
860766 TTTAACTTAA
Statistics
Matches: 174, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
208 1 0.01
209 173 0.99
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (209 bp):
CTTTTATAAGGGTCGGCATGCTCAAACCTTATATAAAGTTTATGTAAATTCAAGCTAGCCCATAG
ACAAATCTAGTCTTAGTATGGAGATAAAGTAAAAGATTACAAATATTAAAATTCAAACTTCAAAT
AAATTAAATACAACCTCTTTAAAGTGATTGCATGAACCAACTAAATTAAACTTCAAGTTCTTTAC
ATCAATTTTCTTAT
Found at i:862011 original size:3 final size:3
Alignment explanation
Indices: 862003--862045 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
861993 ATAACATTTG
862003 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
862046 ACTTTTAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:862815 original size:22 final size:22
Alignment explanation
Indices: 862785--862828 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
862775 AAAATAATTT
*
862785 TTATTTAAATA-TAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
862807 TTATATAAATATTAATATAAAA
1 TTATATAAATATTAATATAAAA
862829 ATAATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:862983 original size:20 final size:20
Alignment explanation
Indices: 862958--862998 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
862948 AATATTAAAA
862958 ATATTTTTAT-ATTAATATTT
1 ATATTTTTATAATTAA-ATTT
862978 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
862998 A
1 A
862999 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTTTATAATTAAATTT
Found at i:864497 original size:28 final size:30
Alignment explanation
Indices: 864457--864524 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
864447 CAAAAGTTTA
864457 TTTTATTATTAAT-AATATTAATAAA-ATAT
1 TTTTATTA-TAATAAATATTAATAAAGATAT
*
864486 TATTT-TTATAATAAATTTTAATAAAGATAT
1 T-TTTATTATAATAAATATTAATAAAGATAT
864516 TTTTATTAT
1 TTTTATTAT
864525 TAAATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 18 0.53
30 12 0.35
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTTATTATAATAAATATTAATAAAGATAT
Found at i:864529 original size:28 final size:27
Alignment explanation
Indices: 864457--864535 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 27
864447 CAAAAGTTTA
*
864457 TTTTATTATTAATAATATTAATAAAATAT
1 TTTTATTATT-A-AATTTTAATAAAATAT
864486 TATTT-TTATAATAAATTTTAATAAAGATAT
1 T-TTTATTAT--TAAATTTTAATAAA-ATAT
*
864516 TTTTATTATTAAATTATAAT
1 TTTTATTATTAAATTTTAAT
864536 TTAGACTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
28 10 0.23
29 19 0.44
30 13 0.30
31 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
TTTTATTATTAAATTTTAATAAAATAT
Found at i:865248 original size:16 final size:15
Alignment explanation
Indices: 865183--865248 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
865173 TTTATCTATA
*
865183 TTTTATATATTTTTATT
1 TTTTA-ATAATTTTA-T
* * *
865200 TTTTAAAAAATATAT
1 TTTTAATAATTTTAT
*
865215 TTTTAA-AATTTAAT
1 TTTTAATAATTTTAT
865229 TTTTAATAATTTTAT
1 TTTTAATAATTTTAT
865244 GTTTT
1 -TTTT
865249 TTTTATTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 11 0.28
15 14 0.36
16 9 0.23
17 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTAATAATTTTAT
Found at i:865372 original size:24 final size:26
Alignment explanation
Indices: 865305--865385 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
865295 TTTACACTTT
*
865305 AATATTATATATTTTTTATATAATATA
1 AATATTATATA-TTTATATATAATATA
* **
865332 AA-AGTATATA-ACATATATAAATATA
1 AATATTATATATTTATATAT-AATATA
865357 AATATTATATATTATATTATATAAT-TA
1 AATATTATATATT-TA-TATATAATATA
865384 AA
1 AA
865386 AACGAATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
24 5 0.12
25 8 0.19
26 14 0.33
27 6 0.14
28 4 0.10
29 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
AATATTATATATTTATATATAATATA
Found at i:865722 original size:2 final size:2
Alignment explanation
Indices: 865715--865749 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
865705 TAACTAAAAG
*
865715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
865750 TGTTGTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:866989 original size:7 final size:7
Alignment explanation
Indices: 866973--867023 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
866963 CTATATCTAA
866973 TAAA-TT
1 TAAATTT
866979 TAAATTT
1 TAAATTT
866986 TAAATTT
1 TAAATTT
866993 TAATATTT
1 TAA-ATTT
*
867001 ATAATTTTT
1 -TAA-ATTT
867010 TAAAATTT
1 T-AAATTT
867018 TAAATT
1 TAAATT
867024 ATAACCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 4 0.10
7 17 0.44
8 9 0.23
9 9 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:867033 original size:24 final size:24
Alignment explanation
Indices: 866983--867034 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
866973 TAAATTTAAA
*
866983 TTTTAAATTTTAATATTTATAATT
1 TTTTAAATTTTAATATTTATAACT
867007 TTTTAAAATTTTAA-A-TTATAACCT
1 TTTT-AAATTTTAATATTTATAA-CT
867031 TTTT
1 TTTT
867035 GTACCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 10 0.40
25 9 0.36
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTAAATTTTAATATTTATAACT
Found at i:867034 original size:25 final size:24
Alignment explanation
Indices: 866983--867027 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
866973 TAAATTTAAA
866983 TTTTAAATTTTAATATTTATAATT
1 TTTTAAATTTTAATATTTATAATT
867007 TTTTAAAATTTTAA-A-TTATAA
1 TTTT-AAATTTTAATATTTATAA
867028 CCTTTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAAATTTTAATATTTATAATT
Found at i:868488 original size:90 final size:89
Alignment explanation
Indices: 868294--868565 Score: 454
Period size: 89 Copynumber: 3.0 Consensus size: 89
868284 ACATAAAATA
* *
868294 TTATGTTTTTTGAATTTGGGTTGAATGTTAAAGTTTAATATAAATATATTTATTTTTTAAAATTT
1 TTATGTTATTTGAATTTGGATTGAATGTTAAAGTTTAATATAAATATATTTATTTTTTAAAATTT
* *
868359 TTGATATATTTGAATAATTATAAT
66 TTGATATATTTGAAAAATTATAGT
* *
868383 TTATGTTATTCGAATTTGGAATGAATGTTAAAGTTTAATATAAATATATTTATTTTTTAAAAATT
1 TTATGTTATTTGAATTTGGATTGAATGTTAAAGTTTAATATAAATATATTTATTTTTT-AAAATT
*
868448 TTTGATATATTTGAAGAATTATAGT
65 TTTGATATATTTGAAAAATTATAGT
*
868473 TTATGTTATTTGAATTTGGATTGAATATTAAAGTTTAATATAAATATATTTATTTTTTAAAATTT
1 TTATGTTATTTGAATTTGGATTGAATGTTAAAGTTTAATATAAATATATTTATTTTTTAAAATTT
*
868538 TTGATATATTTAAAAAATTATAGT
66 TTGATATATTTGAAAAATTATAGT
868562 TTAT
1 TTAT
868566 ATTCGTATTT
Statistics
Matches: 171, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
89 87 0.51
90 84 0.49
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (89 bp):
TTATGTTATTTGAATTTGGATTGAATGTTAAAGTTTAATATAAATATATTTATTTTTTAAAATTT
TTGATATATTTGAAAAATTATAGT
Found at i:868613 original size:90 final size:87
Alignment explanation
Indices: 868330--868600 Score: 238
Period size: 90 Copynumber: 3.1 Consensus size: 87
868320 GTTAAAGTTT
* *
868330 AATA-TAAAT-ATATTTATTTTTTAAAATTTTTGATATATTTGAATAATTATAATTTATGTTATT
1 AATATTAAATAATATTTATTTTTTAAAATTTTTGATATATTTGAAAAATTATAGTTTA---TATT
* * *
868393 CGAATTTGGAATGA-ATGTTAAAGT-TT
63 CGTATTT-GAAT-ATATATTAAA-TATA
*
868419 AATA-TAAAT-ATATTTATTTTTTAAAAATTTTTGATATATTTGAAGAATTATAGTTTATGTTAT
1 AATATTAAATAATATTTATTTTTT-AAAATTTTTGATATATTTGAAAAATTATAGTTTA---TAT
* * * *
868482 TTGAATTTGGAT-TGAATATTAAAGT-TT
62 TCGTATTTGAATAT--ATATTAAA-TATA
*
868509 AATA-TAAAT-ATATTTATTTTTTAAAATTTTTGATATATTTAAAAAATTATAGTTTATATTCGT
1 AATATTAAATAATATTTATTTTTTAAAATTTTTGATATATTTGAAAAATTATAGTTTATATTCGT
* *
868572 ATTTAAATATATATCAAATATA
66 ATTTGAATATATATTAAATATA
868594 AATATTA
1 AATATTA
868601 GACATAGATA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
84 1 0.01
85 12 0.07
86 13 0.08
87 1 0.01
89 57 0.35
90 78 0.48
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (87 bp):
AATATTAAATAATATTTATTTTTTAAAATTTTTGATATATTTGAAAAATTATAGTTTATATTCGT
ATTTGAATATATATTAAATATA
Found at i:868691 original size:2 final size:2
Alignment explanation
Indices: 868684--868723 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
868674 GTAAAAAGAA
868684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
868724 GGGACGTGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:869555 original size:2 final size:2
Alignment explanation
Indices: 869548--869588 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
869538 TTAGTCAGTT
869548 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
869589 TTAATTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:871130 original size:15 final size:15
Alignment explanation
Indices: 871110--871143 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
871100 TCAGATCATT
**
871110 TTAAATTTTTATAAA
1 TTAAATTTAAATAAA
871125 TTAAATTTAAATAAA
1 TTAAATTTAAATAAA
871140 TTAA
1 TTAA
871144 TCAAATATTT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTTAAATAAA
Found at i:872379 original size:6 final size:6
Alignment explanation
Indices: 872370--872395 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
872360 AATTAAATTT
872370 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
872396 TTTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:872939 original size:27 final size:28
Alignment explanation
Indices: 872894--872991 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 28
872884 AAATTAATTA
*
872894 ATAAATACATAAATATTTTAAAATTTAT
1 ATAAATATATAAATATTTTAAAATTTAT
872922 ATAAATATA-AAATATTTTAAATATAATTAT
1 ATAAATATATAAATATTTTAAA-AT--TTAT
* *
872952 GATATA-ATA-AAATA-TAT-AAATTTGAT
1 -ATAAATATATAAATATTTTAAAATTT-AT
872978 ATAAATATATAAAT
1 ATAAATATATAAAT
872992 TATTAGATCT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
25 6 0.10
26 5 0.08
27 18 0.31
28 12 0.20
29 2 0.03
30 12 0.20
31 4 0.07
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (28 bp):
ATAAATATATAAATATTTTAAAATTTAT
Found at i:873413 original size:22 final size:22
Alignment explanation
Indices: 873385--873427 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
873375 GTTAAAAATT
873385 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
873407 TATTTTTATAATTAAATTTAT
1 TATTTTTATAATTAAATTTAT
873428 TAACATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:873464 original size:28 final size:29
Alignment explanation
Indices: 873401--873469 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
873391 TATATTAATA
*
873401 TTTATATAT-TTTTATAATTAAATTTATT
1 TTTATATTTATTTTATAATTAAATTTATT
***
873429 AACATATTTATTTTATAATTAAA-TTATT
1 TTTATATTTATTTTATAATTAAATTTATT
*
873457 TTTATATTCATTT
1 TTTATATTTATTT
873470 GATTGTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTATATTTATTTTATAATTAAATTTATT
Found at i:874197 original size:21 final size:23
Alignment explanation
Indices: 874159--874204 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
874149 AAAATATAAA
874159 AATATTATTTTTATATTAAAATT
1 AATATTATTTTTATATTAAAATT
*
874182 AATA-TATTTTTA-ATTAAATTT
1 AATATTATTTTTATATTAAAATT
874203 AA
1 AA
874205 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 8 0.36
23 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTATTTTTATATTAAAATT
Found at i:874214 original size:26 final size:25
Alignment explanation
Indices: 874154--874224 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
874144 ATATAAAAAT
*
874154 ATAAAAATATTATTT-TTATATTAAA
1 ATAAAAATATT-TTTATTAAATTAAA
* * *
874179 ATTAATATATTTTTAATTAAATTTAA
1 ATAAAAATATTTTT-ATTAAATTAAA
874205 ATAAAAATATATTTTATTAA
1 ATAAAAATAT-TTTTATTAA
874225 TAAATTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 9 0.24
26 21 0.57
27 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAAAAATATTTTTATTAAATTAAA
Found at i:874244 original size:16 final size:16
Alignment explanation
Indices: 874193--874270 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 16
874183 ATATATTTTT
874193 AATTA-AATTTAAATAA
1 AATTATAATTTAAAT-A
* *
874209 AAATATATTTTATTAATA
1 AATTATAATTTA--AATA
874227 AATTATAATTTAAATA
1 AATTATAATTTAAATA
874243 AATTA-AATTTATAA-A
1 AATTATAATTTA-AATA
*
874258 AATT-TTATTTAAA
1 AATTATAATTTAAA
874271 ATACGGATCG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
14 2 0.04
15 16 0.31
16 15 0.29
17 5 0.10
18 11 0.21
19 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATAATTTAAATA
Found at i:874680 original size:14 final size:15
Alignment explanation
Indices: 874663--874697 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
874653 ATTATTTTTT
*
874663 ATTTAATTT-TTTAA
1 ATTTAATTTATTAAA
874677 ATTTAATTTATTAAA
1 ATTTAATTTATTAAA
874692 ATTTAA
1 ATTTAA
874698 AATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAATTTATTAAA
Found at i:875935 original size:29 final size:29
Alignment explanation
Indices: 875876--875940 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
875866 TTTTATATAA
* *
875876 ATATAAAATATTTTAAATATGATTATGAT
1 ATATAAAATATTATAAATATGAATATGAT
875905 ATGATAAAATA-TATAAATAT-AATATGAAT
1 AT-ATAAAATATTATAAATATGAATATG-AT
875934 ATATAAA
1 ATATAAA
875941 TTATCAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 10 0.31
29 14 0.44
30 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (29 bp):
ATATAAAATATTATAAATATGAATATGAT
Found at i:876317 original size:14 final size:13
Alignment explanation
Indices: 876298--876328 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
876288 ATATTAACAT
876298 AATATAAATATATA
1 AATATAAATATA-A
876312 AATATAAATATAA
1 AATATAAATATAA
876325 AATA
1 AATA
876329 CATCTCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:877063 original size:20 final size:22
Alignment explanation
Indices: 877040--877084 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
877030 TTTATTAATT
877040 TAATTAAATTT-AAATTAAA-A
1 TAATTAAATTTAAAATTAAATA
*
877060 TAATTAATTTTAAAATTAAATA
1 TAATTAAATTTAAAATTAAATA
877082 TAA
1 TAA
877085 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATTAAATTTAAAATTAAATA
Found at i:877079 original size:26 final size:26
Alignment explanation
Indices: 877043--877097 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
877033 ATTAATTTAA
* *
877043 TTAAATTTAAAT-TAAAATAATTAATT
1 TTAAAATTAAATATAAAA-AATTAAAT
877069 TTAAAATTAAATATAAAAAATTAAAT
1 TTAAAATTAAATATAAAAAATTAAAT
877095 TTA
1 TTA
877098 CTTTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAAATTAAATATAAAAAATTAAAT
Found at i:877565 original size:17 final size:17
Alignment explanation
Indices: 877541--877583 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
877531 TTTTAAGTGA
877541 TTTAAATTTAAAATATT
1 TTTAAATTTAAAATATT
* * *
877558 TTTTAATTTAAACTGTT
1 TTTAAATTTAAAATATT
877575 TTTAAATTT
1 TTTAAATTT
877584 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAAATATT
Found at i:877719 original size:6 final size:6
Alignment explanation
Indices: 877708--877732 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
877698 GGCAAATAAT
877708 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
877733 TATAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:877727 original size:17 final size:17
Alignment explanation
Indices: 877705--877756 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
877695 ATAGGCAAAT
877705 AATAAAATAAAAATAAA
1 AATAAAATAAAAATAAA
* *
877722 AAT-AAA-AATAATATA
1 AATAAAATAAAAATAAA
*
877737 AATATAATAAAAATATAA
1 AATAAAATAAAAATA-AA
877755 AA
1 AA
877757 AAACATTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 10 0.37
16 5 0.19
17 9 0.33
18 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:877752 original size:11 final size:11
Alignment explanation
Indices: 877705--877759 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
877695 ATAGGCAAAT
*
877705 AATAAAATAAA
1 AATATAATAAA
877716 AATA-AA-AATA
1 AATATAATAA-A
* *
877726 AAAATAATATA
1 AATATAATAAA
877737 AATATAATAAA
1 AATATAATAAA
877748 AATATAA-AAA
1 AATATAATAAA
877758 AA
1 AA
877760 CATTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
9 2 0.05
10 11 0.30
11 23 0.62
12 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AATATAATAAA
Found at i:879768 original size:2 final size:2
Alignment explanation
Indices: 879761--879790 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
879751 GAGATTTGAA
879761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
879791 TTACATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:881671 original size:15 final size:15
Alignment explanation
Indices: 881651--881694 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
881641 AATAAAATAT
881651 AATATAAAATATAAA
1 AATATAAAATATAAA
881666 AATATAAAATATAAA
1 AATATAAAATATAAA
*
881681 TATAATATAAATAT
1 AAT-ATA-AAATAT
881695 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 17 0.65
16 3 0.12
17 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATAAAATATAAA
Found at i:881676 original size:27 final size:27
Alignment explanation
Indices: 881633--881756 Score: 103
Period size: 26 Copynumber: 4.6 Consensus size: 27
881623 GATTTGATAT
881633 TAAAAATAAATAAAATATAATATAAAATA
1 TAAAAAT--ATAAAATATAATATAAAATA
*
881662 TAAAAATATAAAATATAA-ATATAATA
1 TAAAAATATAAAATATAATATAAAATA
* * *
881688 TAAATATTTAAAAT-TTATAT-AAATA
1 TAAAAATATAAAATATAATATAAAATA
* * * *
881713 TATAATATTTTAAATATAAT-TATAATA
1 TA-AAAATATAAAATATAATATAAAATA
881740 TAAAAAATATGAAAATA
1 T-AAAAATAT-AAAATA
881757 CAATGAATTC
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
25 8 0.10
26 33 0.42
27 24 0.31
28 6 0.08
29 7 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (27 bp):
TAAAAATATAAAATATAATATAAAATA
Found at i:881699 original size:26 final size:26
Alignment explanation
Indices: 881643--881743 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
881633 TAAAAATAAA
* * *
881643 TAAAATATAATATAAAATATAAAAATA
1 TAAAATATAA-ATATAATATAAATATT
881670 TAAAATATAAATATAATATAAATATT
1 TAAAATATAAATATAATATAAATATT
* *
881696 TAAAATTTATATA-AATATATAATATT
1 TAAAATATAAATATAATATA-AATATT
* *
881722 TTAAATATAATTATAATATAAA
1 TAAAATATAAATATAATATAAA
881744 AAATATGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.10
26 41 0.65
27 16 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAAATATAAATATAATATAAATATT
Found at i:882246 original size:5 final size:5
Alignment explanation
Indices: 882238--882330 Score: 53
Period size: 5 Copynumber: 17.4 Consensus size: 5
882228 AATTAATAAT
* ** *
882238 TTATA TTATA TTA-A TTTTA AAATA TTTATA TTTATA TTATTT TTATA
1 TTATA TTATA TTATA TTATA TTATA -TTATA -TTATA TTA-TA TTATA
* * *
882285 TTATA TTTTAA TTAATTA TTATA TTAAA TTTATA TTATA TTTTA TT
1 TTATA TTAT-A TT-A-TA TTATA TTATA -TTATA TTATA TTATA TT
882331 TCCTATGTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
4 3 0.04
5 40 0.59
6 21 0.31
7 3 0.04
8 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:882282 original size:11 final size:11
Alignment explanation
Indices: 882263--882329 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
882253 TTTAAAATAT
*
882263 TTATATTTATA
1 TTATTTTTATA
882274 TTATTTTTATA
1 TTATTTTTATA
882285 TTATATTTTA-A
1 TTAT-TTTTATA
*
882296 TTAATTATTATA
1 TT-ATTTTTATA
**
882308 TTAAATTTATA
1 TTATTTTTATA
882319 TTATATTTTAT
1 TTAT-TTTTAT
882330 TTCCTATGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
11 30 0.67
12 15 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:882331 original size:16 final size:16
Alignment explanation
Indices: 882196--882331 Score: 75
Period size: 16 Copynumber: 8.1 Consensus size: 16
882186 AATAATTAAA
*
882196 TATAATATATTTTATAT
1 TATATTATATTTTAT-T
*
882213 T-TA-AATATTTTATT
1 TATATTATATTTTATT
*
882227 TA-ATTAATAATTTATAT
1 TATATT-ATATTTTAT-T
882244 TATATTA-ATTTTAAAATATT
1 TATATTATA-TTT----TATT
882264 TATATTTATATTATT-TT
1 TATA-TTATATT-TTATT
882281 TATATTATATTTTAATT
1 TATATTATATTTT-ATT
* **
882298 AATTATTATATTAAATT
1 TA-TATTATATTTTATT
882315 TATATTATATTTTATT
1 TATATTATATTTTATT
882331 T
1 T
882332 CCTATGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 33
0.68 0.07 0.24
Matches are distributed among these distances:
14 3 0.03
15 11 0.12
16 31 0.33
17 20 0.22
18 13 0.14
20 5 0.05
21 8 0.09
22 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTATATTTTATT
Found at i:886442 original size:34 final size:34
Alignment explanation
Indices: 886403--886487 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 34
886393 GATATAATTT
*
886403 TTATTATAAATTTAATAGGTTAAAAATTTAAATC
1 TTATTATAAATTTAATAGGTTAAAAATCTAAATC
*
886437 TTATTATAAATTTAATAGGTTAAAAGTCTAAATC
1 TTATTATAAATTTAATAGGTTAAAAATCTAAATC
*
886471 TTATTATATAAATTAAT
1 TTATTATA-AATTTAAT
886488 TACAACTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 40 0.85
35 7 0.15
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (34 bp):
TTATTATAAATTTAATAGGTTAAAAATCTAAATC
Found at i:887445 original size:19 final size:21
Alignment explanation
Indices: 887407--887446 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
887397 ATCTCAGTTG
*
887407 AAATATATAATTATTTTTAAA
1 AAATATATAATTAATTTTAAA
887428 AAATA-ATAA-TAATTTTAAA
1 AAATATATAATTAATTTTAAA
887447 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATATAATTAATTTTAAA
Found at i:887465 original size:14 final size:15
Alignment explanation
Indices: 887436--887472 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
887426 AAAAATAATA
887436 ATAATTTTAAATTTT
1 ATAATTTTAAATTTT
887451 A-AATTTT-AATATTT
1 ATAATTTTAAAT-TTT
887465 ATAATTTT
1 ATAATTTT
887473 TCTTTATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATAATTTTAAATTTT
Found at i:887709 original size:17 final size:17
Alignment explanation
Indices: 887687--887719 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
887677 TCAATTTTGA
*
887687 AATTATATTTTTAATAC
1 AATTATATATTTAATAC
887704 AATTATATATTTAATA
1 AATTATATATTTAATA
887720 ATGATAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTATATATTTAATAC
Found at i:887870 original size:23 final size:21
Alignment explanation
Indices: 887839--887882 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
887829 TATATTTAAT
*
887839 TATTAAAAATTAAATTAAAAATA
1 TATTAAAAAATAAA--AAAAATA
*
887862 TATTTAAAAATAAAAAAAATA
1 TATTAAAAAATAAAAAAAATA
887883 AAAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TATTAAAAAATAAAAAAAATA
Found at i:887878 original size:31 final size:29
Alignment explanation
Indices: 887813--887886 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 29
887803 AATATTAATA
**
887813 AAAAAATTAATAAAAATATATTTAATTAT
1 AAAAAATTAATAAAAATATATTTAAAAAT
*
887842 TAAAAATTAAATTAAAAATATATTTAAAAAT
1 AAAAAATT-AA-TAAAAATATATTTAAAAAT
887873 AAAAAA--AATAAAAA
1 AAAAAATTAATAAAAA
887887 ACTAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.15
28 2 0.05
29 7 0.18
30 2 0.05
31 22 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAAATTAATAAAAATATATTTAAAAAT
Found at i:889189 original size:17 final size:19
Alignment explanation
Indices: 889167--889203 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
889157 CATGTTATAA
889167 ATATTTAA-TAAA-AATAT
1 ATATTTAATTAAATAATAT
889184 ATATTTAATTAAATAATAT
1 ATATTTAATTAAATAATAT
889203 A
1 A
889204 ATCTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATTTAATTAAATAATAT
Found at i:889698 original size:21 final size:21
Alignment explanation
Indices: 889672--889715 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
889662 ATAATATTTT
889672 TATTTAAAT-TTAATTATAAAA
1 TATTTAAATATTAA-TATAAAA
889693 TATTTAAATATTAATATAAAA
1 TATTTAAATATTAATATAAAA
889714 TA
1 TA
889716 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTTAAATATTAATATAAAA
Found at i:899372 original size:20 final size:21
Alignment explanation
Indices: 899330--899372 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
899320 AAAATATAAA
899330 AAAATTATTATTTTAATATTT
1 AAAATTATTATTTTAATATTT
*
899351 AAAATTATTATTTTTA-ATTT
1 AAAATTATTATTTTAATATTT
899371 AA
1 AA
899373 TTGATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAATTATTATTTTAATATTT
Found at i:899841 original size:68 final size:68
Alignment explanation
Indices: 899764--899909 Score: 265
Period size: 68 Copynumber: 2.1 Consensus size: 68
899754 AGTTTGGTAA
* *
899764 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTATCAAATCTCTCATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACCATCAAATCTCACATTTAGTCAACAAT
899829 GGC
66 GGC
*
899832 AAACTACCAAATCACCCATTTAATCAACAATGGCAAACCATCAAATCTCACATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACCATCAAATCTCACATTTAGTCAACAAT
899897 GGC
66 GGC
899900 AAACCACCAA
1 AAACCACCAA
899910 GTCAACAATG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (68 bp):
AAACCACCAAATCACCCATTTAATCAACAATGGCAAACCATCAAATCTCACATTTAGTCAACAAT
GGC
Found at i:899904 original size:34 final size:34
Alignment explanation
Indices: 899764--899909 Score: 202
Period size: 34 Copynumber: 4.3 Consensus size: 34
899754 AGTTTGGTAA
899764 AAACCACCAAATCACCCATTTAATCAACAATGGC
1 AAACCACCAAATCACCCATTTAATCAACAATGGC
* * * * *
899798 AAACTATCAAATCTCTCATTTAGTCAACAATGGC
1 AAACCACCAAATCACCCATTTAATCAACAATGGC
*
899832 AAACTACCAAATCACCCATTTAATCAACAATGGC
1 AAACCACCAAATCACCCATTTAATCAACAATGGC
* * * *
899866 AAACCATCAAATCTCACATTTAGTCAACAATGGC
1 AAACCACCAAATCACCCATTTAATCAACAATGGC
899900 AAACCACCAA
1 AAACCACCAA
899910 GTCAACAATG
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 97 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (34 bp):
AAACCACCAAATCACCCATTTAATCAACAATGGC
Found at i:901643 original size:77 final size:77
Alignment explanation
Indices: 901516--901672 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
901506 CTAGGCATGA
**
901516 TCGGATGCCTATTGAAATTTATGTCTTGAGTTACGAAACTCAAAGCATCGATCTTGTGGTCTACG
1 TCGGATGCCTATTGAAATTTATGTCTTGAGTTACGAAACTCAAAGCATCGATCCCGTGGTCTACG
901581 TAATTTAGAGAT
66 TAATTTAGAGAT
901593 TCGGATGCCTATTGAAATTTATGTCTTGAGTTACGAAACTCAAAGCATCGATCCCGTGGTCTACG
1 TCGGATGCCTATTGAAATTTATGTCTTGAGTTACGAAACTCAAAGCATCGATCCCGTGGTCTACG
901658 TAATTTAGAGAT
66 TAATTTAGAGAT
901670 TCG
1 TCG
901673 CCGGTTGGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (77 bp):
TCGGATGCCTATTGAAATTTATGTCTTGAGTTACGAAACTCAAAGCATCGATCCCGTGGTCTACG
TAATTTAGAGAT
Found at i:904542 original size:13 final size:13
Alignment explanation
Indices: 904524--904549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
904514 ACAAAGATCC
904524 ATGTATCGATACA
1 ATGTATCGATACA
904537 ATGTATCGATACA
1 ATGTATCGATACA
904550 TTTCGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:907644 original size:18 final size:19
Alignment explanation
Indices: 907621--907691 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
907611 CCTACTGTTT
*
907621 TACGTGCACAGTA-CCGTA
1 TACGTGAACAGTACCCGTA
*
907639 TACGTGAATAGTACCCGTA
1 TACGTGAACAGTACCCGTA
* * **
907658 TACATGAATAGTACCTATA
1 TACGTGAACAGTACCCGTA
*
907677 TACGTGAATAGTACC
1 TACGTGAACAGTACC
907692 TCGACAACCA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 11 0.24
19 35 0.76
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (19 bp):
TACGTGAACAGTACCCGTA
Found at i:907658 original size:19 final size:19
Alignment explanation
Indices: 907630--907691 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
907620 TTACGTGCAC
907630 AGTA-CCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
*
907648 AGTACCCGTATACATGAAT
1 AGTACCCGTATACGTGAAT
**
907667 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
907686 AGTACC
1 AGTACC
907692 TCGACAACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
18 4 0.10
19 35 0.90
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:908045 original size:34 final size:33
Alignment explanation
Indices: 907994--908155 Score: 198
Period size: 34 Copynumber: 4.8 Consensus size: 33
907984 TGGTAAAAAT
*
907994 TACCAAATCACCCATTTAATCAACAATGGTAAAC
1 TACCAAATCA-CCATTTAATCAACAATGGCAAAC
* *
908028 TACCAAATCTCCTATTTAGTCAACAATGGCAAAC
1 TACCAAATCACC-ATTTAATCAACAATGGCAAAC
* * *
908062 CACCAAATCAGCCATTTAATCAATAATGACAAAC
1 TACCAAATCA-CCATTTAATCAACAATGGCAAAC
* *
908096 TACCAAATCTCTCATTTAGTCAACAATGGCAAAC
1 TACCAAATCAC-CATTTAATCAACAATGGCAAAC
* *
908130 TATCAAATCAACATTTAATCAACAAT
1 TACCAAATCACCATTTAATCAACAAT
908156 TAGCAATGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
33 17 0.16
34 89 0.82
35 2 0.02
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.25
Consensus pattern (33 bp):
TACCAAATCACCATTTAATCAACAATGGCAAAC
Found at i:908077 original size:68 final size:67
Alignment explanation
Indices: 907995--908155 Score: 234
Period size: 68 Copynumber: 2.4 Consensus size: 67
907985 GGTAAAAATT
**
907995 ACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAATCTC-CTATTTAGTCAACAATGGCA
1 ACCAAATCA-CCATTTAATCAACAATGACAAACTACCAAATCTCTC-ATTTAGTCAACAATGGCA
908059 AACC
64 AACC
*
908063 ACCAAATCAGCCATTTAATCAATAATGACAAACTACCAAATCTCTCATTTAGTCAACAATGGCAA
1 ACCAAATCA-CCATTTAATCAACAATGACAAACTACCAAATCTCTCATTTAGTCAACAATGGCAA
*
908128 ACT
65 ACC
* *
908131 ATCAAATCAACATTTAATCAACAAT
1 ACCAAATCACCATTTAATCAACAAT
908156 TAGCAATGTA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
67 14 0.17
68 69 0.82
69 1 0.01
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.25
Consensus pattern (67 bp):
ACCAAATCACCATTTAATCAACAATGACAAACTACCAAATCTCTCATTTAGTCAACAATGGCAAA
CC
Found at i:908283 original size:64 final size:65
Alignment explanation
Indices: 908153--908283 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 65
908143 TTTAATCAAC
* * * **
908153 AATTAGCAATGTACACAATCTTCCCATCGCAATCAATGGAATGTTGTGGGAGATATATGGAAGTT
1 AATTAGCAATGTACACAATCTTCCCATCACAATCAATGCAATGTTGTGAGAGATATAACGAAGTT
* * *
908218 AATTGGCAATGTAGACAATTTTCCCATCACAA-CAATGCAATGTTGTGAGAGATA-AACGAAGGT
1 AATTAGCAATGTACACAATCTTCCCATCACAATCAATGCAATGTTGTGAGAGATATAACGAA-GT
908281 T
65 T
908282 AA
1 AA
908284 CAATAGGCTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
63 4 0.07
64 25 0.44
65 28 0.49
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (65 bp):
AATTAGCAATGTACACAATCTTCCCATCACAATCAATGCAATGTTGTGAGAGATATAACGAAGTT
Found at i:908599 original size:33 final size:33
Alignment explanation
Indices: 908557--908622 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
908547 GTTCACATTA
*
908557 AGCATGCCTTTTGATGCATAGTATTGACTCTTT
1 AGCATGCCTTTTGATGCATAGTATTAACTCTTT
908590 AGCATGCCTTTTGATGCATAGTATTAACTCTTT
1 AGCATGCCTTTTGATGCATAGTATTAACTCTTT
908623 CTTTCCTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (33 bp):
AGCATGCCTTTTGATGCATAGTATTAACTCTTT
Found at i:910035 original size:2 final size:2
Alignment explanation
Indices: 910030--910071 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
910020 TATTAAATTC
910030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
910072 GCCTAACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:910341 original size:14 final size:15
Alignment explanation
Indices: 910322--910351 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
910312 TGATCTTTCA
910322 TTTAAAT-TAAAAAT
1 TTTAAATATAAAAAT
910336 TTTAAATATAAAAAT
1 TTTAAATATAAAAAT
910351 T
1 T
910352 AAATTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAATATAAAAAT
Found at i:910989 original size:20 final size:21
Alignment explanation
Indices: 910964--911004 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
910954 TATTTAATAA
*
910964 TAAAATAATTT-TTTAAAATT
1 TAAAATAATTTAATTAAAATT
*
910984 TAAAATTATTTAATTAAAATT
1 TAAAATAATTTAATTAAAATT
911005 AATTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATAATTTAATTAAAATT
Found at i:911002 original size:14 final size:15
Alignment explanation
Indices: 910983--911015 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
910973 TTTTTAAAAT
910983 TTAAAATT-ATTTAA
1 TTAAAATTAATTTAA
*
910997 TTAAAATTAATTTAC
1 TTAAAATTAATTTAA
911012 TTAA
1 TTAA
911016 CCTATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTAATTTAA
Found at i:911776 original size:2 final size:2
Alignment explanation
Indices: 911769--911798 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
911759 TGAAAGGGTA
911769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
911799 TAAAGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:912098 original size:21 final size:20
Alignment explanation
Indices: 912074--912142 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
912064 ATTTAAATTT
912074 AAAAATTTATAAAATATT-AA
1 AAAAATTTATAAAA-ATTAAA
*
912094 AAAAATATATAATAAA--AAA
1 AAAAATTTATAA-AAATTAAA
*
912113 ATAAATTTATATAAAAATTAAA
1 A-AAAATT-TATAAAAATTAAA
*
912135 TAAAATTT
1 AAAAATTT
912143 TGACTTTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 3 0.08
20 20 0.53
21 12 0.32
22 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTTATAAAAATTAAA
Done.