Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007953.1 Hibiscus syriacus cultivar Beakdansim tig00110378_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: 794529
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:1676 original size:16 final size:16
Alignment explanation
Indices: 1655--1685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1645 TATTAGTCTT
*
1655 TTAAATATATTGTTTA
1 TTAAATAGATTGTTTA
1671 TTAAATAGATTGTTT
1 TTAAATAGATTGTTT
1686 TGGTCATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTAAATAGATTGTTTA
Found at i:2267 original size:21 final size:21
Alignment explanation
Indices: 2241--2288 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2231 GACTTAACAA
2241 TGGTATCGACACCTCACCCTT
1 TGGTATCGACACCTCACCCTT
2262 TGGTATCGACACCTCACCCTT
1 TGGTATCGACACCTCACCCTT
2283 TGGTAT
1 TGGTAT
2289 GAACTTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (21 bp):
TGGTATCGACACCTCACCCTT
Found at i:2843 original size:16 final size:16
Alignment explanation
Indices: 2822--2855 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2812 TACAATCCTC
2822 GGTATCGATACCAAAG
1 GGTATCGATACCAAAG
2838 GGTATCGATACCAAAG
1 GGTATCGATACCAAAG
2854 GG
1 GG
2856 CTGATATAGA
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:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (16 bp):
GGTATCGATACCAAAG
Found at i:4323 original size:287 final size:285
Alignment explanation
Indices: 3785--4362 Score: 1032
Period size: 287 Copynumber: 2.0 Consensus size: 285
3775 AGTTTGATAT
*
3785 TCATTTAAACAAGTTTCAAGTTCGAGTCCTTCTATATGCAGAAAATCCCCACTGGAGATTCACTC
1 TCATTTAAACAAGTTTCAAGTTCGAGTCCTTATATATGCAGAAAATCCCCACTGGAGATTCACTC
* *
3850 ACCAAAGCTAGAAGTGCGACCTAGGTCGGTATGGATTAATTAAGGCAGAAGCCTTGGGAACCTAA
66 ACCAAAGCTAGAAGTGCGACCTAGGTCGGTATGAATTAATCAAGGCAGAAGCCTTGGGAACCTAA
*
3915 AGGTAAAAAAAGGACAAAGCACTCTAGGGGAAAAAGGTTGCTTTAGTGGAAATGTACAATCCAAT
131 AGGTAAAAAAAGGACAAAGCACTCTAGGGGAAAAAGGTTGCTTTAGTGGAAATGTACAACCCAAT
*
3980 AACCAAGCTTGGTTGAGTTTCAAAACCACACCCGCCTTTAAATTTGAACTATTAACAATTCACTC
196 AACCAAGCTTGGTTGAGTTTCAAAACCACACCCACCTTTAAATTTGAACTATTAACAATTCACTC
4045 CCCCTCCCTTGTAAAAATTTATAGA
261 CCCCTCCCTTGTAAAAATTTATAGA
4070 TCATTTAAACAAGTTTCAAGTTCGAGTCCTTATATATGCAGAAAATCCCCACTGGAGATTCACTC
1 TCATTTAAACAAGTTTCAAGTTCGAGTCCTTATATATGCAGAAAATCCCCACTGGAGATTCACTC
* * * *
4135 ACCAAA-ATCAGAAGTGCGACCTAGGTCGGTCTGAATTAATCAAGGTAGAAGTCTTGGGAACCTA
66 ACCAAAGCT-AGAAGTGCGACCTAGGTCGGTATGAATTAATCAAGGCAGAAGCCTTGGGAACCTA
4199 AAGGTAAAAAAAAAGGACAAAGCACTCTAGGGGAAAAAGGTTGCTTTAGTGGAAATGTACAACCC
130 AAGGT--AAAAAAAGGACAAAGCACTCTAGGGGAAAAAGGTTGCTTTAGTGGAAATGTACAACCC
*
4264 AATAACCAAGCTTGGTTGAGTTTCAAACCCACACCCACCTTTAAATTTGAACTATTAACAATTCA
193 AATAACCAAGCTTGGTTGAGTTTCAAAACCACACCCACCTTTAAATTTGAACTATTAACAATTCA
4329 CTCCCCCTCCCTTGTAAAAATTTATAGA
258 CTCCCCCTCCCTTGTAAAAATTTATAGA
4357 TCATTT
1 TCATTT
4363 GAGGACCAAA
Statistics
Matches: 280, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
284 1 0.00
285 125 0.45
287 154 0.55
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (285 bp):
TCATTTAAACAAGTTTCAAGTTCGAGTCCTTATATATGCAGAAAATCCCCACTGGAGATTCACTC
ACCAAAGCTAGAAGTGCGACCTAGGTCGGTATGAATTAATCAAGGCAGAAGCCTTGGGAACCTAA
AGGTAAAAAAAGGACAAAGCACTCTAGGGGAAAAAGGTTGCTTTAGTGGAAATGTACAACCCAAT
AACCAAGCTTGGTTGAGTTTCAAAACCACACCCACCTTTAAATTTGAACTATTAACAATTCACTC
CCCCTCCCTTGTAAAAATTTATAGA
Found at i:12703 original size:23 final size:23
Alignment explanation
Indices: 12673--12736 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
12663 CAGCTCATAT
12673 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACTGAAGTGCCACGTAG
* * *
12696 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACTGAAGTGCCACGTAG
* *
12719 AATTTCACTGTAGTGCCA
1 AATTGCACTGAAGTGCCA
12737 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (23 bp):
AATTGCACTGAAGTGCCACGTAG
Found at i:12925 original size:103 final size:103
Alignment explanation
Indices: 12752--12969 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
12742 TAATGTCCAT
* *
12752 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
12817 GACTTCACACCTGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
12855 AAGGACCGCATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
12920 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
12958 AAGGACCACATA
1 AAGGACCACATA
12970 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:13278 original size:23 final size:24
Alignment explanation
Indices: 13234--13278 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
13224 CATAACATTT
13234 CTCATGTGTTCATATTACATGTAA
1 CTCATGTGTTCATATTACATGTAA
*
13258 CTCAT-TG-TCATCTTATCATGT
1 CTCATGTGTTCATATTA-CATGT
13279 TATCACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (24 bp):
CTCATGTGTTCATATTACATGTAA
Found at i:13833 original size:64 final size:64
Alignment explanation
Indices: 13721--13941 Score: 254
Period size: 64 Copynumber: 3.5 Consensus size: 64
13711 TAATGAAGGT
* * * * *
13721 ATGCATCGATGCACTACTGATGCATCGATGCA-TAAAATGTATTTGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
13784 G
64 G
*
13785 ATGCATCGATGCA-TGACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
13849 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
13912 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
13942 ACACCTTCAA
Statistics
Matches: 138, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.03
64 128 0.93
65 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:18523 original size:23 final size:23
Alignment explanation
Indices: 18493--18556 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
18483 CAACTCATAT
*
18493 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
18516 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
18539 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
18557 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:18757 original size:105 final size:103
Alignment explanation
Indices: 18564--18791 Score: 377
Period size: 105 Copynumber: 2.2 Consensus size: 103
18554 CCATATAATA
* *
18564 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
*
18628 GTCTCACCAGACTTCACACCTGTTCCAAAGAATACATAT
65 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
18667 ATGTCCCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATG
1 ATGT--CCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATG
18732 TGTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
64 TGTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
18772 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
18792 GACCCTCGAC
Statistics
Matches: 117, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
103 19 0.16
105 95 0.81
106 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:19635 original size:64 final size:64
Alignment explanation
Indices: 19527--19747 Score: 254
Period size: 64 Copynumber: 3.5 Consensus size: 64
19517 TAATGAAGGT
* * * * *
19527 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
19590 G
64 G
*
19591 ATGCATCGATGCA-TGACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
19655 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
19718 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
19748 ACACCTTCAA
Statistics
Matches: 138, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.03
64 128 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:22878 original size:17 final size:17
Alignment explanation
Indices: 22856--22894 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
22846 GGCCCCCATA
22856 ACATAGTAAAACTGAAC
1 ACATAGTAAAACTGAAC
22873 ACATAGTAAAACTGAAC
1 ACATAGTAAAACTGAAC
22890 ACATA
1 ACATA
22895 TGGGACAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (17 bp):
ACATAGTAAAACTGAAC
Found at i:30662 original size:20 final size:20
Alignment explanation
Indices: 30637--30691 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
30627 TTGGGGCCTG
30637 ATGGTATCGATACTATGCTC
1 ATGGTATCGATACTATGCTC
*
30657 ATGGTATCGATGCTATGCTC
1 ATGGTATCGATACTATGCTC
30677 ATGGTATCGATACTA
1 ATGGTATCGATACTA
30692 CTATGCAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
ATGGTATCGATACTATGCTC
Found at i:38557 original size:18 final size:19
Alignment explanation
Indices: 38536--38575 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
38526 TGTTTTAACC
38536 CTTAATAATATATAA-ATA
1 CTTAATAATATATAACATA
*
38554 CTTAATAGTATATAACATA
1 CTTAATAATATATAACATA
38573 CTT
1 CTT
38576 CTAAGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (19 bp):
CTTAATAATATATAACATA
Found at i:39350 original size:35 final size:35
Alignment explanation
Indices: 39299--39366 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
39289 ACTGCATTTG
* * *
39299 TATTTAAAATTTTAACATATCTGTAATAATTAACT
1 TATTTAAAATTCTAACAAATCTATAATAATTAACT
39334 TATTTAAAATTCTAACAAATCTATAATAATTAA
1 TATTTAAAATTCTAACAAATCTATAATAATTAA
39367 GTAACTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (35 bp):
TATTTAAAATTCTAACAAATCTATAATAATTAACT
Found at i:43598 original size:19 final size:18
Alignment explanation
Indices: 43567--43609 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
43557 AATAATTTTT
*
43567 TTAAAATTATAAAAATTA
1 TTAAAATTATAAAAATAA
43585 TTAAAATATATAAAAATAA
1 TTAAAAT-TATAAAAATAA
43604 TTAAAA
1 TTAAAA
43610 AAATGTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAATTATAAAAATAA
Found at i:43895 original size:38 final size:37
Alignment explanation
Indices: 43817--43896 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 37
43807 CAAAAATCAT
* *
43817 AAAATATTAAAGAATAAATAATAGTGAAAATGAAAGA
1 AAAATATTAAACAATAAATAATAGTGAAAATGAAAAA
43854 AAAATATTAAACAATTAAA-AATAGTAGAAAAT-ATAAAA
1 AAAATATTAAACAA-TAAATAATAGT-GAAAATGA-AAAA
43892 AAAAT
1 AAAAT
43897 TATAAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
37 20 0.53
38 18 0.47
ACGTcount: A:0.68, C:0.01, G:0.09, T:0.23
Consensus pattern (37 bp):
AAAATATTAAACAATAAATAATAGTGAAAATGAAAAA
Found at i:44973 original size:32 final size:35
Alignment explanation
Indices: 44903--44979 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
44893 ATTTAATTTT
**
44903 ATAATATTTTTATATTTAATATATTAAATATCTTA
1 ATAATATTTTTATATTTAATATATTAAATATCAAA
* *
44938 ATAATTTTTTTATATTT-ATATTTTAAAT-T-AAA
1 ATAATATTTTTATATTTAATATATTAAATATCAAA
44970 ATAATATTTT
1 ATAATATTTT
44980 AATTTTTCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 10 0.27
33 1 0.03
34 10 0.27
35 16 0.43
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (35 bp):
ATAATATTTTTATATTTAATATATTAAATATCAAA
Found at i:45593 original size:23 final size:23
Alignment explanation
Indices: 45553--45604 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
45543 TAAAAAATGG
*
45553 AAAACAAAAATTATTTTTTAAAAT
1 AAAACAAAAATTA-GTTTTAAAAT
*
45577 AAAATAAAAA-TAGTTTTAAAAT
1 AAAACAAAAATTAGTTTTAAAAT
*
45599 CAAACA
1 AAAACA
45605 GACCCTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 13 0.54
23 2 0.08
24 9 0.38
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAACAAAAATTAGTTTTAAAAT
Found at i:46690 original size:27 final size:28
Alignment explanation
Indices: 46650--46703 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
46640 ATGGGTAATC
*
46650 AAAGAATAATAATAATTCCTTTACCACA
1 AAAGAATAACAATAATTCCTTTACCACA
*
46678 AAAG-ATAACAATAATTCTTTTACCAC
1 AAAGAATAACAATAATTCCTTTACCAC
46704 GAAGACCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAGAATAACAATAATTCCTTTACCACA
Found at i:52506 original size:20 final size:20
Alignment explanation
Indices: 52470--52509 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52460 TGTTTGAATC
*
52470 AAATTAATTAGATATTATTT
1 AAATTAATTAGAAATTATTT
52490 AAATTAATT-GTAAATTATTT
1 AAATTAATTAG-AAATTATTT
52510 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATTAATTAGAAATTATTT
Found at i:62872 original size:16 final size:16
Alignment explanation
Indices: 62847--62888 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
62837 TGAAATATTA
62847 GCAAAGTTGAAAGTTG
1 GCAAAGTTGAAAGTTG
*
62863 GCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTG
62879 GCAAAGTTGA
1 GCAAAGTTGA
62889 CATCTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.24
Consensus pattern (16 bp):
GCAAAGTTGAAAGTTG
Found at i:78504 original size:24 final size:20
Alignment explanation
Indices: 78451--78508 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
78441 TCCCCTTTGA
*
78451 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
78471 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
78494 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
78509 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:81514 original size:12 final size:12
Alignment explanation
Indices: 81493--81543 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
81483 ACCTGAAAAG
*
81493 ACAAGGAAAATA
1 ACAAGTAAAATA
81505 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
*
81518 TACAA-AAAAATGA
1 -ACAAGTAAAAT-A
81531 ACAAGTAAAATA
1 ACAAGTAAAATA
81543 A
1 A
81544 AAATGCTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:86717 original size:17 final size:17
Alignment explanation
Indices: 86695--86727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86685 TTTCCTAACT
86695 TTCTTTTCTATTATATG
1 TTCTTTTCTATTATATG
*
86712 TTCTTTTCTTTTATAT
1 TTCTTTTCTATTATAT
86728 ACTGTCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (17 bp):
TTCTTTTCTATTATATG
Found at i:87118 original size:74 final size:74
Alignment explanation
Indices: 86997--87143 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
86987 ATGCAACATG
* *
86997 CAATGGGCTTATATGTATCATCATAGAATCATTTATTAATTTGTGTTTGATAATTGTAAAATATA
1 CAATGGGCTTATATATATCATCATAGAATCATTCATTAATTTGTGTTTGATAATTGTAAAATATA
87062 TGATAATTA
66 TGATAATTA
87071 CAATGGGCTTATATATATCATCATAGAATCATTCATTAATTTGTGTTTGATAATTGTAAAATATA
1 CAATGGGCTTATATATATCATCATAGAATCATTCATTAATTTGTGTTTGATAATTGTAAAATATA
87136 TGATAATT
66 TGATAATT
87144 GTAATTATCT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (74 bp):
CAATGGGCTTATATATATCATCATAGAATCATTCATTAATTTGTGTTTGATAATTGTAAAATATA
TGATAATTA
Found at i:87199 original size:35 final size:35
Alignment explanation
Indices: 87150--87235 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
87140 AATTGTAATT
* * * *
87150 ATCTAATATATGTAAATATCTTATAACTGAAAATC
1 ATCTGATATCTGTAAATATCTGAAAACTGAAAATC
*
87185 ATCTGATATCTGTAAATATCTGAAAATTGAAAATC
1 ATCTGATATCTGTAAATATCTGAAAACTGAAAATC
*
87220 ATCTGATAACTGTAAA
1 ATCTGATATCTGTAAA
87236 CATTTAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (35 bp):
ATCTGATATCTGTAAATATCTGAAAACTGAAAATC
Found at i:87207 original size:17 final size:17
Alignment explanation
Indices: 87129--87235 Score: 74
Period size: 17 Copynumber: 6.2 Consensus size: 17
87119 GATAATTGTA
*
87129 AAATATATGATAAT-TGT
1 AAATATCTGAT-ATCTGT
* * *
87146 AATTATCTAATATATGT
1 AAATATCTGATATCTGT
* * *
87163 AAATATCTTATAACTGA
1 AAATATCTGATATCTGT
87180 AAATCATCTGATATCTGT
1 AAAT-ATCTGATATCTGT
* *
87198 AAATATCTGAAAAT-TGA
1 AAATATCTG-ATATCTGT
*
87215 AAATCATCTGATAACTGT
1 AAAT-ATCTGATATCTGT
87233 AAA
1 AAA
87236 CATTTAGAAT
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
16 2 0.03
17 40 0.58
18 27 0.39
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATATCTGATATCTGT
Found at i:92483 original size:15 final size:17
Alignment explanation
Indices: 92465--92504 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
92455 ACTACTATTA
92465 TTTATTATT-TTAT-CT
1 TTTATTATTATTATACT
92480 TTTATT-TTATTATACCT
1 TTTATTATTATTATA-CT
92497 TTTATTAT
1 TTTATTAT
92505 ACCTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 10 0.48
17 8 0.38
18 1 0.05
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTATACT
Found at i:92513 original size:11 final size:12
Alignment explanation
Indices: 92484--92510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
92474 TTATCTTTTA
92484 TTTTATTATACC
1 TTTTATTATACC
92496 TTTTATTATACC
1 TTTTATTATACC
92508 TTT
1 TTT
92511 ATTTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATTATACC
Found at i:92719 original size:5 final size:5
Alignment explanation
Indices: 92709--92738 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
92699 AACACTTCTT
92709 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
92739 CTCTTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:92801 original size:16 final size:15
Alignment explanation
Indices: 92782--92855 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
92772 CTTTTCTGAA
92782 ATTTAATATTTTCTTC
1 ATTTAATATTTT-TTC
*
92798 ATTTATTTATTTTTTC
1 ATTTA-ATATTTTTTC
* *
92814 TTTTAACATTTTTT-
1 ATTTAATATTTTTTC
* * *
92828 ATATAACATTTTTTTAA
1 ATTTAATA-TTTTTT-C
92845 ATTTAATATTT
1 ATTTAATATTT
92856 CATTCTTTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
14 6 0.13
15 13 0.28
16 15 0.33
17 12 0.26
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTAATATTTTTTC
Found at i:102154 original size:27 final size:27
Alignment explanation
Indices: 102097--102155 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
102087 GATGTTTTTA
* * * *
102097 TTTATGTTATTTGGATGCTTATTATGG
1 TTTATGATATTTGGATACTTATGATAG
* *
102124 TTTATGATATTTGGATATTTATGATAT
1 TTTATGATATTTGGATACTTATGATAG
102151 TTTAT
1 TTTAT
102156 ATTTTGAGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.58
Consensus pattern (27 bp):
TTTATGATATTTGGATACTTATGATAG
Found at i:102468 original size:24 final size:23
Alignment explanation
Indices: 102425--102470 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
102415 TTTAAAGAAA
102425 TTTTAAGATTATTTTCGATTCAG
1 TTTTAAGATTATTTTCGATTCAG
*
102448 TTTTCAAGTTTATATTT-GATTCA
1 TTTT-AAGATTAT-TTTCGATTCA
102471 ATCGTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 13 0.65
25 3 0.15
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (23 bp):
TTTTAAGATTATTTTCGATTCAG
Found at i:109187 original size:14 final size:14
Alignment explanation
Indices: 109168--109200 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
109158 TTATAAAAAA
*
109168 TAAAATAAAATATT
1 TAAAATAAAATATC
109182 TAAAATAAAATATC
1 TAAAATAAAATATC
109196 TAAAA
1 TAAAA
109201 GATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATAAAATATC
Found at i:109271 original size:12 final size:12
Alignment explanation
Indices: 109251--109342 Score: 57
Period size: 12 Copynumber: 7.7 Consensus size: 12
109241 GAAACTTTTA
*
109251 TTTAGATTATAT
1 TTTATATTATAT
109263 TTTATATTATAT
1 TTTATATTATAT
** *
109275 AGTATAGTATATAA
1 TTTATA-T-TATAT
* *
109289 TATATAGTATAT
1 TTTATATTATAT
*
109301 ATTATATTATA-
1 TTTATATTATAT
109312 -TTATATTATA-
1 TTTATATTATAT
109322 -TTATATTATAT
1 TTTATATTATAT
109333 ATTTAGTATT
1 -TTTA-TATT
109343 TTATCATACT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
10 20 0.32
12 27 0.43
13 4 0.06
14 12 0.19
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:109274 original size:5 final size:5
Alignment explanation
Indices: 109264--109442 Score: 102
Period size: 5 Copynumber: 34.8 Consensus size: 5
109254 AGATTATATT
* *
109264 TTATA TTATA TAGTATA GTATA TAATA -TATA GTATATA TTATA TTATA
1 TTATA TTATA T--TATA TTATA TTATA TTATA -T-TATA TTATA TTATA
* * *
109312 TTATA TTATA TTATA TTATA -TAT- TTAGTA TTTTA TCATA CTTATA -TATG
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA -TTATA TTATA
* * * * *
109361 GTA-A TATATA TTATAA GTATA GTATA TTTTA TAATA TTATA -T-TA TTATTA
1 TTATA T-TATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA
*
109411 TTATTA TTATA TTAGTA TTATA ATATTA TTAT
1 TTA-TA TTATA TTA-TA TTATA TTA-TA TTAT
109443 TTTTTTTACA
Statistics
Matches: 137, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
3 2 0.01
4 13 0.09
5 81 0.59
6 33 0.24
7 8 0.06
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:109287 original size:14 final size:13
Alignment explanation
Indices: 109270--109333 Score: 60
Period size: 14 Copynumber: 4.8 Consensus size: 13
109260 TATTTTATAT
109270 TATATAGTATAGTA
1 TATATA-TATAGTA
109284 TATAATATATAGTA
1 TAT-ATATATAGTA
*
109298 TATAT-TATATTA
1 TATATATATAGTA
*
109310 TATTATATTATATTA
1 TA-TATA-TATAGTA
109325 TAT-TATATA
1 TATATATATA
109334 TTTAGTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
12 12 0.27
13 7 0.16
14 14 0.31
15 12 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (13 bp):
TATATATATAGTA
Found at i:109333 original size:17 final size:17
Alignment explanation
Indices: 109256--109439 Score: 106
Period size: 16 Copynumber: 11.0 Consensus size: 17
109246 TTTTATTTAG
*
109256 ATTATATTTTATATTAT
1 ATTATATTATATATTAT
*
109273 A-TAGTA-TAGTATATAAT
1 ATTA-TATTA-TATATTAT
*
109290 A-TATAGTATATATTAT
1 ATTATATTATATATTAT
109306 ATTATA-T-TATATTAT
1 ATTATATTATATATTAT
109321 ATTATATTATATATT-T
1 ATTATATTATATATTAT
* *
109337 AGTATTTTATCATACTTAT
1 ATTATATTAT-ATA-TTAT
**
109356 A-TATGGTA-ATA-TAT
1 ATTATATTATATATTAT
*
109370 ATTATA--AGTATAGTAT
1 ATTATATTA-TATATTAT
*
109386 ATTTTA-TA-ATATTAT
1 ATTATATTATATATTAT
109401 ATTATTATTATTATTATTAT
1 ATTA-TATTA-TA-TATTAT
109421 ATTAGTATTATAATATTAT
1 ATTA-TATTAT-ATATTAT
109440 TATTTTTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 38
0.73 0.06 0.21
Matches are distributed among these distances:
13 1 0.01
14 4 0.03
15 29 0.21
16 37 0.27
17 31 0.23
18 7 0.05
19 10 0.07
20 16 0.12
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTATATTATATATTAT
Found at i:109408 original size:3 final size:3
Alignment explanation
Indices: 109395--109443 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
109385 TATTTTATAA
* *
109395 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TAG TAT TA- TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
109440 TAT T
1 TAT T
109444 TTTTTTACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:109414 original size:14 final size:14
Alignment explanation
Indices: 109385--109443 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
109375 AAGTATAGTA
*
109385 TATT-TTATAATAT
1 TATTATTATATTAT
109398 TA-TATTATTATTAT
1 TATTATTA-TATTAT
*
109412 TATTATTATATTAG
1 TATTATTATATTAT
*
109426 TATTATAATATTAT
1 TATTATTATATTAT
109440 TATT
1 TATT
109444 TTTTTTACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
12 1 0.03
13 5 0.13
14 28 0.72
15 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:109457 original size:34 final size:34
Alignment explanation
Indices: 109392--109465 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 34
109382 GTATATTTTA
*
109392 TAATATTATATTATTATTATTATTATT---ATAT
1 TAATATTATAATATTATTATTATTATTACAATAT
* * *
109423 TAGTATTATAATATTATTATTTTTTTTACAATAT
1 TAATATTATAATATTATTATTATTATTACAATAT
109457 TAATATTAT
1 TAATATTAT
109466 TTTGGTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 23 0.66
34 12 0.34
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (34 bp):
TAATATTATAATATTATTATTATTATTACAATAT
Found at i:110255 original size:226 final size:230
Alignment explanation
Indices: 109860--110318 Score: 881
Period size: 226 Copynumber: 2.0 Consensus size: 230
109850 AATCAACAAA
109860 GGTCAACCAAATCAAGAAAGGAAAGGAAACAATCCTTTCCCAAAAATTTTCGATGCAAACCGAAT
1 GGTCAACCAAATCAAGAAAGGAAAGGAAACAATCCTTTCCCAAAAATTTTCGATGCAAACCGAAT
109925 CGAAAGAGGAAAAAAATTTCTTATTCATGCAAGATTCAAGGGAAAAATATTCCCAATTCGAAGTT
66 CGAAAGAGGAAAAAAATTTCTTATTCATGCAAGATTCAAGGGAAAAATATTCCCAATTCGAAGTT
109990 ATAATAGCCACCTACAAAACCGAGAAAAAGGAACCAATGA-TAGCTATTCGAATACCA-AAGAAA
131 ATAATAGCCACCTACAAAACCGAGAAAAAGGAACCAATGATTAGCTATTCGAATACCACAAGAAA
110053 TCACAAAGAAACCAAGAAAGAAATAG-CTGATTTT
196 TCACAAAGAAACCAAGAAAGAAATAGCCTGATTTT
110087 GGTCAACCAAATCAAGAAAGGAAAGGAAACAATCCTTTCCC-AAAATTTTCGATGCAAACCGAAT
1 GGTCAACCAAATCAAGAAAGGAAAGGAAACAATCCTTTCCCAAAAATTTTCGATGCAAACCGAAT
110151 CGAAAGAGGAAAAAAATTTCTTATTCATGCAAGATTCAAGGGAAAAATATTCCCAATTCGAAGTT
66 CGAAAGAGGAAAAAAATTTCTTATTCATGCAAGATTCAAGGGAAAAATATTCCCAATTCGAAGTT
110216 ATAATAGCCACCTACAAAACCGAGAAAAAGGAACCAATGATTAGCTATTCGAATACCACAAGAAA
131 ATAATAGCCACCTACAAAACCGAGAAAAAGGAACCAATGATTAGCTATTCGAATACCACAAGAAA
110281 TCACAAAGAAACCAAGAAAGAAATAGCTCTGATTTT
196 TCACAAAGAAACCAAGAAAGAAATAGC-CTGATTTT
110317 GG
1 GG
110319 CTTGGAGAAG
Statistics
Matches: 228, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
226 128 0.56
227 58 0.25
228 32 0.14
230 10 0.04
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (230 bp):
GGTCAACCAAATCAAGAAAGGAAAGGAAACAATCCTTTCCCAAAAATTTTCGATGCAAACCGAAT
CGAAAGAGGAAAAAAATTTCTTATTCATGCAAGATTCAAGGGAAAAATATTCCCAATTCGAAGTT
ATAATAGCCACCTACAAAACCGAGAAAAAGGAACCAATGATTAGCTATTCGAATACCACAAGAAA
TCACAAAGAAACCAAGAAAGAAATAGCCTGATTTT
Found at i:131579 original size:15 final size:15
Alignment explanation
Indices: 131559--131589 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
131549 TTGCGTTGGA
131559 AGGACTATGATCATT
1 AGGACTATGATCATT
131574 AGGACTATGATCATT
1 AGGACTATGATCATT
131589 A
1 A
131590 TCTGGCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
AGGACTATGATCATT
Found at i:134245 original size:152 final size:156
Alignment explanation
Indices: 134114--134410 Score: 365
Period size: 155 Copynumber: 1.9 Consensus size: 156
134104 TGGATCATGC
* * * * **
134114 AAGATGAAAG-AACTTTACCAG-CATGGAAATAGGTTCTTGAATGATCACTGCTTCGGTTGTGA-
1 AAGATAAAAGAAACTTTACC-GCCATAGAAACAGGTTCTTGAATGATCACTGCTTCAGTTGCCAT
*
134176 TTTTTTCCTGCAGAAG-TAATCGAATTT-GAGTT-GAAGAACACTAGAGAAACTGTCTACGATTT
65 TTTTTTCCTGCAGAAGATAATCGAATTTCGAGTTCG-AGAACACTAAAGAAACTGTCTACGATTT
134238 CTAAACATTCATAAACTATGATGCATAG
129 CTAAACATTCATAAACTATGATGCATAG
*
134266 AAGATAAAAGAAAAACTTTACCGCCATAGAAACGGGTTCTTGAATGATCACTGCTTCAGTTGCCA
1 AAGATAAAAG--AAACTTTACCGCCATAGAAACAGGTTCTTGAATGATCACTGCTTCAGTTGCCA
* * ** *
134331 TTTTTTTCTTGCAGAAGAATAATCGAATTTCGAGTTCGAGAATACTAAAGAAAACTACCTATGAT
64 TTTTTTTCCTGCAGAAG-ATAATCGAATTTCGAGTTCGAGAACACTAAAG-AAACTGTCTACGAT
*
134396 TT-TAAGCATTCATAA
127 TTCTAAACATTCATAA
134411 CCATGAAATG
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
152 9 0.07
154 1 0.01
155 44 0.36
156 15 0.12
158 11 0.09
159 27 0.22
160 14 0.12
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (156 bp):
AAGATAAAAGAAACTTTACCGCCATAGAAACAGGTTCTTGAATGATCACTGCTTCAGTTGCCATT
TTTTTCCTGCAGAAGATAATCGAATTTCGAGTTCGAGAACACTAAAGAAACTGTCTACGATTTCT
AAACATTCATAAACTATGATGCATAG
Found at i:137207 original size:20 final size:21
Alignment explanation
Indices: 137184--137226 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
137174 ACTTTTAAAA
137184 ATATAGTATTAATAATAT-AT
1 ATATAGTATTAATAATATCAT
*
137204 ATATATTATTAATAATATCAT
1 ATATAGTATTAATAATATCAT
137225 AT
1 AT
137227 CCATCAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATAGTATTAATAATATCAT
Found at i:137649 original size:19 final size:19
Alignment explanation
Indices: 137625--137668 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
137615 TAAGAATATT
*
137625 AAAATATTATATTACTTTG
1 AAAATATCATATTACTTTG
*
137644 AAAATATCATATTATTTTG
1 AAAATATCATATTACTTTG
137663 AAAATA
1 AAAATA
137669 AGATTACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
AAAATATCATATTACTTTG
Found at i:138301 original size:2 final size:2
Alignment explanation
Indices: 138294--138321 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
138284 CCATCTTTTA
138294 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
138322 CAAATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141358 original size:47 final size:45
Alignment explanation
Indices: 141307--141392 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 45
141297 TTGTATAGTA
*
141307 TTATTATGT-TGTTTATAATTTTGAGTAAAACAAG-AGAATGATAC
1 TTATTAT-TATGTTTAAAATTTTGAGTAAAACAAGAAGAATGATAC
*
141351 TTATTATTATGTTTAAAATTTTGAGTAAAACACGAAGAATGA
1 TTATTATTATGTTTAAAATTTTGAGTAAAACAAGAAGAATGA
141393 GAATTGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 1 0.03
44 30 0.79
45 7 0.18
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.40
Consensus pattern (45 bp):
TTATTATTATGTTTAAAATTTTGAGTAAAACAAGAAGAATGATAC
Found at i:145562 original size:30 final size:31
Alignment explanation
Indices: 145498--145566 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
145488 GTGGTTAAAT
* * * *
145498 AAATTTCGGTTCGATTAATGGTTACAGAAAA
1 AAATTTCAGTTCGATTAACGATTAAAGAAAA
145529 AAATTTCAGTTCGATTAACGATTAAAGAAAA
1 AAATTTCAGTTCGATTAACGATTAAAGAAAA
145560 AATATTT
1 AA-ATTT
145567 TTTTGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (31 bp):
AAATTTCAGTTCGATTAACGATTAAAGAAAA
Found at i:145712 original size:81 final size:80
Alignment explanation
Indices: 145563--145796 Score: 353
Period size: 81 Copynumber: 2.9 Consensus size: 80
145553 AAGAAAAAAT
* * * *
145563 ATTTTTTTGAAAATTATTAACCGAATTTTTTCTTTAA-CATCAATCGAACCGAAATTATTTGACT
1 ATTTATTTGAAAATTATTAACCGATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTAACT
*
145627 GTTAATCGAACCGGA
66 GTTAATCGAACCGAA
*
145642 ATTTATTTGAAAATTATTAACCGATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTTAC
1 ATTTATTTGAAAATTATTAACCGA-TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTAAC
*
145707 CGTTAATCGAACCGAA
65 TGTTAATCGAACCGAA
** *
145723 ATTTATTTGAAAATTATTAACATAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTAAC
1 ATTTATTTGAAAATTATTAAC-CGATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTAAC
145788 TGTTAATCG
65 TGTTAATCG
145797 TACAAGGGAA
Statistics
Matches: 141, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 23 0.16
80 12 0.09
81 105 0.74
82 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (80 bp):
ATTTATTTGAAAATTATTAACCGATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTAACT
GTTAATCGAACCGAA
Found at i:155593 original size:19 final size:19
Alignment explanation
Indices: 155569--155605 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
155559 AAATTCCTTT
*
155569 ATTAATAATGTATCAAATA
1 ATTAATAATGAATCAAATA
*
155588 ATTAATTATGAATCAAAT
1 ATTAATAATGAATCAAAT
155606 GGTTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTAATAATGAATCAAATA
Found at i:155920 original size:49 final size:50
Alignment explanation
Indices: 155865--155966 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 50
155855 GTAGCAGTAA
* *
155865 AGCGCGCCCCCGA-ACCGCGTTATACGCTGATTTGGCACCACGTGGGTAT
1 AGCGCGCCCCCGATACCGCGATATACGATGATTTGGCACCACGTGGGTAT
** *
155914 AGCGCGCCCCTTATCCCGCGATATACGATGATTTGGCACCACGTGGGTAT
1 AGCGCGCCCCCGATACCGCGATATACGATGATTTGGCACCACGTGGGTAT
155964 AGC
1 AGC
155967 TCCCCCCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 11 0.23
50 36 0.77
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCGATACCGCGATATACGATGATTTGGCACCACGTGGGTAT
Found at i:155933 original size:50 final size:50
Alignment explanation
Indices: 155879--155989 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
155869 CGCCCCCGAA
* * *
155879 CCGCGTTATACGCTGATTTGGCACCACGTGGGTATAGCGCGCCCCTT-AT
1 CCGCGATATACGATGATTTGGCACCACGTGGGTATAGCGCCCCCCTTGAT
*
155928 CCCGCGATATACGATGATTTGGCACCACGTGGGTATAGCTCCCCCCTTGAT
1 -CCGCGATATACGATGATTTGGCACCACGTGGGTATAGCGCCCCCCTTGAT
*
155979 CCGCGCTATAC
1 CCGCGATATAC
155990 CTGGGTATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 53 0.96
51 2 0.04
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.25
Consensus pattern (50 bp):
CCGCGATATACGATGATTTGGCACCACGTGGGTATAGCGCCCCCCTTGAT
Found at i:158482 original size:49 final size:50
Alignment explanation
Indices: 158381--158512 Score: 144
Period size: 49 Copynumber: 2.6 Consensus size: 50
158371 CCCTTACGTG
* * *
158381 GCGTATAGCGCGG-AGCAGGGGGCGCGCTATACCCCACGTGTAACTCAGTCA
1 GCGTATAGCGCGGTA-CA-GGGGCGCGCTATACTCCACGTGGAACTCAATCA
**
158432 GCGTATAGCGCGGTACAGGGG-GCGCTATACTCCACGTGGCGC-CAAATCA
1 GCGTATAGCGCGGTACAGGGGCGCGCTATACTCCACGTGGAACTC-AATCA
* * *
158481 GCATATAGCGCGGTTCAGGGGCGCGCTTTACT
1 GCGTATAGCGCGGTACAGGGGCGCGCTATACT
158513 GCTACGGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
48 1 0.01
49 40 0.57
50 13 0.19
51 15 0.21
52 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.18
Consensus pattern (50 bp):
GCGTATAGCGCGGTACAGGGGCGCGCTATACTCCACGTGGAACTCAATCA
Found at i:158923 original size:12 final size:12
Alignment explanation
Indices: 158906--158930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
158896 TAATCGCTTT
158906 TAGATAAGTGAA
1 TAGATAAGTGAA
158918 TAGATAAGTGAA
1 TAGATAAGTGAA
158930 T
1 T
158931 GAGTGCGAGT
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TAGATAAGTGAA
Found at i:162054 original size:2 final size:2
Alignment explanation
Indices: 162036--162239 Score: 107
Period size: 2 Copynumber: 105.5 Consensus size: 2
162026 TTTTTGTTTT
* *
162036 TA TA TG TA TA TA T- TA TA TA GTA TA TA TA GTA TA CTA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA
* * *
162078 TG T- TA TA GA T- TA TA T- TA TA GTA TG 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 TA TA TA TA TA
* *
162117 TA GTA T- TA TA T- TA T- TA T- TA GTA TA TA T- TA T- TT TA TA TT
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * **
162155 TA TA TA T- TA TA T- TA TA T- TA TA TT TA TT TA CGG 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
*
162195 TA TA TCA TA TT TA TA TA TA TA TA TA T- TA TA T- TA TA TA GTA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
162237 TA T
1 TA T
162240 TTTATTATAG
Statistics
Matches: 155, Mismatches: 22, Indels: 50
0.68 0.10 0.22
Matches are distributed among these distances:
1 16 0.10
2 123 0.79
3 16 0.10
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (2 bp):
TA
Found at i:162068 original size:23 final size:23
Alignment explanation
Indices: 162036--162248 Score: 131
Period size: 23 Copynumber: 9.0 Consensus size: 23
162026 TTTTTGTTTT
162036 TATAT-GTATATATTATA-TAGTA
1 TATATAGTATATATTATATTA-TA
* *
162058 TATATAGTATACTA-TATA-CATG
1 TATATAGTATA-TATTATATTATA
*
162080 T-TATAG-ATTATATTATAGTATGTA
1 TATATAGTA-TATATTATA-T-TATA
162104 TATATA-TATATATTAGTATTATA
1 TATATAGTATATATTA-TATTATA
*
162127 TTATTATTAGTATATATTATTTTATA
1 -TA-TA-TAGTATATATTATATTATA
*
162153 TTTATA-TATTATATTATATTATA
1 TATATAGTA-TATATTATATTATA
* *
162176 TTTATTTACGGTATATATATATATCATA
1 --TATATA--GTATATAT-TATATTATA
*
162204 TTTATA-TATATA-TATATTATA
1 TATATAGTATATATTATATTATA
*
162225 TTATATAGTATATATTTTATTATA
1 -TATATAGTATATATTATATTATA
162249 GTATCATTTG
Statistics
Matches: 150, Mismatches: 17, Indels: 46
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.02
21 19 0.13
22 14 0.09
23 40 0.27
24 24 0.16
25 14 0.09
26 12 0.08
27 14 0.09
28 10 0.07
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (23 bp):
TATATAGTATATATTATATTATA
Found at i:162096 original size:5 final size:5
Alignment explanation
Indices: 162086--162365 Score: 124
Period size: 5 Copynumber: 54.0 Consensus size: 5
162076 CATGTTATAG
* *
162086 ATTAT ATTAT AGTAT -GTAT A-TAT ATATAT ATTAGT ATTAT ATTATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT ATTA-T ATTAT ATTA-T
*
162132 ATTAGT A-TAT ATTAT TTTAT ATT-T A-TAT ATTAT ATTAT ATTAT ATT-T
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
* *
162179 ATT-T ACGGTAT A-TAT A-TAT ATCAT ATT-T ATATAT ATATAT ATTAT
1 ATTAT A--TTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT-TAT ATTAT
* * * *
162224 ATTAT A-TAGT A-TAT ATTTT ATTAT AGTAT CATTTGT CTTAT AGTTATT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT -A-TTAT ATTAT A-TTA-T
*
162272 GTTAT ATATAGT ATTACAT AGTGT-T ATTAT ATTAT AATT-T AATTATT
1 ATTAT AT-TA-T ATT--AT A-T-TAT ATTAT ATTAT -ATTAT -ATTA-T
162319 ATT-T ATTAT A-TAT ATTAT ATTAT AGTATAT ATTAT ATATAGT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT A-T-TAT ATTAT AT-TA-T ATTAT
162366 TCTTATTTAT
Statistics
Matches: 222, Mismatches: 17, Indels: 72
0.71 0.05 0.23
Matches are distributed among these distances:
3 1 0.00
4 44 0.20
5 105 0.47
6 51 0.23
7 18 0.08
8 2 0.01
9 1 0.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:162144 original size:21 final size:19
Alignment explanation
Indices: 162042--162350 Score: 152
Period size: 19 Copynumber: 16.3 Consensus size: 19
162032 TTTTTATATG
162042 TATATATTATA-TAGTATATA
1 TATATATTATATTA-TAT-TA
* *
162062 TAGTATACTATA-TACATGT-
1 TA-TATATTATATTATAT-TA
* *
162081 TATAGATTATATTATAGTA
1 TATATATTATATTATATTA
*
162100 TGTATA-TATA-TATA-TA
1 TATATATTATATTATATTA
162116 T-TAGTATTATATTATTATTA
1 TATA-TATTATATTA-TATTA
*
162136 GTATATATTATTTTATATT-
1 -TATATATTATATTATATTA
162155 TATATATTATATTATATTA
1 TATATATTATATTATATTA
* *
162174 TATTTATT-TACGGTATA-TA
1 TATATATTATA--TTATATTA
*
162193 TATATATCATATT-TA-TA
1 TATATATTATATTATATTA
162210 TATATA-TATATTATATTA
1 TATATATTATATTATATTA
*
162228 TATAGTA-TATATTTTATTA
1 TATA-TATTATATTATATTA
* * *
162247 TAGTATCATTTGTCTTATAGT-
1 TA-TAT-A-TTATATTATATTA
*
162268 TAT-TGTTATATATAGTATTA
1 TATATATTATAT-TA-TATTA
* *
162288 CATAGT-GT-TATTATATTA
1 TATA-TATTATATTATATTA
*
162306 TAATTTAATTATTATT-TATTA
1 T-ATAT-ATTA-TATTATATTA
*
162327 TATATATTATATTATAGTA
1 TATATATTATATTATATTA
162346 TATAT
1 TATAT
162351 TATATATAGT
Statistics
Matches: 224, Mismatches: 33, Indels: 65
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.01
16 10 0.04
17 24 0.11
18 52 0.23
19 63 0.28
20 30 0.13
21 29 0.13
22 14 0.06
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
TATATATTATATTATATTA
Found at i:162358 original size:21 final size:21
Alignment explanation
Indices: 162035--162358 Score: 128
Period size: 21 Copynumber: 16.0 Consensus size: 21
162025 CTTTTTGTTT
162035 TTATATGTATATATTATATAGTA
1 TTATA-GTATATATTATATA-TA
* *
162058 TATATAGTATACTA-TATACATG
1 T-TATAGTATA-TATTATATATA
162080 TTATAG-ATTATATTATAGTAT-
1 TTATAGTA-TATATTATA-TATA
*
162101 GTATA-TATATA-TATATTAGTA
1 TTATAGTATATATTATA-TA-TA
*
162122 TTATATTAT-TATTAGTATATA
1 TTATAGTATATATTA-TATATA
*
162143 TTAT--TTTATATT-TATATA
1 TTATAGTATATATTATATATA
*
162161 TTATA-T-TATATTATATTTA
1 TTATAGTATATATTATATATA
162180 TT-TACGGTATATA-TATATATCA
1 TTATA--GTATATATTATATAT-A
*
162202 -TAT-TTATATA-TATATATA
1 TTATAGTATATATTATATATA
* *
162220 TTATATTATATAGTATATAT-
1 TTATAGTATATATTATATATA
* * * * *
162240 TT-TATTATAGTATCATTTGTC
1 TTATAGTATA-TATTATATATA
*
162261 TTATAGT-TATTGTTATATATA
1 TTATAGTATA-TATTATATATA
* * *
162282 GTATTA-CATAGTGTTAT-TATA
1 TTA-TAGTATA-TATTATATATA
* *
162303 TTATAATTTA-ATTAT-TAT-
1 TTATAGTATATATTATATATA
162321 TTAT--TATATA-TAT-TATA
1 TTATAGTATATATTATATATA
162338 TTATAGTATATATTATATATA
1 TTATAGTATATATTATATATA
162359 GTATTATTCT
Statistics
Matches: 237, Mismatches: 29, Indels: 72
0.70 0.09 0.21
Matches are distributed among these distances:
16 9 0.04
17 5 0.02
18 23 0.10
19 52 0.22
20 32 0.14
21 67 0.28
22 30 0.13
23 13 0.05
24 6 0.03
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
TTATAGTATATATTATATATA
Found at i:162667 original size:5 final size:5
Alignment explanation
Indices: 162657--162719 Score: 51
Period size: 5 Copynumber: 12.2 Consensus size: 5
162647 CATTATAGTG
*
162657 TATTA TATTA TAATTG TAATTA TTATT- TATTA TATTA TATATA TATTA
1 TATTA TATTA T-ATTA T-ATTA -TATTA TATTA TATTA TAT-TA TATTA
162705 TA-TA GTA-TA TATTA T
1 TATTA -TATTA TATTA T
162720 TAATATATAG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.16
5 25 0.50
6 16 0.32
7 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:162705 original size:16 final size:16
Alignment explanation
Indices: 162657--162735 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 16
162647 CATTATAGTG
*
162657 TATTATAT-TATAATTG
1 TATTATATATAT-ATTA
*
162673 TAATTAT-TATTTATTA
1 T-ATTATATATATATTA
162689 TATTATATATATATTA
1 TATTATATATATATTA
*
162705 TA-TA-GTATATATTA
1 TATTATATATATATTA
*
162719 T-TAATATATAGTATTA
1 TATTATATATA-TATTA
162735 T
1 T
162736 TCTTATTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 11 0.22
15 11 0.22
16 22 0.43
17 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
TATTATATATATATTA
Found at i:162715 original size:20 final size:20
Alignment explanation
Indices: 162677--162736 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 20
162667 TAATTGTAAT
* *
162677 TATTATTTAT-TATATTATA
1 TATTATTAATATATAGTATA
*
162696 TA-TA-TATTATATAGTATA
1 TATTATTAATATATAGTATA
162714 TATTATTAATATATAGTAT-
1 TATTATTAATATATAGTATA
162733 TATT
1 TATT
162737 CTTATTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 8 0.24
20 12 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTATTAATATATAGTATA
Found at i:162736 original size:16 final size:14
Alignment explanation
Indices: 162675--162735 Score: 67
Period size: 13 Copynumber: 4.6 Consensus size: 14
162665 TATAATTGTA
*
162675 ATTATTATTTAT-T
1 ATTATTATATATAT
162688 A-TATTATATATAT
1 ATTATTATATATAT
162701 ATTA-TATAGTATAT
1 ATTATTATA-TATAT
162715 ATTATTA-ATATAT
1 ATTATTATATATAT
*
162728 AGTATTAT
1 ATTATTAT
162736 TCTTATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
12 9 0.22
13 18 0.44
14 12 0.29
15 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTATTATATATAT
Found at i:164552 original size:15 final size:15
Alignment explanation
Indices: 164532--164561 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
164522 TAAAACCAAG
164532 TTATTATATTAATTT
1 TTATTATATTAATTT
*
164547 TTATTATTTTAATTT
1 TTATTATATTAATTT
164562 AATTTCACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTATATTAATTT
Found at i:165630 original size:19 final size:19
Alignment explanation
Indices: 165606--165648 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
165596 TTATAGTTTG
*
165606 ATTAAAATTAAAG-AACTTT
1 ATTAAAAGTAAAGTAA-TTT
165625 ATT-AAAGTAAAGTAATTT
1 ATTAAAAGTAAAGTAATTT
165643 ATTAAA
1 ATTAAA
165649 GTACTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTAAAAGTAAAGTAATTT
Found at i:165664 original size:14 final size:16
Alignment explanation
Indices: 165640--165671 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
165630 AGTAAAGTAA
165640 TTTATTAAAGT-ACTT
1 TTTATTAAAGTAACTT
165655 TTTA-TAAAGTAACTT
1 TTTATTAAAGTAACTT
165670 TT
1 TT
165672 ACTTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTATTAAAGTAACTT
Found at i:166193 original size:18 final size:18
Alignment explanation
Indices: 166138--166194 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
166128 TAAATTTTAT
*
166138 GAATTTAAATTTTTTAAA
1 GAATTTAATTTTTTTAAA
** **
166156 GAAAATACATAATTTT-AA
1 GAATTTA-ATTTTTTTAAA
166174 GAATTTAATTTTTTTAAA
1 GAATTTAATTTTTTTAAA
166192 GAA
1 GAA
166195 AATATATAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
17 6 0.21
18 17 0.61
19 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (18 bp):
GAATTTAATTTTTTTAAA
Found at i:175714 original size:39 final size:38
Alignment explanation
Indices: 175553--175842 Score: 358
Period size: 39 Copynumber: 7.6 Consensus size: 38
175543 ATTTTTGAAA
* * *
175553 ATATATTATATAG-TTTTGAAAGCGGTTTTCGAAA-ATAT
1 ATATAATATATAGTTTTTGAAAAC-ATTTT-GAAATATAT
* * *
175591 ATATATTATATAG-TTTTGAAAA-TTTTTGAAA-ACAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAATATAT
* * *
175626 ATATAATATGTAGTTTTTTAAAACGTTTTTGAAA-ATAT
1 ATATAATATATAGTTTTTGAAAAC-ATTTTGAAATATAT
*
175664 ATATAATATATAGTTTTTAAAAACATTTTGAATATATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAA-ATATAT
175703 ATATAATATATAGTTTTTGAAAACATTTTGAAAGTATAT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAA-TATAT
* *
175742 ATATAATATATAGTTTTTGAAAATATTTTTAAAATATAT
1 ATATAATATATAGTTTTTGAAAACA-TTTTGAAATATAT
*
175781 ATATAATATATAGTTTTTGAAAACATTTTGAAAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTG-AAATATAT
175820 ATATAATATATAGTTTTTGAAAA
1 ATATAATATATAGTTTTTGAAAA
175843 ATATATATAT
Statistics
Matches: 228, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
35 18 0.08
36 12 0.05
37 7 0.03
38 61 0.27
39 123 0.54
40 7 0.03
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (38 bp):
ATATAATATATAGTTTTTGAAAACATTTTGAAATATAT
Found at i:175759 original size:28 final size:28
Alignment explanation
Indices: 175728--175781 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
175718 TTTGAAAACA
* *
175728 TTTTGAAAGTATATATATAATATATAGT
1 TTTTGAAAATATATATAAAATATATAGT
* *
175756 TTTTGAAAATATTTTTAAAATATATA
1 TTTTGAAAATATATATAAAATATATA
175782 TATAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (28 bp):
TTTTGAAAATATATATAAAATATATAGT
Found at i:175844 original size:27 final size:29
Alignment explanation
Indices: 175805--175871 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
175795 TTTTGAAAAC
*
175805 ATTTTGAAAAA-ATATATATAATATATAG
1 ATTTTGAAAAATATATATATAATATATAA
*
175833 TTTTTGAAAAATATATATATAATATATAA
1 ATTTTGAAAAATATATATATAATATATAA
175862 ATTTTGAAAA
1 ATTTTGAAAA
175872 TATTTTTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (29 bp):
ATTTTGAAAAATATATATATAATATATAA
Found at i:175853 original size:68 final size:66
Alignment explanation
Indices: 175772--175908 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 66
175762 AAATATTTTT
** *
175772 AAAATATATATATAATATATAGTTTTTGAAAACA-TTTTGAAAAAATATATATAATATATAGTTT
1 AAAATATATATATAATATATAAATTTTGAAAACATTTTTG--AAAATATATATAATATATA-ATT
175836 TTGA
63 TTGA
* * *
175840 AAAATATATATATAATATATAAATTTTGAAAATATTTTTGAGAATGTATATAATATATAATTTTG
1 AAAATATATATATAATATATAAATTTTGAAAACATTTTTGAAAATATATATAATATATAATTTTG
175905 A
66 A
175906 AAA
1 AAA
175909 TGATTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
66 9 0.15
67 17 0.27
68 31 0.50
69 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (66 bp):
AAAATATATATATAATATATAAATTTTGAAAACATTTTTGAAAATATATATAATATATAATTTTG
A
Found at i:175928 original size:38 final size:38
Alignment explanation
Indices: 175843--175934 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 38
175833 TTTTTGAAAA
175843 ATATA-TATATAATATATAAATTTTGAAAATATTTTTG
1 ATATATTATATAATATATAAATTTTGAAAATATTTTTG
* *
175880 AGA-ATGTATATAATATAT-AATTTTGAAAATGATTTTTT
1 ATATAT-TATATAATATATAAATTTTGAAAAT-ATTTTTG
175918 ATATATTATATTAATAT
1 ATATATTATA-TAATAT
175935 TGTTTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
36 1 0.02
37 14 0.30
38 24 0.51
39 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.49
Consensus pattern (38 bp):
ATATATTATATAATATATAAATTTTGAAAATATTTTTG
Found at i:177181 original size:16 final size:17
Alignment explanation
Indices: 177156--177187 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
177146 TTTTTCACTC
177156 TTTTTATTATTTATTTA
1 TTTTTATTATTTATTTA
177173 TTTTT-TTATTTATTT
1 TTTTTATTATTTATTT
177188 CCTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTATTTATTTA
Found at i:177804 original size:5 final size:5
Alignment explanation
Indices: 177794--177847 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
177784 ATTTATTTAT
177794 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
177844 ATAT
1 ATAT
177848 GAAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:181863 original size:92 final size:92
Alignment explanation
Indices: 181701--181876 Score: 334
Period size: 92 Copynumber: 1.9 Consensus size: 92
181691 CCTTGTGATC
*
181701 AAGAAAAAAGAAGCCAATTAAATTTCATTAATAGTAAGCTACATTTCATTTGGTTCCACATTCCT
1 AAGAAAAAAGAAGCCAATTAAATTTCATTAATAATAAGCTACATTTCATTTGGTTCCACATTCCT
181766 TGAGTAGGAAGCAACTACCGAAAGAAA
66 TGAGTAGGAAGCAACTACCGAAAGAAA
*
181793 AAGATAAAAGAAGCCAATTAAATTTCATTAATAATAAGCTACATTTCATTTGGTTCCACATTCCT
1 AAGAAAAAAGAAGCCAATTAAATTTCATTAATAATAAGCTACATTTCATTTGGTTCCACATTCCT
181858 TGAGTAGGAAGCAACTACC
66 TGAGTAGGAAGCAACTACC
181877 AAAATAATAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (92 bp):
AAGAAAAAAGAAGCCAATTAAATTTCATTAATAATAAGCTACATTTCATTTGGTTCCACATTCCT
TGAGTAGGAAGCAACTACCGAAAGAAA
Found at i:188252 original size:15 final size:15
Alignment explanation
Indices: 188232--188302 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
188222 AGTTACCTCT
*
188232 ATAAATTAGTACTTA
1 ATAAATTAATACTTA
* *
188247 ATAAATTAATATTTT
1 ATAAATTAATACTTA
* *
188262 TTAAAATAATACTTA
1 ATAAATTAATACTTA
*
188277 ATAAATTAGTACTTA
1 ATAAATTAATACTTA
188292 ATAAATTAATA
1 ATAAATTAATA
188303 TTTGTAAGGC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATTAATACTTA
Found at i:189483 original size:18 final size:18
Alignment explanation
Indices: 189446--189483 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
189436 TTTCTTCCCC
* *
189446 TTTTTCTTTTTGTTTGTG
1 TTTTTCTTTTTCTTTATG
189464 TTTTTCTTTTTCTTTATG
1 TTTTTCTTTTTCTTTATG
189482 TT
1 TT
189484 GGGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.08, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTATG
Found at i:189492 original size:24 final size:24
Alignment explanation
Indices: 189445--189491 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
189435 GTTTCTTCCC
* *
189445 CTTTTTCTTTTTGTTTGTGTTTTT
1 CTTTTTCTTTATGTTGGTGTTTTT
189469 CTTTTTCTTTATGTTGG-GTTTTT
1 CTTTTTCTTTATGTTGGTGTTTTT
189492 TTGAAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.02, C:0.09, G:0.15, T:0.74
Consensus pattern (24 bp):
CTTTTTCTTTATGTTGGTGTTTTT
Found at i:190074 original size:3 final size:3
Alignment explanation
Indices: 190068--190149 Score: 114
Period size: 3 Copynumber: 28.0 Consensus size: 3
190058 TTATTAATAG
* *
190068 AAT AAT AAT AAT CAT AAT AGT 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
* *
190116 AAT AAT AA- AAA AAT -AT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
190150 TAAAACCTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 4 0.06
3 66 0.94
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:190351 original size:21 final size:21
Alignment explanation
Indices: 190325--190368 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
190315 TCGTCCCCAA
190325 CACCGACCATGTGTAAATATT
1 CACCGACCATGTGTAAATATT
190346 CACCGACCATGTGTAAATATT
1 CACCGACCATGTGTAAATATT
190367 CA
1 CA
190369 TCATCTTCCC
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:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (21 bp):
CACCGACCATGTGTAAATATT
Found at i:193515 original size:64 final size:64
Alignment explanation
Indices: 193443--193604 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
193433 TCTTTAACAT
* *
193443 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * * ** *
193507 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
* *
193571 GTGCATCGATGCACTTC-CTGTGCATCGATACACA
1 GTGCATCGATGCACTACTC-ATGCATCGATACACA
193605 CTGAACAATT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 76 0.93
65 6 0.07
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:194301 original size:24 final size:24
Alignment explanation
Indices: 194273--194323 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
194263 ACCTTCATCA
194273 TATATTTGCAATAAATCATTGAAC
1 TATATTTGCAATAAATCATTGAAC
194297 TATATTTGCAATAAATCATTGAAC
1 TATATTTGCAATAAATCATTGAAC
194321 TAT
1 TAT
194324 TCAATTATCC
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:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (24 bp):
TATATTTGCAATAAATCATTGAAC
Found at i:195787 original size:31 final size:31
Alignment explanation
Indices: 195749--195857 Score: 173
Period size: 31 Copynumber: 3.5 Consensus size: 31
195739 AGGGTCGAGA
195749 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
195780 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
195811 GTTTACCTATGTTTTTTGGGACATATCGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
195842 GTTTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
195858 AGGAATCTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:195820 original size:62 final size:62
Alignment explanation
Indices: 195749--195873 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 62
195739 AGGGTCGAGA
* * *
195749 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGAA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATCGACTGTTTACCTAGGTTCTTAGGAATC-TATGGACT
* *
195811 GTTTACCTATGTTTTTTGGGACATATCGACTGTTTACCTAGGTTCTTAGGAATCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATCGACTGTTTACCTAGGTTCTTAGGAATCTATGGACT
195873 G
1 G
195874 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 56 0.98
63 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATCGACTGTTTACCTAGGTTCTTAGGAATCTATGGACT
Found at i:195873 original size:31 final size:31
Alignment explanation
Indices: 195749--195873 Score: 171
Period size: 31 Copynumber: 4.0 Consensus size: 31
195739 AGGGTCGAGA
*
195749 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
195780 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* * * *
195811 GTTTACCTATGTTTTTTGGGACATATCGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
195842 GTTTACCTAGGTTCTTAGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
195873 G
1 G
195874 GTCCTTCGGG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:201449 original size:2 final size:2
Alignment explanation
Indices: 201442--201467 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
201432 TGGAATAGCC
201442 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
201468 GATAAATTGA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:216615 original size:17 final size:17
Alignment explanation
Indices: 216595--216651 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
216585 AAGATTCACT
216595 ACAACACTATTTCATAC
1 ACAACACTATTTCATAC
*
216612 ACAACA-TAAGATTC--AC
1 ACAACACT-A-TTTCATAC
216628 TACAACACTATTTCATAC
1 -ACAACACTATTTCATAC
216646 ACAACA
1 ACAACA
216652 TATACTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 6 0.19
17 20 0.62
18 6 0.19
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.25
Consensus pattern (17 bp):
ACAACACTATTTCATAC
Found at i:216626 original size:34 final size:34
Alignment explanation
Indices: 216578--216653 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
216568 AACGTATGAA
*
216578 ACAAGATAAGATTCACTACAACACTATTTCATAC
1 ACAACATAAGATTCACTACAACACTATTTCATAC
216612 ACAACATAAGATTCACTACAACACTATTTCATAC
1 ACAACATAAGATTCACTACAACACTATTTCATAC
216646 ACAACATA
1 ACAACATA
216654 TACTTTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (34 bp):
ACAACATAAGATTCACTACAACACTATTTCATAC
Found at i:217658 original size:2 final size:2
Alignment explanation
Indices: 217651--217691 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
217641 TTAATATAAT
217651 TA TA TA TA 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 TA TA TA TA T
217692 TACTAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:218619 original size:3 final size:3
Alignment explanation
Indices: 218605--218635 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
218595 TTTTTACAAT
218605 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
218636 CGAATATTTA
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):
TAA
Found at i:221480 original size:16 final size:16
Alignment explanation
Indices: 221459--221491 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
221449 TAATAAATAA
221459 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
221475 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
221491 A
1 A
221492 ATTTTTTTTT
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:221572 original size:10 final size:10
Alignment explanation
Indices: 221557--221631 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
221547 CATTTAATAA
221557 ATAAACGAAC
1 ATAAACGAAC
221567 ATAAACGAAC
1 ATAAACGAAC
221577 ----ACGAAC
1 ATAAACGAAC
221583 ATAAACGAAC
1 ATAAACGAAC
** *
221593 ACGAAC-ATAA
1 ATAAACGA-AC
221603 ATGAACACGAAC
1 AT-AA-ACGAAC
221615 ATAAACGAAC
1 ATAAACGAAC
221625 ATAAACG
1 ATAAACG
221632 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:221582 original size:16 final size:16
Alignment explanation
Indices: 221561--221625 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
221551 TAATAAATAA
221561 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
221577 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
221593 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
221609 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
221625 A
1 A
221626 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:222680 original size:14 final size:14
Alignment explanation
Indices: 222663--222707 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
222653 AATGAACATA
222663 AACGAACATAACCG
1 AACGAACATAACCG
222677 AACGAACATAACCG
1 AACGAACATAACCG
222691 -ACGAACATAACCG
1 AACGAACATAACCG
222704 AACG
1 AACG
222708 TTCACGAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.49, C:0.29, G:0.16, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:222696 original size:13 final size:13
Alignment explanation
Indices: 222664--222704 Score: 73
Period size: 13 Copynumber: 3.1 Consensus size: 13
222654 ATGAACATAA
222664 ACGAACATAACCG
1 ACGAACATAACCG
222677 AACGAACATAACCG
1 -ACGAACATAACCG
222691 ACGAACATAACCG
1 ACGAACATAACCG
222704 A
1 A
222705 ACGTTCACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.07
Consensus pattern (13 bp):
ACGAACATAACCG
Found at i:224216 original size:3 final size:3
Alignment explanation
Indices: 224210--224268 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
224200 TCTTCATTTG
224210 ATT ATT ATTT ATTT ATTT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT A-TT A-TT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
224259 ATAT ATT ATT
1 AT-T ATT ATT
224269 TTACAAACAG
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
3 36 0.68
4 17 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:224240 original size:13 final size:13
Alignment explanation
Indices: 224211--224265 Score: 76
Period size: 13 Copynumber: 4.1 Consensus size: 13
224201 CTTCATTTGA
224211 TTATTATTTATTTAT
1 TTATTA-TTA-TTAT
224226 TTATTATTATTAT
1 TTATTATTATTAT
224239 TTATTATTATTA-
1 TTATTATTATTAT
224251 TTATTATTATATAT
1 TTATTATTAT-TAT
224265 T
1 T
224266 ATTTTACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.26
13 18 0.47
14 4 0.11
15 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:225488 original size:16 final size:17
Alignment explanation
Indices: 225454--225488 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
225444 TTTTTAAATA
225454 TTTAATTTTAATATATT
1 TTTAATTTTAATATATT
*
225471 TTTAATTTTTAT-TATT
1 TTTAATTTTAATATATT
225487 TT
1 TT
225489 GTCATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTTTAATATATT
Found at i:225636 original size:26 final size:27
Alignment explanation
Indices: 225607--225657 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
225597 ATTTTTAAGT
225607 TTAAATAT-TACTTTT-AAAGAATTATA
1 TTAAATATATACTTTTCAAA-AATTATA
*
225633 TTAAATATATATTTTTCAAAAATTA
1 TTAAATATATACTTTTCAAAAATTA
225658 AGAAATGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAAATATATACTTTTCAAAAATTATA
Found at i:227423 original size:2 final size:2
Alignment explanation
Indices: 227405--227454 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
227395 TATAATTTAT
* *
227405 TA TA TA T- TA AA TA -A TA TA TA TCA TA TG T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
227445 TA TA TA TA TA
1 TA TA TA TA TA
227455 GTGCCCGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
1 3 0.07
2 36 0.88
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:227688 original size:24 final size:23
Alignment explanation
Indices: 227630--227690 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
227620 TAGGTTAAAA
* *
227630 TATTATTATAAATTTTATTTATTT
1 TATTATTAT-AATATTAATTATTT
*
227654 TAATATATATAATATTAATTATTAT
1 TATTAT-TATAATATTAATTATT-T
227679 TATTATTATAAT
1 TATTATTATAAT
227691 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 22 0.71
25 9 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTATAATATTAATTATTT
Found at i:229759 original size:22 final size:21
Alignment explanation
Indices: 229699--229759 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 21
229689 TTAATATCGG
229699 AAATATTAATTTTAGGTAGAAAA
1 AAATA-TAA-TTTAGGTAGAAAA
*
229722 ATTAATAT--TTTCGGTAGAAAA
1 A--AATATAATTTAGGTAGAAAA
229743 AAATATCAATTTAGGTA
1 AAATAT-AATTTAGGTA
229760 TCTTTTTACC
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
19 5 0.16
21 13 0.42
22 7 0.23
23 1 0.03
24 1 0.03
25 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (21 bp):
AAATATAATTTAGGTAGAAAA
Found at i:231495 original size:17 final size:16
Alignment explanation
Indices: 231464--231497 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
231454 CACGTGAGGA
231464 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
231480 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
231497 T
1 T
231498 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:241759 original size:21 final size:21
Alignment explanation
Indices: 241713--241759 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
241703 TTTTCTTCTT
* *
241713 ATTTTATTTATTTTATTTATC
1 ATTTTATTTATGTTATTTACC
*
241734 TTTTTATTTACTGTT-TTTACC
1 ATTTTATTTA-TGTTATTTACC
241755 ATTTT
1 ATTTT
241760 TCATTGCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTATGTTATTTACC
Found at i:244281 original size:21 final size:20
Alignment explanation
Indices: 244257--244354 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
244247 TCAGTTTCCA
*
244257 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
244278 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
244299 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
244320 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
244340 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
244355 ACACATAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:244307 original size:42 final size:41
Alignment explanation
Indices: 244257--244354 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
244247 TCAGTTTCCA
* *
244257 AAAATCGCAACGCGATTCTT-GAAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGATT-TTCCAAAATCGCAACGCGAATATG
**
244296 TACAAATTCGCATTGCGATTTTCCAAAATCGCAACGCGAATATG
1 -A-AAA-TCGCAACGCGATTTTCCAAAATCGCAACGCGAATATG
244340 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
244355 ACACATAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
40 1 0.02
41 14 0.30
42 27 0.57
43 4 0.09
44 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAACGCGATTTTCCAAAATCGCAACGCGAATATG
Found at i:244383 original size:20 final size:20
Alignment explanation
Indices: 244321--244494 Score: 154
Period size: 20 Copynumber: 8.7 Consensus size: 20
244311 CGATTTTCCA
* ** *
244321 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
244341 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
244361 AAATCGCAACGCATATCCGT
1 AAATCGCAACGCGTATCCGT
*
244381 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
* **
244401 AAATCGCAATGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
244421 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * * *
244441 ATATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
*
244461 AAAATCGCAACGCGTATACGT
1 -AAATCGCAACGCGTATCCGT
244482 AAATCGCAACGCG
1 AAATCGCAACGCG
244495 ATATTTAAAG
Statistics
Matches: 125, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.02
20 105 0.84
21 17 0.14
22 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:244405 original size:60 final size:61
Alignment explanation
Indices: 244340--244498 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 61
244330 CGCGAATATG
* * * * * *
244340 AAAATCGCAACGCGAACACATAAATCGCAACGCATATCCGTAAATCGCAACG-TGTATCCGT
1 AAAATCGCAACGCGTATACGTAAATCGCAACGCATATCCGTAAATCGCAACGAT-AATACAT
* ** * * *
244401 -AAATCGCAATGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGATAATACAT
1 AAAATCGCAACGCGTATACGTAAATCGCAACGCATATCCGTAAATCGCAACGATAATACAT
244461 AAAATCGCAACGCGTATACGTAAATCGCAACGCGATAT
1 AAAATCGCAACGCGTATACGTAAATCGCAACGC-ATAT
244499 TTAAAGCGCC
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
60 46 0.59
61 29 0.37
62 3 0.04
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (61 bp):
AAAATCGCAACGCGTATACGTAAATCGCAACGCATATCCGTAAATCGCAACGATAATACAT
Found at i:244916 original size:33 final size:33
Alignment explanation
Indices: 244877--244947 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
244867 TTCACTTAGA
*
244877 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
244910 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
244943 TTTCA
1 TTTCA
244948 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:245071 original size:20 final size:20
Alignment explanation
Indices: 245027--245136 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
245017 TGCAGAAGAG
*
245027 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
245048 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
245068 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
245089 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
245103 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
245122 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
245137 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:245084 original size:41 final size:38
Alignment explanation
Indices: 245020--245136 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
245010 TTCAATTTGC
* *
245020 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
245058 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
245099 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
245132 AGAAT
1 AGAAT
245137 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:245106 original size:14 final size:14
Alignment explanation
Indices: 245087--245143 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
245077 GAGAAATGAA
245087 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
245101 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
245120 AATCGCAACGAGAG
1 AATCGCAACGAGAG
245134 AATCGCAACG
1 AATCGCAACG
245144 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:245119 original size:33 final size:33
Alignment explanation
Indices: 245079--245148 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
245069 CGCAACGAGA
245079 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
245112 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
245145 GAAA
1 GAAA
245149 CCAAAAATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:245183 original size:19 final size:18
Alignment explanation
Indices: 245156--245236 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 18
245146 AAACCAAAAA
*
245156 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
245175 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCTT
*
245189 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
245208 TCGCGTTGCGA--TTCTC
1 TCGCGTTGCGATTTTCTT
245224 TCGCGTTGCGATT
1 TCGCGTTGCGATT
245237 CTCTCGTTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.20
16 15 0.29
17 6 0.12
19 20 0.39
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:245197 original size:14 final size:14
Alignment explanation
Indices: 245178--245250 Score: 74
Period size: 14 Copynumber: 4.7 Consensus size: 14
245168 TTTCATTTCG
245178 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
245192 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
245211 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
245225 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
245241 CGTTGCGATT
1 CGTTGCGATT
245251 TTCATTTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
14 20 0.40
16 17 0.34
17 3 0.06
19 10 0.20
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:245203 original size:33 final size:34
Alignment explanation
Indices: 245161--245236 Score: 136
Period size: 33 Copynumber: 2.2 Consensus size: 34
245151 AAAAATCGCA
245161 TTGCGATTTTCATTTCGCGTTGCGATTCTCT-CG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCCG
245194 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTC-CG
245229 TTGCGATT
1 TTGCGATT
245237 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 31 0.76
35 10 0.24
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCCG
Found at i:245229 original size:16 final size:16
Alignment explanation
Indices: 245175--245250 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
245165 GATTTTCATT
245175 TCGCGTTGCGATTCTC
1 TCGCGTTGCGATTCTC
*
245191 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA--TTC-TC
245208 TCGCGTTGCGATTCTC
1 TCGCGTTGCGATTCTC
245224 TCGCGTTGCGATTCTC
1 TCGCGTTGCGATTCTC
245240 T--CGTTGCGATT
1 TCGCGTTGCGATT
245251 TTCATTTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 18 0.34
16 22 0.42
17 5 0.09
19 8 0.15
ACGTcount: A:0.08, C:0.26, G:0.24, T:0.42
Consensus pattern (16 bp):
TCGCGTTGCGATTCTC
Found at i:247206 original size:92 final size:93
Alignment explanation
Indices: 246952--247325 Score: 718
Period size: 92 Copynumber: 4.1 Consensus size: 93
246942 TAGATTGCTT
*
246952 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
247017 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
247045 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
247110 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
247138 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
247202 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
247229 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
247294 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
247321 AGTAA
1 AGTAA
247326 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 20 0.07
92 148 0.53
93 110 0.40
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Done.