Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003823.1 Hibiscus syriacus cultivar Beakdansim tig00008198_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: 191471
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:297 original size:14 final size:14
Alignment explanation
Indices: 275--304 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
265 ATATATTTAT
*
275 TTTACAATTTATTA
1 TTTAAAATTTATTA
289 TTTAAAATTTATTA
1 TTTAAAATTTATTA
303 TT
1 TT
305 ATTTCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAAATTTATTA
Found at i:1170 original size:16 final size:16
Alignment explanation
Indices: 1140--1169 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1130 AAAAAGTGGG
1140 AAAATAAAGATAAAAC
1 AAAATAAAGATAAAAC
1156 AAAATAAA-ATAAAA
1 AAAATAAAGATAAAA
1170 AGGGGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAATAAAGATAAAAC
Found at i:1254 original size:18 final size:18
Alignment explanation
Indices: 1233--1275 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1223 GTTGTTTTTA
*
1233 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
1251 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
1269 AAATAAA
1 AAATAAA
1276 TAATCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:7601 original size:2 final size:2
Alignment explanation
Indices: 7594--7646 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
7584 TAAGCTTCAT
7594 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
7636 TA TA TA TA TA T
1 TA TA TA TA TA T
7647 GTGTGTGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7976 original size:11 final size:11
Alignment explanation
Indices: 7960--7984 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7950 TTTTAAGAGA
7960 TTTATTATTAT
1 TTTATTATTAT
7971 TTTATTATTAT
1 TTTATTATTAT
7982 TTT
1 TTT
7985 TAAGGTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:11646 original size:18 final size:17
Alignment explanation
Indices: 11623--11662 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11613 TAAATTTCTC
*
11623 TAAAAACCATTTTTCCTT
1 TAAAAACCA-ATTTCCTT
11641 TAAAAACCAATTTCCTT
1 TAAAAACCAATTTCCTT
11658 TAAAA
1 TAAAA
11663 TAATATAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAACCAATTTCCTT
Found at i:11897 original size:3 final size:3
Alignment explanation
Indices: 11889--11938 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11879 ATCTTCTGAA
11889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11937 AA
1 AA
11939 AAGTATAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12073 original size:14 final size:13
Alignment explanation
Indices: 12031--12076 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
12021 TTAATTATTA
12031 ATAAAAAT-G-AT
1 ATAAAAATCGTAT
*
12042 AAAAAAATCGTAT
1 ATAAAAATCGTAT
*
12055 ATAAAATTCGTAT
1 ATAAAAATCGTAT
12068 ATTAAAAAT
1 A-TAAAAAT
12077 AACTTTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 7 0.25
12 1 0.04
13 14 0.50
14 6 0.21
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (13 bp):
ATAAAAATCGTAT
Found at i:12348 original size:18 final size:17
Alignment explanation
Indices: 12325--12364 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
12315 TAAATTTCTC
*
12325 TAAAAACCAGTTTTCCTT
1 TAAAAACCA-ATTTCCTT
12343 TAAAAACCAATTTCCTT
1 TAAAAACCAATTTCCTT
12360 TAAAA
1 TAAAA
12365 TAATATAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAAAACCAATTTCCTT
Found at i:12593 original size:3 final size:3
Alignment explanation
Indices: 12587--12617 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12577 ATCTTCTTAA
12587 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12618 ATTATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12610 original size:14 final size:14
Alignment explanation
Indices: 12591--12617 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12581 TCTTAAAATA
12591 ATAATAATAATAAT
1 ATAATAATAATAAT
12605 ATAATAATAATAA
1 ATAATAATAATAA
12618 ATTATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:12750 original size:14 final size:13
Alignment explanation
Indices: 12708--12753 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
12698 TTAATTATTA
12708 ATAAAAAT-G-AT
1 ATAAAAATCGTAT
*
12719 AAAAAAATCGTAT
1 ATAAAAATCGTAT
*
12732 ATAAAATTCGTAT
1 ATAAAAATCGTAT
12745 ATTAAAAAT
1 A-TAAAAAT
12754 AATTTTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 7 0.25
12 1 0.04
13 14 0.50
14 6 0.21
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (13 bp):
ATAAAAATCGTAT
Found at i:15193 original size:19 final size:19
Alignment explanation
Indices: 15171--15221 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
15161 AAATTAAGAA
15171 TTTGAAAATTTATTAAAAT
1 TTTGAAAATTTATTAAAAT
* *
15190 TTTGAAAAACTAATTAAAAT
1 TTTG-AAAATTTATTAAAAT
15210 TTAT-AAAATTTA
1 TT-TGAAAATTTA
15222 AAGTATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 10 0.38
20 15 0.58
21 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
TTTGAAAATTTATTAAAAT
Found at i:36232 original size:9 final size:8
Alignment explanation
Indices: 36203--36231 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
36193 TCGTCATCAT
36203 TTTTTTCA
1 TTTTTTCA
36211 -TTTTTCA
1 TTTTTTCA
36218 TTTTTTCA
1 TTTTTTCA
36226 TTTTTT
1 TTTTTT
36232 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:46024 original size:16 final size:16
Alignment explanation
Indices: 46003--46036 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45993 GTGTACATGG
46003 TGCAGCCACCAGGGTT
1 TGCAGCCACCAGGGTT
46019 TGCAGCCACCAGGGTT
1 TGCAGCCACCAGGGTT
46035 TG
1 TG
46037 AACAAGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (16 bp):
TGCAGCCACCAGGGTT
Found at i:47714 original size:16 final size:16
Alignment explanation
Indices: 47693--47725 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47683 ATAGATTCAG
47693 GAGCAATATCTGATGA
1 GAGCAATATCTGATGA
47709 GAGCAATATCTGATGA
1 GAGCAATATCTGATGA
47725 G
1 G
47726 TTTTAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (16 bp):
GAGCAATATCTGATGA
Found at i:48382 original size:47 final size:48
Alignment explanation
Indices: 48293--48389 Score: 124
Period size: 47 Copynumber: 2.0 Consensus size: 48
48283 ATCATAACTT
* * *
48293 AAAAATTAATAAAATATTGTATTCAGCTTGTTCACATGAAGTCAAGATTA
1 AAAAATAAATAAAATA-T-TATTCAACTTGTTCACATAAAGTCAAGATTA
* *
48343 AAAAATAAATAAAATA-TATTCAATTTGTTCACTTAAAGTCAAGATTA
1 AAAAATAAATAAAATATTATTCAACTTGTTCACATAAAGTCAAGATTA
48390 TATTAGTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 27 0.64
50 15 0.36
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (48 bp):
AAAAATAAATAAAATATTATTCAACTTGTTCACATAAAGTCAAGATTA
Found at i:48497 original size:24 final size:21
Alignment explanation
Indices: 48450--48499 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
48440 TTAAATAAAA
48450 AATAATATCAAATTATTATTT
1 AATAATATCAAATTATTATTT
48471 AATAATATCAAATTATTATTT
1 AATAATATCAAATTATTATTT
48492 AATAATAT
1 AATAATAT
48500 ATAAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAATATCAAATTATTATTT
Found at i:48509 original size:21 final size:21
Alignment explanation
Indices: 48450--48509 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
48440 TTAAATAAAA
**
48450 AATAATATCAAATTATTATTT
1 AATAATATCAAAAAATTATTT
**
48471 AATAATATCAAATTATTATTT
1 AATAATATCAAAAAATTATTT
48492 AATAATAT-ATAAAAATTA
1 AATAATATCA-AAAAATTA
48510 ATTGTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATATCAAAAAATTATTT
Found at i:48845 original size:112 final size:112
Alignment explanation
Indices: 48720--48943 Score: 333
Period size: 112 Copynumber: 2.0 Consensus size: 112
48710 AAATAAGTAC
* * *
48720 TTAAAGAATGTCTCGAAAAATGATTTT-GTGCCAAAATAATTTTTCGTTAAAAATAAATGTTTAA
1 TTAAAGAACGTCTCGAAAAAAG-TTTTAGTGCCAAAATAATTTTTCGTTAAAAATAAATGTCTAA
* *
48784 AGTTTTCTTCATTACAGTTTTACATGCCCACCGTTAAAAATTATCGTT
65 AATTTTCTTCATTACAGTTTTACATGCCCACCGTTAAAAATTACCGTT
** *
48832 TTAAAGAACGTCTCGAAAAAAGTTTTAGTGTTAAAATAATTTTTCGTTAAAAATAAGTGTCTAAA
1 TTAAAGAACGTCTCGAAAAAAGTTTTAGTGCCAAAATAATTTTTCGTTAAAAATAAATGTCTAAA
* * *
48897 ATTTTCTTCATTACAGTTTTACGTGTCCACCGTTAAAACTTACCGTT
66 ATTTTCTTCATTACAGTTTTACATGCCCACCGTTAAAAATTACCGTT
48944 AAGTTTTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 4 0.04
112 96 0.96
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (112 bp):
TTAAAGAACGTCTCGAAAAAAGTTTTAGTGCCAAAATAATTTTTCGTTAAAAATAAATGTCTAAA
ATTTTCTTCATTACAGTTTTACATGCCCACCGTTAAAAATTACCGTT
Found at i:58416 original size:2 final size:2
Alignment explanation
Indices: 58409--58489 Score: 50
Period size: 2 Copynumber: 43.0 Consensus size: 2
58399 ACTAAATGTA
* * *
58409 AT AT AT AT AT AT AT A- AT AC A- AT AT AT GT ACT AT GAT AT -T AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT
* *
58450 A- AT AT AA AT AT AT AT AT AT A- AT AT -T AT A- AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58488 AT
1 AT
58490 GACAAATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
1 7 0.11
2 51 0.82
3 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:58473 original size:27 final size:28
Alignment explanation
Indices: 58428--58482 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
58418 TATATAATAC
* *
58428 AATATATGTACTATGATATTAGAATATA
1 AATATATATACTATAATATTAGAATATA
*
58456 AATATATATA-TATAATATTATAATATA
1 AATATATATACTATAATATTAGAATATA
58483 TAAATATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (28 bp):
AATATATATACTATAATATTAGAATATA
Found at i:58772 original size:2 final size:2
Alignment explanation
Indices: 58765--58790 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58755 TTTTTGGTTT
58765 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
58791 TTCAACTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59586 original size:79 final size:79
Alignment explanation
Indices: 59455--59619 Score: 330
Period size: 79 Copynumber: 2.1 Consensus size: 79
59445 CCCCAAAGTA
59455 TTTTGGGTTAATTGAGCCCCTATTAGTTGGGCCTCTTTTTGGGTTGTACCGGTTGGGCCACTGAC
1 TTTTGGGTTAATTGAGCCCCTATTAGTTGGGCCTCTTTTTGGGTTGTACCGGTTGGGCCACTGAC
59520 CCGTTTGCAATTGC
66 CCGTTTGCAATTGC
59534 TTTTGGGTTAATTGAGCCCCTATTAGTTGGGCCTCTTTTTGGGTTGTACCGGTTGGGCCACTGAC
1 TTTTGGGTTAATTGAGCCCCTATTAGTTGGGCCTCTTTTTGGGTTGTACCGGTTGGGCCACTGAC
59599 CCGTTTGCAATTGC
66 CCGTTTGCAATTGC
59613 TTTTGGG
1 TTTTGGG
59620 CTACTATGTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 86 1.00
ACGTcount: A:0.12, C:0.21, G:0.28, T:0.39
Consensus pattern (79 bp):
TTTTGGGTTAATTGAGCCCCTATTAGTTGGGCCTCTTTTTGGGTTGTACCGGTTGGGCCACTGAC
CCGTTTGCAATTGC
Found at i:61745 original size:38 final size:37
Alignment explanation
Indices: 61654--61775 Score: 155
Period size: 33 Copynumber: 3.4 Consensus size: 37
61644 TTTTCACCCT
*
61654 AAACCCGAACCCGACCCGACCCGAGTATCACACTTAAAA
1 AAACCCG-ACCCGA-CCGACCCGAATATCACACTTAAAA
*
61693 AAACTCGA--C--CCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGACCGACCCGAATATCACACTTAAAA
61726 AAACCCGACCCGACTCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCGAC-CGACCCGAATATCACACTTAAAA
*
61763 AAACCTGACCCGA
1 AAACCCGACCCGA
61776 ACAAAATAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
33 30 0.41
35 1 0.01
36 1 0.01
37 16 0.22
38 20 0.27
39 6 0.08
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.12
Consensus pattern (37 bp):
AAACCCGACCCGACCGACCCGAATATCACACTTAAAA
Found at i:63196 original size:3 final size:3
Alignment explanation
Indices: 63188--63244 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
63178 CATTGGCATA
63188 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
63236 TAT TAT TAT
1 TAT TAT TAT
63245 ATCGGATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:63978 original size:29 final size:29
Alignment explanation
Indices: 63933--63994 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
63923 TCCCCAAGCA
* * *
63933 TAGGTCGCCAAGTACTCCGGGCGACCTTG
1 TAGGTCGCCAAGCACTCCAGGCGACATTG
63962 TAGGTCGCCAAGCACTCCAGGCGACATTG
1 TAGGTCGCCAAGCACTCCAGGCGACATTG
63991 TAGG
1 TAGG
63995 ACACCATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (29 bp):
TAGGTCGCCAAGCACTCCAGGCGACATTG
Found at i:64619 original size:21 final size:21
Alignment explanation
Indices: 64594--64637 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
64584 AATTTAGTTA
64594 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
64615 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
64636 AT
1 AT
64638 ATATTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:65057 original size:14 final size:14
Alignment explanation
Indices: 65038--65064 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65028 GTAAATTATT
65038 ATTTTTTGTTGTTC
1 ATTTTTTGTTGTTC
65052 ATTTTTTGTTGTT
1 ATTTTTTGTTGTT
65065 GTGTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
ATTTTTTGTTGTTC
Found at i:65143 original size:17 final size:17
Alignment explanation
Indices: 65121--65158 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
65111 TTTATTCCCA
65121 TTTAAAAAAATATT-GTG
1 TTTAAAAAAAT-TTAGTG
*
65138 TTTAAAAATATTTAGTG
1 TTTAAAAAAATTTAGTG
65155 TTTA
1 TTTA
65159 TTTTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TTTAAAAAAATTTAGTG
Found at i:68306 original size:21 final size:21
Alignment explanation
Indices: 68276--68386 Score: 64
Period size: 21 Copynumber: 4.9 Consensus size: 21
68266 TGATTAGTAA
*
68276 TAATGAATTTATTATTAATATT
1 TAATG-ATTTATTAGTAATATT
*
68298 TAATGATTTAGTAGTAATGATTAGT
1 TAATGATTTATTAGTAAT-A-T--T
* *
68323 AATAATGATATTATTATTAATAAT
1 --TAATGAT-TTATTAGTAATATT
68347 TAATGATTTGA-TAGTAATGATT
1 TAATGATTT-ATTAGTAAT-ATT
* *
68369 TAAT-AATTATTACTAATA
1 TAATGATTTATTAGTAATA
68387 ATTATGGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
20 2 0.03
21 28 0.40
22 20 0.29
23 1 0.01
24 1 0.01
25 1 0.01
27 8 0.11
28 9 0.13
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (21 bp):
TAATGATTTATTAGTAATATT
Found at i:68318 original size:49 final size:49
Alignment explanation
Indices: 68260--68375 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
68250 TTGTCTGATT
*
68260 TAGTAATGATTAGTAATAATGA-ATTTATTATTAATATTTAATGATTT-A
1 TAGTAATGATTAGTAATAATGATA-TTATTATTAATAATTAATGATTTGA
68308 GTAGTAATGATTAGTAATAATGATATTATTATTAATAATTAATGATTTGA
1 -TAGTAATGATTAGTAATAATGATATTATTATTAATAATTAATGATTTGA
68358 TAGTAATGATT--TAATAAT
1 TAGTAATGATTAGTAATAAT
68376 TATTACTAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
47 7 0.11
49 55 0.86
50 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGATATTATTATTAATAATTAATGATTTGA
Found at i:68320 original size:28 final size:29
Alignment explanation
Indices: 68289--68355 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
68279 TGAATTTATT
*
68289 ATTAATATTTAATGAT-TTAGTAGTAATG
1 ATTAATATTTAATGATATTAGTAGTAATA
* * * *
68317 ATTAGTA-ATAATGATATTATTATTAATA
1 ATTAATATTTAATGATATTAGTAGTAATA
68345 ATTAATGATTT
1 ATTAAT-ATTT
68356 GATAGTAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 7 0.24
28 20 0.69
29 1 0.03
30 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (29 bp):
ATTAATATTTAATGATATTAGTAGTAATA
Found at i:68535 original size:59 final size:57
Alignment explanation
Indices: 68460--68586 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 57
68450 TCGAATTTAT
*
68460 TAATGATTTTTAAATATTTAATGATTTAATACTAATGATT-TAGTAAT-TATTATTAA
1 TAATGATTTTTAAATATTTAATGATTTAATACTAATGATTATAGTAATAAATTA-TAA
* *
68516 TAATGATTTATTAATAATATTTAATTATTTGATACTAATGATTACTAGTAATGAAATTATAA
1 TAATGATTT-TT-A-AATATTTAATGATTTAATACTAATGATTA-TAGTAAT-AAATTATAA
68578 TAATGATTT
1 TAATGATTT
68587 GATACTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
56 9 0.15
57 2 0.03
58 1 0.02
59 26 0.43
61 7 0.11
62 12 0.20
63 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (57 bp):
TAATGATTTTTAAATATTTAATGATTTAATACTAATGATTATAGTAATAAATTATAA
Found at i:68542 original size:14 final size:14
Alignment explanation
Indices: 68478--68538 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
68468 TTTAAATATT
* *
68478 TAATGATTTAATAC
1 TAATGATTTATTAA
*
68492 TAATGATTTAGTAA
1 TAATGATTTATTAA
68506 T--T-A-TTATTAA
1 TAATGATTTATTAA
68516 TAATGATTTATTAA
1 TAATGATTTATTAA
68530 TAAT-ATTTA
1 TAATGATTTA
68539 ATTATTTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.17
11 1 0.03
12 2 0.05
13 6 0.15
14 24 0.60
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (14 bp):
TAATGATTTATTAA
Found at i:70893 original size:22 final size:23
Alignment explanation
Indices: 70865--70914 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
70855 ACAACTATTA
70865 AACTATTCTTTAATAT-AACTTT
1 AACTATTCTTTAATATAAACTTT
*
70887 AACTATTCTTTAATATAAATTTT
1 AACTATTCTTTAATATAAACTTT
70910 AACTA
1 AACTA
70915 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (23 bp):
AACTATTCTTTAATATAAACTTT
Found at i:70951 original size:30 final size:31
Alignment explanation
Indices: 70887--70952 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
70877 ATATAACTTT
* * *
70887 AACTATTCTTTAATATAAATTTTAACTAATA
1 AACTATTCTTTAATATAAACTTAAACTAAAA
70918 AACTATTCTTTAATAT-AACTTAAACTAAAA
1 AACTATTCTTTAATATAAACTTAAACTAAAA
70948 AACTA
1 AACTA
70953 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (31 bp):
AACTATTCTTTAATATAAACTTAAACTAAAA
Found at i:70962 original size:31 final size:31
Alignment explanation
Indices: 70887--70962 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 31
70877 ATATAACTTT
** * * *
70887 AACTATTCTTTAATATAAATTTTAACTAATA
1 AACTATTAATTAATATAAACTTAAACTAAAA
**
70918 AACTATTCTTTAATAT-AACTTAAACTAAAA
1 AACTATTAATTAATATAAACTTAAACTAAAA
70948 AACTAATTAATTAAT
1 AACT-ATTAATTAAT
70963 TTTTATATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 15 0.38
31 24 0.62
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (31 bp):
AACTATTAATTAATATAAACTTAAACTAAAA
Found at i:71062 original size:41 final size:37
Alignment explanation
Indices: 71007--71120 Score: 106
Period size: 41 Copynumber: 2.9 Consensus size: 37
70997 CTTAACTATT
71007 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
* *
71043 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATG
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* *
71086 TAACTAACAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
71121 TTCTATATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
36 8 0.12
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.31
42 3 0.05
43 12 0.19
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:71154 original size:21 final size:21
Alignment explanation
Indices: 71130--71169 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
71120 TTTCTATATG
71130 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
71151 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
71170 ACTAATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:71219 original size:18 final size:19
Alignment explanation
Indices: 71198--71249 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
71188 TGTTTTACCT
71198 TAATTTATAATAATAAACTAA
1 TAATTTATAATAATAAAC--A
*
71219 TAATTTATAACAATAAAC-
1 TAATTTATAATAATAAACA
71237 TAATTTA-AATAAT
1 TAATTTATAATAAT
71250 TATATAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
21 17 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTTATAATAATAAACA
Found at i:71223 original size:21 final size:21
Alignment explanation
Indices: 71198--71240 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
71188 TGTTTTACCT
*
71198 TAATTTATAATAATAAACTAA
1 TAATTTATAACAATAAACTAA
71219 TAATTTATAACAATAAACTAA
1 TAATTTATAACAATAAACTAA
71240 T
1 T
71241 TTAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATTTATAACAATAAACTAA
Found at i:71269 original size:35 final size:35
Alignment explanation
Indices: 71198--71300 Score: 91
Period size: 35 Copynumber: 2.8 Consensus size: 35
71188 TGTTTTACCT
*
71198 TAATTTATAATAATAAACTAATAATTTATAAC-AATAAAC
1 TAATTTA-AATAAT-AA-TAA-AACTTA-AACTAATAAAC
* *
71237 TAATTTAAATAATTATATAACTTAAACTAATAAAC
1 TAATTTAAATAATAATAAAACTTAAACTAATAAAC
* ** *
71272 TATTTTTTATTATAATAAAACTTAAACTA
1 TAATTTAAATAATAATAAAACTTAAACTA
71301 CTAATAAACT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
34 3 0.06
35 35 0.65
36 2 0.04
37 1 0.02
38 6 0.11
39 7 0.13
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (35 bp):
TAATTTAAATAATAATAAAACTTAAACTAATAAAC
Found at i:71386 original size:27 final size:29
Alignment explanation
Indices: 71356--71415 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
71346 ATAACTTTAC
71356 TATTTA-ACTAACT-ACAAACTAATTAAA
1 TATTTAGACTAACTAACAAACTAATTAAA
* *
71383 TA-TTAGACTAACTAACACACTAATTAAT
1 TATTTAGACTAACTAACAAACTAATTAAA
71411 TATTT
1 TATTT
71416 TTTTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 9 0.32
28 14 0.50
29 2 0.07
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TATTTAGACTAACTAACAAACTAATTAAA
Found at i:71425 original size:341 final size:347
Alignment explanation
Indices: 70910--71546 Score: 844
Period size: 341 Copynumber: 1.8 Consensus size: 347
70900 TATAAATTTT
* * *
70910 AACTAATAAACTATTCTTTAATATAACTTAAACTAAAAAACTAATTAATTAATTTTTATATAATA
1 AACTAATAAACTATTCTTTAATATAACTAAAACTAAAAAACTAATAAACTAATTTTTATATAATA
70975 TAAATTCAACAAACAAATATAACTTAACTATTTAACTAACACAAACTAATTACATATTTTTTTAT
66 TAAATTCAACAAACAAATATAACTTAACTATTTAACTAACACAAACTAATTACATA-----TTAT
* * *
71040 ATATAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATGTAACTAACAAACATACTAA
126 ATATAACTAAC-ACTAACAAACTAACTAATTATTTTTATTAATATATAACCAACAAACAAACTAA
* *
71105 TTAAATAATTTTTTATTTCTATATGATAT-AACT-TAAACTAACAATAATATAACTTAAACTAAC
190 TTAAATAATTTTATATTTATATATGATATAAACTATAAACTAACAATAATATAACTTAAACTAAC
**
71168 AAACTAATCAACTAATTTTTTGTTTTACCTTAATTTATAATAATAAACTAATAATTTATAACAAT
255 AAACTAATCAACTAAAATTTTGTTTTACCTTAATTTATAATAATAAACTAATAATTTATAACAAT
71233 AAACTAATTTAAATAATTATATAACTTA
320 AAACTAATTTAAATAATTATATAACTTA
* * **
71261 AACTAATAAACTATTTTTTATTATAA-TAAAACTTAAACTACTAATAAACTAATATTTTATATAA
1 AACTAATAAACTATTCTTTAATATAACTAAAAC-TAAAAAACTAATAAACTAAT-TTTTATATAA
* * * *
71325 TATAAGTTCACCAACCAAAATATAACTTTACTATTTAACTAACTACAAACTAATTA-A-A-TAT-
64 TATAAATTCAACAAAC-AAATATAACTTAACTATTTAACTAAC-ACAAACTAATTACATATTATA
* * * * *
71386 TA-GACT-A-ACTAACACACTAATTAATTATTTTTTTTAATATATAACCATCAAACAAACTAATT
127 TATAACTAACACTAACAAACTAACTAATTATTTTTATTAATATATAACCAACAAACAAACTAATT
* * *
71448 AACTAATTTTATATTTATGTATGATATAAATTAAACTAAACTAACAATAATATAACTTAAACTAA
192 AAATAATTTTATATTTATATATGATATAAACT--A-TAAACTAACAATAATATAACTTAAACTAA
*
71513 CAAACTAATTAACTAAAATTTTGTTTTACCTTAA
254 CAAACTAATCAACTAAAATTTTGTTTTACCTTAA
71547 ACTAACTAAT
Statistics
Matches: 250, Mismatches: 27, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
341 71 0.28
342 3 0.01
343 1 0.00
344 3 0.01
345 2 0.01
346 63 0.25
350 5 0.02
351 40 0.16
352 24 0.10
353 26 0.10
354 12 0.05
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (347 bp):
AACTAATAAACTATTCTTTAATATAACTAAAACTAAAAAACTAATAAACTAATTTTTATATAATA
TAAATTCAACAAACAAATATAACTTAACTATTTAACTAACACAAACTAATTACATATTATATATA
ACTAACACTAACAAACTAACTAATTATTTTTATTAATATATAACCAACAAACAAACTAATTAAAT
AATTTTATATTTATATATGATATAAACTATAAACTAACAATAATATAACTTAAACTAACAAACTA
ATCAACTAAAATTTTGTTTTACCTTAATTTATAATAATAAACTAATAATTTATAACAATAAACTA
ATTTAAATAATTATATAACTTA
Found at i:71529 original size:21 final size:19
Alignment explanation
Indices: 71476--71529 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
71466 GTATGATATA
71476 AATTAAACTAAACTAACAAT
1 AATT-AACTAAACTAACAAT
71496 AATATAACTTAAACTAACAAACT
1 AAT-TAAC-TAAACTAAC-AA-T
71519 AATTAACTAAA
1 AATTAACTAAA
71530 ATTTTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.20
21 14 0.47
22 6 0.20
23 4 0.13
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (19 bp):
AATTAACTAAACTAACAAT
Found at i:71548 original size:39 final size:39
Alignment explanation
Indices: 71503--71587 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
71493 AATAATATAA
71503 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
* *
71542 CTTAAACTAACTAATTAATTAACTAAAATTTTGTTTTAC
1 CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
71581 CTTAAAC
1 CTTAAAC
71588 CATAAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.40
Consensus pattern (39 bp):
CTTAAACTAACAAACTAATTAACTAAAATTTTGTTTTAC
Found at i:71611 original size:39 final size:37
Alignment explanation
Indices: 71514--71611 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 37
71504 TTAAACTAAC
*
71514 AAACTAATTAACTAAAATTTTGTTTTACCTTAAACTA
1 AAACTAATTAACTAAAATTTTGTTTTACCTTAAACCA
*
71551 ACTAATTAATTAACTAAAATTTTGTTTTACCTTAAACCA
1 A--AACTAATTAACTAAAATTTTGTTTTACCTTAAACCA
**
71590 TAAACTAACAAACTAATAATTT
1 -AAACTAATTAACTAA-AATTT
71612 AAAATAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 11 0.21
39 39 0.75
40 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (37 bp):
AAACTAATTAACTAAAATTTTGTTTTACCTTAAACCA
Found at i:71636 original size:9 final size:9
Alignment explanation
Indices: 71604--71641 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
71594 CTAACAAACT
71604 AATAATTTAA
1 AATAA-TTAA
71614 AATAA-TAA
1 AATAATTAA
*
71622 ACTAATTAA
1 AATAATTAA
71631 AATAATTAA
1 AATAATTAA
71640 AA
1 AA
71642 AACTTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:71831 original size:11 final size:11
Alignment explanation
Indices: 71815--71850 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
71805 TGAGCGGGCT
71815 GCAATAATGCA
1 GCAATAATGCA
*
71826 GCAATAAGTGCT
1 GCAATAA-TGCA
71838 GCAATAATGCA
1 GCAATAATGCA
71849 GC
1 GC
71851 TGAATTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (11 bp):
GCAATAATGCA
Found at i:72087 original size:29 final size:29
Alignment explanation
Indices: 72054--72113 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
72044 GCAGACACTC
*
72054 CAAGCTCGCCTGGATACCATGGCGACCTA
1 CAAGCTCGCCCGGATACCATGGCGACCTA
72083 CAAGCTCGCCCGGATACCATGGCGACCTA
1 CAAGCTCGCCCGGATACCATGGCGACCTA
72112 CA
1 CA
72114 TGCACCCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.23, T:0.15
Consensus pattern (29 bp):
CAAGCTCGCCCGGATACCATGGCGACCTA
Found at i:72551 original size:75 final size:72
Alignment explanation
Indices: 72452--72653 Score: 226
Period size: 72 Copynumber: 2.8 Consensus size: 72
72442 CACCGGTTAC
* ** *
72452 ACTCCCTCCGGTTGTCAAGTCACCAATTATAGTTCCCCCGATGACTGTTCCTCCAGTAGTGAAGC
1 ACTCCCTCCGGTTGTAAAACCACCAATTACAGTTCCCCCGATGACTGTTCCTCCAGT--T-AAGC
* *
72517 CTCCAGTCGT
63 CACCAGTCGA
72527 ACTCCCTCCGGTTGTAAAACCACCAATTACAGTTCCCCC-AGTGACTGTTCCTCCAGTTAAGCCA
1 ACTCCCTCCGGTTGTAAAACCACCAATTACAGTTCCCCCGA-TGACTGTTCCTCCAGTTAAGCCA
*
72591 CCAGTTGA
65 CCAGTCGA
** * * * * * *
72599 ACTCCCTCCAATAGTAAAACCACCAGTCACGGTTCCTCCGGTGACTGTTCCTCCA
1 ACTCCCTCCGGTTGTAAAACCACCAATTACAGTTCCCCCGATGACTGTTCCTCCA
72654 AAGATTGTGC
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
72 57 0.52
73 1 0.01
74 1 0.01
75 51 0.46
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (72 bp):
ACTCCCTCCGGTTGTAAAACCACCAATTACAGTTCCCCCGATGACTGTTCCTCCAGTTAAGCCAC
CAGTCGA
Found at i:72732 original size:60 final size:60
Alignment explanation
Indices: 72662--72817 Score: 267
Period size: 60 Copynumber: 2.6 Consensus size: 60
72652 CAAAGATTGT
*
72662 GCCATCAGTTAACCTGCCTCCGGTGACTGTTCCTCCAAAGATTGTGCCCCCAGTTGTGAA
1 GCCACCAGTTAACCTGCCTCCGGTGACTGTTCCTCCAAAGATTGTGCCCCCAGTTGTGAA
*
72722 GCCACCAGTTAACCTGCCTCCGGTGACTGTTCCTCCAAAGATTGTGCCTCCAGTTGTGAA
1 GCCACCAGTTAACCTGCCTCCGGTGACTGTTCCTCCAAAGATTGTGCCCCCAGTTGTGAA
* * *
72782 GCCACCAGTTAACCTCCCTCCTGTGACTGTCCCTCC
1 GCCACCAGTTAACCTGCCTCCGGTGACTGTTCCTCC
72818 GGTTGTAAAG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 91 1.00
ACGTcount: A:0.19, C:0.35, G:0.20, T:0.26
Consensus pattern (60 bp):
GCCACCAGTTAACCTGCCTCCGGTGACTGTTCCTCCAAAGATTGTGCCCCCAGTTGTGAA
Found at i:72802 original size:45 final size:45
Alignment explanation
Indices: 72753--72848 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
72743 GGTGACTGTT
* * * *
72753 CCTCCAAAGATTGTGCCTCCAGTTGTGAAGCCACC-AGTTAACCTC
1 CCTCCAAAGACTGTCCCTCCAGTTGTAAAGCCACCGA-TCAACCTC
*** *
72798 CCTCCTGTGACTGTCCCTCCGGTTGTAAAGCCACCGATCAACCTC
1 CCTCCAAAGACTGTCCCTCCAGTTGTAAAGCCACCGATCAACCTC
72843 CCTCCA
1 CCTCCA
72849 GTGACGGTGC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.24
Consensus pattern (45 bp):
CCTCCAAAGACTGTCCCTCCAGTTGTAAAGCCACCGATCAACCTC
Found at i:72853 original size:45 final size:45
Alignment explanation
Indices: 72768--72853 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
72758 AAAGATTGTG
* * *
72768 CCTCCAGTTGTGAAGCCACCAGTTAACCTCCCTCCTGTGACTGTC
1 CCTCCAGTTGTAAAGCCACCAGTCAACCTCCCTCCAGTGACTGTC
*
72813 CCTCCGGTTGTAAAGCCACC-GATCAACCTCCCTCCAGTGAC
1 CCTCCAGTTGTAAAGCCACCAG-TCAACCTCCCTCCAGTGAC
72854 GGTGCCACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.20, C:0.40, G:0.17, T:0.23
Consensus pattern (45 bp):
CCTCCAGTTGTAAAGCCACCAGTCAACCTCCCTCCAGTGACTGTC
Found at i:73189 original size:2 final size:2
Alignment explanation
Indices: 73182--73250 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
73172 CCACTTTCAT
73182 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
73224 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 T
73251 GCTTTCTTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:73958 original size:34 final size:33
Alignment explanation
Indices: 73933--73996 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
73923 ATTTTATACG
* *
73933 AATTATAGAAGATAATGATAATTAATCGATTATA
1 AATTATAAAAGATAATAATAATTAATC-ATTATA
*
73967 AATTATAAAAGATAATAATAA-TAATAATTA
1 AATTATAAAAGATAATAATAATTAATCATTA
73997 ATCAATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 4 0.15
34 19 0.70
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (33 bp):
AATTATAAAAGATAATAATAATTAATCATTATA
Found at i:73988 original size:40 final size:38
Alignment explanation
Indices: 73944--74019 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 38
73934 ATTATAGAAG
* * *
73944 ATAATGATAATTAATCGATTATAAATTATAAAAGATAATA
1 ATAATAATAATTAATCAATCATAAATTA-AAAA-ATAATA
73984 ATAATAATAATTAATCAATCATAAATTAAAAAATAA
1 ATAATAATAATTAATCAATCATAAATTAAAAAATAA
74020 ACACATAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.12
39 4 0.12
40 25 0.76
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (38 bp):
ATAATAATAATTAATCAATCATAAATTAAAAAATAATA
Found at i:78707 original size:16 final size:15
Alignment explanation
Indices: 78677--78718 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
78667 TATGTATATA
78677 TTTCAAAAAATATGT
1 TTTCAAAAAATATGT
*
78692 TTTCAAAACTATATGT
1 TTTCAAAA-AATATGT
78708 TTTCCAAAAAA
1 TTT-CAAAAAA
78719 ACCATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 5 0.22
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (15 bp):
TTTCAAAAAATATGT
Found at i:78849 original size:37 final size:37
Alignment explanation
Indices: 78777--78849 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
78767 CTAAAATCTA
* * *
78777 TATATATTATATGTTTTTCAAAAATATTTTCAAAAAC
1 TATATAGTATATGTTTTTCAAAAATAGTTTAAAAAAC
*
78814 TATATAGTATATGTTTTT-AAAAATGCGTTTAAAAAA
1 TATATAGTATATGTTTTTCAAAAAT-AGTTTAAAAAA
78850 AATTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (37 bp):
TATATAGTATATGTTTTTCAAAAATAGTTTAAAAAAC
Found at i:78904 original size:39 final size:39
Alignment explanation
Indices: 78852--79029 Score: 154
Period size: 39 Copynumber: 4.5 Consensus size: 39
78842 TTAAAAAAAA
*
78852 TTTAAAAACTATATATTATATACGTTTTCAAAAATGTGT
1 TTTAAAAACTATATATTATATACATTTTCAAAAATGTGT
* * *
78891 TTTCAAAACTATATATTATAT--GTTTTCCAAAACCCAT-TTT
1 TTTAAAAACTATATATTATATACATTTT-CAAAA---ATGTGT
*
78931 TTTAAAAGAACTATATA-T-TATACATTTTAAAAAATGTGT
1 TTT-AAA-AACTATATATTATATACATTTTCAAAAATGTGT
* * *
78970 TTTCAAAA-TCT-TATTATATACATTTTCAAAAACTGATTT
1 TTTAAAAACTATATATTATATACATTTTCAAAAA-TG-TGT
*
79009 TTTAAAAAATATATATTATAT
1 TTTAAAAACTATATATTATAT
79030 GCTTTCAAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
35 2 0.02
36 3 0.03
37 22 0.20
38 11 0.10
39 34 0.30
40 10 0.09
41 17 0.15
42 13 0.12
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (39 bp):
TTTAAAAACTATATATTATATACATTTTCAAAAATGTGT
Found at i:78935 original size:79 final size:78
Alignment explanation
Indices: 78852--79082 Score: 213
Period size: 79 Copynumber: 2.9 Consensus size: 78
78842 TTAAAAAAAA
78852 TTTAAAAACTATATATTATATACGTTTTCAAAAATGTGTTTTCAAAACTATATATTATATGTTTT
1 TTTAAAAACTATATATTATATACGTTTTCAAAAATGTGTTTTCAAAACTATATATTATATGTTTT
78917 CCAAAACCCATTTT
66 CCAAAACCCA-TTT
* * **
78931 TTTAAAAGAACTATATA-T-TATACATTTTAAAAAATGTGTTTTCAAAATCT-TAT-TATATACA
1 TTT-AAA-AACTATATATTATATACGTTTTCAAAAATGTGTTTTCAAAA-CTATATAT-TATATG
* **
78992 TTTTCAAAAACTGATTT
62 TTTTCCAAAACCCATTT
* * ** *
79009 TTTAAAAAATATATATTATAT--GCTTTCAAAAAAACTATTTTCTAAAAACTATATATATTATAT
1 TTTAAAAACTATATATTATATACGTTTTC-AAAAATGTGTTTTC--AAAAC--TATATATTATAT
*
79072 GTTTTTCAAAA
61 GTTTTCCAAAA
79083 ATACTTTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
76 11 0.09
77 15 0.12
78 11 0.09
79 52 0.43
80 7 0.06
81 24 0.20
82 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (78 bp):
TTTAAAAACTATATATTATATACGTTTTCAAAAATGTGTTTTCAAAACTATATATTATATGTTTT
CCAAAACCCATTT
Found at i:79039 original size:39 final size:39
Alignment explanation
Indices: 78852--79083 Score: 138
Period size: 39 Copynumber: 5.8 Consensus size: 39
78842 TTAAAAAAAA
* * *
78852 TTTAAAAACTATATATTATATACGTTTTCAAAAA-TG-TGT
1 TTTAAAAAATATATATTATAT--GCTTTCAAAAACTGATTT
* * * * **
78891 TTTCAAAACTATATATTATATGTTTTCCAAAACCCATTTT
1 TTTAAAAAATATATATTATATGCTTTCAAAAACTGA-TTT
* * *
78931 TTTAAAAGAACTATATATTATA--CATTTTAAAAAATG-TGT
1 TTTAAAA-AA-TATATATTATATGC-TTTCAAAAACTGATTT
* * *
78970 TTT-CAAAATCT-TATTATATACATTTTCAAAAACTGATTT
1 TTTAAAAAATATATATTATATGC--TTTCAAAAACTGATTT
79009 TTTAAAAAATATATATTATATGCTTTCAAAAAAACT-ATTT
1 TTTAAAAAATATATATTATATGCTTTC--AAAAACTGATTT
* *
79049 TCTAAAAACTATATATATTATATGTTTTTCAAAAA
1 TTTAAAAA--ATATATATTATATG-CTTTCAAAAA
79084 TACTTTCAAA
Statistics
Matches: 151, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
35 7 0.05
36 2 0.01
37 13 0.09
38 12 0.08
39 34 0.23
40 25 0.17
41 29 0.19
42 25 0.17
43 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (39 bp):
TTTAAAAAATATATATTATATGCTTTCAAAAACTGATTT
Found at i:79072 original size:42 final size:41
Alignment explanation
Indices: 78715--79109 Score: 151
Period size: 40 Copynumber: 9.8 Consensus size: 41
78705 TGTTTTCCAA
* *
78715 AAAAACCATTTT-TAAAAACAACTATATATTATATG-CTTTC
1 AAAAACTATTTTCTAAAAACTA-TATATATTATATGTCTTTC
** * * *
78755 AAAATTTTTTTTCTAAAATCTATATATATTATATGTTTTTC
1 AAAAACTATTTTCTAAAAACTATATATATTATATGTCTTTC
* *
78796 AAAAA-TATTTTC-AAAAAC--TATATAGTATATGT-TTTT
1 AAAAACTATTTTCTAAAAACTATATATATTATATGTCTTTC
*
78832 AAAAATGCGT-TTAAAAAAAATT-TAAAAACTATATAT-TATATACGT-TTTC
1 AAAAA--C-TATT--------TTCTAAAAACTATATATAT-TATATGTCTTTC
* *
78881 AAAAA-TGTGTTT-TCAAAAC--TATATATTATATGT-TTTCC
1 AAAAACTAT-TTTCTAAAAACTATATATATTATATGTCTTT-C
* * * * ** ** *
78919 AAAACCCATTTTTTTAAAAGAACTATATATTATACAT-TTTA
1 AAAAACTATTTTCTAAAAACTA-TATATATTATATGTCTTTC
* * * **
78960 AAAAATGTGTTTTC-AAAATCT-TAT-TA-TATACAT-TTTC
1 AAAAA-CTATTTTCTAAAAACTATATATATTATATGTCTTTC
*
78997 AAAAACTGATTTTTTAAAAA--ATATATATTATATG-CTTTC
1 AAAAACT-ATTTTCTAAAAACTATATATATTATATGTCTTTC
*
79036 AAAAAAACTATTTTCTAAAAACTATATATATTATATGTTTTTC
1 --AAAAACTATTTTCTAAAAACTATATATATTATATGTCTTTC
*
79079 AAAAA-TACTTTC-AAAAACTATACTATATTAT
1 AAAAACTATTTTCTAAAAACTATA-TATATTAT
79110 TATATACTAA
Statistics
Matches: 271, Mismatches: 44, Indels: 80
0.69 0.11 0.20
Matches are distributed among these distances:
36 9 0.03
37 49 0.18
38 17 0.06
39 42 0.15
40 53 0.20
41 34 0.13
42 33 0.12
43 4 0.01
45 1 0.00
46 1 0.00
47 9 0.03
49 19 0.07
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (41 bp):
AAAAACTATTTTCTAAAAACTATATATATTATATGTCTTTC
Found at i:82305 original size:21 final size:22
Alignment explanation
Indices: 82272--82314 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
82262 ATTTTGAGAC
82272 TTTTTGA-TATTTT-AAAAATA
1 TTTTTGATTATTTTGAAAAATA
*
82292 TTTTGTGATTTTTTTGAAAAATA
1 TTTT-TGATTATTTTGAAAAATA
82315 ATAACAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 5 0.26
23 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (22 bp):
TTTTTGATTATTTTGAAAAATA
Found at i:83404 original size:16 final size:16
Alignment explanation
Indices: 83383--83415 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
83373 TAATAAATAG
83383 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
83399 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
83415 A
1 A
83416 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:83496 original size:10 final size:10
Alignment explanation
Indices: 83481--83555 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
83471 CATTTAATAA
83481 ATAAACGAAC
1 ATAAACGAAC
83491 ATAAACGAAC
1 ATAAACGAAC
83501 ----ACGAAC
1 ATAAACGAAC
83507 ATAAACGAAC
1 ATAAACGAAC
** *
83517 ACGAAC-ATAA
1 ATAAACGA-AC
83527 ATGAACACGAAC
1 AT-AA-ACGAAC
83539 ATAAACGAAC
1 ATAAACGAAC
83549 ATAAACG
1 ATAAACG
83556 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:83506 original size:16 final size:16
Alignment explanation
Indices: 83485--83549 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
83475 TAATAAATAA
83485 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
83501 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
83517 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
83533 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
83549 A
1 A
83550 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:84317 original size:14 final size:14
Alignment explanation
Indices: 84300--84355 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
84290 AATGAACATA
84300 AACGAACATAATCG
1 AACGAACATAATCG
84314 AACGAACAT-A---
1 AACGAACATAATCG
* *
84324 AACAAACATAACCG
1 AACGAACATAATCG
84338 AACGAACATAATCG
1 AACGAACATAATCG
84352 AACG
1 AACG
84356 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:84320 original size:24 final size:24
Alignment explanation
Indices: 84293--84354 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
84283 ATAAATGAAT
*
84293 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
*
84317 GAACATAAACAAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
84341 GAACATAATCGAAC
1 GAACATAAACGAAC
84355 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:86870 original size:20 final size:20
Alignment explanation
Indices: 86842--86879 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
86832 GTTACTTTTA
*
86842 AATTGAAAAA-AATAATACTT
1 AATT-AAAAATAAAAATACTT
86862 AATTAAAAATAAAAATAC
1 AATTAAAAATAAAAATAC
86880 ATGATACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTAAAAATAAAAATACTT
Found at i:87624 original size:146 final size:146
Alignment explanation
Indices: 87422--87703 Score: 442
Period size: 146 Copynumber: 1.9 Consensus size: 146
87412 TAAATATTAT
*
87422 GTTAATTCATGTTTAGATGAACTTTAAGTCGTATCATCTTGGGTGAATTATTTTTCACCTTTCAA
1 GTTAATTCATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCAA
87487 GAACATCTAATTGTAATGCGTAATTGTATAAGGTTTGGAGTAAATTAC-AAAAAAAGAAGAAGAA
66 GAACATCTAATTGTAATGCGTAATTGTATAAGGTTTGGAGTAAATTACAAAAAAAAGAA-AAGAA
87551 ATAATTATGATATCTGG
130 ATAATTATGATATCTGG
* * * *
87568 GTTAATTCAAT-TTTGGATGGACTTTAGGTCGGATCATTTTGGGTGAATTATTTTTCACCTTTCA
1 GTTAATTC-ATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCA
** ** *
87632 CTAACATCTAATTGTAATTTGTAATTGTATAGGGTTTGGAGTAAATTACAAAAAAAAGAAAAGAA
65 AGAACATCTAATTGTAATGCGTAATTGTATAAGGTTTGGAGTAAATTACAAAAAAAAGAAAAGAA
87697 ATAATTA
130 ATAATTA
87704 GGAGCTTGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
146 112 0.90
147 12 0.10
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (146 bp):
GTTAATTCATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCAA
GAACATCTAATTGTAATGCGTAATTGTATAAGGTTTGGAGTAAATTACAAAAAAAAGAAAAGAAA
TAATTATGATATCTGG
Found at i:88643 original size:13 final size:14
Alignment explanation
Indices: 88625--88685 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
88615 AATATTAATT
88625 AATATA-ATTTTAA
1 AATATATATTTTAA
88638 AATATATATTTT--
1 AATATATATTTTAA
*
88650 -ATATAT-TTTGAA
1 AATATATATTTTAA
**
88662 AATATATAATTTTTG
1 AATATAT-ATTTTAA
88677 AATATATAT
1 AATATATAT
88686 ATATATATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
10 3 0.08
11 6 0.16
13 12 0.32
14 7 0.18
15 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:88663 original size:24 final size:25
Alignment explanation
Indices: 88626--88674 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
88616 ATATTAATTA
88626 ATATAATTTTAAAATATAT-ATTTT
1 ATATAATTTTAAAATATATAATTTT
88650 ATAT-ATTTTGAAAATATATAATTTT
1 ATATAATTTT-AAAATATATAATTTT
88675 TGAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATAATTTTAAAATATATAATTTT
Found at i:88683 original size:2 final size:2
Alignment explanation
Indices: 88678--88779 Score: 90
Period size: 2 Copynumber: 52.5 Consensus size: 2
88668 TAATTTTTGA
*
88678 AT AT AT AT AT AT AT AT AGT AT AT -T AT AT AGT AT AT AT GT -T AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
88720 AGT AT -T TT A- AT AT AT AT AT A- AT TT TT AG A- AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88759 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
88780 GTAGGTATAT
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
1 6 0.07
2 74 0.86
3 6 0.07
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88793 original size:73 final size:68
Alignment explanation
Indices: 88643--88794 Score: 198
Period size: 71 Copynumber: 2.2 Consensus size: 68
88633 TTTAAAATAT
* *
88643 ATATTTTATATATTTTGAAAATATATAATTTTTGAATATATATATATATATAGTATATTATATAG
1 ATATATTATATATTTTGAAAATATATAATTTTTGAATATATATATATATATAATATATTATATAG
*
88708 TAT
66 TAG
*
88711 ATATGTTATAGTATTTT-AATATATATATAATTTTTAGAATATATATATATATATATATATATAT
1 ATATATTATA-TATTTTGAA-A-ATATATAATTTTT-GAATATATATATATATATA-ATATAT-T
88775 ATATAGTAG
60 ATATAGTAG
*
88784 GTATATTATAT
1 ATATATTATAT
88795 CTGTTATTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
68 11 0.15
69 7 0.10
70 13 0.18
71 19 0.26
72 6 0.08
73 17 0.23
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (68 bp):
ATATATTATATATTTTGAAAATATATAATTTTTGAATATATATATATATATAATATATTATATAG
TAG
Found at i:95802 original size:102 final size:102
Alignment explanation
Indices: 95626--96032 Score: 606
Period size: 102 Copynumber: 4.0 Consensus size: 102
95616 TCACGGGATG
*
95626 ACTCTA-CTTGACTAACTCAGGGGTGGAAGGTATGCT-CACTTTCACTTAGAGTGTGGGATGGTA
1 ACTCTACCTT-ACTAGCTCAGGGGTGGAAGGTATGCTCCA-TTTCACTTAGAGTGTGGGATGGTA
*
95689 GTGTGATGAGCTGACTCCCCTTAAAGTATTCTTAAAAAA
64 GTGTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* * *
95728 ACTCTATCTTACTAGTTCAGGGGTGGAAGGTATGCTCCATTTCACATAGAGTGTGGGATGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCATTTCACTTAGAGTGTGGGATGGTAGT
*
95793 GTGATGAGCTAACTCCCCTTAAAGTATGCTTAAAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* * * * * *
95830 ACTCTACCTTATTAGCTCGGGGGTGGAATGTATGCTCCCTTTCACTTAGAGTATGGGACGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCATTTCACTTAGAGTGTGGGATGGTAGT
*
95895 GTGATGAGCTGAATCCCCTTAAAGTATGCTTAAAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* *
95932 ACTCTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCATTTCACTTAGAGTGTGGGATGGTAGT
* * *
95997 GTGATGAGCTGACCCCCCTT-GAGTATG-ATAAAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
96032 A
1 A
96033 GGTTGAAGTT
Statistics
Matches: 277, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
100 8 0.03
101 6 0.02
102 258 0.93
103 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (102 bp):
ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCATTTCACTTAGAGTGTGGGATGGTAGT
GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
Found at i:104326 original size:654 final size:650
Alignment explanation
Indices: 103051--104352 Score: 2372
Period size: 654 Copynumber: 2.0 Consensus size: 650
103041 AAAATTACAT
103051 GCAATGTGAACCGTACATGTGTATTTTTGGTTTTCTTTAAACATTGGTGAGATCAAATTTTACCA
1 GCAATGTGAACCGTACATGTGTATTTTTGGTTTTCTTTAAACATTGGTGAGATCAAATTTTACCA
103116 AAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAAATAT
66 AAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAAATAT
* *
103181 CCTTAAACTGAAGTAACCAAAATTGAGTTTATAATAAATGAGCAATAAAAATATAAACTCCCACT
131 CCTTAAACTGAAGGAACCAAAATTGAGTTTATAATAAATGAGCAATAAAAATACAAACTCCCACT
*
103246 AAATCGAATGTGCTTAATTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTGGGTG
196 AAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTGGGTG
*
103311 ACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATTCTCTATAAACACATAACCACT
261 ACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAACCACT
*
103376 TTGAATTTTCTTTAACAACTAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTGTTGT
326 TTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTGTTGT
* *
103441 ATATGGAATAAAGAACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCAATCC
391 ATATGGAATAAAGAACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTCTATCAATAC
* *
103506 ATAATTAGTAATTCATGTGATAAAATTTTGTATCAATATTTCAATAAATCATAGTTTATAAACCT
456 ATAATTAGTAATTCATGTGACAAAATTTTGTATCAATATTTCAATAAATCATAGTCTATAAACCT
**
103571 GATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATGTATT
521 GATGATCTCTTACTTACTAAACCTCCAATATGTAAGCATATAACATTTTTATTCTTAAATGTATT
*
103636 GTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTTAATTA
586 GTATGAATCAATTTAACTTCTATCCAATGATTCATACCCAAATTGATTAAATACCTGCTTAATTA
103701 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTT----TGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
*
103766 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
62 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAA
*
103831 ATATCCTTAAACTGAAGGAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATACAAACTCC
127 ATATCCTTAAACTGAAGGAACCAAAATTGAGTTTATAATAAATGAGCAATAAAAATACAAACTCC
*
103896 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGTTCATGAAAGACCTTG
192 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
103961 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
257 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
*
104026 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATGTTTCTG
322 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
*
104091 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTCTATCA
387 TTGTATATGGAATAAAGAACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTCTATCA
**
104156 ATATGTAATTA-TCAATTCATGTGACAAAATTTTGTATCAATATTTCAATAAATCATAGTCTATA
452 ATACATAATTAGT-AATTCATGTGACAAAATTTTGTATCAATATTTCAATAAATCATAGTCTATA
*
104220 AACCTGATGATCTCTTACTTACTAAACCTCCAATATGTAAGCATATATCATTTTTATTCTTAAAT
516 AACCTGATGATCTCTTACTTACTAAACCTCCAATATGTAAGCATATAACATTTTTATTCTTAAAT
104285 GTATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCCAAATTGATTAAATACCTGCTT
581 GTATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCCAAATTGATTAAATACCTGCTT
104350 AAT
646 AAT
104353 ATCCTAAAAT
Statistics
Matches: 627, Mismatches: 20, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
650 27 0.04
653 1 0.00
654 599 0.96
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (650 bp):
GCAATGTGAACCGTACATGTGTATTTTTGGTTTTCTTTAAACATTGGTGAGATCAAATTTTACCA
AAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAAATAT
CCTTAAACTGAAGGAACCAAAATTGAGTTTATAATAAATGAGCAATAAAAATACAAACTCCCACT
AAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTGGGTG
ACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAACCACT
TTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTGTTGT
ATATGGAATAAAGAACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTCTATCAATAC
ATAATTAGTAATTCATGTGACAAAATTTTGTATCAATATTTCAATAAATCATAGTCTATAAACCT
GATGATCTCTTACTTACTAAACCTCCAATATGTAAGCATATAACATTTTTATTCTTAAATGTATT
GTATGAATCAATTTAACTTCTATCCAATGATTCATACCCAAATTGATTAAATACCTGCTTAATTA
Found at i:110013 original size:18 final size:18
Alignment explanation
Indices: 109987--110030 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
109977 GATCGTTCAT
109987 AACCCGACCCGTTGACCC
1 AACCCGACCCGTTGACCC
*
110005 AACCTGACCCGTTGACCC
1 AACCCGACCCGTTGACCC
*
110023 GACCCGAC
1 AACCCGAC
110031 TGGTTGATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (18 bp):
AACCCGACCCGTTGACCC
Found at i:115648 original size:43 final size:43
Alignment explanation
Indices: 115598--115870 Score: 440
Period size: 43 Copynumber: 6.4 Consensus size: 43
115588 TTAATTACCG
115598 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
115641 TTACAGTTTCCCCAGGTCCATTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
115684 TTACAGTTCCCCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
115727 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGGC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
115770 TTACAGTTCCCCCAGTTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
115813 TTACAGTT-TCCCAGGTTCTTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
115855 TTACAGTTTCCCCAGG
1 TTACAGTTCCCCCAGG
115871 CTCTTTTTCT
Statistics
Matches: 213, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 39 0.18
43 174 0.82
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:118379 original size:22 final size:21
Alignment explanation
Indices: 118348--118397 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
118338 CGGTTATTTT
118348 AACCGG-TTTTA-CCGGATAAAA
1 AACCGGTTTTTACCCGG--AAAA
118369 AACCGGTTTTTATCCCGGAAAA
1 AACCGGTTTTTA-CCCGGAAAA
118391 AACCGGT
1 AACCGGT
118398 ATGAGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.23
22 16 0.62
24 4 0.15
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AACCGGTTTTTACCCGGAAAA
Found at i:120687 original size:21 final size:21
Alignment explanation
Indices: 120663--120702 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
120653 AGTTTATTTT
120663 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
120684 TAAACTTTGTTTCAATTAT
1 TAAACTTTGTTTCAATTAT
120703 TGAACTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:120749 original size:33 final size:33
Alignment explanation
Indices: 120699--120798 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
120689 TTTGTTTCAA
* * *
120699 TTATTGAACTTGTAAGTTTTTATGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
*
120732 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
* *
120765 TTATCGAACTTGAAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
120798 T
1 T
120799 CTCGTAAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (33 bp):
TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
Found at i:121430 original size:18 final size:19
Alignment explanation
Indices: 121388--121431 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
121378 TTACTAATAG
121388 GAATAAAAGATTATCAATGA
1 GAATAAAAGATTATCAA-GA
121408 GAATAAAAGATTATCAA-A
1 GAATAAAAGATTATCAAGA
121426 GAATAA
1 GAATAA
121432 GATTACTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.23
Consensus pattern (19 bp):
GAATAAAAGATTATCAAGA
Found at i:121653 original size:37 final size:37
Alignment explanation
Indices: 121581--121655 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
121571 GTTGAAAAAT
* *
121581 ATTTATATATTTTCTTTAAAAAATTTAAATTTATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAATATATAAA
* *
121618 ATTTATATAATTTTTTTTACAAAATTGAAA-ATATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAATATATAAA
121655 A
1 A
121656 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAATATATAAA
Found at i:122940 original size:3 final size:3
Alignment explanation
Indices: 122928--122980 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
122918 TCAAACTATA
122928 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
122975 TAT TAT
1 TAT TAT
122981 CTTTCGAACG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:124986 original size:136 final size:138
Alignment explanation
Indices: 124741--125010 Score: 384
Period size: 136 Copynumber: 2.0 Consensus size: 138
124731 ATTAAAATTA
* * * * *
124741 ATTAGGATTAAGATTAGAGCCTCCATCTTAGGCCTAATTTCATATTTAATCCTTAAATTATGCGA
1 ATTAGAATTAAGATTAGAGCCTCCATATTAGGCCTAATTTCACATTTAATCCTTAAATTAAGAGA
* * *
124806 ATTCTTAATTTGGTCATCGTTTTTGCTCGAGATTCCAATTTAATTATTTGAA-T-CAATAATTGA
66 ATTCTTAATTTGGTCATCGCTTTTGCTCGAGATCCCAATTTAATTATTCGAATTGCAAT-ATTGA
124869 TTAAAGCTG
130 TTAAAGCTG
* * * * *
124878 ATTAGAATTAATATTATAGCCTCTATATTAGGCCTAATTTCACATTTAGTTC-TAAATTAAGAGA
1 ATTAGAATTAAGATTAGAGCCTCCATATTAGGCCTAATTTCACATTTAATCCTTAAATTAAGAGA
*
124942 ATTCTTAATTTGGTCATCGCTTTTGCTCGAGATCCCACTTTAATTATTCGAATTGCAATATTGAT
66 ATTCTTAATTTGGTCATCGCTTTTGCTCGAGATCCCAATTTAATTATTCGAATTGCAATATTGAT
125007 TAAA
131 TAAA
125011 ATTAATTTAA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 58 0.50
137 55 0.47
138 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (138 bp):
ATTAGAATTAAGATTAGAGCCTCCATATTAGGCCTAATTTCACATTTAATCCTTAAATTAAGAGA
ATTCTTAATTTGGTCATCGCTTTTGCTCGAGATCCCAATTTAATTATTCGAATTGCAATATTGAT
TAAAGCTG
Found at i:128640 original size:125 final size:125
Alignment explanation
Indices: 128418--128654 Score: 402
Period size: 125 Copynumber: 1.9 Consensus size: 125
128408 AAATGAATGA
* *
128418 AAGGATGCCATAGCTGAAATGCATATAGGTGCATTATCGGCATTAAAGAATAATGCACATGGGTG
1 AAGGATGCCATAGCTGAAATGCATATAGGTGCATTATCGACATAAAAGAATAATGCACATGGGTG
* *
128483 CATTATTGTCATGAAAGGATGACATAAATAAAATGCATGAAATGATGCATTAAGGCATGG
66 CATTATTGGCATGAAAGGATGACATAAATAAAATGCATAAAATGATGCATTAAGGCATGG
* * *
128543 AAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATTGGTG
1 AAGGATGCCATAGCTGAAATGCATATAGGTGCATTATCGACATAAAAGAATAATGCACATGGGTG
*
128608 CATTATTGGCATGAAAGGATGCCATAAATAAAATGCATAAAATGATG
66 CATTATTGGCATGAAAGGATGACATAAATAAAATGCATAAAATGATG
128655 TCAGAGCTGA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 104 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (125 bp):
AAGGATGCCATAGCTGAAATGCATATAGGTGCATTATCGACATAAAAGAATAATGCACATGGGTG
CATTATTGGCATGAAAGGATGACATAAATAAAATGCATAAAATGATGCATTAAGGCATGG
Found at i:128693 original size:105 final size:105
Alignment explanation
Indices: 128554--128988 Score: 521
Period size: 105 Copynumber: 4.0 Consensus size: 105
128544 AGGATGCCAT
128554 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATTG-GTGCATTATTGGC
1 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATA-TGAGTGCATTATTGGC
128618 ATGAAAGGATGCCATAAATAAAATGCATAAAATGATGTCAG
65 ATGAAAGGATGCCATAAATAAAATGCATAAAATGATGTCAG
* *
128659 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGTGTGCATTATTTGCA
1 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGAGTGCATTATTGGCA
*
128724 TGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGG
66 TGAAAGGATGCCATAAATAAAATGCAT-AAA--ATG-A-T---G--T--CA-G
* * *
128777 ATGCCATAGCTGAAATGCATATGGGTGAATTACCGACATAAAAGAATAATGCATATGAGTGAATT
1 A-G-C-T----GAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGAGTGCATT
* * * * *
128842 ATTGGCATGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGCCAT
59 ATTGGCATGAAAGGATGCCATAAATAAAATGCATAAAATGATGTCAG
* * * *
128889 AGCTGAAATGCATATGGGTTCATTATCGGCATAAAAGAATAATGCATATGGGTCCATTATTGGCA
1 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGAGTGCATTATTGGCA
* *
128954 TGGAAGGATGCCATAAATAAAATGCATGAAATGAT
66 TGAAAGGATGCCATAAATAAAATGCATAAAATGAT
128989 ACCATAAATA
Statistics
Matches: 286, Mismatches: 23, Indels: 42
0.81 0.07 0.12
Matches are distributed among these distances:
104 2 0.01
105 174 0.61
106 3 0.01
108 3 0.01
109 2 0.01
110 2 0.01
111 1 0.00
112 1 0.00
113 2 0.01
115 1 0.00
117 2 0.01
118 2 0.01
119 1 0.00
120 2 0.01
121 2 0.01
122 2 0.01
124 2 0.01
125 82 0.29
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (105 bp):
AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGAGTGCATTATTGGCA
TGAAAGGATGCCATAAATAAAATGCATAAAATGATGTCAG
Found at i:128762 original size:230 final size:230
Alignment explanation
Indices: 128354--128984 Score: 1023
Period size: 230 Copynumber: 2.7 Consensus size: 230
128344 GAACGAATGA
* * *
128354 ATAAAAGAATAATGCATATGGGTGCATTCTTGGCATGAAAGGATGCCATAAATAAAATGAATGAA
1 ATAAAAGAATAATGCATATTGGTGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATGAA
* * *
128419 AGGATGCCATAGCTGAAATGCATATAGGTGCATTATCGGCATTAAAGAATAATGCACATGGGTGC
66 AGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGC
* * *
128484 ATTA-TTGTCATGAAAGGATGACATAAATAAAATGCATGAAATGATGCATTAAGGCATGGAAGGA
131 ATTATTTG-CATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGA
* *
128548 TGCCATAGCTGAAATGCATATGGGTGCATTATCGAC
195 TGCCATAGCTGAAATGCATATGGGTGAATTACCGAC
*
128584 ATAAAAGAATAATGCATATTGGTGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATAAA
1 ATAAAAGAATAATGCATATTGGTGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATGAA
* * * * *
128649 ATGATGTCAGAGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGTGTGC
66 AGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGC
128714 ATTATTTGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
131 ATTATTTGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
128779 GCCATAGCTGAAATGCATATGGGTGAATTACCGAC
196 GCCATAGCTGAAATGCATATGGGTGAATTACCGAC
* *
128814 ATAAAAGAATAATGCATA-TGAGTGAATTATTGGCATGAAAGGATGCCATAAATAAAAGGCATGA
1 ATAAAAGAATAATGCATATTG-GTGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATGA
* *
128878 AAGGATGCCATAGCTGAAATGCATATGGGTTCATTATCGGCATAAAAGAATAATGCATATGGGTC
65 AAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTG
* *
128943 CATTATTGGCATGGAAGGATGCCATAAATAAAATGCATGAAA
130 CATTATTTGCATGAAAGGATGCCATAAATAAAATGCATGAAA
128985 TGATACCATA
Statistics
Matches: 370, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
229 2 0.01
230 365 0.99
231 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (230 bp):
ATAAAAGAATAATGCATATTGGTGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATGAA
AGGATGCCATAGCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGC
ATTATTTGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT
GCCATAGCTGAAATGCATATGGGTGAATTACCGAC
Found at i:128881 original size:125 final size:125
Alignment explanation
Indices: 128659--128885 Score: 400
Period size: 125 Copynumber: 1.8 Consensus size: 125
128649 ATGATGTCAG
* * * * *
128659 AGCTGAAATGCATATGGGTGCATTATCGACATAAAAGAATAATGCATATGTGTGCATTATTTGCA
1 AGCTGAAATGCATATGGGTGAATTACCGACATAAAAGAATAATGCATATGAGTGAATTATTGGCA
*
128724 TGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
66 TGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
128784 AGCTGAAATGCATATGGGTGAATTACCGACATAAAAGAATAATGCATATGAGTGAATTATTGGCA
1 AGCTGAAATGCATATGGGTGAATTACCGACATAAAAGAATAATGCATATGAGTGAATTATTGGCA
128849 TGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGC
66 TGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGC
128886 CATAGCTGAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 96 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (125 bp):
AGCTGAAATGCATATGGGTGAATTACCGACATAAAAGAATAATGCATATGAGTGAATTATTGGCA
TGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
Found at i:133193 original size:23 final size:23
Alignment explanation
Indices: 133167--133218 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
133157 AAAAGACCAT
* *
133167 AAGATTATCTGGTTGATCCCTAA
1 AAGATTATCAGGTTGATCCCCAA
133190 AAGATTATCAGGTTGATCCCCAA
1 AAGATTATCAGGTTGATCCCCAA
133213 AAGATT
1 AAGATT
133219 GCAAACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (23 bp):
AAGATTATCAGGTTGATCCCCAA
Found at i:133658 original size:57 final size:58
Alignment explanation
Indices: 133559--133679 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 58
133549 GTTACCCAAT
* * *
133559 ATGA-TACTTTCAAATGAATTTTCAAAGAAGCCATGTCCGATTTTCAGAAATTTCTTG
1 ATGATTACTTTCAAATGAATTTTCAAAGAAACCAAGTCCGATTTCCAGAAATTTCTTG
* * ** **
133616 ATGATTAC-TTCAAATGATTTTTCAAAGAAACTAAGTTTGATTTCCAGAGGTTTCTTG
1 ATGATTACTTTCAAATGAATTTTCAAAGAAACCAAGTCCGATTTCCAGAAATTTCTTG
*
133673 AGGATTA
1 ATGATTA
133680 ACTTGGTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 50 0.94
58 3 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (58 bp):
ATGATTACTTTCAAATGAATTTTCAAAGAAACCAAGTCCGATTTCCAGAAATTTCTTG
Found at i:133783 original size:54 final size:53
Alignment explanation
Indices: 133687--133834 Score: 190
Period size: 54 Copynumber: 2.7 Consensus size: 53
133677 TTAACTTGGT
* * *
133687 TTTTCAAAAGAATTTTTAAAGGAA-TCTAAGCCTAGTTTTTAGGGGTTTCTTGATA
1 TTTTCAAATGAATTTTGAAA-GAAGT-TAAGCCTA-TTTTTAGGGGGTTCTTGATA
*
133742 TTTTCAAATGAATTTTGAAAGAAGTTAAGCCTGATTTTTAGGGGGTTCTTGATG
1 TTTTCAAATGAATTTTGAAAGAAGTTAAGCCT-ATTTTTAGGGGGTTCTTGATA
* *
133796 TTTTCAAATGAATTTTGAAATAAGCTAAGCCTAATTTTT
1 TTTTCAAATGAATTTTGAAAGAAGTTAAGCCT-ATTTTT
133835 CAAATGAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
54 64 0.76
55 20 0.24
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (53 bp):
TTTTCAAATGAATTTTGAAAGAAGTTAAGCCTATTTTTAGGGGGTTCTTGATA
Found at i:133868 original size:35 final size:35
Alignment explanation
Indices: 133791--133868 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
133781 AGGGGGTTCT
*
133791 TGATGTTTTCAAATGAATTTTGAAATAAGCTAAGCC
1 TGAT-TTTTCAAATGAATTTTGAAATAAGCTAAGCA
*
133827 TAATTTTTCAAATGAATTTTGAAATAAGCTAAGCA
1 TGATTTTTCAAATGAATTTTGAAATAAGCTAAGCA
133862 TGATTTT
1 TGATTTT
133869 CAGGGGTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 36 0.92
36 3 0.08
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (35 bp):
TGATTTTTCAAATGAATTTTGAAATAAGCTAAGCA
Found at i:133877 original size:143 final size:144
Alignment explanation
Indices: 133686--133977 Score: 428
Period size: 143 Copynumber: 2.0 Consensus size: 144
133676 ATTAACTTGG
* * * * *
133686 TTTTTCAAAAGAATTTTTAAAGGAATCTAAGCCTAGTTTTTAGGGGTTTCTTGATATTTTCAAAT
1 TTTTTCAAAAGAATTTTGAAAGGAAGCTAAGCATAGTTTTCAGGGGTTTCTTGATATATTCAAAT
* * *
133751 GAATTTTGAAAGAAGT-TAAGCCTGATTTTTAGGGGGTTCTTGATGTTTTCAAATGAATTTTGAA
66 GAATTTTGAAAGAA-TCTAAGCCTAATTTTTAGGGGGTTCTTGATGTCTTCAAATGAATTTTAAA
133815 ATAAGCTAAGCCTAA
130 ATAAGCTAAGCCTAA
* * *
133830 TTTTTCAAATGAATTTTGAAA-TAAGCTAAGCAT-GATTTTCAGGGGTTTCTTGATGTATTCAAA
1 TTTTTCAAAAGAATTTTGAAAGGAAGCTAAGCATAG-TTTTCAGGGGTTTCTTGATATATTCAAA
* *
133893 TGAATTTTGAAAGAATCTAAGCCTAATTTTTAGGGGTTTCTTGATGTCTTCAAATGGATTTTAAA
65 TGAATTTTGAAAGAATCTAAGCCTAATTTTTAGGGGGTTCTTGATGTCTTCAAATGAATTTTAAA
133958 ATAAGCTAAGCCTAA
130 ATAAGCTAAGCCTAA
133973 TTTTT
1 TTTTT
133978 AAGGGTTTCT
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
142 2 0.02
143 112 0.84
144 19 0.14
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (144 bp):
TTTTTCAAAAGAATTTTGAAAGGAAGCTAAGCATAGTTTTCAGGGGTTTCTTGATATATTCAAAT
GAATTTTGAAAGAATCTAAGCCTAATTTTTAGGGGGTTCTTGATGTCTTCAAATGAATTTTAAAA
TAAGCTAAGCCTAA
Found at i:133891 original size:89 final size:89
Alignment explanation
Indices: 133742--133923 Score: 292
Period size: 89 Copynumber: 2.0 Consensus size: 89
133732 TTTCTTGATA
* * * *
133742 TTTTCAAATGAATTTTGAAAGAAGTTAAGCCTGATTTTTAGGGGGTTCTTGATGTTTTCAAATGA
1 TTTTCAAATGAATTTTGAAAGAAGCTAAGCATGATTTTCAGGGGGTTCTTGATGTATTCAAATGA
*
133807 ATTTTGAAATAAGCTAAGCCTAAT
66 ATTTTGAAAGAAGCTAAGCCTAAT
* *
133831 TTTTCAAATGAATTTTGAAATAAGCTAAGCATGATTTTCAGGGGTTTCTTGATGTATTCAAATGA
1 TTTTCAAATGAATTTTGAAAGAAGCTAAGCATGATTTTCAGGGGGTTCTTGATGTATTCAAATGA
*
133896 ATTTTGAAAGAATCTAAGCCTAAT
66 ATTTTGAAAGAAGCTAAGCCTAAT
133920 TTTT
1 TTTT
133924 AGGGGTTTCT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (89 bp):
TTTTCAAATGAATTTTGAAAGAAGCTAAGCATGATTTTCAGGGGGTTCTTGATGTATTCAAATGA
ATTTTGAAAGAAGCTAAGCCTAAT
Found at i:133897 original size:54 final size:54
Alignment explanation
Indices: 133833--134046 Score: 293
Period size: 54 Copynumber: 4.0 Consensus size: 54
133823 AGCCTAATTT
* * * *
133833 TTCAAATGAATTTTGAAATAAGCTAAGCATGATTTTCAGGGGTTTCTTGATGTA
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTA
* *
133887 TTCAAATGAATTTTGAAAGAATCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTA
* * * * *
133941 TTCAAATGGATTTTAAAATAAGCTAAGCCTAATTTTTAAGGGTTTCTTGATGTT
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTA
* * **
133995 TTCAAATAAATTTTTAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTTGATG
1 TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
134047 ATAACTGTAA
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 141 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTA
Found at i:133976 original size:108 final size:108
Alignment explanation
Indices: 133833--134046 Score: 331
Period size: 108 Copynumber: 2.0 Consensus size: 108
133823 AGCCTAATTT
* * * *
133833 TTCAAATGAATTTTGAAATAAGCTAAGCATGATTTTCAGGGGTTTCTTGATGTATTCAAATGAAT
1 TTCAAATGAATTTTAAAATAAGCTAAGCATAATTTTCAAGGGTTTCTTGATGTATTCAAATAAAT
133898 TTTGAAAG-AATCTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
66 TTTGAAAGAAAT-TAAGCCTAATTTTTAGGGGTTTCTTGATGTC
* * * *
133941 TTCAAATGGATTTTAAAATAAGCTAAGCCTAATTTTTAAGGGTTTCTTGATGTTTTCAAATAAAT
1 TTCAAATGAATTTTAAAATAAGCTAAGCATAATTTTCAAGGGTTTCTTGATGTATTCAAATAAAT
*
134006 TTTTAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTTGATG
66 TTTGAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTTGATG
134047 ATAACTGTAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 93 0.97
109 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (108 bp):
TTCAAATGAATTTTAAAATAAGCTAAGCATAATTTTCAAGGGTTTCTTGATGTATTCAAATAAAT
TTTGAAAGAAATTAAGCCTAATTTTTAGGGGTTTCTTGATGTC
Found at i:134794 original size:18 final size:18
Alignment explanation
Indices: 134760--134797 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
134750 CCAGGAAGAG
*
134760 AATGAAGACTTCCCTTGC
1 AATGAAGACATCCCTTGC
134778 AATGAAGA-ATCCTCTTGC
1 AATGAAGACATCC-CTTGC
134796 AA
1 AA
134798 CCATTCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (18 bp):
AATGAAGACATCCCTTGC
Found at i:135005 original size:37 final size:37
Alignment explanation
Indices: 134964--135035 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
134954 TCTTAATATC
**
134964 ATTTTTCTAGAAAATTGTTTGAGTCCTTCTTAGGACT
1 ATTTTTCTAGAAAATCATTTGAGTCCTTCTTAGGACT
* * **
135001 ATTTTTCTGGGATGTCATTTGAGTCCTTCTTAGGA
1 ATTTTTCTAGAAAATCATTTGAGTCCTTCTTAGGA
135036 TTGTCTCCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (37 bp):
ATTTTTCTAGAAAATCATTTGAGTCCTTCTTAGGACT
Found at i:135429 original size:42 final size:42
Alignment explanation
Indices: 135318--135471 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
135308 TTAGCTCGTT
* * * ** *
135318 TCCATCACATAAGGAGTTGGAACAACACCGA-C-CTTGGCTCA
1 TCCATCACATAAGGAGTTGGATCAACATC-ATCATTTCACTCG
* * ** *
135359 TCCATCATATAAGGA-TTGGATCAGCATCATCATTTTGCTGG
1 TCCATCACATAAGGAGTTGGATCAACATCATCATTTCACTCG
* *
135400 TGCATCACATAAGAAGTTGGATCAACATCATCATTTCACTCG
1 TCCATCACATAAGGAGTTGGATCAACATCATCATTTCACTCG
135442 TCCATCACATAAGGAGTTGGATCAACATCA
1 TCCATCACATAAGGAGTTGGATCAACATCA
135472 CCTTGGATCA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 11 0.12
41 31 0.33
42 50 0.54
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
TCCATCACATAAGGAGTTGGATCAACATCATCATTTCACTCG
Found at i:136435 original size:35 final size:35
Alignment explanation
Indices: 136395--136463 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
136385 AGTATCCTCT
*
136395 TTCATTCA-ATAAAGCTAGTTGACTAATTAAACTAA
1 TTCATTCATATAAA-CTAGTTCACTAATTAAACTAA
* * *
136430 TTCATTCATTTAAACTGGTTCATTAATTAAACTA
1 TTCATTCATATAAACTAGTTCACTAATTAAACTA
136464 GCTCTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.39
Consensus pattern (35 bp):
TTCATTCATATAAACTAGTTCACTAATTAAACTAA
Found at i:136442 original size:18 final size:17
Alignment explanation
Indices: 136418--136463 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
136408 GCTAGTTGAC
136418 TAATTAAACTAATTCAT
1 TAATTAAACTAATTCAT
* **
136435 TCATTTAAACTGGTTCAT
1 T-AATTAAACTAATTCAT
136453 TAATTAAACTA
1 TAATTAAACTA
136464 GCTCTTTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (17 bp):
TAATTAAACTAATTCAT
Found at i:138981 original size:21 final size:19
Alignment explanation
Indices: 138935--138988 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
138925 GTTTGCAAAA
138935 AAGAAAAAGAAA-TGAGAG
1 AAGAAAAAGAAATTGAGAG
**
138953 TTGAAAAAGAAATTGAGAGCG
1 AAGAAAAAGAAATTGAGA--G
138974 AAGAAAAAGAAATTG
1 AAGAAAAAGAAATTG
138989 TAGTTAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 5 0.17
21 14 0.48
ACGTcount: A:0.59, C:0.02, G:0.26, T:0.13
Consensus pattern (19 bp):
AAGAAAAAGAAATTGAGAG
Found at i:140150 original size:35 final size:35
Alignment explanation
Indices: 140110--140179 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
140100 GGTATCCTCT
*
140110 TTCATTCA-ATAAAGCTAGTTGACTAATTAAACTAG
1 TTCATTCATATAAA-CTAGTTCACTAATTAAACTAG
* * *
140145 TTCATTCATTTAAACTGGTTCATTAATTAAACTAG
1 TTCATTCATATAAACTAGTTCACTAATTAAACTAG
140180 CTCTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (35 bp):
TTCATTCATATAAACTAGTTCACTAATTAAACTAG
Found at i:140157 original size:18 final size:17
Alignment explanation
Indices: 140110--140179 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
140100 GGTATCCTCT
140110 TTCATTCAA-TAAAGCTAG
1 TTCATT-AATTAAA-CTAG
* *
140128 TTGACTAATTAAACTAG
1 TTCATTAATTAAACTAG
* *
140145 TTCATTCATTTAAACTGG
1 TTCATT-AATTAAACTAG
140163 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
140180 CTCTTTATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 19 0.45
18 23 0.55
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:140640 original size:24 final size:24
Alignment explanation
Indices: 140589--140641 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
140579 TCAAAGCATT
**
140589 CAAGGCTGATTTAATCATCCAATT
1 CAAGGCTGATTTAATCATCCAAAC
*
140613 CAAGGTTGATTTAATCAAT-CAAAC
1 CAAGGCTGATTTAATC-ATCCAAAC
140637 CAAGG
1 CAAGG
140642 GTTGTTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (24 bp):
CAAGGCTGATTTAATCATCCAAAC
Found at i:143608 original size:137 final size:138
Alignment explanation
Indices: 143450--143737 Score: 366
Period size: 137 Copynumber: 2.1 Consensus size: 138
143440 TCGATAGTTC
* * * *
143450 ATAATTGATTAAAATTAATTAGGATTAAGATTAGAGCCTCCATCTTATGCCTAATTTCATATTTA
1 ATAATTGATTAAAACTAATTAGAATTAAGATTAGAGCCTCCATCTTAGGCCTAATTTCACATTTA
* * * * * **
143515 ATGCTTAAATTA-TATGAGTTCTTAATTTGGTCTTTGCTTTTGCTCGAGATTCCAATTTAATTAT
66 ATCCTTAAATTAGGA-GAATTCTTAATTTGATCCTCACTTTTGCTCGAGATTCCAATTTAATTAT
143579 TTGAAT-CA
130 TTGAATGCA
* * ** *
143587 ATAATTGATTAAAGCTGATTAGAATTAATTTTAGAGCCTCCATCTTAGGCCTAATTTCACCTTTA
1 ATAATTGATTAAAACTAATTAGAATTAAGATTAGAGCCTCCATCTTAGGCCTAATTTCACATTTA
* *
143652 GTCCTTAAATTAGGAGAATTCTTAATTTGATCCTCACTTTTGCTCGAGATTCCACTTTAATTATT
66 ATCCTTAAATTAGGAGAATTCTTAATTTGATCCTCACTTTTGCTCGAGATTCCAATTTAATTATT
*
143717 TGATTGCA
131 TGAATGCA
*
143725 AT-ATTAATTAAAA
1 ATAATTGATTAAAA
143738 ATATTTTAAG
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
137 123 0.96
138 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (138 bp):
ATAATTGATTAAAACTAATTAGAATTAAGATTAGAGCCTCCATCTTAGGCCTAATTTCACATTTA
ATCCTTAAATTAGGAGAATTCTTAATTTGATCCTCACTTTTGCTCGAGATTCCAATTTAATTATT
TGAATGCA
Found at i:147976 original size:21 final size:21
Alignment explanation
Indices: 147952--147992 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
147942 CAATTGTGGG
147952 TATTCAATGTTGAATTTTAAT
1 TATTCAATGTTGAATTTTAAT
* *
147973 TATTGAATGTTGGATTTTAA
1 TATTCAATGTTGAATTTTAA
147993 GTTAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (21 bp):
TATTCAATGTTGAATTTTAAT
Found at i:154875 original size:113 final size:113
Alignment explanation
Indices: 154677--154904 Score: 438
Period size: 113 Copynumber: 2.0 Consensus size: 113
154667 ATTAAAAAGA
*
154677 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATTAGAAAATGATTTGGAATATTGTTT
1 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
154742 TGAACTAAATTATATAGAAAGATGAATAAAGAGGGCATTTTGGTCATT
66 TGAACTAAATTATATAGAAAGATGAATAAAGAGGGCATTTTGGTCATT
154790 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
1 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
*
154855 TGAACTAAATTGTATAGAAAGATGAATAAAGAGGGCATTTTGGTCATT
66 TGAACTAAATTATATAGAAAGATGAATAAAGAGGGCATTTTGGTCATT
154903 TT
1 TT
154905 AGGGGAAAAT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (113 bp):
TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
TGAACTAAATTATATAGAAAGATGAATAAAGAGGGCATTTTGGTCATT
Found at i:156008 original size:54 final size:54
Alignment explanation
Indices: 155948--156248 Score: 413
Period size: 54 Copynumber: 5.6 Consensus size: 54
155938 TTACCAAATA
* *
155948 GCACTAAGTGTTCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
* *
156002 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
* * * * * **
156056 GCACTAAGTGTTCATTTCACAGAATTTATACTACATGGATGAATAATTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
* * * *
156110 ACACTAAGTGTGCATTTAACGGAATTCATCCTACGTGGATGAATAATCATTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
*
156164 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
* * * *
156218 GCACTATGTATGCAAATCCACGGAATTCATC
1 GCACTAAGTGTGC-ATTTCACGGAATTCATC
156249 ATGAGTTGAT
Statistics
Matches: 217, Mismatches: 29, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
54 202 0.93
55 15 0.07
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCG
Found at i:156668 original size:46 final size:46
Alignment explanation
Indices: 156605--156870 Score: 311
Period size: 46 Copynumber: 5.8 Consensus size: 46
156595 TGTATAACGT
156605 TGTATA-AAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
* * * * *
156650 TGTATAGAAGGGCGTGAAAGGGTGCCATAAGTGAAATGTATAATTG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
* *
156696 TGTATAGAAGGGCATGAAAGGATGACATAAATGAAATGTATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
** * **
156742 CATATAGAAGGGCATAAAAGGATGCCATAAATGAAACCTATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
* * * * * * *
156788 CGTATAAAAGGGCATGAAAGAATGCCATAAATTAAACATGTAATCG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
* * *
156834 AT-TATAAAAGGGCATGAAAGGATGTCATAAATAAAAT
1 -TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAAT
156871 GCATATGGGT
Statistics
Matches: 190, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
45 6 0.03
46 184 0.97
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (46 bp):
TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
Found at i:156863 original size:138 final size:137
Alignment explanation
Indices: 156607--156871 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 137
156597 TATAACGTTG
* * * * * **
156607 TATAAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAGTGTATAGAAGGGCGTGAAAGGG
1 TATAAAGGGCATAAAAGGATGCCATAAATGAAACATATAATAGCGTATAAAAGGGCATGAAAGAA
* ** * * *
156672 TGCCATAAGTGAAATGTATAATTGTGTATAGAAGGGCATGAAAGGATGACATAAATGAAATGTAT
66 TGCCATAAATGAAACATATAATCGTGTATAAAAGGGCATGAAAGGATGACATAAATAAAATGTAT
156737 AATAGCA
131 AATAGCA
*
156744 TATAGAAGGGCATAAAAGGATGCCATAAATGAAACCTATAATAGCGTATAAAAGGGCATGAAAGA
1 TATA-AAGGGCATAAAAGGATGCCATAAATGAAACATATAATAGCGTATAAAAGGGCATGAAAGA
* * *
156809 ATGCCATAAATTAAACATGTAATCGAT-TATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
65 ATGCCATAAATGAAACATATAATCG-TGTATAAAAGGGCATGAAAGGATGACATAAATAAAATG
156872 CATATGGGTG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
137 4 0.04
138 104 0.95
139 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (137 bp):
TATAAAGGGCATAAAAGGATGCCATAAATGAAACATATAATAGCGTATAAAAGGGCATGAAAGAA
TGCCATAAATGAAACATATAATCGTGTATAAAAGGGCATGAAAGGATGACATAAATAAAATGTAT
AATAGCA
Found at i:156899 original size:45 final size:45
Alignment explanation
Indices: 156845--157002 Score: 133
Period size: 45 Copynumber: 3.5 Consensus size: 45
156835 TTATAAAAGG
*
156845 GCATGAAAGGATGTC-ATAAATAAAATGCATATGGGTGCATTATCA
1 GCATGAAAGGATGTCAATAAATAAAATGCATAT-GGTGCATTATAA
* * * * *
156890 GCATGAAAGGAT-ACTATAATTGAAATGCATATAGGTGCATTATTA
1 GCATGAAAGGATGTCAATAAATAAAATGCATAT-GGTGCATTATAA
* ** * *
156935 GCATGAAAGAATG-CCGTATATAAAAATTCATAATGGTGCATTATAA
1 GCATGAAAGGATGTCAATAAAT-AAAATGCAT-ATGGTGCATTATAA
* *
156981 GTATGAATGGATGCTCAATAAA
1 GCATGAAAGGATG-TCAATAAA
157003 AATAAAGAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.01
45 53 0.60
46 28 0.32
47 2 0.02
48 4 0.05
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGAAAGGATGTCAATAAATAAAATGCATATGGTGCATTATAA
Found at i:160780 original size:22 final size:22
Alignment explanation
Indices: 160753--160796 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
160743 TAACATAGCA
*
160753 TAGTATCGGTACCATAGTATGG
1 TAGTATCGATACCATAGTATGG
*
160775 TAGTATCGATACCATGGTATGG
1 TAGTATCGATACCATAGTATGG
160797 GTATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
TAGTATCGATACCATAGTATGG
Found at i:160806 original size:20 final size:21
Alignment explanation
Indices: 160762--160806 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
160752 ATAGTATCGG
*
160762 TACCATAGTATGGTAGTATCGA
1 TACCATAGTATGG-AGTATCAA
*
160784 TACCATGGTATGG-GTATCAA
1 TACCATAGTATGGAGTATCAA
160804 TAC
1 TAC
160807 TGAGGAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
TACCATAGTATGGAGTATCAA
Found at i:161194 original size:54 final size:54
Alignment explanation
Indices: 161125--161462 Score: 444
Period size: 54 Copynumber: 6.3 Consensus size: 54
161115 TTACCAAATA
* * * * *
161125 GGCATTAAGTATGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
161179 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* * * * * * *
161233 GGCACTGAGTGTGCATTTTACGGAATTTATCCTACATGGATGAATAATCGTTCC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* ** * * *
161287 GGCATTAAGTGTGCATTTCACATAATTCATCTTACGTGGAGGAATAACCAATTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* * **
161341 GACACTAAGTGTACATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* *
161395 GGTACTAAGTGTGCA-TTCACGGAATTCATCCTACTTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
*
161448 GGCACTATGTGTGCA
1 GGCACTAAGTGTGCA
161463 AATCCACAGA
Statistics
Matches: 241, Mismatches: 43, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
53 48 0.20
54 193 0.80
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
Found at i:161497 original size:55 final size:55
Alignment explanation
Indices: 161450--161555 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
161440 ACCATTTCGG
* *
161450 CACTATGTGTGCAAATCCAC-AGAATTCATCATGAGTTAATGAGTAACCGTACAGA
1 CACTATGTGTGCAAATCCACGA-AATTCATAATGAGTTAATGAATAACCGTACAGA
* * *
161505 CACTATGTGTGCGAATCCACGAAATTCTTAATGAGTTGATGAACT-ACCGTA
1 CACTATGTGTGCAAATCCACGAAATTCATAATGAGTTAATGAA-TAACCGTA
161556 TAGGTACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 42 0.95
56 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (55 bp):
CACTATGTGTGCAAATCCACGAAATTCATAATGAGTTAATGAATAACCGTACAGA
Found at i:162109 original size:46 final size:46
Alignment explanation
Indices: 161897--162109 Score: 291
Period size: 46 Copynumber: 4.6 Consensus size: 46
161887 ACGTTGTCTA
* * * *
161897 AAGGGCGTGAAAGGATGACATAAATAAAATGTATAATAACTTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* *
161943 AAGGGCGTGAAAGGATGTCATAAATGAAATGTATAATAACGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* * * * *
161989 AAAGGCATAAAAGAATGCCATAAATAAAATGTATAATAGCGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* *
162035 AAGGGCATGAAAGGATGCCATAAATGAAATGTGTAATAGCGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* *
162081 AAGGGCATGAAAGGATACCATAATTGAAA
1 AAGGGCATGAAAGGATGCCATAAATGAAA
162110 AGCATATGGG
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 150 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.22
Consensus pattern (46 bp):
AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
Done.