Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 27
Found at i:615 original size:14 final size:14
Alignment explanation
Indices: 598--636 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
588 GAACATAAAT
598 GAACATAACCGAAC
1 GAACATAACCGAAC
612 GAACAT-A---AAC
1 GAACATAACCGAAC
622 GAACATAACCGAAC
1 GAACATAACCGAAC
636 G
1 G
637 TTTACGAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
13 1 0.05
14 10 0.48
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:615 original size:24 final size:24
Alignment explanation
Indices: 588--636 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
578 ATAAATGAAT
*
588 GAACATAAATGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
612 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
636 G
1 G
637 TTTACGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:3474 original size:30 final size:30
Alignment explanation
Indices: 3430--3504 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
3420 TTTTGATGAC
3430 TTAAACACTTAAAATGATAATTTTTATAACA
1 TTAAACA-TTAAAATGATAATTTTTATAACA
3461 TTAAACATTAAAATGATAATTTTTATAACA
1 TTAAACATTAAAATGATAATTTTTATAACA
3491 TTAAACATTAAAAT
1 TTAAACATTAAAAT
3505 AAATTAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 37 0.84
31 7 0.16
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.39
Consensus pattern (30 bp):
TTAAACATTAAAATGATAATTTTTATAACA
Found at i:4955 original size:2 final size:2
Alignment explanation
Indices: 4944--5007 Score: 68
Period size: 2 Copynumber: 34.0 Consensus size: 2
4934 CTATTCAAAC
4944 TA TA -A TA TA TA TA TA TA TA TA TA T- TA TA GT- TA -A TGA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA TA
4983 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5008 GTTAATATTC
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
1 6 0.11
2 45 0.83
3 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13120 original size:25 final size:24
Alignment explanation
Indices: 13051--13122 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 24
13041 TTGAAAAATA
13051 ATTTTAAAAAAATGTAAT-G--TTG
1 ATTTTAAAAAAAT-TAATAGCTTTG
*
13073 ATATTTTAAAAAATATCATATAGCTTTG
1 --ATTTTAAAAAA-ATTA-ATAGCTTTG
13101 ATTTTGAAAAAAATTAATAGCT
1 ATTTT-AAAAAAATTAATAGCT
13123 GAGTGACCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 12 0.30
25 10 0.25
26 9 0.22
27 6 0.15
28 3 0.08
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (24 bp):
ATTTTAAAAAAATTAATAGCTTTG
Found at i:15971 original size:23 final size:23
Alignment explanation
Indices: 15944--15993 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15934 GATTTATAGC
* *
15944 TTTTTACACAGTA-CACTGATTT
1 TTTTTTCACAGGAGCACTGATTT
* *
15966 TTTTTTTATAGGAGCACTGATTT
1 TTTTTTCACAGGAGCACTGATTT
15989 TTTTT
1 TTTTT
15994 ATACTTCTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (23 bp):
TTTTTTCACAGGAGCACTGATTT
Found at i:22415 original size:17 final size:17
Alignment explanation
Indices: 22390--22444 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
22380 AATACATCAT
*
22390 TTAACATATGAAATAAA
1 TTAAAATATGAAATAAA
* *
22407 TTAAAATATGACACAAA
1 TTAAAATATGAAATAAA
* *
22424 AT-AAATATAAAAT-AA
1 TTAAAATATGAAATAAA
22439 TTAAAA
1 TTAAAA
22445 CAGCGTAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 15 0.52
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (17 bp):
TTAAAATATGAAATAAA
Found at i:23944 original size:26 final size:26
Alignment explanation
Indices: 23905--23967 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
23895 TATAAACAAT
* * * *
23905 TAATCAATTTAGTTTCTCAAATCAAC
1 TAATCAAATCAGTTACTCAAACCAAC
*
23931 TAATCAAATCAGTTAGTCAAACCAAC
1 TAATCAAATCAGTTACTCAAACCAAC
* *
23957 TACTAAAATCA
1 TAATCAAATCA
23968 TATATTAGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (26 bp):
TAATCAAATCAGTTACTCAAACCAAC
Found at i:25120 original size:20 final size:20
Alignment explanation
Indices: 25043--25113 Score: 142
Period size: 20 Copynumber: 3.5 Consensus size: 20
25033 ATCTTATTCC
25043 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
25063 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
25083 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
25103 CTGGTAATCTT
1 CTGGTAATCTT
25114 ACATTCCGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:32182 original size:18 final size:18
Alignment explanation
Indices: 32155--32189 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32145 GTTACATAGT
*
32155 TGTAATTGATTTTCTCAA
1 TGTAAATGATTTTCTCAA
32173 TGTAAATGATTTTCTCA
1 TGTAAATGATTTTCTCA
32190 GTTCCTTTGT
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:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TGTAAATGATTTTCTCAA
Found at i:33057 original size:29 final size:29
Alignment explanation
Indices: 33014--33089 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
33004 GGATGGTCAT
* **
33014 TTCATTTTACATAAAGTAGGTTT-AGGTAA
1 TTCATTTTACGTAAAACA-GTTTCAGGTAA
*
33043 TTCATTTTACGTAAAACAGTTTCATGTAA
1 TTCATTTTACGTAAAACAGTTTCAGGTAA
*
33072 TTAATTTTACGTAAAACA
1 TTCATTTTACGTAAAACA
33090 ATTTTGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (29 bp):
TTCATTTTACGTAAAACAGTTTCAGGTAA
Found at i:50450 original size:2 final size:2
Alignment explanation
Indices: 50440--50470 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50430 AAAAAATTTA
*
50440 AT AT GT 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 A
50471 ATTAGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54978 original size:19 final size:18
Alignment explanation
Indices: 54956--54991 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
54946 TTTTTTTTAA
54956 TTTTTAATAACAAAAATAT
1 TTTTTAA-AACAAAAATAT
*
54975 TTTTTAAAAGAAAAATA
1 TTTTTAAAACAAAAATA
54992 AAATAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTTTAAAACAAAAATAT
Found at i:55553 original size:21 final size:21
Alignment explanation
Indices: 55526--55676 Score: 161
Period size: 21 Copynumber: 7.2 Consensus size: 21
55516 GATTCACAAC
*
55526 GCGAACTTCGACTATCGCAGT
1 GCGAACTTCGACTATCGCAAT
* *
55547 ACGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
55568 GCGAA-TAT-GTA-AATCGCAAT
1 GCGAACT-TCG-ACTATCGCAAT
*
55588 GCGATA-GTCGACTATCGCAAT
1 GCGA-ACTTCGACTATCGCAAT
55609 GCGAAC-TCGGACTATCGCAAT
1 GCGAACTTC-GACTATCGCAAT
*
55630 GCGAACTTCGACTATCGTAAT
1 GCGAACTTCGACTATCGCAAT
55651 GCGAACTT-GAACTATCGCAAT
1 GCGAACTTCG-ACTATCGCAAT
55672 GCGAA
1 GCGAA
55677 TATGTAAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
20 20 0.18
21 90 0.80
22 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:55717 original size:21 final size:21
Alignment explanation
Indices: 55691--55734 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
55681 TAAATTGCAA
55691 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
55712 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
55733 TG
1 TG
55735 TGATTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:55823 original size:6 final size:6
Alignment explanation
Indices: 55812--55843 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
55802 AGACACGTAT
55812 GACCAC GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GA
55844 GACGAGACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.47, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:56320 original size:21 final size:21
Alignment explanation
Indices: 56206--56320 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
56196 GCGAAATAAA
*
56206 AATCGCAACGCGA--TCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
56225 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
56245 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
56266 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
56286 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
56308 AATCGCAACGCGA
1 AATCGCAACGCGA
56321 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
18 1 0.01
19 9 0.13
20 16 0.23
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:56405 original size:20 final size:20
Alignment explanation
Indices: 56308--56479 Score: 238
Period size: 20 Copynumber: 8.6 Consensus size: 20
56298 GATTTTCCAG
* ** *
56308 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
56328 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
56348 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
56368 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
56388 AATCGCAACGCGTTTCCGTA
1 AATCGCAACGCGTATCCGTA
*
56408 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
56428 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
56448 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
56468 AATCGCAACGCG
1 AATCGCAACGCG
56480 ATTTTTAAAG
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 132 0.98
21 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:56899 original size:33 final size:33
Alignment explanation
Indices: 56860--56930 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
56850 TTCACTTAGA
56860 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
56893 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
56926 TTTCA
1 TTTCA
56931 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:57036 original size:21 final size:20
Alignment explanation
Indices: 57010--57083 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
57000 TGCAGAAGAG
57010 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
57031 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
57051 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
57073 TCGCAACGAGA
1 TCGCAACGAGA
57084 GAATCGCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 25 0.56
22 10 0.22
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:57090 original size:14 final size:14
Alignment explanation
Indices: 57071--57127 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
57061 GAAAAATGAA
57071 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
57085 AATCGCAACGCGAAATAAA
1 AATCGCAA--CG--A-GAG
57104 AATCGCAACGAGAG
1 AATCGCAACGAGAG
57118 AATCGCAACG
1 AATCGCAACG
57128 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:57107 original size:33 final size:33
Alignment explanation
Indices: 57064--57143 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
57054 GCAACGAGAA
*
57064 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
57097 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
**
57130 AAACCAAAATCGCA
1 AAATAAAAATCGCA
57144 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.20, T:0.09
Consensus pattern (33 bp):
AAATAAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:57195 original size:21 final size:21
Alignment explanation
Indices: 57169--57233 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
57159 CGCGTTGCGA
57169 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
57190 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
57210 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
57231 TTC
1 TTC
57234 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:57230 original size:20 final size:20
Alignment explanation
Indices: 57168--57231 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
57158 TCGCGTTGCG
57168 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
57188 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
57209 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
57229 ATT
1 ATT
57232 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:59158 original size:93 final size:93
Alignment explanation
Indices: 58917--59231 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
58907 TAGATTGCTT
*
58917 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
58982 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
59009 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
59074 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
59102 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
59167 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
59195 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
59232 AATACCCTGA
Statistics
Matches: 221, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 81 0.37
93 140 0.63
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:59366 original size:14 final size:14
Alignment explanation
Indices: 59347--59403 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
59337 CGAAACTTAA
59347 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
59361 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
59380 AATCGCAACGACAG
1 AATCGCAACGAGAG
59394 AATCGCAACG
1 AATCGCAACG
59404 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:59385 original size:19 final size:18
Alignment explanation
Indices: 59361--59452 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
59351 GCAACGAGAG
59361 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
59380 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
59394 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
59413 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
59427 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
59446 AATCGCA
1 AATCGCA
59453 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:59387 original size:33 final size:33
Alignment explanation
Indices: 59329--59452 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
59319 TAGTTTACTT
* * *
59329 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
59363 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
59396 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
59429 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
59453 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:59429 original size:14 final size:14
Alignment explanation
Indices: 59378--59436 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
59368 ACGCGAAATG
59378 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
59392 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
59411 AAAATCGCAACGAC
1 AAAATCGCAACGAC
59425 AAAATCGCAACG
1 AAAATCGCAACG
59437 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:59470 original size:19 final size:19
Alignment explanation
Indices: 59448--59620 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
59438 GAAACCAAAA
*
59448 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
59467 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
59481 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
59500 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
59516 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
59533 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
59552 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
59571 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
59590 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
59610 TCGTGTTGCGA
1 TCGCGTTGCGA
59621 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:59489 original size:14 final size:14
Alignment explanation
Indices: 59470--59526 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
59460 TTTCATTTCG
59470 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
59484 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
59501 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
59517 CGTTGCGATT
1 CGTTGCGATT
59527 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:59578 original size:38 final size:38
Alignment explanation
Indices: 59448--59620 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
59438 GAAACCAAAA
*
59448 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
59483 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
59516 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
59552 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
59590 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
59621 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:61555 original size:14 final size:14
Alignment explanation
Indices: 61536--61571 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
61526 ATTGTTTAAT
61536 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
61550 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
61564 TGATTTGT
1 TGATTTGT
61572 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:61754 original size:20 final size:19
Alignment explanation
Indices: 61678--61776 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
61668 AAAAATGACT
61678 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
61697 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
61716 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
61730 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
61750 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
61770 ATCGCAA
1 ATCGCAA
61777 CGAGAGAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 3 0.04
19 27 0.38
20 30 0.42
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:61780 original size:54 final size:53
Alignment explanation
Indices: 61678--61794 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 53
61668 AAAAATGACT
61678 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
61730 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
61784 ATCGCAATGCG
1 ATCGCAATGCG
61795 ATTTTCATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 10 0.16
53 19 0.30
54 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:61847 original size:14 final size:14
Alignment explanation
Indices: 61828--61882 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
61818 CATTTCCGCA
61828 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
61842 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
61859 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
61875 TTGCGATT
1 TTGCGATT
61883 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:61866 original size:33 final size:33
Alignment explanation
Indices: 61811--61901 Score: 173
Period size: 33 Copynumber: 2.7 Consensus size: 33
61801 ATTTCGATTT
61811 CGATTTTCATTTCCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTT-CGCATTGCGATTCTCTCGTTG
61845 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
61878 CGATTTTCATTTCGCATTGCGATT
1 CGATTTTCATTTCGCATTGCGATT
61902 TTCATTTCCG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 45 0.79
34 12 0.21
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
Found at i:61918 original size:86 final size:89
Alignment explanation
Indices: 61791--61998 Score: 325
Period size: 86 Copynumber: 2.3 Consensus size: 89
61781 AGAATCGCAA
* *
61791 TGCGATTTTCATTTCG-ATTTCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATTCTCTCGTTGCGATTTTCAT
61855 TTCGCATTGCGA-TTC-TCTCG-T
66 TTCGCATTGCGATTTCATCTCGAT
61876 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATTCTCTCGTTGCGATTTTCAT
* *
61941 TTGGCATTGCGATTTTCATTTCGCAT
66 TTCGCATTGCGA-TTTCATCTCG-AT
61967 TGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
61999 GTTGGGATTT
Statistics
Matches: 112, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
85 16 0.14
86 57 0.51
88 3 0.03
89 4 0.04
91 15 0.13
92 17 0.15
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (89 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTCATCTCGAT
Found at i:61928 original size:53 final size:51
Alignment explanation
Indices: 61842--62040 Score: 262
Period size: 53 Copynumber: 3.8 Consensus size: 51
61832 GATTCTCTCG
61842 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-GCA
*
61894 TTGCGATTTTCATTTCCGAATTGCGATTCTCTCGTTGCGATTTTCATTTGGCA
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-GCA
*
61947 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--TG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTGCA
*
62000 TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
62041 GTAATTTCCG
Statistics
Matches: 134, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
47 8 0.06
49 2 0.01
50 2 0.01
51 3 0.02
52 24 0.18
53 74 0.55
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.09
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTGCA
Found at i:61957 original size:72 final size:72
Alignment explanation
Indices: 61791--62026 Score: 260
Period size: 72 Copynumber: 3.4 Consensus size: 72
61781 AGAATCGCAA
* *
61791 TGCGATTTTCATTTCG-ATTTCGATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--TTGCGAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGAATTGCGAT
*
61849 TTTCAT-T
65 TCTCATGT
* * *
61856 T-CGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCG
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCG
61919 ATTCTC-TCGT
63 ATTCTCAT-GT
* *
61929 TGCGATTTTCATTTGGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATT
*
61994 TTCATGT
66 CTCATGT
*
62001 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
62027 CTCTCGTTGC
Statistics
Matches: 142, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
64 5 0.04
65 5 0.04
66 12 0.08
67 14 0.10
68 3 0.02
69 2 0.01
70 2 0.01
71 1 0.01
72 86 0.61
73 7 0.05
74 5 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGAATTGCGATT
CTCATGT
Found at i:62048 original size:33 final size:33
Alignment explanation
Indices: 61894--62040 Score: 170
Period size: 33 Copynumber: 4.2 Consensus size: 33
61884 TCATTTCGCA
*
61894 TTGCGATTTTCATTTCCGAATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
* *
61928 TTGCGATTTTCATTTGGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
61964 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
62000 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
62033 TTGCGATT
1 TTGCGATT
62041 GTAATTTCCG
Statistics
Matches: 96, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
32 1 0.01
33 30 0.31
34 29 0.30
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.16
39 9 0.09
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:64342 original size:12 final size:12
Alignment explanation
Indices: 64325--64349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64315 TCTTCGGGGA
64325 CTTTTTCTTCTT
1 CTTTTTCTTCTT
64337 CTTTTTCTTCTT
1 CTTTTTCTTCTT
64349 C
1 C
64350 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:64558 original size:24 final size:24
Alignment explanation
Indices: 64524--64570 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
64514 CTGAAACATC
64524 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
64548 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
64571 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:65291 original size:20 final size:20
Alignment explanation
Indices: 65263--65490 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
65253 AAATTTCAGT
* * *
65263 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
65283 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
65303 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
65323 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
65343 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
65363 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
65383 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
65403 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
65423 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
65443 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
65463 GTTGCGATTT-CATATTCGC
1 GTTGCGATTTACGGATTCGC
65482 GTTGCGATT
1 GTTGCGATT
65491 CTTTAAAATC
Statistics
Matches: 181, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
19 14 0.08
20 166 0.92
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:66194 original size:21 final size:21
Alignment explanation
Indices: 66059--66195 Score: 170
Period size: 21 Copynumber: 6.6 Consensus size: 21
66049 AATTTGGAAA
*
66059 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
**
66080 ATCGCAATGCGAA-TATATA-T
1 ATCGCAATGCGAACT-TCGACT
66100 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
66121 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
66142 ATTGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
66163 ATCACAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
66184 ATCGCATTGCGA
1 ATCGCAATGCGA
66196 TTTACATATT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
20 17 0.17
21 83 0.83
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:66230 original size:21 final size:21
Alignment explanation
Indices: 66204--66382 Score: 186
Period size: 21 Copynumber: 8.6 Consensus size: 21
66194 GATTTACATA
66204 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
66225 TTCGCATTACAATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
**
66246 TTCGCATTGCGATAGTTGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
66267 TTCGCGTTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* * *
66287 TATCGCATTACGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
66308 TTCGCATTGCGATAGTCCAAA
1 TTCGCATTGCGATAGTCCAAG
*
66329 TTCGCATTGCGATAGTCCAAA
1 TTCGCATTGCGATAGTCCAAG
66350 TTCGCATTGCGATAGTCGC-AG
1 TTCGCATTGCGATAGTC-CAAG
*
66371 TTCGCGTTGCGA
1 TTCGCATTGCGA
66383 ATCTGGAAAC
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
20 15 0.11
21 116 0.87
22 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:66278 original size:104 final size:103
Alignment explanation
Indices: 66180--66383 Score: 336
Period size: 104 Copynumber: 2.0 Consensus size: 103
66170 TGCGAACTTG
* *
66180 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTACAATAGTCCAA
1 GACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCCAAATTCGCATTACAATAGTCCAA
* *
66245 GTTCGCATTGCGATAGTTGAAGTTCGCGTTGCGATAGTC
66 ATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA-AGTC
* *
66284 GACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCCAAATTCGCATTGCGATAGTCCAA
1 GACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCCAAATTCGCATTACAATAGTCCAA
*
66349 ATTCGCATTGCGATAGTCGCAGTTCGCGTTGCGAA
66 ATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGAA
66384 TCTGGAAACT
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 1 0.01
104 92 0.99
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (103 bp):
GACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCCAAATTCGCATTACAATAGTCCAA
ATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGAAGTC
Found at i:72482 original size:2 final size:2
Alignment explanation
Indices: 72475--72541 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
72465 AGGTTCTTTA
72475 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
72517 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
72542 ATATATATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:72546 original size:2 final size:2
Alignment explanation
Indices: 72541--72573 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
72531 TCTCTCTCTC
72541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72574 GAGGTCATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76383 original size:6 final size:6
Alignment explanation
Indices: 76338--76374 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
76328 TATTGTAGTG
76338 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
76375 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:78726 original size:31 final size:32
Alignment explanation
Indices: 78681--78758 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
78671 GTTAACTTGT
* * *
78681 AGTGACCATCTCTTAAATAAAT-AAAAGCAAA
1 AGTGACTATATCTTAAATAAATAAAAAACAAA
** *
78712 AGTGACTATATCTTAGTTAAATAAAAAACGAA
1 AGTGACTATATCTTAAATAAATAAAAAACAAA
78744 AGTGACTATATCTTA
1 AGTGACTATATCTTA
78759 TGTATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 18 0.45
32 22 0.55
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (32 bp):
AGTGACTATATCTTAAATAAATAAAAAACAAA
Found at i:87968 original size:30 final size:31
Alignment explanation
Indices: 87929--87986 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
87919 CAACTTAAGG
87929 GGGGCAAAATATAATTAATCATA-AAAATGA
1 GGGGCAAAATATAATTAATCATAGAAAATGA
* *
87959 GGGGTAAAATATAATTAATTATAGAAAA
1 GGGGCAAAATATAATTAATCATAGAAAA
87987 AAGGGGGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.26
Consensus pattern (31 bp):
GGGGCAAAATATAATTAATCATAGAAAATGA
Found at i:87992 original size:30 final size:30
Alignment explanation
Indices: 87929--87997 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
87919 CAACTTAAGG
*
87929 GGGGCAAAATATAATTAATCATAAAAATGA
1 GGGGCAAAATATAATTAATCATAAAAATAA
* *
87959 GGGGTAAAATATAATTAATTATAGAAAA-AA
1 GGGGCAAAATATAATTAATCATA-AAAATAA
87989 GGGGGCAAA
1 -GGGGCAAA
87998 GCATGATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (30 bp):
GGGGCAAAATATAATTAATCATAAAAATAA
Found at i:88344 original size:19 final size:18
Alignment explanation
Indices: 88308--88346 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
88298 TTATTAGAAA
88308 ATAAAAATATTTAAAATT
1 ATAAAAATATTTAAAATT
* *
88326 ATAATAATAGTTTACAATT
1 ATAAAAATA-TTTAAAATT
88345 AT
1 AT
88347 TATCGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAAAAATATTTAAAATT
Found at i:105220 original size:251 final size:251
Alignment explanation
Indices: 104777--105280 Score: 963
Period size: 251 Copynumber: 2.0 Consensus size: 251
104767 TCTTCACCAC
*
104777 CATCTATTAGCAATTTAGAATTCCACATCAAGAATATTTTCACAGTCATGCGTAAAGCCCCATAG
1 CATCTATTAGCAATTTAGAATTCCACATCAAGAATATGTTCACAGTCATGCGTAAAGCCCCATAG
104842 ACCTGATGTGAATGAAACAAGGAGAGCATTAAGTATCAGCAGCATAATACAAATAGGGAAGGAAG
66 ACCTGATGTGAATGAAACAAGGAGAGCATTAAGTATCAGCAGCATAATACAAATAGGGAAGGAAG
*
104907 AAAAATGGGACAAAGGGTTGACTGAAGCAAAACTAAATAGAAAGTGGCCAAGACAGATTATATAA
131 AAAAATGGGACAAAGGGTTAACTGAAGCAAAACTAAATAGAAAGTGGCCAAGACAGATTATATAA
104972 TACTTTCATTAGAAATCATCAAACTGCTTCAATTCAGAAGCACAAAGACATGTTAA
196 TACTTTCATTAGAAATCATCAAACTGCTTCAATTCAGAAGCACAAAGACATGTTAA
*
105028 CATCTATTAGCAATTTAGAATTCCACATCAAGAATATGTTCAGAGTCATGCGTAAAGCCCCATAG
1 CATCTATTAGCAATTTAGAATTCCACATCAAGAATATGTTCACAGTCATGCGTAAAGCCCCATAG
*
105093 ACCTGATGTGAATGAAACAAGGAGATCATTAAGTATCAGCAGCATAATACAAATAGGGAAGGAAG
66 ACCTGATGTGAATGAAACAAGGAGAGCATTAAGTATCAGCAGCATAATACAAATAGGGAAGGAAG
105158 AAAAATGGGACAAAGGGTTAACTGAAGCAAAACTAAATAGAAAGTGGCCAAGACAGATTATATAA
131 AAAAATGGGACAAAGGGTTAACTGAAGCAAAACTAAATAGAAAGTGGCCAAGACAGATTATATAA
*
105223 TACTTTCATTAGAAATCATCAAACTGCTTCTATTCAGAAGCACAAAGACATGTTAA
196 TACTTTCATTAGAAATCATCAAACTGCTTCAATTCAGAAGCACAAAGACATGTTAA
105279 CA
1 CA
105281 ACATGAAAAT
Statistics
Matches: 248, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 248 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (251 bp):
CATCTATTAGCAATTTAGAATTCCACATCAAGAATATGTTCACAGTCATGCGTAAAGCCCCATAG
ACCTGATGTGAATGAAACAAGGAGAGCATTAAGTATCAGCAGCATAATACAAATAGGGAAGGAAG
AAAAATGGGACAAAGGGTTAACTGAAGCAAAACTAAATAGAAAGTGGCCAAGACAGATTATATAA
TACTTTCATTAGAAATCATCAAACTGCTTCAATTCAGAAGCACAAAGACATGTTAA
Found at i:107054 original size:57 final size:57
Alignment explanation
Indices: 106985--107100 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
106975 CTAATTGAAG
106985 ATGCATTTTACAAACCCAAAAGCATTTATATCCTCAGCCATTAGATGTTTGCAATGA
1 ATGCATTTTACAAACCCAAAAGCATTTATATCCTCAGCCATTAGATGTTTGCAATGA
107042 ATGCATTTTACAAACCCAAAAGCATTTATATCCTCAGCCATTAGATGTTTGCAATGA
1 ATGCATTTTACAAACCCAAAAGCATTTATATCCTCAGCCATTAGATGTTTGCAATGA
107099 AT
1 AT
107101 ATAGCCCGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (57 bp):
ATGCATTTTACAAACCCAAAAGCATTTATATCCTCAGCCATTAGATGTTTGCAATGA
Found at i:111867 original size:46 final size:46
Alignment explanation
Indices: 111800--111906 Score: 205
Period size: 46 Copynumber: 2.3 Consensus size: 46
111790 AAGCAAGCCT
111800 GTTCCTCAATAAGCACTAATTATAGTTATGAGCTTCATTGAAGTTG
1 GTTCCTCAATAAGCACTAATTATAGTTATGAGCTTCATTGAAGTTG
111846 GTTCCTCAATAAGCACTAATTATAGTTATGAGCTTCATTGAAGTTG
1 GTTCCTCAATAAGCACTAATTATAGTTATGAGCTTCATTGAAGTTG
*
111892 GTTCCTCAATCAGCA
1 GTTCCTCAATAAGCA
111907 AACTTGCTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (46 bp):
GTTCCTCAATAAGCACTAATTATAGTTATGAGCTTCATTGAAGTTG
Found at i:113050 original size:31 final size:31
Alignment explanation
Indices: 113015--113105 Score: 139
Period size: 31 Copynumber: 2.9 Consensus size: 31
113005 TTAACGACAA
*
113015 GTGGCCTGATTGAATACATTTAAATAGTTGG
1 GTGGCCTAATTGAATACATTTAAATAGTTGG
*
113046 GTGGCCTAATTGAATGA-ATTTAAATAGATGG
1 GTGGCCTAATTGAAT-ACATTTAAATAGTTGG
*
113077 GTGGCCTAATTGAATGCATTTAAATAGTT
1 GTGGCCTAATTGAATACATTTAAATAGTT
113106 TGATGGCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 53 0.98
32 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (31 bp):
GTGGCCTAATTGAATACATTTAAATAGTTGG
Found at i:119236 original size:19 final size:19
Alignment explanation
Indices: 119199--119290 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
119189 AACACAGAAG
119199 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
119220 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
119239 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
* *
119259 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
119279 T-AATTTCGCAAC
1 TCAAATTCGCAAC
119291 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 31 0.49
20 22 0.35
21 10 0.16
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:119291 original size:19 final size:20
Alignment explanation
Indices: 119100--119291 Score: 178
Period size: 20 Copynumber: 9.7 Consensus size: 20
119090 ACTCAGTTTC
*
119100 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACACGAATTT
* * *
119120 GTAAA-TCGCAACACAAATGT
1 -CAAATTCGCAACACGAATTT
*
119140 CAAATTCGCAACACAGAA-GT
1 CAAATTCGCAACAC-GAATTT
* * **
119160 CAAATTCACAACACAAAAGT
1 CAAATTCGCAACACGAATTT
*
119180 CAAATTCGCAACACAGAA-GT
1 CAAATTCGCAACAC-GAATTT
119200 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
*
119221 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAATTT
* *
119240 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTT
*
119260 CGAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
119280 -AATTTCGCAACA
1 CAAATTCGCAACA
119292 GGTTTTAGTT
Statistics
Matches: 145, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
19 33 0.23
20 92 0.63
21 20 0.14
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:119466 original size:14 final size:15
Alignment explanation
Indices: 119447--119484 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
119437 TCCCCATCTC
119447 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
119461 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
119477 TAATTTTT
1 TAATTTTT
119485 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:120232 original size:24 final size:24
Alignment explanation
Indices: 120200--120253 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
120190 GAATTCGAAA
120200 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
120224 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
120248 TTTGAT
1 TTTGAT
120254 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:126658 original size:20 final size:20
Alignment explanation
Indices: 126635--126672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
126625 TTCAAAACGA
*
126635 AAATGAAAATCGTAACGCGG
1 AAATGAAAATCGCAACGCGG
*
126655 AAATTAAAATCGCAACGC
1 AAATGAAAATCGCAACGC
126673 AAATATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AAATGAAAATCGCAACGCGG
Found at i:126722 original size:20 final size:20
Alignment explanation
Indices: 126697--126764 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
126687 GAAACTAAAA
126697 TCGCGTTGTGATTTTCATTT
1 TCGCGTTGTGATTTTCATTT
* *
126717 TCGCGTTGCGATTTTCATGT
1 TCGCGTTGTGATTTTCATTT
126737 TCGCGTT-TCGATTTTCATTT
1 TCGCGTTGT-GATTTTCATTT
*
126757 TCGTGTTG
1 TCGCGTTG
126765 CGAATTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.09, C:0.18, G:0.22, T:0.51
Consensus pattern (20 bp):
TCGCGTTGTGATTTTCATTT
Found at i:127299 original size:20 final size:20
Alignment explanation
Indices: 127274--127335 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
127264 CGCGCTTTAT
127274 GAATTTGACTTATGTGTTGC
1 GAATTTGACTTATGTGTTGC
*
127294 GAATTTGACTTTTGTGTTGC
1 GAATTTGACTTATGTGTTGC
* *
127314 GAATTTGACATCTGTGTTGC
1 GAATTTGACTTATGTGTTGC
127334 GA
1 GA
127336 TTTACAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.44
Consensus pattern (20 bp):
GAATTTGACTTATGTGTTGC
Found at i:127352 original size:20 final size:20
Alignment explanation
Indices: 127329--127380 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
127319 TGACATCTGT
127329 GTTGCGATTTACA-AATTCGC
1 GTTGCGATTTACATAA-TCGC
127349 GTTGCGATTTACATAATCGC
1 GTTGCGATTTACATAATCGC
*
127369 ATTGCGAATTTA
1 GTTGCG-ATTTA
127381 GAAAATAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACATAATCGC
Found at i:128952 original size:181 final size:181
Alignment explanation
Indices: 128633--128996 Score: 498
Period size: 181 Copynumber: 2.0 Consensus size: 181
128623 TCCGGCGACA
* * * *
128633 ATCAAATAGATTAAGAGCAAAAAATATTACGATTAGACAAAATAGAAACTATTGTGTCTCGAAAT
1 ATCAAATAGATTAAGAGCAAAAAATATTACAATTAGACAAAATAGAAACGATTGTGCCTAGAAAT
* * *
128698 ATCACGGTTCTAAAGGAAATATGTTGTGACTTATAATGTTAACTTGTTTATTAATAGAATAAATT
66 ATCACGGTTCTAAAGGAAATAGGCTGTGACTTATAATGTTAACTTGTGTATTAATAGAATAAATT
* * * * * *
128763 GTGCCCAGAGTGTCATGGCCCCCAAAGAAAGCACGTTGTAATATGGAATATT
131 GCGCCCAGAATGTCAT-GACCCCAAAGAAAACACGTTGCAATATGAAATATT
* * * * *
128815 ATCAAATAGGTTAAGAGCACAAAGTATTACAATTAGGCAAAATAGAAACGGTTGTGCCTAG-AAT
1 ATCAAATAGATTAAGAGCAAAAAATATTACAATTAGACAAAATAGAAACGATTGTGCCTAGAAAT
* * *
128879 ATCACGGTTCTAAAGGAAATAGGCTGTGACTTGTAAT-TTCAACTTGTGTATTAATATAATAGAT
66 ATCACGGTTCTAAAGGAAATAGGCTGTGACTTATAATGTT-AACTTGTGTATTAATAGAATAAAT
*
128943 TGCGCCCAGAATGTCATGACCCCAAAGAAAACATGTTGCAATATGAAATATT
130 TGCGCCCAGAATGTCATGACCCCAAAGAAAACACGTTGCAATATGAAATATT
128995 AT
1 AT
128997 TATGTTGAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
180 34 0.21
181 73 0.46
182 52 0.33
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (181 bp):
ATCAAATAGATTAAGAGCAAAAAATATTACAATTAGACAAAATAGAAACGATTGTGCCTAGAAAT
ATCACGGTTCTAAAGGAAATAGGCTGTGACTTATAATGTTAACTTGTGTATTAATAGAATAAATT
GCGCCCAGAATGTCATGACCCCAAAGAAAACACGTTGCAATATGAAATATT
Found at i:129404 original size:21 final size:21
Alignment explanation
Indices: 129378--129422 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
129368 AGTAATATGA
129378 AATTTCGATACATTATTT-TAT
1 AATTTCGATACATT-TTTGTAT
*
129399 AATTTCGATACCTTTTTGTAT
1 AATTTCGATACATTTTTGTAT
129420 AAT
1 AAT
129423 ACAGTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (21 bp):
AATTTCGATACATTTTTGTAT
Found at i:131694 original size:2 final size:2
Alignment explanation
Indices: 131687--131717 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131677 GTGCATTTAG
131687 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 A
131718 CACACGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:137508 original size:6 final size:6
Alignment explanation
Indices: 137497--139160 Score: 2839
Period size: 6 Copynumber: 283.2 Consensus size: 6
137487 TCAGAATAGA
137497 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137545 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137593 TATATG TATATG --TATG TATATG TATATG TATATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG --TATATG TATATG TATATG
137641 TATATG TATATG TATATG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137687 TATATG TATATG TATATG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137733 TATATG TAT-TG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137780 --TATG TATATG --TATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137824 TATATG TATATG TATATG --TATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137870 TATATG TATATG TATATG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
137916 TATATG TATATG TATATG TATATG TATATG TATA-- TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
137962 TATATG TATATG TATATG TATATG TATATG --TATG TATATG TCTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138008 TATATG TATATG TAT-TG TATATG T-TATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138054 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138102 TATATG TCTATATG TATATG TATATG TATATG TATATG TATATG --TATG
1 TATATG --TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138150 TATATG TATATG TATATG TATATG --TAT- TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138195 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138243 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138291 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138339 TATATG --TATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138385 TATATG TATATG TATATG TATATG TATATG TATATG TATATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG --TATATG TATATG
138435 TATATG TATATG TATATG TATATG TATATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG --TATATG TATATG TATATG TATATG
*
138483 TATATG TATATT TATATG TATATG TATATG TATAT- TATA-G TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138529 TATATG --TATG TATAT- TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138574 TATATG TATATG TATATG TATATG TATATG TATA-- T-TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138619 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138667 TATATG TATATG TATATG TATATG --TATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138713 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138761 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138809 TATATG TATATG TATATG TATATG TATATG TATATG TATGTATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TA--TATG TATATG
138859 TATATG TATATG TATATG TATA-G TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138906 TATA-G TATATG TATATG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
138951 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
138999 TATATG TATATG TATGTATA TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TA--TATG TATATG TATATG TATATG TATATG TATATG
*
139049 TATATG --TATG TATATG TATATG TATATA TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
139095 TATATG TATATG --TATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
139141 TATATGG TATATG TATATG T
1 TATAT-G TATATG TATATG T
139161 GAGTTATGTA
Statistics
Matches: 1589, Mismatches: 8, Indels: 122
0.92 0.00 0.07
Matches are distributed among these distances:
3 2 0.00
4 72 0.05
5 42 0.03
6 1432 0.90
7 6 0.00
8 35 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:142381 original size:21 final size:20
Alignment explanation
Indices: 142295--142452 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
142285 AAATGACCAA
**
142295 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
142314 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
142334 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
142354 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
142375 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
142396 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
142416 CCAAAATCGCAACACGAATAT
1 -CAAAATCGCAACGCGATTTT
*
142437 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
142453 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:142484 original size:20 final size:20
Alignment explanation
Indices: 142439--142665 Score: 198
Period size: 20 Copynumber: 11.5 Consensus size: 20
142429 ACGAATATGA
* *
142439 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
142459 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
142479 ATATCGC-ACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
142498 -AATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
142517 ATATC-CAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
142536 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
142556 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
142576 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
142596 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
142616 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
142636 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
142656 AAATCACAAC
1 AAATCGCAAC
142666 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.03
19 39 0.22
20 129 0.74
21 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:142594 original size:60 final size:60
Alignment explanation
Indices: 142439--142665 Score: 237
Period size: 60 Copynumber: 3.8 Consensus size: 60
142429 ACGAATATGA
* * * * * * *
142439 AAATCGCAACGCGAA-CACATAAATCGCAACGTGTATCCGTATATCGC-ACGCGTATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGT
* * * * * * *
142498 -AATCGCAATGCGTATCCGTATATC-CAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGT
* * *
142556 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGT
* * *
142616 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAAC
142666 ACTGAAATTT
Statistics
Matches: 140, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
57 19 0.14
58 27 0.19
59 20 0.14
60 74 0.53
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGT
Found at i:143384 original size:24 final size:24
Alignment explanation
Indices: 143345--143391 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
143335 AAATTTGGTC
143345 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
143369 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
143392 GTGTTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:145885 original size:19 final size:19
Alignment explanation
Indices: 145845--145940 Score: 125
Period size: 18 Copynumber: 5.4 Consensus size: 19
145835 GATTCTCTCG
145845 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
145865 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
145884 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
145898 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
145916 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
145934 TTGCGAT
1 TTGCGAT
145941 AGTCAATTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 8 0.12
17 3 0.04
18 19 0.28
19 15 0.22
20 15 0.22
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:145893 original size:53 final size:50
Alignment explanation
Indices: 145826--145940 Score: 203
Period size: 53 Copynumber: 2.2 Consensus size: 50
145816 GAAATGAAAA
145826 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCA-T
145879 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCAT
1 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCAT
145929 TCGCATTGCGAT
1 TCGCATTGCGAT
145941 AGTCAATTCT
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 13 0.21
51 16 0.26
52 8 0.13
53 25 0.40
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (50 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCGATTTTCAT
Found at i:146051 original size:33 final size:33
Alignment explanation
Indices: 145999--146159 Score: 157
Period size: 33 Copynumber: 4.7 Consensus size: 33
145989 CCATTACATT
145999 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
146033 TCGCAATGCGAAATGAAAATCGCAATGTGAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAA--CG-A-GAGAA
* * * * *
146070 TCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AA
1 TCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAA
146103 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
146136 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
146160 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 52 0.50
34 10 0.10
35 1 0.01
36 2 0.02
37 15 0.14
38 6 0.06
39 5 0.05
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:146140 original size:52 final size:52
Alignment explanation
Indices: 145999--146165 Score: 291
Period size: 52 Copynumber: 3.2 Consensus size: 52
145989 CCATTACATT
145999 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
146052 TCGCAATGTG-AATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
146103 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
146155 TCGCATTGCGA
1 TCGCAATGCGA
146166 TTCTCCCATT
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 50 0.46
52 51 0.47
53 8 0.07
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:146214 original size:19 final size:19
Alignment explanation
Indices: 146172--146271 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
146162 GCGATTCTCC
*
146172 CATTACGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
146192 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
146211 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
146227 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
146244 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
146263 CATTGCGAT
1 CATTGCGAT
146272 AGTCAATTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.50
20 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:146268 original size:52 final size:53
Alignment explanation
Indices: 146155--146271 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
146145 GAAATTAAAA
146155 TCGCATTGCGATTCTCCCATTACGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTACGATTTTCATTTCCGCATTGCGATTTTCATT
* * *
146208 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTACGATTTTCATTTCCGCATTGCGATTTTCATT
146260 TCGCATTGCGAT
1 TCGCATTGCGAT
146272 AGTCAATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 30 0.49
53 31 0.51
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTACGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:146395 original size:14 final size:14
Alignment explanation
Indices: 146376--146412 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
146366 CATCAATTAC
146376 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
146390 ACAAATCATCTTTT
1 ACAAATCAACTTTT
146404 ACAAATCAA
1 ACAAATCAA
146413 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:148389 original size:33 final size:33
Alignment explanation
Indices: 148343--148435 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
148333 GCGAAACCAA
*
148343 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
148376 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
148409 AATCTCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
148436 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:148400 original size:19 final size:19
Alignment explanation
Indices: 148306--148440 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
148296 TAGTTTACTT
* *
148306 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
148326 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
148345 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
148364 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
148378 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
148397 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
148411 TCTCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
148430 TCGCAATGCGA
1 TCGCAACGCGA
148441 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:148458 original size:19 final size:19
Alignment explanation
Indices: 148436--148563 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
148426 AAAATCGCAA
148436 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
148455 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
148469 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
148488 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
148502 TGCGA-TTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
148520 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
148539 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
148559 TGCGA
1 TGCGA
148564 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 19 0.22
15 1 0.01
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:148478 original size:33 final size:33
Alignment explanation
Indices: 148436--148526 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
148426 AAAATCGCAA
148436 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
148469 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
148502 TGCGA-TTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
148527 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 18 0.33
33 35 0.64
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:148931 original size:90 final size:93
Alignment explanation
Indices: 148605--148979 Score: 674
Period size: 92 Copynumber: 4.1 Consensus size: 93
148595 TTGAATGGAT
148605 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
148670 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
148698 AAATTTACTTTCAACCAAAA-ACACAAAC-AAGACAAATACTATTTCACAGTGTTATAGAATACA
1 AAATTTACTTTCAACCAAAAGACA-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA
148761 CAGTTTAGCAGAATTGGCAGCAACCGAAC
65 CAGTTTAGCAGAATTGGCAGCAACCGAAC
148790 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
148853 AGTTTAGCAGAATTGGCAGCAACCGAA-
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
148880 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-ACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
148943 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
148971 AAATTTACT
1 AAATTTACT
148980 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 2, Indels: 14
0.94 0.01 0.05
Matches are distributed among these distances:
88 7 0.03
89 2 0.01
90 79 0.29
91 53 0.19
92 90 0.33
93 43 0.16
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:148969 original size:181 final size:184
Alignment explanation
Indices: 148605--148979 Score: 670
Period size: 181 Copynumber: 2.0 Consensus size: 184
148595 TTGAATGGAT
148605 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
148670 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAACACAAACAAGACAAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAACACAAACAAGACAAAT
*
148735 ACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
148790 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
148854 GTTTAGCAGAATTGGCAGCAACCGAA-AAATTTACTTTCAACCAAAAGACA-AAACAAAGAC-AA
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAA-ACACAAAC-AAGACAAA
*
148916 -ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
129 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
148971 AAATTTACT
1 AAATTTACT
148980 AAGCAATCTA
Statistics
Matches: 186, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
181 62 0.33
182 26 0.14
183 53 0.28
185 45 0.24
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (184 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAACACAAACAAGACAAATA
CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:150692 original size:14 final size:14
Alignment explanation
Indices: 150673--150760 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
150663 TTGAAATGAA
150673 AATCGCAACGAGAG
1 AATCGCAACGAGAG
150687 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
150704 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
150720 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
150739 AATCGCAACGAGAG
1 AATCGCAACGAGAG
150753 AATCGCAA
1 AATCGCAA
150761 TGCGATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
14 26 0.42
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:150710 original size:33 final size:33
Alignment explanation
Indices: 150665--150765 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
150655 TCTTTTGGTT
150665 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
150698 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
150731 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
150764 GA
1 GA
150766 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:150711 original size:19 final size:18
Alignment explanation
Indices: 150672--150753 Score: 72
Period size: 19 Copynumber: 4.9 Consensus size: 18
150662 GTTGAAATGA
150672 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
150687 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
150704 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
150720 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
150737 AAAATCGCAACGAGAGA
1 -AAATCGCAACGCGAGA
150754 ATCGCAATGC
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.30
16 10 0.19
17 7 0.13
19 21 0.39
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:150796 original size:14 final size:14
Alignment explanation
Indices: 150777--150830 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
150767 TTTGGTTTCG
150777 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
150791 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
150810 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
150824 CGTTGCG
1 CGTTGCG
150831 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:150809 original size:33 final size:33
Alignment explanation
Indices: 150761--150841 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
150751 AGAATCGCAA
**
150761 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
150794 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
150827 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
150842 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:150864 original size:20 final size:21
Alignment explanation
Indices: 150817--150872 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
150807 TCGCGTTGCG
**
150817 ATTCTCTCGTTGCG-CTTTTC
1 ATTCTCTCGTTGCGACTAGTC
150837 ATTTCTCTCGTTGCGAC-AGTC
1 A-TTCTCTCGTTGCGACTAGTC
150858 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
150873 TTTCATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
21 16 0.50
22 1 0.03
ACGTcount: A:0.11, C:0.29, G:0.18, T:0.43
Consensus pattern (21 bp):
ATTCTCTCGTTGCGACTAGTC
Found at i:150885 original size:20 final size:20
Alignment explanation
Indices: 150818--150893 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
150808 CGCGTTGCGA
*
150818 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCG-ATTTCAT
**
150839 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGA-TTTCAT
150859 TTCTCTCGTTGCGATTTCAT
1 TTCTCTCGTTGCGATTTCAT
*
150879 TTATCTCGTTGCGAT
1 TTCTCTCGTTGCGAT
150894 CTTCTGCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
19 3 0.06
20 28 0.60
21 16 0.34
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (20 bp):
TTCTCTCGTTGCGATTTCAT
Found at i:151018 original size:33 final size:33
Alignment explanation
Indices: 150971--151041 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
150961 AATACTAACT
* *
150971 TGAAAATCGGAACGAGAGAATAACAACGCGAAA
1 TGAAAATCGCAACGACAGAATAACAACGCGAAA
***
151004 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAACAACGCGAAA
151037 TGAAA
1 TGAAA
151042 TCTAAGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAACAACGCGAAA
Found at i:151439 original size:20 final size:20
Alignment explanation
Indices: 151414--151607 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
151404 CTTTAAATAT
151414 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
151434 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
151456 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
151475 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
151495 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
151515 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
151535 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
151555 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
151575 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
151595 CGCGTTGCGATTT
1 CGCGTTGCGATTT
151608 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:151601 original size:60 final size:60
Alignment explanation
Indices: 151414--151607 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
151404 CTTTAAATAT
**
151414 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
151475 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
151535 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
151595 CGCGTTGCGATTT
1 CGCGTTGCGATTT
151608 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:151608 original size:20 final size:20
Alignment explanation
Indices: 151555--151649 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
151545 TTTACGGATA
* *
151555 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
151575 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
151595 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
151616 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
151636 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
151650 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:151624 original size:21 final size:21
Alignment explanation
Indices: 151594--151717 Score: 108
Period size: 21 Copynumber: 6.0 Consensus size: 21
151584 ATTTTCATAT
*
151594 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
151615 TCGCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
151635 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
151656 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
151677 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
151698 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
151718 CTGATTTGCG
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 16 0.21
21 59 0.77
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:151633 original size:41 final size:41
Alignment explanation
Indices: 151580--151691 Score: 174
Period size: 41 Copynumber: 2.7 Consensus size: 41
151570 GTGTTCGCGT
151580 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
151621 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
*
151662 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
151692 CAAGAATCGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
41 45 0.67
42 19 0.28
43 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
Found at i:162973 original size:198 final size:201
Alignment explanation
Indices: 162635--163036 Score: 783
Period size: 198 Copynumber: 2.0 Consensus size: 201
162625 AAATTATTTC
162635 AAATTGAGCTTTTTTCCGGGTTCAACATCATAATTAAAGTACAAGCACCGAAAGGATACAAAACA
1 AAATTGAGCTTTTTTCCGGGTTCAACATCATAATTAAAGTACAAGCACCGAAAGGATACAAAACA
162700 ATAAAGCGATCAAGAGAATTTGAATAAGGCTTCTCTTAAAACGTCCATGCAATTTCAAACAAATT
66 ATAAAGCGATCAAGAGAATTTGAATAAGGCTTCTCTTAAAACGTCCATGCAATTTCAAACAAATT
162765 TTATTTCAGC-T-TCATTAGAGTATGCACATTGTACGGCTACGAA-TTTTTCTCCAGAAGATTTG
131 TTATTTCAGCTTATCATTAGAGTATGCACATTGTACGGCTACGAATTTTTTCTCCAGAAGATTTG
162827 AAGAAG
196 AAGAAG
162833 AAATTGAGCTTTTTTCCGGGTTCAACATCATAATTAAAGTACAAGCACCGAAAGGATACAAAACA
1 AAATTGAGCTTTTTTCCGGGTTCAACATCATAATTAAAGTACAAGCACCGAAAGGATACAAAACA
162898 ATAAAGCGATCAAGAGAATTTGAATAAGGCTTCTCTTAAAACGTCCATGCAATTTCAAACAAATT
66 ATAAAGCGATCAAGAGAATTTGAATAAGGCTTCTCTTAAAACGTCCATGCAATTTCAAACAAATT
162963 TTATTTCAGCTTATCATTAGAGTATGCACATTGTACGGCTACGAATTTTTTCTCCAGAAGATTTG
131 TTATTTCAGCTTATCATTAGAGTATGCACATTGTACGGCTACGAATTTTTTCTCCAGAAGATTTG
163028 AAGAAG
196 AAGAAG
163034 AAA
1 AAA
163037 AAATCAGAGG
Statistics
Matches: 201, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
198 140 0.70
199 1 0.00
200 32 0.16
201 28 0.14
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (201 bp):
AAATTGAGCTTTTTTCCGGGTTCAACATCATAATTAAAGTACAAGCACCGAAAGGATACAAAACA
ATAAAGCGATCAAGAGAATTTGAATAAGGCTTCTCTTAAAACGTCCATGCAATTTCAAACAAATT
TTATTTCAGCTTATCATTAGAGTATGCACATTGTACGGCTACGAATTTTTTCTCCAGAAGATTTG
AAGAAG
Found at i:165386 original size:12 final size:12
Alignment explanation
Indices: 165349--165391 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
165339 TATTTTTAAG
165349 CTCGTTTATCAA
1 CTCGTTTATCAA
*
165361 CCCGTTTATCAA
1 CTCGTTTATCAA
*
165373 CTCGTTTATAAA
1 CTCGTTTATCAA
*
165385 CTTGTTT
1 CTCGTTT
165392 TCTCGGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (12 bp):
CTCGTTTATCAA
Found at i:165928 original size:31 final size:31
Alignment explanation
Indices: 165853--165928 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
165843 TCAAAAAATA
* * *
165853 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATGTGGTCACTTTAGTTTTTATTTAAT
* * * *
165884 GAAAATGTTGTCACTTTAGTTTTTATTTATT
1 TAAGATGTGGTCACTTTAGTTTTTATTTAAT
165915 TAAGATGTGGTCAC
1 TAAGATGTGGTCAC
165929 CCCAAGTTAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (31 bp):
TAAGATGTGGTCACTTTAGTTTTTATTTAAT
Found at i:166395 original size:39 final size:39
Alignment explanation
Indices: 166322--166427 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 39
166312 TATAACCCTC
* * * *
166322 AAATTATTTCAC-TATAACATTTTAAAATCCTAATTTCTT
1 AAATTATTTCACAT-TAACGTTCTAAATTCTTAATTTCTT
166361 -AA-TATTTGACACCA-TAACGTTCTAAATTCTTAATTTCTT
1 AAATTATTT--CA-CATTAACGTTCTAAATTCTTAATTTCTT
166400 AAATTATTTCACATTAACGTTCTAAATT
1 AAATTATTTCACATTAACGTTCTAAATT
166428 ATTTTTAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
37 5 0.09
38 4 0.07
39 39 0.70
40 3 0.05
41 5 0.09
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (39 bp):
AAATTATTTCACATTAACGTTCTAAATTCTTAATTTCTT
Found at i:166713 original size:25 final size:26
Alignment explanation
Indices: 166680--166793 Score: 80
Period size: 25 Copynumber: 4.4 Consensus size: 26
166670 ATATATTAAC
166680 TTAAA-ATATTTTTATATTAACTTA-
1 TTAAATATATTTTTATATTAACTTAT
166704 TTAAATATA-TTTTATTATTAACTTAAT
1 TTAAATATATTTTTA-TATTAACTT-AT
*
166731 TTAAA-ATATTATATTATATT--TTTAT
1 TTAAATATATT-T-TTATATTAACTTAT
* * *
166756 TTAAAAATATATAATTTATTTTAATTTA-
1 TT--AAATATAT-TTTTATATTAACTTAT
166784 TTAAATATAT
1 TTAAATATAT
166794 GACTAAATTG
Statistics
Matches: 74, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
24 10 0.14
25 16 0.22
26 14 0.19
27 15 0.20
28 12 0.16
29 7 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAAATATATTTTTATATTAACTTAT
Found at i:166789 original size:26 final size:26
Alignment explanation
Indices: 166690--166793 Score: 81
Period size: 26 Copynumber: 3.9 Consensus size: 26
166680 TTAAAATATT
* *
166690 TTTATATTAACTTATTAAATATAT--
1 TTTATTTTAATTTATTAAATATATAA
*
166714 TTTATTATTAACTTAATTTAAA-ATATTATA
1 TTTATT-TTAA-TTTA-TTAAATATA-TA-A
* *
166744 TTATATTTTTATTTA-AAAATATATAA
1 TT-TATTTTAATTTATTAAATATATAA
166770 TTTATTTTAATTTATTAAATATAT
1 TTTATTTTAATTTATTAAATATAT
166794 GACTAAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
24 5 0.08
25 15 0.24
26 16 0.26
27 11 0.18
28 3 0.05
29 3 0.05
30 5 0.08
31 4 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTATTTTAATTTATTAAATATATAA
Found at i:169681 original size:6 final size:6
Alignment explanation
Indices: 169672--169697 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
169662 AATAATAATA
169672 ATGTAT ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT
169698 AAAATATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:175057 original size:53 final size:53
Alignment explanation
Indices: 174977--175079 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
174967 CAACCATTAT
174977 TTACCTCGTGGAATACAAGGCTGTTCTTATTTAATTCAGTTTAGAATAATATG
1 TTACCTCGTGGAATACAAGGCTGTTCTTATTTAATTCAGTTTAGAATAATATG
*
175030 TTACCTTGTGGAATACAAGGCTGTTCTTATTTAATTCAGTTTAGAATAAT
1 TTACCTCGTGGAATACAAGGCTGTTCTTATTTAATTCAGTTTAGAATAAT
175080 CTTTTGATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (53 bp):
TTACCTCGTGGAATACAAGGCTGTTCTTATTTAATTCAGTTTAGAATAATATG
Found at i:185666 original size:2 final size:2
Alignment explanation
Indices: 185661--185687 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
185651 TCCTTTGGTA
185661 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
185688 TTGGTTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:188853 original size:110 final size:110
Alignment explanation
Indices: 188661--188883 Score: 385
Period size: 110 Copynumber: 2.0 Consensus size: 110
188651 GTTTGTGACT
*
188661 GGTTAATATTAATAATCTAAGTAGTTTTTAATTTAGCGAGATAAAAATATGCAGGGGTGTGGTGT
1 GGTTAATATTAATAATCTAAGTAGTTTTTAATTTAGCGAGATAAAAATATGCAGGAGTGTGGTGT
188726 CCAGTAGAATTACTGGTCCAAGACTACAGTGGTATTTAAGT-AAG
66 CCAGTAGAATTACTGGTCCAAGACTACAGTGGTATTTAAGTAAAG
* * *
188770 GGTTAATATTAATAATTTAAGTAATTTTTTAATTTAGCGAGATAAAAATATGTAGGAGTGTGGTG
1 GGTTAATATTAATAATCTAAGT-AGTTTTTAATTTAGCGAGATAAAAATATGCAGGAGTGTGGTG
*
188835 TCCAGTAGAATTACTGGTCCAAGACTATAGTGGTATTTAAGTAAAG
65 TCCAGTAGAATTACTGGTCCAAGACTACAGTGGTATTTAAGTAAAG
188881 GGT
1 GGT
188884 AAATTATGAG
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 21 0.20
110 80 0.75
111 6 0.06
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (110 bp):
GGTTAATATTAATAATCTAAGTAGTTTTTAATTTAGCGAGATAAAAATATGCAGGAGTGTGGTGT
CCAGTAGAATTACTGGTCCAAGACTACAGTGGTATTTAAGTAAAG
Found at i:189460 original size:24 final size:24
Alignment explanation
Indices: 189403--189460 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
189393 AATATTAGAT
*
189403 ATAATTTTAAAAAAATTAAAAATTT
1 ATAA-TTTAAAAAAATTAAAAATTA
189428 A-AATATTAAAATAAATT-AAAATTA
1 ATAAT-TTAAAA-AAATTAAAAATTA
189452 ATAATTTAA
1 ATAATTTAA
189461 GTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.03
24 19 0.66
25 9 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATTTAAAAAAATTAAAAATTA
Found at i:192859 original size:21 final size:21
Alignment explanation
Indices: 192835--192881 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
192825 TTAAAAATTG
*
192835 TTTTATTT-TAAAATATTTTAA
1 TTTT-TTTATAAAATATTTAAA
192856 TTTTTTTAATAAAATATTTAAA
1 TTTTTTT-ATAAAATATTTAAA
192878 TTTT
1 TTTT
192882 GTATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 4 0.17
22 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTTATAAAATATTTAAA
Found at i:204138 original size:28 final size:28
Alignment explanation
Indices: 204106--204163 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
204096 GTCATTTGAC
204106 GCGATTAATATTTAGGAAAAGTTACTAT
1 GCGATTAATATTTAGGAAAAGTTACTAT
204134 GCGATTAATATTTAGGAAAAGTTACTAT
1 GCGATTAATATTTAGGAAAAGTTACTAT
204162 GC
1 GC
204164 AGCGTAAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (28 bp):
GCGATTAATATTTAGGAAAAGTTACTAT
Found at i:216124 original size:24 final size:24
Alignment explanation
Indices: 216097--216147 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
216087 TCGTTGCCGG
216097 GGATATGTGTCATAATCAGTACAA
1 GGATATGTGTCATAATCAGTACAA
216121 GGATATGTGTCATAATCAGTACAA
1 GGATATGTGTCATAATCAGTACAA
216145 GGA
1 GGA
216148 AATATTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (24 bp):
GGATATGTGTCATAATCAGTACAA
Found at i:217231 original size:40 final size:40
Alignment explanation
Indices: 217171--217261 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
217161 TGGCATTACT
* *
217171 AGTTTCTGCGGTAAGAAAATCGTTTTCATTTACCACCAAC
1 AGTTTATGCGGTAAGAAAATCATTTTCATTTACCACCAAC
* * *
217211 AGTTTTTGCGGTAGGTAAATCATTTTCATTTACCACCAAC
1 AGTTTATGCGGTAAGAAAATCATTTTCATTTACCACCAAC
217251 AGTTTATGCGG
1 AGTTTATGCGG
217262 CACAAACTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
AGTTTATGCGGTAAGAAAATCATTTTCATTTACCACCAAC
Found at i:224216 original size:2 final size:2
Alignment explanation
Indices: 224209--224337 Score: 158
Period size: 2 Copynumber: 66.0 Consensus size: 2
224199 TGATTACTTC
224209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
224251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
224291 CT A- AT AA AT AA AT AA AT AA AT -T AT AT TT CAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
224332 AT AT AT
1 AT AT AT
224338 TAAATTTTAG
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
1 4 0.04
2 104 0.95
3 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:229429 original size:15 final size:15
Alignment explanation
Indices: 229409--229437 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
229399 ACATGGACTC
229409 AGCTCACCATGTCAG
1 AGCTCACCATGTCAG
229424 AGCTCACCATGTCA
1 AGCTCACCATGTCA
229438 TCCGTGGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (15 bp):
AGCTCACCATGTCAG
Found at i:238633 original size:2 final size:2
Alignment explanation
Indices: 238626--238706 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
238616 GTTTTTGTTT
238626 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
238668 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
238707 TTTACTAAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 75 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:242669 original size:106 final size:106
Alignment explanation
Indices: 242537--243798 Score: 2037
Period size: 106 Copynumber: 11.9 Consensus size: 106
242527 TCCAATTTCA
* * * * * *
242537 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
242602 CGACGAAGGGACCGCTGGTTGTTAATAAACAATTTTCCACT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
242643 TTTAGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
242708 TGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
242749 TTTAGAGCCAATTTCAACTTCA-AGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
242813 CGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
242854 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCCAGACAATGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
242919 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
242960 TTCAGAGTCAATTTCAACTTCACA-CGAA-GATATTGGACTCCAGGCAACGCAAGTTCAACTT-A
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
243022 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
243063 TTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
243128 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
243169 TTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
243234 CGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
**
243275 TTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
243340 CGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * * *
243381 TTCAAAGCCAATTTCAACTTCACAGCGAAAGATAATGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
243446 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
*
243487 TTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
243552 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
243593 TTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
243658 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * * *
243699 TTCAGAGTCAATTTCAACTTCATAGCGAAGGATATCGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
243764 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
243799 TCAACTTCAC
Statistics
Matches: 1071, Mismatches: 81, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
103 63 0.06
104 33 0.03
105 135 0.13
106 840 0.78
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
Found at i:244226 original size:84 final size:83
Alignment explanation
Indices: 244015--244399 Score: 402
Period size: 84 Copynumber: 4.7 Consensus size: 83
244005 GCCAAAAAAA
* * * * **
244015 AAAGACATTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAATCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAGCATAACTTAAGGCG
* *
244079 AGAAGGATTGTCTG-C--C
65 AGAAGGGTTATCTGCCAAC
* * * * * * *
244095 AAAGACC-CCGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTACAGCATAACTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGGCG
*
244159 AAAAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTGCCAAC
* *
244178 TAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGGCT
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCG
* *
244243 AGAAGGGTTATCTGTCACC
65 AGAAGGGTTATCTGCCAAC
* * * *** *
244262 AAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCGGCATAACGCCAGGCT
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCG
*
244327 AGGAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTGCCAAC
* * * **
244346 AAAGATCTTCAAGTTCGACTACGCTCATCTCTTAGGCACATCATTTACAGCATA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA
244400 GCCCCAGGCA
Statistics
Matches: 253, Mismatches: 45, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
79 17 0.07
80 44 0.17
81 2 0.01
83 47 0.19
84 125 0.49
85 18 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCGA
GAAGGGTTATCTGCCAAC
Done.