Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 5 of 32
Found at i:805672 original size:18 final size:18
Alignment explanation
Indices: 805640--805679 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
805630 AATATATAAA
** *
805640 TAATAAAATTTTATTTTT
1 TAATAAAATAATATTATT
805658 TAATAAAATAATATTATT
1 TAATAAAATAATATTATT
805676 TAAT
1 TAAT
805680 TTATTAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAAAATAATATTATT
Found at i:805676 original size:26 final size:26
Alignment explanation
Indices: 805637--805686 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
805627 TATAATATAT
* *
805637 AAATAATAAAATTTTATTTTTTAATA
1 AAATAATAAAATTTAATTTATTAATA
**
805663 AAATAATATTATTTAATTTATTAA
1 AAATAATAAAATTTAATTTATTAA
805687 CAGTCAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATAATAAAATTTAATTTATTAATA
Found at i:806193 original size:16 final size:16
Alignment explanation
Indices: 806148--806211 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
806138 TAATTATATG
806148 ATAATTTATATATTTATA
1 ATAATTT-TATATTTA-A
* **
806166 TTAAAATTATATTTAA
1 ATAATTTTATATTTAA
*
806182 ATAATTTTATATTTAT
1 ATAATTTTATATTTAA
806198 ATAAATTTTGATAT
1 AT-AATTTT-ATAT
806212 GTTATAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 15 0.41
17 14 0.38
18 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATAATTTTATATTTAA
Found at i:806206 original size:17 final size:17
Alignment explanation
Indices: 806150--806224 Score: 73
Period size: 17 Copynumber: 4.3 Consensus size: 17
806140 ATTATATGAT
806150 AATTTATATATTTATATTA
1 AATTT-TATATTTATA-TA
* *
806169 AA-ATTATATTTAAAT-
1 AATTTTATATTTATATA
806184 AATTTTATATTTATATA
1 AATTTTATATTTATATA
*
806201 AATTTTGATATGTTATAAA
1 AATTTT-ATAT-TTATATA
806220 AATTT
1 AATTT
806225 AAAAATATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 2 0.04
16 12 0.26
17 15 0.32
18 5 0.11
19 13 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTTATATTTATATA
Found at i:806347 original size:17 final size:17
Alignment explanation
Indices: 806325--806381 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
806315 ATATTATATT
806325 TATATTTAAAATTTTAA
1 TATATTTAAAATTTTAA
*
806342 TATATTTAAACATTTATAT
1 TATATTTAAA-ATTT-TAA
*
806361 TATATTT-ATATTATTAA
1 TATATTTAAAATT-TTAA
806378 TATA
1 TATA
806382 AAAAATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 19 0.56
18 6 0.18
19 9 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTTAAAATTTTAA
Found at i:806366 original size:19 final size:18
Alignment explanation
Indices: 806318--806368 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
806308 TATGATTATA
806318 TTATATTTATATTTAAAAT
1 TTATA-TTATATTTAAAAT
*
806337 TT-TAATATATTTAAACAT
1 TTATATTATATTTAAA-AT
806355 TTATATTATATTTA
1 TTATATTATATTTA
806369 TATTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 10 0.36
18 6 0.21
19 12 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATTATATTTAAAAT
Found at i:806518 original size:14 final size:14
Alignment explanation
Indices: 806501--806560 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
806491 TATAAATATT
806501 ATAAAATAATTAAA
1 ATAAAATAATTAAA
806515 ATAAAAT-ATTACACA
1 ATAAAATAATTA-A-A
806530 A-AAAATAATTAAA
1 ATAAAATAATTAAA
*
806543 ATAAAATATATAAAA
1 ATAAAATA-ATTAAA
806558 ATA
1 ATA
806561 TTAAATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 6 0.15
14 20 0.50
15 14 0.35
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:806522 original size:24 final size:24
Alignment explanation
Indices: 806494--806565 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 24
806484 AATCTGATAT
806494 AAATATTATAAAATAATTAAAATA
1 AAATATTATAAAATAATTAAAATA
*
806518 AAATATTACACAAAAAATAATTAAAATA
1 AAATATT----ATAAAATAATTAAAATA
806546 AAATA-TATAAAA-ATATTAAA
1 AAATATTATAAAATA-ATTAAA
806566 TTTTATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 1 0.02
23 11 0.27
24 7 0.17
27 1 0.02
28 21 0.51
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATATTATAAAATAATTAAAATA
Found at i:807446 original size:26 final size:25
Alignment explanation
Indices: 807407--807483 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
807397 TTTTATTTTT
* * *
807407 AATTAATATAAAATATTTTAATTTAA
1 AATTAAAATTAAATATTATAA-TTAA
* * *
807433 ACTTAAATTTAAATATAAATAATTAA
1 AATTAAAATTAAATAT-TATAATTAA
*
807459 AATTAAAATTAAATATTAAAATTAA
1 AATTAAAATTAAATATTATAATTAA
807484 TAATATCTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
25 7 0.17
26 30 0.75
27 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTAAAATTAAATATTATAATTAA
Found at i:807465 original size:32 final size:33
Alignment explanation
Indices: 807411--807487 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 33
807401 ATTTTTAATT
* * * *
807411 AATATAAAATATTTTAATTTAAACTTAAAT-TTA
1 AATAT-AAATAATTAAAATTAAAATTAAATATTA
807444 AATATAAATAATTAAAATTAAAATTAAATATTA
1 AATATAAATAATTAAAATTAAAATTAAATATTA
*
807477 AA-ATTAATAAT
1 AATATAAATAAT
807488 ATCTGTGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 28 0.74
33 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
AATATAAATAATTAAAATTAAAATTAAATATTA
Found at i:807478 original size:19 final size:21
Alignment explanation
Indices: 807437--807489 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
807427 ATTTAAACTT
*
807437 AAATTTAAATATAAATAATTA
1 AAATTAAAATATAAATAATTA
807458 AAATTAAAAT-TAAAT-ATTA
1 AAATTAAAATATAAATAATTA
807477 AAATTAATAATAT
1 AAATTAA-AATAT
807490 CTGTGAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.38
20 8 0.28
21 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTAAAATATAAATAATTA
Found at i:810026 original size:2 final size:2
Alignment explanation
Indices: 810021--810047 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
810011 CTATTCTTCT
810021 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
810048 GTAGAGTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:810139 original size:3 final size:3
Alignment explanation
Indices: 810131--810179 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
810121 AAGCCATTTT
* *
810131 ATC ATC ATC ATC ATC ATT AGC ATC ATC GA-C AT- ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC -ATC ATC ATC ATC ATC ATC
810175 ATC AT
1 ATC AT
810180 ACATGAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.08
3 35 0.90
4 1 0.03
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:810455 original size:13 final size:14
Alignment explanation
Indices: 810433--810472 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
810423 TTTAATCAAA
810433 TATATAAATATT-T
1 TATATAAATATTAT
*
810446 TATATTAATATTAT
1 TATATAAATATTAT
*
810460 TAAATAAATATTA
1 TATATAAATATTA
810473 AAATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAAATATTAT
Found at i:810482 original size:22 final size:22
Alignment explanation
Indices: 810452--810498 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
810442 ATTTTATATT
* *
810452 AATATTATTAAATAAATATTAA
1 AATAATATTAAATAAATAATAA
* *
810474 AATAATATTTAATATATAATAA
1 AATAATATTAAATAAATAATAA
810496 AAT
1 AAT
810499 CATAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAATATTAAATAAATAATAA
Found at i:810521 original size:21 final size:20
Alignment explanation
Indices: 810484--810522 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
810474 AATAATATTT
810484 AATATATAATAAAATCATAA
1 AATATATAATAAAATCATAA
810504 AATATAATAA-AAATATCAT
1 AATAT-ATAATAAA-ATCAT
810523 GTTATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AATATATAATAAAATCATAA
Found at i:810553 original size:20 final size:21
Alignment explanation
Indices: 810506--810558 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
810496 AATCATAAAA
810506 TATAATAAAAATATCATGTTAT
1 TATAAT-AAAATATCATGTTAT
* *
810528 TTTAATAAAATATTATG-TAT
1 TATAATAAAATATCATGTTAT
*
810548 TATAATTAAAT
1 TATAATAAAAT
810559 TAATATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
TATAATAAAATATCATGTTAT
Found at i:810581 original size:11 final size:11
Alignment explanation
Indices: 810545--810601 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
810535 AAATATTATG
810545 TATTATAATTAA
1 TATTAT-ATTAA
810557 -ATTAATATTAAA
1 TATT-ATATT-AA
810569 TATTATATTAA
1 TATTATATTAA
810580 TATT-TATTTAA
1 TATTATA-TTAA
810591 TA--ATATTAA
1 TATTATATTAA
810600 TA
1 TA
810602 AAAAATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
9 6 0.15
10 4 0.10
11 18 0.45
12 9 0.22
13 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTATATTAA
Found at i:810747 original size:2 final size:2
Alignment explanation
Indices: 810742--810793 Score: 77
Period size: 2 Copynumber: 25.5 Consensus size: 2
810732 GCACTCCTTT
* *
810742 TA TA TA TA TA TA TA TA TA TG CA CTA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
810785 TA TA TA TA T
1 TA TA TA TA T
810794 GCACTCTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 44 0.98
3 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:811024 original size:21 final size:23
Alignment explanation
Indices: 811000--811041 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
810990 ATACTAACAG
811000 TTAAA-TATTT-ATATTTTTACC
1 TTAAATTATTTAATATTTTTACC
*
811021 TTAAATTTTTTAATATTTTTA
1 TTAAATTATTTAATATTTTTA
811042 AATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAAATTATTTAATATTTTTACC
Found at i:812100 original size:22 final size:21
Alignment explanation
Indices: 812074--812115 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
812064 AGAAAATATA
812074 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
812094 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
812115 A
1 A
812116 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:813091 original size:19 final size:19
Alignment explanation
Indices: 813039--813091 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
813029 TTATCTGTAT
813039 TATATTTTTTATT-TT-AA
1 TATATTTTTTATTATTAAA
* * *
813056 TATATCTTTAATAATTAAA
1 TATATTTTTTATTATTAAA
813075 TATATTTTTTATTATTA
1 TATATTTTTTATTATTA
813092 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 16 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTTTATTATTAAA
Found at i:813172 original size:23 final size:23
Alignment explanation
Indices: 813145--813215 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
813135 TTTAACGAGT
*
813145 TAATTATTATCAAAATAAAATTA
1 TAATTATTATAAAAATAAAATTA
* * *
813168 TAATTATTGTTATAA-AAAATATA
1 TAATTATTATAAAAATAAAAT-TA
813191 TAATTATATTATAAAAATATAAATT
1 TAA-T-TATTATAAAAATA-AAATT
813216 TATTCTAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
22 5 0.14
23 17 0.46
24 1 0.03
25 8 0.22
26 2 0.05
27 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
TAATTATTATAAAAATAAAATTA
Found at i:813212 original size:19 final size:20
Alignment explanation
Indices: 813159--813212 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
813149 TATTATCAAA
* *
813159 ATAAAATTATAATTATTGTT
1 ATAAAAATATAATTATTATT
813179 ATAAAAAATATATAATTA-TATT
1 AT--AAAA-ATATAATTATTATT
813201 ATAAAAATATAA
1 ATAAAAATATAA
813213 ATTTATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
22 9 0.31
23 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAAAAATATAATTATTATT
Found at i:813219 original size:19 final size:22
Alignment explanation
Indices: 813161--813228 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
813151 TTATCAAAAT
*
813161 AAAAT-TATAATTATTGTTATAA
1 AAAATATATAATTA-TATTATAA
813183 AAAATATATAATTATATTAT-A
1 AAAATATATAATTATATTATAA
*
813204 AAAATATA-AATT-TATTCTAGA
1 AAAATATATAATTATATTATA-A
813225 AAAA
1 AAAA
813229 CTTTATTCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.12
20 4 0.10
21 14 0.34
22 10 0.24
23 8 0.20
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (22 bp):
AAAATATATAATTATATTATAA
Found at i:813328 original size:19 final size:19
Alignment explanation
Indices: 813304--813343 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
813294 TCTAATTTTT
*
813304 ATATAA-ATTTATTTTTTAA
1 ATATAATATTT-TTATTTAA
813323 ATATAATATTTTTATTTAA
1 ATATAATATTTTTATTTAA
813342 AT
1 AT
813344 TTTTTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATAATATTTTTATTTAA
Found at i:815307 original size:15 final size:14
Alignment explanation
Indices: 815285--815328 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
815275 TTTAATTTTT
815285 ATTTATATTTTAAA
1 ATTTATATTTTAAA
* *
815299 ATATTATATTTTTAT
1 AT-TTATATTTTAAA
*
815314 ATTTATACTTTAAA
1 ATTTATATTTTAAA
815328 A
1 A
815329 ATATATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTATATTTTAAA
Found at i:815316 original size:29 final size:26
Alignment explanation
Indices: 815280--815335 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 26
815270 TTTTTTTTAA
*
815280 TTTTTATTTATATTTTAAAATATTATAT
1 TTTTTATTTATACTTTAAAA-A-TATAT
815308 TTTTATATTTATACTTTAAAAATATAT
1 TTTT-TATTTATACTTTAAAAATATAT
815335 T
1 T
815336 AAATACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.23
28 5 0.19
29 15 0.58
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTTATTTATACTTTAAAAATATAT
Found at i:818510 original size:3 final size:3
Alignment explanation
Indices: 818502--818534 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
818492 TTTAAAAAAT
818502 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
818535 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:823109 original size:18 final size:18
Alignment explanation
Indices: 823075--823109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
823065 TATTTTAAAA
*
823075 TATAATTATAATTATATT
1 TATAATTATAATGATATT
*
823093 TATAATTATTATGATAT
1 TATAATTATAATGATAT
823110 GTTACGTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TATAATTATAATGATATT
Found at i:831068 original size:15 final size:15
Alignment explanation
Indices: 831026--831073 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
831016 ATAATTAAAA
*
831026 ATTTAAATATA-AAT
1 ATTTAAATATATTAT
*
831040 ATATTAAATTTATTAT
1 AT-TTAAATATATTAT
831056 ATTTAAATATATTAT
1 ATTTAAATATATTAT
831071 ATT
1 ATT
831074 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 23 0.79
16 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAATATATTAT
Found at i:831089 original size:20 final size:20
Alignment explanation
Indices: 831039--831089 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
831029 TAAATATAAA
831039 TATATTAAATT-TATTATATT
1 TATATT-AATTATATTATATT
* *
831059 TA-AATATATTATATTATTTT
1 TATATTA-ATTATATTATATT
831079 TATATTAATTA
1 TATATTAATTA
831090 AACACGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 1 0.04
19 5 0.20
20 16 0.64
21 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTAATTATATTATATT
Found at i:831291 original size:24 final size:23
Alignment explanation
Indices: 831264--831339 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
831254 TAGATATAAT
831264 ATATAAAAATAAATTTAATATTA
1 ATATAAAAATAAATTTAATATTA
**
831287 GATAT---AAT--ATGAAATA-TA
1 -ATATAAAAATAAATTTAATATTA
831305 ATATATAAAATAAATTTAATATTA
1 ATATA-AAAATAAATTTAATATTA
*
831329 ATATATAAATA
1 ATATAAAAATA
831340 TTAATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 15
0.67 0.08 0.25
Matches are distributed among these distances:
17 4 0.10
18 2 0.05
19 6 0.15
21 6 0.15
23 11 0.28
24 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
ATATAAAAATAAATTTAATATTA
Found at i:831331 original size:6 final size:6
Alignment explanation
Indices: 831278--831349 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
831268 AAAAATAAAT
* * *
831278 TTAATA TTAGATA -TAATA TGAA-A TATAATA TATAAAA TAAAT- TTAATA
1 TTAATA TTA-ATA TTAATA TTAATA T-TAATA T-TAATA TTAATA TTAATA
831326 TTAATA TATAAATA TTAATA TTAA
1 TTAATA T-T-AATA TTAATA TTAA
831350 ATGCCATGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 9 0.17
6 26 0.49
7 13 0.25
8 5 0.09
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (6 bp):
TTAATA
Found at i:831346 original size:43 final size:42
Alignment explanation
Indices: 831250--831346 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 42
831240 ATCCAAAGCC
831250 ATATTAGATATAATATATAAAAATAAATTTAATATTAGATATA
1 ATATTA-ATATAATATATAAAAATAAATTTAATATTAGATATA
* *
831293 ATATGAAATATAATATAT-AAAATAAATTTAATATTAATATATAA
1 ATAT-TAATATAATATATAAAAATAAATTTAATATT-AGATAT-A
831337 ATATTAATAT
1 ATATTAATAT
831347 TAAATGCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 17 0.35
43 25 0.52
44 6 0.12
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (42 bp):
ATATTAATATAATATATAAAAATAAATTTAATATTAGATATA
Found at i:831438 original size:19 final size:18
Alignment explanation
Indices: 831411--831455 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
831401 GCCATATTAG
*
831411 ATATAATATA-AAAAATTT
1 ATATTATATATAAAAA-TT
831429 AATATTATATATAAAAATT
1 -ATATTATATATAAAAATT
831448 ATATTATA
1 ATATTATA
831456 AATTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTATATATAAAAATT
Found at i:831442 original size:21 final size:21
Alignment explanation
Indices: 831416--831488 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 21
831406 ATTAGATATA
831416 ATATAAAAAATTTAATATTAT
1 ATATAAAAAATTTAATATTAT
*
831437 ATATAAAAATTATATTATAAATTA-
1 ATATAAAAA--AT-TTA-ATATTAT
*
831461 ATATAATAAAATTTATTATT-T
1 ATATAA-AAAATTTAATATTAT
831482 ATATAAA
1 ATATAAA
831489 TATATAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.02
21 18 0.42
22 3 0.07
23 4 0.09
24 9 0.21
25 8 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATAAAAAATTTAATATTAT
Found at i:831502 original size:27 final size:26
Alignment explanation
Indices: 831435--831500 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
831425 ATTTAATATT
* *
831435 ATATATAAAAATTATATTATAAATTA
1 ATATATAAAATTTATATTATAAATAA
*
831461 ATATAATAAAATTTATTATT-TATATAA
1 ATAT-ATAAAATTTA-TATTATAAATAA
831488 ATATATAAAATTT
1 ATATATAAAATTT
831501 TAAATACGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.37
27 18 0.51
28 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATAAAATTTATATTATAAATAA
Found at i:831505 original size:154 final size:154
Alignment explanation
Indices: 831195--831491 Score: 430
Period size: 154 Copynumber: 1.9 Consensus size: 154
831185 ACAGAAAAAC
831195 ATGCCATGATATGTGAAACACAATGGCACATGTTTTGTCCTTAGCATCCAAAGCCATATTAGATA
1 ATGCCATGATATGTGAAACACAATGGCACATGTTTTGTCCTTAGCATCCAAAGCCATATTAGATA
* *
831260 TAATATATAAAAATAAATTTAATATTAGATATAATATGAAATATAATATATAAAATAAATTTAAT
66 TAATATATAAAAATAAATTTAATATAAAATATAATATGAAATATAATATATAAAATAAATTTAAT
831325 ATTAATATATAAATATTAATATTAA
131 ATT-ATATATAAATATTAATATTAA
831350 ATGCCATGATATGTGAAACA-AATGGCACATGTTTTGTCCTTAGCATCCAAAGCCATATTAGATA
1 ATGCCATGATATGTGAAACACAATGGCACATGTTTTGTCCTTAGCATCCAAAGCCATATTAGATA
* * *
831414 TAATATA-AAAAATTTAATATTATATATAAAAATTATATTAT-AAAT-T-A-ATATAATA-AAAT
66 TAATATATAAAAA-TAAAT-TTA-ATAT-AAAA-TATAATATGAAATATAATATATAAAATAAAT
*
831473 TTATTATT-TATATAAATAT
126 TTAATATTATATATAAATAT
831492 ATAAAATTTT
Statistics
Matches: 131, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
151 11 0.08
153 16 0.12
154 62 0.47
155 24 0.18
156 5 0.04
157 6 0.05
158 7 0.05
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (154 bp):
ATGCCATGATATGTGAAACACAATGGCACATGTTTTGTCCTTAGCATCCAAAGCCATATTAGATA
TAATATATAAAAATAAATTTAATATAAAATATAATATGAAATATAATATATAAAATAAATTTAAT
ATTATATATAAATATTAATATTAA
Found at i:839238 original size:21 final size:21
Alignment explanation
Indices: 839213--839257 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
839203 AAATTTAAAA
*
839213 ATATTTTAT-ATTAATATTTAT
1 ATATTATATAATTAA-ATTTAT
839234 ATATTATATAATTAAATTTAT
1 ATATTATATAATTAAATTTAT
839255 ATA
1 ATA
839258 AAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTATATAATTAAATTTAT
Found at i:839362 original size:16 final size:16
Alignment explanation
Indices: 839341--839373 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
839331 CCACTTAGAT
839341 CAAATCTAATTTAAAC
1 CAAATCTAATTTAAAC
839357 CAAATCTAATTTAAAC
1 CAAATCTAATTTAAAC
839373 C
1 C
839374 TTTCAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (16 bp):
CAAATCTAATTTAAAC
Found at i:839483 original size:19 final size:20
Alignment explanation
Indices: 839452--839494 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
839442 ACGAATAAAA
839452 AAATTTAACTTTAC-AATTG
1 AAATTTAACTTTACTAATTG
*
839471 AAATTATAA-TTTACTAATTT
1 AAATT-TAACTTTACTAATTG
839491 AAAT
1 AAAT
839495 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATTTAACTTTACTAATTG
Found at i:839576 original size:19 final size:20
Alignment explanation
Indices: 839552--839620 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 20
839542 AATAAAATAA
839552 TTATTATA-TTTTTAATTTT
1 TTATTATACTTTTTAATTTT
*
839571 TTA-T-TA-TTTTAAATATTT
1 TTATTATACTTTTTAAT-TTT
*
839589 TT-TTA-ACATTTTAATTTT
1 TTATTATACTTTTTAATTTT
*
839607 TTATAATACTTTTT
1 TTATTATACTTTTT
839621 TATGGTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 9 0.23
18 13 0.33
19 11 0.28
20 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATACTTTTTAATTTT
Found at i:839580 original size:17 final size:17
Alignment explanation
Indices: 839558--839610 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
839548 ATAATTATTA
839558 TATTTTTAATTTTTTAT
1 TATTTTTAATTTTTTAT
*
839575 TATTTTAAATATTTTT-T
1 TATTTTTAAT-TTTTTAT
*
839592 TAACATTTTAATTTTTTAT
1 T-A-TTTTTAATTTTTTAT
839611 AATACTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.38
18 11 0.38
19 7 0.24
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTAATTTTTTAT
Found at i:839600 original size:28 final size:29
Alignment explanation
Indices: 839560--839622 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
839550 AATTATTATA
* * *
839560 TTTTTAA-TTTTTTATTATTTTA-AATATT
1 TTTTTAACATTTTAATT-TTTTATAATACT
839588 TTTTTAACATTTTAATTTTTTATAATACT
1 TTTTTAACATTTTAATTTTTTATAATACT
839617 TTTTTA
1 TTTTTA
839623 TGGTAATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTAACATTTTAATTTTTTATAATACT
Found at i:839657 original size:9 final size:9
Alignment explanation
Indices: 839638--839697 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 9
839628 ATATCAAATT
839638 TTTTTAA-A
1 TTTTTAATA
*
839646 TTTTTATTA
1 TTTTTAATA
839655 -TTTTACATA
1 TTTTTA-ATA
*
839664 TTTTTAACA
1 TTTTTAATA
839673 -TTTTAATTA
1 TTTTTAA-TA
*
839682 TTTATAATA
1 TTTTTAATA
839691 TTTTTAA
1 TTTTTAA
839698 AATAATATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 17 0.41
9 14 0.34
10 10 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTAATA
Found at i:839675 original size:27 final size:26
Alignment explanation
Indices: 839552--839698 Score: 99
Period size: 27 Copynumber: 5.6 Consensus size: 26
839542 AATAAAATAA
* * *
839552 TTATTATATTTTTAATTTTTTATTAT
1 TTATAATATTTTTAAATTTTAATTAT
*
839578 TT-TAAATATTTTTTTAACATTTTAATTTT
1 TTAT-AATA--TTTTTAA-ATTTTAATTAT
* **
839607 TTATAATACTTTTT-TATGGTAA-TA-
1 TTATAATA-TTTTTAAATTTTAATTAT
* * *
839631 TCA-AATTTTTTTAAATTTTTATTAT
1 TTATAATATTTTTAAATTTTAATTAT
839656 TT-TACATATTTTTAACATTTTAATTAT
1 TTATA-ATATTTTTAA-ATTTTAATTAT
839683 TTATAATATTTTTAAA
1 TTATAATATTTTTAAA
839699 ATAATATCAA
Statistics
Matches: 91, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
22 5 0.05
23 7 0.08
24 4 0.04
25 4 0.04
26 20 0.22
27 22 0.24
28 14 0.15
29 14 0.15
30 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
TTATAATATTTTTAAATTTTAATTAT
Found at i:839686 original size:76 final size:75
Alignment explanation
Indices: 839560--839717 Score: 228
Period size: 76 Copynumber: 2.1 Consensus size: 75
839550 AATTATTATA
* * **
839560 TTTTTAATTTTTTATTATTTTAAATATTTTTTTAACATTTTAATTTTTTATAATACTTTTTTATG
1 TTTTTAAATTTTTATTATTTTAAATA-TTTTTTAACATTTTAATTATTTATAATA--TTTTTAAA
*
839625 GTAATATCAAATT
63 ATAATATCAAATT
*
839638 TTTTTAAATTTTTATTATTTTACATA-TTTTTAACATTTTAATTATTTATAATATTTTTAAAATA
1 TTTTTAAATTTTTATTATTTTAAATATTTTTTAACATTTTAATTATTTATAATATTTTTAAAATA
839702 ATATCAAATT
66 ATATCAAATT
839712 TTTTTA
1 TTTTTA
839718 TAATAATATA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 24 0.32
76 26 0.35
78 24 0.32
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (75 bp):
TTTTTAAATTTTTATTATTTTAAATATTTTTTAACATTTTAATTATTTATAATATTTTTAAAATA
ATATCAAATT
Found at i:839717 original size:21 final size:21
Alignment explanation
Indices: 839691--839735 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
839681 ATTTATAATA
* *
839691 TTTTTAAAATAATATCAAATT
1 TTTTTAAAATAATATAAAAAT
*
839712 TTTTTATAATAATATAAAAAT
1 TTTTTAAAATAATATAAAAAT
839733 TTT
1 TTT
839736 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTTAAAATAATATAAAAAT
Found at i:839752 original size:76 final size:73
Alignment explanation
Indices: 839589--839770 Score: 179
Period size: 76 Copynumber: 2.4 Consensus size: 73
839579 TTAAATATTT
*** * * **
839589 TTTTAACATTTTAATTTTTTATAATACTTTTTTATGGTAATATCAAATTTTTTTAAATTTTTATT
1 TTTTAACATTTTAA-TTTTTATAATA--TTTTTAAAATAATATCAAATTTTTTTAAATTATAAAA
* * *
839654 ATTTTACATAT
63 ATTTTAAAAAA
839665 TTTTAACATTTTAATTATTTATAATATTTTTAAAATAATATCAAATTTTTTTATAATAATATAAA
1 TTTTAACATTTTAATT-TTTATAATATTTTTAAAATAATATCAAATTTTTTTA-AAT--TATAAA
839730 AATTTTAAAAAA
62 AATTTTAAAAAA
839742 TTTTAA-ATTTT-ATTTTTATTACATATTTT
1 TTTTAACATTTTAATTTTTA-TA-ATATTTT
839771 AAATATACAT
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
74 28 0.31
75 10 0.11
76 35 0.39
77 17 0.19
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (73 bp):
TTTTAACATTTTAATTTTTATAATATTTTTAAAATAATATCAAATTTTTTTAAATTATAAAAATT
TTAAAAAA
Found at i:840833 original size:12 final size:13
Alignment explanation
Indices: 840806--840838 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
840796 TATTATTAAA
840806 TAATATTTTATCT
1 TAATATTTTATCT
*
840819 TAATTTTTTAT-T
1 TAATATTTTATCT
840831 TAATATTT
1 TAATATTT
840839 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TAATATTTTATCT
Found at i:842083 original size:21 final size:24
Alignment explanation
Indices: 842027--842086 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
842017 GTGTTATATT
842027 TATATTAATTATAAATATAATAAA
1 TATATTAATTATAAATATAATAAA
842051 TATTATTATAATT-T-AATATAATAAA
1 TA-TA-T-TAATTATAAATATAATAAA
842076 -ATATTAATTAT
1 TATATTAATTAT
842087 GATATTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 5 0.16
22 2 0.06
23 2 0.06
24 3 0.09
25 13 0.41
26 2 0.06
27 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATTAATTATAAATATAATAAA
Found at i:842128 original size:22 final size:22
Alignment explanation
Indices: 842103--842161 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
842093 ACTAATAAAA
842103 AATTTTAAAATTAT-TTAATAAT
1 AATTTTAAAATTATATT-ATAAT
* * *
842125 AATTATAAATTTATATTATTAT
1 AATTTTAAAATTATATTATAAT
*
842147 AATTATTTAAATTAT
1 AATT-TTAAAATTAT
842162 GTTACGTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTAAAATTATATTATAAT
Found at i:843093 original size:25 final size:27
Alignment explanation
Indices: 843045--843094 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
843035 TAAATATTTT
843045 ATATTTTATAATTAATTTTAAATAAAA
1 ATATTTTATAATTAATTTTAAATAAAA
*
843072 ATATTTT-TTATT-ATTTTAAATAA
1 ATATTTTATAATTAATTTTAAATAA
843095 TAATTTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATATTTTATAATTAATTTTAAATAAAA
Found at i:850486 original size:11 final size:11
Alignment explanation
Indices: 850472--850545 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
850462 ATCAAATTTT
850472 AAATAAATATA
1 AAATAAATATA
* *
850483 AAAT-ATTTTA
1 AAATAAATATA
*
850493 AATATAATTATA
1 AA-ATAAATATA
* *
850505 ATAT-AATAAA
1 AAATAAATATA
850515 AAATATTAATATA
1 AAATA--AATATA
850528 AAATAAATATA
1 AAATAAATATA
850539 TAAATAA
1 -AAATAA
850546 TAAATTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
10 13 0.27
11 14 0.29
12 12 0.24
13 10 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATAAATATA
Found at i:850526 original size:18 final size:19
Alignment explanation
Indices: 850501--850549 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
850491 TAAATATAAT
850501 TATAATATAATAAAAAATA
1 TATAATATAATAAAAAATA
*
850520 T-TAATATAA-AATAAATA
1 TATAATATAATAAAAAATA
850537 TATAA-ATAATAAA
1 TATAATATAATAAA
850550 TTTTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 13 0.50
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAATATAATAAAAAATA
Found at i:850853 original size:4 final size:4
Alignment explanation
Indices: 850844--850918 Score: 50
Period size: 4 Copynumber: 19.0 Consensus size: 4
850834 AACAAAATAA
* **
850844 AAAT AAAT AAAT --AT AATAT AAAT AAAT AAAT AAAT ATATT AAA- ATTT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
* *
850891 ATAT AAAT ATAT AATAT AAA- AAAT AAAT
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT
850919 TATTAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
2 2 0.04
3 4 0.07
4 39 0.70
5 11 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (4 bp):
AAAT
Found at i:850861 original size:19 final size:18
Alignment explanation
Indices: 850838--850879 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
850828 ACTATAAACA
850838 AAATAAAAATAAATAAAT
1 AAATAAAAATAAATAAAT
*
850856 ATAATATAAATAAATAAAT
1 A-AATAAAAATAAATAAAT
850875 AAATA
1 AAATA
850880 TATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAAATAAATAAAT
Found at i:850903 original size:10 final size:10
Alignment explanation
Indices: 850846--850903 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
850836 CAAAATAAAA
*
850846 ATAAATAAAT
1 ATAAATATAT
*
850856 AT-AATATAA
1 ATAAATATAT
850865 ATAAATA-A-
1 ATAAATATAT
850873 ATAAATATAT
1 ATAAATATAT
*
850883 -TAAAATTTAT
1 AT-AAATATAT
850893 ATAAATATAT
1 ATAAATATAT
850903 A
1 A
850904 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 21 0.54
11 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAATATAT
Found at i:850916 original size:20 final size:20
Alignment explanation
Indices: 850842--850918 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 20
850832 TAAACAAAAT
850842 AAAAATAAATAAATATAATATA
1 AAAAATAAAT--ATATAATATA
*
850864 AATAAATAAATAAAT-ATATTA
1 AA-AAATAAATATATAATA-TA
850885 AAATTTATATAAATATATAATATA
1 AAA---A-ATAAATATATAATATA
850909 AAAAATAAAT
1 AAAAATAAAT
850919 TATTAAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
20 10 0.22
21 8 0.17
22 2 0.04
23 9 0.20
24 14 0.30
25 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATAAATATATAATATA
Found at i:850934 original size:36 final size:40
Alignment explanation
Indices: 850859--850937 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
850849 AATAAATATA
850859 ATATAAATAAATAAATAAATATATTAAAATTTATATAAAT
1 ATATAAATAAATAAATAAATATATTAAAATTTATATAAAT
850899 ATATAATATAAA-AAATAAAT-TATT-AAA-TTAT-TAAAT
1 ATATAA-ATAAATAAATAAATATATTAAAATTTATATAAAT
850935 ATA
1 ATA
850938 ATTTAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
36 8 0.21
37 4 0.11
38 3 0.08
39 4 0.11
40 14 0.37
41 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (40 bp):
ATATAAATAAATAAATAAATATATTAAAATTTATATAAAT
Found at i:851257 original size:19 final size:18
Alignment explanation
Indices: 851215--851258 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
851205 GATAATTAAA
851215 TTTAATAATAATATAATT
1 TTTAATAATAATATAATT
851233 TATTAATAA-AATATTAAATT
1 T-TTAATAATAATA-T-AATT
851253 TTTAAT
1 TTTAAT
851259 TTAATGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAATAATAATATAATT
Found at i:851370 original size:2 final size:2
Alignment explanation
Indices: 851363--851393 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
851353 TTCTTTGATT
851363 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
851394 ATTATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851953 original size:13 final size:13
Alignment explanation
Indices: 851931--851963 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
851921 TTTTTATTCG
*
851931 ATTTAT-TTATTT
1 ATTTATATTATAT
851943 ATTTATATTATAT
1 ATTTATATTATAT
851956 ATTTATAT
1 ATTTATAT
851964 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATATTATAT
Found at i:852487 original size:2 final size:2
Alignment explanation
Indices: 852470--852503 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
852460 CCTATTATTA
* *
852470 AT AT CT AT AC 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
852504 TCAACCTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:857143 original size:18 final size:19
Alignment explanation
Indices: 857107--857145 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
857097 TAAATTTATT
857107 TATAAAATATATATGTTAA
1 TATAAAATATATATGTTAA
*
857126 TATAAAATA-ATATTTTAA
1 TATAAAATATATATGTTAA
857144 TA
1 TA
857146 ATATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TATAAAATATATATGTTAA
Found at i:863611 original size:23 final size:22
Alignment explanation
Indices: 863556--863612 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
863546 TTATTTTAAG
*
863556 TTTAATTTAGTTATATGTCATA
1 TTTAATTTAGTTATATATCATA
863578 TCATTAA-TTAGTTGATATAT-ATGA
1 T--TTAATTTAGTT-ATATATCAT-A
863602 TTTAATTTAGT
1 TTTAATTTAGT
863613 GGGATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
22 5 0.17
23 13 0.45
24 11 0.38
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (22 bp):
TTTAATTTAGTTATATATCATA
Found at i:863729 original size:17 final size:18
Alignment explanation
Indices: 863684--863743 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
863674 TTTTTAATAT
863684 AAAAAATATATAAATTAATTA
1 AAAAAAT-TATAAA-T-ATTA
* *
863705 AATTAAATTTTAAAT-TTA
1 AA-AAAATTATAAATATTA
863723 AAAAAATTATAAATATTA
1 AAAAAATTATAAATATTA
863741 AAA
1 AAA
863744 TTTACGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.30
18 11 0.33
20 1 0.03
21 7 0.21
22 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAAATTATAAATATTA
Found at i:864228 original size:2 final size:2
Alignment explanation
Indices: 864223--864259 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
864213 TTTAAAAATA
* *
864223 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
864260 CACACACGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:877109 original size:13 final size:13
Alignment explanation
Indices: 877093--877117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
877083 TCAAATTTTA
877093 TTAAATATAATTT
1 TTAAATATAATTT
877106 TTAAATATAATT
1 TTAAATATAATT
877118 ACGAAAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATATAATTT
Found at i:879824 original size:2 final size:2
Alignment explanation
Indices: 879817--879857 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
879807 ATCAATTAAC
879817 TA TA TA TA TA -A T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
879857 T
1 T
879858 TCTGTGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:880091 original size:22 final size:22
Alignment explanation
Indices: 880020--880092 Score: 59
Period size: 26 Copynumber: 3.4 Consensus size: 22
880010 TATTTTAAAA
880020 TAAATATATTTA-A-TT-T-TT
1 TAAATATATTTATATTTATATT
*
880038 TAAA-AT-TTTATATATATATT
1 TAAATATATTTATATTTATATT
880058 TAAAAAATTATATTTATATTTATATT
1 T---AAA-TATATTTATATTTATATT
880084 TAAATATAT
1 TAAATATAT
880093 ATCAAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
16 4 0.09
17 3 0.07
18 5 0.12
19 1 0.02
20 3 0.07
22 5 0.12
23 6 0.14
25 2 0.05
26 14 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATATATTTATATTTATATT
Found at i:883327 original size:15 final size:15
Alignment explanation
Indices: 883309--883338 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
883299 ATTTTTAAAA
*
883309 TGAATTGATTTAGTT
1 TGAATTGAATTAGTT
883324 TGAATTGAATTAGTT
1 TGAATTGAATTAGTT
883339 AAAATTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
TGAATTGAATTAGTT
Found at i:883558 original size:22 final size:23
Alignment explanation
Indices: 883522--883566 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
883512 ATAAGCTTTG
883522 GATTATATAAATTTT-AATTATTT
1 GATTATATAAATTTTCAA-TATTT
*
883545 GATTA-ATAAGTTTTCAATATTT
1 GATTATATAAATTTTCAATATTT
883567 TATCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (23 bp):
GATTATATAAATTTTCAATATTT
Found at i:884095 original size:2 final size:2
Alignment explanation
Indices: 884090--884115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
884080 AAAGTAAGAA
884090 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
884116 TAGTATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:890133 original size:108 final size:108
Alignment explanation
Indices: 890010--890227 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
890000 AACCTCCGAT
890010 AACTATATATGATATATAGTCAACAAACCATCTCTATGTCGCTAGCTTTGTTATCTTGATCATCT
1 AACTATATATGATATATAGTCAACAAACCATCTCTATGTCGCTAGCTTTGTTATCTTGATCATCT
890075 AGGAAGTTCATAGATGCTAGTAGATCATCTATCTTCAACGGAG
66 AGGAAGTTCATAGATGCTAGTAGATCATCTATCTTCAACGGAG
890118 AACTATATATGATATATAGTCAACAAACCATCTCTATGTCGCTAGCTTTGTTATCTTGATCATCT
1 AACTATATATGATATATAGTCAACAAACCATCTCTATGTCGCTAGCTTTGTTATCTTGATCATCT
890183 AGGAAGTTCATAGATGCTAGTAGATCATCTATCTTCAACGGAG
66 AGGAAGTTCATAGATGCTAGTAGATCATCTATCTTCAACGGAG
890226 AA
1 AA
890228 TGCCGAACCG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (108 bp):
AACTATATATGATATATAGTCAACAAACCATCTCTATGTCGCTAGCTTTGTTATCTTGATCATCT
AGGAAGTTCATAGATGCTAGTAGATCATCTATCTTCAACGGAG
Found at i:896457 original size:12 final size:12
Alignment explanation
Indices: 896419--896457 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
896409 TTAATTACTT
896419 ATTAAAATAAAAA
1 ATTAAAA-AAAAA
* *
896432 TTTAAAAAATAA
1 ATTAAAAAAAAA
896444 ATTAAAAAAAAA
1 ATTAAAAAAAAA
896456 AT
1 AT
896458 AACAATGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
ATTAAAAAAAAA
Found at i:903141 original size:2 final size:2
Alignment explanation
Indices: 903134--903158 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
903124 TTCGAAAAGA
903134 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
903159 GTGGTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:909399 original size:17 final size:17
Alignment explanation
Indices: 909374--909409 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
909364 TTTTCGTATC
* *
909374 GTATTTAAAATTATTAA
1 GTATCTAAAATTATCAA
909391 GTATCTAAAATTATCAA
1 GTATCTAAAATTATCAA
909408 GT
1 GT
909410 TGGTACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (17 bp):
GTATCTAAAATTATCAA
Found at i:911553 original size:16 final size:16
Alignment explanation
Indices: 911512--911551 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
911502 AGATAATTAA
*
911512 TTAATAAAA-TAATAT
1 TTAAAAAAATTAATAT
911527 TTAAAAAAATTAATAT
1 TTAAAAAAATTAATAT
911543 TATAAAAAA
1 T-TAAAAAA
911552 TTTTCAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAAAATTAATAT
Found at i:914111 original size:17 final size:17
Alignment explanation
Indices: 914066--914115 Score: 75
Period size: 16 Copynumber: 2.9 Consensus size: 17
914056 ATTTATATAA
914066 AAATATTAATTAAAAATT
1 AAAT-TTAATTAAAAATT
*
914084 AAATTT-TTTAAAAATT
1 AAATTTAATTAAAAATT
914100 AAATTTAATTAAAAAT
1 AAATTTAATTAAAAAT
914116 AAGTCTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.52
17 10 0.34
18 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTAATTAAAAATT
Found at i:914124 original size:16 final size:17
Alignment explanation
Indices: 914072--914124 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
914062 ATAAAAATAT
914072 TAATTAAAAATTAAAT-
1 TAATTAAAAATTAAATC
** *
914088 TTTTTAAAAATTAAATT
1 TAATTAAAAATTAAATC
*
914105 TAATTAAAAA-TAAGTC
1 TAATTAAAAATTAAATC
914121 TAAT
1 TAAT
914125 ATTAACCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATTAAAAATTAAATC
Found at i:914317 original size:15 final size:14
Alignment explanation
Indices: 914280--914357 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
914270 TTTATATTTT
*
914280 AAAATTTAA-TAAA
1 AAAATTAAATTAAA
914293 AAATATTAAATTAATA
1 AAA-ATTAAATTAA-A
*
914309 AAAATTAAATTTTAA
1 AAAATTAAA-TTAAA
** **
914324 AAAATATATTTTTTA
1 AAAAT-TAAATTAAA
*
914339 AAAAGTAAATTAAA
1 AAAATTAAATTAAA
914353 AAAAT
1 AAAAT
914358 ATAATATAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
13 3 0.06
14 14 0.29
15 23 0.47
16 9 0.18
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (14 bp):
AAAATTAAATTAAA
Found at i:919826 original size:14 final size:15
Alignment explanation
Indices: 919807--919842 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
919797 TCTTAAAAAT
919807 TAAAAAAA-TACATA
1 TAAAAAAACTACATA
919821 TAAAAAAACTTACATA
1 TAAAAAAAC-TACATA
919837 TAAAAA
1 TAAAAA
919843 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAAAAACTACATA
Found at i:920202 original size:13 final size:11
Alignment explanation
Indices: 920177--920202 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
920167 ATTATCAAAC
920177 AAAAAAATTAA
1 AAAAAAATTAA
920188 AAAAAAATTAA
1 AAAAAAATTAA
920199 AAAA
1 AAAA
920203 TAAAATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:920473 original size:9 final size:9
Alignment explanation
Indices: 920456--920507 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
920446 TGATGCCACC
920456 TAAAAAAAT
1 TAAAAAAAT
*
920465 TAAATAAATT
1 TAAA-AAAAT
920475 ATAAAAAAAT
1 -TAAAAAAAT
*
920485 TTAAAAAA-
1 TAAAAAAAT
*
920493 TAAAAAAAA
1 TAAAAAAAT
920502 TAAAAA
1 TAAAAA
920508 GAAAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.19
9 17 0.47
10 8 0.22
11 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:920479 original size:20 final size:18
Alignment explanation
Indices: 920456--920507 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
920446 TGATGCCACC
920456 TAAAAAAATTAAATAAATTA
1 TAAAAAAATTAAA-AAA-TA
920476 TAAAAAAATTTAAAAAATA
1 TAAAAAAA-TTAAAAAATA
920495 -AAAAAAA-TAAAAA
1 TAAAAAAATTAAAAA
920508 GAAAAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.19
18 7 0.23
19 2 0.06
20 11 0.35
21 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAAATTAAAAAATA
Found at i:921063 original size:22 final size:23
Alignment explanation
Indices: 921038--921082 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
921028 AAATTTTCAC
*
921038 TTAATATTATTAAT-TATTATAT
1 TTAAAATTATTAATATATTATAT
921060 TTAAAATTATTAATACTATTATA
1 TTAAAATTATTAATA-TATTATA
921083 AATAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAAAATTATTAATATATTATAT
Found at i:921531 original size:88 final size:89
Alignment explanation
Indices: 921373--921540 Score: 234
Period size: 88 Copynumber: 1.9 Consensus size: 89
921363 TGCTGAAGTA
*
921373 TAATGTATTACCATAAAATCTTTTAGTTAATATATAAATTGGTACCTAAATTATATCCTATTTCA
1 TAATGTATTACCATAAAATCTTTTAGTTAATATATAAATTGGTACCTAAATTATATCCTACTTCA
* *
921438 TAATTTAGTATCTAAAGAGAAAAC
66 CAATTTAGTACCTAAAGAGAAAAC
** *
921462 TAAT-TATTACCATAAAAT-TTTTAGGTTAATATATAAATTGGTATTTGAATTATAT-CTCACTT
1 TAATGTATTACCATAAAATCTTTTA-GTTAATATATAAATTGGTACCTAAATTATATCCT-ACTT
*
921524 CACAATTTTGTACCTAA
64 CACAATTTAGTACCTAA
921541 GAAAAATTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 7 0.10
88 59 0.84
89 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (89 bp):
TAATGTATTACCATAAAATCTTTTAGTTAATATATAAATTGGTACCTAAATTATATCCTACTTCA
CAATTTAGTACCTAAAGAGAAAAC
Found at i:922819 original size:10 final size:10
Alignment explanation
Indices: 922806--922836 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
922796 TATTTTTAAA
922806 AATTTAAATT
1 AATTTAAATT
*
922816 AATTTAATTT
1 AATTTAAATT
922826 AATTTAAATT
1 AATTTAAATT
922836 A
1 A
922837 TTATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTAAATT
Found at i:922848 original size:20 final size:20
Alignment explanation
Indices: 922788--922848 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
922778 AAACGAAGTA
* *
922788 TTAAATTATATTTTTAAAAAT
1 TTAAATTAT-TATTTAATAAT
922809 TTAAATTA--ATTTAATTTAAT
1 TTAAATTATTATTTAA--TAAT
922829 TTAAATTATTATTTAATAAT
1 TTAAATTATTATTTAATAAT
922849 AAAATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.15
20 15 0.44
21 8 0.24
22 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATTATTATTTAATAAT
Found at i:922927 original size:50 final size:50
Alignment explanation
Indices: 922832--922930 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
922822 ATTTAATTTA
* * *
922832 AATTATTATTTAATAATAAAATAATATTTTTATTTAAAGTTAATTATAAT
1 AATTATTATTTAATAATAAAATAATATTTTAATATAAAGTAAATTATAAT
922882 AATTAATTA-TTAAT-ATAAAATAATATTTTAATAATATAA-TAAATTATAA
1 AATT-ATTATTTAATAATAAAATAATATTTTAAT-ATA-AAGTAAATTATAA
922931 AATAAGATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
49 17 0.40
50 20 0.47
51 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (50 bp):
AATTATTATTTAATAATAAAATAATATTTTAATATAAAGTAAATTATAAT
Found at i:922941 original size:50 final size:50
Alignment explanation
Indices: 922836--922941 Score: 119
Period size: 49 Copynumber: 2.1 Consensus size: 50
922826 AATTTAAATT
* * * *
922836 ATTATTTAATAATAAAATAATATTTTTATTTAAAGTTAATTATAATAATTA
1 ATTA-TTAATAATAAAATAATATTTTAATATAAAGTAAATTATAATAATAA
922887 ATTATTAAT-ATAAAATAATATTTTAATAATATAA-TAAATTATAA-AATAA
1 ATTATTAATAATAAAATAATATTTTAAT-ATA-AAGTAAATTATAATAATAA
922936 GATTAT
1 -ATTAT
922942 CCGAGCTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
49 21 0.44
50 21 0.44
51 6 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (50 bp):
ATTATTAATAATAAAATAATATTTTAATATAAAGTAAATTATAATAATAA
Found at i:927730 original size:15 final size:16
Alignment explanation
Indices: 927701--927731 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
927691 AAATTTATTT
927701 TTAAAATATAAATTAA
1 TTAAAATATAAATTAA
927717 TTAAAATA-AAATTAA
1 TTAAAATATAAATTAA
927732 ATATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAATATAAATTAA
Found at i:931316 original size:6 final size:6
Alignment explanation
Indices: 931307--931336 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
931297 TAAAATTTAG
931307 TAAATT TAAATT TAAAATT TAAATT TAAAT
1 TAAATT TAAATT T-AAATT TAAATT TAAAT
931337 ATTTAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TAAATT
Found at i:931326 original size:7 final size:7
Alignment explanation
Indices: 931287--931347 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
931277 ATATAATTAT
931287 ATTTAAA
1 ATTTAAA
**
931294 AAATAAA
1 ATTTAAA
931301 ATTTAGTAA
1 ATTTA--AA
931310 ATTT-AA
1 ATTTAAA
931316 ATTTAAA
1 ATTTAAA
931323 ATTT-AA
1 ATTTAAA
931329 ATTTAAA
1 ATTTAAA
*
931336 TATTTAAG
1 -ATTTAAA
931344 ATTT
1 ATTT
931348 TATTTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
6 12 0.27
7 20 0.45
8 6 0.14
9 6 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:931326 original size:13 final size:13
Alignment explanation
Indices: 931308--931347 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
931298 AAAATTTAGT
931308 AAATTTAAATTTA
1 AAATTTAAATTTA
931321 AAATTTAAATTTA
1 AAATTTAAATTTA
931334 AATATTTAAGATTT
1 AA-ATTTAA-ATTT
931348 TATTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 15 0.60
14 6 0.24
15 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
AAATTTAAATTTA
Found at i:935459 original size:6 final size:6
Alignment explanation
Indices: 935448--935475 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
935438 TTTAAAAAAA
935448 TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATA
935476 ATAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:937014 original size:19 final size:18
Alignment explanation
Indices: 936989--937038 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
936979 AGTACATATT
936989 TAAATTTTAATATAAAAA
1 TAAATTTTAATATAAAAA
*
937007 TAAAATTTTAAATATATAAA
1 T-AAATTTT-AATATAAAAA
937027 TAAATTTTAATA
1 TAAATTTTAATA
937039 AACTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTTTAATATAAAAA
Found at i:937539 original size:32 final size:35
Alignment explanation
Indices: 937503--937582 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 35
937493 TTTAATATTT
937503 ATATTCGATATTT-TTATAAATATAAA-AATAT-A
1 ATATTCGATATTTATTATAAATATAAATAATATAA
** * *
937535 ATATTTAATATTTAATTTTAAATTTAAATAATATAA
1 ATATTCGATATTT-ATTATAAATATAAATAATATAA
*
937571 ATAATCGATATT
1 ATATTCGATATT
937583 AATCGATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 11 0.30
34 11 0.30
35 5 0.14
36 10 0.27
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (35 bp):
ATATTCGATATTTATTATAAATATAAATAATATAA
Found at i:937923 original size:13 final size:13
Alignment explanation
Indices: 937905--937929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
937895 TTTTTTTTTA
937905 AATATTTATATTT
1 AATATTTATATTT
937918 AATATTTATATT
1 AATATTTATATT
937930 CGATATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:938246 original size:19 final size:17
Alignment explanation
Indices: 938215--938249 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
938205 AATATGAATA
938215 TTTTTTATTTTTAAAAT
1 TTTTTTATTTTTAAAAT
938232 TTTTTTATATATTTAAAA
1 TTTTTTAT-T-TTTAAAA
938250 AGTAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATTTTTAAAAT
Found at i:939356 original size:16 final size:16
Alignment explanation
Indices: 939335--939367 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
939325 GGATGCGTTA
939335 TGTTTATTGTAGTTGG
1 TGTTTATTGTAGTTGG
*
939351 TGTTTATTGTGGTTGG
1 TGTTTATTGTAGTTGG
939367 T
1 T
939368 TGTGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.33, T:0.58
Consensus pattern (16 bp):
TGTTTATTGTAGTTGG
Found at i:940168 original size:2 final size:2
Alignment explanation
Indices: 940161--940186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
940151 TTTGCTTTCC
940161 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
940187 GTGTTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:944283 original size:18 final size:19
Alignment explanation
Indices: 944262--944364 Score: 72
Period size: 17 Copynumber: 5.3 Consensus size: 19
944252 AGCTTTTTAA
944262 AAATTTTAAATT-ATTTTT
1 AAATTTTAAATTAATTTTT
944280 AAA-TTTAAATTAATTTTT
1 AAATTTTAAATTAATTTTT
*
944298 AAATAATTTTAATTTTAAATTATTTT
1 --A-AATTTTAA-ATT-AA-T-TTTT
*
944324 AAA--TTAAATTTATTTTT
1 AAATTTTAAATTAATTTTT
*
944341 AAA-TTTAAATTTAATATTT
1 AAATTTTAAA-TTAATTTTT
944360 AAATT
1 AAATT
944365 AATTAAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
17 15 0.22
18 15 0.22
19 11 0.16
20 4 0.06
21 6 0.09
22 5 0.07
23 4 0.06
24 3 0.04
25 1 0.01
26 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTTTAAATTAATTTTT
Found at i:944288 original size:6 final size:6
Alignment explanation
Indices: 944277--944392 Score: 79
Period size: 6 Copynumber: 20.3 Consensus size: 6
944267 TTAAATTATT
* * * *
944277 TTTAAA TTTAAA -TTAATT TTTAAA --TAAT TTTAAT TTTAAA -TT-AT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
944321 TTTAAA -TTAAA TTTATT TTTAAA TTTAAA TTTAATA TTTAAA -TT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
*
944367 -TTAAA TTTAAA TTTAATA TTAAAA TT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TT
944393 AATCAAGTTC
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
4 8 0.09
5 17 0.19
6 48 0.55
7 15 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:944296 original size:28 final size:29
Alignment explanation
Indices: 944263--944389 Score: 111
Period size: 28 Copynumber: 4.3 Consensus size: 29
944253 GCTTTTTAAA
944263 AATTTTAAATTATTTTTAAATTTAAA-TT
1 AATTTTAAATTATTTTTAAATTTAAATTT
* *
944291 AATTTTTAAA-TAATTTTAATTTTAAATTATTTT
1 AA-TTTTAAATTATTTTTAAATTT-AA--A-TTT
*
944324 AA-ATTAAATTTATTTTTAAATTTAAATTT
1 AATTTTAAA-TTATTTTTAAATTTAAATTT
*
944353 AATATTTAAATTA--ATTAAATTTAAATTT
1 AAT-TTTAAATTATTTTTAAATTTAAATTT
*
944381 AATATTAAA
1 AATTTTAAA
944390 ATTAATCAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
27 5 0.06
28 30 0.37
29 14 0.17
30 4 0.05
31 11 0.14
32 2 0.02
33 15 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
AATTTTAAATTATTTTTAAATTTAAATTT
Found at i:944315 original size:16 final size:17
Alignment explanation
Indices: 944289--944325 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
944279 TAAATTTAAA
944289 TTAATTTTTAAATAATT
1 TTAATTTTTAAATAATT
*
944306 TTAA-TTTTAAATTATT
1 TTAATTTTTAAATAATT
944322 TTAA
1 TTAA
944326 ATTAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATTTTTAAATAATT
Found at i:944391 original size:28 final size:28
Alignment explanation
Indices: 944339--944395 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
944329 AAATTTATTT
*
944339 TTAAATTTAAATTTAATATTTAAATTAA
1 TTAAATTTAAATTTAATATTAAAATTAA
944367 TTAAATTTAAATTTAATATTAAAATTAA
1 TTAAATTTAAATTTAATATTAAAATTAA
944395 T
1 T
944396 CAAGTTCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATTTAAATTTAATATTAAAATTAA
Found at i:949445 original size:16 final size:17
Alignment explanation
Indices: 949407--949447 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
949397 ATCTAATTAG
949407 TAAATA-ATATATATAA
1 TAAATATATATATATAA
*
949423 GACAATATATATATAT-A
1 TA-AATATATATATATAA
949440 TAAATATA
1 TAAATATA
949448 GCAATATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.33
17 6 0.29
18 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATATATATATATAA
Found at i:949546 original size:18 final size:19
Alignment explanation
Indices: 949496--949546 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
949486 TACGAATATA
949496 TTTTTATAAATTTT-ATGTT
1 TTTTTAT-AATTTTAATGTT
* *
949515 TATTT-TACTTTTAAT-TT
1 TTTTTATAATTTTAATGTT
949532 TTTTTATAATTTTAA
1 TTTTTATAATTTTAA
949547 AAAATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 11 0.42
18 11 0.42
19 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTAATGTT
Found at i:950512 original size:16 final size:17
Alignment explanation
Indices: 950491--950554 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
950481 ATTATTATAA
950491 TTATATTTA-AAAAATT
1 TTATATTTATAAAAATT
* *
950507 TTATATGTATATAAATT
1 TTATATTTATAAAAATT
**
950524 TTGATATTT-TAATTA-T
1 TT-ATATTTATAAAAATT
950540 TTATATTATATAAAA
1 TTATATT-TATAAAA
950555 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
15 5 0.14
16 12 0.33
17 14 0.39
18 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATATTTATAAAAATT
Found at i:950524 original size:17 final size:16
Alignment explanation
Indices: 950502--950558 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
950492 TATATTTAAA
950502 AAATTTTATATGTATAT
1 AAATTTTATAT-TATAT
950519 AAATTTTGATATT-T-T
1 AAATTTT-ATATTATAT
*
950534 AATTATTTATATTATAT
1 AAAT-TTTATATTATAT
*
950551 AAAATTTA
1 AAATTTTA
950559 AAATATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 9 0.27
16 9 0.27
17 11 0.33
18 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
AAATTTTATATTATAT
Found at i:950588 original size:19 final size:19
Alignment explanation
Indices: 950527--950589 Score: 54
Period size: 24 Copynumber: 3.0 Consensus size: 19
950517 ATAAATTTTG
950527 ATATTTTAATTATTTATATT
1 ATATTTTAATTATTT-TATT
* *
950547 ATATAAAATTTAAAATATATTATT
1 ATAT----TTT-AATTATTTTATT
950571 ATATTTTAATTATTTTATT
1 ATATTTTAATTATTTTATT
950590 TATGATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
19 10 0.29
20 7 0.21
24 11 0.32
25 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTTAATTATTTTATT
Found at i:953712 original size:8 final size:8
Alignment explanation
Indices: 953658--953722 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
953648 CAAATTGAAA
953658 ATTAAATT
1 ATTAAATT
*
953666 AATAAAATT
1 -ATTAAATT
*
953675 TTTAAATT
1 ATTAAATT
** *
953683 ATCGATTT
1 ATTAAATT
953691 AATTAAA-T
1 -ATTAAATT
953699 -TTAAATT
1 ATTAAATT
953706 ATTAAATT
1 ATTAAATT
953714 ATTAAATT
1 ATTAAATT
953722 A
1 A
953723 AATTATTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
6 5 0.12
7 1 0.02
8 27 0.63
9 10 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (8 bp):
ATTAAATT
Found at i:953724 original size:13 final size:13
Alignment explanation
Indices: 953706--953737 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
953696 AATTTAAATT
953706 ATTAAATTATTAA
1 ATTAAATTATTAA
*
953719 ATTAAATTATTTA
1 ATTAAATTATTAA
953732 ATTAAA
1 ATTAAA
953738 AATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:959118 original size:8 final size:8
Alignment explanation
Indices: 959107--959165 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
959097 TAATTTCTAA
959107 ATTTATAT
1 ATTTATAT
959115 ATTTATAT
1 ATTTATAT
959123 ATTT-TATT
1 ATTTATA-T
959131 ATTTATA-
1 ATTTATAT
959138 A--TA-AT
1 ATTTATAT
*
959143 ATTTAAAT
1 ATTTATAT
959151 ATTT-TAT
1 ATTTATAT
959158 -TTTATAT
1 ATTTATAT
959165 A
1 A
959166 AATTTTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 16
0.71 0.02 0.27
Matches are distributed among these distances:
4 1 0.02
5 3 0.07
6 3 0.07
7 10 0.24
8 23 0.55
9 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTATAT
Found at i:959174 original size:26 final size:28
Alignment explanation
Indices: 959113--959166 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
959103 CTAAATTTAT
*
959113 ATATTTATATATTTTATTATTTATAATA
1 ATATTTAAATATTTTATTATTTATAATA
959141 ATATTTAAATATTTTATT-TTATATAA
1 ATATTTAAATATTTTATTATT-TATAA
959167 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTTAAATATTTTATTATTTATAATA
Found at i:959176 original size:33 final size:33
Alignment explanation
Indices: 959138--959213 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 33
959128 ATTATTTATA
959138 ATAATATTTAAAT-ATTTTATTTTATATAAATTTT
1 ATAATATTTAAATCATTTTA--TTATATAAATTTT
*
959172 -TAATAATTT-TATCATTTTATTATATAAATTTT
1 ATAAT-ATTTAAATCATTTTATTATATAAATTTT
*
959204 AAAATATTTA
1 ATAATATTTA
959214 TATAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
32 17 0.47
33 9 0.25
34 10 0.28
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (33 bp):
ATAATATTTAAATCATTTTATTATATAAATTTT
Found at i:959671 original size:13 final size:14
Alignment explanation
Indices: 959648--959676 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
959638 TAGAAAAGAG
959648 TTGTGTTTTGTTTT
1 TTGTGTTTTGTTTT
959662 TTGT-TTTTGTTTT
1 TTGTGTTTTGTTTT
959675 TT
1 TT
959677 CGAGGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTGTGTTTTGTTTT
Done.