Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 1 of 39
Found at i:3458 original size:55 final size:55
Alignment explanation
Indices: 3397--3741 Score: 480
Period size: 55 Copynumber: 6.3 Consensus size: 55
3387 ATTTTCCAAC
*
3397 CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCGCCTTCCAGT
1 CCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
**
3452 CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* **
3507 CCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
3562 CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCATT
1 CCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
3617 CCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * * ** *
3672 CCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACT
1 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
*
3727 CCTCAATGAGCAGGA
1 CCTCAAAGAGCAGGA
3742 TACAGTTTAT
Statistics
Matches: 267, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
54 4 0.01
55 261 0.98
56 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
Found at i:3621 original size:29 final size:29
Alignment explanation
Indices: 3589--3669 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 29
3579 CCTCTTAAAG
**
3589 CCCACACAAGTTGGTGGCACCTTTCATTC
1 CCCACACAAGTTGGTGGCACCTTTCAAAC
** * *
3618 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAAAC
3644 CCCACACAAGTTGGTGGCACCTTTCA
1 CCCACACAAGTTGGTGGCACCTTTCA
3670 GTCCTCAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
26 14 0.37
27 5 0.13
28 5 0.13
29 14 0.37
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAAAC
Found at i:3659 original size:165 final size:165
Alignment explanation
Indices: 3387--3741 Score: 536
Period size: 165 Copynumber: 2.2 Consensus size: 165
3377 CAAGGTGCTT
* *
3387 ATTTTCCAACCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGT
1 ATTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
3452 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGA
66 CCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGA
3516 ACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
130 ACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
3552 ATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCATT
1 ATTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
3617 CCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
66 CCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
** * *
3681 GTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGC
130 ACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
3717 ACTTTT-TACTCCTCAATGAGCAGGA
1 A-TTTTCCAATCCTCAAAGAGCAGGA
3742 TACAGTTTAT
Statistics
Matches: 173, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
164 2 0.01
165 164 0.95
166 7 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (165 bp):
ATTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
CCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAA
CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:4327 original size:20 final size:21
Alignment explanation
Indices: 4284--4356 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
4274 AAAAAAAAAC
* *
4284 GTATCGATACATTTGTA-GAAT
1 GTATCGATACA-TTCTACAAAT
4305 GTATCGATACATTC-ACAAAT
1 GTATCGATACATTCTACAAAT
4325 GTATCGATACATTCTACAAAT
1 GTATCGATACATTCTACAAAT
4346 GTATCGATACA
1 GTATCGATACA
4357 GGGTCCCAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.02
20 19 0.40
21 28 0.58
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (21 bp):
GTATCGATACATTCTACAAAT
Found at i:4416 original size:19 final size:19
Alignment explanation
Indices: 4392--4459 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
4382 AATTCAACGA
4392 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4411 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
4426 --TGTATCGATGCATAAGT
1 TTTGTATCGATACATAAGT
*
4443 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4460 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4430 original size:32 final size:32
Alignment explanation
Indices: 4394--4456 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4384 TTCAACGATT
*
4394 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
4426 TGTATCGATGCATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4457 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4517 original size:13 final size:13
Alignment explanation
Indices: 4499--4525 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4489 CATTTTTCTG
4499 TGTATCGATACAT
1 TGTATCGATACAT
4512 TGTATCGATACAT
1 TGTATCGATACAT
4525 T
1 T
4526 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14171 original size:12 final size:12
Alignment explanation
Indices: 14154--14185 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
14144 CTTCTCTTCA
14154 AAAAAAAAAAGG
1 AAAAAAAAAAGG
14166 AAAAAAAAAAGG
1 AAAAAAAAAAGG
14178 AAAAAAAA
1 AAAAAAAA
14186 CAAAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGG
Found at i:14208 original size:34 final size:37
Alignment explanation
Indices: 14152--14222 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 37
14142 ACCTTCTCTT
*
14152 CAAAAAAAAAAAGGAAAAAAAAA-AG-GAAAA-AAAA
1 CAAAAAAAAAAAGCAAAAAAAAAGAGAGAAAAGAAAA
*
14186 CAAAAAAACAAAA-CAAAGAAAAAGAGAGAAAAGAAAA
1 CAAAAAAA-AAAAGCAAAAAAAAAGAGAGAAAAGAAAA
14223 AACCTACTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 16 0.52
35 6 0.19
36 5 0.16
37 4 0.13
ACGTcount: A:0.82, C:0.06, G:0.13, T:0.00
Consensus pattern (37 bp):
CAAAAAAAAAAAGCAAAAAAAAAGAGAGAAAAGAAAA
Found at i:15268 original size:26 final size:26
Alignment explanation
Indices: 15238--15327 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
15228 AAGTTGGTGG
*
15238 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* *
15264 CACCTCTTAAAG-CGCACAGAAGTTAG-TGG-
1 CACCT-TT-CAGTC-CACA-AAG--AGCAGGA
*
15293 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
15319 CACCTTTCA
1 CACCTTTCA
15328 AAGCCCACCC
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 17 0.35
27 8 0.16
28 8 0.16
29 8 0.16
30 2 0.04
31 2 0.04
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:15275 original size:55 final size:55
Alignment explanation
Indices: 15191--15923 Score: 1086
Period size: 55 Copynumber: 13.3 Consensus size: 55
15181 TCCGCTTTTT
15191 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
15246 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCGCACAGAAGTTAGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
15301 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
15356 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTAGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
15411 AGTCCCCAAAAAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
15466 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
15521 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACATAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
15576 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
15631 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
15686 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
15741 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
15796 ATTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
15851 AATCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
15906 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
15924 TACAGTTTAT
Statistics
Matches: 623, Mismatches: 44, Indels: 22
0.90 0.06 0.03
Matches are distributed among these distances:
54 13 0.02
55 598 0.96
56 12 0.02
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:15803 original size:29 final size:29
Alignment explanation
Indices: 15771--15852 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
15761 CCTCTTAAAG
**
15771 CCCACACAAGTTGGTGGCACCTTTCATTC
1 CCCACACAAGTTGGTGGCACCTTTCAAAC
** * *
15800 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAAAC
15826 CCCACACAAGTTGGTGGCACCTTTCAA
1 CCCACACAAGTTGGTGGCACCTTTCAA
15853 TCCTCAAAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
26 14 0.36
27 5 0.13
28 5 0.13
29 15 0.38
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAAAC
Found at i:15829 original size:26 final size:26
Alignment explanation
Indices: 15800--15884 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
15790 CCTTTCATTC
15800 CCCAAAGAGCAGGACACCTTTCAAAG
1 CCCAAAGAGCAGGACACCTTTCAAAG
** * *
15826 CCCACACA-AGTTGGTGGCACCTTTC-AAT
1 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
*
15854 CCTCAAAGAGCAGGACGCCTTTCAAAG
1 CC-CAAAGAGCAGGACACCTTTCAAAG
15881 CCCA
1 CCCA
15885 CACGAGTTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
26 14 0.33
27 9 0.21
28 9 0.21
29 11 0.26
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.16
Consensus pattern (26 bp):
CCCAAAGAGCAGGACACCTTTCAAAG
Found at i:16509 original size:20 final size:20
Alignment explanation
Indices: 16462--16538 Score: 109
Period size: 21 Copynumber: 3.8 Consensus size: 20
16452 TTGAAAAAAA
***
16462 AAATGTATCGATACATTTGT
1 AAATGTATCGATACATTCAC
16482 AGAATGTATCGATACATTCAC
1 A-AATGTATCGATACATTCAC
16503 AAATGTATCGATACATTCTAC
1 AAATGTATCGATACATTC-AC
16524 AAATGTATCGATACA
1 AAATGTATCGATACA
16539 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 18 0.35
21 34 0.65
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATTCAC
Found at i:16598 original size:19 final size:19
Alignment explanation
Indices: 16574--16641 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
16564 AATTCAACGA
16574 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
16593 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
16608 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
16625 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
16642 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:16612 original size:32 final size:32
Alignment explanation
Indices: 16576--16638 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
16566 TTCAACGATT
*
16576 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
16608 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
16639 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:16613 original size:13 final size:13
Alignment explanation
Indices: 16595--16619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16585 ACATAAGTTT
16595 TGTATCGATACAA
1 TGTATCGATACAA
16608 TGTATCGATACA
1 TGTATCGATACA
16620 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:16699 original size:13 final size:13
Alignment explanation
Indices: 16681--16706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16671 CATTTTTCTG
16681 TGTATCGATACAT
1 TGTATCGATACAT
16694 TGTATCGATACAT
1 TGTATCGATACAT
16707 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16705 original size:33 final size:33
Alignment explanation
Indices: 16663--16727 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
16653 CAAGGAAATT
***
16663 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
16696 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
16728 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:19136 original size:51 final size:53
Alignment explanation
Indices: 19072--19413 Score: 214
Period size: 52 Copynumber: 6.5 Consensus size: 53
19062 AGTTTATCAA
* * * *
19072 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
19123 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
19177 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
19235 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
19284 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
19337 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
19389 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
19414 CTCGTTATTT
Statistics
Matches: 226, Mismatches: 36, Indels: 57
0.71 0.11 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 36 0.16
52 79 0.35
53 33 0.15
54 33 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:19256 original size:28 final size:27
Alignment explanation
Indices: 19189--19257 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
19179 CTTCACAATC
**
19189 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
19216 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
19244 GGGGATACTCCAAC
1 GGGGATACTCCAAC
19258 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:19299 original size:107 final size:105
Alignment explanation
Indices: 19135--19527 Score: 341
Period size: 107 Copynumber: 3.7 Consensus size: 105
19125 TTCTATAATC
*
19135 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
19200 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * *
19244 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
19308 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* *
19348 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
19413 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* ** * * *** * * *
19456 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
19521 CCCGTTA
66 CCCGTTA
19528 TTTTCGAAGG
Statistics
Matches: 223, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 74 0.33
108 30 0.13
109 28 0.13
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:19397 original size:104 final size:103
Alignment explanation
Indices: 19077--19412 Score: 306
Period size: 104 Copynumber: 3.2 Consensus size: 103
19067 ATCAATTCTC
* * * *
19077 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
19141 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * ** * * * ** * *
19182 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * *
19244 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
*
19288 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
19353 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
19393 CACAATCGAGGATACTCCAA
1 CACAATCGGGGATACTCCAA
19413 CCTCGTTATT
Statistics
Matches: 178, Mismatches: 37, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 36 0.20
106 19 0.11
107 38 0.21
108 7 0.04
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:19433 original size:28 final size:28
Alignment explanation
Indices: 19397--19473 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
19387 ATTTTTCACA
* * *
19397 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
19425 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
19453 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
19474 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:19442 original size:212 final size:212
Alignment explanation
Indices: 19075--19480 Score: 647
Period size: 212 Copynumber: 1.9 Consensus size: 212
19065 TTATCAATTC
* *
19075 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
19140 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
19205 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
19270 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
19287 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
19351 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
19414 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
19479 AT
193 AT
19481 TCCCAAAATA
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.17
212 112 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:19606 original size:80 final size:79
Alignment explanation
Indices: 19427--19630 Score: 214
Period size: 80 Copynumber: 2.6 Consensus size: 79
19417 GTTATTTCAT
* * *
19427 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
19492 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * ** *
19506 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCG-GCTTTATTCCCAAAAT-
19570 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * *
19586 CGGGGATACTCCAGCCCCGTTATTTT-TAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
19631 TGTTATTATC
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 50 0.49
80 53 0.51
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:25637 original size:17 final size:17
Alignment explanation
Indices: 25615--25670 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
25605 ATTTCATATT
25615 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
25632 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
25649 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
25666 TTTTT
1 TTTTT
25671 TACCGAACTT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:26833 original size:49 final size:45
Alignment explanation
Indices: 26780--26884 Score: 111
Period size: 45 Copynumber: 2.2 Consensus size: 45
26770 CAAGGTCAAT
*
26780 GACATCGGACTAAGGGAAAAGTGGACCAATGTGCTGACTCAAGGCCAGC
1 GACATCGGACTAA--GAAAAGT-G-CCAATATGCTGACTCAAGGCCAGC
* * * * *
26829 GACATTGGGCTTAGAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 GACATCGGACTAAGAAAAGTGCCAATATGCTGACTCAAGGCCAGC
*
26874 GATATCGGACT
1 GACATCGGACT
26885 TTAAGATGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
45 30 0.64
46 1 0.02
47 6 0.13
49 10 0.21
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (45 bp):
GACATCGGACTAAGAAAAGTGCCAATATGCTGACTCAAGGCCAGC
Found at i:26955 original size:32 final size:32
Alignment explanation
Indices: 26906--27475 Score: 928
Period size: 32 Copynumber: 17.8 Consensus size: 32
26896 AAAATGGTGA
* * *
26906 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
26938 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
26970 TTTTAAATGTGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
27002 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27034 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
27066 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
27098 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
27130 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
27162 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27194 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27226 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
27258 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27290 TTTGAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27322 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27354 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
27386 TTTGGAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
27418 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
27450 TTTGAAAAGGGTT-CCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
27476 AATTTAAAAG
Statistics
Matches: 512, Mismatches: 24, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
31 12 0.02
32 499 0.97
33 1 0.00
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:27484 original size:27 final size:27
Alignment explanation
Indices: 27454--28161 Score: 929
Period size: 27 Copynumber: 26.2 Consensus size: 27
27444 GTGGGCTTTG
* * * *
27454 AAAAGGGTTCCACAGAGTTGTGAATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27481 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
27508 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
27535 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27562 AAAAGGGTGCCATGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
27590 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
27618 AAAAGGGTGCCACAGAATTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
27645 AAAAGAGATGCCACGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
*
27673 AAAAGGGTG-CACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27699 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
27726 AAAAGGGTGCCACGAAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27753 AAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27780 AAAAGGGTACCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
27808 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
27836 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
27864 AAAAGGGTGCCACAGAATTGTGAACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
27891 AAAAGAGATGCCACGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
*
27919 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27946 AAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
27973 AAAAGGGTGTCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
28000 AAAAGGGTGCCAC-GAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
28026 AAAAGGGTGCCACAGAGTTGTGGAATT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
28053 AAAAGGAGTGCCAC-GAGTTAT-GACTT
1 AAAAGG-GTGCCACGGAGTTGTGGACTT
28079 AAAAGGGTGCGGTGCCACGGAG-T-TGGA--T
1 AAAA----G-GGTGCCACGGAGTTGTGGACTT
28107 -AAAGGGTGCCAC-GAG-T-TGGAC-T
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
28129 AAAAAGATGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
28157 AAAAG
1 AAAAG
28162 AAAATACCAC
Statistics
Matches: 614, Mismatches: 46, Indels: 41
0.88 0.07 0.06
Matches are distributed among these distances:
21 8 0.01
22 9 0.01
23 11 0.02
24 3 0.00
25 1 0.00
26 63 0.10
27 314 0.51
28 189 0.31
29 1 0.00
30 11 0.02
31 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:27842 original size:218 final size:215
Alignment explanation
Indices: 27454--28161 Score: 963
Period size: 218 Copynumber: 3.3 Consensus size: 215
27444 GTGGGCTTTG
* * * *
27454 AAAAGGGTTCCACAGAGTTGTGAATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGG-TGCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
* *
27519 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTG
65 ACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
*
27584 GACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAATTGTGGACTTAAAA
130 GACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC-GAGTTGTGGACTTAAAA
*
27649 GAGATGCCACGGAGTTATGGACTT
194 G-GGTGCCACGGAGTT-TGGACTT
*
27673 AAAAGGGTGCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAAGGGTGCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCA
* * *
27738 CGAAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTACCACGGAGTTGTGG
66 CGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
27803 ACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
131 ACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC-GAGTTGTGGAC-TTAAAA
* * *
27868 GGGTGCCACAGAATTGTGAACTT
194 GGGTGCCACGGAGTT-TGGACTT
* * * *
27891 AAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGC
1 AAAAG-GGTG-CACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGC
*
27956 CACGGAGTTGTGGTCTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGT
64 CACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
* * *
28020 GGAC-TTAAAAGGGTGCCACAGAGTTGTGGA-ATTAAAAGGAGTGCCACGAGTTAT-GACTTAAA
129 GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGG-GTGCCACGAGTTGTGGACTTAAA
28082 AGGGTGCGGTGCCACGGAG-TTGGA--T
193 A----G-GGTGCCACGGAGTTTGGACTT
*
28107 -AAAGGGTGC-CACGAG-T-TGGAC-TAAAAAGATGCCACAGAGTTGTGGACTTTAAAAG
1 AAAAGGGTGCACA-GAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAG
28162 AAAATACCAC
Statistics
Matches: 444, Mismatches: 34, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
210 24 0.05
211 12 0.03
212 2 0.00
213 4 0.01
214 3 0.01
215 10 0.02
216 4 0.01
217 14 0.03
218 226 0.51
219 30 0.07
220 115 0.26
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (215 bp):
AAAAGGGTGCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
ACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGAGTTGTGGACTTAAAAGG
GTGCCACGGAGTTTGGACTT
Found at i:28117 original size:22 final size:22
Alignment explanation
Indices: 28089--28131 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
28079 AAAAGGGTGC
28089 GGTGCCACGGAGTTGGA-TAAAG
1 GGTGCCAC-GAGTTGGACTAAAG
28111 GGTGCCACGAGTTGGACTAAA
1 GGTGCCACGAGTTGGACTAAA
28132 AAGATGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.28, C:0.16, G:0.37, T:0.19
Consensus pattern (22 bp):
GGTGCCACGAGTTGGACTAAAG
Found at i:28146 original size:24 final size:21
Alignment explanation
Indices: 28091--28148 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
28081 AAGGGTGCGG
* *
28091 TGCCACGGAGTTGGATAAAGGG
1 TGCCAC-GAGTTGGATAAAAGA
28113 TGCCACGAGTTGGACTAAAAAGA
1 TGCCACGAGTTGGA-T-AAAAGA
28136 TGCCACAGAGTTG
1 TGCCAC-GAGTTG
28149 TGGACTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 8 0.26
22 7 0.23
23 10 0.32
24 6 0.19
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (21 bp):
TGCCACGAGTTGGATAAAAGA
Found at i:35971 original size:17 final size:17
Alignment explanation
Indices: 35949--36004 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
35939 ATTTCATATT
35949 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
35966 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
35983 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
36000 TTTTT
1 TTTTT
36005 TACCTAACTT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:41611 original size:2 final size:2
Alignment explanation
Indices: 41604--41635 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41594 TTTCTTTTAA
41604 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
41636 TCCTCTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42716 original size:228 final size:229
Alignment explanation
Indices: 42334--42837 Score: 566
Period size: 228 Copynumber: 2.2 Consensus size: 229
42324 TTAGATAATG
42334 AAAAAATAAAATAAAAAACAAGAATACCCCAAAACTTT---AA-G-AAGGAATTAACTAAAAAAA
1 AAAAAATAAAATAAAAAACAAGAATACCCCAAAACTTTAAGAAGGAAAGGAATTAACTAAAAAAA
* * * * * * * * *
42394 TATTGATGTTGTTGATTAAGTAATTTAATATTTATTATTTTTTTAAATAAGATTTTAAATTTAAA
66 CATTAATATTATTGATTAAATAATTTAATA-TTATTATATTTTTAAATAAAATATCAAATTTAAA
* * * * * * *
42459 TTTTATAAATAAAAGAATCGAAGTTAAAAGAGATTTTTCCT-T-CATAATGAGTTAACTCATATT
130 CTTTATAAATAAAAGAATCAAAATTAAAAGAG-TTTTTCCTATCCACAATAAATTAACTCAAATT
* *
42522 AATTAAAATTTAATAAATTTTTGAATA-CTTAAA-TTT
194 AATTAAAATTTAATAAA-CTTTAAATATC-TAAATTTT
* * *
42558 AAAAAA-AAAACTAAAAAACAAAAATACCCCAAAACTTTAAGAAGGAAAGGAATTGATTAAAAAA
1 AAAAAATAAAA-TAAAAAACAAGAATACCCCAAAACTTTAAGAAGGAAAGGAATTAACTAAAAAA
*
42622 ACATTAATATTAATTGATTCAAATAATTTGATA-TA-TATATTTTTAAATAAAATATCAAATTTA
65 ACATTAATATT-ATTGATT-AAATAATTTAATATTATTATATTTTTAAATAAAATATCAAATTTA
** *
42685 AACTTTATAAATGAAAA-AATCAAAATTAAAAGAGTTTTTTTTATCCCACAATAAATTAACTTAA
128 AACTTTATAAAT-AAAAGAATCAAAATTAAAAGAGTTTTTCCTAT-CCACAATAAATTAACTCAA
*
42749 ATTAATTAAAATTTAATACACTTTAAATATCTAAATTTT
191 ATTAATTAAAATTTAATAAACTTTAAATATCTAAATTTT
* * *
42788 AAAAAATAATAATAAAAACCAAGAATACCTCAAAACTTTAAGGAGGAAAG
1 AAAAAATAA-AATAAAAAACAAGAATACCCCAAAACTTTAAGAAGGAAAG
42838 AACTTCACCC
Statistics
Matches: 234, Mismatches: 30, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
223 4 0.02
224 32 0.14
227 8 0.03
228 52 0.22
229 41 0.18
230 48 0.21
231 47 0.20
232 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (229 bp):
AAAAAATAAAATAAAAAACAAGAATACCCCAAAACTTTAAGAAGGAAAGGAATTAACTAAAAAAA
CATTAATATTATTGATTAAATAATTTAATATTATTATATTTTTAAATAAAATATCAAATTTAAAC
TTTATAAATAAAAGAATCAAAATTAAAAGAGTTTTTCCTATCCACAATAAATTAACTCAAATTAA
TTAAAATTTAATAAACTTTAAATATCTAAATTTT
Found at i:46039 original size:21 final size:21
Alignment explanation
Indices: 46013--46054 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46003 GAAAGAATTA
*
46013 AGTAATTAAGTAATTATATGG
1 AGTAATTAAGTAATCATATGG
46034 AGTAATTAAGTAATCATATGG
1 AGTAATTAAGTAATCATATGG
46055 GTAGTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (21 bp):
AGTAATTAAGTAATCATATGG
Found at i:48249 original size:26 final size:26
Alignment explanation
Indices: 48219--48269 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
48209 AATAGAGATA
* *
48219 GAATTGATAAATTTTAATTTTATTTG
1 GAATTGATAAAGTTTAACTTTATTTG
48245 GAATTGATAAAGTTTAACTTTATTT
1 GAATTGATAAAGTTTAACTTTATTT
48270 AAAATTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (26 bp):
GAATTGATAAAGTTTAACTTTATTTG
Found at i:48275 original size:26 final size:26
Alignment explanation
Indices: 48220--48275 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
48210 ATAGAGATAG
* * **
48220 AATTGATAAATTTTAATTTTATTTGG
1 AATTGATAAAGTTTAACTTTATTTAA
48246 AATTGATAAAGTTTAACTTTATTTAA
1 AATTGATAAAGTTTAACTTTATTTAA
48272 AATT
1 AATT
48276 CTAGAGAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (26 bp):
AATTGATAAAGTTTAACTTTATTTAA
Found at i:54144 original size:18 final size:18
Alignment explanation
Indices: 54121--54155 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54111 TTTTTCCAAA
*
54121 TAAATCAAGTATGAATAT
1 TAAATCAACTATGAATAT
54139 TAAATCAACTATGAATA
1 TAAATCAACTATGAATA
54156 AACATACAAA
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:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
TAAATCAACTATGAATAT
Found at i:54946 original size:236 final size:241
Alignment explanation
Indices: 54521--54993 Score: 767
Period size: 236 Copynumber: 2.0 Consensus size: 241
54511 ATATATGAAC
*
54521 ATATCAATTTATATAAAATAAATAATTAATGTGTAAAAATTTTTATAAATTTAAAATACTTTTAA
1 ATATCAATTTATATAAAACAAATAATTAATGTGTAAAAATTTTTATAAATTTAAAATACTTTTAA
* *
54586 ACTCAAAAAAAATAAAATAAACATATTATGAACACAATTTTTTCTGTAAATTGAATCATTATTAC
66 ACT-----AAAATAAAATAAACATATTATGAACACAATTTTTTCTATAAATTAAATCATTATTAC
54651 AAATTATACAAATATCACAAACTGAAACATTATTCTAACACAACATAGAAACACAAACTTTTCTA
126 AAATTATACAAATATCACAAACTGAAACATTATTCTAACACAACATAGAAACACAAACTTTTCTA
*
54716 AATTGAAGTAATGATAAAATATGAATGAATTGATATATGATACAAAAAAAT
191 AATTGAAATAATGATAAAATATGAATGAATTGATATATGATACAAAAAAAT
** *
54767 ATATCAATTTATATAAAACAAATAATTAATGTGTAAATTTTTTTATAAATTTAGAATA-TTTTAA
1 ATATCAATTTATATAAAACAAATAATTAATGTGTAAAAATTTTTATAAATTTAAAATACTTTTAA
* * *
54831 ACT-AAA-AAAA-AAACATGTTATGAACATAATTTTTTTTATAAATTAAATCATTATTAC-AATT
66 ACTAAAATAAAATAAACATATTATGAACACAATTTTTTCTATAAATTAAATCATTATTACAAATT
*
54892 ATACAAATATCACAAACTGAGACATTATTCTAACACAACATAGAAACACAAACTTTTCTAAATTG
131 ATACAAATATCACAAACTGAAACATTATTCTAACACAACATAGAAACACAAACTTTTCTAAATTG
54957 AAATAATGATAAAATATGAATGAATTGATATATGATA
196 AAATAATGATAAAATATGAATGAATTGATATATGATA
54994 TGAAGAGAAC
Statistics
Matches: 216, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
236 104 0.48
237 42 0.19
238 4 0.02
239 3 0.01
245 9 0.04
246 54 0.25
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (241 bp):
ATATCAATTTATATAAAACAAATAATTAATGTGTAAAAATTTTTATAAATTTAAAATACTTTTAA
ACTAAAATAAAATAAACATATTATGAACACAATTTTTTCTATAAATTAAATCATTATTACAAATT
ATACAAATATCACAAACTGAAACATTATTCTAACACAACATAGAAACACAAACTTTTCTAAATTG
AAATAATGATAAAATATGAATGAATTGATATATGATACAAAAAAAT
Found at i:55045 original size:21 final size:22
Alignment explanation
Indices: 55005--55050 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
54995 GAAGAGAACA
*
55005 AAAAAATAATTAAAAGTAATAT
1 AAAAAATAATGAAAAGTAATAT
*
55027 AAAAAATAATGAATA-TAATAT
1 AAAAAATAATGAAAAGTAATAT
55048 AAA
1 AAA
55051 TATATACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATAATGAAAAGTAATAT
Found at i:55242 original size:18 final size:19
Alignment explanation
Indices: 55193--55258 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 19
55183 TCTCTTTTTT
**
55193 TTTTCC-CCCTTTCTTCTC
1 TTTTCCTCCCTTTCCCCTC
55211 ATTTT-CTCCC--TCCCCT-
1 -TTTTCCTCCCTTTCCCCTC
*
55227 TTTTCCTCTCTTT-CCCTC
1 TTTTCCTCCCTTTCCCCTC
55245 TTTTCCTCCCTTTC
1 TTTTCCTCCCTTTC
55259 TTCCCTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 8 0.22
18 14 0.38
19 7 0.19
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTCCTCCCTTTCCCCTC
Found at i:58562 original size:42 final size:43
Alignment explanation
Indices: 58503--58588 Score: 165
Period size: 42 Copynumber: 2.0 Consensus size: 43
58493 ACGTCATATG
58503 ACTCGAAAAATCAAATTAAATCATAAGAAGGT-AAAAAAGTTT
1 ACTCGAAAAATCAAATTAAATCATAAGAAGGTAAAAAAAGTTT
58545 ACTCGAAAAATCAAATTAAATCATAAGAAGGTAAAAAAAGTTT
1 ACTCGAAAAATCAAATTAAATCATAAGAAGGTAAAAAAAGTTT
58588 A
1 A
58589 ACCTGGTCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (43 bp):
ACTCGAAAAATCAAATTAAATCATAAGAAGGTAAAAAAAGTTT
Found at i:60994 original size:2 final size:2
Alignment explanation
Indices: 60987--61021 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
60977 TCATTTTACA
60987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61022 AAACTTCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61867 original size:25 final size:25
Alignment explanation
Indices: 61837--61884 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
61827 CAAAAAATAT
61837 TTATCAATCAAAAGAAAAATCTATA
1 TTATCAATCAAAAGAAAAATCTATA
61862 TTATCAATCAAAAGAAAAATCTA
1 TTATCAATCAAAAGAAAAATCTA
61885 GAGCTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.27
Consensus pattern (25 bp):
TTATCAATCAAAAGAAAAATCTATA
Found at i:63028 original size:21 final size:20
Alignment explanation
Indices: 63002--63052 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
62992 TTCAACAAAT
*
63002 TGTATCGATACA-ATAGGGTAA
1 TGTATCGATACATA-AGTG-AA
63023 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
63043 TGTATCGATA
1 TGTATCGATA
63053 TAGGACCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 15 0.54
22 1 0.04
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:63046 original size:20 final size:21
Alignment explanation
Indices: 63002--63052 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
62992 TTCAACAAAT
63002 TGTATCGATACAATAGGGTAA
1 TGTATCGATACAATAGGGTAA
*
63023 TGTATCGATAC-ATA-AGTGAA
1 TGTATCGATACAATAGGGT-AA
63043 TGTATCGATA
1 TGTATCGATA
63053 TAGGACCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAGGGTAA
Found at i:63148 original size:12 final size:12
Alignment explanation
Indices: 63131--63162 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
63121 GGTTTTGACC
63131 TAAATGTATCGA
1 TAAATGTATCGA
63143 TAAATGTATCGA
1 TAAATGTATCGA
*
63155 TACATGTA
1 TAAATGTA
63163 GGTAATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (12 bp):
TAAATGTATCGA
Found at i:67686 original size:32 final size:31
Alignment explanation
Indices: 67636--67698 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
67626 ATAATATGAC
*
67636 ATGAATATAAATGTGTCAAAATTTATATAAA
1 ATGAATATAAATATGTCAAAATTTATATAAA
*
67667 ATGAATTATTAATATGTCAAAATTTATATAAA
1 ATGAA-TATAAATATGTCAAAATTTATATAAA
67699 TATATAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (31 bp):
ATGAATATAAATATGTCAAAATTTATATAAA
Found at i:72038 original size:29 final size:29
Alignment explanation
Indices: 72005--72209 Score: 150
Period size: 29 Copynumber: 7.1 Consensus size: 29
71995 AAGCCATCTT
*
72005 GGAGTTAACATGTAATTTTGAAAAGTTTCA
1 GGAGTTAAAATGTAATTTTGAAAAGTTT-A
* ** *
72035 -GAGTCAAAACATAATTTTAAAAAGTTTAA
1 GGAGTTAAAATGTAATTTTGAAAAGTTT-A
** * *
72064 GG-GTTAATGTGTAATTTTAAAAAATTTA
1 GGAGTTAAAATGTAATTTTGAAAAGTTTA
* *
72092 GGAGTCAAAATGTAATTTTGGAAAGTTTA
1 GGAGTTAAAATGTAATTTTGAAAAGTTTA
* * *
72121 GGGGTTAATATGTAATTTTGGAAAGTTTA
1 GGAGTTAAAATGTAATTTTGAAAAGTTTA
* ** *
72150 GGGGTTAATGTGTAA-TTTCAGAAAGTTTAA
1 GGAGTTAAAATGTAATTTTGA-AAAGTTT-A
* **
72180 GG-GTCAATGTGTAATTTTG-AAAGTTTA
1 GGAGTTAAAATGTAATTTTGAAAAGTTTA
72207 GGA
1 GGA
72210 ACTTAATAGT
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.02
28 13 0.09
29 120 0.84
30 7 0.05
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (29 bp):
GGAGTTAAAATGTAATTTTGAAAAGTTTA
Found at i:72080 original size:58 final size:58
Alignment explanation
Indices: 72015--72209 Score: 232
Period size: 58 Copynumber: 3.4 Consensus size: 58
72005 GGAGTTAACA
** *
72015 TGTAATTTTGAAAAGTTTCA-GAGTCAAAACATAATTTTAAAAAGTTTAAGGGTTAATG
1 TGTAATTTTGAAAAGTTT-AGGAGTCAAAATGTAATTTTAGAAAGTTTAAGGGTTAATG
* * * * *
72073 TGTAATTTTAAAAAATTTAGGAGTCAAAATGTAATTTTGGAAAGTTTAGGGGTTAATA
1 TGTAATTTTGAAAAGTTTAGGAGTCAAAATGTAATTTTAGAAAGTTTAAGGGTTAATG
* * * ** * *
72131 TGTAATTTTGGAAAGTTTAGGGGTTAATGTGTAATTTCAGAAAGTTTAAGGGTCAATG
1 TGTAATTTTGAAAAGTTTAGGAGTCAAAATGTAATTTTAGAAAGTTTAAGGGTTAATG
72189 TGTAATTTTG-AAAGTTTAGGA
1 TGTAATTTTGAAAAGTTTAGGA
72210 ACTTAATAGT
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
57 11 0.10
58 104 0.90
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (58 bp):
TGTAATTTTGAAAAGTTTAGGAGTCAAAATGTAATTTTAGAAAGTTTAAGGGTTAATG
Found at i:72137 original size:87 final size:86
Alignment explanation
Indices: 72046--72226 Score: 231
Period size: 87 Copynumber: 2.1 Consensus size: 86
72036 AGTCAAAACA
*
72046 TAATTTTAAAAAGTTTAAGGGTTAATGTGTAATTTTAAAAAATTT-AGGAGTCAAAATGTAATTT
1 TAATTTTAAAAAGTTTAAGGGTTAATGTGTAATTTCAAAAAATTTAAGG-GTCAAAATGTAATTT
**
72110 TGGAAAGTTTAGG-GGTTAATATG
65 T-GAAAGTTTAGGAACTTAATA-G
** * * * **
72133 TAATTTTGGAAAGTTTAGGGGTTAATGTGTAATTTCAGAAAGTTTAAGGGTCAATGTGTAATTTT
1 TAATTTTAAAAAGTTTAAGGGTTAATGTGTAATTTCAAAAAATTTAAGGGTCAAAATGTAATTTT
72198 GAAAGTTTAGGAACTTAATAG
66 GAAAGTTTAGGAACTTAATAG
72219 TAATTTTA
1 TAATTTTA
72227 CCACTTAGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
86 19 0.23
87 59 0.73
88 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (86 bp):
TAATTTTAAAAAGTTTAAGGGTTAATGTGTAATTTCAAAAAATTTAAGGGTCAAAATGTAATTTT
GAAAGTTTAGGAACTTAATAG
Found at i:72630 original size:152 final size:154
Alignment explanation
Indices: 72304--72662 Score: 381
Period size: 155 Copynumber: 2.3 Consensus size: 154
72294 TTTGGTTTAT
* * * * * * * *
72304 TAGGATACTTTCACGTCGAAAGTATACCCTAAGAGCATTTCGATAATTTCTTTAGAACTGAGTCT
1 TAGGAAACTTTCACGTCGAAAGTATA-TCTAAGGGCATTTTGGTAATTT-TTTAAAACTGAATCC
* * * * *
72369 TAGGTCCTCATCCGATTGCTTTTATGCCAAAGGTATGCATTTAGGATATGTTAGTCCTTTTCCTT
64 TAGGTCATCATCCAATTGCTTTTATGCCAAAGGTATGCATTTAGGATAAGTTAGTCCTGTTCATT
* *
72434 AGCTTTTTTATATCCTTTAAGGTTAC
129 AGCCTTTTAATATCCTTTAAGGTTAC
* * *
72460 -CGAGAAACTTTCATGTCGAAAGTATATCTTAAGGGTATTTTGGTAATTTTTTAAAACT-AATAC
1 TAG-GAAACTTTCACGTCGAAAGTATATC-TAAGGGCATTTTGGTAATTTTTTAAAACTGAAT-C
* * *
72523 CTAGGTCATCA-CCAAGTTGTTTTTATGCTAAAGGTGTGCATTTAGGATAAGTTCA-T-CTGTT-
63 CTAGGTCATCATCCAA-TTGCTTTTATGCCAAAGGTATGCATTTAGGATAAGTT-AGTCCTGTTC
*
72584 ATTA-CCTTTTAATATCCTTTAGGGTTAC
126 ATTAGCCTTTTAATATCCTTTAAGGTTAC
* * *
72612 TAGGAAACTTTCACGTCGAAGGTATATCTACGGACATTTTGGTAATTTTTT
1 TAGGAAACTTTCACGTCGAAAGTATATCTAAGGGCATTTTGGTAATTTTTT
72663 TAGAATCGAG
Statistics
Matches: 169, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
151 20 0.12
152 44 0.26
153 4 0.02
154 9 0.05
155 54 0.32
156 38 0.22
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (154 bp):
TAGGAAACTTTCACGTCGAAAGTATATCTAAGGGCATTTTGGTAATTTTTTAAAACTGAATCCTA
GGTCATCATCCAATTGCTTTTATGCCAAAGGTATGCATTTAGGATAAGTTAGTCCTGTTCATTAG
CCTTTTAATATCCTTTAAGGTTAC
Found at i:72686 original size:152 final size:155
Alignment explanation
Indices: 72387--72716 Score: 341
Period size: 152 Copynumber: 2.1 Consensus size: 155
72377 CATCCGATTG
* * * * * * *
72387 CTTTTATGCCAAAGGTATGCATTTAGGATATGTTAGTCCTTTTCCTTAGCTTTTTTATATCCTTT
1 CTTTTATGCTAAAGGTGTGCATTTAGGATAAGTTAGTCCTGTTCATTAGCCTTTTAATATCCTTT
* * **
72452 AAGGTTACCGAGAAACTTTCATGTCGAAAGTATATCTTAAGGGTATTTTGGTAATTTTTTAAAAC
66 AAGGTTACAGAGAAACTTTCACGTCGAAAGTATATCTTAAGGACATTTTGGTAATTTTTTAAAAC
* ** * **
72517 TAATACCTAGGTCATCACCAAGTTG
131 GAATACAGAGGTAATCACCAAGTCA
*
72542 TTTTTATGCTAAAGGTGTGCATTTAGGATAAGTTCA-T-CTGTT-ATTA-CCTTTTAATATCCTT
1 CTTTTATGCTAAAGGTGTGCATTTAGGATAAGTT-AGTCCTGTTCATTAGCCTTTTAATATCCTT
* * *
72603 TAGGGTTACTAG-GAAACTTTCACGTCGAAGGTATATC-TACGGACATTTTGGTAATTTTTTTAG
65 TAAGGTTAC-AGAGAAACTTTCACGTCGAAAGTATATCTTAAGGACATTTTGGTAA-TTTTTTA-
* * * *
72666 AATCGAGT-CAGATGTAATCACTAAGTCA
127 AAACGAATACAGAGGTAATCACCAAGTCA
*
72694 CTTTTATGCTAAAAGTGTGCATT
1 CTTTTATGCTAAAGGTGTGCATT
72717 AAGAGTAGAT
Statistics
Matches: 144, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
151 14 0.10
152 85 0.59
153 9 0.06
154 4 0.03
155 31 0.22
156 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (155 bp):
CTTTTATGCTAAAGGTGTGCATTTAGGATAAGTTAGTCCTGTTCATTAGCCTTTTAATATCCTTT
AAGGTTACAGAGAAACTTTCACGTCGAAAGTATATCTTAAGGACATTTTGGTAATTTTTTAAAAC
GAATACAGAGGTAATCACCAAGTCA
Found at i:74449 original size:2 final size:2
Alignment explanation
Indices: 74442--74469 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
74432 ATCCATATGT
74442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74470 ATTAATCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75594 original size:57 final size:57
Alignment explanation
Indices: 75499--75842 Score: 385
Period size: 58 Copynumber: 6.0 Consensus size: 57
75489 CATTCCTCAC
* * * * * *
75499 CCTTCAAAAGCCCATAAGTCAGTGGCA-TCTTTTTCAAAGCCCGCAAATCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
*
75556 CCTTCAAAGCTCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
75613 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * * * *
75670 CCTTCAAAAGCTCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * * *
75728 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTTAGTGGCAC
1 CC--TT-CAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* *
75786 CCTTTTTCAAAGCCCACAAATCAGTGGCAACC--TTCAAAAGCCCACAAGTTC-GTGGCA
1 CC---TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAG-TCAGTGGCA
75843 TCTTTTTCCT
Statistics
Matches: 257, Mismatches: 23, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
56 18 0.07
57 92 0.36
58 118 0.46
59 5 0.02
60 23 0.09
61 1 0.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (57 bp):
CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
Found at i:75722 original size:88 final size:85
Alignment explanation
Indices: 75499--75842 Score: 455
Period size: 88 Copynumber: 4.0 Consensus size: 85
75489 CATTCCTCAC
* * *
75499 CCTTCAAAAGCCCATAAGTCAGTGGCATCTTTTTCAAAGCCCGCAAATCAGTGGCAACCTT-CAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCCAA
* * *
75563 AGCTCACAAATCAGTGGCAC
66 AGCCCACAAGTCAGTGGCAA
* *
75583 CCTTTTCCAAAGCCCACAAGTCAGTGGCAACC---TTCAAAGCCCACAAATCAGTGGCACCCTTT
1 CC--TTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTTCAAAGCCCACAAATCAGTGGCAACC--T
75645 TCCAAAGCCCACAAGTCAGTGGCAA
61 TCCAAAGCCCACAAGTCAGTGGCAA
* *
75670 CCTTCAAAAGCTCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCACCCTTTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCACC-TTTTTCAAAGCCCACAAATCAGTGGCAACC--TTC
75735 CAAAGCCCACAAGTCAGTGGCAA
63 CAAAGCCCACAAGTCAGTGGCAA
* *
75758 CCTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCCA
75823 AAGCCCACAAGTTC-GTGGCA
65 AAGCCCACAAG-TCAGTGGCA
75843 TCTTTTTCCT
Statistics
Matches: 234, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
84 30 0.13
85 22 0.09
86 45 0.19
87 26 0.11
88 109 0.47
89 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (85 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCCAA
AGCCCACAAGTCAGTGGCAA
Found at i:75865 original size:33 final size:34
Alignment explanation
Indices: 75823--75961 Score: 158
Period size: 35 Copynumber: 4.1 Consensus size: 34
75813 CAACCTTCAA
* * *
75823 AAGCCCACAAGTTCGTGGCA-TCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCCTTTT
* *
75856 AAGCCCACAACTCCGTGG--CGCCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCCTTTT
* *
75888 AAGTCCACAACTCCGTGGCACTCCTTTTCTTTTGT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCCTTT-T
* * *
75923 AAACCCACAACTCCGTGGCACTCTTTTTTCTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCCTTTT
75957 AAGCC
1 AAGCC
75962 TGCAAGTCAG
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
32 27 0.30
33 16 0.18
34 17 0.19
35 29 0.33
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.36
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCCTTTTCCTTTT
Found at i:75938 original size:35 final size:34
Alignment explanation
Indices: 75823--75961 Score: 160
Period size: 32 Copynumber: 4.1 Consensus size: 34
75813 CAACCTTCAA
* * * *
75823 AAGCCCACAAGTTCGTGGCA-TCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCTTTTT
*
75856 AAGCCCACAACTCCGTGG--CGCCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCTTTTT
*
75888 AAGTCCACAACTCCGTGGCACTCCTTTTCTTTTGT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCTTTT-T
* *
75923 AAACCCACAACTCCGTGGCACT-CTTTTTTCTTTT
1 AAGCCCACAACTCCGTGGCACTCCTTTTCT-TTTT
75957 AAGCC
1 AAGCC
75962 TGCAAGTCAG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
32 27 0.30
33 16 0.18
34 23 0.26
35 24 0.27
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.36
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCCTTTTCTTTTT
Found at i:75938 original size:67 final size:67
Alignment explanation
Indices: 75827--75959 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 67
75817 CTTCAAAAGC
* * * * *
75827 CCACAAGTTCGTGGCATCTTTTTCCTTTTAAGCCCACAACTCCGTGGCGC-CTTTTCT-TTTTAA
1 CCACAACTCCGTGGCATCCTTTTCCTTTTAAACCCACAACTCCGTGGCACTCTTTTCTCTTTTAA
75890 GT
66 GT
* *
75892 CCACAACTCCGTGGCACTCCTTTTCTTTTGTAAACCCACAACTCCGTGGCACTCTTTTTTCTTTT
1 CCACAACTCCGTGGCA-TCCTTTTCCTTT-TAAACCCACAACTCCGTGGCACTCTTTTCTCTTTT
75957 AAG
64 AAG
75960 CCTGCAAGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 14 0.25
66 10 0.18
67 20 0.35
68 6 0.11
69 7 0.12
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.38
Consensus pattern (67 bp):
CCACAACTCCGTGGCATCCTTTTCCTTTTAAACCCACAACTCCGTGGCACTCTTTTCTCTTTTAA
GT
Found at i:76023 original size:28 final size:28
Alignment explanation
Indices: 75964--76026 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
75954 TTTAAGCCTG
*
75964 CAAGTCAGTGGCACCATTTTCAAAAGCCCA
1 CAAGTCAGTGGCACC--TTTCAAAAGCACA
75994 CAAGTCAGTGGCAACC-TTCAAAAGCACA
1 CAAGTCAGTGGC-ACCTTTCAAAAGCACA
76022 CAAGT
1 CAAGT
76027 TGGTGGCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 16 0.52
30 12 0.39
31 3 0.10
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (28 bp):
CAAGTCAGTGGCACCTTTCAAAAGCACA
Found at i:76128 original size:49 final size:49
Alignment explanation
Indices: 76038--76817 Score: 831
Period size: 49 Copynumber: 15.8 Consensus size: 49
76028 GGTGGCGTCT
* * * * *
76038 TCTTCTAAGTCCAATATTGTTGGCCTTGAATTAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
76088 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TTTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-A
* * * *
76137 TCTTTAAGTCCAATGTCGTTGGCCTAGAATCAGCACATTGACACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * ** *
76186 TCTTTAAAGAT-CAGTATCGCTGGCCTTGAATCAGCGTATTGGCACCTTTG
1 TCTTT-AAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
76236 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * *
76285 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
76334 TCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * * * * * *
76383 CCCTCAAGTCCAGTATCGCTAGCCTTGAATCAACATATTAGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
76432 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * **
76475 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A
* * * *
76527 TCTTTAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * *
76576 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTT-T-A
76628 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-A
* * * * *
76677 TCTTTAAGTCCAATATTGCTGGCTTTGAATCAGCACATTTGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
76726 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-A
** * * *
76778 TCTTTAAAACCCAATGTTGTTAGCCTTGAATCAGCACATT
1 TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
76818 CGCATTCTTT
Statistics
Matches: 606, Mismatches: 102, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
43 40 0.07
46 2 0.00
48 3 0.00
49 394 0.65
50 51 0.08
51 3 0.00
52 86 0.14
53 27 0.04
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:76342 original size:98 final size:98
Alignment explanation
Indices: 76038--76773 Score: 921
Period size: 98 Copynumber: 7.5 Consensus size: 98
76028 GGTGGCGTCT
* * * * * * * *
76038 TCTTCTAAGTCCAATATTGTTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGACCAATG
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * *
76103 TCGCTGGCCTTGAATCAGCACATTGGCA-TTTTCA
65 TCGCTGGCCTTGAATCAGCATATTGGCACCTTT-G
* * * *
76137 TCTTTAAGTCCAATGTCGTTGGCCTAGAATCAGCACATTGACACCTTCATCTTTAAAGAT-CAGT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAG-TCCAAT
*
76201 ATCGCTGGCCTTGAATCAGCGTATTGGCACCTTTG
64 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
76236 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGCCCAATAT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
76301 CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
66 CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * * * * *
76334 TCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCCTCAAGTCCAGTAT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
* * * *
76399 CGCTAGCCTTGAATCAACATATTAGCACCTTTA
66 CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
76432 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG------CATCTTTAAGTCCAATAT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
**
76491 CGCTGGCCTTGAATCAGCATATTGGTGCCTTTG
66 CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
76524 TCATCTTTAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 ---TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
76589 TATCGCTGGCCTTGAATCAGCATATTGGCGCATTTG
63 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
*
76625 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAA
1 ---TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * * * **
76690 TATTGCTGGCTTTGAATCAGCACATTTGCACCTTCA
63 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* *
76726 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC
76774 GTCATCTTTA
Statistics
Matches: 561, Mismatches: 63, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
92 41 0.07
95 38 0.07
98 256 0.46
99 85 0.15
100 3 0.01
101 138 0.25
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (98 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
Found at i:76721 original size:150 final size:153
Alignment explanation
Indices: 76033--76817 Score: 732
Period size: 148 Copynumber: 5.3 Consensus size: 153
76023 AAGTTGGTGG
* * * * * * **
76033 CGTCTTCTTCTAAGTCCAATATTGTTGGCCTTGAATTAGCATATTGGCACC-TT-T-ATCTTTAA
1 CGTCATCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAA
* * ** * *
76095 GA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTCATCTTTAAGTCCAATGTCGTTGG
65 -ATCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGG
* * *
76159 CCTAGAATCAGCACATT-G-ACA-C
129 CCTTGAATCAGCATATTGGCACATT
* * * ** **
76181 CTTCATCTTTAAAGAT-CAGTATCGCTGGCCTTGAATCAGCGTATTGGCACCTTTG---TCTTTA
1 CGTCATCTTT-AAG-TCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTA
* * * *
76242 AGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGCCCAATATCGCTG
64 A-ATCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
*
76306 GCCTTGAATCAGCATATTGGCACCTT
128 GCCTTGAATCAGCATATTGGCACATT
* * * ** * * * *
76332 --T-GTCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCACCCTCAAG
1 CGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAAA
* * * * * * * *
76391 TCCAGTATCGCTAGCCTTGAATCAACATATTAGCACCTTTATCTTTAAGTCCAATGTCGCTGGCC
66 TCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCC
76456 TTGAAT---C--A---GCACATT
131 TTGAATCAGCATATTGGCACATT
* * *
76471 -GGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAA
1 CGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAAA
* *
76535 TCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCC
66 TCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCC
*
76600 TTGAATCAGCATATTGGCGCATT
131 TTGAATCAGCATATTGGCACATT
*
76623 TGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-GCAC-TT-TCATCTTTAA
1 CGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGC-CTTTGTCATCTTTAA
* * *
76684 GTCCAATATTGCTGGCTTTGAATCAGCACATTTGCACCTTCATCTTTAAGTCCAATATCGCTGGC
65 ATCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGC
*
76749 CTTGAATCAGCATATTGGCACCTT
130 CTTGAATCAGCATATTGGCACATT
** * * *
76773 CGTCATCTTTAAAACCCAATGTTGTTAGCCTTGAATCAGCACATT
1 CGTCATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
76818 CGCATTCTTT
Statistics
Matches: 531, Mismatches: 78, Indels: 53
0.80 0.12 0.08
Matches are distributed among these distances:
139 6 0.01
141 39 0.07
142 1 0.00
143 1 0.00
144 69 0.13
145 1 0.00
147 99 0.19
148 125 0.24
149 6 0.01
150 103 0.19
151 33 0.06
152 8 0.02
153 40 0.08
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (153 bp):
CGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAAA
TCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCC
TTGAATCAGCATATTGGCACATT
Found at i:77553 original size:13 final size:13
Alignment explanation
Indices: 77535--77559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77525 TTCAACGATT
77535 TGTATCGATACAA
1 TGTATCGATACAA
77548 TGTATCGATACA
1 TGTATCGATACA
77560 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:77708 original size:52 final size:52
Alignment explanation
Indices: 77625--77727 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
77615 CGATACATTA
**
77625 CTCAAATGTATCGATACATTGACCTTTGTATCGATACATGCAGGCAAATTTG
1 CTCAAATGTATCGATACATTGACCAATGTATCGATACATGCAGGCAAATTTG
* * *
77677 CTCAGATGTATCGATACATT-ATGCAATGTATCGATACATGCAGGTAAATTT
1 CTCAAATGTATCGATACATTGA-CCAATGTATCGATACATGCAGGCAAATTT
77728 TCATATTTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 44 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CTCAAATGTATCGATACATTGACCAATGTATCGATACATGCAGGCAAATTTG
Found at i:82690 original size:13 final size:13
Alignment explanation
Indices: 82672--82696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82662 CATAAAGTGT
82672 TGTATCGATACAA
1 TGTATCGATACAA
82685 TGTATCGATACA
1 TGTATCGATACA
82697 TTTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:82777 original size:13 final size:13
Alignment explanation
Indices: 82759--82783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82749 ATCACTTCAA
82759 TGTATCGATACAT
1 TGTATCGATACAT
82772 TGTATCGATACA
1 TGTATCGATACA
82784 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82835 original size:52 final size:51
Alignment explanation
Indices: 82772--82920 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
82762 ATCGATACAT
** *
82772 TGTATCGATACACTGATCTTTGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * **
82824 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCTTAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
82876 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
82921 TCATATTTCG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:96680 original size:1 final size:1
Alignment explanation
Indices: 96674--96754 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
96664 CGTCCTCCAC
* * * * * * * *
96674 AAAAAAAAAAAACAAAAAAAAACAAAAACAAAAAAAAAACAAAACAAAAAAACAAAACAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
96739 AAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAA
96755 GGGGTCCGGA
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:96692 original size:10 final size:10
Alignment explanation
Indices: 96677--96754 Score: 97
Period size: 10 Copynumber: 7.8 Consensus size: 10
96667 CCTCCACAAA
96677 AAAAAAAAAC
1 AAAAAAAAAC
96687 AAAAAAAAAC
1 AAAAAAAAAC
96697 AAAAACAAAA-
1 AAAAA-AAAAC
96707 AAAAAACAAA-
1 AAAAAA-AAAC
*
96717 ACAAAAAAAC
1 AAAAAAAAAC
*
96727 AAAACAAAAC
1 AAAAAAAAAC
*
96737 AAAAAAAAAT
1 AAAAAAAAAC
96747 AAAAAAAA
1 AAAAAAAA
96755 GGGGTCCGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
9 4 0.07
10 52 0.87
11 4 0.07
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:96716 original size:40 final size:41
Alignment explanation
Indices: 96672--96753 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
96662 GGCGTCCTCC
*
96672 ACAAAAAAAAAAAACAAAAAAAAACAAAAACAAA-AAAAAA
1 ACAAAAAAAAAAAACAAAAAAAAACAAAAAAAAATAAAAAA
* *
96712 ACAAAACAAAAAAACAAAACAAAACAAAAAAAAATAAAAAA
1 ACAAAAAAAAAAAACAAAAAAAAACAAAAAAAAATAAAAAA
96753 A
1 A
96754 AGGGGTCCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (41 bp):
ACAAAAAAAAAAAACAAAAAAAAACAAAAAAAAATAAAAAA
Found at i:98175 original size:29 final size:29
Alignment explanation
Indices: 98136--98329 Score: 198
Period size: 29 Copynumber: 6.7 Consensus size: 29
98126 TCACCCTTCA
* *
98136 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAATCAGTGGCACCTTTTTC
*
98165 AAAGCCCACAAGTCAGTGGCACCTTTTTC
1 AAAGCCCACAAATCAGTGGCACCTTTTTC
*
98194 AAAAGCCCACAAATCGGTGGCAACC---TTC
1 -AAAGCCCACAAATCAGTGGC-ACCTTTTTC
* * *
98222 AAAGTCCATAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAATCAGTGGCA-CCTTTTTC
* * * *
98252 GAAGCCCACAAGTCGGTGGCATCTTTTTC
1 AAAGCCCACAAATCAGTGGCACCTTTTTC
* *
98281 AAAGCCCACAAATCCGTGGCACCCTTTT-
1 AAAGCCCACAAATCAGTGGCACCTTTTTC
* *
98309 AAAGCCCACAATTCCGTGGCA
1 AAAGCCCACAAATCAGTGGCA
98330 ATCTTTTTTT
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 19 0.14
28 23 0.17
29 57 0.41
30 36 0.26
31 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAATCAGTGGCACCTTTTTC
Found at i:98250 original size:57 final size:58
Alignment explanation
Indices: 98132--98336 Score: 236
Period size: 57 Copynumber: 3.5 Consensus size: 58
98122 TTCCTCACCC
* * * *
98132 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCTTT
1 TTCAAAAGCCCACAAGTCGGTGGCAAC-TTTTCAAAGCCCACAAATCAGTGGCACCCTT
* * * *
98191 TTCAAAAGCCCACAAATCGGTGGCAAC-CTTCAAAGTCCATAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTTTTCAAAGCCCACAAATCAGTGGCACCCTT
** * *
98248 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTTCAAAGCCCACAAATCCGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAAC-TTTTCAAAGCCCACAAATCAGTGGCACCCTT
* *
98307 TT--AAAGCCCACAATTCCGTGGCAATCTTTT
1 TTCAAAAGCCCACAAGTCGGTGGCAA-CTTTT
98337 TTTTCTCAAA
Statistics
Matches: 123, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
57 70 0.57
58 1 0.01
59 52 0.42
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCGGTGGCAACTTTTCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:98336 original size:87 final size:88
Alignment explanation
Indices: 98127--98336 Score: 255
Period size: 87 Copynumber: 2.4 Consensus size: 88
98117 AGACATTCCT
* * *
98127 CACCCTTCAAAAGCCCACAAGTCAGTGGC-ATCTTTTTCAAAGCCCACAAGTCAGTGGCACCTTT
1 CACCCTTTAAAAGCCCACAAATCAGTGGCAATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTT
*
98191 TTCAAAAGCCCACAAATCGGTGG
66 TTCAAAAGCCCACAAATCCGTGG
* * * * ** * * *
98214 CAACC-TTCAAAGTCCATAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTT
1 CACCCTTTAAAAGCCCACAAATCAGTGGCAATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTT
98278 TTC-AAAGCCCACAAATCCGTGG
66 TTCAAAAGCCCACAAATCCGTGG
* * *
98300 CACCCTTTTAAAGCCCACAATTCCGTGGCAATCTTTT
1 CACCCTTTAAAAGCCCACAAATCAGTGGCAATCTTTT
98337 TTTTCTCAAA
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
86 40 0.40
87 60 0.60
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (88 bp):
CACCCTTTAAAAGCCCACAAATCAGTGGCAATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTT
TTCAAAAGCCCACAAATCCGTGG
Found at i:98371 original size:30 final size:31
Alignment explanation
Indices: 98253--98404 Score: 89
Period size: 33 Copynumber: 4.8 Consensus size: 31
98243 CCCTTTTCCG
* * * *
98253 AAGCCCACAAGTCGGTGGCA-TCTTT-TTCA
1 AAGCCCACAACTCCGCGGCACTTTTTCTTCA
* * **
98282 AAGCCCACAAATCCGTGGCAC-CCTT-TT-A
1 AAGCCCACAACTCCGCGGCACTTTTTCTTCA
* * *
98310 AAGCCCACAATTCCGTGGCAATCTTTTTTTTCTCA
1 AAGCCCACAACTCCGCGGC-A-C-TTTTTCT-TCA
*
98345 AAGCCCACCACTCCGCGGCACTTTTTCTTTTCA
1 AAGCCCACAACTCCGCGGCACTTTTTC--TTCA
*
98378 AAGCCCACAACTCCGTGGCACTCTTTT
1 AAGCCCACAACTCCGCGGCACT-TTTT
98405 TCCCTTTTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
28 19 0.19
29 24 0.24
30 1 0.01
32 7 0.07
33 25 0.25
34 7 0.07
35 17 0.17
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (31 bp):
AAGCCCACAACTCCGCGGCACTTTTTCTTCA
Found at i:98379 original size:33 final size:33
Alignment explanation
Indices: 98276--98740 Score: 274
Period size: 34 Copynumber: 14.5 Consensus size: 33
98266 GGTGGCATCT
* *
98276 TTTTCAAAGCCCACAAATCCGTGGCAC----CC
1 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
*
98305 TTTT-AAAGCCCACAATTCCGTGGCAATCTTTTT-
1 TTTTCAAAGCCCACAACTCCGTGGC-A-CTTTTTC
* *
98338 TTTCTCAAAGCCCACCACTCCGCGGCACTTTTTC
1 TTT-TCAAAGCCCACAACTCCGTGGCACTTTTTC
98372 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCA--CTTTTT--C
* * * *
98409 TTTT-AAAGTCCACGATTCCGTGGCAC--CTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
* * *
98439 TTTTCACAGCCCACAACTCCGTGACAC----CC
1 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
*
98468 TTTT--AAGCCCACAATTCCGTGGCACTTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTC
** * *
98500 ATCTTT--AAGTTCACAACTCTGTGGCAC----CC
1 -T-TTTCAAAGCCCACAACTCCGTGGCACTTTTTC
*
98529 TTTT--AAGCCCACAACTCCATGGCACTTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTC
* * *
98561 ATCTTT--AAGTCCACAACTCCATGGCAC----CC
1 -T-TTTCAAAGCCCACAACTCCGTGGCACTTTTTC
* *
98590 TTTT--AAGCCTACAACTCTGTGGCACCTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTC
* *
98622 TTTTTAAAGCCCACAACTCCATGGCACTTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTC
*
98656 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCA--CTTTTT--C
* *
98693 TTTTTAAAGCCCACAACTCCGTGACACCTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTC
98727 TTTT-AAAGCCCACA
1 TTTTCAAAGCCCACA
98741 CAAGTCGGTG
Statistics
Matches: 352, Mismatches: 44, Indels: 76
0.75 0.09 0.16
Matches are distributed among these distances:
27 57 0.16
28 22 0.06
29 12 0.03
30 6 0.02
31 17 0.05
32 9 0.03
33 43 0.12
34 102 0.29
35 28 0.08
36 25 0.07
37 31 0.09
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (33 bp):
TTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
Found at i:98393 original size:68 final size:65
Alignment explanation
Indices: 98253--98461 Score: 184
Period size: 67 Copynumber: 3.3 Consensus size: 65
98243 CCCTTTTCCG
* * * * *
98253 AAGCCCACAAGTCGGTGGC-ATCTTTTTC----AAAGCCCACAAATCCGTGGCACC--CTTTT-A
1 AAGCCCACAACTCCGTGGCAATCTTTTTCTTTTAAAGCCCACCACTCCGCGGCACCTTCTTTTCA
* *
98310 AAGCCCACAATTCCGTGGCAATCTTTTT-TTTCTCAAAGCCCACCACTCCGCGGCACTTTTTCTT
1 AAGCCCACAACTCCGTGGCAATCTTTTTCTTT-T-AAAGCCCACCACTCCGCGGCAC--CTTCTT
98374 TTCA
62 TTCA
* * * * *
98378 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACGATTCCGTGGCACCTTCTTTT
1 AAGCCCACAACTCCGTGGCAATCTTTTT--CTTTTAAAGCCCACCACTCCGCGGCACCTTCTTTT
98443 CA
64 CA
*
98445 CAGCCCACAACTCCGTG
1 AAGCCCACAACTCCGTG
98462 ACACCCTTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
57 17 0.14
58 8 0.07
63 19 0.15
67 30 0.24
68 27 0.22
69 18 0.15
70 1 0.01
71 3 0.02
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (65 bp):
AAGCCCACAACTCCGTGGCAATCTTTTTCTTTTAAAGCCCACCACTCCGCGGCACCTTCTTTTCA
Found at i:98454 original size:67 final size:66
Alignment explanation
Indices: 98275--98471 Score: 199
Period size: 67 Copynumber: 3.0 Consensus size: 66
98265 CGGTGGCATC
* * * *
98275 TTTT-TCAAAGCCCACAAATCCGTGGCACC--CTTTT-AAAGCCCACAATTCCGTGGCAATCTTT
1 TTTTCTCAAAGCCCACCACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
98336 T
66 T
* *
98337 TTTTCTCAAAGCCCACCACTCCGCGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCT
1 TTTTCTCAAAGCCCACCACTCCGTGGCAC--CTTCTTTTCAAAGCCCACAACTCCGTGGCACTCT
98402 TTT
64 TTT
* * * * * *
98405 TCCCTTT-T-AAAGTCCACGATTCCGTGGCACCTTCTTTTCACAGCCCACAACTCCGTGACACCC
1 T---TTTCTCAAAGCCCACCACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTC
98468 TTTT
63 TTTT
98472 AAGCCCACAA
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
62 4 0.04
63 21 0.19
67 38 0.34
68 27 0.24
69 18 0.16
70 1 0.01
71 3 0.03
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.31
Consensus pattern (66 bp):
TTTTCTCAAAGCCCACCACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
T
Found at i:98498 original size:27 final size:27
Alignment explanation
Indices: 98409--98498 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
98399 TCTTTTTCCC
* * *
98409 TTTTAAAGTCCACGATTCCGTGGCACCT
1 TTTTTAAGCCCACAATTCCGTGGCA-CT
* * *
98437 TCTTTTCACAGCCCACAACTCCGTGACACC
1 T-TTTT-A-AGCCCACAATTCCGTGGCACT
*
98467 CTTTTAAGCCCACAATTCCGTGGCACT
1 TTTTTAAGCCCACAATTCCGTGGCACT
98494 TTTTT
1 TTTTT
98499 CATCTTTAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
27 22 0.46
28 2 0.04
29 7 0.15
30 2 0.04
31 15 0.31
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.32
Consensus pattern (27 bp):
TTTTTAAGCCCACAATTCCGTGGCACT
Found at i:98528 original size:61 final size:61
Alignment explanation
Indices: 98449--98725 Score: 286
Period size: 61 Copynumber: 4.4 Consensus size: 61
98439 TTTTCACAGC
* *
98449 CCACAACTCCGTGACACCCTTTTAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * *
98510 TCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * * * * *
98571 CCACAACTCCATGGCACCCTTTTAAGCCTACAACTCTGTGGCACCTTTTTC-TTTTTAAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * * *
98632 CCACAACTCCATGGCACTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCAC------CCTTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CATCTT
*
98697 TAAAGC
57 T-AAGT
* *
98703 CCACAACTCCGTGACACCTTTTT
1 CCACAACTCCGTGGCACCCTTTT
98726 CTTTTAAAGC
Statistics
Matches: 185, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
60 4 0.02
61 120 0.65
65 6 0.03
67 5 0.03
68 19 0.10
69 5 0.03
70 1 0.01
71 25 0.14
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.34
Consensus pattern (61 bp):
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
Found at i:98586 original size:95 final size:96
Alignment explanation
Indices: 98344--98740 Score: 256
Period size: 95 Copynumber: 4.1 Consensus size: 96
98334 TTTTTTTCTC
* **
98344 AAAGCCCACCACTCCGCGGCAC-TTTTTCT-TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCATGGCACTTTTTTCTCTTT--AAGCCCACAACTCCGTGGCACT-TTTTT-
* * * * *
98407 CCTTTTAAAGTCC-ACGATTCCGTGGCACCTTCTTTTC
62 CATTTT-AAG-CCTACAACTCTGTGGCACC-TCTTTTT
* * * * *
98444 ACAGCCCACAACTCCGTGACAC-----CCT-TTTAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 AAAGCCCACAACTCCATGGCACTTTTTTCTCTTTAAGCCCACAACTCCGTGGCACTTTTTTCAT-
*
98503 TTTAAG-TTCACAACTCTGTGGCACC-C-TTTT
65 TTTAAGCCT-ACAACTCTGTGGCACCTCTTTTT
* * *
98533 -AAGCCCACAACTCCATGGCACTTTTTTCATCTTTAAGTCCACAACTCCATGGCAC------CCT
1 AAAGCCCACAACTCCATGGCACTTTTTTC-TCTTTAAGCCCACAACTCCGTGGCACTTTTTTCAT
98591 TTTAAGCCTACAACTCTGTGGCACCTTTTTCTTTTT
65 TTTAAGCCTACAACTCTGTGGCACC----TCTTTTT
*
98627 AAAGCCCACAACTCCATGGCACTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCATGGCACTTTTTTCTCTTT-AAGCCCACAACTCCGTGGCACT-TTTTT--
* * * * *
98692 CTTTTTAAAGCCCACAACTCCGTGACACCTTTTTCTTTT
62 CATTTT-AAGCCTACAACTCTGTGGCACC--TCT-TTTT
98731 AAAGCCCACA
1 AAAGCCCACA
98741 CAAGTCGGTG
Statistics
Matches: 238, Mismatches: 29, Indels: 56
0.74 0.09 0.17
Matches are distributed among these distances:
88 40 0.17
89 6 0.03
90 1 0.00
92 18 0.08
93 10 0.04
94 30 0.13
95 68 0.29
96 5 0.02
100 18 0.08
103 4 0.02
104 19 0.08
105 19 0.08
ACGTcount: A:0.22, C:0.34, G:0.11, T:0.33
Consensus pattern (96 bp):
AAAGCCCACAACTCCATGGCACTTTTTTCTCTTTAAGCCCACAACTCCGTGGCACTTTTTTCATT
TTAAGCCTACAACTCTGTGGCACCTCTTTTT
Found at i:98592 original size:26 final size:27
Alignment explanation
Indices: 98564--98620 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
98554 TTTTTTCATC
98564 TTTAAGTCC-ACAACTCCATGGCACCCT
1 TTTAAG-CCTACAACTCCATGGCACCCT
** *
98591 TTTAAGCCTACAACTCTGTGGCACCTT
1 TTTAAGCCTACAACTCCATGGCACCCT
98618 TTT
1 TTT
98621 CTTTTTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (27 bp):
TTTAAGCCTACAACTCCATGGCACCCT
Found at i:98767 original size:33 final size:33
Alignment explanation
Indices: 98730--98827 Score: 169
Period size: 33 Copynumber: 3.0 Consensus size: 33
98720 CTTTTTCTTT
98730 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* * *
98763 TAAAGCCCACACAGGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
98796 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
98828 AAGCCCAATG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:98940 original size:49 final size:48
Alignment explanation
Indices: 98827--99186 Score: 385
Period size: 49 Copynumber: 7.8 Consensus size: 48
98817 GCAACCCTTC
* *
98827 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* *
98870 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* *
98919 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-A----A-CCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * *
98961 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
99010 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGTATCTTTATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
*
99059 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * *
99102 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
99151 TAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
99187 ACATCCTTTT
Statistics
Matches: 266, Mismatches: 30, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
42 36 0.14
43 75 0.28
47 2 0.01
48 4 0.02
49 149 0.56
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
Found at i:99136 original size:92 final size:92
Alignment explanation
Indices: 99004--99195 Score: 312
Period size: 92 Copynumber: 2.1 Consensus size: 92
98994 TTGGCACCTT
* * *
99004 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGTATCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGAACCTTCATCTTTAAGTCCAAT
*
99069 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGA
* *
99096 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTCATCTTTAAGTTCAAT
1 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGAACCTTCATCTTTAAGTCCAAT
*
99161 GTAGTTGGCCTTGAATCAGCACATTGA
66 GTAGCTGGCCTTGAATCAGCACATTGA
99188 CATCCTTT
1 CA-CCTTT
99196 TTCTCATCTT
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 87 0.95
93 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGAACCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGA
Found at i:100258 original size:52 final size:52
Alignment explanation
Indices: 100202--100330 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
100192 CAATGATCTT
* *
100202 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGACACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
* * * **
100254 TGTATCGATACATGGAGGCAAATTTGCTCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
100306 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
100331 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGACACACTATAAAA
Found at i:111039 original size:7 final size:7
Alignment explanation
Indices: 111027--111067 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
111017 AAATAAAATA
111027 AAATAAT
1 AAATAAT
111034 AAATAAT
1 AAATAAT
111041 AAATAAAT
1 AAAT-AAT
111049 AAA-AAT
1 AAATAAT
111055 AAA-AAT
1 AAATAAT
*
111061 TAATAAT
1 AAATAAT
111068 CATACACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 11 0.35
7 14 0.45
8 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:111043 original size:15 final size:15
Alignment explanation
Indices: 111017--111058 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
111007 TTCACAATTA
111017 AAAT-AAAATAAAAT
1 AAATAAAAATAAAAT
111031 -AATAAATAAT-AAAT
1 AAATAAA-AATAAAAT
111045 AAATAAAAATAAAA
1 AAATAAAAATAAAA
111059 ATTAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 12 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:111044 original size:24 final size:24
Alignment explanation
Indices: 111017--111066 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
111007 TTCACAATTA
111017 AAATAAA-ATAAAATAATAAA-TAAT
1 AAATAAATA-AAAATAA-AAATTAAT
111041 AAATAAATAAAAATAAAAATTAAT
1 AAATAAATAAAAATAAAAATTAAT
111065 AA
1 AA
111067 TCATACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATAAATAAAAATAAAAATTAAT
Found at i:113862 original size:20 final size:20
Alignment explanation
Indices: 113818--113856 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
113808 TTTTGTTGCA
* *
113818 CATTTTGAATATTAGTTGTG
1 CATTCTGAACATTAGTTGTG
113838 CATTCTGAACATTAGTTGT
1 CATTCTGAACATTAGTTGT
113857 CTATTCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (20 bp):
CATTCTGAACATTAGTTGTG
Found at i:115319 original size:25 final size:25
Alignment explanation
Indices: 115284--115332 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
115274 TCAATGTAAA
* *
115284 GTGGCTGTTTTAAATGACTTTCTAG
1 GTGGCTATTTTAAACGACTTTCTAG
115309 GTGGCTATTTTAAACGACTTTCTA
1 GTGGCTATTTTAAACGACTTTCTA
115333 TAATCCTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (25 bp):
GTGGCTATTTTAAACGACTTTCTAG
Found at i:117271 original size:15 final size:15
Alignment explanation
Indices: 117251--117280 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
117241 AAATACTAAT
117251 TAAAATTGAATTAAC
1 TAAAATTGAATTAAC
*
117266 TAAAATTTAATTAAC
1 TAAAATTGAATTAAC
117281 AGGTAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
TAAAATTGAATTAAC
Found at i:119145 original size:20 final size:20
Alignment explanation
Indices: 119105--119146 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
119095 TATTAATATA
119105 AACATATATGTGATAAAATC
1 AACATATATGTGATAAAATC
119125 AACATCATAT-TG-TAAAGATC
1 AACAT-ATATGTGATAAA-ATC
119145 AA
1 AA
119147 GATTGTGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
AACATATATGTGATAAAATC
Found at i:119948 original size:13 final size:13
Alignment explanation
Indices: 119930--119955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119920 AATTTTTTTG
119930 TGTATCGATACAT
1 TGTATCGATACAT
119943 TGTATCGATACAT
1 TGTATCGATACAT
119956 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120357 original size:33 final size:33
Alignment explanation
Indices: 120320--120386 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
120310 TTCAACGATT
120320 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
120353 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
120386 T
1 T
120387 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:120358 original size:13 final size:13
Alignment explanation
Indices: 120340--120364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120330 CATAAAATGT
120340 TGTATCGATACAA
1 TGTATCGATACAA
120353 TGTATCGATACA
1 TGTATCGATACA
120365 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:120449 original size:13 final size:13
Alignment explanation
Indices: 120431--120455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120421 ATTACTCACA
120431 TGTATCGATACAT
1 TGTATCGATACAT
120444 TGTATCGATACA
1 TGTATCGATACA
120456 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120520 original size:52 final size:52
Alignment explanation
Indices: 120464--120582 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
120454 CACTGATCTT
*
120464 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
120516 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
120568 TGTATCGATACATGC
1 TGTATCGATACATGC
120583 GGTAACTCTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:127788 original size:15 final size:15
Alignment explanation
Indices: 127763--127803 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
127753 TTTTCCAAAC
*
127763 ACAAAAAA-AAAAAG
1 ACAAAAAAGAAAAAA
127777 A-AAAAAAGAAAAAA
1 ACAAAAAAGAAAAAA
*
127791 ACAAAATAGAAAA
1 ACAAAAAAGAAAA
127804 TCTCGGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 7 0.30
15 10 0.43
ACGTcount: A:0.85, C:0.05, G:0.07, T:0.02
Consensus pattern (15 bp):
ACAAAAAAGAAAAAA
Found at i:128847 original size:30 final size:31
Alignment explanation
Indices: 128810--128894 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
128800 CAAATACCTT
128810 TTCAAAGTCCACGACTCAGTGGCATTTTATC
1 TTCAAAGTCCACGACTCAGTGGCATTTTATC
* *
128841 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTATC
* * * *
128871 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
128895 CACTTTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 28 0.61
31 18 0.39
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTATC
Found at i:128952 original size:34 final size:34
Alignment explanation
Indices: 128864--130007 Score: 1209
Period size: 34 Copynumber: 34.1 Consensus size: 34
128854 CTTAGTGGCA
*
128864 TTTTT-TCTTTAAAGCCCACAACTCTGTGGCACAC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
* * * * *
128898 TTTTTCTTTTTAAAACCCACAATTCTGTGGCACT
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
128932 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 TTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACC
*
128966 -----C-GTTT-AAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
128993 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
129027 TTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129061 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129097 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
129131 TTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129165 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129201 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129236 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
129270 -----CTCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* *
129299 TTCTTCT-TTTCAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCTTT-AAAGCCCACAACTCCGTGGCAC-C
*
129334 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129370 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129405 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
129439 -----CTCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
129468 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129503 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129537 -----CTCTTTAAAGCCCACAACTCTGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* *
129566 TTCTTCT-TTTCAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTCTTT-AAAGCCCACAACTCCGTGGCAC-C
*
129601 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129637 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
*
129672 TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
129706 -----CTCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* * * *
129735 TTCTTCTTTTTAAAGCCCACAGCTCCATGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
* *
129769 TTCTTCT-TTTCAAAGCCCACAACTCTGTGGCA-C
1 TTTTTCTCTTT-AAAGCCCACAACTCCGTGGCACC
* *
129802 TTTCTTCT-TTTCAAAGCCCACGACTCTGTGGCA-C
1 TTT-TTCTCTTT-AAAGCCCACAACTCCGTGGCACC
*
129836 ----TCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
*
129866 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
* *
129901 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT
1 TTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACC
*
129937 TTTTTCT-TTTAAAGCCCACAAATCCGTGGCACTC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-C
* * * *
129971 TTTTTCCCTTTTAAGTCCACAACTCCGTGGCATC
1 TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
130005 TTT
1 TTT
130008 CTCCCTTCTC
Statistics
Matches: 962, Mismatches: 70, Indels: 156
0.81 0.06 0.13
Matches are distributed among these distances:
27 103 0.11
28 12 0.01
29 35 0.04
30 4 0.00
32 1 0.00
33 84 0.09
34 362 0.38
35 112 0.12
36 55 0.06
37 194 0.20
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC
Found at i:128979 original size:27 final size:27
Alignment explanation
Indices: 128941--128992 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
128931 TTTTTTCATC
*
128941 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
128968 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
128993 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:129347 original size:98 final size:98
Alignment explanation
Indices: 128871--130007 Score: 1058
Period size: 98 Copynumber: 11.3 Consensus size: 98
128861 GCATTTTTTC
* * * * * * *
128871 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAACCCACAATTCTGTGGCACTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
128936 TCATCTTT-AAGTCCACAACTCCGTGGCA-C-CCG
66 TC-T-TTTAAAGCCCACAACTCCGTGGCATCTTCT
*
128968 TTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
129031 TCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
66 TCTTTTAAAGCCCACAACTCCGTGGCA-TC---TT--CT
129070 TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTT-AAAGCCCACAACTCCGTGGCACCTT
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTTCAAAGCCCACAACTCCGTGGCACCTT
*
129133 TTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
64 TTTCTTTTAAAGCCCACAACTCCGTGGCA-TC---TT--CT
129174 TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTT-AAAGCCCACAACTCCGTGGCACTCT
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTTCAAAGCCCACAACTCCGTGGCAC-C-
*
129237 TTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C-TC-
62 TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCATCTTCT
* *
129273 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTT
*
129337 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
65 TT--CTTTT-AAAGCCCACAACTCCGTGGCA---TCTTCT
*
129377 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C-
1 -TTTAAAGCCCACAACTCCGTGGCACTC-TTTT-TCTTTTCAAAGCCCACAACTCCGTGGCACCT
*
129440 ---TC-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
63 TTTTCTTTTAAAGCCCACAACTCCGTGGCA---TCTTCT
*
129475 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C-
1 -TTTAAAGCCCACAACTCCGTGGCACTC-TTTT-TCTTTTCAAAGCCCACAACTCCGTGGCACCT
*
129538 ---TC-TTTAAAGCCCACAACTCTGTGGCACCTTCTTCT
63 TTTTCTTTTAAAGCCCACAACTCCGTGGCA---TCTTCT
*
129573 TTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCT
129638 TTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
63 TTTTCT-TTTAAAGCCCACAACTCCGTGGCA-TC----T-TCT
* *
129681 TTTCAAAGCCCACGACTCCGTGGCA--C----TC-TTT-AAAGCCCACAACTCCGTGGCACCTTC
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
* *
129738 TTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCTTCT
65 TTC-TTTTAAAGCCCACAACTCCGTGGCA---TCTTCT
* * * *
129776 TTTCAAAGCCCACAACTCTGTGGCACT-TTCTTCTTTTCAAAGCCCACGACTCTGTGGCA-C--T
1 TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
* *
129837 CT-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
65 TTCTTTTAAAGCCCACAACTCCGTGGCA---TCTTCT
*
129873 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 -TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCACCT
*
129938 TTTTCTTTTAAAGCCCACAAATCCGTGGCACTCTTTTTCCCT
63 TTTTCTTTTAAAGCCCACAACTCCGTGGCA-TC---TT--CT
*
129980 TTT-AAGTCCACAACTCCGTGGCA-TCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTT
130008 CTCCCTTCTC
Statistics
Matches: 923, Mismatches: 49, Indels: 129
0.84 0.04 0.12
Matches are distributed among these distances:
93 3 0.00
94 19 0.02
95 63 0.07
96 24 0.03
97 70 0.08
98 310 0.34
99 12 0.01
100 32 0.03
101 4 0.00
102 27 0.03
103 8 0.01
104 184 0.20
105 73 0.08
106 11 0.01
107 12 0.01
108 71 0.08
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (98 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
TCTTTTAAAGCCCACAACTCCGTGGCATCTTCT
Found at i:129368 original size:169 final size:170
Alignment explanation
Indices: 128865--130028 Score: 1362
Period size: 169 Copynumber: 6.9 Consensus size: 170
128855 TTAGTGGCAT
* * * * *
128865 TTTTTC-TTTAAAGCCCACAACTCTGTGGCACACTTTTTCT-TTTT-AAAACCCACAATTCTGTG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
* * *
128927 GCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCC
66 GCAC---CTTC-T-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCC
*
128985 GTGGCAC-CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACC
126 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
* *
129027 TTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
*
129092 GCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTG
66 GCACC---TTCT-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCG
129157 TGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
127 TGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
*
129201 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGT
* *
129266 GGCA-C-TC-TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTG
65 GGCACCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTG
129328 GCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
129 GCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
*
129370 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGT
129435 GGCA-C-TC-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTG
65 GGCACCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTG
* *
129497 GCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C
129 GCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
* * *
129538 ----TC-TTTAAAGCCCACAACTCTGTGGCAC-C-TTCT-TCTTTTCAAAGCCCACAACTCTGTG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
129595 GCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAAC
66 GCAC-C---TT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAAC
* *
129660 TCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C
123 TCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
* * *
129707 ----TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCT-TTTT-AAAGCCCACAGCTCCATG
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
* *
129764 GCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCA-CTTTCTTCTTTTCAAAGCCCACGACTC
66 GCA-C--CTTCTTTT-AAAGCCCACAACTCCGTGGCACCTTT-TTCTTTT-AAAGCCCACAACTC
*
129828 TGTGGCACTC----T---TTTT-AAAGCCCACAACTCCGTGGCACC
125 CGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
*
129866 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 TTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGT
* * *
129931 GGCACTTTTTTCTTTTAAAGCCCACAAATCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACT
65 GGCAC---CTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACT
* *
129995 CCGTGGCA-TCTTTCTCCCTTCTCTAAAGCCCACA
124 CCGTGGCACTCTTTTTCCCTTTTC-AAAGCCCACA
130029 CAAGTCGGTG
Statistics
Matches: 899, Mismatches: 44, Indels: 104
0.86 0.04 0.10
Matches are distributed among these distances:
158 20 0.02
159 31 0.03
160 3 0.00
161 2 0.00
162 31 0.03
163 34 0.04
164 10 0.01
165 76 0.08
166 58 0.06
167 27 0.03
168 88 0.10
169 361 0.40
170 21 0.02
171 24 0.03
172 6 0.01
174 39 0.04
175 58 0.06
176 10 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (170 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTG
GCACCTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
Found at i:129537 original size:267 final size:263
Alignment explanation
Indices: 129001--129973 Score: 1434
Period size: 267 Copynumber: 3.6 Consensus size: 263
128991 CCTTTTTCTT
*
129001 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
129066 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACC
66 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACC
*
129131 -TTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
131 TTTTTTCTTTTAAAGCCCACAACTCCGTGGCA--C----T--C-TTT-AAAGCCCACAACTCCGT
129195 GGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGA
186 GGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGA
129260 CTCCGTGGCACTC
251 CTCCGTGGCACTC
129273 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AAAGCCCACAACTCTGTGGCACTCTTTT
129338 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
65 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
*
129403 TCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACC
130 -CTTTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACC
129468 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
192 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
129533 GGCACTC
257 GGCACTC
*
129540 TTTAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AAAGCCCACAACTCTGTGGCACTCTTTT
129605 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
65 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
*
129670 TCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACC
130 -CTTTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACC
* * * * * * *
129735 TTCTTCTTTTTAAAGCCCACAGCTCCATGGCAC-C-TTCT-TCTTTTCAAAGCCCACAACTCTGT
192 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGT
129797 GGCACTTTCTTC
257 GGCA----C-TC
* * *
129809 TTTTCAAAGCCCACGACTCTGTGGCA-C-TC-T-TTTTAAAGCCCACAACTCCGTGGCAC-CTTT
1 -TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTT
129869 TT--CTGTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCG
64 TTCCCT-TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTGTTT-AAAGCCCACAACTCCG
*
129930 TGGCA-CTTTTTTCTTTTAAAGCCCACAAATCCGTGGCACTCTTT
124 TGGCACCTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
129974 TTCCCTTTTA
Statistics
Matches: 669, Mismatches: 15, Indels: 44
0.92 0.02 0.06
Matches are distributed among these distances:
262 25 0.04
263 30 0.04
264 41 0.06
265 12 0.02
266 45 0.07
267 322 0.48
268 5 0.01
269 5 0.01
270 4 0.01
271 21 0.03
272 35 0.05
273 93 0.14
274 1 0.00
275 5 0.01
276 6 0.01
277 19 0.03
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (263 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACC
TTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTTT
TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
CTC
Found at i:130089 original size:33 final size:33
Alignment explanation
Indices: 130013--130116 Score: 172
Period size: 33 Copynumber: 3.1 Consensus size: 33
130003 TCTTTCTCCC
*
130013 TTCTCTAAAGCCCACACAAGTCGGTGGCAAACCT
1 TTCTCTAAAGCCCACACAAGTCGGTGGC-AACCA
*
130047 TTCTCTAAAGCCCACACAAGTTGGTGGCAACCA
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
*
130080 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
130113 TTCT
1 TTCT
130117 AAGCCCAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 39 0.59
34 27 0.41
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (33 bp):
TTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
Found at i:130174 original size:49 final size:49
Alignment explanation
Indices: 130116--130929 Score: 1232
Period size: 49 Copynumber: 16.7 Consensus size: 49
130106 GCAACCCTTC
* * * *
130116 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130165 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130214 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130263 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130312 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130361 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
130410 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130459 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130508 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCAACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130556 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130605 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130654 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCAACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130702 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
130751 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
130799 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
130842 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
130894 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
130930 ACATCCTTTT
Statistics
Matches: 694, Mismatches: 60, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
43 39 0.06
45 1 0.00
48 137 0.20
49 481 0.69
50 1 0.00
52 35 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:130857 original size:43 final size:43
Alignment explanation
Indices: 130748--130885 Score: 204
Period size: 43 Copynumber: 3.1 Consensus size: 43
130738 GCACCTTCAT
130748 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
130796 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
130839 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
130882 CTTT
1 CTTT
130886 TCCATCTTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
43 47 0.54
48 40 0.46
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:130975 original size:56 final size:52
Alignment explanation
Indices: 130839--130977 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
130829 ACATTGGCAC
* *
130839 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
130891 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
130947 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
130978 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:131844 original size:33 final size:33
Alignment explanation
Indices: 131807--131873 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
131797 TTCAACGATT
131807 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
131840 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
131873 T
1 T
131874 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:131845 original size:13 final size:13
Alignment explanation
Indices: 131827--131851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131817 CATAAAATGT
131827 TGTATCGATACAA
1 TGTATCGATACAA
131840 TGTATCGATACA
1 TGTATCGATACA
131852 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:131936 original size:13 final size:13
Alignment explanation
Indices: 131918--131942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131908 ATTACTCACA
131918 TGTATCGATACAT
1 TGTATCGATACAT
131931 TGTATCGATACA
1 TGTATCGATACA
131943 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132007 original size:52 final size:52
Alignment explanation
Indices: 131951--132069 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
131941 CACTGATCTT
*
131951 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
132003 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
132055 TGTATCGATACATGC
1 TGTATCGATACATGC
132070 GGTAACTCTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:136848 original size:13 final size:13
Alignment explanation
Indices: 136830--136854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136820 ACTGAAGTAA
136830 TGTATCGATACAT
1 TGTATCGATACAT
136843 TGTATCGATACA
1 TGTATCGATACA
136855 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:137439 original size:23 final size:24
Alignment explanation
Indices: 137394--137440 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
137384 CAAAGAATTG
*
137394 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
137418 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
137441 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:139955 original size:13 final size:13
Alignment explanation
Indices: 139937--139994 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
139927 AATTTTTTTG
139937 TGTATCGATACAT
1 TGTATCGATACAT
139950 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
139968 GTGTATCGATACAT
1 -TGTATCGATACAT
139982 TGTATCGATACAT
1 TGTATCGATACAT
139995 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:139974 original size:19 final size:19
Alignment explanation
Indices: 139950--140012 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
139940 ATCGATACAT
139950 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
139969 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
139982 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
140001 TGTATCGATACA
1 TGTATCGATACA
140013 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:139974 original size:32 final size:32
Alignment explanation
Indices: 139933--140012 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
139923 ATACAATTTT
139933 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
139965 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
139997 TTTGTGTATCGATACA
1 TTTGTGTATCGATACA
140013 AGTTTGGCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTGTGTATCGATACATTGTATCGATACATAC
Done.