Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007408.1 Hibiscus syriacus cultivar Beakdansim tig00020015_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: 73289
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:2379 original size:16 final size:16
Alignment explanation
Indices: 2358--2409 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2348 AACCTCCAAA
2358 AAATCATAAGCTCCAC
1 AAATCATAAGCTCCAC
*
2374 AAATCATAA-C-CCATTGA
1 AAATCATAAGCTCCA---C
2391 AAATCATAAGCTCCAC
1 AAATCATAAGCTCCAC
2407 AAA
1 AAA
2410 ATCAACCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 12 0.41
17 9 0.31
18 1 0.03
19 3 0.10
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATCATAAGCTCCAC
Found at i:2410 original size:17 final size:17
Alignment explanation
Indices: 2351--2413 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
2341 AAGCCCTAAC
*
2351 CTCCAAAAAATCATAAG
1 CTCCACAAAATCATAAG
2368 CTCCAC-AAATCATAA-
1 CTCCACAAAATCATAAG
*
2383 C-CCATTGAAAATCATAAG
1 CTCCA--CAAAATCATAAG
2401 CTCCACAAAATCA
1 CTCCACAAAATCA
2414 ACCCAAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 3 0.08
15 1 0.03
16 9 0.24
17 21 0.55
18 1 0.03
19 3 0.08
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.19
Consensus pattern (17 bp):
CTCCACAAAATCATAAG
Found at i:3433 original size:21 final size:21
Alignment explanation
Indices: 3409--3451 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3399 CAATAATATT
3409 TTTTTAAAATAAATCAATCCA
1 TTTTTAAAATAAATCAATCCA
3430 TTTTTAAAATAAATCAATCCA
1 TTTTTAAAATAAATCAATCCA
3451 T
1 T
3452 ACTAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTTAAAATAAATCAATCCA
Found at i:3508 original size:78 final size:79
Alignment explanation
Indices: 3416--3704 Score: 477
Period size: 78 Copynumber: 3.7 Consensus size: 79
3406 ATTTTTTTAA
3416 AATAAATCAATCCAT-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATCAATC
*
3480 CATACAACTTCAAT
66 CATACAACTACAAT
*
3494 AATAAATCATTCCATATTTT-AAATAAATCAATCCATACTAATAAATTATTTAAAAT-A--AATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATCAATC
3555 CATACAACTACAAT
66 CATACAACTACAAT
*
3569 AATAAATCAATCCATA--TTAAAATAAATCAATCCATACTAATAAATTATTTAAAAAAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT-AAAATAATCAAT
3632 CCATACAACTACAAT
65 CCATACAACTACAAT
*
3647 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAAAATAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
3705 ACTATTTTAA
Statistics
Matches: 197, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
73 2 0.01
74 31 0.16
75 36 0.18
76 1 0.01
77 1 0.01
78 89 0.45
79 12 0.06
80 25 0.13
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATCAATC
CATACAACTACAAT
Found at i:3554 original size:28 final size:25
Alignment explanation
Indices: 3439--3696 Score: 105
Period size: 26 Copynumber: 10.0 Consensus size: 25
3429 ATTTTTAAAA
3439 TAAATCAATCCATACTAATAAATTATT
1 TAAATCAATCCATACTAATAAA-TA-T
* *
3466 TAAAATAATCAATCCATAC-AACTTCAATAA
1 T---A-AATCAATCCATACTAA--TAAATAT
* * *
3496 TAAATCATTCCATA-T-TTTAA-A-
1 TAAATCAATCCATACTAATAAATAT
3517 TAAATCAATCCATACTAATAAATTATT
1 TAAATCAATCCATACTAATAAA-TA-T
* *
3544 TAAAATAAATCCATAC-AACTACAATAA
1 T-AAATCAATCCATACTAA-TA-AATAT
3571 TAAATCAATCCATA-T--TAAA-A-
1 TAAATCAATCCATACTAATAAATAT
3591 TAAATCAATCCATACTAATAAATTATT
1 TAAATCAATCCATACTAATAAA-TA-T
*
3618 TAAAAAAAATCAATCCATAC-AACTACAATAA
1 T-----AAATCAATCCATACTAA-TA-AATAT
* **
3649 TAAATCAATCTATA-TTTTAAA-A-
1 TAAATCAATCCATACTAATAAATAT
*
3671 TAAATCAATCCATACTAATAATTAT
1 TAAATCAATCCATACTAATAAATAT
3696 T
1 T
3697 TAAAATAAAC
Statistics
Matches: 177, Mismatches: 19, Indels: 72
0.66 0.07 0.27
Matches are distributed among these distances:
20 14 0.08
21 15 0.08
22 17 0.10
23 17 0.10
24 3 0.02
25 5 0.03
26 35 0.20
27 7 0.04
28 17 0.10
29 2 0.01
30 4 0.02
31 18 0.10
32 21 0.12
33 2 0.01
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAATCAATCCATACTAATAAATAT
Found at i:3578 original size:153 final size:153
Alignment explanation
Indices: 3416--3705 Score: 503
Period size: 153 Copynumber: 1.9 Consensus size: 153
3406 ATTTTTTTAA
* *
3416 AATAAATCAATCCATTTTTAAAATAAATCAATCCATACTAATAAATTATTT-AAAATAATCAATC
1 AATAAATCAATCCA-TATTAAAATAAATCAATCCATACTAATAAATTATTTAAAAAAAATCAATC
* *
3480 CATACAACTTCAATAATAAATCATTCCATATTTT-AAATAAATCAATCCATACTAATAAATTATT
65 CATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATT
3544 TAAAATAAATCCATACAACTACAAT
129 TAAAATAAATCCATACAACTACAAT
3569 AATAAATCAATCCATATTAAAATAAATCAATCCATACTAATAAATTATTTAAAAAAAATCAATCC
1 AATAAATCAATCCATATTAAAATAAATCAATCCATACTAATAAATTATTTAAAAAAAATCAATCC
*
3634 ATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAATTATTTA
66 ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTTA
3699 AAATAAA
131 AAATAAA
3706 CTATTTTAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
152 35 0.27
153 73 0.56
154 22 0.17
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.32
Consensus pattern (153 bp):
AATAAATCAATCCATATTAAAATAAATCAATCCATACTAATAAATTATTTAAAAAAAATCAATCC
ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTTA
AAATAAATCCATACAACTACAAT
Found at i:3677 original size:48 final size:46
Alignment explanation
Indices: 3607--3783 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 46
3597 AATCCATACT
* *
3607 AATAAATTA-TTTAAAAAAAATCAATCCATAC-AACTACAATA-AT-A
1 AATAAACTATTTTAAAATAAATCAATCCATACTAA-TA-AATATATAA
* * *
3651 AATCAATCTATATTTTAAAATAAATCAATCCATACTAATAATTATTTAA
1 AAT-AAAC--TATTTTAAAATAAATCAATCCATACTAATAAATATATAA
* *
3700 AATAAACTATTTTAAAATAAATCAATCCATACTAAT-ATTATTTAA
1 AATAAACTATTTTAAAATAAATCAATCCATACTAATAAATATATAA
3745 AATAAA-T-TTTTAAAATAAATCAATCCATACTAATAAATA
1 AATAAACTATTTTAAAATAAATCAATCCATACTAATAAATA
3784 ACCTTATTAA
Statistics
Matches: 118, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
43 27 0.23
44 7 0.06
45 17 0.14
46 29 0.25
47 5 0.04
48 27 0.23
49 6 0.05
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (46 bp):
AATAAACTATTTTAAAATAAATCAATCCATACTAATAAATATATAA
Found at i:3720 original size:46 final size:45
Alignment explanation
Indices: 3660--3780 Score: 219
Period size: 46 Copynumber: 2.7 Consensus size: 45
3650 AAATCAATCT
3660 ATATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAA
1 ATATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAA
3705 ACTATTTTAAAATAAATCAATCCATACTAAT-ATTATTTAAAATAA
1 A-TATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAA
3750 AT-TTTTAAAATAAATCAATCCATACTAATAA
1 ATATTTTAAAATAAATCAATCCATACTAATAA
3781 ATAACCTTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
43 27 0.36
44 2 0.03
45 16 0.22
46 29 0.39
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (45 bp):
ATATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAA
Found at i:3758 original size:13 final size:13
Alignment explanation
Indices: 3740--3764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3730 ACTAATATTA
3740 TTTAAAATAAATT
1 TTTAAAATAAATT
3753 TTTAAAATAAAT
1 TTTAAAATAAAT
3765 CAATCCATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATAAATT
Found at i:4716 original size:37 final size:39
Alignment explanation
Indices: 4673--4775 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
4663 CAATTTGAGA
*
4673 AATAATTTAGGTTGTTA-GGCTG-AATAA-TTAAGAAATT
1 AATAATTTAGATTGTTATGG-TGAAATAATTTAAGAAATT
4710 AATAATTTAGATTGTTATGGTGAAATAATTTAAGAAATT
1 AATAATTTAGATTGTTATGGTGAAATAATTTAAGAAATT
* * * * *
4749 AAGAATATAGAATATTAGGGTGAAATA
1 AATAATTTAGATTGTTATGGTGAAATA
4776 GAGAATCAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
37 18 0.32
38 7 0.12
39 32 0.56
ACGTcount: A:0.45, C:0.01, G:0.18, T:0.36
Consensus pattern (39 bp):
AATAATTTAGATTGTTATGGTGAAATAATTTAAGAAATT
Found at i:8617 original size:13 final size:13
Alignment explanation
Indices: 8599--8626 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8589 AAATATGTTA
8599 GAGAAGCAGCTGG
1 GAGAAGCAGCTGG
8612 GAGAAGCAGCTGG
1 GAGAAGCAGCTGG
8625 GA
1 GA
8627 AAATCCTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.46, T:0.07
Consensus pattern (13 bp):
GAGAAGCAGCTGG
Found at i:19805 original size:23 final size:23
Alignment explanation
Indices: 19779--19841 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
19769 TTATAATATG
19779 TTTATCTCTGTTTTTATGACACA
1 TTTATCTCTGTTTTTATGACACA
* * * *
19802 TTTAGT-TATGTCTTTGTGACACG
1 TTTA-TCTCTGTTTTTATGACACA
*
19825 TTTTTCTCTGTCTTTTA
1 TTTATCTCTGT-TTTTA
19842 ATAGTTTTCA
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
22 1 0.03
23 24 0.83
24 4 0.14
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.56
Consensus pattern (23 bp):
TTTATCTCTGTTTTTATGACACA
Found at i:21279 original size:47 final size:47
Alignment explanation
Indices: 21210--21304 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
21200 ATGTTAAAAG
*
21210 TATGTCCATAATCAATCATAATGTAATTTCAATGACTAATCATGAGA
1 TATGTCCATAATCAATCATAATGTAATTTCAATGAATAATCATGAGA
21257 TATGTCCATAATCAATCATAATGTAATTTCAATGAATAATCATGAGA
1 TATGTCCATAATCAATCATAATGTAATTTCAATGAATAATCATGAGA
21304 T
1 T
21305 GACTATTATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (47 bp):
TATGTCCATAATCAATCATAATGTAATTTCAATGAATAATCATGAGA
Found at i:21607 original size:38 final size:40
Alignment explanation
Indices: 21564--21638 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
21554 ATTTAACGTT
* *
21564 AAATTTTGAATGG-GGA-TACTAAAATTAAACAAAAACTA
1 AAATTTTGAATGGTGAAGTACTAAAATGAAACAAAAACTA
*
21602 AAATTTTTAATGGTGAAGTACTAAAATGAAACAAAAA
1 AAATTTTGAATGGTGAAGTACTAAAATGAAACAAAAA
21639 AATAAACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 12 0.38
39 2 0.06
40 18 0.56
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (40 bp):
AAATTTTGAATGGTGAAGTACTAAAATGAAACAAAAACTA
Found at i:30795 original size:21 final size:21
Alignment explanation
Indices: 30769--30813 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30759 GATTTCTGGG
* *
30769 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
30790 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
30811 CAA
1 CAA
30814 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:31725 original size:31 final size:31
Alignment explanation
Indices: 31687--31842 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
31677 AGGGTCGAGG
31687 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
31718 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
31749 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
31780 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
31811 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
31842 G
1 G
31843 GTCCTTCAGG
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:35197 original size:21 final size:21
Alignment explanation
Indices: 35171--35215 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35161 GATTTCTGGG
* *
35171 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
35192 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
35213 CAA
1 CAA
35216 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:36124 original size:31 final size:31
Alignment explanation
Indices: 36086--36241 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
36076 AGGGTCGAGG
36086 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
36117 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
36148 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
36179 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
36210 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
36241 G
1 G
36242 GTCCTTCGGG
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:38519 original size:29 final size:29
Alignment explanation
Indices: 38467--38567 Score: 121
Period size: 29 Copynumber: 3.4 Consensus size: 29
38457 AATATGTTTA
*
38467 TGTTCGTTTAAATTTTTAATATTATATTCG
1 TGTTTGTTTAAA-TTTTAATATTATATTCG
*
38497 TGTTTGTTTAAATTTTAATATTATATTTG
1 TGTTTGTTTAAATTTTAATATTATATTCG
* * *
38526 TGTTTGTTTAAAATTTTCAATATTGTGTTCA
1 TGTTTGTTT-AAATTTT-AATATTATATTCG
*
38557 TGTTTATTTAA
1 TGTTTGTTTAA
38568 TTATTTTTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 25 0.40
30 20 0.32
31 17 0.27
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (29 bp):
TGTTTGTTTAAATTTTAATATTATATTCG
Found at i:38670 original size:23 final size:24
Alignment explanation
Indices: 38637--38714 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 24
38627 TTTGCAAAGA
* * *
38637 AAACATATTCGTTTAG-TGTTCGT
1 AAACATGTTCGTTTAGACGTTCAT
*
38660 AAATATGTTCGTTT-GACGTTCAT
1 AAACATGTTCGTTTAGACGTTCAT
* *
38683 AAACATGTTCGTTTA-ACATTCGT
1 AAACATGTTCGTTTAGACGTTCAT
38706 AAACATGTT
1 AAACATGTT
38715 GGATAACCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (24 bp):
AAACATGTTCGTTTAGACGTTCAT
Found at i:39241 original size:21 final size:21
Alignment explanation
Indices: 39216--39263 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
39206 TACCAGAAAC
*
39216 ATTATTATTTCTACCGGTTTT
1 ATTATTATTTCTACCGATTTT
* * *
39237 GTTATTTTTTCTATCGATTTT
1 ATTATTATTTCTACCGATTTT
39258 ATTATT
1 ATTATT
39264 GTTGAGCATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTATTATTTCTACCGATTTT
Found at i:41604 original size:61 final size:61
Alignment explanation
Indices: 41521--41643 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
41511 TCACTACATT
*
41521 TATACTGAATTATTATTCTTCTTGTAGCTAGTCAAGGTTAAACCTCGTTAAATCTCACTTA
1 TATACTGAATTATTATTATTCTTGTAGCTAGTCAAGGTTAAACCTCGTTAAATCTCACTTA
41582 TATACTGAATTATTATTATTCTTGTAGCTAGTCAAGGTTAAACCTCGTTAAATCTCACTTA
1 TATACTGAATTATTATTATTCTTGTAGCTAGTCAAGGTTAAACCTCGTTAAATCTCACTTA
41643 T
1 T
41644 TATTCGTAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (61 bp):
TATACTGAATTATTATTATTCTTGTAGCTAGTCAAGGTTAAACCTCGTTAAATCTCACTTA
Found at i:47197 original size:19 final size:18
Alignment explanation
Indices: 47175--47221 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
47165 AGTGAATAAT
47175 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
47194 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
47213 AATA-AAGAA
1 AATATAAGAA
47222 ATGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:49125 original size:18 final size:17
Alignment explanation
Indices: 49087--49128 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
49077 ATAATATAAA
49087 AATTTAAATATTTTATTT
1 AATTTAAATATTTTA-TT
49105 AATTTAAATCGATTTTA-T
1 AATTTAAAT--ATTTTATT
49123 AATTTA
1 AATTTA
49129 TAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTTAAATATTTTATT
Found at i:55518 original size:2 final size:2
Alignment explanation
Indices: 55511--55551 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
55501 ACATTTGACT
55511 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
55552 ACCTGTCTAA
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:57388 original size:18 final size:19
Alignment explanation
Indices: 57353--57389 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57343 CACGGAATGT
57353 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
57373 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
57390 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:58119 original size:13 final size:13
Alignment explanation
Indices: 58101--58138 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
58091 TAATCTTTTG
58101 TTTTCACAAATTT
1 TTTTCACAAATTT
58114 TTTTCA-AAATTT
1 TTTTCACAAATTT
58126 TTATTCACAAATT
1 TT-TTCACAAATT
58139 ATCATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 10 0.43
14 5 0.22
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTCACAAATTT
Found at i:64423 original size:222 final size:226
Alignment explanation
Indices: 64095--64621 Score: 658
Period size: 224 Copynumber: 2.4 Consensus size: 226
64085 GAAAAAGGAT
* * * * *
64095 TTAATCTCAACATTTGATTTTTCCTTAATCCAATGGTCCTAAGAAGATGTAAAACTCTTAGTTTT
1 TTAATCACAACCTTTGA-TTTCCCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTT
* ** * *
64160 ACACTAGGTGTATATGTATCATACTGCTATATGGGTTAGGATCCACTTACA-CCAGTGT-AAATT
65 ACACTAGGTGTAAATGTATCATACCCCCATATGGATTAGGATCCACTTACACCCAGTGTAAAATT
* *
64223 AAGAGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGTTGAGATTAACTCATT-
130 AAGAGTTTTACACCTTTTTAGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTG
* *
64287 TTGTTCAGTGAATATCTTCTCATTTCCTACTG
195 TTGTTCAGTGAATATATTCTCATTTCCAACTG
* * *
64319 TTAGTCTCAACCTTTGATTTCTCTC-AT-CAAGTGGTCCTAAAAAGATGTAAAACTCTTAGTTTT
1 TTAATCACAACCTTTGATTTCCCTCAATCCAA-TGGTCCTAAAAAGATGTAAAACTCTTAGTTTT
* * * * * *
64382 ACATTGGGTGTAAATAG-ATCATGCCCCCATGTGGATTAGGATCCAGTTAGACCCAGTGTAAAAT
65 ACACTAGGTGTAAAT-GTATCATACCCCCATATGGATTAGGATCCACTTACACCCAGTGTAAAAT
* * *
64446 TAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGGGAAATTAAAGGCTGAGATTAACTCCTT
129 TAAGAGTTTTACACCTTTTTAGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATT
* * *
64511 GTTTTTTAGTGAATATATTCTCATTTCCAATTG
194 GTTGTTCAGTGAATATATTCTCATTTCCAACTG
* ***
64544 TTAATCACAACCTTTGATTTCCCTCAATCCAATGGTCCT-AAAAGGTGTAAAAC-AAGAGTTTTA
1 TTAATCACAACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTTA
64607 CACT-GGATGTAAATG
66 CACTAGG-TGTAAATG
64622 GATATATCCA
Statistics
Matches: 260, Mismatches: 35, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
221 3 0.01
222 71 0.27
223 16 0.06
224 96 0.37
225 62 0.24
226 9 0.03
227 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (226 bp):
TTAATCACAACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTTA
CACTAGGTGTAAATGTATCATACCCCCATATGGATTAGGATCCACTTACACCCAGTGTAAAATTA
AGAGTTTTACACCTTTTTAGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTGT
TGTTCAGTGAATATATTCTCATTTCCAACTG
Found at i:65033 original size:220 final size:222
Alignment explanation
Indices: 64650--65137 Score: 594
Period size: 220 Copynumber: 2.2 Consensus size: 222
64640 AAAACAATGA
* *
64650 GTTAATCTCAACATTTGATTTTCCTGAATCCAATGGTCTTAAAAGATGTAAACTCTTAGTTTTAC
1 GTTAATCTCAACATTTGATTTTCCTGAATCCAATGGTCCTAAAAAATGTAAACTCTTAGTTTTAC
*
64715 ACTAGGTGTAAATGGATCATGCCCCTATATGGGTTAGAATCCACTAACACAATATAAAATTAAGG
66 ACTAGGTGTAAA-GGATCATGCCCCTATATGGGTTAGAATCCACTAACACAATATAAAATTAAGA
* * *
64780 GTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACT-CAT-TTTG
130 GTTTTACACATTTTTAGAACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCCATGTTTG
* *
64843 TTCAGTGAATATCTTCTCATTTCCTATT
195 TTCAGTGAATACCTTCTCATTTCCTACT
* *
64871 GTTAATCTCAACATTTGA-TTTCTCT-CAT-CATGTGGTCCTAAAAAATGTAAACTCTTAGTTTT
1 GTTAATCTCAACATTTGATTTTC-CTGAATCCA-ATGGTCCTAAAAAATGTAAACTCTTAGTTTT
* * * * * * * * *
64933 ACATTGGGTGTAAA-GATCATATCCCC-ATGTGGGTTAGGATTCATTTAGACCCAATGTAAAATT
64 ACACTAGGTGTAAAGGATCAT-GCCCCTATATGGGTTAGAATCCA-CTA-ACACAATATAAAATT
* * *
64996 AAGAGTTTTATACATTTTTAGAACCATTGGATTGAGGGAAATCAAAGGTTGATATTAACTCCATG
126 AAGAGTTTTACACATTTTTAGAACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCCATG
* *
65061 TTTTTTTAGTGAATACCTTCTCATTTCCTACT
191 TTTGTTCAGTGAATACCTTCTCATTTCCTACT
* * * * * * *
65093 ATTAATCTTAGCCTTTGATTTTCCTAAATCTAATTGTCCTAAAAA
1 GTTAATCTCAACATTTGATTTTCCTGAATCCAATGGTCCTAAAAA
65138 GGTGTATAAC
Statistics
Matches: 225, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
218 20 0.09
219 8 0.04
220 112 0.50
221 23 0.10
222 44 0.20
223 17 0.08
224 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (222 bp):
GTTAATCTCAACATTTGATTTTCCTGAATCCAATGGTCCTAAAAAATGTAAACTCTTAGTTTTAC
ACTAGGTGTAAAGGATCATGCCCCTATATGGGTTAGAATCCACTAACACAATATAAAATTAAGAG
TTTTACACATTTTTAGAACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCCATGTTTGT
TCAGTGAATACCTTCTCATTTCCTACT
Found at i:65249 original size:553 final size:556
Alignment explanation
Indices: 64095--65672 Score: 2239
Period size: 553 Copynumber: 2.8 Consensus size: 556
64085 GAAAAAGGAT
* *
64095 TTAATCTCAACATTTGATTTTTCCTTAATCCAATGGTCCTAAGAAGATGTAAAACTCTTAGTTTT
1 TTAATCTCAACATTTGATTTTT-CTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTT
* * ** *
64160 ACACTAGGTGTATATGTATCATACTGCTATATGGGTTAGGATCCACTTACACCAGTGT-AAATTA
65 ACACTAGGTGTAAATGGATCAT-CCCCTATATGGGTTAGAATCCACTTACACCAGTGTAAAATTA
*
64224 AGAGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGTTGAGATTAACTCATTTT
129 AGAGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTTT
* * *
64289 GTTCAGTGAATATCTTCTCATTTCCTACTGTTAGTCTCAACCTTTGATTTCTCTCATCAAGTGGT
194 GTTCAGTGAATATCTTCTCATTTCCTACTGTTAATCTCAACATTTGATTTCTCTCATCATGTGGT
* * *
64354 CCTAAAAAGATGTAAAACTCTTAGTTTTACATTGGGTGTAAATAGATCATGCCCCCATGTGGATT
259 CCTAAAAAGATGTAAAACTCTTAGTTTTACATTGGGTGTAAACAGATCATGTCCCCATGTGGGTT
*
64419 AGGATCCAGTTAGACCCAGTGTAAAATTAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGG
324 AGGATCCAGTTAGACCCAATGTAAAATTAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGG
* * * *
64484 GAAATTAAAGGCTGAGATTAACTCCTTG-TTTTTTAGTGAATATATTCTCATTTCCAATTGTTAA
389 GAAATCAAAGGCTGAGATTAACTCCTTGTTTTTTTAGTGAATATATTCTCATTTCCTACTATTAA
* *
64548 TCACAACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAGGTGTAAAACAAGAGTTTTACACTGG
454 TCTCAACCTTTGATTTCCCTAAATCCAATGGTCCTAAAAGGTGTAAAACAAGAGTTTTACACTGG
* * *
64613 ATGTAAATGGATATATCCATGTATAAAAAAACAATGAG
519 ATGTAAACGGATATATCCATATATAAAAAAACAAAGAG
* * *
64651 TTAATCTCAACATTTGATTTTCCTGAATCCAATGGT-CTTAAAAGATGT-AAACTCTTAGTTTTA
1 TTAATCTCAACATTTGATTTTTCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTTA
* * *
64714 CACTAGGTGTAAATGGATCATGCCCCTATATGGGTTAGAATCCACTAACA-CAATATAAAATTAA
66 CACTAGGTGTAAATGGATCAT-CCCCTATATGGGTTAGAATCCACTTACACCAGTGTAAAATTAA
*
64778 GGGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTTTG
130 GAGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTTTG
*
64843 TTCAGTGAATATCTTCTCATTTCCTATTGTTAATCTCAACATTTGATTTCTCTCATCATGTGGTC
195 TTCAGTGAATATCTTCTCATTTCCTACTGTTAATCTCAACATTTGATTTCTCTCATCATGTGGTC
*
64908 CTAAAAA-ATGT-AAACTCTTAGTTTTACATTGGGTGT-AA-AGATCATATCCCCATGTGGGTTA
260 CTAAAAAGATGTAAAACTCTTAGTTTTACATTGGGTGTAAACAGATCATGTCCCCATGTGGGTTA
* * * *
64969 GGATTCATTTAGACCCAATGTAAAATTAAGAGTTTTATACATTTTTAGAACCATTGGATTGAGGG
325 GGATCCAGTTAGACCCAATGTAAAATTAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGGG
* * * **
65034 AAATCAAAGGTTGATATTAACTCCATGTTTTTTTAGTGAATACCTTCTCATTTCCTACTATTAAT
390 AAATCAAAGGCTGAGATTAACTCCTTGTTTTTTTAGTGAATATATTCTCATTTCCTACTATTAAT
* * * * * * *
65099 CTTAGCCTTTGATTTTCCTAAATCTAATTGTCCTAAAAAGGTGTATAACAAGAGTTTTACATTGG
455 CTCAACCTTTGATTTCCCTAAATCCAATGGTCCT-AAAAGGTGTAAAACAAGAGTTTTACACTGG
* * * *
65164 GTGTAAACGGATCCTCTCCCTATATAAAAAAACAAAGAG
519 ATGTAAACGGAT-ATATCCATATATAAAAAAACAAAGAG
* * * **
65203 TTAATTTTAATATTTGATTTTTCTCAATCCAATTATCCTAAAAAGATGTAAAACTCTTAGTTTTA
1 TTAATCTCAACATTTGATTTTTCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTTA
* * * * *
65268 CACTAGGTGTAAATGGATCCTACCCTATATAGGTTAGATTCCACTTACATCAGTGTAAAATTAAG
66 CACTAGGTGTAAATGGATCATCCCCTATATGGGTTAGAATCCACTTACACCAGTGTAAAATTAAG
* * *
65333 AGTTTTACACC-TTTTTGGACCATTGGATTGAGGG-AATCAATGACTGAGA-TAACTCATCTTGT
131 AGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTTTGT
* * *
65395 TCAATGAATATATTCTCATTTCCAACTGTTAATCTCAACA-TTGATTTCTCTCATC-TAGTGGTC
196 TCAGTGAATATCTTCTCATTTCCTACTGTTAATCTCAACATTTGATTTCTCTCATCAT-GTGGTC
* ***
65458 CTAAAAAGATGTAAAACTCTTAATTTTACATTGGGTGTAAACAGATCATGTCCTTGTGTGGGTTA
260 CTAAAAAGATGTAAAACTCTTAGTTTTACATTGGGTGTAAACAGATCATGTCCCCATGTGGGTTA
* * *
65523 GGATCCAGATAGACCCAATGTAAAATTAAGAGTTTTACACCTTTTTAGGACCATTGGATTGGGGG
325 GGATCCAGTTAGACCCAATGTAAAATTAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGGG
* * * *
65588 AAATCAAAGGCTGAGATTAAGTCTTTGTTTGTTTTCCCAATGAATATATTCTCATTTCTTACTAT
390 AAATCAAAGGCTGAGATTAACTCCTTGTTT-TTTT---AGTGAATATATTCTCATTTCCTACTAT
*
65653 TAATCTCAACCATTGATTTC
451 TAATCTCAACCTTTGATTTC
65673 TCTCATTGAA
Statistics
Matches: 906, Mismatches: 100, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
549 104 0.11
550 89 0.10
551 115 0.13
552 95 0.10
553 256 0.28
554 170 0.19
555 17 0.02
556 21 0.02
558 39 0.04
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (556 bp):
TTAATCTCAACATTTGATTTTTCTCAATCCAATGGTCCTAAAAAGATGTAAAACTCTTAGTTTTA
CACTAGGTGTAAATGGATCATCCCCTATATGGGTTAGAATCCACTTACACCAGTGTAAAATTAAG
AGTTTTACACCTTTTTTGGACCATTGGATTGAGGGAAATCAAAGGCTGAGATTAACTCATTTTGT
TCAGTGAATATCTTCTCATTTCCTACTGTTAATCTCAACATTTGATTTCTCTCATCATGTGGTCC
TAAAAAGATGTAAAACTCTTAGTTTTACATTGGGTGTAAACAGATCATGTCCCCATGTGGGTTAG
GATCCAGTTAGACCCAATGTAAAATTAAGAGTTTTATACCTTTTTAGGACCATTGGATTGAGGGA
AATCAAAGGCTGAGATTAACTCCTTGTTTTTTTAGTGAATATATTCTCATTTCCTACTATTAATC
TCAACCTTTGATTTCCCTAAATCCAATGGTCCTAAAAGGTGTAAAACAAGAGTTTTACACTGGAT
GTAAACGGATATATCCATATATAAAAAAACAAAGAG
Found at i:65717 original size:230 final size:220
Alignment explanation
Indices: 65216--65756 Score: 595
Period size: 230 Copynumber: 2.4 Consensus size: 220
65206 ATTTTAATAT
* * * * *
65216 TTGATTTTTCTCAATCCAATTATCCTAAAAAGATGTAAAACTCTTAGTTTTACACTAGGTGTAAA
1 TTGATTTCTCTC-ATCTAATAATCCTAAAAAGATGTAAAACTCTTAATTTTACACTGGGTGTAAA
*** * * * ** * * *
65281 TGGATCCT-ACCCTATATAGGTTA-GATTCCACTTACA-TCAGTGTAAAATTAAGAGTTTTACAC
65 CAAATCATGTCCCTATATGGGTTAGGA-TCCAGATAGACCCAATGTAAAATTAAGAGTTTTACAC
*
65343 CTTTTTGGACCATTGGATTGAGGGAATCAATGACTGAGATAACTCATCTTGTTCAATGAATATAT
129 CTTTTTGGACCATTGGATTGAGGGAATCAAAGACTGAGATAACTCATCTTGTTCAATGAATATAT
*
65408 TCTCATTTCCAACTGTTAATCTCAACA
194 TCTCATTTCCAACTATTAATCTCAACA
* ** *
65435 TTGATTTCTCTCATCTAGTGGTCCTAAAAAGATGTAAAACTCTTAATTTTACATTGGGTGTAAAC
1 TTGATTTCTCTCATCTAATAATCCTAAAAAGATGTAAAACTCTTAATTTTACACTGGGTGTAAAC
* * * *
65500 AGATCATGTCCTTGTGTGGGTTAGGATCCAGATAGACCCAATGTAAAATTAAGAGTTTTACACCT
66 AAATCATGTCCCTATATGGGTTAGGATCCAGATAGACCCAATGTAAAATTAAGAGTTTTACACCT
* * * * *
65565 TTTTAGGACCATTGGATTGGGGGAAATCAAAGGCTGAGATTAAGTCTTTGTTTGTTTTCCCAATG
131 TTTT-GGACCATTGGATTGAGGG-AATCAAAGACTGAGA-TAACTC-AT-CTTG--TT--CAATG
**
65630 AATATATTCTCATTTCTTACTATTAATCTCAACCA
187 AATATATTCTCATTTCCAACTATTAATCTCAA-CA
* * * * *
65665 TTGATTTCTCTCAT-TGAATAATCCTAAAAAGATGTAAGACTTTTAGTTTTACACTGTGTTTAAA
1 TTGATTTCTCTCATCT-AATAATCCTAAAAAGATGTAAAACTCTTAATTTTACACTGGGTGTAAA
65729 CAAATCATGTCCCTATATGGGTTAGGAT
65 CAAATCATGTCCCTATATGGGTTAGGAT
65757 AGATCCGATA
Statistics
Matches: 265, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
218 50 0.19
219 28 0.11
220 32 0.12
221 17 0.06
222 13 0.05
223 5 0.02
224 1 0.00
225 3 0.01
227 2 0.01
229 35 0.13
230 79 0.30
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (220 bp):
TTGATTTCTCTCATCTAATAATCCTAAAAAGATGTAAAACTCTTAATTTTACACTGGGTGTAAAC
AAATCATGTCCCTATATGGGTTAGGATCCAGATAGACCCAATGTAAAATTAAGAGTTTTACACCT
TTTTGGACCATTGGATTGAGGGAATCAAAGACTGAGATAACTCATCTTGTTCAATGAATATATTC
TCATTTCCAACTATTAATCTCAACA
Found at i:70250 original size:8 final size:8
Alignment explanation
Indices: 70239--70281 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
70229 AAGTTGGCAG
70239 GCATTCAT
1 GCATTCAT
70247 GCATTCAT
1 GCATTCAT
*
70255 GCATTCAG
1 GCATTCAT
70263 GCA-TCAT
1 GCATTCAT
70270 GCATTCAT
1 GCATTCAT
70278 GCAT
1 GCAT
70282 GCATTCAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (8 bp):
GCATTCAT
Found at i:70298 original size:31 final size:31
Alignment explanation
Indices: 70239--70298 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
70229 AAGTTGGCAG
* ** *
70239 GCATTCATGCATTCATGCATTCAGGCATCAT
1 GCATTCATGCATGCATGCAAGCAAGCATCAT
*
70270 GCATTCATGCATGCATTCAAGCAAGCATC
1 GCATTCATGCATGCATGCAAGCAAGCATC
70299 TAAAGCCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
GCATTCATGCATGCATGCAAGCAAGCATCAT
Done.