Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:1220 original size:21 final size:21
Alignment explanation
Indices: 1176--1237 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
1166 CCCAGAATGG
1176 GGGAATCGGTACCCCTTC-TA
1 GGGAATCGGTACCCCTTCATA
1196 GGGAATCGGTACCCCTTCATA
1 GGGAATCGGTACCCCTTCATA
* *
1217 GGGAATCGATACCCTTTCATA
1 GGGAATCGGTACCCCTTCATA
1238 ATTTTCAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (21 bp):
GGGAATCGGTACCCCTTCATA
Found at i:1385 original size:18 final size:18
Alignment explanation
Indices: 1362--1421 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
1352 ATCTGTACCC
1362 GGGAATCGATACCCCTGG
1 GGGAATCGATACCCCTGG
*
1380 GGGAATCTG-T--TCCT-G
1 GGGAATC-GATACCCCTGG
1395 GGGAATCGATACCCCCTGGG
1 GGGAATCGATA-CCCCT-GG
1415 GGGAATC
1 GGGAATC
1422 TGTTCCCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
16 3 0.09
18 11 0.33
19 1 0.03
20 8 0.24
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (18 bp):
GGGAATCGATACCCCTGG
Found at i:1388 original size:32 final size:35
Alignment explanation
Indices: 1347--1424 Score: 117
Period size: 32 Copynumber: 2.3 Consensus size: 35
1337 AAACCATGCA
1347 GGGGAATCTGTACC-CGGGAATCGATA-CCCCT-G
1 GGGGAATCTGTACCTCGGGAATCGATACCCCCTGG
* *
1379 GGGGAATCTGTTCCTGGGGAATCGATACCCCCTGG
1 GGGGAATCTGTACCTCGGGAATCGATACCCCCTGG
1414 GGGGAATCTGT
1 GGGGAATCTGT
1425 TCCCCCTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 13 0.32
33 11 0.27
34 5 0.12
35 12 0.29
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.22
Consensus pattern (35 bp):
GGGGAATCTGTACCTCGGGAATCGATACCCCCTGG
Found at i:1404 original size:33 final size:34
Alignment explanation
Indices: 1347--1428 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 34
1337 AAACCATGCA
*
1347 GGGGAATCTGTACCCGGGAATCGATA-CCCCT-G
1 GGGGAATCTGTTCCCGGGAATCGATACCCCCTGG
*
1379 GGGGAATCTGTTCCTGGGGAATCGATACCCCCTGG
1 GGGGAATCTGTTCC-CGGGAATCGATACCCCCTGG
1414 GGGGAATCTGTTCCC
1 GGGGAATCTGTTCCC
1429 CCTGATAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 13 0.30
33 11 0.25
34 5 0.11
35 15 0.34
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (34 bp):
GGGGAATCTGTTCCCGGGAATCGATACCCCCTGG
Found at i:1738 original size:28 final size:28
Alignment explanation
Indices: 1707--1765 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
1697 TTGATATAAC
1707 AAAACATTTGAGTAATTTTAAGATTTTG
1 AAAACATTTGAGTAATTTTAAGATTTTG
1735 AAAACATTTGAGTAATTTTAAGATTTTG
1 AAAACATTTGAGTAATTTTAAGATTTTG
1763 AAA
1 AAA
1766 TCAAGTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (28 bp):
AAAACATTTGAGTAATTTTAAGATTTTG
Found at i:2845 original size:20 final size:20
Alignment explanation
Indices: 2820--2865 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2810 CAAGTTTATT
2820 TTTCAAATTGAAATTTTCTC
1 TTTCAAATTGAAATTTTCTC
*
2840 TTTCAAATTGAAATTTTCTT
1 TTTCAAATTGAAATTTTCTC
2860 TTTCAA
1 TTTCAA
2866 TACTTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTCAAATTGAAATTTTCTC
Found at i:4286 original size:21 final size:21
Alignment explanation
Indices: 4262--4303 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4252 CCCAGAATGG
*
4262 GGGAATCGGTACCCCGTCATA
1 GGGAATCGATACCCCGTCATA
*
4283 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCGTCATA
4304 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCCGTCATA
Found at i:4452 original size:17 final size:17
Alignment explanation
Indices: 4430--4488 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 17
4420 GGAATCTGTA
4430 CCTGGGGAATCGATACC
1 CCTGGGGAATCGATACC
*
4447 CCTGGGGGGAATCTG-T-TC
1 CCT--GGGGAATC-GATACC
4465 CC-GGGGAATCGATACCC
1 CCTGGGGAATCGATA-CC
4482 CCTGGGG
1 CCTGGGG
4489 GGAATCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
17 6 0.18
18 7 0.21
19 9 0.27
20 1 0.03
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.19
Consensus pattern (17 bp):
CCTGGGGAATCGATACC
Found at i:4491 original size:35 final size:34
Alignment explanation
Indices: 4418--4501 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 34
4408 ACCATGCACA
* *
4418 GGGGAATCTGTACCTGGGGAATCGATACCCCTGG
1 GGGGAATCTGTTCCCGGGGAATCGATACCCCTGG
4452 GGGGAATCTGTTCCCGGGGAATCGATACCCCCTGG
1 GGGGAATCTGTTCCCGGGGAATCGATA-CCCCTGG
*
4487 GGGGAATCTATTCCC
1 GGGGAATCTGTTCCC
4502 CCTGGACAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 25 0.54
35 21 0.46
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.21
Consensus pattern (34 bp):
GGGGAATCTGTTCCCGGGGAATCGATACCCCTGG
Found at i:5142 original size:20 final size:20
Alignment explanation
Indices: 5117--5165 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
5107 ATTGAAGTAG
*
5117 TATCGATACTGAAATGTGAC
1 TATCGATACTGAAATGGGAC
5137 TATCGATACTGAAATGGGAC
1 TATCGATACTGAAATGGGAC
5157 TATCGATAC
1 TATCGATAC
5166 CAAGAGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
TATCGATACTGAAATGGGAC
Found at i:7515 original size:2 final size:2
Alignment explanation
Indices: 7508--7550 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7498 TCAAAACCAA
7508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7550 A
1 A
7551 AGAATTCAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18959 original size:23 final size:23
Alignment explanation
Indices: 18929--19084 Score: 276
Period size: 23 Copynumber: 6.8 Consensus size: 23
18919 GTCCAGGGTT
18929 CTATGTGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
18952 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
18975 CTATGTGGTCATTCGAGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
18998 CTATGTGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
19021 CTATGTGGTCATTCGAGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
19044 CTATGTGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAC
*
19067 CTATGTGGTCCTTCGGGA
1 CTATGTGGTCATTCGGGA
19085 TAAATAGTGG
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 126 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAC
Found at i:20398 original size:27 final size:27
Alignment explanation
Indices: 20334--20405 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
20324 TTTGAATTTA
* *
20334 TATAGTATAAATTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
20361 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
20388 TATAGTGTATAGTTTATA
1 TATAGTATATAGTATATA
20406 GTATATAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATAAAC
Found at i:20400 original size:7 final size:7
Alignment explanation
Indices: 20388--20679 Score: 105
Period size: 7 Copynumber: 43.7 Consensus size: 7
20378 AAATATCAAC
*
20388 TATAGTG
1 TATAGTA
*
20395 TATAGTT
1 TATAGTA
20402 TATAGTA
1 TATAGTA
20409 TATAGTA
1 TATAGTA
*
20416 TATA-AA
1 TATAGTA
20422 TATCA--A
1 TAT-AGTA
20428 CTATAGTA
1 -TATAGTA
*
20436 TATAGTT
1 TATAGTA
20443 TATA-TA
1 TATAGTA
*
20449 TA-AAT-
1 TATAGTA
*
20454 TATAGTT
1 TATAGTA
20461 TATA-TA
1 TATAGTA
*
20467 TATAGTT
1 TATAGTA
*
20474 TTTA-TA
1 TATAGTA
20480 TATAGT-
1 TATAGTA
20486 TCATAGGTA
1 T-ATA-GTA
*
20495 -A-ACTA
1 TATAGTA
20500 TATAGTATA
1 TATAG--TA
*
20509 TATAGTT
1 TATAGTA
20516 TATA-TA
1 TATAGTA
20522 TATAGTA
1 TATAGTA
*
20529 TATA-AA
1 TATAGTA
**
20535 TATTAACA
1 TA-TAGTA
20543 -ATAGTA
1 TATAGTA
*
20549 TATAGTT
1 TATAGTA
20556 TATA-TA
1 TATAGTA
*
20562 TTTA-TA
1 TATAGTA
20568 TACTA-TA
1 TA-TAGTA
20575 TATA-TA
1 TATAGTA
20581 TATA-TA
1 TATAGTA
* *
20587 TAAACTA
1 TATAGTA
20594 TAGTA-TA
1 TA-TAGTA
*
20601 TATAGTT
1 TATAGTA
20608 TATA-TA
1 TATAGTA
20614 TATAGTA
1 TATAGTA
20621 TATAGTA
1 TATAGTA
*
20628 TATA-AA
1 TATAGTA
20634 TATCA--A
1 TAT-AGTA
20640 CTATAGTA
1 -TATAGTA
*
20648 TATAGTT
1 TATAGTA
20655 TATA-TA
1 TATAGTA
*
20661 TATAACTA
1 TAT-AGTA
20669 TATA-TA
1 TATAGTA
20675 TATAG
1 TATAG
20680 AGAGAGAGAG
Statistics
Matches: 223, Mismatches: 30, Indels: 64
0.70 0.09 0.20
Matches are distributed among these distances:
5 5 0.02
6 78 0.35
7 122 0.55
8 11 0.05
9 7 0.03
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (7 bp):
TATAGTA
Found at i:20407 original size:14 final size:14
Alignment explanation
Indices: 20388--20679 Score: 105
Period size: 13 Copynumber: 21.9 Consensus size: 14
20378 AAATATCAAC
* *
20388 TATAGTGTATAGTT
1 TATAGTATATAGTA
20402 TATAGTATATAGTA
1 TATAGTATATAGTA
*
20416 TATA-AATATCA--A
1 TATAGTATAT-AGTA
*
20428 CTATAGTATATAGTT
1 -TATAGTATATAGTA
*
20443 TATA-TATA-AAT-
1 TATAGTATATAGTA
*
20454 TATAGTTTATA-TA
1 TATAGTATATAGTA
* *
20467 TATAGTTTTTA-TA
1 TATAGTATATAGTA
20480 TATAGT-TCATAGGTA
1 TATAGTAT-ATA-GTA
*
20495 -A-ACTATATAGTATA
1 TATAGTATATAG--TA
*
20509 TATAGTTTATA-TA
1 TATAGTATATAGTA
*
20522 TATAGTATATA-AA
1 TATAGTATATAGTA
**
20535 TATTAACA-ATAGTA
1 TA-TAGTATATAGTA
*
20549 TATAGTTTATA-TA
1 TATAGTATATAGTA
*
20562 TTTA-TATACTA-TA
1 TATAGTATA-TAGTA
20575 TATA-TATATA-TA
1 TATAGTATATAGTA
* *
20587 TAAACTATAGTA-TA
1 TATAGTATA-TAGTA
*
20601 TATAGTTTATA-TA
1 TATAGTATATAGTA
20614 TATAGTATATAGTA
1 TATAGTATATAGTA
*
20628 TATA-AATATCA--A
1 TATAGTATAT-AGTA
*
20640 CTATAGTATATAGTT
1 -TATAGTATATAGTA
*
20655 TATA-TATATAACTA
1 TATAGTATAT-AGTA
20669 TATA-TATATAG
1 TATAGTATATAG
20680 AGAGAGAGAG
Statistics
Matches: 215, Mismatches: 34, Indels: 59
0.70 0.11 0.19
Matches are distributed among these distances:
11 4 0.02
12 20 0.09
13 108 0.50
14 74 0.34
15 3 0.01
16 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (14 bp):
TATAGTATATAGTA
Found at i:20412 original size:41 final size:40
Alignment explanation
Indices: 20361--20562 Score: 187
Period size: 41 Copynumber: 5.2 Consensus size: 40
20351 AAATATAAAC
*
20361 TATATTATATAGTATATAAATATCAACTATAGTGTATAGTT
1 TATA-TATATAGTATATAAATATCAACTATAGTATATAGTT
20402 TATAGTATATAGTATATAAATATCAACTATAGTATATAGTT
1 TATA-TATATAGTATATAAATATCAACTATAGTATATAGTT
* *
20443 TATATATA-AAT-TAT-AGT-T----TATA-TATATAGTT
1 TATATATATAGTATATAAATATCAACTATAGTATATAGTT
*
20474 TTTATATATAGTTCATAGGTAAACTAT--A-TAGTA-TATATAGTT
1 TATATATATAG-T-ATA--TAAA-TATCAACTA-TAGTATATAGTT
* *
20516 TATATATATAGTATATAAATATTAACAATAGTATATAGTT
1 TATATATATAGTATATAAATATCAACTATAGTATATAGTT
20556 TATATAT
1 TATATAT
20563 TTATATACTA
Statistics
Matches: 137, Mismatches: 9, Indels: 31
0.77 0.05 0.18
Matches are distributed among these distances:
31 16 0.12
32 5 0.04
33 1 0.01
35 2 0.01
36 1 0.01
37 6 0.04
38 8 0.06
39 6 0.04
40 25 0.18
41 46 0.34
42 21 0.15
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (40 bp):
TATATATATAGTATATAAATATCAACTATAGTATATAGTT
Found at i:20510 original size:2 final size:2
Alignment explanation
Indices: 20498--21113 Score: 130
Period size: 2 Copynumber: 296.5 Consensus size: 2
20488 ATAGGTAAAC
* *
20498 TA TA TA GTA TA TA TA GTT TA TA TA TA TA GTA TA TA AA TA T- TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
20540 -A CA -A TA GTA TA TA GTT TA TA TA TT TA TA TA CTA 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
* *
20581 TA TA TA TA AA CTA TA GTA TA TA TA GTT TA TA TA TA TA GTA TA TA
1 TA TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* *
20625 GTA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA TA TA TA TA -A CTA
1 -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA TA TA TA TA -TA
* * * * * * * * * *
20669 TA TA TA TA TA GA GA GA GA GA GA GA GA GTT TT TA TA TA TA GT- TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA T-A
* * * *
20713 TA TG TA AA CTA TA TA GTA TA TA TA GTT TA TA TA -A TT TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
20755 GTA TA TA AA TA TCA -A CTA TA GTA TA TA -A TA TA TA AA TA TA AA
1 -TA TA TA TA TA T-A TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
20797 CTA TA GTT TA TA GTT TA TA TA TA TA T- TA TA CTA TA TA AA TA GTT
1 -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * * *
20841 TA TA TA GTT TA CA TA TA -A TA TA TA TGG TT TA TA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA TA
* * * * *
20883 TA TA T- TA CTA TG TA CA AA CTA TA TA GTT TA TA TA TA AA T- TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * * * *
20924 TA TA -A AA T- TA CA TA AA T- TA -A T- TC TA AA CCA 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
* * *
20962 TA TA TA TA TA TA TA TA TA TGG T- TCA TA TA TA GA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA -TA TA TA -TA
* *
21005 TA TA TA TA TA GTA TA TA -A TA -A TA T- TA AA TA TA AA CTA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
21046 GTT TA TA TT TA TA TA CTA TA TA TA AA T- TA TA TA TGA -A CTA TG
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA -TA TA
21088 T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21114 TAATTGTTTC
Statistics
Matches: 456, Mismatches: 85, Indels: 146
0.66 0.12 0.21
Matches are distributed among these distances:
1 25 0.05
2 369 0.81
3 62 0.14
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (2 bp):
TA
Found at i:20512 original size:9 final size:9
Alignment explanation
Indices: 20498--20631 Score: 74
Period size: 9 Copynumber: 15.4 Consensus size: 9
20488 ATAGGTAAAC
20498 TATATAGTA
1 TATATAGTA
20507 TATATAG--
1 TATATAGTA
20514 T-T-TA-TA
1 TATATAGTA
20520 TATATAGTA
1 TATATAGTA
*
20529 TATA-AATA
1 TATATAGTA
* *
20537 T-TAACAATA
1 TAT-ATAGTA
*
20546 GTATATAGTT
1 -TATATAGTA
*
20556 TATATA-TT
1 TATATAGTA
*
20564 TATATACTA
1 TATATAGTA
20573 TATATA-TA
1 TATATAGTA
20581 TATATA-TA
1 TATATAGTA
*
20589 AACTATAGTA
1 TA-TATAGTA
20599 TATATAGTTTA
1 TATATAG--TA
20610 TATATA-TA
1 TATATAGTA
20618 GTATATAGTA
1 -TATATAGTA
20628 TATA
1 TATA
20632 AATATCAACT
Statistics
Matches: 102, Mismatches: 7, Indels: 32
0.72 0.05 0.23
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 3 0.03
8 28 0.27
9 49 0.48
10 9 0.09
11 9 0.09
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (9 bp):
TATATAGTA
Found at i:20513 original size:22 final size:22
Alignment explanation
Indices: 20463--20624 Score: 59
Period size: 22 Copynumber: 7.3 Consensus size: 22
20453 TTATAGTTTA
* **
20463 TATATATAGTTTTTATATATAG
1 TATATATAGTGTAAATATATAG
*
20485 T-T-CATAG-GTAAACTATATAG
1 TATATATAGTGTAAA-TATATAG
* *
20505 TATATATAGTTTATATATATAG
1 TATATATAGTGTAAATATATAG
* **
20527 TATATAAATATTAACAATAGTATATAG
1 TATAT--ATAGT-GTAA-A-TATATAG
* *
20554 TTTATATA-TTTATATACTATATA-
1 TATATATAGTGTA-A-A-TATATAG
* *
20577 TATATATA-TATAAA-CTATAG
1 TATATATAGTGTAAATATATAG
* *
20597 TATATATAGTTTATATATATAG
1 TATATATAGTGTAAATATATAG
20619 TATATA
1 TATATA
20625 GTATATAAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
19 6 0.06
20 20 0.19
21 7 0.07
22 29 0.27
23 14 0.13
24 14 0.13
25 4 0.04
26 1 0.01
27 11 0.10
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (22 bp):
TATATATAGTGTAAATATATAG
Found at i:20530 original size:29 final size:29
Alignment explanation
Indices: 20436--20927 Score: 81
Period size: 27 Copynumber: 16.8 Consensus size: 29
20426 AACTATAGTA
* *
20436 TATAGTTTATATATAAATTATAGTTTA-TATA
1 TATAGTTTATATATATAGTATA---TAGTATA
*
20467 TATAGTTTTTATATATAGT-TCATAGGTAAACTA
1 TATAGTTTATATATATAGTAT-ATA-GT--A-TA
*
20500 TATAGTATATATAGTTTATA-TATATAGTATA
1 TATAGT-T-TATA-TATATAGTATATAGTATA
* * *
20531 TA-AATATTA-ACA-ATAGTATATAGTTTA
1 TATAGT-TTATATATATAGTATATAGTATA
20558 TATA-TTTATATACTATA-TATATA-TATA
1 TATAGTTTATATA-TATAGTATATAGTATA
* *
20585 TATAAACTATAGTATATATAGT-T-TA-TATA
1 TAT--AGTTTA-TATATATAGTATATAGTATA
* *
20614 TATAGTATATAGTATATAAATATCAACTA-TAGTA
1 TATAGTTTATA-TATAT-AGTAT--A-TAGTA-TA
*
20648 TATAGTTTATATATATAACTATATA-TATA
1 TATAGTTTATATATAT-AGTATATAGTATA
* ** * * * * **
20677 TAGAG-AGAGAGAGAGAG-AGT-TTTTATA
1 TATAGTTTATATATATAGTA-TATAGTATA
* * * *
20704 TATAGTTCATATGTAAACTATATAGTATA
1 TATAGTTTATATATATAGTATATAGTATA
*
20733 TATAGTTTATATA-AT-TTATATAGTATA
1 TATAGTTTATATATATAGTATATAGTATA
*
20760 TA-A--ATATCA-ACTATAGTATATA--ATA
1 TATAGTTTAT-ATA-TATAGTATATAGTATA
** * * *
20785 TATA-AATATAAACTATAGTTTATAGTTTA
1 TATAGTTTATATA-TATAGTATATAGTATA
* * *
20814 TATA-TATATTATACTATA-TAAATAGTTTA
1 TATAGTTTA-TATA-TATAGTATATAGTATA
* *
20843 TATAGTTTACATATAATA-TATATGGTTTATA
1 TATAGTTTATATAT-ATAGTATATAG--TATA
* * **
20874 TATAGTTTATATAT-TACTATGTACAAACTA
1 TATAGTTTATATATATAGTATATA-GTA-TA
* *
20904 TATAGTTTATATATAAATTATATA
1 TATAGTTTATATATATAGTATATA
20928 AAATTACATA
Statistics
Matches: 349, Mismatches: 61, Indels: 102
0.68 0.12 0.20
Matches are distributed among these distances:
24 4 0.01
25 6 0.02
26 15 0.04
27 76 0.22
28 23 0.07
29 75 0.21
30 49 0.14
31 49 0.14
32 2 0.01
33 22 0.06
34 15 0.04
35 7 0.02
36 6 0.02
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (29 bp):
TATAGTTTATATATATAGTATATAGTATA
Found at i:20615 original size:92 final size:94
Alignment explanation
Indices: 20500--20678 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 94
20490 AGGTAAACTA
20500 TATAGTATATATAGTTTATATATATAGTATATA-A-AT-AT-T-AACAATAGTATATAGTTTATA
1 TATAGTATATATAGTTTATATATATAGTATATAGATATAATATCAACAATAGTATATAGTTTATA
20560 TATTTATATACTATATATATATATATATAAAC
66 TA--TATA-ACTATATATATATATATATAAAC
*
20592 TATAGTATATATAGTTTATATATATAGTATATAGTATATAAATATCAACTATAGTATATAGTTTA
1 TATAGTATATATAGTTTATATATATAGTATATAG-ATAT-AATATCAACAATAGTATATAGTTTA
20657 TATATATAACTATATATATATA
64 TATATATAACTATATATATATA
20679 GAGAGAGAGA
Statistics
Matches: 79, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
92 33 0.42
94 1 0.01
95 2 0.03
96 14 0.18
97 6 0.08
98 1 0.01
99 22 0.28
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (94 bp):
TATAGTATATATAGTTTATATATATAGTATATAGATATAATATCAACAATAGTATATAGTTTATA
TATATAACTATATATATATATATATAAAC
Found at i:20664 original size:20 final size:20
Alignment explanation
Indices: 20388--20664 Score: 128
Period size: 20 Copynumber: 14.2 Consensus size: 20
20378 AAATATCAAC
*
20388 TATAGTGTATAGTTTATAGTA
1 TATAGTATATAGTTTATA-TA
**
20409 TATAGTATATA-AATATCA-A
1 TATAGTATATAGTTTAT-ATA
20428 CTATAGTATATAGTTTATATA
1 -TATAGTATATAGTTTATATA
*
20449 TA-AAT-TATAGTTTATATA
1 TATAGTATATAGTTTATATA
20467 TATAG----T--TTT-TATA
1 TATAGTATATAGTTTATATA
* *
20480 TATAGT-TCATAG-GTAAACTA
1 TATAGTAT-ATAGTTTATA-TA
20500 TATAGTATATATAGTTTATATA
1 TATAG--TATATAGTTTATATA
* *
20522 TATAGTATATAAATATTA-ACA
1 TATAGTATAT-AGT-TTATATA
20543 -ATAGTATATAGTTTATATA
1 TATAGTATATAGTTTATATA
* *
20562 TTTA-TATACTA-TATATATA
1 TATAGTATA-TAGTTTATATA
* * *
20581 TATA-TATAAACTATAGTATA
1 TATAGTATATAGTTTA-TATA
* *
20601 TATAGTTTATA-TATATAGTA
1 TATAGTATATAGTTTATA-TA
**
20621 TATAGTATATA-AATATCA-A
1 TATAGTATATAGTTTAT-ATA
20640 CTATAGTATATAGTTTATATA
1 -TATAGTATATAGTTTATATA
20661 TATA
1 TATA
20665 ACTATATATA
Statistics
Matches: 201, Mismatches: 25, Indels: 61
0.70 0.09 0.21
Matches are distributed among these distances:
13 9 0.04
14 3 0.01
16 1 0.00
17 1 0.00
18 20 0.10
19 34 0.17
20 86 0.43
21 28 0.14
22 15 0.07
23 4 0.02
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (20 bp):
TATAGTATATAGTTTATATA
Found at i:20677 original size:27 final size:27
Alignment explanation
Indices: 20580--20679 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
20570 CTATATATAT
20580 ATATATATAAACTATAGTATATATAGTTT
1 ATATATAT-AACTATA-TATATATAGTTT
*
20609 ATATATAT-AGTATATAGTATATA----
1 ATATATATAACTATATA-TATATAGTTT
* *
20632 A-ATAT-CAACTATA-GTATATAGTTT
1 ATATATATAACTATATATATATAGTTT
20656 ATATATATAACTATATATATATAG
1 ATATATATAACTATATATATATAG
20680 AGAGAGAGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
20 6 0.11
22 9 0.16
23 1 0.02
24 1 0.02
25 4 0.07
26 9 0.16
27 18 0.32
29 8 0.14
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
ATATATATAACTATATATATATAGTTT
Found at i:20779 original size:27 final size:27
Alignment explanation
Indices: 20749--20821 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
20739 TTATATAATT
*
20749 TATATAGTATATAAATATCAACTATAG
1 TATATAGTATATAAATATAAACTATAG
*
20776 TATATAATATATAAATATAAACTATAG
1 TATATAGTATATAAATATAAACTATAG
* * *
20803 TTTATAGTTTATATATATA
1 TATATAGTATATAAATATA
20822 TTATACTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (27 bp):
TATATAGTATATAAATATAAACTATAG
Found at i:20874 original size:13 final size:11
Alignment explanation
Indices: 20841--20887 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
20831 ATAAATAGTT
20841 TATATAGTTTA
1 TATATAGTTTA
* *
20852 CATATA--ATA
1 TATATAGTTTA
*
20861 TATATGGTTTA
1 TATATAGTTTA
20872 TATATAGTTTA
1 TATATAGTTTA
20883 TATAT
1 TATAT
20888 TACTATGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
9 6 0.21
11 22 0.79
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:21014 original size:13 final size:13
Alignment explanation
Indices: 20996--21112 Score: 60
Period size: 13 Copynumber: 8.5 Consensus size: 13
20986 ATATATAGAC
*
20996 TATATAGTTTATA
1 TATATAGTATATA
21009 TATATAGTATATAA
1 TATATAGTATAT-A
* *
21023 TAATATTAAATATAAA
1 T-ATA-T-AGTATATA
*
21039 CTATATAGTTTATA
1 -TATATAGTATATA
*
21053 TTTATA-TACTATA
1 TATATAGTA-TATA
* *
21066 TATAAATTATATA
1 TATATAGTATATA
21079 TGA-ACTATGTTATATA
1 T-ATA-TA-G-TATATA
21095 TATATA-TATATA
1 TATATAGTATATA
21107 TATATA
1 TATATA
21113 TTAATTGTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 25
0.68 0.10 0.21
Matches are distributed among these distances:
12 13 0.16
13 30 0.38
14 11 0.14
15 7 0.09
16 13 0.16
17 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (13 bp):
TATATAGTATATA
Found at i:21036 original size:44 final size:44
Alignment explanation
Indices: 20958--21116 Score: 161
Period size: 44 Copynumber: 3.6 Consensus size: 44
20948 AAACCATATA
* *
20958 TATATATATATATATATATATATGGTTCATATATAGACTATATAGTT
1 TATATATATATATATATATA-AT-ATT-AAATATAGACTATATAGTT
*
21005 TATATATATAGTATATA-ATAATATTAAATATAAACTATATAGTT
1 TATATATATA-TATATATATAATATTAAATATAGACTATATAGTT
* *
21049 TATATTTATATACTATATATAA-ATTATATAT-GA--ACTAT-G-T
1 TATATATATATA-TATATATAATATTAAATATAGACTA-TATAGTT
21089 TATATATATATATATATATATATATTAA
1 TATATATATATATATATATA-ATATTAA
21117 TTGTTTCAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
39 8 0.08
40 13 0.13
41 6 0.06
42 3 0.03
43 3 0.03
44 38 0.39
45 6 0.06
46 2 0.02
47 13 0.13
48 6 0.06
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (44 bp):
TATATATATATATATATATAATATTAAATATAGACTATATAGTT
Found at i:22277 original size:47 final size:47
Alignment explanation
Indices: 22218--22316 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
22208 AAGAAAATAA
*
22218 AAATGCTAACGTGACAATTTAATCATACTTGATTAGAGATTATCTAT
1 AAATACTAACGTGACAATTTAATCATACTTGATTAGAGATTATCTAT
22265 AAATACTAACGTGACAATTTAATCATACTTGATTAGAGATTATCTAT
1 AAATACTAACGTGACAATTTAATCATACTTGATTAGAGATTATCTAT
22312 AAATA
1 AAATA
22317 ATTAAATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (47 bp):
AAATACTAACGTGACAATTTAATCATACTTGATTAGAGATTATCTAT
Found at i:24945 original size:65 final size:65
Alignment explanation
Indices: 24802--24990 Score: 301
Period size: 65 Copynumber: 2.9 Consensus size: 65
24792 GAAATATGTT
*
24802 ATGG-TTGTGTGTTATGCTTGTTCGAGTCAAGTTCAAGCTCAAGC-TTTTTAAGCATTCAGTTCG
1 ATGGTTTGTGTGTTATGTTTGTTCGAGTCAAGTTCAAGCTCAAGCTTTTTTAAGCATTCAGTTCG
** *
24865 ATGGTTCATGTGTTATGTTTGTTCGAGTCAAGTTCAAGTTCAAGCTTTTTTAAGCATTCAGTTCG
1 ATGGTTTGTGTGTTATGTTTGTTCGAGTCAAGTTCAAGCTCAAGCTTTTTTAAGCATTCAGTTCG
* * *
24930 ATGGTTTGTGTGTTATGTTTGTTCAAGTCAAGTTCAAACTCAAGTTTTTTTAAGCATTCAG
1 ATGGTTTGTGTGTTATGTTTGTTCGAGTCAAGTTCAAGCTCAAGCTTTTTTAAGCATTCAG
24991 CTCAACGCAA
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
63 4 0.04
64 36 0.32
65 74 0.65
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (65 bp):
ATGGTTTGTGTGTTATGTTTGTTCGAGTCAAGTTCAAGCTCAAGCTTTTTTAAGCATTCAGTTCG
Found at i:28782 original size:22 final size:22
Alignment explanation
Indices: 28727--28783 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
28717 GCGATTCTAC
28727 CTATCGCATTGCGATTTTCCAA
1 CTATCGCATTGCGATTTTCCAA
* * *
28749 AT-TCGCGTTGCGATTTTCCGA
1 CTATCGCATTGCGATTTTCCAA
*
28770 CTATCGCAATGCGA
1 CTATCGCATTGCGA
28784 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (22 bp):
CTATCGCATTGCGATTTTCCAA
Found at i:28855 original size:20 final size:20
Alignment explanation
Indices: 28768--28886 Score: 116
Period size: 20 Copynumber: 5.9 Consensus size: 20
28758 GCGATTTTCC
28768 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGAATAT
* *
28788 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGAATAT
*
28808 GACTATCGCAAAGCGAATAT
1 GACTATCGCAATGCGAATAT
* *
28828 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGAATAT
* * *
28848 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGAATAT
*
28868 GACTGTCGCAATGCTGAAT
1 GACTATCGCAATGC-GAAT
28887 TTCAAATTCG
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
19 2 0.03
20 73 0.91
21 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (20 bp):
GACTATCGCAATGCGAATAT
Found at i:28881 original size:40 final size:40
Alignment explanation
Indices: 28768--28863 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
28758 GCGATTTTCC
*
28768 GACTATCGCAATGCGAATATGTAAATCGCAATGCGAGTAT
1 GACTATCGCAAAGCGAATATGTAAATCGCAATGCGAGTAT
*
28808 GACTATCGCAAAGCGAATATGTAAATCGCAATGCGATTAT
1 GACTATCGCAAAGCGAATATGTAAATCGCAATGCGAGTAT
*
28848 GACTATCGCAACGCGA
1 GACTATCGCAAAGCGA
28864 TTCTGACTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (40 bp):
GACTATCGCAAAGCGAATATGTAAATCGCAATGCGAGTAT
Found at i:29751 original size:24 final size:24
Alignment explanation
Indices: 29700--29753 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
29690 GTATTCGAAA
*
29700 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
29724 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
29748 TTTGAT
1 TTTGAT
29754 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:29972 original size:14 final size:14
Alignment explanation
Indices: 29943--29978 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
29933 AGAAAAAGAA
29943 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
29958 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
29972 GAAGAAA
1 GAAGAAA
29979 CTGCCACGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:32972 original size:3 final size:3
Alignment explanation
Indices: 32964--33079 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
32954 AATATATATT
* *
32964 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33012 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33060 TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
33080 TGGATAAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33650 original size:113 final size:113
Alignment explanation
Indices: 33398--34074 Score: 1212
Period size: 113 Copynumber: 6.0 Consensus size: 113
33388 AGAATTATGC
* * * *
33398 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
33463 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
*
33510 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
33575 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
33623 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
33688 TATGAACTTTCTCTGGAAAAGTTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
33736 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
33801 TATGAACTTTCTCTGGAAAAGTTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
33849 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
33914 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
33962 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
34027 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
34075 CTTTGCTAAA
Statistics
Matches: 550, Mismatches: 14, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
112 68 0.12
113 482 0.88
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
Found at i:35989 original size:11 final size:10
Alignment explanation
Indices: 35970--36030 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 10
35960 CCTTGACCCC
35970 CTTTCTTTTT
1 CTTTCTTTTT
35980 CTTCTCTTTTT
1 CTT-TCTTTTT
35991 -TTTCTTTTT
1 CTTTCTTTTT
36000 CATTTTCTATTTT
1 C--TTTCT-TTTT
*
36013 TTTTC-TTTT
1 CTTTCTTTTT
36022 CTTT-TTTTT
1 CTTTCTTTTT
36031 TATTTTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
9 18 0.42
10 5 0.12
11 11 0.26
12 5 0.12
13 4 0.09
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:36005 original size:7 final size:6
Alignment explanation
Indices: 35971--36031 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
35961 CTTGACCCCC
* * *
35971 TTTCTT TTTCTT CTCTTTTT TTTCTT TTTCAT TTTCTA TTT-TT TTTC-T
1 TTTCTT TTTCTT -T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
36019 TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TT
36032 ATTTTCTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 13 0.29
6 26 0.58
7 2 0.04
8 4 0.09
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:36005 original size:15 final size:16
Alignment explanation
Indices: 35986--36041 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
35976 TTTTCTTCTC
*
35986 TTTTTTTTCTTTTTCA
1 TTTTCTTTCTTTTTCA
*
36002 TTTTCTATTTTTTTTC-
1 TTTTCT-TTCTTTTTCA
*
36018 TTTTCTTT-TTTTTTA
1 TTTTCTTTCTTTTTCA
36033 TTTTCTTTC
1 TTTTCTTTC
36042 AAGCATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.15
15 10 0.29
16 11 0.32
17 8 0.24
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTTCA
Found at i:36012 original size:23 final size:21
Alignment explanation
Indices: 35971--36040 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 21
35961 CTTGACCCCC
*
35971 TTTCTTTTTCTTCTC-TTTTT
1 TTTCTTTTTCTTTTCTTTTTT
35991 TTTCTTTTTCATTTTCTATTTTT
1 TTTCTTTTTC-TTTTCT-TTTTT
36014 TTTC-TTTTCTTTT-TTTTTAT
1 TTTCTTTTTCTTTTCTTTTT-T
36034 TTTCTTT
1 TTTCTTT
36041 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.09
20 16 0.36
21 10 0.23
22 5 0.11
23 9 0.20
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTCTTTTTCTTTTCTTTTTT
Found at i:36014 original size:16 final size:16
Alignment explanation
Indices: 35971--36040 Score: 76
Period size: 15 Copynumber: 4.4 Consensus size: 16
35961 CTTGACCCCC
*
35971 TTTCTTTTTCTTCTC-T
1 TTTCTTTTT-TTTTCAT
35987 TTT-TTTTCTTTTTCAT
1 TTTCTTTT-TTTTTCAT
36003 TTTCTATTTTTTTTC-T
1 TTTCT-TTTTTTTTCAT
36019 TTTCTTTTTTTTT-AT
1 TTTCTTTTTTTTTCAT
36034 TTTCTTT
1 TTTCTTT
36041 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
15 24 0.50
16 14 0.29
17 7 0.15
18 3 0.06
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTTTTTCAT
Found at i:46654 original size:13 final size:15
Alignment explanation
Indices: 46632--46668 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
46622 TTTGACAGAA
46632 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
46644 AAATAAAATACTTGC
1 AAATAAAATACTTGC
46659 AAATAAAATA
1 AAATAAAATA
46669 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:48836 original size:3 final size:3
Alignment explanation
Indices: 48828--48922 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
48818 AATATATATT
*
48828 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
48876 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48923 TGGATAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50038 original size:18 final size:18
Alignment explanation
Indices: 50015--50049 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50005 AGCAAAAGGC
*
50015 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
50033 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
50050 CAACTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:50252 original size:20 final size:20
Alignment explanation
Indices: 50227--50521 Score: 250
Period size: 20 Copynumber: 15.7 Consensus size: 20
50217 CACATTCATT
50227 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
50247 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* * *
50267 TGAATATCACAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
50284 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
50301 TGACTATCGCAACGCAAATT
1 TGACTATCGCAACGCGAATA
*
50321 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* * *
50338 T-A--ATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAATA
* *
50355 TGACTATCGCAACGAGAAAA
1 TGACTATCGCAACGCGAATA
50375 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
50395 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
50415 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
50435 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
50452 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
50468 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
50488 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
50508 TGACTATCGCAACG
1 TGACTATCGCAACG
50522 AGAAAATCGT
Statistics
Matches: 223, Mismatches: 33, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
14 22 0.10
15 1 0.00
16 7 0.03
17 10 0.04
18 4 0.02
19 14 0.06
20 165 0.74
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:50298 original size:54 final size:54
Alignment explanation
Indices: 50232--50504 Score: 332
Period size: 54 Copynumber: 5.0 Consensus size: 54
50222 TCATTTGACT
* * * *
50232 ATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCACAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
* *
50286 ATCGCAATGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
* * * ** *
50340 ATCGCAATGCAAAAATGACTATCGCAACGAGAAAATGACTATCGCAACGCGAATATGA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACG-G--GAT-A
** * *
50398 CTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 --ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
*
50454 ATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGA
50505 ATTTGACTAT
Statistics
Matches: 186, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
53 35 0.19
54 103 0.55
55 1 0.01
56 1 0.01
57 4 0.02
58 1 0.01
60 41 0.22
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (54 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
Found at i:50500 original size:73 final size:74
Alignment explanation
Indices: 50380--50530 Score: 259
Period size: 73 Copynumber: 2.1 Consensus size: 74
50370 GAAAATGACT
50380 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
*
50445 AACGAGATA
66 AACGAGAAA
* * *
50454 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGC
1 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
50518 AACGAGAAA
66 AACGAGAAA
50527 ATCG
1 ATCG
50531 TAAAGTGTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 60 0.82
74 13 0.18
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (74 bp):
ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
AACGAGAAA
Found at i:50559 original size:93 final size:93
Alignment explanation
Indices: 50286--50526 Score: 279
Period size: 94 Copynumber: 2.6 Consensus size: 93
50276 CAACGGGATA
* * * * *
50286 ATCGCAATGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGGGATAATCG-CAAT-G
1 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGAGA-AATCGACAATCG
** * *
50349 CAAAAATGACTATCGCAACGAGAAAATGACT
65 CAACGA-GACAATCGCAACGCG-AAATGACT
* * * *
50380 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGAGAAATCGACAATCGC
*
50445 AACGAGATAATCGCAACGCGAAATGACT
66 AACGAGACAATCGCAACGCGAAATGACT
* * * *
50473 ATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGAGAAA
50527 ATCGTAAAGT
Statistics
Matches: 126, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
93 59 0.47
94 62 0.49
95 5 0.04
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (93 bp):
ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGCAACGAGAAATCGACAATCGC
AACGAGACAATCGCAACGCGAAATGACT
Found at i:50697 original size:36 final size:34
Alignment explanation
Indices: 50656--50735 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
50646 TCAACTTTTA
50656 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
50692 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
*
50722 ATAAATTAAACAAA
1 ATCAATTAAACAAA
50736 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:50705 original size:30 final size:30
Alignment explanation
Indices: 50671--50736 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
50661 TTAAACAAGC
*
50671 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
50701 ACAAATAAGAATTATTTACACATAAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
50731 ACAAAT
1 ACAAAT
50737 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATAAATTAA
Found at i:52205 original size:21 final size:21
Alignment explanation
Indices: 52181--52239 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
52171 AGGGATGATA
52181 GAGGCCTCTTGAACGATAGGG
1 GAGGCCTCTTGAACGATAGGG
52202 GAGGCCTCTTGAACGATAGGG
1 GAGGCCTCTTGAACGATAGGG
52223 GAGGCCTCTTGAACGAT
1 GAGGCCTCTTGAACGAT
52240 GATAGGTGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (21 bp):
GAGGCCTCTTGAACGATAGGG
Found at i:52839 original size:18 final size:19
Alignment explanation
Indices: 52815--52856 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
52805 GCATTGCGAT
* *
52815 TTTTTCGTTGCGATAGTCA
1 TTTTCCGTTGCCATAGTCA
52834 TTTTCGCGTTGCCATAGTCA
1 TTTTC-CGTTGCCATAGTCA
52854 TTT
1 TTT
52857 CCACGTTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (19 bp):
TTTTCCGTTGCCATAGTCA
Found at i:52863 original size:20 final size:20
Alignment explanation
Indices: 52820--52865 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52810 GCGATTTTTT
* * *
52820 CGTTGCGATAGTCATTTTCG
1 CGTTGCCATAGTCATTTCCA
52840 CGTTGCCATAGTCATTTCCA
1 CGTTGCCATAGTCATTTCCA
52860 CGTTGC
1 CGTTGC
52866 GAAAGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCCATAGTCATTTCCA
Found at i:53038 original size:18 final size:18
Alignment explanation
Indices: 53015--53064 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
53005 TTTACTAAGC
53015 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
53033 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
53051 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
53065 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:54774 original size:20 final size:20
Alignment explanation
Indices: 54751--54807 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
54741 TCTGAAACTT
*
54751 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
54771 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
54791 ACTATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
54808 CTAAAATCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.51, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:55230 original size:22 final size:22
Alignment explanation
Indices: 55203--55256 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
55193 TGAGATAGAT
55203 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCGCCGGAGATGGGGAC
* *
55225 TGATTTCGTCGGAGATGGGGAC
1 GGATTTCGCCGGAGATGGGGAC
*
55247 GGATGTCGCC
1 GGATTTCGCC
55257 TTAGAGAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.43, T:0.22
Consensus pattern (22 bp):
GGATTTCGCCGGAGATGGGGAC
Found at i:55471 original size:20 final size:20
Alignment explanation
Indices: 55421--55598 Score: 198
Period size: 20 Copynumber: 8.9 Consensus size: 20
55411 GCGCTTTGAA
* *
55421 AATCGCATTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAT
** * *
55441 AATTACGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
55461 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
55481 AATCGCATTGCAATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
55501 AATCGCATTGCAATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
55521 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
* *
55541 ATTCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAT
* *
55561 ACTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
*
55581 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
55599 GGAAAATCGC
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 131 0.97
21 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAT
Found at i:56881 original size:22 final size:22
Alignment explanation
Indices: 56828--56884 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
56818 AATATCTATT
* *
56828 AATAAAAATTATAAAATTATAA
1 AATAAAAAATATAAAATAATAA
* ** *
56850 ATTACTAAATATAATATAATAA
1 AATAAAAAATATAAAATAATAA
56872 AATAAAAAATATA
1 AATAAAAAATATA
56885 TATCCACATA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAAAATATAAAATAATAA
Found at i:60785 original size:67 final size:68
Alignment explanation
Indices: 60666--60796 Score: 246
Period size: 67 Copynumber: 1.9 Consensus size: 68
60656 CTAATTTTTC
60666 AATTCCATCTCTAACACCTTTTTTTTTTGTTTTTTTATTCGTCTCTGATTCTTAACAGGGAGACC
1 AATTCCATCTCTAACACCTTTTTTTTTTGTTTTTTTATTCGTCTCTGATTCTTAACAGGGAGACC
60731 AAA
66 AAA
*
60734 AATTCCATCTCTAACACC-TTTTTTTTTGTTTTTTTATTTGTCTCTGATTCTTAACAGGGAGAC
1 AATTCCATCTCTAACACCTTTTTTTTTTGTTTTTTTATTCGTCTCTGATTCTTAACAGGGAGAC
60797 AAACTCGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
67 44 0.71
68 18 0.29
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (68 bp):
AATTCCATCTCTAACACCTTTTTTTTTTGTTTTTTTATTCGTCTCTGATTCTTAACAGGGAGACC
AAA
Found at i:61598 original size:21 final size:20
Alignment explanation
Indices: 61541--61613 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 20
61531 TTTTCACAAT
** *
61541 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATTGGAAAA
61561 TCGCAATGCGAAATTGGAAAA
1 TCGCAATGCG-AATTGGAAAA
61582 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TTGGAAAA
61603 TCGCAATGCGA
1 TCGCAATGCGA
61614 TACTGACTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
20 12 0.25
21 36 0.75
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATTGGAAAA
Found at i:61657 original size:21 final size:21
Alignment explanation
Indices: 61633--61716 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
61623 TCGCAATACA
*
61633 ATTTTCCTAATTCGCATTGCG
1 ATTTTCATAATTCGCATTGCG
* *
61654 A-TTT-ATGTATTCGCGTTGCG
1 ATTTTCAT-AATTCGCATTGCG
*
61674 ATTTTCATAATTCGCGTTGCG
1 ATTTTCATAATTCGCATTGCG
*
61695 ATTTTCATAATTCGCAATGCG
1 ATTTTCATAATTCGCATTGCG
61716 A
1 A
61717 ATATGTAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 15 0.28
21 36 0.67
22 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (21 bp):
ATTTTCATAATTCGCATTGCG
Found at i:61756 original size:20 final size:20
Alignment explanation
Indices: 61706--61799 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
61696 TTTTCATAAT
*
61706 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATAAGTAAA
* * *
61726 TCGAAACGCGATTAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
61746 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
* * *
61767 TCGTAATACGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
61787 TCGCAATGCGAAT
1 TCGCAATGCGAAT
61800 CTGACTATCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 42 0.72
21 16 0.28
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:61768 original size:41 final size:41
Alignment explanation
Indices: 61706--61799 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
61696 TTTTCATAAT
* * * *
61706 TCGCAATGCGAA-TATGTAAATCGAAACGCGATTAAGTAAA
1 TCGCAATGCGAATTAGGAAAATCGAAACACGAATAAGTAAA
* * *
61746 TCGCAATGCGAATTAGGAAAATCGTAATACGAATACGTAAA
1 TCGCAATGCGAATTAGGAAAATCGAAACACGAATAAGTAAA
61787 TCGCAATGCGAAT
1 TCGCAATGCGAAT
61800 CTGACTATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 12 0.26
41 34 0.74
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (41 bp):
TCGCAATGCGAATTAGGAAAATCGAAACACGAATAAGTAAA
Found at i:62497 original size:52 final size:53
Alignment explanation
Indices: 62419--62521 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
62409 ATTGCAATTT
**
62419 TCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTT-CGCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAG
62471 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGAT
62522 TTTCATTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 37 0.77
53 11 0.23
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (53 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAG
Found at i:62527 original size:20 final size:19
Alignment explanation
Indices: 62405--62550 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
62395 GAAACCAAAA
* *
62405 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
62424 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
62438 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
62457 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
62476 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
62490 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
62509 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
* **
62529 ATCTCAATGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
62549 TC
1 TC
62551 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
14 20 0.20
16 5 0.05
17 5 0.05
19 39 0.39
20 30 0.30
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:64426 original size:94 final size:93
Alignment explanation
Indices: 64235--64610 Score: 616
Period size: 94 Copynumber: 4.1 Consensus size: 93
64225 TAGATTGCTT
* *
64235 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
64296 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
64325 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
64390 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
64419 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
64484 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
64513 AGTAAATTTGTTCGTTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
64578 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
64606 AGTAA
1 AGTAA
64611 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
90 35 0.13
92 3 0.01
93 28 0.10
94 206 0.76
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:64735 original size:19 final size:19
Alignment explanation
Indices: 64697--64737 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
64687 TGTCTTTTGG
* **
64697 TTTCGTGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
64716 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATAGTCA
64735 TTT
1 TTT
64738 TTCACGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:65230 original size:42 final size:42
Alignment explanation
Indices: 65154--65272 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
65144 GAATCGCCTG
* * * * * * *
65154 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
65196 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
65238 TCA-TCTTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
65273 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:65271 original size:21 final size:20
Alignment explanation
Indices: 65212--65272 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
65202 CTCGAGAGTC
*
65212 CCCTCCCACCGTTCAAGAGG
1 CCCTCCCACCATTCAAGAGG
** * * *
65232 CCACTGTCATCTTTGAAGAGG
1 CC-CTCCCACCATTCAAGAGG
65253 TCCCTCCCACCATTCAAGAG
1 -CCCTCCCACCATTCAAGAG
65273 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (20 bp):
CCCTCCCACCATTCAAGAGG
Found at i:66633 original size:14 final size:14
Alignment explanation
Indices: 66614--66649 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
66604 ATTGTTTAAT
66614 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
66628 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
66642 TGATTTGT
1 TGATTTGT
66650 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:66801 original size:33 final size:33
Alignment explanation
Indices: 66756--66849 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
66746 AAAAATGGCT
* *
66756 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
66789 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
66822 ATCACAATGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
66850 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:66815 original size:19 final size:19
Alignment explanation
Indices: 66756--66816 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
66746 AAAAATGGCT
*
66756 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
66775 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
66789 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
66808 ATCGCAACG
1 ATCGCAACG
66817 ACAAAATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:66871 original size:19 final size:19
Alignment explanation
Indices: 66788--66864 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
66778 GCAACGAGAG
*
66788 AATCGCAACGCGAAA-TGAA
1 AATCGCAATGCGAAACT-AA
66807 AATCGCAA--CG--AC-AA
1 AATCGCAATGCGAAACTAA
*
66821 AATCACAATGCGAAACTAA
1 AATCGCAATGCGAAACTAA
*
66840 AATCGCAACGCGAAACTAA
1 AATCGCAATGCGAAACTAA
*
66859 ATTCGC
1 AATCGC
66865 GTTGCGATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 9 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 32 0.67
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAACTAA
Found at i:66882 original size:19 final size:19
Alignment explanation
Indices: 66860--66977 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
66850 CGAAACTAAA
66860 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
66879 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
66894 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
66912 TTCGCATTACGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
66927 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
66945 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
66964 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
66978 AGACATTAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
14 16 0.22
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:66906 original size:33 final size:33
Alignment explanation
Indices: 66864--66957 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
66854 ACTAAATTCG
*
66864 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
66897 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
66930 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
66958 AGTCATTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:66976 original size:20 final size:19
Alignment explanation
Indices: 66930--66984 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
66920 ACGATTCTCT
**
66930 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
66949 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
66969 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
66985 AAGATTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:67023 original size:20 final size:20
Alignment explanation
Indices: 66951--67023 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
66941 TCATTTCGCA
*
66951 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* ** *
66971 TTGCGATAGACA-TTAAGATTA
1 TTGCGATAGTCATTTCCG--TG
66992 TTGCGA-ACGTCATTTCCGTG
1 TTGCGATA-GTCATTTCCGTG
67012 TTGCGATAGTCA
1 TTGCGATAGTCA
67024 AATGATTGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.08
20 23 0.59
21 10 0.26
22 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:69303 original size:12 final size:12
Alignment explanation
Indices: 69286--69310 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69276 TCTTCGGGGA
69286 CTTTTTCTTCTT
1 CTTTTTCTTCTT
69298 CTTTTTCTTCTT
1 CTTTTTCTTCTT
69310 C
1 C
69311 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:69519 original size:24 final size:24
Alignment explanation
Indices: 69485--69538 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
69475 CTGAAACATC
*
69485 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
69509 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
69533 ATCAAA
1 ATCAAA
69539 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:70312 original size:41 final size:41
Alignment explanation
Indices: 70259--70434 Score: 140
Period size: 41 Copynumber: 4.3 Consensus size: 41
70249 GAACTTTGAA
* * *
70259 AATCGCATTGCGATTTTGTATTATCTCATTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* ** ** *
70300 AATCTCGTTGCGA--AAGTCAGAATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGATTTTGT-ATTATCGCGTTGCGATAGTCAG
*
70340 TATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* *** ** * ** * *
70381 TATCGCAACGCGAAATTGGAAAATCGCATTGCGATAGTCAT
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
70422 AATCGCGTTGCGA
1 AATCGCGTTGCGA
70435 ATCTGGAAAC
Statistics
Matches: 102, Mismatches: 30, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
39 2 0.02
40 28 0.27
41 70 0.69
42 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
Found at i:70386 original size:20 final size:20
Alignment explanation
Indices: 70287--70386 Score: 112
Period size: 20 Copynumber: 5.0 Consensus size: 20
70277 TATTATCTCA
* *
70287 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGTATCGCG
* *
70307 TTGCGAAAGTCAGAATCGCG
1 TTGCGATAGTCAGTATCGCG
*
70327 TTGCGAAAGTCAGTATCGCG
1 TTGCGATAGTCAGTATCGCG
* *
70347 TTGCGATTTTGT-ATTATCGCG
1 TTGCGA--TAGTCAGTATCGCG
70368 TTGCGATAGTCAGTATCGC
1 TTGCGATAGTCAGTATCGC
70387 AACGCGAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.04
20 50 0.72
21 14 0.20
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGTATCGCG
Found at i:83861 original size:16 final size:17
Alignment explanation
Indices: 83823--83868 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
83813 TGTTTATGAG
83823 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
83841 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
83857 GGAATTGGAATC
1 GGAATTGGAATC
83869 CAATTCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:84532 original size:37 final size:38
Alignment explanation
Indices: 84456--84539 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
84446 CGAACCCAAT
84456 CCGACCCGACCCGAATATCACACTTAAAAAAACTCGAC
1 CCGACCCGACCCGAATATCACACTTAAAAAAACTCGAC
* *
84494 CCGACTCGACCTGAATATCACACTT-AAAAAAC-CAGAC
1 CCGACCCGACCCGAATATCACACTTAAAAAAACTC-GAC
84531 CCGACCCGA
1 CCGACCCGA
84540 ACAAAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 18 0.43
38 23 0.55
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (38 bp):
CCGACCCGACCCGAATATCACACTTAAAAAAACTCGAC
Found at i:84996 original size:255 final size:252
Alignment explanation
Indices: 84507--85053 Score: 789
Period size: 255 Copynumber: 2.1 Consensus size: 252
84497 ACTCGACCTG
* * *
84507 AATATCACACTTAAAAAACCAGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCAATCCGAA
1 AATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCAACCCGAA
*
84572 TACATGAATTAGAAATTCGACCCGACCCGAAATAATAAAAAAAAAATTTATTTAATAAAAACAGT
66 TACATGAATTAGAAATT----CCGACCCGAAATAATAAAAAAAAAATTTATTTAATAAAAACAAT
* * *
84637 AACTTAATTGAAAAAAACTATATATAGAGGGGTATTATTGTAATTATTTCTAAATATATAAGATA
127 AACTTAATTGAAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGATA
* *
84702 AAATTATATATATTTTCGGGTCTGATTTTTTTCACCCTAAACCC-AACCCGACCCGTCCCT
192 AAATTATATATATTTTCGGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCCGGCCCA
*
84762 AATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCGACCCGAA
1 AATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCAACCCGAA
* * ** *
84827 TATATGAATTAGAAA-T-CGACCCGAAATAATAAAAAAGTATTTTTATTTAATAAAAACAATGAC
66 TACATGAATTAGAAATTCCGACCCGAAATAATAAAAAA-AAAATTTATTTAATAAAAACAATAAC
84890 TTAATTGAAAAAAAATATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAA-AGTA
130 TTAATTG-AAAAAAA-ATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGA-TA
*
84954 AAATTATATATATTTTCGGGTCGGTCCGATTTTTTT-ACCCTAAACCCGAACTCGACCCGGCCCA
192 AAATTATATATATTTTCGGGTC--T--GATTTTTTTCACCCTAAACCCGAACCCGACCCGGCCCA
85018 AATATCACACTTAAAAAAACCCGACCCCGACCCGAA
1 AATATCACACTT-AAAAAACCCGA-CCCGACCCGAA
85054 TATATGAATT
Statistics
Matches: 265, Mismatches: 16, Indels: 19
0.88 0.05 0.06
Matches are distributed among these distances:
249 20 0.08
250 28 0.11
251 8 0.03
252 65 0.25
254 2 0.01
255 86 0.32
256 34 0.13
257 11 0.04
258 11 0.04
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.27
Consensus pattern (252 bp):
AATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCAACCCGAA
TACATGAATTAGAAATTCCGACCCGAAATAATAAAAAAAAAATTTATTTAATAAAAACAATAACT
TAATTGAAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGATAAAAT
TATATATATTTTCGGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCCGGCCCA
Found at i:90412 original size:23 final size:23
Alignment explanation
Indices: 90377--90449 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
90367 ATACTTTACA
* *
90377 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
90400 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
90423 ATATTAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
90446 ATAT
1 ATAT
90450 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:90450 original size:23 final size:23
Alignment explanation
Indices: 90386--90450 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
90376 AATATAAGCA
*
90386 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATTAACG
90409 CTACCTATTACATTATATTAACG
1 CTACCTATTACATTATATTAACG
*
90432 CTACCTATTACATCATATT
1 CTACCTATTACATTATATT
90451 TTTACCTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATTAACG
Found at i:90902 original size:23 final size:23
Alignment explanation
Indices: 90867--90939 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
90857 ATACTTTACA
*
90867 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
90890 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
90913 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
90936 ATAT
1 ATAT
90940 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:91057 original size:490 final size:489
Alignment explanation
Indices: 89978--91098 Score: 2077
Period size: 490 Copynumber: 2.3 Consensus size: 489
89968 TAATATGTTA
* * *
89978 AAAGTGTCTATACTTTTTTATAAAAAAGATCGATATTTTTTTTAAAGTTATGTAATTTATATTTC
1 AAAGTGTCTATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
* *
90043 AA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAACAATTTCATTTACACAA
65 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
90107 AAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAA
130 AAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAA
*
90172 CTAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
195 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
* * *
90237 GTAACGTAAAAAATAAATCATTTGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
260 GTAACGTAAAAAATAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTCAA
*
90302 AAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
325 AAGATAACATTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
90367 ATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACG
390 ATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACG
90432 CTACCTATTACATCATATTTTTACCTATTATATTG
455 CTACCTATTACATCATATTTTTACCTATTATATTG
90467 AAAGTGTCTATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
90531 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
*
90596 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAA
130 AAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAA
90661 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
195 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
*
90726 GTAACGTAAAAAATAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCATTTCA
260 GTAACGTAAAAAATAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCA-CTCA
90791 AAAGATAACATTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
324 AAAGATAACATTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
90856 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATA-TAAG
389 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAA-
90920 CGCTACCTATTACATCATATTTTTACCTATTATATTG
453 CGCTACCTATTACATCATATTTTTACCTATTATATTG
90957 AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
91022 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
91087 AAATTATTTGAT
131 AAATTATTTGAT
91099 GGTATATTTA
Statistics
Matches: 615, Mismatches: 12, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
487 29 0.05
488 20 0.03
489 261 0.42
490 275 0.45
491 30 0.05
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (489 bp):
AAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
AAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCG
TAACGTAAAAAATAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTCAAA
AGATAACATTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
TACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATTAACGC
TACCTATTACATCATATTTTTACCTATTATATTG
Found at i:91306 original size:183 final size:183
Alignment explanation
Indices: 91099--91612 Score: 845
Period size: 183 Copynumber: 2.8 Consensus size: 183
91089 ATTATTTGAT
* *
91099 GGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTAT
1 GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTAT
*
91164 AAATGTCGACACTTTTTTAAATGGCATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGA
66 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGA
*
91229 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCGCTAATAAAACC
131 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTAATAAAACC
*
91282 GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGT
1 GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTAT
*
91347 AAATGTCGACACTTTTTTAAATGGTATCGACACATATTTCTTCCAATCTGGACATAAAGTTCCGA
66 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGA
* *
91412 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTTGCTCATAAAACC
131 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTAATAAAACC
*
91465 AGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCT-GGTTCCGATGTTT
1 GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---
* * * * *
91529 TTTCAA--TCGACACTTTTTTAAATGGTGTCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
63 TATAAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTC
*
91592 AGACACAATATTAAAAAGTGT
128 CGACACAATATTAAAAAGTGT
91613 GAAAACTTTG
Statistics
Matches: 312, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
182 10 0.03
183 298 0.96
185 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (183 bp):
GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTAT
AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCCGA
CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTAATAAAACC
Found at i:94003 original size:33 final size:33
Alignment explanation
Indices: 93966--94031 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
93956 CATCTTAATA
*
93966 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
93999 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
94032 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:94090 original size:21 final size:21
Alignment explanation
Indices: 94065--94129 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
94055 CCCCTTATGC
* *
94065 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
94086 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
94107 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
94128 CT
1 CT
94130 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:96191 original size:24 final size:24
Alignment explanation
Indices: 96154--96206 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
96144 CCGTTCTATC
96154 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
96178 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
96202 TATTT
1 TATTT
96207 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:96401 original size:20 final size:19
Alignment explanation
Indices: 96351--96406 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
96341 TCCGGTATCA
*
96351 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
96370 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
96391 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
96407 GTTGTGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:96559 original size:20 final size:20
Alignment explanation
Indices: 96532--96578 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
96522 TCCAGTAACG
96532 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
96551 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
96572 TTTTACC
1 TTTTACC
96579 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:96622 original size:181 final size:182
Alignment explanation
Indices: 96318--96790 Score: 700
Period size: 181 Copynumber: 2.6 Consensus size: 182
96308 CGTACTTACG
* * * *
96318 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACATGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* *
96383 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
96448 AGG-CGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
96499 AAAGTATCGACACTTTCAATATATCCAGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* *
96564 TATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
96629 AGGACTTAAAACTGATTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGACCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * *
96681 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACAGGTT
* * * *
96745 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
96791 AATTTGGATC
Statistics
Matches: 263, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 169 0.64
182 94 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:98385 original size:21 final size:21
Alignment explanation
Indices: 98361--98409 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
98351 AAATGATAAA
98361 CGAAAACAACGACCAAACGAC
1 CGAAAACAACGACCAAACGAC
98382 CGAAAACAACGACCAAACGAC
1 CGAAAACAACGACCAAACGAC
98403 CGAAAAC
1 CGAAAAC
98410 GTGCCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.53, C:0.33, G:0.14, T:0.00
Consensus pattern (21 bp):
CGAAAACAACGACCAAACGAC
Found at i:104309 original size:103 final size:103
Alignment explanation
Indices: 103986--104301 Score: 569
Period size: 103 Copynumber: 3.1 Consensus size: 103
103976 GGGTCTACGC
103986 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
104051 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
104089 GGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
104154 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
104192 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATATTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * * *
104257 CCCTAGTATATGTATATAATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
104295 AGTCCTT
1 GGTCCTT
104302 ATGGACATTA
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 205 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:104351 original size:23 final size:23
Alignment explanation
Indices: 104318--104385 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
104308 ATTATTATAT
*
104318 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
104341 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
104364 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
104386 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:104433 original size:16 final size:17
Alignment explanation
Indices: 104414--104447 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
104404 GTGCACAACC
104414 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
104430 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
104447 T
1 T
104448 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:109584 original size:103 final size:103
Alignment explanation
Indices: 109261--109576 Score: 571
Period size: 103 Copynumber: 3.1 Consensus size: 103
109251 GGGTCTACGC
109261 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
109326 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
109364 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
109429 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
109467 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * * *
109532 CAC-TAGTATATGTATATAATTCTTAAGCAATGATATGT
66 C-CTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
109570 AGTCCTT
1 GGTCCTT
109577 ATGGACATTA
Statistics
Matches: 207, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
103 206 1.00
104 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:109620 original size:23 final size:23
Alignment explanation
Indices: 109593--109660 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
109583 ATTATTATAT
109593 GGCACTATGGTGCAATTCTACGC
1 GGCACTATGGTGCAATTCTACGC
** *
109616 GGCACTCCGGTGCAATTCTACGT
1 GGCACTATGGTGCAATTCTACGC
* *
109639 GGCACTTTGGTGCAATTATACG
1 GGCACTATGGTGCAATTCTACG
109661 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTATGGTGCAATTCTACGC
Found at i:112919 original size:23 final size:22
Alignment explanation
Indices: 112871--112919 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
112861 CCAGAATGTC
112871 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
112892 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
112915 AAGGA
1 AAGGA
112920 AAATTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:114857 original size:103 final size:103
Alignment explanation
Indices: 114534--114849 Score: 571
Period size: 103 Copynumber: 3.1 Consensus size: 103
114524 GGGTCTACGC
114534 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
114599 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
114637 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
114702 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
114740 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * * *
114805 CAC-TAGTATATGTATATAATTCTTAAGCAATGATATGT
66 C-CTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
114843 AGTCCTT
1 GGTCCTT
114850 ATGGACATTA
Statistics
Matches: 207, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
103 206 1.00
104 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:114893 original size:23 final size:23
Alignment explanation
Indices: 114866--114933 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
114856 ATTATTATAT
114866 GGCACTATGGTGCAATTCTACGC
1 GGCACTATGGTGCAATTCTACGC
** *
114889 GGCACTCCGGTGCAATTCTACGT
1 GGCACTATGGTGCAATTCTACGC
* *
114912 GGCACTTTGGTGCAATTATACG
1 GGCACTATGGTGCAATTCTACG
114934 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTATGGTGCAATTCTACGC
Found at i:118195 original size:23 final size:22
Alignment explanation
Indices: 118147--118195 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
118137 CCAGAATGTC
118147 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
118168 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
118191 AAGGA
1 AAGGA
118196 AAATTGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:120132 original size:103 final size:103
Alignment explanation
Indices: 119809--120124 Score: 569
Period size: 103 Copynumber: 3.1 Consensus size: 103
119799 GGGTCTACGC
119809 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
119874 CCTTGGCCTATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
* *
119912 GGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
119977 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
120015 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
120080 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
*
120118 AGTCCTT
1 GGTCCTT
120125 ATGGACATTA
Statistics
Matches: 204, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 204 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:120167 original size:23 final size:23
Alignment explanation
Indices: 120141--120208 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
120131 ATTATTATAT
* *
120141 GGCACTACGGTGTAATTCTATGC
1 GGCACTACGGTGCAATTCTACGC
* *
120164 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
120187 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
120209 AGCTATAGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:124430 original size:55 final size:55
Alignment explanation
Indices: 124367--124668 Score: 306
Period size: 55 Copynumber: 5.6 Consensus size: 55
124357 GACGAGCCTT
*
124367 CTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATAAAATGTGTCTG
1 CTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAATGTGTCCG
* * * *
124422 CTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAATGGGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-ATAAAATGTGTCCG
* *
124478 CTCTCTATTCCTTCAGAGAGTAT-AGAACTCCGAA-AATCTTCAATAAACA--CGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAG-ACT-CGAACAATCTTC-ATAAA-ATGTGTCCG
* * ** *
124533 CTCCCTATTCTTTCAGAGAGTATATGACT----CAATCTTTTTAACAAACGTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAT-A-AAATGTGTCCG
* *
124586 CTCCCAATTCCTTCAGAGAGTATAGGACTCG----ATCTTCATAAAATGTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAATGTGTCCG
*
124637 CTCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGA
124669 TCTTCAACGA
Statistics
Matches: 212, Mismatches: 21, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
50 1 0.00
51 48 0.23
52 3 0.01
53 37 0.17
55 67 0.32
56 52 0.25
57 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (55 bp):
CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAATGTGTCCG
Found at i:124541 original size:111 final size:106
Alignment explanation
Indices: 124367--124665 Score: 299
Period size: 111 Copynumber: 2.8 Consensus size: 106
124357 GACGAGCCTT
* *
124367 CTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTAT
1 CTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAA-AATCTTCATAAAA-GTGTCCGCTCCCTAT
*
124430 TCATTCAGAGAGTATAAGACTTGAACAATC-TTCAATAAAATGGGTCCG
62 TCATTCAGAGAGTATAAGACTT---CAATCTTTCAA-AAAACGGGTCCG
* *
124478 CTCTCTATTCCTTCAGAGAGTATAGAACTCCGAAAATCTTCAATAAACA-CGTCCGCTCCCTATT
1 CTCCCTATTCCTTCAGAGAGTATAGAACT-CGAAAATCTTC-ATAAA-AGTGTCCGCTCCCTATT
* * * * *
124542 CTTTCAGAGAGTATATGAC-TCAATCTTTTTAACAAACGTGTCCG
63 CATTCAGAGAGTATAAGACTTCAATC-TTTCAAAAAACGGGTCCG
* * *
124586 CTCCCAATTCCTTCAGAGAGTATAGGACTCG---ATCTTCATAAAATGTGTCCGCTCCCTATTCC
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCATAAAA-GTGTCCGCTCCCTATTCA
*
124648 TTCAGAGAGTATAGGACT
65 TTCAGAGAGTATAAGACT
124666 CGATCTTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
102 1 0.01
103 5 0.03
104 37 0.23
107 7 0.04
108 35 0.22
109 4 0.02
110 1 0.01
111 60 0.37
112 11 0.07
113 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (106 bp):
CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCATAAAAGTGTCCGCTCCCTATTCAT
TCAGAGAGTATAAGACTTCAATCTTTCAAAAAACGGGTCCG
Found at i:126045 original size:7 final size:7
Alignment explanation
Indices: 126035--126544 Score: 954
Period size: 7 Copynumber: 72.7 Consensus size: 7
126025 TTTTTCTTCT
126035 TTTTTCA
1 TTTTTCA
126042 TTTTTCA
1 TTTTTCA
126049 TTTTTCA
1 TTTTTCA
126056 TTTTTTCA
1 -TTTTTCA
126064 TTTTTTTCA
1 --TTTTTCA
126073 TTTTTCA
1 TTTTTCA
126080 TTTTTCA
1 TTTTTCA
126087 TTTTTCA
1 TTTTTCA
126094 TTTTTCA
1 TTTTTCA
126101 TTTTTCA
1 TTTTTCA
126108 TTTTTCA
1 TTTTTCA
126115 TTTTTCA
1 TTTTTCA
126122 TTTTTCA
1 TTTTTCA
126129 TTTTTCA
1 TTTTTCA
126136 TTTTTCA
1 TTTTTCA
126143 TTTTTCA
1 TTTTTCA
126150 TTTTTCA
1 TTTTTCA
126157 TTTTTCA
1 TTTTTCA
126164 TTTTTCA
1 TTTTTCA
126171 TTTTTCA
1 TTTTTCA
126178 TTTTTCA
1 TTTTTCA
126185 TTTTTCA
1 TTTTTCA
126192 TTTTTCA
1 TTTTTCA
126199 TTTTTCA
1 TTTTTCA
126206 TTTTTCA
1 TTTTTCA
126213 TTTTTCA
1 TTTTTCA
126220 TTTTTCA
1 TTTTTCA
126227 TTTTTCA
1 TTTTTCA
126234 TTTTTCA
1 TTTTTCA
126241 TTTTTCA
1 TTTTTCA
126248 TTTTTCA
1 TTTTTCA
126255 TTTTTCA
1 TTTTTCA
126262 TTTTTCA
1 TTTTTCA
126269 -TTTTCA
1 TTTTTCA
126275 TTTTTCA
1 TTTTTCA
126282 TTTTTCA
1 TTTTTCA
126289 -TTTTCA
1 TTTTTCA
126295 TTTTTCA
1 TTTTTCA
126302 TTTTTCA
1 TTTTTCA
126309 TTTTTCA
1 TTTTTCA
126316 TTTTTCA
1 TTTTTCA
126323 TTTTTCA
1 TTTTTCA
126330 TTTTTCA
1 TTTTTCA
126337 TTTTTCA
1 TTTTTCA
126344 TTTTTCA
1 TTTTTCA
126351 TTTTTCA
1 TTTTTCA
126358 TTTTTCA
1 TTTTTCA
126365 TTTTTCA
1 TTTTTCA
126372 TTTTTCA
1 TTTTTCA
126379 TTTTTCA
1 TTTTTCA
126386 TTTTTCA
1 TTTTTCA
126393 TTTTTCA
1 TTTTTCA
126400 TTTTTCA
1 TTTTTCA
126407 TTTTTCA
1 TTTTTCA
126414 TTTTTCA
1 TTTTTCA
126421 -TTTTCA
1 TTTTTCA
126427 TTTTTCA
1 TTTTTCA
126434 TTTTTCA
1 TTTTTCA
126441 TTTTTCA
1 TTTTTCA
126448 TTTTTCA
1 TTTTTCA
126455 TTTTTCA
1 TTTTTCA
126462 TTTTTCA
1 TTTTTCA
126469 TTTTTCA
1 TTTTTCA
126476 TTTTTCA
1 TTTTTCA
126483 TTTTTCA
1 TTTTTCA
126490 TTTTTCA
1 TTTTTCA
126497 TTTTTCA
1 TTTTTCA
126504 TTTTTCA
1 TTTTTCA
126511 TTTTTCA
1 TTTTTCA
126518 TTTTTCA
1 TTTTTCA
*
126525 TTTTTCT
1 TTTTTCA
126532 TTTCTTCA
1 TTT-TTCA
126540 TTTTT
1 TTTTT
126545 TTCTTTATTA
Statistics
Matches: 495, Mismatches: 2, Indels: 12
0.97 0.00 0.02
Matches are distributed among these distances:
6 18 0.04
7 456 0.92
8 13 0.03
9 8 0.02
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:126061 original size:9 final size:9
Alignment explanation
Indices: 126016--126077 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 9
126006 CTTTTATTTC
*
126016 TTTTTCCTT
1 TTTTTCATT
*
126025 TTTTTCTTCT
1 TTTTTCAT-T
126035 TTTTTCA--
1 TTTTTCATT
126042 TTTTTCA--
1 TTTTTCATT
126049 TTTTTCA-T
1 TTTTTCATT
126057 TTTTTCATT
1 TTTTTCATT
126066 TTTTTCATT
1 TTTTTCATT
126075 TTT
1 TTT
126078 CATTTTTCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
7 14 0.29
8 7 0.15
9 20 0.42
10 7 0.15
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTCATT
Found at i:126578 original size:10 final size:10
Alignment explanation
Indices: 126575--126612 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
126565 TTTTTCTTTC
126575 TTTTTTTC-T
1 TTTTTTTCAT
126584 TTTTTTTCAT
1 TTTTTTTCAT
*
126594 TATTTTTCAT
1 TTTTTTTCAT
*
126604 TTTTCTTCA
1 TTTTTTTCA
126613 AGCGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:126585 original size:12 final size:12
Alignment explanation
Indices: 126518--126590 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
126508 TCATTTTTCA
126518 TTTTTCATTT-TT
1 TTTTTC-TTTCTT
*
126530 CTTTTC-TTCATT
1 TTTTTCTTTC-TT
*
126542 TTTTTCTTTATT
1 TTTTTCTTTCTT
* *
126554 ATTTTC-TCCTT
1 TTTTTCTTTCTT
126565 TTTTTCTTTCTT
1 TTTTTCTTTCTT
126577 TTTTTCTTT-TT
1 TTTTTCTTTCTT
126588 TTT
1 TTT
126591 CATTATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 2 0.04
11 13 0.27
12 32 0.65
13 2 0.04
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:144969 original size:23 final size:23
Alignment explanation
Indices: 144951--145010 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
144941 CTCGTATAAA
144951 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
144974 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
144997 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
145011 ATATAATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:145730 original size:67 final size:66
Alignment explanation
Indices: 145622--145772 Score: 230
Period size: 67 Copynumber: 2.3 Consensus size: 66
145612 TTTTTCTCAT
* * * *
145622 GGGGGAATCGGTTCCCCCCCTGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGTT
1 GGGGGTATCGGTT-CCCCCATGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
145687 GA
65 GA
* *
145689 GGGGGTATCGGTTCCCCCATGGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCAT-GGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
145754 GA
65 GA
145756 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
145773 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 6 0.08
67 71 0.92
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCATGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTG
A
Found at i:147836 original size:45 final size:47
Alignment explanation
Indices: 147769--147874 Score: 162
Period size: 45 Copynumber: 2.3 Consensus size: 47
147759 CCATGCTTTG
147769 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC-
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
*
147816 TTATTCAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCA
1 TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
*
147862 TTTATTCGAAAAA
1 -TTATTCAAAAAA
147875 CAAAAATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
45 28 0.51
46 9 0.16
47 18 0.33
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (47 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCA
Found at i:154310 original size:155 final size:155
Alignment explanation
Indices: 153988--154311 Score: 596
Period size: 155 Copynumber: 2.1 Consensus size: 155
153978 GACTTGGCTC
*
153988 GATGACATAATATAAATAGAGACTTGATGTAACACCCCAACCCGTACCCGACCTGGATTCGAGTC
1 GATGACAAAATATAAATAGAGACTTGATGTAACACCCCAACCCGTACCCGACCTGGATTCGAGTC
154053 CGAGGTGTCACATTGACTTTTCAAAACATTTACTTGTATAAAATAGTGAGTAATTTAAAAAAACT
66 CGAGGTGTCACATTGACTTTTCAAAACATTTACTTGTATAAAATAGTGAGTAATTTAAAAAAACT
154118 TTGATAACATTTAACTTATTCAAAA
131 TTGATAACATTTAACTTATTCAAAA
*
154143 GATGACATAATATAAATAGAGACTTGATGTAACACCCCAACCCGTACCCGACCTGGATTCGAGTC
1 GATGACAAAATATAAATAGAGACTTGATGTAACACCCCAACCCGTACCCGACCTGGATTCGAGTC
154208 CGAGGTGTCACATTGACTTTTCAAAACATTTACTTGTATAAAATAGTGAGTAATTT-AAAAAACT
66 CGAGGTGTCACATTGACTTTTCAAAACATTTACTTGTATAAAATAGTGAGTAATTTAAAAAAACT
154272 TTGATAACATTTAACTTATTCAAAA
131 TTGATAACATTTAACTTATTCAAAA
* *
154297 CGTTTACAAAATATA
1 -GATGACAAAATATA
154312 TCAGAGTTCA
Statistics
Matches: 165, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
154 33 0.20
155 132 0.80
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (155 bp):
GATGACAAAATATAAATAGAGACTTGATGTAACACCCCAACCCGTACCCGACCTGGATTCGAGTC
CGAGGTGTCACATTGACTTTTCAAAACATTTACTTGTATAAAATAGTGAGTAATTTAAAAAAACT
TTGATAACATTTAACTTATTCAAAA
Found at i:154865 original size:23 final size:23
Alignment explanation
Indices: 154839--154883 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
154829 CACCACAGCT
*
154839 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
154862 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
154884 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:155101 original size:149 final size:149
Alignment explanation
Indices: 154851--155165 Score: 578
Period size: 149 Copynumber: 2.1 Consensus size: 149
154841 TATAATTGCA
154851 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
* * *
154915 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATAATAGAGATAAAGTATGTGTCTTTCAAGACTTCACACATGTT
154980 CCACAGAATATATATATATC
130 CCACAGAATATATATATATC
155000 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
155065 TCCTTAAGAATCATATACATATAATAGAGATAAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATAATAGAGATAAAGTATGTGTCTTTCAAGACTTCACACATGTTC
155130 CACAGAATATATATATATC
131 CACAGAATATATATATATC
*
155149 CTGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
155166 CCCTCGACTC
Statistics
Matches: 161, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 160 0.99
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATAATAGAGATAAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CACAGAATATATATATATC
Found at i:156661 original size:64 final size:63
Alignment explanation
Indices: 156558--156723 Score: 208
Period size: 64 Copynumber: 2.6 Consensus size: 63
156548 TCTTTTAATG
* * *
156558 AAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTTA
1 AAGGCATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTA
*
156622 ATAGGGATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTA
1 A-AGGCATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTA
** * *
156687 AATTCATGCATCGATGCACTGCATGTGCATCGATGCA
1 AAGGCATGCATCGATGCACT-CCTATGCATCGATGCA
156724 CCTTAAACAA
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 60 0.67
65 29 0.32
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (63 bp):
AAGGCATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTA
Done.