Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003063.1 Hibiscus syriacus cultivar Beakdansim tig00006385_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: 217600
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:8558 original size:17 final size:17
Alignment explanation
Indices: 8538--8576 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8528 AAACTGTTTT
*
8538 TTTTTAGTTAAATTTAA
1 TTTTTAGATAAATTTAA
* *
8555 TTTTCAGATAAATTTGA
1 TTTTTAGATAAATTTAA
8572 TTTTT
1 TTTTT
8577 TTTAAAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (17 bp):
TTTTTAGATAAATTTAA
Found at i:13810 original size:23 final size:26
Alignment explanation
Indices: 13773--13841 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
13763 TTCTCTTGTG
13773 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
13797 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
13822 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
13842 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:13823 original size:12 final size:12
Alignment explanation
Indices: 13806--13841 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
13796 TATCATGTTC
13806 TCATATCACATG
1 TCATATCACATG
*
13818 TCATATCACATA
1 TCATATCACATG
13830 TCATATCACATG
1 TCATATCACATG
13842 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:14257 original size:64 final size:63
Alignment explanation
Indices: 14149--14332 Score: 226
Period size: 64 Copynumber: 2.9 Consensus size: 63
14139 TAATGAAGGT
* * ** * **
14149 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-TTATTATTAATGGG
* **
14213 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATG-TTTATTATTAATGGG
* * *
14277 ATGCATTGATGCACTACTTATGCATCGATGCATGAATTACATTCGATGTTT-TTATT
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATT
14333 TTAAAAGAGT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
62 5 0.05
63 3 0.03
64 95 0.91
65 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:14349 original size:64 final size:64
Alignment explanation
Indices: 14220--14374 Score: 188
Period size: 64 Copynumber: 2.4 Consensus size: 64
14210 GGGATGCATC
* * * * *
14220 GATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAATGGGATGCATT
1 GATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTTTTATTATTAAAGAGATGAATT
**
14284 GATGCACTACTTATGCATCGATGCATGAATTACATTCGATGTTTTTATT-TTAAA-AGAGTGAAT
1 GATGCACTACTTATGCATCGATGCACCAATTACATTCGATG-TTTTATTATTAAAGAGA-TGAAT
14347 T
64 T
** *
14348 GATGCACTACCAATGCATCGATACACC
1 GATGCACTACTTATGCATCGATGCACC
14375 TTCAAACAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 2 0.03
64 68 0.88
65 7 0.09
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
GATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTTTTATTATTAAAGAGATGAATT
Found at i:20562 original size:15 final size:15
Alignment explanation
Indices: 20542--20574 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
20532 CGTAGGACCC
20542 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
20557 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
20572 CTA
1 CTA
20575 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:20723 original size:23 final size:26
Alignment explanation
Indices: 20686--20754 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
20676 TTCTCTTGTG
20686 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
20710 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
20735 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
20755 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:20736 original size:12 final size:12
Alignment explanation
Indices: 20719--20754 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
20709 TATCATGTTC
20719 TCATATCACATG
1 TCATATCACATG
*
20731 TCATATCACATA
1 TCATATCACATG
20743 TCATATCACATG
1 TCATATCACATG
20755 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:21172 original size:64 final size:63
Alignment explanation
Indices: 21064--21284 Score: 239
Period size: 64 Copynumber: 3.5 Consensus size: 63
21054 TAATGAAGGT
* * ** * **
21064 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-TTATTATTAATGGG
* **
21128 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTT-ATTATTAATGGG
* * **
21192 ATGCATTGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT-TTATTTTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTA--TTAATGGG
**
21255 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
21285 ACACCTTCAA
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 127 0.95
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:22785 original size:21 final size:21
Alignment explanation
Indices: 22759--22802 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22749 TGAACTAAAG
* *
22759 TAAAATATAAATTATCATTTT
1 TAAAATAAAAATTATCAGTTT
*
22780 TAAAATAAAAATTGTCAGTTT
1 TAAAATAAAAATTATCAGTTT
22801 TA
1 TA
22803 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
TAAAATAAAAATTATCAGTTT
Found at i:36384 original size:12 final size:12
Alignment explanation
Indices: 36367--36391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36357 AAACTACATT
36367 TAATTTATATTA
1 TAATTTATATTA
36379 TAATTTATATTA
1 TAATTTATATTA
36391 T
1 T
36392 TATAACAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTATATTA
Found at i:37092 original size:31 final size:32
Alignment explanation
Indices: 37056--37116 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
37046 GGTAAATCAC
37056 ATGTTTAAATACCTAAAC-TATTATTTTTATT
1 ATGTTTAAATACCTAAACATATTATTTTTATT
* * *
37087 ATGTTTTAGTACTTAAACATTATTATTTTT
1 ATGTTTAAATACCTAAACA-TATTATTTTT
37117 TTTCAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
33 10 0.40
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (32 bp):
ATGTTTAAATACCTAAACATATTATTTTTATT
Found at i:37594 original size:28 final size:27
Alignment explanation
Indices: 37563--37623 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 27
37553 AGGGAAAGTG
*
37563 AATTCCATCCATTCTATGATGGAATTTT
1 AATTACATCCATTCTATGATGGAA-TTT
37591 AATTACATCCATTCTATGATGGAATTT
1 AATTACATCCATTCTATGATGGAATTT
37618 AATTAC
1 AATTAC
37624 CTTGTTGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (27 bp):
AATTACATCCATTCTATGATGGAATTT
Found at i:38094 original size:225 final size:230
Alignment explanation
Indices: 37785--38219 Score: 729
Period size: 228 Copynumber: 1.9 Consensus size: 230
37775 ATTTTGGTCA
*
37785 GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCGACCCGAAAATATATATAATTTTA
1 GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATA-CC-ACCGACCCGAAAAAATATATAATTTTA
*
37850 CCTAATATATTTAGGAATAATTACAATAATACCCCTTTATATATAA-TTTTTT-CAATTAAGTCA
64 CCTAATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTACAATTAAGTCA
* *
37913 TTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGT-GGAGTCGGGTTTCTAATTCATA
129 ATGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAG-GTCGGGTTTCTAATTCATA
37977 TATTCGGGTCGGGTCATTTTTTTAAAGTGCGATATTCG
193 TATTCGGGTCGGGTCATTTTTTTAAAGTGCGATATTCG
*
38015 GGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAATA-C-CCGACCC-AAAAAATATATAATTTTACC
1 GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCACCGACCCGAAAAAATATATAATTTTACC
*
38077 TTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTACCAATTAAGTCAA
66 TAATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTA-CAATTAAGTCAA
*
38142 TGTTTTTATTGAATAAAAATATTTTTTTTATTATTTCGGGTCAGGTCGGGTTTCTAATTCATATA
130 TGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAGGTCGGGTTTCTAATTCATATA
38207 TTCGGGTCGGGTC
195 TTCGGGTCGGGTC
38220 GGGTGAAACT
Statistics
Matches: 194, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
225 61 0.31
226 13 0.07
228 86 0.44
229 1 0.01
230 33 0.17
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (230 bp):
GGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCACCGACCCGAAAAAATATATAATTTTACC
TAATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTACAATTAAGTCAAT
GTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAGGTCGGGTTTCTAATTCATATAT
TCGGGTCGGGTCATTTTTTTAAAGTGCGATATTCG
Found at i:38599 original size:18 final size:18
Alignment explanation
Indices: 38562--38643 Score: 112
Period size: 18 Copynumber: 4.6 Consensus size: 18
38552 TATGGAATTG
* *
38562 GATTCCAATTCC-TGACA
1 GATTCAAATTCCTTCACA
*
38579 GATTCTAATTCCTTCACA
1 GATTCAAATTCCTTCACA
38597 GATTCAAATTCCTTCACA
1 GATTCAAATTCCTTCACA
* *
38615 AATTCAAATTTCTTCACA
1 GATTCAAATTCCTTCACA
38633 GATTCAAATTC
1 GATTCAAATTC
38644 TCTAAAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
17 11 0.19
18 46 0.81
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (18 bp):
GATTCAAATTCCTTCACA
Found at i:45402 original size:18 final size:18
Alignment explanation
Indices: 45379--45413 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45369 AGTATTGTCT
45379 ATTAAAAGTATTATTGAG
1 ATTAAAAGTATTATTGAG
*
45397 ATTAAAAGTATTCTTGA
1 ATTAAAAGTATTATTGA
45414 AATTTGGTGT
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:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (18 bp):
ATTAAAAGTATTATTGAG
Found at i:48462 original size:99 final size:99
Alignment explanation
Indices: 48291--48491 Score: 375
Period size: 99 Copynumber: 2.0 Consensus size: 99
48281 AAGAATCTCA
*
48291 CCTCAAAATTGATTTATCAATTCCCGGGGGTAACTTTTTGCAAACATCAAGTTCACTCAATGACA
1 CCTCAAAATTAATTTATCAATTCCCGGGGGTAACTTTTTGCAAACATCAAGTTCACTCAATGACA
48356 GCAAAAAATCTCTACTATATGAAATTCTATATTT
66 GCAAAAAATCTCTACTATATGAAATTCTATATTT
48390 CCTCAAAATTAATTTATCAATTCCCGGGGGTAACTTTTTGCAAACATCAAGTTCACTCAATGACA
1 CCTCAAAATTAATTTATCAATTCCCGGGGGTAACTTTTTGCAAACATCAAGTTCACTCAATGACA
* *
48455 GCAAAAAATCTCTATTATTTGAAATTCTATATTT
66 GCAAAAAATCTCTACTATATGAAATTCTATATTT
48489 CCT
1 CCT
48492 GGATCATTAG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (99 bp):
CCTCAAAATTAATTTATCAATTCCCGGGGGTAACTTTTTGCAAACATCAAGTTCACTCAATGACA
GCAAAAAATCTCTACTATATGAAATTCTATATTT
Found at i:48909 original size:4 final size:4
Alignment explanation
Indices: 48900--48926 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48890 TCAAAGGAGA
48900 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
48927 AAAGGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:49001 original size:3 final size:3
Alignment explanation
Indices: 48993--49018 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48983 GAAATGAAAG
48993 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
49019 ATATTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50501 original size:24 final size:27
Alignment explanation
Indices: 50467--50535 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
50457 AACAAGAACA
*
50467 AAATAATTAAATAA-GA-AATAATAAT
1 AAATAAATAAATAATGACAATAATAAT
*
50492 -AATAAATAAAATAATTACAATAATAAT
1 AAATAAAT-AAATAATGACAATAATAAT
50519 AAATGATAATAAATAAT
1 AAAT-A-AATAAATAAT
50536 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 6 0.17
25 6 0.17
26 1 0.03
27 9 0.25
28 3 0.08
29 8 0.22
30 3 0.08
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
AAATAAATAAATAATGACAATAATAAT
Found at i:50528 original size:34 final size:33
Alignment explanation
Indices: 50466--50534 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
50456 AAACAAGAAC
50466 AAAATAATTAAATAAGAAATAATAATAATAAAT
1 AAAATAATTAAATAAGAAATAATAATAATAAAT
* *
50499 AAAATAATTACAATAA-TAATAAATGATAATAAAT
1 AAAATAATTA-AATAAGAAAT-AATAATAATAAAT
50533 AA
1 AA
50535 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (33 bp):
AAAATAATTAAATAAGAAATAATAATAATAAAT
Found at i:50541 original size:2 final size:2
Alignment explanation
Indices: 50534--50563 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50524 ATAATAAATA
50534 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
50564 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50684 original size:37 final size:34
Alignment explanation
Indices: 50609--50684 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
50599 TTTTTTTAAT
*
50609 TATATATATATATTTTAAAAAATGTTTTCAAAAC
1 TATATATATAAATTTTAAAAAATGTTTTCAAAAC
*
50643 TATATCATATAAATTTTCAAAAATGTTTTTC-AAAC
1 TATAT-ATATAAATTTTAAAAAATG-TTTTCAAAAC
50678 TATATAT
1 TATATAT
50685 TATACGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 7 0.18
35 26 0.68
36 5 0.13
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (34 bp):
TATATATATAAATTTTAAAAAATGTTTTCAAAAC
Found at i:50695 original size:35 final size:33
Alignment explanation
Indices: 50609--50697 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 33
50599 TTTTTTTAAT
*
50609 TATATATATATATTTTAAAAAATGTTTTCAAAAC
1 TATATAT-TATATTTTCAAAAATGTTTTCAAAAC
*
50643 TATATCATATAAATTTTCAAAAATGTTTTTC-AAAC
1 TATAT-AT-TATATTTTCAAAAATG-TTTTCAAAAC
50678 TATATATTATACGTTTTCAA
1 TATATATTATA--TTTTCAA
50698 TATATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.06
34 7 0.15
35 33 0.69
36 5 0.10
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (33 bp):
TATATATTATATTTTCAAAAATGTTTTCAAAAC
Found at i:50696 original size:22 final size:23
Alignment explanation
Indices: 50669--50711 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
50659 TCAAAAATGT
50669 TTTTCAA-ACTATATAT-TATACG
1 TTTTCAATA-TATATATATATACG
50691 TTTTCAATATATATATATATA
1 TTTTCAATATATATATATATA
50712 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTTCAATATATATATATATACG
Found at i:50702 original size:2 final size:2
Alignment explanation
Indices: 50697--50760 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
50687 TACGTTTTCA
50697 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
50739 AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
50761 CATTTTCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50830 original size:40 final size:37
Alignment explanation
Indices: 50746--50837 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 37
50736 TATATATATA
*
50746 TATATATATATTATACATTTTCAAAATGTTTTCAAAGAC
1 TATATAT-TA-TATACATTTTCAAAATGTTTTCAAAAAC
*
50785 TATATATTATATACAATTTTTAAAATGTTTTCGAAAAAAAC
1 TATATATTATATAC-ATTTTCAAAATGTTTTC---AAAAAC
50826 -ATATATTATATA
1 TATATATTATATA
50838 TCATATAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
37 5 0.11
38 18 0.38
39 7 0.15
40 12 0.26
41 5 0.11
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (37 bp):
TATATATTATATACATTTTCAAAATGTTTTCAAAAAC
Found at i:51594 original size:84 final size:83
Alignment explanation
Indices: 51462--52595 Score: 1072
Period size: 84 Copynumber: 13.7 Consensus size: 83
51452 TTGAATATAA
* * *
51462 TCGAACTCAAAGGTC-TT--TAGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
51524 CCTTGGAGCTGAGCGGAG
66 CCTTGGAGCTGAGCGTAG
* * ** * * * *
51542 TCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
51607 GCCGTT-GAGCTGAGCGTAT
65 GCC-TTGGAGCTGAGCGTAG
* * * * * *
51626 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TCGAACTCAAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
51691 GTCTTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * *
51710 TCGAACTCGAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
51775 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
*** * * *
51795 TCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
51857 CCGTT-GAGCTGATCGTAG
66 CC-TTGGAGCTGAGCGTAG
* * * * * * *
51875 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGTTAT
1 TCGAACTCAAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
51940 GCCTTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* *
51959 TCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
52024 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
** * * *
52044 TCGAACTCAGGGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAATGATAT
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAATGATGT
*
52106 GCCGTT-GAGCTGATCGTAG
65 GCC-TTGGAGCTGAGCGTAG
*
52125 TCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTG-GTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
52190 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
** * * *
52210 TCGAACTCAGGGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
52272 CCGTT-GAGCTGATCGTAG
66 CC-TTGGAGCTGAGCGTAG
** * * * *
52290 TCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * *
52355 GCCCTCGAAGCTAAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
** * * *
52375 TCGAACTCAGGGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTG
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
52437 CCGTT-GAGCTGATCGTAG
66 CC-TTGGAGCTGAGCGTAG
** * * * *
52455 TCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
52520 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
** * * *
52540 TCGAACTCAGTGGTC-TT--TGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAAT
1 TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
52596 AGTTTGTTTA
Statistics
Matches: 849, Mismatches: 167, Indels: 75
0.78 0.15 0.07
Matches are distributed among these distances:
80 83 0.10
81 211 0.25
82 20 0.02
83 15 0.02
84 363 0.43
85 157 0.18
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
TCGAACTCAAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:51882 original size:165 final size:162
Alignment explanation
Indices: 51462--52595 Score: 1253
Period size: 165 Copynumber: 6.9 Consensus size: 162
51452 TTGAATATAA
* * *
51462 TCGAACTCAAAGGTC-TTTAGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG-C
1 TCGAACTCAAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * * * * * * * *
51525 CTTGGAGCTGAGCGGAGTCAAACTCGAAG-GTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CTCGAAGCTGAGTGTAATCGAACTC-AGGTGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAG
* * * * *
51589 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAT
126 CTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAG
* * * *
51626 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TCGAACTCAAAGGTC--TT-TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * * * * *
51691 G-TCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTA
63 GCCCTCGAAGCTGAGTGTAATCGAACTC--AGGTGTCT--TTGGCAGATAGCCCTTCTCGACTTA
* * * *
51755 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTAA
124 AGCTATGCTGCAAATGATATGCCGTTG-AGCTGA-TCGTAG
*** * * * *
51795 TCGAACTCGGGGGTC-TTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCAAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * * * * * *
51859 GTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAG
66 CTCGAAGCTGAGT-GTAATCGAACTC--AGGT-GTCT-TTGGCAGATAGCCCTTCTCGACTTAAG
* * * *
51922 TTGTGCTGCAAATGTTATGCC-TTGGAGCTGAGCGTAG
126 CTATGCTGCAAATGATATGCCGTT-GAGCTGATCGTAG
* * *
51959 TCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGT-CTT--TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
52024 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
63 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
52089 ATGCTGCAAAATGATATGCCGTTGAGCTGATCGTAG
128 ATGCTGC-AAATGATATGCCGTTGAGCTGATCGTAG
*
52125 TCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTC-TT--TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
52190 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
63 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
52255 ATGCTGCAAATGATATGCCGTTGAGCTGATCGTAG
128 ATGCTGCAAATGATATGCCGTTGAGCTGATCGTAG
* * *
52290 TCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTCTTTTGG---CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* *
52355 GCCCTCGAAGCTAAGTGTAATCGAACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
63 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* *
52420 ATGTTGCAAATGATGTGCCGTTGAGCTGATCGTAG
128 ATGCTGCAAATGATATGCCGTTGAGCTGATCGTAG
* * *
52455 TCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTCTTTTGG---CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
52520 GCCCTCGAAGCTGAGTGTAATCGAACTCA-GTGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGC
63 GCCCTCGAAGCTGAGTGTAATCGAACTCAGGT-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
52584 TATGCTGCAAAT
127 TATGCTGCAAAT
52596 AGTTTGTTTA
Statistics
Matches: 858, Mismatches: 84, Indels: 55
0.86 0.08 0.06
Matches are distributed among these distances:
162 4 0.00
164 40 0.05
165 445 0.52
166 165 0.19
167 6 0.01
168 150 0.17
169 41 0.05
170 3 0.00
171 4 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (162 bp):
TCGAACTCAAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
CTCGAAGCTGAGTGTAATCGAACTCAGGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
CTGCAAATGATATGCCGTTGAGCTGATCGTAG
Found at i:51922 original size:249 final size:248
Alignment explanation
Indices: 51481--52595 Score: 1304
Period size: 249 Copynumber: 4.5 Consensus size: 248
51471 AAGGTCTTTA
* * * * * * *
51481 GCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGGAGTCA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * * * * *
51545 AACTC-GAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
66 AACTCAG-AGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* *
51609 CGTTGAGCTGAGCGTATTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
126 CGTTGAGCTGATCGTAGTCGAACTCAAAGGTC-TTTGTTGGCAGACAACCCTTCTAGACTTAAGT
* * *
51674 TGTGTTGCAAATGATATGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
190 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
51733 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * *
51798 AACTCGGGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
66 AACTCAGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
* *
51863 AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGC
131 AGCTGATCGTAGTCGAACTCAAAGGTC-TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGC
* * *
51928 TGCAAATGTTATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTG
195 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
*
51982 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* *
52047 AACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAATGATATGCCGTT
66 AACTCAGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC-AAATGATGTGCCGTT
* *
52112 GAGCTGATCGTAGTCGAACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTCGACTTAAGTTATG
130 GAGCTGATCGTAGTCGAACTCAAAGGTCTTTG-TTGGCAGACAACCCTTCTAGACTTAAGTTATG
* * * * * **
52177 CTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC--AGGGGTCT--TTG
194 CTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
* * * * *
52229 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCGTTG-AGCTGA-TCGTAGTC
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTAATC
* * * * * * *
52292 GAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
65 GAACTCAGAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* * * * ** * * *
52357 CCTCGAAGCTAAGT-GTAATCGAACTCAGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAG
126 CGTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGACAACCCTTCTAGACTTAAG
* * * * * *
52418 CTATGTTGCAAATGATGTGCCGTT-GAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTT-
189 TTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TCTGGTTG
* * * * * *
52478 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* *
52543 AACTCAGTGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAAT
66 AACTCAGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
52596 AGTTTGTTTA
Statistics
Matches: 751, Mismatches: 92, Indels: 46
0.84 0.10 0.05
Matches are distributed among these distances:
245 20 0.03
246 95 0.13
247 55 0.07
248 3 0.00
249 329 0.44
250 153 0.20
251 24 0.03
252 47 0.06
253 24 0.03
254 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (248 bp):
GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
AACTCAGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
AGCTGATCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCT
GCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTCTGGTTG
Found at i:56407 original size:13 final size:13
Alignment explanation
Indices: 56391--56420 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56381 TTTAATTGCG
56391 AAAATTAAAATTT
1 AAAATTAAAATTT
56404 AAAATTAAAATTT
1 AAAATTAAAATTT
56417 AAAA
1 AAAA
56421 AATCCGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:56559 original size:4 final size:4
Alignment explanation
Indices: 56550--56575 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
56540 TCAAATGAGA
56550 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
56576 TGGAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:56685 original size:12 final size:11
Alignment explanation
Indices: 56661--56695 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
56651 AATAATAAAT
56661 ATTAAAAGAAA
1 ATTAAAAGAAA
56672 ATTAAAACGAAA
1 ATTAAAA-GAAA
56684 ATTAAAA-AAA
1 ATTAAAAGAAA
56694 AT
1 AT
56696 AAATAGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 7 0.30
12 11 0.48
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (11 bp):
ATTAAAAGAAA
Found at i:58126 original size:3 final size:3
Alignment explanation
Indices: 58118--58188 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
58108 TTAAATAAGA
* * *
58118 AAT AAT AAT AAT AAAT AA- AAT AAT TAC AAT AAT AAT AAAT GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
58164 AAAT AAT AAT AAT AAT AAT -AT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT A
58189 TATATATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 44 0.77
4 9 0.16
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58305 original size:37 final size:37
Alignment explanation
Indices: 58250--58337 Score: 124
Period size: 37 Copynumber: 2.3 Consensus size: 37
58240 TTTTTTTAAT
*
58250 TATATAATATATATATTTTAAAAAATG-TTTTCAAAAC
1 TATAT-ATATATAAATTTTAAAAAATGTTTTTCAAAAC
*
58287 TATATATCATATAAATTTTCAAAAATGTTTTTCAAAAC
1 TATATAT-ATATAAATTTTAAAAAATGTTTTTCAAAAC
58325 TATATATTATATA
1 TATATA-TATATA
58338 CGTTTTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
36 2 0.04
37 22 0.48
38 21 0.46
39 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (37 bp):
TATATATATATAAATTTTAAAAAATGTTTTTCAAAAC
Found at i:58311 original size:38 final size:38
Alignment explanation
Indices: 58250--58348 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
58240 TTTTTTTAAT
*
58250 TATATAATATATATATTTT-AAAAAATG-TTTTCAAAAC
1 TATAT-ATATATAAATTTTCAAAAAATGTTTTTCAAAAC
58287 TATATATCATATAAATTTTC-AAAAATGTTTTTCAAAAC
1 TATATAT-ATATAAATTTTCAAAAAATGTTTTTCAAAAC
**
58325 TATATATTATATACGTTTTCAAAA
1 TATATA-TATATAAATTTTCAAAA
58349 TATATATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 2 0.04
37 22 0.41
38 26 0.48
39 4 0.07
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (38 bp):
TATATATATATAAATTTTCAAAAAATGTTTTTCAAAAC
Found at i:58348 original size:25 final size:25
Alignment explanation
Indices: 58315--58362 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
58305 TCAAAAATGT
58315 TTTTCAAAACTATATAT-TATATACG
1 TTTTCAAAA-TATATATATATATACG
58340 TTTTCAAAATATATATATATATA
1 TTTTCAAAATATATATATATATA
58363 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTTCAAAATATATATATATATACG
Found at i:58353 original size:2 final size:2
Alignment explanation
Indices: 58348--58417 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
58338 CGTTTTCAAA
58348 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
58390 AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58418 CATTTTCAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80151 original size:13 final size:13
Alignment explanation
Indices: 80135--80159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80125 AACATATTTG
80135 TTAAACTCTAAAC
1 TTAAACTCTAAAC
80148 TTAAACTCTAAA
1 TTAAACTCTAAA
80160 TCGTAATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAACTCTAAAC
Found at i:84227 original size:19 final size:19
Alignment explanation
Indices: 84203--84240 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84193 GATGTTGAAA
84203 TGAAGGATTATTTGCTTTC
1 TGAAGGATTATTTGCTTTC
84222 TGAAGGATTATTTGCTTTC
1 TGAAGGATTATTTGCTTTC
84241 GCCTTCAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
TGAAGGATTATTTGCTTTC
Found at i:90180 original size:15 final size:15
Alignment explanation
Indices: 90156--90241 Score: 129
Period size: 15 Copynumber: 5.8 Consensus size: 15
90146 GGTTTTCCAA
90156 AAAATGAATTACTGG
1 AAAATGAATTACTGG
**
90171 AATTTGAATTACTGG
1 AAAATGAATTACTGG
90186 AAAATGAATTACTGG
1 AAAATGAATTACTGG
90201 AAAATGAATTACTGG
1 AAAATGAATTACTGG
**
90216 AATTTGAATT-CTGG
1 AAAATGAATTACTGG
90230 AAAATGAATTAC
1 AAAATGAATTAC
90242 ATTTCTGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.19
15 50 0.81
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (15 bp):
AAAATGAATTACTGG
Found at i:90205 original size:45 final size:44
Alignment explanation
Indices: 90156--90241 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 44
90146 GGTTTTCCAA
90156 AAAATGAATTACTGGAATTTGAATTACTGGAAAATGAATTACTGG
1 AAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTGG
90201 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
90242 ATTTCTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (44 bp):
AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTGG
Found at i:90247 original size:20 final size:20
Alignment explanation
Indices: 90224--90293 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
90214 GGAATTTGAA
90224 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
90244 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
90264 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
90284 TTCTGGAAAA
1 TTCTGGAAAA
90294 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:90515 original size:27 final size:27
Alignment explanation
Indices: 90453--90614 Score: 99
Period size: 28 Copynumber: 5.9 Consensus size: 27
90443 TTTACTAAAA
*
90453 TATTATTGA-AATATATAAATAATATTAT
1 TATTATT-ATAATATAAAAATAAT-TTAT
*
90481 TCATTATTA-AATATAAAAAAAATTTAT
1 T-ATTATTATAATATAAAAATAATTTAT
* * *
90508 TATATATTATTAAAATAAAAATAATATCT
1 TAT-TATTA-TAATATAAAAATAATTTAT
* *
90537 TATTATTATAATAT--AATTGA-TTAT
1 TATTATTATAATATAAAAATAATTTAT
90561 T-TTA-TATAATATTAAAATATAA--TAT
1 TATTATTATAATA-TAAAA-ATAATTTAT
90586 TATATATTATAATATTAATAAATATATTT
1 TAT-TATTATAATA-TAA-AAATA-ATTT
90615 TAAATATTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
22 7 0.07
23 4 0.04
24 3 0.03
25 10 0.09
26 5 0.05
27 17 0.16
28 33 0.31
29 26 0.25
31 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTATTATAATATAAAAATAATTTAT
Found at i:90517 original size:30 final size:30
Alignment explanation
Indices: 90452--90542 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
90442 CTTTACTAAA
* *
90452 ATATTATTGAAATATATAAATAA--TATTAT
1 ATATTATT-AAATATAAAAAAAATTTATTAT
90481 -TCATTATTAAATATAAAAAAAATTTATTAT
1 AT-ATTATTAAATATAAAAAAAATTTATTAT
90511 ATATTATTAAA-ATAAAAATAATATCTTATTAT
1 ATATTATTAAATATAAAAA-AA-AT-TTATTAT
90543 TATAATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
28 13 0.25
29 13 0.25
30 17 0.32
31 3 0.06
32 7 0.13
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
ATATTATTAAATATAAAAAAAATTTATTAT
Found at i:90574 original size:15 final size:17
Alignment explanation
Indices: 90536--90611 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
90526 AAATAATATC
90536 TTATTATTATAATATAA
1 TTATTATTATAATATAA
*
90553 TTGATTATT-TTATATAA
1 TT-ATTATTATAATATAA
90570 -TATTA--A-AATATAA
1 TTATTATTATAATATAA
*
90583 -TATTA-TATATTATAA
1 TTATTATTATAATATAA
*
90598 -TATTAATA-AATATA
1 TTATTATTATAATATA
90612 TTTTAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
15 20 0.40
16 3 0.06
17 9 0.18
18 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TTATTATTATAATATAA
Found at i:90610 original size:20 final size:20
Alignment explanation
Indices: 90569--90613 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
90559 ATTTTATATA
*
90569 ATATTAAAATATAATATTAT
1 ATATTAAAATATAATATAAT
*
90589 ATATTATAATATTAATA-AAT
1 ATATTAAAATA-TAATATAAT
90609 ATATT
1 ATATT
90614 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAAAATATAATATAAT
Found at i:90868 original size:42 final size:42
Alignment explanation
Indices: 90809--90928 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
90799 ATGAATTACA
*
90809 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
90851 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
90893 TTCCAGAAAATGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
90929 TTCGGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:95157 original size:23 final size:23
Alignment explanation
Indices: 95122--95194 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
95112 ATACTTTACA
*
95122 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
95145 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
95168 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
95191 ATAT
1 ATAT
95195 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:95574 original size:431 final size:431
Alignment explanation
Indices: 94771--97983 Score: 6005
Period size: 431 Copynumber: 7.5 Consensus size: 431
94761 TATTACATTA
*
94771 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATATAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
94836 TTATGTTTCAATTTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
94901 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTA
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
* *
94966 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCATATAATTACTAATTTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
95031 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* *
95096 TTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
95161 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
95202 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
95267 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
95332 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
95397 AATAATAATATATATCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
95462 CTCAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACATT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
95527 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
95592 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
95633 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
95698 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
95763 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
95828 AATAATAATATATATCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
95893 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
95958 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
*
96023 TTACATTATATAAGCGCTACTTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* **
96064 TATTATATTGAAAGTGTCCATATTTTTTATAAAAAAAATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
96129 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
96194 ATTTGCATAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
96259 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTGCTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
96324 CTTAAAACTCACTCAAAATATAACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATAGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
96389 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
*
96454 TTACATTATATAAGTGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
96495 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* *
96560 TTATGTTTCAATTTTTTTTAATAGTATTTCATGTTTTTCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
96625 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
96690 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
96755 CTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
96820 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
*
96885 TTACATTACATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
96926 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
96991 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
97056 ATTTGCATAAAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
97121 AATAATAATATATATCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
97186 CTTAAAACTCACTCAAAAGATAACCTTAGATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
97251 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
97316 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
97357 TATTATATTGAAAGTGCCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
97422 TTATGTTTCAATTTTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
97487 ATTTGCACAAAAAAATATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
97552 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
97617 CTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
97682 TTTATAAAAAGGATATATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
97747 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
97788 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTACT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
97853 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
97918 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
97982 AA
196 AA
97984 CAACATTAAC
Statistics
Matches: 2709, Mismatches: 73, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
430 10 0.00
431 2699 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:95593 original size:23 final size:23
Alignment explanation
Indices: 95567--95625 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
95557 AACCACTACC
95567 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
95590 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
95613 TATTACATCATAT
1 TATTACATTATAT
95626 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:96009 original size:21 final size:22
Alignment explanation
Indices: 95984--96035 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
95974 ATACTTTACA
*
95984 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
96007 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
96030 ATATAA
1 ATATAA
96036 GCGCTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:96020 original size:23 final size:23
Alignment explanation
Indices: 95994--96056 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
95984 ATATAACCAC
95994 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
96017 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
96040 TACTTATTACATCATAT
1 TACCTATTACATTATAT
96057 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:96440 original size:21 final size:22
Alignment explanation
Indices: 96415--96466 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
96405 ATACTTTACA
*
96415 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
96438 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
96461 ATATAA
1 ATATAA
96467 GTGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:96451 original size:23 final size:23
Alignment explanation
Indices: 96425--96487 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
96415 ATATAACCAC
96425 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
96448 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAACGA
*
96471 TACCTATTACATCATAT
1 TACCTATTACATTATAT
96488 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:96882 original size:23 final size:23
Alignment explanation
Indices: 96856--96918 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
96846 ATATAACCAC
96856 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
96879 TACCTATTACATTACATAAGCGC
1 TACCTATTACATTATATAAACGA
*
96902 TACCTATTACATCATAT
1 TACCTATTACATTATAT
96919 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:97313 original size:23 final size:23
Alignment explanation
Indices: 97287--97349 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
97277 ATATAACCAC
97287 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
97310 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
97333 TACCTATTACATCATAT
1 TACCTATTACATTATAT
97350 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:97744 original size:23 final size:23
Alignment explanation
Indices: 97718--97780 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
97708 ATATAACCAC
97718 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
97741 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
97764 TACCTATTACATCATAT
1 TACCTATTACATTATAT
97781 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:98256 original size:39 final size:39
Alignment explanation
Indices: 98202--98288 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
98192 TCAAGTTGTA
*
98202 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
98241 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
98280 GATTTTGAT
1 GATTTTGAT
98289 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:98580 original size:18 final size:18
Alignment explanation
Indices: 98557--98593 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
98547 CGAAATATAT
98557 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
98575 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
98593 A
1 A
98594 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:99014 original size:25 final size:25
Alignment explanation
Indices: 98980--99029 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
98970 CTTATTTTTC
*
98980 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
99005 CAAATAATGTACCCACAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
99030 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:99024 original size:14 final size:13
Alignment explanation
Indices: 98979--99028 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
98969 CCTTATTTTT
98979 CCAAATAATGTAC
1 CCAAATAATGTAC
*
98992 CCATAACAATGT--
1 CCA-AATAATGTAC
*
99004 TCAAATAATGTAC
1 CCAAATAATGTAC
99017 CCACAATAATGT
1 CCA-AATAATGT
99029 TTAATTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 5 0.17
14 15 0.52
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (13 bp):
CCAAATAATGTAC
Found at i:99342 original size:23 final size:23
Alignment explanation
Indices: 99313--99375 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
99303 ATATAACCAC
99313 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
99336 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
99359 TACCTATTACATCATAT
1 TACCTATTACATTATAT
99376 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:99778 original size:25 final size:25
Alignment explanation
Indices: 99721--99786 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
99711 CACTCAAAAG
*
99721 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
99746 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
99771 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
99787 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:102775 original size:183 final size:183
Alignment explanation
Indices: 102250--102741 Score: 878
Period size: 183 Copynumber: 2.7 Consensus size: 183
102240 TTAAAATTAC
* *
102250 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAATACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * *
102315 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
* *
102380 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
102433 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
102498 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
102563 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
102616 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTTCAATCTGGACTTAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
102680 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
102742 GATAGCATTG
Statistics
Matches: 298, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 295 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:103159 original size:23 final size:23
Alignment explanation
Indices: 103133--103195 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
103123 ATATAACCAC
103133 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
103156 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
103179 TACCTATTACATCATAT
1 TACCTATTACATTATAT
103196 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:104796 original size:9 final size:9
Alignment explanation
Indices: 104782--104861 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
104772 CTTGTTTGGA
104782 TCATCATCT
1 TCATCATCT
104791 TCATCATCAT
1 TCATCATC-T
*
104801 CATCATCATCG
1 --TCATCATCT
104812 TCATCATCT
1 TCATCATCT
* *
104821 TCATCGTCA
1 TCATCATCT
* * *
104830 GCTTCATCG
1 TCATCATCT
*
104839 TCATCATCA
1 TCATCATCT
*
104848 TCGTCATCT
1 TCATCATCT
104857 TCATC
1 TCATC
104862 GTCAGCTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 45 0.83
10 1 0.02
12 8 0.15
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:104798 original size:12 final size:12
Alignment explanation
Indices: 104785--104873 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
104775 GTTTGGATCA
* *
104785 TCATCTTCATCA
1 TCATCGTCATCT
* *
104797 TCATCATCATCA
1 TCATCGTCATCT
* *
104809 TCGTCATCATCT
1 TCATCGTCATCT
*
104821 TCATCGTCAGCT
1 TCATCGTCATCT
*
104833 TCATCGTCATCA
1 TCATCGTCATCT
104845 TCATCGTCATCT
1 TCATCGTCATCT
*
104857 TCATCGTCAGCT
1 TCATCGTCATCT
104869 TCATC
1 TCATC
104874 TTCTGCGACC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:104800 original size:6 final size:6
Alignment explanation
Indices: 104781--104861 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
104771 ACTTGTTTGG
* * * *
104781 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
104829 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
104862 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:104837 original size:36 final size:36
Alignment explanation
Indices: 104797--104873 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
104787 ATCTTCATCA
*
104797 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
104833 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
104869 TCATC
1 TCATC
104874 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:104876 original size:6 final size:6
Alignment explanation
Indices: 104785--104876 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
104775 GTTTGGATCA
* * * * * * *
104785 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
104833 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
104877 TGCGACCGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:105990 original size:199 final size:198
Alignment explanation
Indices: 105137--106247 Score: 2051
Period size: 198 Copynumber: 5.6 Consensus size: 198
105127 TGTGACATCA
105137 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
* *
105202 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTA
66 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
105267 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
131 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
105332 AAC
196 AAC
105335 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
* *
105400 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGATTTCCATTCATTC
66 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
105465 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
131 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
105530 AAC
196 AAC
* *
105533 CGGTATACTTGTACCGATTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGCTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
*
105598 TTGGGATCGAAACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
66 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
105663 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
131 TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
105728 AAC
196 AAC
105731 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
*
105796 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTTCCATTCATTC
66 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
105861 TGGACCAAAAATATCGACACCAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATA
131 TGGACCAAAAATATCGACACCAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATA
105926 AAAC
195 AAAC
* *
105930 CAGAATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
105995 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
66 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
* * * *
106060 CGGAACAAAAATAGCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATA
131 TGGACCAAAAATATCGACACCAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATA
106125 AAAC
195 AAAC
*
106129 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
1 CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTT
*
106194 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGTACCCTGTT
65 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
106248 GGCCATATTG
Statistics
Matches: 889, Mismatches: 22, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
198 544 0.61
199 283 0.32
200 62 0.07
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (198 bp):
CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
TGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAA
AAC
Found at i:106412 original size:19 final size:19
Alignment explanation
Indices: 106366--106414 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
106356 TTATATTCAC
*
106366 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
106385 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
106404 ATACAAAATTA
1 ATACAAAATTA
106415 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:108242 original size:33 final size:33
Alignment explanation
Indices: 108205--108269 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
108195 ATCTTAATAG
*
108205 CACCCCTTAACACCCCAACTTCTTTCACCACTT
1 CACCCCTCAACACCCCAACTTCTTTCACCACTT
* *
108238 CACCCCTCAACACCTCTACTTCTTTCACCACT
1 CACCCCTCAACACCCCAACTTCTTTCACCACT
108270 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.49, G:0.00, T:0.28
Consensus pattern (33 bp):
CACCCCTCAACACCCCAACTTCTTTCACCACTT
Found at i:108328 original size:21 final size:21
Alignment explanation
Indices: 108303--108346 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
108293 CCCCTTATGC
108303 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
108324 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
108345 CT
1 CT
108347 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:110611 original size:20 final size:19
Alignment explanation
Indices: 110565--110623 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
110555 TCCGGTATCA
*
110565 TTTTACTGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
110584 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
* *
110605 TTTTACCTGTTATATCATT
1 TTTTACCGGTTTTATCATT
110624 GTGGATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:111248 original size:229 final size:227
Alignment explanation
Indices: 110813--111288 Score: 812
Period size: 229 Copynumber: 2.1 Consensus size: 227
110803 TTTTGGATCG
*
110813 ATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTATCATTTTTTTAATAGTGTTTC
1 ATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTATAATTTTTTTAATAGTGTTTC
*
110878 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACATAAAAAATTATTTGATTATTTGA
66 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGA
* *
110943 TATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATG
131 TATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATA
111008 TTTTCCACAGTGAAATAAGTATGAACACTTTT
196 TTTTCCACAGTGAAATAAGTATGAACACTTTT
*
111040 ATAAAAATGATATATA-TATTTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTTAATAGTGT
1 ATAAAAATGATATATACT-TTTTTTAAAGTTATGTAATTTATG-TATAA-TTTTTTTAATAGTGT
* *
111104 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACATAAAATTATTTGATTGTT
63 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT-AT
*
111169 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
127 TTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
111234 TATATTTT-CACAGTGAAATAAGTATGAACACTTTT
192 TATATTTTCCACAGTGAAATAAGTATGAACACTTTT
* *
111269 ATAAAAAGGATAGATACTTT
1 ATAAAAATGATATATACTTT
111289 ACAATATAAC
Statistics
Matches: 234, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
226 1 0.00
227 40 0.17
228 3 0.01
229 118 0.50
230 72 0.31
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (227 bp):
ATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTATAATTTTTTTAATAGTGTTTC
ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTGA
TATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATA
TTTTCCACAGTGAAATAAGTATGAACACTTTT
Found at i:111583 original size:37 final size:35
Alignment explanation
Indices: 111534--111726 Score: 153
Period size: 36 Copynumber: 5.4 Consensus size: 35
111524 AATAGTTTTT
**
111534 AAAATTATATAATATAGTATTAAAAAAACATTTTAG
1 AAAATTATATAATATAGT-TTTTAAAAACATTTTAG
* *
111570 AAAATATATATAATATA-TTTTTAAAATCA-TTTGG
1 AAAAT-TATATAATATAGTTTTTAAAAACATTTTAG
* *
111604 AAAACTTATATATATATAGTTTTTGAAAACATTTTTG
1 AAAA-TTATATA-ATATAGTTTTTAAAAACATTTTAG
* * * *
111641 AAAACATATATATTATAG-TTTTGAAAGCATTTT-G
1 AAAA-TTATATAATATAGTTTTTAAAAACATTTTAG
* *
111675 AAAACATTTATATTATATAGTTTTT-AAAACATTTTGGG
1 -AAA-A-TTATATAATATAGTTTTTAAAAACATTTT-AG
111713 AAAATTTATATAAT
1 AAAA-TTATATAAT
111727 CTTTTTTGAA
Statistics
Matches: 131, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
34 15 0.11
35 31 0.24
36 51 0.39
37 33 0.25
38 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (35 bp):
AAAATTATATAATATAGTTTTTAAAAACATTTTAG
Found at i:111627 original size:36 final size:35
Alignment explanation
Indices: 111558--111771 Score: 165
Period size: 36 Copynumber: 5.9 Consensus size: 35
111548 TAGTATTAAA
*
111558 AAAACATTTTAGAAAA--TATATATAATATA-TTTTT
1 AAAACA-TTTGGAAAACTTATATAT-ATATAGTTTTT
111592 AAAATCATTTGGAAAACTTATATATATATAGTTTTT
1 AAAA-CATTTGGAAAACTTATATATATATAGTTTTT
* * *
111628 GAAAACATTTTTGAAAACATATATAT-TATAGTTTTG
1 -AAAACA-TTTGGAAAACTTATATATATATAGTTTTT
* *
111664 AAAGCATTTTGAAAACATT-TATATTATATAGTTTTT
1 AAAACATTTGGAAAAC-TTATATA-TATATAGTTTTT
**
111700 AAAACATTTTGGGAAAA-TT-TATATA-ATCTTTTTT
1 AAAACA-TTT-GGAAAACTTATATATATATAGTTTTT
*
111734 GAAAACATGTTGGAAAACATTCGTATATTATATAGTTT
1 -AAAACAT-TTGGAAAAC-TT-ATATA-TATATAGTTT
111772 AAAAAAAAAA
Statistics
Matches: 148, Mismatches: 13, Indels: 32
0.77 0.07 0.17
Matches are distributed among these distances:
34 40 0.27
35 24 0.16
36 45 0.30
37 23 0.16
38 9 0.06
39 2 0.01
40 5 0.03
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (35 bp):
AAAACATTTGGAAAACTTATATATATATAGTTTTT
Found at i:111640 original size:12 final size:12
Alignment explanation
Indices: 111623--111647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111613 ATATATATAG
111623 TTTTTGAAAACA
1 TTTTTGAAAACA
111635 TTTTTGAAAACA
1 TTTTTGAAAACA
111647 T
1 T
111648 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:111750 original size:72 final size:70
Alignment explanation
Indices: 111558--111771 Score: 231
Period size: 71 Copynumber: 3.0 Consensus size: 70
111548 TAGTATTAAA
*
111558 AAAACATTTTAGAAAATATATATAATATATTTTT-AAAATCATTTGGAAAAC--TTATATATATA
1 AAAACATTTTGGAAAATATATATAAT-T-TTTTTGAAAA-CATTTGGAAAACATTTATAT-TATA
111620 TAGTTTTTG
62 TAGTTTTTG
* * * *
111629 AAAACATTTTTGAAAACATATAT-ATTATAGTTTTGAAAGCATTTTGAAAACATTTATATTATAT
1 AAAACATTTTGGAAAATATATATAATT-T--TTTTGAAAACATTTGGAAAACATTTATATTATAT
111693 AGTTTTT-
63 AGTTTTTG
*
111700 AAAACATTTTGGGAAAATTTATATAATCTTTTTTGAAAACATGTTGGAAAACATTCGTATATTAT
1 AAAACATTTT-GGAAAATATATATAAT-TTTTTTGAAAACAT-TTGGAAAACATT--TATATTAT
111765 ATAGTTT
61 ATAGTTT
111772 AAAAAAAAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
69 3 0.02
70 2 0.02
71 57 0.46
72 36 0.29
73 9 0.07
74 16 0.13
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (70 bp):
AAAACATTTTGGAAAATATATATAATTTTTTTGAAAACATTTGGAAAACATTTATATTATATAGT
TTTTG
Found at i:111842 original size:3 final size:3
Alignment explanation
Indices: 111834--111871 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
111824 TGTATATATA
111834 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
111872 TTTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:114745 original size:19 final size:19
Alignment explanation
Indices: 114711--114755 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
114701 ATTTAGACAT
114711 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
114729 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
114748 TTTGCATT
1 TTTGCATT
114756 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:118179 original size:84 final size:83
Alignment explanation
Indices: 118110--118938 Score: 961
Period size: 84 Copynumber: 9.9 Consensus size: 83
118100 TCTGTCCACC
* ** * *
118110 AAGACCTTCGAGTTCGACTACATTCAGCTTTGAAGGCACATCATTTGCAGCATAACTTAAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGC-TTCAAGGCACATCATTTGCAGCATAACTTAAGTCTA
118175 GAAGGGTTATCTGCTAACAA
65 GAAGGGTTATCTGC-AACAA
* *
118195 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
118260 AAGGGTTATCTGCTAACAA
66 AAGGGTTATCTGC-AACAA
* *
118279 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
*
118344 AAGGGTTATCTGCCAACTA
66 AAGGGTTATCTG-CAACAA
* * * * * * * *
118363 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
* *
118428 GAAGGGTTATCTGTAACCA
65 GAAGGGTTATCTGCAACAA
* * * *
118447 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
* *
118512 AAGGGTTATCTGCCACTA
66 AAGGGTTATCTGCAACAA
* * * * * * * *
118530 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
* *
118595 GAAGGGTTATCTGTAACCA
65 GAAGGGTTATCTGCAACAA
* * * *
118614 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
118679 AAGGGTTATCTGC--C-A
66 AAGGGTTATCTGCAACAA
* * * * * * * * *
118694 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
*
118759 GAA-GGTTATCTGTTAACAA
65 GAAGGGTTATCTG-CAACAA
* * * * *
118778 AAGACCTTTGAGTTTGACTACGCTCAGC-TCAACGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
*
118842 GAAGGGTTATCTGTCATC-A
65 GAAGGGTTATCTG-CAACAA
* * * *
118861 AAGACCTTCGAGTGCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTA
*
118925 GAAGGGCTATCTGC
65 GAAGGGTTATCTGC
118939 CAAAGACCCC
Statistics
Matches: 639, Mismatches: 95, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
80 38 0.06
81 27 0.04
82 1 0.00
83 208 0.33
84 300 0.47
85 65 0.10
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (83 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
AAGGGTTATCTGCAACAA
Found at i:118601 original size:167 final size:167
Alignment explanation
Indices: 118081--118937 Score: 1124
Period size: 167 Copynumber: 5.1 Consensus size: 167
118071 TGCAGCTTAG
* * * * ** **
118081 CTCAAGGCCAGAAGGGCTATCTGTCCACC-AAGACCTTCGAGTTCGACTACATTCAGCTTTGAAG
1 CTCAAGGCTAGAAGGGTTATCTGT-AACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAG
* * * *
118145 GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTC
64 GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGC-CACTAAAGACCCTTAAGTTC
* * * * *
118210 GACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAA
128 GATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* * * *
118249 CTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
*
118314 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCG
65 CACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCC-ACTAAAGACCCTTAAGTTCG
118379 ATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
129 ATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
118418 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* * *
118483 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTGCCACTAAAGACCCTTAAGTTCGAT
66 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCACTAAAGACCCTTAAGTTCGAT
118548 TACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
131 TACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
118585 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* *
118650 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTG-C-C-AAAGACCCTTAAGTTCGAT
66 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCACTAAAGACCCTTAAGTTCGAT
*
118712 TACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
131 TACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* *
118749 CTCAAGGCTAGAA-GGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCAGCT-CAACG
1 CTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-G
* * * * * * * *
118812 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA-TCAAAGA-CCTTCGAGTG
64 GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCACT-AAAGACCCTT-AAGTT
* * * * *
118875 CGACTACGCTCAGC-TCTAA-GGCACATCATTTGCAGCATAG
127 CGATTACACTCAGCTTC-AAGGGCATATCATTTACAGCATAA
* * * *
118915 CTTAAGTCGAGAAGGGCTATCTG
1 CTCAAGGCTAGAAGGGTTATCTG
118938 CCAAAGACCC
Statistics
Matches: 626, Mismatches: 50, Indels: 27
0.89 0.07 0.04
Matches are distributed among these distances:
163 12 0.02
164 138 0.22
165 2 0.00
166 34 0.05
167 194 0.31
168 181 0.29
169 65 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (167 bp):
CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCACTAAAGACCCTTAAGTTCGAT
TACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
Found at i:118817 original size:247 final size:245
Alignment explanation
Indices: 118081--119010 Score: 1031
Period size: 247 Copynumber: 3.7 Consensus size: 245
118071 TGCAGCTTAG
* * * * **
118081 CTCAAGGCCAGAAGGGCTATCTGTCCACC-AAGACCTTCGAGTTCGACTACATTCAGCTTTGAAG
1 CTCAAGGCTAGAAGGGTTATCTGT-AACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAG
*
118145 GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTC
64 GCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGC---C-AAAGACCCTTGAGTTC
* * * *
118210 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTA
125 GACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTG-TA
* *
118275 ACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAA
189 ACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCATATCATTTACAGCATAA
* * * * * * * *
118333 CTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAG
1 CTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAA-
* * * * * *
118397 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
63 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG---CCAAAGACCCTTGAGTTC
* * * * * * * **
118462 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTGCCA
125 GACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTAA
* * * * *
118527 CTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
190 CAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAA-GGCATATCATTTACAGCATAA
* *
118585 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGC
* * * *
118650 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTTAAGTTCGATTAC
66 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTTGAGTTCGACTAC
* * * *
118715 ACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAA-GGTTATCTGTTAACAAA
131 ACTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTG-TAACAAA
*
118779 AGACCTTTGAGTTTGACTACGCTCAGCTCAACGGCATATCATTTACAGCATAA
194 AGACCTTTGAGTTCGACTACGCTCAGCTCAA-GGCATATCATTTACAGCATAA
* * * * *
118832 CTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTGCGACTACGCTCAGCTCTAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGC
* * * * * *
118897 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGGGTTCGATTAC
66 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTTGAGTTCGACTAC
* * * * * *
118962 ACTCAACTTCGAGGTCATATCA-TTACAACATAGCTCAAGGCAAGAAGGG
131 ACTCAGCTCCAAGG-CACATCATTTACAGCATAACTCAAGGCAAGAAGGG
119011 CTATTTGTCA
Statistics
Matches: 581, Mismatches: 83, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
246 23 0.04
247 202 0.35
248 52 0.09
250 41 0.07
251 58 0.10
252 140 0.24
253 60 0.10
254 4 0.01
256 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (245 bp):
CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGC
ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTTGAGTTCGACTAC
ACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTAACAAAAG
ACCTTTGAGTTCGACTACGCTCAGCTCAAGGCATATCATTTACAGCATAA
Found at i:119682 original size:36 final size:35
Alignment explanation
Indices: 119654--119896 Score: 147
Period size: 36 Copynumber: 6.7 Consensus size: 35
119644 ATAGTATTAA
*
119654 AAAAACATTTTAGAAAATATATATATATATTTTTT
1 AAAAACATTTTAGAAAATATATATATATAGTTTTT
* *
119689 AAAATCA-TTTGGAAAACTTATATATATATAGTTTTT
1 AAAAACATTTTAGAAAA--TATATATATATAGTTTTT
* * *
119725 GAAAACATTTTTGAAAACATATATATTATAG-TTTT
1 AAAAACATTTTAGAAAATATATATA-TATAGTTTTT
* * *
119760 GAAAGCATTTT-GAAAACATTTATATTATATAGTTTTT
1 AAAAACATTTTAG-AAA-ATATATA-TATATAGTTTTT
* * **
119797 -AAAACATTTTGGGAAAATTTATATA-ATCTTTTTT
1 AAAAACATTTT-AGAAAATATATATATATAGTTTTT
* * * * **
119831 GAAAACATGTTGGAAAACATTCGTATATTATATAGTTTAAA
1 AAAAACATTTTAG-AAA-A-T-ATATA-TATATAGTTT-TT
*
119872 AAAAACATTTT-GAAAATTTATATAT
1 AAAAACATTTTAGAAAATATATATAT
119897 TGTATGTTTT
Statistics
Matches: 168, Mismatches: 22, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
34 18 0.11
35 47 0.28
36 58 0.35
37 19 0.11
38 6 0.04
39 5 0.03
40 6 0.04
41 9 0.05
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (35 bp):
AAAAACATTTTAGAAAATATATATATATAGTTTTT
Found at i:119704 original size:34 final size:34
Alignment explanation
Indices: 119655--119847 Score: 174
Period size: 36 Copynumber: 5.5 Consensus size: 34
119645 TAGTATTAAA
*
119655 AAAACATTTTAGAAAATATATATATATATTTTTT
1 AAAACATTTTGGAAAATATATATATATATTTTTT
*
119689 AAAATCA-TTTGGAAAACTTATATATATATAGTTTTTG
1 AAAA-CATTTTGGAAAA--TATATATATATA-TTTTTT
* * * *
119726 AAAACATTTTTGAAAACATATATATTATAGTTTTG
1 AAAACATTTTGGAAAATATATATA-TATATTTTTT
* * * *
119761 AAAGCATTTTGAAAACATTTATATTATATAGTTTTT
1 AAAACATTTTGGAAA-ATATATA-TATATATTTTTT
* *
119797 AAAACATTTTGGGAAAATTTATATA-ATCTTTTTT
1 AAAACATTTT-GGAAAATATATATATATATTTTTT
*
119831 GAAAACATGTTGGAAAA
1 -AAAACATTTTGGAAAA
119848 CATTCGTATA
Statistics
Matches: 133, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
34 25 0.19
35 37 0.28
36 48 0.36
37 23 0.17
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (34 bp):
AAAACATTTTGGAAAATATATATATATATTTTTT
Found at i:119711 original size:71 final size:69
Alignment explanation
Indices: 119634--119896 Score: 235
Period size: 72 Copynumber: 3.6 Consensus size: 69
119624 AGTTTTTAAA
119634 ATTATATAATATAGTATTAAAAAAACATTTTAGAAAATATATATATATATTTTTTAAAATCATTT
1 ATTATATAATATAGT-TTAAAAAAACATTTT-GAAAATATATATATATATTTTTTAAAA-CATTT
119699 GGAAAAC
63 GGAAAAC
*** * * * *
119706 -TTATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATAGTTTTGAAAGCATTT
1 ATTATATA-ATATAGTTTAAAAAAACA-TTTTGAAAATATATATA-TATATTTTTTAAAACATTT
*
119770 TGAAAAC
63 GGAAAAC
* ** * *
119777 ATTTATATTATATAGTTT-TTAAAACATTTTGGGAAAATTTATATA-ATCTTTTTTGAAAACATG
1 A-TTATATAATATAGTTTAAAAAAACATTTT--GAAAATATATATATATATTTTTT-AAAACAT-
119840 TTGGAAAAC
61 TTGGAAAAC
* *
119849 ATTCGTATATTATATAGTTTAAAAAAAACATTTTGAAAATTTATATAT
1 A-T--TATATAATATAGTTT-AAAAAAACATTTTGAAAATATATATAT
119897 TGTATGTTTT
Statistics
Matches: 158, Mismatches: 19, Indels: 25
0.78 0.09 0.12
Matches are distributed among these distances:
70 10 0.06
71 51 0.32
72 53 0.34
73 6 0.04
74 28 0.18
76 10 0.06
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (69 bp):
ATTATATAATATAGTTTAAAAAAACATTTTGAAAATATATATATATATTTTTTAAAACATTTGGA
AAAC
Found at i:119737 original size:12 final size:12
Alignment explanation
Indices: 119720--119744 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
119710 ATATATATAG
119720 TTTTTGAAAACA
1 TTTTTGAAAACA
119732 TTTTTGAAAACA
1 TTTTTGAAAACA
119744 T
1 T
119745 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:119847 original size:72 final size:69
Alignment explanation
Indices: 119655--119895 Score: 231
Period size: 71 Copynumber: 3.3 Consensus size: 69
119645 TAGTATTAAA
*
119655 AAAACATTTTAGAAAATATATATATATATTTTTT-AAAATCATTTGGAAAAC--TTATATATATA
1 AAAACATTTTGGAAAATATATATA-AT-TTTTTTGAAAA-CATTTGGAAAACATTTATAT-TATA
119717 TAGTTTTT
62 TAGTTTTT
* * * *
119725 GAAAACATTTTTGAAAACATATAT-ATTATAGTTTTGAAAGCATTTTGAAAACATTTATATTATA
1 -AAAACATTTTGGAAAATATATATAATT-T--TTTTGAAAACATTTGGAAAACATTTATATTATA
119789 TAGTTTTT
62 TAGTTTTT
*
119797 AAAACATTTTGGGAAAATTTATATAATCTTTTTTGAAAACATGTTGGAAAACATTCGTATATTAT
1 AAAACATTTT-GGAAAATATATATAAT-TTTTTTGAAAACAT-TTGGAAAACATT--TATATTAT
**
119862 ATAGTTTAAAA
61 ATAGTTT--TT
*
119873 AAAACATTTT-GAAAATTTATATA
1 AAAACATTTTGGAAAATATATATA
119896 TTGTATGTTT
Statistics
Matches: 145, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
68 1 0.01
69 3 0.02
71 57 0.39
72 36 0.25
73 9 0.06
74 29 0.20
76 10 0.07
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (69 bp):
AAAACATTTTGGAAAATATATATAATTTTTTTGAAAACATTTGGAAAACATTTATATTATATAGT
TTTT
Found at i:119937 original size:3 final size:3
Alignment explanation
Indices: 119929--119966 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
119919 TGTATATATA
119929 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
119967 TTTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:126452 original size:15 final size:15
Alignment explanation
Indices: 126428--126461 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
126418 AAATAGGAGT
* *
126428 AGATAGTTGAGAAGA
1 AGATAATTGACAAGA
126443 AGATAATTGACAAGA
1 AGATAATTGACAAGA
126458 AGAT
1 AGAT
126462 CCATTACCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (15 bp):
AGATAATTGACAAGA
Found at i:132961 original size:37 final size:38
Alignment explanation
Indices: 132919--132990 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
132909 ATCTATTTAA
132919 TTTAAAATTTCAAATCT-ACTCGATAACAT-TTTAAGAT
1 TTTAAAATTTCAAATCTGA-TCGATAACATGTTTAAGAT
* *
132956 TTTAAAATTTCAACTCTGATTGATAACATGTTTAA
1 TTTAAAATTTCAAATCTGATCGATAACATGTTTAA
132991 ATATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTAAAATTTCAAATCTGATCGATAACATGTTTAAGAT
Found at i:135456 original size:44 final size:44
Alignment explanation
Indices: 135407--135508 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
135397 ATGCATATGA
* * *
135407 AGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTC
1 AGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTC
** **
135451 AGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTC
1 AGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTC
135495 AGTGCATCGATGCA
1 AGTGCATCGATGCA
135509 GCAGGAGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 46 0.92
45 4 0.08
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
AGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTC
Found at i:136295 original size:149 final size:149
Alignment explanation
Indices: 135981--136283 Score: 588
Period size: 149 Copynumber: 2.0 Consensus size: 149
135971 GGGTAGAGGG
*
135981 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACACGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
136046 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
136111 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
136130 TCTACACGGTCCTTCGGGATATATATATATTTTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACACGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
136195 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
136260 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
136279 TCTAC
1 TCTAC
136284 GTGGCACTTC
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACACGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:136296 original size:23 final size:23
Alignment explanation
Indices: 136262--136307 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
136252 CATTATTATA
*
136262 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
136285 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
136308 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:142495 original size:63 final size:63
Alignment explanation
Indices: 142410--142568 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 63
142400 TTTGTTGAGG
* * * * *
142410 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** ** **
142473 GTGCATCGATGCATAAGGAGTGCATATATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
**
142536 GTGCATCGATGCAGCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCAT
142569 GCCTCCATTA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
63 76 0.95
64 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:143202 original size:149 final size:149
Alignment explanation
Indices: 143024--143328 Score: 583
Period size: 149 Copynumber: 2.0 Consensus size: 149
143014 TGGTAGAGGG
*
143024 TCTACGTGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGTAGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
143089 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGGCATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
143154 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
143173 TCTACGTAGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGTAGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
143238 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
143303 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
143322 TTTACGT
1 TCTACGT
143329 GGCACTTCGG
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGTAGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:143339 original size:23 final size:23
Alignment explanation
Indices: 143305--143350 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
143295 CATTATTATA
*
143305 TGGCACTACGGTGCAATTTTACG
1 TGGCACTACGGTGCAATTATACG
*
143328 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
143351 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:146646 original size:24 final size:24
Alignment explanation
Indices: 146597--146656 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
146587 TGTTGTAAAT
*
146597 AAATATTATAA-ATCTAATTTTTA
1 AAATATTTTAATATCTAATTTTTA
146620 AAATATTTTAATAT-TAATTTTTTA
1 AAATATTTTAATATCTAA-TTTTTA
*
146644 AAATATATTAATA
1 AAATATTTTAATA
146657 CTTGTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATATTTTAATATCTAATTTTTA
Found at i:147615 original size:29 final size:28
Alignment explanation
Indices: 147582--147642 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
147572 GGAACATATG
**
147582 AATAGTCAATTGCTCATTTTATAACTTTT
1 AATAGTCAATAACT-ATTTTATAACTTTT
* *
147611 AATAGTCGATAACTATTTTTTAACTTTT
1 AATAGTCAATAACTATTTTATAACTTTT
147639 AATA
1 AATA
147643 ATCGGTAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (28 bp):
AATAGTCAATAACTATTTTATAACTTTT
Found at i:148388 original size:194 final size:189
Alignment explanation
Indices: 148059--148443 Score: 567
Period size: 194 Copynumber: 2.0 Consensus size: 189
148049 ATAAAATTTT
* **
148059 AAATATTAAATATATTATATATATAAACATATGGGCTAAGCCCAAACCATTTAAAATTAATTAAT
1 AAATATTAAATATATTATATATATAAACATATGAGCTAAGCCCAAACCATTTAAAAACAATTAAT
* *
148124 AATTTAAGATCCAATAATTTTTAAACCTAAACCAATATTATTTAATTAAAAATTTTATATAAAAT
66 AATTTAAGATCCAATAACTTTTAAACCTAAACCAATATTAATTAATTAAAAATTTTATATAAAAT
* *
148189 TTTTATTTTATAATTATATATTATTTAAATTAATTGTAAATTATTTTTATGAATTAAAA
131 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTATGAATTAAAA
*
148248 AAATATTAAATATATTATATATAACATATAACATATGAGCTCAA-CTCAAACCATTTAAAACACA
1 AAATATTAAATATATTATATAT---ATA-AACATATGAGCT-AAGCCCAAACCATTTAAAA-ACA
* *
148312 ATTAATAATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTTAAAAA-TTTAT
60 ATTAATAATTTAAGATCCAATAACTTTTAAACCTAAACCAATATTAATTAA-TTAAAAATTTTAT
* * * *
148376 ATAAATTTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTATA
124 ATAAAATTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTATGAATTAAA
148441 A
189 A
148442 AA
1 AA
148444 CATTTAATTT
Statistics
Matches: 175, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
189 22 0.13
192 3 0.02
193 26 0.15
194 117 0.67
195 7 0.04
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (189 bp):
AAATATTAAATATATTATATATATAAACATATGAGCTAAGCCCAAACCATTTAAAAACAATTAAT
AATTTAAGATCCAATAACTTTTAAACCTAAACCAATATTAATTAATTAAAAATTTTATATAAAAT
TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTATGAATTAAAA
Found at i:148892 original size:24 final size:21
Alignment explanation
Indices: 148848--148888 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
148838 AGTAAAAAAT
148848 TACCTAAAACATTATTATTTA
1 TACCTAAAACATTATTATTTA
*
148869 TACCTAAAACATTAATATTT
1 TACCTAAAACATTATTATTT
148889 TTTAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TACCTAAAACATTATTATTTA
Found at i:157285 original size:23 final size:23
Alignment explanation
Indices: 157259--157306 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
157249 ATAAAGTACA
*
157259 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
157282 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
157305 AT
1 AT
157307 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:157780 original size:23 final size:23
Alignment explanation
Indices: 157718--157790 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
157708 ACACTTTACA
* * *
157718 ATATAACCACTACGTATTACATT
1 ATATAAACGCTACCTATTACATT
* * *
157741 ATATAAATGATATCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
157764 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
157787 ATAT
1 ATAT
157791 GTTTACCTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:162142 original size:3 final size:3
Alignment explanation
Indices: 162134--162214 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
162124 ACTTGTTTGG
* * * **
162134 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
162182 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
162215 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:162151 original size:12 final size:12
Alignment explanation
Indices: 162138--162226 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
162128 GTTTGGATCA
* *
162138 TCATCTTCATCA
1 TCATCGTCATCT
* *
162150 TCATCATCATCA
1 TCATCGTCATCT
* *
162162 TCGTCATCATCT
1 TCATCGTCATCT
* *
162174 TCATCGCCAGCT
1 TCATCGTCATCT
*
162186 TCATCGTCATCA
1 TCATCGTCATCT
162198 TCATCGTCATCT
1 TCATCGTCATCT
*
162210 TCATCGTCAGCT
1 TCATCGTCATCT
162222 TCATC
1 TCATC
162227 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:162157 original size:18 final size:18
Alignment explanation
Indices: 162138--162229 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
162128 GTTTGGATCA
* *
162138 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
162156 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
162174 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
162192 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
162210 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
162228 TC
1 TC
162230 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:162190 original size:36 final size:36
Alignment explanation
Indices: 162150--162226 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
162140 ATCTTCATCA
*
162150 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
162186 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
162222 TCATC
1 TCATC
162227 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:162229 original size:6 final size:6
Alignment explanation
Indices: 162138--162229 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
162128 GTTTGGATCA
* * * * * * * *
162138 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
162186 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
162230 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:164153 original size:194 final size:197
Alignment explanation
Indices: 163663--164278 Score: 1079
Period size: 195 Copynumber: 3.1 Consensus size: 197
163653 TTTAAATTAG
163663 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
163726 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATGCTTTT-GGTTCGATGATTTTGGGA
65 A-TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
163790 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
129 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
163855 AAAA
194 AAAA
* * * *
163859 TATCGACACAAACTATATTAGTGTCGACACATTA-TTATACATATTATCTCAT-AATCTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-
163922 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
163987 CGACACTTTTATATAT-GATCGACAC-TTATGGGTGCACCCTGTTTTCCATTCA-TCTGGAAAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
164049 AAA
195 AAA
164052 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATC
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-
164117 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
164181 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
164246 AAAA
194 AAAA
164250 TATCGACACAAACTATATTAGTGTCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
164279 TTATTTTTGG
Statistics
Matches: 400, Mismatches: 10, Indels: 18
0.93 0.02 0.04
Matches are distributed among these distances:
193 47 0.12
194 83 0.21
195 108 0.27
196 78 0.19
197 41 0.10
198 43 0.11
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAA
AA
Found at i:164358 original size:321 final size:314
Alignment explanation
Indices: 163954--164592 Score: 1106
Period size: 321 Copynumber: 2.0 Consensus size: 314
163944 ATTACATATT
163954 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGATCGACACTTATGGG
1 ACATTATA-TTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGATCGACACTTATGGG
164019 TGCACCCTGTTTTCCATTCA-TCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACA
65 TGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC-AACTATATTAGTGTCGACACA
* *
164083 TTATTTAGACATATTCTCTCATAAAACCGGTATCATTGTACCGGTTAGATTGAAAAATTACATAT
129 TTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTG--AAATTACAT-T
164148 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
191 ACA-T-TACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACAC-TTAT
164213 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCG
253 GGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCG
164276 ACATTAT-TTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
1 ACATTATATTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATAT-GATCGACAC-TTATG
164339 GGTGC-CCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAACTATATTAGTGTCGACAC
63 GGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAACTATATTAGTGTCGACAC
* *
164403 ATTATTTATACATATTATCTCATAAAATCGGTATAATTGTACCGGTTAGATTGAAATTACATTAC
128 ATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAATTACATTAC
164468 ATTACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTATGGGTG
193 ATTACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTATGGGTG
164533 CACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCG
258 CACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCG
164590 ACA
1 ACA
164593 CATTATTTAT
Statistics
Matches: 309, Mismatches: 4, Indels: 16
0.94 0.01 0.05
Matches are distributed among these distances:
314 36 0.12
315 33 0.11
316 54 0.17
317 1 0.00
318 4 0.01
319 23 0.07
320 25 0.08
321 94 0.30
322 39 0.13
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (314 bp):
ACATTATATTTTGGGTTCGATGATTTTGGGATCGACACTTTTATATATGATCGACACTTATGGGT
GCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAACTATATTAGTGTCGACACATT
ATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAATTACATTACATT
ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTATGGGTGCAC
CCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCG
Found at i:164409 original size:125 final size:126
Alignment explanation
Indices: 164148--164401 Score: 469
Period size: 125 Copynumber: 2.0 Consensus size: 126
164138 AATTACATAT
164148 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
1 ACATTAT--TTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
164213 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCG
64 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCG
164276 ACATTATTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
1 ACATTATTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
164340 GTGC-CCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC-AACTATATTAGTGTCG
66 GTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCG
164399 ACA
1 ACA
164402 CATTATTTAT
Statistics
Matches: 126, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
123 19 0.15
124 39 0.31
125 46 0.37
126 15 0.12
128 7 0.06
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
ACATTATTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
GTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCG
Found at i:164918 original size:195 final size:198
Alignment explanation
Indices: 164276--165123 Score: 1350
Period size: 195 Copynumber: 4.4 Consensus size: 198
164266 ATTAGTGTCG
164276 ACATTAT--TTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
1 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
164338 GGGTGC-CCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC-AACTATATTAGTGTCGAC
66 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
* *
164401 ACATTATTTATACATATTATCTCATAAAATCGGTATAATTGTACCGGTTAGATTG--AAATTAC-
131 ACATTATTTAGACATA-TATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
164463 -ATT
195 TATT
164466 ACA-T-TACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACAC-TTAT
1 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
164528 GGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGAC
66 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
* * *
164592 ACATTATTTATACATTTATCTCATAAATCCGGTATAATTGTA-CGGTTAGATTGAAAAATTACAT
131 ACATTATTTAGACATATATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
164656 ATT
196 ATT
164659 ACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGACACTTTAT
1 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
164722 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
66 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
*
164787 ACATTATTTAGACATAT-TCTCATAAAACCGGTATCATTGTACCGGTTAGATTGAAAAATTACAT
131 ACATTATTTAGACATATATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
164851 ATT
196 ATT
164854 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGATCGACA-TTTAT
1 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
* *
164917 GGGTGCACCCTGTTTTACATTCATTCTGGACAAAAAATATCGACACAAACTATATTA--GTCGAC
66 GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
* * * *
164980 ACA-TATTTAGACATAT-TCTC-TCAAAAACGGTAGACTTGTACCAGTTAGATTGAAAAATTACA
131 ACATTATTTAGACATATATCTCAT-AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACA
165042 TA-T
195 TATT
* * ** *
165045 ACATTATACTTTTGGTTTCGATGTTTTTGGGATTAACACTTTTTATATATGGATCGACACTTTTT
1 ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
165110 GGGTGCACCCTGTT
66 GGGTGCACCCTGTT
165124 GGCCATATTG
Statistics
Matches: 621, Mismatches: 19, Indels: 33
0.92 0.03 0.05
Matches are distributed among these distances:
188 1 0.00
189 12 0.02
190 68 0.11
191 134 0.22
192 73 0.12
193 53 0.09
194 85 0.14
195 147 0.24
196 48 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
ACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
GGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGAC
ACATTATTTAGACATATATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
ATT
Found at i:165287 original size:19 final size:19
Alignment explanation
Indices: 165241--165289 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
165231 TTATATTCAC
*
165241 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
165260 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
165279 ATACAAAATTA
1 ATACAAAATTA
165290 ACCATACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:167182 original size:21 final size:19
Alignment explanation
Indices: 167133--167173 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
167123 CTCAACTGTA
**
167133 TCTTCGACTCTCTCAAGTT
1 TCTTCGACTCGATCAAGTT
*
167152 TCTACGACTCGATCAAGTT
1 TCTTCGACTCGATCAAGTT
167171 TCT
1 TCT
167174 CTTCGACTCT
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:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (19 bp):
TCTTCGACTCGATCAAGTT
Found at i:169453 original size:21 final size:19
Alignment explanation
Indices: 169398--169444 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
169388 TCCGATATCA
169398 TTTTACCGGTTTATCATTT
1 TTTTACCGGTTTATCATTT
**
169417 TGATACCGGTTTTATCATATT
1 TTTTACCGG-TTTATCAT-TT
169438 TTTTACC
1 TTTTACC
169445 TGTTATATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTATCATTT
Found at i:169592 original size:20 final size:20
Alignment explanation
Indices: 169566--169611 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
169556 CACTTTTAAA
169566 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
169585 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
169606 TTTACC
1 TTTACC
169612 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:170078 original size:228 final size:227
Alignment explanation
Indices: 169676--170123 Score: 783
Period size: 228 Copynumber: 2.0 Consensus size: 227
169666 TTTAAAACTC
*
169676 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATATTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATAGTTTCCACCTACAATA
*
169741 TTAATTTAATAATTTAATTTACACAAAATATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
*
169806 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATA-AGTTTTCAACAGTGAAATA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATA-TTTTC-ACAGTGAAATA
*
169870 AGTATGGACACTTTTATAAAAATGATATATACTT
194 AGTATGGACACTTTTATAAAAAGGATATATACTT
*
169904 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT-GTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATAGTTTCCACCTACAAT
*
169968 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
170033 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
130 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
170098 GTATGGACACTTTTATAAAAAGGATA
195 GTATGGACACTTTTATAAAAAGGATA
170124 GATAATTTAC
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 37 0.18
228 129 0.61
229 44 0.21
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATAGTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTT
Done.