Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, 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: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:695571 original size:35 final size:34
Alignment explanation
Indices: 695494--695576 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 34
695484 TTAAAAAATA
695494 TATAATATATATATAATATAAATTTATATATAAAC
1 TATAAT-TATATATAATATAAATTTATATATAAAC
*
695529 TAT-ATTATATATTATATATAA-TTAT-TATAAAC
1 TATAATTATATATAATATA-AATTTATATATAAAC
695561 TGTATAATTAT-TATAA
1 --TATAATTATATATAA
695577 GCCATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
32 7 0.17
33 16 0.38
34 11 0.26
35 8 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (34 bp):
TATAATTATATATAATATAAATTTATATATAAAC
Found at i:695668 original size:18 final size:18
Alignment explanation
Indices: 695491--695690 Score: 69
Period size: 18 Copynumber: 10.8 Consensus size: 18
695481 AAATTAAAAA
695491 ATATATAATATATATATAA-T
1 ATATAT-ATAT-TATA-AACT
* *
695511 ATAAATTTATATATAAACT
1 ATATATATAT-TATAAACT
695530 ATATTATATATTAT--A-T
1 ATA-TATATATTATAAACT
695546 ATA-AT-TATTATAAACT
1 ATATATATATTATAAACT
* * *
695562 GTATA-ATTATTATAAGCC
1 ATATATA-TATTATAAACT
* **
695580 ATATATAAATTAT-ATTT
1 ATATATATATTATAAACT
* *
695597 ATGTGCACTGTATATATAAACT
1 ATAT--A-TATAT-TATAAACT
*
695619 ATGTATATAAAATTATAAACT
1 A--TATAT-ATATTATAAACT
*
695640 ATATTTATATTATAAACT
1 ATATATATATTATAAACT
*
695658 ATATA-ATTATTATGAGA-T
1 ATATATA-TATTAT-AAACT
695676 ATATATATATATATA
1 ATATATATAT-TATA
695691 TATAAATTAT
Statistics
Matches: 135, Mismatches: 24, Indels: 44
0.67 0.12 0.22
Matches are distributed among these distances:
13 6 0.04
14 2 0.01
15 1 0.01
16 7 0.05
17 7 0.05
18 51 0.38
19 27 0.20
20 13 0.10
21 13 0.10
22 6 0.04
24 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (18 bp):
ATATATATATTATAAACT
Found at i:695731 original size:13 final size:13
Alignment explanation
Indices: 695713--695737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
695703 TTATGTGAAC
695713 TGTATATAAACTT
1 TGTATATAAACTT
695726 TGTATATAAACT
1 TGTATATAAACT
695738 ATATATGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TGTATATAAACTT
Found at i:696222 original size:13 final size:14
Alignment explanation
Indices: 696199--696237 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
696189 CCTCAAACTT
696199 TAAACCCTAAATCC
1 TAAACCCTAAATCC
**
696213 TAAA-CCTAAATTT
1 TAAACCCTAAATCC
696226 TAAACCCTAAAT
1 TAAACCCTAAAT
696238 TAATCCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCCTAAATCC
Found at i:696238 original size:14 final size:14
Alignment explanation
Indices: 696197--696238 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
696187 AGCCTCAAAC
696197 TTTAAACCCTAAAT
1 TTTAAACCCTAAAT
**
696211 CCTAAA-CCTAAAT
1 TTTAAACCCTAAAT
696224 TTTAAACCCTAAAT
1 TTTAAACCCTAAAT
696238 T
1 T
696239 AATCCTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTAAACCCTAAAT
Found at i:696262 original size:26 final size:26
Alignment explanation
Indices: 696199--696262 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
696189 CCTCAAACTT
*
696199 TAAACCCTAAATCCTAAACCTAAATTT
1 TAAACCCTAAAT-CTAAACCTAAATTA
* *
696226 TAAACCCTAAAT-TAATCCTTAAGTTA
1 TAAACCCTAAATCTAAACC-TAAATTA
696252 TAAACCCTAAA
1 TAAACCCTAAA
696263 CCCTGAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.15
26 16 0.48
27 12 0.36
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (26 bp):
TAAACCCTAAATCTAAACCTAAATTA
Found at i:696309 original size:20 final size:19
Alignment explanation
Indices: 696284--696351 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 19
696274 ATGTAGCTAC
*
696284 ATGTATATATAAACTATGT
1 ATGTATATATAAACTATAT
*
696303 ATGGTATGTATAAACTATAT
1 AT-GTATATATAAACTATAT
* *
696323 ATATATATATAGA-TATAT
1 ATGTATATATAAACTATAT
*
696341 ATATATATATA
1 ATGTATATATA
696352 TATCATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 16 0.37
19 10 0.23
20 17 0.40
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (19 bp):
ATGTATATATAAACTATAT
Found at i:696325 original size:2 final size:2
Alignment explanation
Indices: 696318--696354 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
696308 ATGTATAAAC
*
696318 TA TA TA TA TA TA TA TA GA 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 T
696355 CATTAAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:696988 original size:8 final size:8
Alignment explanation
Indices: 696975--697001 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
696965 CATCGTCCAT
696975 TTAAAATA
1 TTAAAATA
696983 TTAAAATA
1 TTAAAATA
696991 TTAAAATA
1 TTAAAATA
696999 TTA
1 TTA
697002 TATAGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:697014 original size:2 final size:2
Alignment explanation
Indices: 696996--697045 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
696986 AAATATTAAA
*
696996 AT AT -T AT AT AGT TT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
697037 AGT AT AT AT
1 A-T AT AT AT
697046 GGTTTAGGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.88
3 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
AT
Found at i:697060 original size:14 final size:13
Alignment explanation
Indices: 697043--697115 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 13
697033 ATATAGTATA
697043 TATGGTTTAGGATT
1 TATGGTTTAGG-TT
697057 TATGGTTTATGGTT
1 TATGGTTTA-GGTT
697071 TA-GGATTTAGGGTT
1 TATGG-TTTA-GGTT
* *
697085 TATAGTTTAATGTT
1 TATGGTTT-AGGTT
697099 TAAT-GTTTAGGGTT
1 T-ATGGTTTA-GGTT
697113 TAT
1 TAT
697116 ATTTATATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
13 5 0.10
14 38 0.78
15 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (13 bp):
TATGGTTTAGGTT
Found at i:697069 original size:21 final size:21
Alignment explanation
Indices: 697043--697093 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
697033 ATATAGTATA
*
697043 TATGGTTTAGGATTTATGGTT
1 TATGGTTTAGGATTTAGGGTT
697064 TATGGTTTAGGATTTAGGGTT
1 TATGGTTTAGGATTTAGGGTT
*
697085 TATAGTTTA
1 TATGGTTTA
697094 ATGTTTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TATGGTTTAGGATTTAGGGTT
Found at i:697099 original size:28 final size:29
Alignment explanation
Indices: 697046--697120 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
697036 TAGTATATAT
* *
697046 GGTTTAGGATTTATGGTTT-ATGGTTT-A
1 GGTTTAGGGTTTATAGTTTAATGGTTTAA
697073 GGATTTAGGGTTTATAGTTTAAT-GTTTAA
1 GG-TTTAGGGTTTATAGTTTAATGGTTTAA
*
697102 TGTTTAGGGTTTATA-TTTA
1 GGTTTAGGGTTTATAGTTTA
697121 TATTTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.14
28 32 0.76
29 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (29 bp):
GGTTTAGGGTTTATAGTTTAATGGTTTAA
Found at i:697234 original size:30 final size:30
Alignment explanation
Indices: 697198--697295 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
697188 TATATTATAT
697198 ACTATATATATGACTATAGTTTACATATGA
1 ACTATATATATGACTATAGTTTACATATGA
* * * *
697228 ACTATATATATAAATATA-TATACTAAAGTTG-
1 ACTATATATATGACTATAGTTTAC-ATA--TGA
*
697259 A-TATTTATATGAACTATAGTTTACATAT-A
1 ACTATATATATG-ACTATAGTTTACATATGA
697288 ACTATATA
1 ACTATATA
697296 GTTTATATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
29 6 0.12
30 31 0.61
31 8 0.16
32 6 0.12
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (30 bp):
ACTATATATATGACTATAGTTTACATATGA
Found at i:697286 original size:18 final size:17
Alignment explanation
Indices: 697265--697407 Score: 117
Period size: 18 Copynumber: 7.6 Consensus size: 17
697255 GTTGATATTT
697265 ATATGAACTATAGTTTAC
1 ATAT-AACTATAGTTTAC
*
697283 ATATAACTATATAGTTTAT
1 ATATAAC--TATAGTTTAC
697302 ATACTAACTATAGTTTAC
1 ATA-TAACTATAGTTTAC
* *
697320 ATA-AATATATAGTTTAT
1 ATATAA-CTATAGTTTAC
697337 ATACTAACTATAGTTTAC
1 ATA-TAACTATAGTTTAC
697355 ATATAAACTATAGTTAATATTTAC
1 ATAT-AACTATAG------TTTAC
697379 ATATGAACTATAGTTTAC
1 ATAT-AACTATAGTTTAC
697397 ATATGAACTAT
1 ATAT-AACTAT
697408 TATATAAACT
Statistics
Matches: 105, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.02
17 16 0.15
18 52 0.50
19 14 0.13
20 4 0.04
24 17 0.16
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (17 bp):
ATATAACTATAGTTTAC
Found at i:697301 original size:35 final size:37
Alignment explanation
Indices: 697262--697407 Score: 149
Period size: 35 Copynumber: 3.9 Consensus size: 37
697252 AAAGTTGATA
697262 TTTATAT-GAACTATAGTTTACATAT-AACTATATAG
1 TTTATATAGAACTATAGTTTACATATAAACTATATAG
*
697297 TTTATATACTAACTATAGTTTAC--ATAAA-TATATAG
1 TTTATATA-GAACTATAGTTTACATATAAACTATATAG
* *
697332 TTTATATACTAACTATAGTTTACATATAAACTATAGTTAATA
1 TTTATATA-GAACTATAGTTTACATATAAACTATA--T-A-G
* *
697374 TTTACATATGAACTATAGTTTACATATGAACTAT
1 TTTATATA-GAACTATAGTTTACATATAAACTAT
697408 TATATAAACT
Statistics
Matches: 95, Mismatches: 6, Indels: 13
0.83 0.05 0.11
Matches are distributed among these distances:
35 39 0.41
36 2 0.02
37 18 0.19
38 4 0.04
40 1 0.01
41 1 0.01
42 30 0.32
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (37 bp):
TTTATATAGAACTATAGTTTACATATAAACTATATAG
Found at i:697420 original size:30 final size:31
Alignment explanation
Indices: 697379--697454 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
697369 TAATATTTAC
*
697379 ATATGAACTATAGTTTACATATGAACTAT-T
1 ATATAAACTATAGTTTACATATGAACTATAT
*
697409 ATATAAACTATATAGTTTACATATGATCTATAT
1 ATATAAAC--TATAGTTTACATATGAACTATAT
*
697442 ATATATA-TATAGT
1 ATATAAACTATAGT
697455 ATATTTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 13 0.32
32 20 0.50
33 7 0.17
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
ATATAAACTATAGTTTACATATGAACTATAT
Found at i:697425 original size:32 final size:30
Alignment explanation
Indices: 697387--697454 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 30
697377 ACATATGAAC
697387 TATAGTTTACATATGAACTATTATATAAACTA
1 TATAGTTTACATATGAACTA-TATATAAA-TA
* *
697419 TATAGTTTACATATGATCTATATATATATA
1 TATAGTTTACATATGAACTATATATAAATA
697449 TATAGT
1 TATAGT
697455 ATATTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 8 0.24
31 7 0.21
32 19 0.56
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
TATAGTTTACATATGAACTATATATAAATA
Found at i:697464 original size:12 final size:13
Alignment explanation
Indices: 697415--697542 Score: 61
Period size: 12 Copynumber: 9.6 Consensus size: 13
697405 TATTATATAA
*
697415 ACTATATAGTT-T
1 ACTATATATTTAT
*
697427 AC-ATATGATCTAT
1 ACTATAT-ATTTAT
*
697440 A-TATATATATAT
1 ACTATATATTTAT
*
697452 AGTATAT-TTTAT
1 ACTATATATTTAT
697464 ACTATATATTTACAT
1 ACTATATATTT--AT
697479 AGACCTATATATATTAT
1 --A-CTATATAT-TTAT
* *
697496 AGTTTATATTTTAT
1 ACTATATA-TTTAT
697510 ACTATATA-TTAT
1 ACTATATATTTAT
* *
697522 A-TATAAACTATAT
1 ACTATATA-TTTAT
697535 ACTATATA
1 ACTATATA
697543 AATTTACATA
Statistics
Matches: 89, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
11 9 0.10
12 25 0.28
13 18 0.20
14 20 0.22
15 4 0.04
17 3 0.03
18 8 0.09
19 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
ACTATATATTTAT
Found at i:697471 original size:14 final size:14
Alignment explanation
Indices: 697436--697524 Score: 63
Period size: 14 Copynumber: 6.0 Consensus size: 14
697426 TACATATGAT
*
697436 CTATATATATATATA
1 CTATATAT-TTTATA
697451 -TAGTATATTTTATA
1 CTA-TATATTTTATA
*
697465 CTATATATTTACATAGA
1 CTATATATTT---TATA
*
697482 CCTATATATATTATA
1 -CTATATATTTTATA
* *
697497 GTTTATATTTTATA
1 CTATATATTTTATA
*
697511 CTATATATTATATA
1 CTATATATTTTATA
697525 TAAACTATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 36 0.62
15 10 0.17
17 3 0.05
18 9 0.16
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (14 bp):
CTATATATTTTATA
Found at i:697514 original size:46 final size:48
Alignment explanation
Indices: 697415--697542 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 48
697405 TATTATATAA
*
697415 ACTATATAGTTTACATATGATCTATATATATATATATAGTATATTTTAT
1 ACTATATA-TTTACATATGACCTATATATATATATATAGTATATTTTAT
*
697464 ACTATATATTTACATA-GACCTATATATAT-TATAGT-TTATATTTTAT
1 ACTATATATTTACATATGACCTATATATATATATA-TAGTATATTTTAT
* * *
697510 ACTATATA-TTATATATAAACTATATACTATATA
1 ACTATATATTTACATATGACCTATATA-TATATA
697543 AATTTACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
45 6 0.09
46 30 0.43
47 16 0.23
48 10 0.14
49 8 0.11
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.48
Consensus pattern (48 bp):
ACTATATATTTACATATGACCTATATATATATATATAGTATATTTTAT
Found at i:697684 original size:29 final size:30
Alignment explanation
Indices: 697581--697710 Score: 110
Period size: 29 Copynumber: 4.3 Consensus size: 30
697571 CCTAAACCCT
*
697581 AAACTATACATTATATAGTTTATTAGTATATA
1 AAACTAT--ATTATATAGTTCATTAGTATATA
* *
697613 AAACTATATAATATATAG-ACTATATGGTATATA
1 AAACTATAT--TATATAGTTC-AT-TAGTATATA
* *
697646 TAA--A-A-CATATAGTTCATTAGTATATA
1 AAACTATATTATATAGTTCATTAGTATATA
697672 AAA-TATATTATATAGTTCATTAGTATATA
1 AAACTATATTATATAGTTCATTAGTATATA
697701 TAAACTATAT
1 -AAACTATAT
697711 AGTATATATA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
26 10 0.13
27 9 0.11
28 2 0.03
29 20 0.25
30 6 0.08
31 6 0.08
32 16 0.20
33 10 0.13
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTATATTATATAGTTCATTAGTATATA
Found at i:697733 original size:55 final size:49
Alignment explanation
Indices: 697666--697820 Score: 181
Period size: 48 Copynumber: 3.1 Consensus size: 49
697656 AGTTCATTAG
697666 TATATAAAATATATTATATAGTTCATTAGTATATATAAACTATATAGTA
1 TATATAAAATATATTATATAGTTCATTAGTATATATAAACTATATAGTA
* * *
697715 TATATAAACTATA-TATATAGTTAATTAGTATATATAACCTATATAGTATA
1 TATATAAAATATATTATATAGTTCATTAGTATATATAAACTATATAG--TA
* *
697765 TGGTATATACAAACTAGATTATAT-GTTCATTAGTATATATAAAATATAT-GTA
1 ---TATATA-AAA-TATATTATATAGTTCATTAGTATATATAAACTATATAGTA
697817 TATA
1 TATA
697821 ACTATATATT
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
48 31 0.34
49 16 0.18
50 2 0.02
52 2 0.02
53 6 0.07
54 3 0.03
55 25 0.28
56 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (49 bp):
TATATAAAATATATTATATAGTTCATTAGTATATATAAACTATATAGTA
Found at i:697746 original size:30 final size:29
Alignment explanation
Indices: 697710--697818 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 29
697700 ATAAACTATA
697710 TAGTATATATAAACTATATATATAGTTAAT
1 TAGTATATATAAACTATATATATAGTT-AT
* *
697740 TAGTATATATAACCTATATA-GTA--TA-
1 TAGTATATATAAACTATATATATAGTTAT
* * *
697765 TGGTATATACAAACTAGAT-TATATGTTCAT
1 TAGTATATATAAACTATATATATA-GTT-AT
* *
697795 TAGTATATATAAAATATATGTATA
1 TAGTATATATAAACTATATATATA
697819 TAACTATATA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
25 17 0.28
26 1 0.02
27 1 0.02
28 1 0.02
29 3 0.05
30 34 0.56
31 4 0.07
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (29 bp):
TAGTATATATAAACTATATATATAGTTAT
Found at i:697827 original size:55 final size:55
Alignment explanation
Indices: 697706--697828 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 55
697696 ATATATAAAC
* * * **
697706 TATATAGTATATATAAACTATATATATAGTTAATTAGTATATATAACCTATATAG
1 TATATACTATATACAAACTAGATATATAGTTAATTAGTATATATAAAATATATAG
** *
697761 TATATGGTATATACAAACTAGAT-TATATGTTCATTAGTATATATAAAATATAT-G
1 TATATACTATATACAAACTAGATATATA-GTTAATTAGTATATATAAAATATATAG
697815 TATATAACTATATA
1 TATAT-ACTATATA
697829 TTAATTTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 10 0.17
55 48 0.83
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (55 bp):
TATATACTATATACAAACTAGATATATAGTTAATTAGTATATATAAAATATATAG
Found at i:699856 original size:23 final size:23
Alignment explanation
Indices: 699830--699873 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
699820 TTATTTTTTC
*
699830 TTTATATAAATTAAATTATATAA
1 TTTATATAAATTAAACTATATAA
699853 TTTATATAAATTAAACTATAT
1 TTTATATAAATTAAACTATAT
699874 TAAATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATATAAATTAAACTATATAA
Found at i:700167 original size:16 final size:16
Alignment explanation
Indices: 700146--700214 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
700136 GATCATTTAT
*
700146 AGGTCATGTTAAAAAC
1 AGGTCAGGTTAAAAAC
700162 AGGTCAGGTTAAAAAC
1 AGGTCAGGTTAAAAAC
*
700178 AGGTCAGGTTGAAAAC
1 AGGTCAGGTTAAAAAC
* *
700194 AAGTCAGGTTGAAAAC
1 AGGTCAGGTTAAAAAC
700210 AGGTC
1 AGGTC
700215 GGGTAATACC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (16 bp):
AGGTCAGGTTAAAAAC
Found at i:700674 original size:90 final size:89
Alignment explanation
Indices: 700499--700667 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 89
700489 TTTACAGCCC
* * * * *
700499 TAGATGTAACTGCTTGAATCTAGAACTTTTAGGGAAAATAACGCTTTCTTTAATCATTAAGACCA
1 TAGACGTAACTGCTTGAATCTAGAACTTTTAGGGAAAACAAC-CTCTCTTTAATAACTAAGACCA
700564 CTTGATAGATTCATTTGTGTATTCG
65 CTTGATAGATTCATTTGTGTATTCG
700589 TAGACGTAACTGCTTGAATCTAGAACTTTTA-GGAAGAACAA-CTCTCTTTAATAACTAAGACCA
1 TAGACGTAACTGCTTGAATCTAGAACTTTTAGGGAA-AACAACCTCTCTTTAATAACTAAGACCA
700652 CTTGATAGATTCATTT
65 CTTGATAGATTCATTT
700668 ATGTGTACTT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
88 35 0.48
89 4 0.05
90 34 0.47
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (89 bp):
TAGACGTAACTGCTTGAATCTAGAACTTTTAGGGAAAACAACCTCTCTTTAATAACTAAGACCAC
TTGATAGATTCATTTGTGTATTCG
Found at i:701553 original size:18 final size:18
Alignment explanation
Indices: 701530--701577 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
701520 GGTCACAAAC
701530 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
*
701548 TGACCCGACCCGACCTGT
1 TGACCCGACCCGACCCGT
701566 TGACCCGACCCG
1 TGACCCGACCCG
701578 TTGACCGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (18 bp):
TGACCCGACCCGACCCGT
Found at i:701554 original size:13 final size:13
Alignment explanation
Indices: 701554--701583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
701544 CCGTTGACCC
*
701554 GACCCGACCTGTT
1 GACCCGACCCGTT
701567 GACCCGACCCGTT
1 GACCCGACCCGTT
701580 GACC
1 GACC
701584 GTTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:701587 original size:7 final size:7
Alignment explanation
Indices: 701575--701604 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
701565 TTGACCCGAC
701575 CCGTTGA
1 CCGTTGA
701582 CCGTTGA
1 CCGTTGA
701589 CCGTTGA
1 CCGTTGA
701596 CCGTTGA
1 CCGTTGA
701603 CC
1 CC
701605 AGTGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.27, T:0.27
Consensus pattern (7 bp):
CCGTTGA
Found at i:702931 original size:18 final size:18
Alignment explanation
Indices: 702905--702939 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
702895 TCAAAAGGAC
*
702905 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
702923 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
702940 CCGGATGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:704076 original size:12 final size:11
Alignment explanation
Indices: 704041--704100 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
704031 TCCGAATTGA
704041 ATTCTGTTCTG
1 ATTCTGTTCTG
*
704052 ATAC-GTTACCTG
1 ATTCTGTT--CTG
704064 AATTCTGTTCTG
1 -ATTCTGTTCTG
*
704076 ATTCTGATCTGG
1 ATTCTGTTCT-G
*
704088 ATTCTGTTATG
1 ATTCTGTTCTG
704099 AT
1 AT
704101 ATCTTATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 15 0.38
13 3 0.08
14 3 0.08
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (11 bp):
ATTCTGTTCTG
Found at i:704092 original size:47 final size:48
Alignment explanation
Indices: 704024--704131 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 48
704014 AAATATTTTA
* * * *
704024 TCTGATTTCCGAAT-TGAATTCTGTTCTGATA-CGTTACCTGAATTCTGT
1 TCTGATTTCTG-ATCTGGATTCTGTTATGATATC-TTACATGAATTCTGT
*
704072 TCTGA-TTCTGATCTGGATTCTGTTATGATATCTTATATGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTATGATATCTTACATGAATTCTGT
*
704119 TTTGATTTCTGAT
1 TCTGATTTCTGAT
704132 ATCTCCGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
46 2 0.04
47 36 0.71
48 13 0.25
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTATGATATCTTACATGAATTCTGT
Found at i:704118 original size:24 final size:24
Alignment explanation
Indices: 704038--704133 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 24
704028 ATTTCCGAAT
*
704038 TGAATTCTGTTCTGATA-C-GTTA
1 TGAATTCTGTTCTGATATCTGATA
*
704060 CCTGAATTCTGTTCTGAT-TCTGATC
1 --TGAATTCTGTTCTGATATCTGATA
* * *
704085 TGGATTCTGTTATGATATCTTATA
1 TGAATTCTGTTCTGATATCTGATA
* *
704109 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATATCTGATA
704133 T
1 T
704134 CTCCGTTTAC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
23 14 0.24
24 43 0.73
25 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATA
Found at i:705037 original size:28 final size:28
Alignment explanation
Indices: 705006--705062 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
704996 TTTCCTTAAA
705006 AATAAAAGA-AATATTTAACATATTGGCT
1 AATAAAA-ATAATATTTAACATATTGGCT
705034 AATAAAAATAATATTTAACATATTGGCT
1 AATAAAAATAATATTTAACATATTGGCT
705062 A
1 A
705063 TATATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (28 bp):
AATAAAAATAATATTTAACATATTGGCT
Found at i:706162 original size:29 final size:29
Alignment explanation
Indices: 706120--706233 Score: 194
Period size: 29 Copynumber: 3.9 Consensus size: 29
706110 CAGTGACAGC
706120 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
**
706149 ATAGGTCGCCATGCACGCCCATCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
706178 ATAGGTCGCCATGCACGCCCGGCGTCC-T
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
706206 ATAAGGTCGCCATGCACGCCCGGCGTCC
1 AT-AGGTCGCCATGCACGCCCGGCGTCC
706234 AACATTCTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 3 0.04
29 77 0.96
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:706505 original size:29 final size:29
Alignment explanation
Indices: 706463--706553 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 29
706453 GTTGCCATGG
706463 CCGGCGACATGGTAGGTCGCCATGGAGTC
1 CCGGCGACATGGTAGGTCGCCATGGAGTC
*
706492 CCGGCGACATGGTAGAATGGTAGGTCACCATGGAGTC
1 CCGGCGAC--------ATGGTAGGTCGCCATGGAGTC
*
706529 CCGGCGACATGGTAGGTCGACATGG
1 CCGGCGACATGGTAGGTCGCCATGG
706554 TAGGTCTGCA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
29 23 0.45
37 28 0.55
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (29 bp):
CCGGCGACATGGTAGGTCGCCATGGAGTC
Found at i:706512 original size:37 final size:37
Alignment explanation
Indices: 706471--706543 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
706461 GGCCGGCGAC
*
706471 ATGGTAGGTCGCCATGGAGTCCCGGCGACATGGTAGA
1 ATGGTAGGTCACCATGGAGTCCCGGCGACATGGTAGA
706508 ATGGTAGGTCACCATGGAGTCCCGGCGACATGGTAG
1 ATGGTAGGTCACCATGGAGTCCCGGCGACATGGTAG
706544 GTCGACATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (37 bp):
ATGGTAGGTCACCATGGAGTCCCGGCGACATGGTAGA
Found at i:706551 original size:13 final size:13
Alignment explanation
Indices: 706533--706559 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
706523 GGAGTCCCGG
706533 CGACATGGTAGGT
1 CGACATGGTAGGT
706546 CGACATGGTAGGT
1 CGACATGGTAGGT
706559 C
1 C
706560 TGCATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (13 bp):
CGACATGGTAGGT
Found at i:707027 original size:21 final size:22
Alignment explanation
Indices: 707002--707046 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
706992 AATCTAGTTA
707002 ATTAG-TTTGTTAGTATAAATT
1 ATTAGTTTTGTTAGTATAAATT
* *
707023 ATTAGTTTTGTTAGTTTAAGTT
1 ATTAGTTTTGTTAGTATAAATT
707045 AT
1 AT
707047 ATTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.56
Consensus pattern (22 bp):
ATTAGTTTTGTTAGTATAAATT
Found at i:707590 original size:17 final size:17
Alignment explanation
Indices: 707533--707591 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
707523 ATAATTTTTA
707533 TTTAAAAAAATA-TTGT
1 TTTAAAAAAATATTTGT
*
707549 GTTTAAAAATATTTAGTGTTGT
1 -TTTAAAAA-A-ATA-T-TTGT
707571 TTTAAAAAAATATTTGT
1 TTTAAAAAAATATTTGT
707588 TTTA
1 TTTA
707592 TTTATATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 16 0.46
18 2 0.06
19 4 0.11
20 1 0.03
21 8 0.23
22 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (17 bp):
TTTAAAAAAATATTTGT
Found at i:709035 original size:15 final size:16
Alignment explanation
Indices: 709015--709048 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
709005 CAAAAAAATT
709015 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
709030 TAATATAATAAACTTA
1 TAATATAATAAACTTA
709046 TAA
1 TAA
709049 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:709135 original size:30 final size:30
Alignment explanation
Indices: 709101--709192 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
709091 TTTCTTTAAA
709101 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
709131 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * *
709161 AAACTAATAAAATATTTTTTAATTATAA-TT
1 CAACTAATAAACTATTCTTTAA-TATAACTT
709191 CA
1 CA
709193 CTACTTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
30 52 0.91
31 5 0.09
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:709153 original size:15 final size:16
Alignment explanation
Indices: 709105--709159 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
709095 TTTAAACAAC
709105 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
709120 TAATATAAC--TTCAAC
1 TAATATAACTATTC-TT
709135 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
709150 TAATATAACT
1 TAATATAACT
709160 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 15 0.48
16 10 0.32
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:709366 original size:17 final size:17
Alignment explanation
Indices: 709344--709379 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
709334 TAAATTTTTT
709344 ACCCTAACCCTAAACTA
1 ACCCTAACCCTAAACTA
709361 ACCCTAACCCTAAACTA
1 ACCCTAACCCTAAACTA
709378 AC
1 AC
709380 AAACTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (17 bp):
ACCCTAACCCTAAACTA
Found at i:709601 original size:27 final size:27
Alignment explanation
Indices: 709563--709614 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
709553 GTCGACTGCC
709563 ATGCACCAATAATTGAAGAATCACGCA
1 ATGCACCAATAATTGAAGAATCACGCA
709590 ATGCACCAATAATTGAAGAATCACG
1 ATGCACCAATAATTGAAGAATCACG
709615 AGCCGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
ATGCACCAATAATTGAAGAATCACGCA
Found at i:711400 original size:3 final size:3
Alignment explanation
Indices: 711392--711521 Score: 226
Period size: 3 Copynumber: 43.7 Consensus size: 3
711382 TTTTTATCCA
*
711392 TAT TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
711440 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
711488 TAT TAT TAA TAT TAT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
711522 AATATATTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 118 0.98
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:712317 original size:13 final size:13
Alignment explanation
Indices: 712299--712325 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
712289 CCGTTACGGT
712299 GGCCGGCGGCGGA
1 GGCCGGCGGCGGA
712312 GGCCGGCGGCGGA
1 GGCCGGCGGCGGA
712325 G
1 G
712326 TACGGTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.63, T:0.00
Consensus pattern (13 bp):
GGCCGGCGGCGGA
Found at i:712911 original size:19 final size:19
Alignment explanation
Indices: 712873--712908 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
712863 GCAATTAGTC
712873 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
712892 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
712909 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:712972 original size:19 final size:20
Alignment explanation
Indices: 712936--712975 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
712926 AGAATTATTC
**
712936 TTTTTTATTATTGTTAAATA
1 TTTTTTATTATTCATAAATA
712956 TTTTTTA-TATTCATAAATA
1 TTTTTTATTATTCATAAATA
712975 T
1 T
712976 ATATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTTATTATTCATAAATA
Found at i:724204 original size:1 final size:1
Alignment explanation
Indices: 724198--724296 Score: 54
Period size: 1 Copynumber: 99.0 Consensus size: 1
724188 ATGCTTGAAG
* * * * * * * * *
724198 AAAAAAAAAAGAAAGAAAAAAAAAAAAAAAAAAGAAAAAGAAGAGAAAGAAAAGAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * *
724263 GAAAGGAAAAGAAGAAAAAGAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
724297 GGGGTCAAGG
Statistics
Matches: 68, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (1 bp):
A
Found at i:724237 original size:25 final size:25
Alignment explanation
Indices: 724198--724296 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
724188 ATGCTTGAAG
724198 AAAAAAAAAAG--AAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAGAAAAAAAA
* *
724221 AAAAAAAAAAGAAAAAGAAGAGAAA
1 AAAAAAAAAAGAAAAAGAAAAAAAA
* * **
724246 GAAAAGAAAAGAAAAAAGAAAGGAAA
1 AAAAAAAAAAG-AAAAAGAAAAAAAA
* *
724272 AGAAGAAAAAGAAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAGAAAAAAAA
724297 GGGGTCAAGG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 11 0.18
25 31 0.51
26 19 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAAGAAAAAAAA
Found at i:724278 original size:45 final size:43
Alignment explanation
Indices: 724196--724297 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 43
724186 TTATGCTTGA
724196 AGAAAAAAAAAAGAAAGAAAAAAAAAAAAAAAAAAGAAAAAGA
1 AGAAAAAAAAAAGAAAGAAAAAAAAAAAAAAAAAAGAAAAAGA
* * ** *
724239 AGAGAAAGAAAAGAAAAGAAAAAAGAAAGGAAAAGAAGAAAAAGA
1 AGAAAAAAAAAAG-AAAGAAAAAA-AAAAAAAAAAAAGAAAAAGA
*
724284 AAAAGAAAAAAAAG
1 AGAA-AAAAAAAAG
724298 GGGTCAAGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 11 0.23
44 10 0.21
45 19 0.40
46 8 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (43 bp):
AGAAAAAAAAAAGAAAGAAAAAAAAAAAAAAAAAAGAAAAAGA
Found at i:725285 original size:51 final size:51
Alignment explanation
Indices: 725225--726233 Score: 1880
Period size: 51 Copynumber: 19.8 Consensus size: 51
725215 TATGTGCTCA
*
725225 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725276 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725327 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725378 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725429 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725480 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
725532 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725583 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725634 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725685 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
725736 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
725788 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725839 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725890 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAG-AC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725940 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAG-AC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725990 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
726041 ATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
726092 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
726143 ATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGTTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTAGAAGAAC
*
726194 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
726234 ATTGGACAGA
Statistics
Matches: 939, Mismatches: 14, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
50 122 0.13
51 696 0.74
52 121 0.13
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (51 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
Found at i:725679 original size:256 final size:255
Alignment explanation
Indices: 725225--726233 Score: 1880
Period size: 256 Copynumber: 4.0 Consensus size: 255
725215 TATGTGCTCA
* *
725225 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
725290 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
725355 TTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGT
131 TTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGT
725420 TAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
196 TAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725480 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
725545 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
725610 GTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGG
130 GTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGG
725675 TTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
195 TTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
725736 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
725801 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
*
725866 GTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
130 GTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGG
*
725931 TTAGAAG-ACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAG-AC
195 TTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
* *
725990 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTTTGG
1 ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
726055 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
* *
726120 TTATCTGATCTGGTTAGAAGAATATAGCATCTTCTGGAAGT-TTCTTTGAGTTATCTGATCTGGT
131 TTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGG-
* *
726184 TTAGAAGAACATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
195 TTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTG
726234 ATTGGACAGA
Statistics
Matches: 743, Mismatches: 8, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
252 22 0.03
253 130 0.17
254 88 0.12
255 93 0.13
256 410 0.55
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (255 bp):
ATAGCATCTTCTGGAAGGGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGT
TAGAAGAACATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
Found at i:727131 original size:116 final size:113
Alignment explanation
Indices: 726671--727343 Score: 1040
Period size: 113 Copynumber: 5.9 Consensus size: 113
726661 CAAAGATTCA
* * *
726671 AATTCATCATTTGATGGATCATCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
726736 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
726784 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
1 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGA
726849 AGAA-G--GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * *
726897 AATTCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
726962 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
727010 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
1 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGA
727075 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
727126 AATTCATCACTTGATGGATCAACATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
727190 A-G--GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC--CTTTTGCTTG
* * *
727237 AATTCATTCATTTGATGGATC-A-ATTGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGA
1 AATTCA-TCACTTGATGGATCAACATT-TCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGA
*
727300 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTT
63 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
727344 GTTTGATATC
Statistics
Matches: 520, Mismatches: 22, Indels: 35
0.90 0.04 0.06
Matches are distributed among these distances:
109 33 0.06
110 15 0.03
111 22 0.04
112 33 0.06
113 257 0.49
114 3 0.01
115 22 0.04
116 135 0.26
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:727633 original size:3 final size:3
Alignment explanation
Indices: 727625--727740 Score: 150
Period size: 3 Copynumber: 39.7 Consensus size: 3
727615 AATTTTATCA
*
727625 TAT TAT TA- TAT TAT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
727672 TAT TAT TAT TCT ATAT TAT TAT TAT CA- TAT TAA TAT TAT TAT TAA
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
727717 TAT TAT TAT TAT T-T T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
727741 ATATATTAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
2 7 0.07
3 90 0.91
4 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:728529 original size:13 final size:13
Alignment explanation
Indices: 728511--728537 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
728501 ACGTTACGGT
728511 GGCCGGCGGCGGA
1 GGCCGGCGGCGGA
728524 GGCCGGCGGCGGA
1 GGCCGGCGGCGGA
728537 G
1 G
728538 TACGGTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.63, T:0.00
Consensus pattern (13 bp):
GGCCGGCGGCGGA
Found at i:728782 original size:18 final size:19
Alignment explanation
Indices: 728745--728779 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
728735 CAATTTAGTC
728745 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
728764 ATTTA-TTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
728780 TAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:728843 original size:19 final size:20
Alignment explanation
Indices: 728807--728846 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
728797 TAGAATTATC
**
728807 TTTTATTATATTGTTAAATA
1 TTTTATTATATTCATAAATA
728827 TTTT-TTATATTCATAAATA
1 TTTTATTATATTCATAAATA
728846 T
1 T
728847 ATAATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTATTATATTCATAAATA
Found at i:738232 original size:16 final size:17
Alignment explanation
Indices: 738196--738236 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
738186 ACTATTTATA
738196 TGAATAGTGAATTCGTG
1 TGAATAGTGAATTCGTG
*
738213 TGAATAGTGAATT-TTG
1 TGAATAGTGAATTCGTG
738229 TGAATAGT
1 TGAATAGT
738237 AAAATTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (17 bp):
TGAATAGTGAATTCGTG
Found at i:738244 original size:16 final size:16
Alignment explanation
Indices: 738211--738244 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
738201 AGTGAATTCG
* *
738211 TGTGAATAGTGAATTT
1 TGTGAATAGTAAAATT
738227 TGTGAATAGTAAAATT
1 TGTGAATAGTAAAATT
738243 TG
1 TG
738245 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (16 bp):
TGTGAATAGTAAAATT
Found at i:740699 original size:18 final size:18
Alignment explanation
Indices: 740676--740711 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
740666 CAATGCAGGT
*
740676 GGAGGATTCAGTCAAGTG
1 GGAGGATTCAATCAAGTG
740694 GGAGGATTCAATCAAGTG
1 GGAGGATTCAATCAAGTG
740712 AGAGTCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.36, T:0.22
Consensus pattern (18 bp):
GGAGGATTCAATCAAGTG
Found at i:746054 original size:57 final size:58
Alignment explanation
Indices: 745974--746085 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
745964 ATGATCCCTG
* * **
745974 ACTATAAGATATTTCTTTGTTGAGT-CTCGGTTATTAAATA-TTACAAAATGGTCCTAA
1 ACTATAAGATATTACTTTATTGAGTCCTCGACTATTAAA-AGTTACAAAATGGTCCTAA
* *
746031 ACTATAAGGTGTTACTTTATTGAGTCCCTCGACTATTAAAAGTTACAAAATGGTC
1 ACTATAAGATATTACTTTATTGAGT-CCTCGACTATTAAAAGTTACAAAATGGTC
746086 ACTTGATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 21 0.46
58 1 0.02
59 24 0.52
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (58 bp):
ACTATAAGATATTACTTTATTGAGTCCTCGACTATTAAAAGTTACAAAATGGTCCTAA
Found at i:748754 original size:15 final size:15
Alignment explanation
Indices: 748734--748766 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
748724 TTTCAACGGT
748734 GATTAACGAGTAGGA
1 GATTAACGAGTAGGA
748749 GATTAACGAGTAGGA
1 GATTAACGAGTAGGA
748764 GAT
1 GAT
748767 GCGAGTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (15 bp):
GATTAACGAGTAGGA
Found at i:751801 original size:26 final size:26
Alignment explanation
Indices: 751772--751829 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
751762 AACATAAAAA
*
751772 AAGAAAGGGAGAAGAGATTGCAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
*
751798 AAGAAAGGGAGAAGATAGTGCAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
751824 -AGAAAG
1 AAGAAAG
751830 AAAGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.45, C:0.10, G:0.38, T:0.07
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGAGTGCAGCCG
Found at i:752249 original size:36 final size:36
Alignment explanation
Indices: 752172--752249 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 36
752162 TTTGTTGAAT
*
752172 TTATATTATATAAAAAATTAGTTAGTAATATTTGTAG
1 TTATATTATATAAAAAATTAATTA-TAATATTTGTAG
752209 -TATATTATAATGAAAAAA-TAATT-TAATAGTTT-TAG
1 TTATATTAT-AT-AAAAAATTAATTATAATA-TTTGTAG
752244 TTATAT
1 TTATAT
752250 AAAAGAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
35 8 0.22
36 16 0.44
37 6 0.17
38 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (36 bp):
TTATATTATATAAAAAATTAATTATAATATTTGTAG
Found at i:754709 original size:44 final size:50
Alignment explanation
Indices: 754651--754767 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
754641 ATTTAAAGAC
* *
754651 ACTAACAAATTAATTAAAT-ATTTTTT-T-T-ATAT-TTA-ATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATATAACTTAA
* *
754695 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATATAACTTAA
754745 ACTAACAAACTAATATAATATAA
1 ACTAACAAACTAAT-TAA-ATAA
754768 CTTAAACTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 16 0.27
45 7 0.12
46 1 0.02
47 1 0.02
48 4 0.07
49 2 0.03
50 22 0.37
51 3 0.05
52 3 0.05
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (50 bp):
ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATATAACTTAA
Found at i:754765 original size:28 final size:30
Alignment explanation
Indices: 754725--754787 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
754715 ATTTTTTATA
754725 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
754755 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
754783 TAATA
1 TAATA
754788 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:754794 original size:28 final size:28
Alignment explanation
Indices: 754729--754794 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
754719 TTTATATAAT
754729 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
754757 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
754785 ATAATTTATA
1 ATAATATATA
754795 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:754797 original size:21 final size:21
Alignment explanation
Indices: 754764--754812 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
754754 CTAATATAAT
754764 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
754785 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
754806 ATTAACT
1 A-TAACT
754813 AAATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:755433 original size:19 final size:19
Alignment explanation
Indices: 755377--755435 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
755367 GTGCATGGCC
* *
755377 CATGCACAGCTCCCACATA
1 CATGCATAGCTCCCACATG
*
755396 CATGCATAGCT----C-GG
1 CATGCATAGCTCCCACATG
755410 CATGCATAGCTCCCACATG
1 CATGCATAGCTCCCACATG
755429 CATGCAT
1 CATGCAT
755436 CCACTCCTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
18 1 0.03
19 18 0.58
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (19 bp):
CATGCATAGCTCCCACATG
Found at i:762707 original size:42 final size:42
Alignment explanation
Indices: 762660--762755 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
762650 GATGCACCTA
* * * *
762660 TCATCATTCAAGAAGCGCCTTCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
* *
762702 TCATCA-TCAAAGAAGCCCCTCCCACCGTTCAAGAGGCCTCTG
1 TCATCATTC-AAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
762744 TCATCATTCAAG
1 TCATCATTCAAG
762756 TGGTCCCGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 42 0.91
43 2 0.04
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:762753 original size:21 final size:21
Alignment explanation
Indices: 762660--762755 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
762650 GATGCACCTA
*
762660 TCATCATTCAAGAAGCGCCT-
1 TCATCATTCAAGAAGCCCCTC
* *
762680 TCTATCGTTCAAGAGGCCCCTC
1 TC-ATCATTCAAGAAGCCCCTC
762702 TCATCA-TCAAAGAAGCCCCTC
1 TCATCATTC-AAGAAGCCCCTC
* * * * * *
762723 CCACCGTTCAAGAGGCCTCTG
1 TCATCATTCAAGAAGCCCCTC
762744 TCATCATTCAAG
1 TCATCATTCAAG
762756 TGGTCCCGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.07
21 50 0.86
22 4 0.07
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (21 bp):
TCATCATTCAAGAAGCCCCTC
Found at i:764195 original size:60 final size:65
Alignment explanation
Indices: 764128--764267 Score: 191
Period size: 66 Copynumber: 2.2 Consensus size: 65
764118 TTTTATATTG
764128 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAA-AA-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
** * * *
764188 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGT
764253 A
65 A
764254 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
764268 GTTTCTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 17 0.25
61 12 0.17
62 2 0.03
63 1 0.01
64 6 0.09
66 31 0.45
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.51
Consensus pattern (65 bp):
AAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:764197 original size:14 final size:14
Alignment explanation
Indices: 764178--764217 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
764168 TTTTGATTAA
764178 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
764192 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
764206 TTGATTTGTAAA
1 TTGATTTGTAAA
764218 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:764636 original size:39 final size:39
Alignment explanation
Indices: 764582--764668 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
764572 TCAAGTTGTA
*
764582 GATTTTGATTTCCTTTTGCATGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCATGGCACCATATAAGATTTG
* *
764621 GATTTTGATTTCCTTTTGCTTGGCACCATATAAGCTTTG
1 GATTTTGATTTCCTTTTGCATGGCACCATATAAGATTTG
764660 GATTTTGAT
1 GATTTTGAT
764669 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCATGGCACCATATAAGATTTG
Found at i:765004 original size:18 final size:18
Alignment explanation
Indices: 764981--765017 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
764971 CGAAAATTAT
764981 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
764999 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
765017 A
1 A
765018 CTTCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:765036 original size:24 final size:23
Alignment explanation
Indices: 764974--765036 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
764964 GTGGAGCCGA
*
764974 AAATTATATTGAAATTCAAACTC
1 AAATTAAATTGAAATTCAAACTC
*
764997 AAATTGAAATTTAAATTCAAACTTC
1 AAATT-AAATTGAAATTCAAAC-TC
*
765022 -AATTACATATGAAAT
1 AAATTAAAT-TGAAAT
765037 GAATTTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.24
24 23 0.70
25 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (23 bp):
AAATTAAATTGAAATTCAAACTC
Found at i:765539 original size:20 final size:20
Alignment explanation
Indices: 765514--765558 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
765504 TCGCAACGCG
765514 ATTCGCAACGCAAAAGTCAA
1 ATTCGCAACGCAAAAGTCAA
*
765534 ATTCGCAACGCGAAAGTCAA
1 ATTCGCAACGCAAAAGTCAA
765554 ATTCG
1 ATTCG
765559 GTTTGCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
ATTCGCAACGCAAAAGTCAA
Found at i:765616 original size:20 final size:20
Alignment explanation
Indices: 765569--765607 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
765559 GTTTGCGATT
765569 TCGCGTTGCAAATTTGACTA
1 TCGCGTTGCAAATTTGACTA
*
765589 TCGCGTTGCGAATTTGACT
1 TCGCGTTGCAAATTTGACT
765608 TTTGTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCAAATTTGACTA
Found at i:768010 original size:3 final size:3
Alignment explanation
Indices: 768002--768032 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
767992 TCTTCGGGGA
*
768002 CTT CTT CTT CTT CTT CTT CTT TTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
768033 ATGGTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:768241 original size:24 final size:24
Alignment explanation
Indices: 768207--768260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
768197 TCATCACATC
768207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
768231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
768255 ATCAAA
1 ATCAAA
768261 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:768274 original size:24 final size:24
Alignment explanation
Indices: 768207--768274 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
768197 TCATCACATC
* * *
768207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
768231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
768255 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
768275 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:768403 original size:12 final size:12
Alignment explanation
Indices: 768386--768419 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
768376 GGTTGTGGGT
768386 TTTGATATTGTG
1 TTTGATATTGTG
768398 TTTGATATTGTG
1 TTTGATATTGTG
*
768410 TTTGGTATTG
1 TTTGATATTG
768420 GAAATGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:769199 original size:19 final size:20
Alignment explanation
Indices: 769157--769226 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 20
769147 ACTAAAACCT
* *
769157 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGA
*
769176 TTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
** *
769195 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGA
769215 GTTGCGAATTTG
1 GTTGCGAATTTG
769227 GAAAATCTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 24 0.57
20 18 0.43
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:769581 original size:22 final size:23
Alignment explanation
Indices: 769554--769601 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
769544 GTTTTTGTTA
769554 AAATAATTAACTATATTAAT-AT
1 AAATAATTAACTATATTAATAAT
* * *
769576 AAATAATTTATTTTATTAATAAT
1 AAATAATTAACTATATTAATAAT
769599 AAA
1 AAA
769602 AGTTAGATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAATTAACTATATTAATAAT
Found at i:770724 original size:30 final size:30
Alignment explanation
Indices: 770690--770774 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
770680 AGTTCGAATA
770690 AAGGTCGTCGGGTGGTCTGGGCGACCAATG
1 AAGGTCGTCGGGTGGTCTGGGCGACCAATG
*
770720 AAGGTCGCCGGGTGGTCTGGGCGACCAATG
1 AAGGTCGTCGGGTGGTCTGGGCGACCAATG
770750 AAGGTCGTCGGGTGGTCTGGGCGAC
1 AAGGTCGTCGGGTGGTCTGGGCGAC
770775 ATGCAAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.21, G:0.45, T:0.19
Consensus pattern (30 bp):
AAGGTCGTCGGGTGGTCTGGGCGACCAATG
Found at i:770988 original size:50 final size:50
Alignment explanation
Indices: 770925--771026 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
770915 TTTATCCTAT
770925 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
770975 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
771025 TT
1 TT
771027 CAATAATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (50 bp):
TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
Found at i:774227 original size:6 final size:6
Alignment explanation
Indices: 774218--774243 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
774208 CTCGAGCTCA
774218 GGCTGT GGCTGT GGCTGT GGCTGT GG
1 GGCTGT GGCTGT GGCTGT GGCTGT GG
774244 TTCAGGCTGT
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:0.00, C:0.15, G:0.54, T:0.31
Consensus pattern (6 bp):
GGCTGT
Found at i:783703 original size:28 final size:28
Alignment explanation
Indices: 783665--783764 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
783655 TTGCATTTTG
783665 ATCACCCAACTTTTGAAACTTGCAATCA
1 ATCACCCAACTTTTGAAACTTGCAATCA
* ** * * **
783693 ATCACCGAACTTTTAGGGCACTTACATTTTG
1 ATCACCCAACTTTT--GAAACTTGCA-ATCA
*
783724 GTCACCCAACTTTTGAAACTTGCAATCA
1 ATCACCCAACTTTTGAAACTTGCAATCA
* *
783752 ATCATCGAACTTT
1 ATCACCCAACTTT
783765 GAGTTCGTTT
Statistics
Matches: 51, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
28 24 0.47
29 7 0.14
30 7 0.14
31 13 0.25
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (28 bp):
ATCACCCAACTTTTGAAACTTGCAATCA
Found at i:783731 original size:59 final size:59
Alignment explanation
Indices: 783639--783764 Score: 225
Period size: 59 Copynumber: 2.1 Consensus size: 59
783629 AAATAGTCAT
*
783639 CGAACTTTTAGGGCACTTGCATTTTGATCACCCAACTTTTGAAACTTGCAATCAATCAC
1 CGAACTTTTAGGGCACTTACATTTTGATCACCCAACTTTTGAAACTTGCAATCAATCAC
* *
783698 CGAACTTTTAGGGCACTTACATTTTGGTCACCCAACTTTTGAAACTTGCAATCAATCAT
1 CGAACTTTTAGGGCACTTACATTTTGATCACCCAACTTTTGAAACTTGCAATCAATCAC
783757 CGAACTTT
1 CGAACTTT
783765 GAGTTCGTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (59 bp):
CGAACTTTTAGGGCACTTACATTTTGATCACCCAACTTTTGAAACTTGCAATCAATCAC
Found at i:783735 original size:31 final size:31
Alignment explanation
Indices: 783641--783737 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
783631 ATAGTCATCG
783641 AACTTTTAGGGCACTTGCATTTTGATCACCC
1 AACTTTTAGGGCACTTGCATTTTGATCACCC
** * ** *
783672 AACTTTT--GAAACTTGCA-ATCAATCACCG
1 AACTTTTAGGGCACTTGCATTTTGATCACCC
* *
783700 AACTTTTAGGGCACTTACATTTTGGTCACCC
1 AACTTTTAGGGCACTTGCATTTTGATCACCC
783731 AACTTTT
1 AACTTTT
783738 GAAACTTGCA
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
28 14 0.29
29 8 0.16
30 7 0.14
31 20 0.41
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (31 bp):
AACTTTTAGGGCACTTGCATTTTGATCACCC
Found at i:783865 original size:3 final size:3
Alignment explanation
Indices: 783843--783887 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
783833 TTGTCAACTC
* *
783843 TCT TCT CCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
783888 GATGAAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:783962 original size:17 final size:17
Alignment explanation
Indices: 783938--783978 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
783928 AACCCTATTA
*
783938 AAAATCATAATCTCCAC
1 AAAATCATAACCTCCAC
*
783955 ATAATCATAACCTCCAC
1 AAAATCATAACCTCCAC
783972 AAAATCA
1 AAAATCA
783979 AACTAATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATCATAACCTCCAC
Found at i:784130 original size:81 final size:81
Alignment explanation
Indices: 783995--784145 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
783985 TGCTCCCTAA
* *
783995 TTTTAATACTGGAATTTGCTGAATTTTGCTAATTGGGGTTAGGATTTTGTGTTATGATTTAGTTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGGGATTAGGATTTTGTGTTATGATTTAGTTT
*
784060 TATAACTATCATTTAG
66 CATAACTATCATTTAG
* *
784076 TTTTAATATTGGAATCTGCTGAATTTTGGTAATTGGGATTAGGATTTTGTGTTATGATTTAGTTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGGGATTAGGATTTTGTGTTATGATTTAGTTT
784141 CATAA
66 CATAA
784146 GACTCTAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.49
Consensus pattern (81 bp):
TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGGGATTAGGATTTTGTGTTATGATTTAGTTT
CATAACTATCATTTAG
Found at i:790164 original size:16 final size:16
Alignment explanation
Indices: 790116--790167 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
790106 CGGGTTTGAT
*
790116 TTTGTGGACCTTATGA
1 TTTGTGGAGCTTATGA
*
790132 TTTGAAT-GAGATTATGA
1 TTTG--TGGAGCTTATGA
790149 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
790165 TTT
1 TTT
790168 TTTTTGAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.03
16 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (16 bp):
TTTGTGGAGCTTATGA
Found at i:790204 original size:3 final size:3
Alignment explanation
Indices: 790189--790229 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
790179 AGAGTTTTCT
* * *
790189 GAA GAA CAA GAA GAA GAA GAA GAA GAA AAA GAA GGA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
790230 GAGTTGATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:790842 original size:19 final size:20
Alignment explanation
Indices: 790818--790859 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
790808 TTATGTTAAA
* *
790818 TATTTTA-AAAAATAAATTT
1 TATTTTAGAAAAAAAAATCT
790837 TATTTTAGAAAAAAAAATCT
1 TATTTTAGAAAAAAAAATCT
790857 TAT
1 TAT
790860 ACTATAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTTTAGAAAAAAAAATCT
Found at i:791547 original size:20 final size:21
Alignment explanation
Indices: 791513--791552 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
791503 TCAGAAATTA
*
791513 GGTAACAAAATTAATATTTTC
1 GGTAACAAAAATAATATTTTC
791534 GGTAA-AAAAATAATATTTT
1 GGTAACAAAAATAATATTTT
791553 AATTAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
GGTAACAAAAATAATATTTTC
Found at i:794551 original size:15 final size:15
Alignment explanation
Indices: 794528--794560 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
794518 CGTAGGACTC
794528 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
794543 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
794558 CTA
1 CTA
794561 TTATACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:794687 original size:29 final size:29
Alignment explanation
Indices: 794645--794718 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
794635 TTTCATATGT
*
794645 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTATCTTGTGA
794673 TCATGTAGCTCATGTCATTTATCTTGTGA
1 TCATGTAGCTCATGTCATTTATCTTGTGA
794702 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
794719 CTTCATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTATCTTGTGA
Found at i:795255 original size:64 final size:64
Alignment explanation
Indices: 795058--795282 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
795048 TAATGAAGGT
* * ** ** * *** *
795058 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
* * * * *
795122 ATACATCGATGCACTCCTTATGCATCAATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
** *
795186 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
** *
795249 AGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
795283 ATTCAAACAA
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
63 4 0.03
64 125 0.93
65 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:800086 original size:29 final size:29
Alignment explanation
Indices: 800040--800113 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
800030 TTTCATATGT
*
800040 TCATGTA-CTCGTGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
800068 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
800097 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
800114 CTTCATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:800568 original size:64 final size:64
Alignment explanation
Indices: 800460--800684 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 64
800450 TAATGAAGGT
* * ** **** **
800460 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTATTATTATTAATGGG
* *
800524 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTACATTCGATGTTTTATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTATTATTATTAATGGG
** * * **
800588 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGT-ATTATTATTAATGGG
** *
800651 AGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
800685 ATTCAAACAA
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
63 2 0.01
64 129 0.94
65 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTATTATTATTAATGGG
Found at i:802309 original size:125 final size:125
Alignment explanation
Indices: 802087--802336 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
802077 TGGCTAGTAA
802087 TGAAACATGGAGTAATCGTCCAATCACACCAACCTCTGTCATTACCGCACGTGCCGACAGTGTGC
1 TGAAACATGGAGTAATCGTCCAATCACACCAACCTCTGTCATTACCGCACGTGCCGACAGTGTGC
802152 GTGGGGATCCTATGTCGGTCCAGGAAGCTTCTAGAACCGGTCCAGTTAGCTGTTTGACTC
66 GTGGGGATCCTATGTCGGTCCAGGAAGCTTCTAGAACCGGTCCAGTTAGCTGTTTGACTC
802212 TGAAACATGGAGTAATCGTCCAATCACACCAACCTCTGTCATTACCGCACGTGCCGACAGTGTGC
1 TGAAACATGGAGTAATCGTCCAATCACACCAACCTCTGTCATTACCGCACGTGCCGACAGTGTGC
802277 GTGGGGATCCTATGTCGGTCCAGGAAGCTTCTAGAACCGGTCCAGTTAGCTGTTTGACTC
66 GTGGGGATCCTATGTCGGTCCAGGAAGCTTCTAGAACCGGTCCAGTTAGCTGTTTGACTC
802337 GACCGAGTTA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (125 bp):
TGAAACATGGAGTAATCGTCCAATCACACCAACCTCTGTCATTACCGCACGTGCCGACAGTGTGC
GTGGGGATCCTATGTCGGTCCAGGAAGCTTCTAGAACCGGTCCAGTTAGCTGTTTGACTC
Found at i:802356 original size:14 final size:14
Alignment explanation
Indices: 802333--802366 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
802323 TAGCTGTTTG
* *
802333 ACTCGACCGAGTTA
1 ACTCGTCCGAGTCA
802347 ACTCGTCCGAGTCA
1 ACTCGTCCGAGTCA
802361 ACTCGT
1 ACTCGT
802367 TGAATTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (14 bp):
ACTCGTCCGAGTCA
Found at i:802399 original size:17 final size:17
Alignment explanation
Indices: 802377--802409 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
802367 TGAATTTGAC
802377 TGAAAAGTTAAATTTTT
1 TGAAAAGTTAAATTTTT
*
802394 TGAAAAGTTATATTTT
1 TGAAAAGTTAAATTTT
802410 ATGTTTTACG
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TGAAAAGTTAAATTTTT
Found at i:804130 original size:74 final size:74
Alignment explanation
Indices: 804009--804158 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
803999 GAAGATGTTC
804009 AGTTCGAGTTGACCTGATATCCTAATAAATTGACATGAATATTGAATATCATGAATCAACGTTTC
1 AGTTCGAGTTGACCTGATATCCTAATAAATTGACATGAATATTGAATATCATGAATCAACGTTTC
804074 ACCCTTATT
66 ACCCTTATT
804083 AGTTCGAGTTGACCTGATATCCTAATAAATTGACATGAATATTGAATATCATGAATCAACGTTTC
1 AGTTCGAGTTGACCTGATATCCTAATAAATTGACATGAATATTGAATATCATGAATCAACGTTTC
804148 ACCCTTATT
66 ACCCTTATT
804157 AG
1 AG
804159 ATTAAGTTGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (74 bp):
AGTTCGAGTTGACCTGATATCCTAATAAATTGACATGAATATTGAATATCATGAATCAACGTTTC
ACCCTTATT
Found at i:804638 original size:24 final size:24
Alignment explanation
Indices: 804606--804653 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
804596 AAATATGATT
804606 GTTCCTGATTTATGGAATCATGGA
1 GTTCCTGATTTATGGAATCATGGA
*
804630 GTTCTTGATTTATGGAATCATGGA
1 GTTCCTGATTTATGGAATCATGGA
804654 ATTTACTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (24 bp):
GTTCCTGATTTATGGAATCATGGA
Found at i:806874 original size:30 final size:30
Alignment explanation
Indices: 806817--806885 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
806807 ATAATTCTTG
* * *
806817 AAAATTTACATTTTTAGTCCCTAAACTTTT
1 AAAATTTACATCTTTAATCCATAAACTTTT
806847 ATAAATTTACA-CTTTAATCCATAAACTTTT
1 A-AAATTTACATCTTTAATCCATAAACTTTT
806877 AAAATTTAC
1 AAAATTTAC
806886 TTTTCAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 8 0.23
30 18 0.51
31 9 0.26
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.43
Consensus pattern (30 bp):
AAAATTTACATCTTTAATCCATAAACTTTT
Found at i:807750 original size:17 final size:17
Alignment explanation
Indices: 807730--807765 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
807720 TTAAATTACG
*
807730 AAAAATCCTAAATCCCT
1 AAAAATACTAAATCCCT
807747 AAAAATACTAAATCCCT
1 AAAAATACTAAATCCCT
807764 AA
1 AA
807766 TCCTAACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATACTAAATCCCT
Found at i:811470 original size:13 final size:13
Alignment explanation
Indices: 811448--811484 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
811438 TAATTTGTTG
*
811448 TTGTTGTTGTTTT
1 TTGTTTTTGTTTT
811461 TTGTTTTTGTTTT
1 TTGTTTTTGTTTT
811474 TT-TTTTT-TTTT
1 TTGTTTTTGTTTT
811485 GCCTATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 14 0.61
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTGTTTTTGTTTT
Found at i:811470 original size:16 final size:16
Alignment explanation
Indices: 811445--811485 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
811435 GAGTAATTTG
*
811445 TTGTTGTTGTTGTTTT
1 TTGTTTTTGTTGTTTT
*
811461 TTGTTTTTGTTTTTTT
1 TTGTTTTTGTTGTTTT
*
811477 TTTTTTTTG
1 TTGTTTTTG
811486 CCTATCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (16 bp):
TTGTTTTTGTTGTTTT
Found at i:812924 original size:36 final size:36
Alignment explanation
Indices: 812870--813042 Score: 142
Period size: 36 Copynumber: 4.9 Consensus size: 36
812860 TAAATATATA
* *
812870 TATAAAATTATATATAAACTATATTTATATTATAAAC
1 TATATAATTAT-TATAAACTATATATATATTATAAAC
*
812907 TATATAATTATTATAAACTATATATATA-TATATA-
1 TATATAATTATTATAAACTATATATATATTATAAAC
* * ** * **
812941 TATTATATTTA-TGTGCACTATATATATA-AACT-ATG
1 TA-TATAATTATTATAAACTATATATATATTA-TAAAC
* *
812976 TATATAA-AATTATAAACTATATTTATATTATAAAC
1 TATATAATTATTATAAACTATATATATATTATAAAC
* * *
813011 TGTATTATTATTATAAACTATATATAAATTAT
1 TATATAATTATTATAAACTATATATATATTAT
813043 GTTTATGTGA
Statistics
Matches: 105, Mismatches: 24, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
33 1 0.01
34 35 0.33
35 22 0.21
36 37 0.35
37 10 0.10
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (36 bp):
TATATAATTATTATAAACTATATATATATTATAAAC
Found at i:812968 original size:2 final size:2
Alignment explanation
Indices: 812857--812948 Score: 54
Period size: 2 Copynumber: 48.0 Consensus size: 2
812847 AATTGAAAAA
* * * *
812857 AT AT AA AT AT AT AT AT A- AA AT -T AT AT AT AA ACT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
812898 AT -T AT AA ACT AT AT A- AT -T AT -T AT AA ACT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
812938 AT AT AT -T AT AT
1 AT AT AT AT AT AT
812949 TTATGTGCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
1 7 0.10
2 59 0.86
3 3 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:812979 original size:13 final size:13
Alignment explanation
Indices: 812857--813088 Score: 73
Period size: 13 Copynumber: 18.1 Consensus size: 13
812847 AATTGAAAAA
812857 ATATAAA-TATAT
1 ATATAAACTATAT
*
812869 ATATAAAAT-TAT
1 ATATAAACTATAT
812881 ATATAAACTATAT
1 ATATAAACTATAT
* * *
812894 -T-TATATTATAA
1 ATATAAACTATAT
812905 ACTATATAA-T-TAT
1 A-TATA-AACTATAT
812918 -TATAAACTATAT
1 ATATAAACTATAT
812930 ATAT--A-TATAT
1 ATATAAACTATAT
* *
812940 ATAT-TA-TATTT
1 ATATAAACTATAT
* **
812951 ATGTGCACTATAT
1 ATATAAACTATAT
*
812964 ATATAAACTATGT
1 ATATAAACTATAT
*
812977 ATATAAAAT-TAT
1 ATATAAACTATAT
* * *
812989 AAACTATA-TTTAT
1 ATA-TAAACTATAT
813002 ATTATAAACTGTATTATT
1 A-TATAAAC--TA-TA-T
813020 ATTATAAACTATAT
1 A-TATAAACTATAT
* *
813034 ATA-AATTA-TGTTT
1 ATATAA--ACTATAT
* *
813047 ATGTGAACTATAT
1 ATATAAACTATAT
813060 ATATAAACTATAT
1 ATATAAACTATAT
813073 ATGTATAAACTATAT
1 A--TATAAACTATAT
813088 A
1 A
813089 AACTATATAA
Statistics
Matches: 165, Mismatches: 29, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
10 11 0.07
11 21 0.13
12 31 0.19
13 63 0.38
14 8 0.05
15 16 0.10
16 3 0.02
17 2 0.01
18 10 0.06
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:813041 original size:18 final size:18
Alignment explanation
Indices: 812878--813042 Score: 125
Period size: 18 Copynumber: 9.4 Consensus size: 18
812868 TATATAAAAT
*
812878 TATA-TATAAACTATATT
1 TATATTATAAACTATATA
812895 TATATTATAAACTATATA
1 TATATTATAAACTATATA
812913 -ATTATTATAAACTATATA
1 TA-TATTATAAACTATATA
*
812931 TATA-TATATA-TAT-TA
1 TATATTATAAACTATATA
*** *
812946 TAT-TTATGTGC-A-CTA
1 TATATTATAAACTATATA
812961 TATA-TATAAACTATGTATA
1 TATATTATAAACTA--TATA
* *
812980 TAAAATTATAAACTATATT
1 T-ATATTATAAACTATATA
*
812999 TATATTATAAACTGTAT-
1 TATATTATAAACTATATA
813016 TATTATTATAAACTATATA
1 TA-TATTATAAACTATATA
*
813035 TAAATTAT
1 TATATTAT
813043 GTTTATGTGA
Statistics
Matches: 119, Mismatches: 14, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
15 19 0.16
16 4 0.03
17 12 0.10
18 63 0.53
19 10 0.08
20 2 0.02
21 9 0.08
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATTATAAACTATATA
Found at i:813041 original size:24 final size:25
Alignment explanation
Indices: 813014--813088 Score: 64
Period size: 28 Copynumber: 2.9 Consensus size: 25
813004 TATAAACTGT
813014 ATTAT-TATTATAAACTATATATAA
1 ATTATATATTATAAACTATATATAA
* *
813038 ATTATGT-TTATGTGAACTATATATATAA
1 ATTATATATTA--TAAAC--TATATATAA
*
813066 ACTATATATGTATAAACTATATA
1 ATTATATAT-TATAAACTATATA
813089 AACTATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
24 8 0.20
25 1 0.03
26 10 0.25
28 18 0.45
29 1 0.03
30 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (25 bp):
ATTATATATTATAAACTATATATAA
Done.