genome.fa.s1465.2.7.7.80.10.50.1000.39.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  39  of  55  ( 6520 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7838905--7838973	34	2.0	34	83	8	86	49	1	0	49	1.09
7841605--7841651	24	1.9	25	86	4	69	38	12	21	27	1.90
7841996--7842032	17	2.2	17	90	0	56	16	35	27	21	1.94
7843115--7843406	160	1.8	159	87	2	435	27	19	6	46	1.74
7843272--7843488	118	1.8	121	80	8	266	30	18	7	43	1.77
7844181--7844215	16	2.2	16	89	0	52	71	0	0	28	0.86
7845169--7845207	20	2.0	20	90	5	62	58	10	2	28	1.44
7851498--7851523	2	13.0	2	100	0	52	50	0	0	50	1.00
7853580--7853610	16	1.9	16	93	0	53	6	3	16	74	1.16
7855486--7855809	160	2.0	164	97	2	620	41	6	20	30	1.78
7856292--7856338	24	2.0	24	95	0	85	40	10	8	40	1.70
7857391--7857451	31	1.9	32	86	3	88	45	9	6	37	1.63
7859028--7859167	71	2.0	69	95	4	255	40	10	12	37	1.77
7867155--7867229	35	2.1	35	87	4	107	41	22	1	34	1.63
7867224--7867301	35	2.2	34	84	6	102	42	0	15	42	1.47
7867953--7867996	22	2.0	22	86	4	61	45	4	2	47	1.35
7878660--7878730	35	2.0	35	83	8	90	47	1	4	46	1.30
7879881--7879978	34	2.8	35	86	9	128	42	13	14	29	1.83
7880636--7880688	22	2.3	23	78	18	58	28	5	0	66	1.15
7880566--7880722	76	2.1	74	80	13	171	26	8	1	62	1.35
7880706--7880792	8	9.6	9	76	14	72	18	1	3	77	0.98
7880722--7880787	5	13.4	5	75	15	66	16	1	4	77	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7880714--7880792	10	7.5	10	71	7	50	17	1	3	77	0.99
7883780--7883830	15	3.2	16	79	17	54	78	7	13	0	0.96
7884510--7884560	22	2.3	22	93	0	84	35	29	11	23	1.90
7884952--7884987	18	2.0	18	88	0	54	19	8	30	41	1.81
7885415--7885747	36	9.4	36	76	12	273	25	19	15	39	1.90
7885468--7885748	72	4.0	71	76	10	308	25	19	14	40	1.90
7885487--7885811	138	2.4	137	85	2	463	27	20	13	39	1.89
7885706--7885880	67	2.6	65	84	6	217	32	21	9	36	1.85
7885697--7885879	68	2.7	67	84	4	219	30	21	9	38	1.85
7886483--7887143	105	6.3	105	90	3	938	33	26	17	22	1.96
7887693--7887790	34	2.8	35	86	9	128	42	13	14	29	1.83
7888509--7888593	4	20.8	4	75	21	63	21	1	3	74	1.04
7888509--7888598	15	5.9	15	70	25	64	20	1	3	75	1.01
7899368--7899413	20	2.3	20	88	0	65	28	17	23	30	1.97
7908011--7908131	58	2.0	60	82	6	149	30	23	6	38	1.81
7909505--7909911	204	2.0	202	99	0	796	42	15	9	33	1.79
7910906--7910962	30	1.9	30	96	0	105	21	33	1	43	1.63
7911739--7911849	55	2.0	55	100	0	222	24	25	23	27	2.00
7919427--7919490	23	2.8	23	85	0	65	26	50	10	12	1.73
7919441--7919490	11	4.3	12	85	10	68	28	50	12	10	1.71
7920091--7920209	37	3.2	37	80	2	114	42	10	11	34	1.77
7920722--7920759	19	2.0	19	85	10	51	34	2	0	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7921043--7921090	4	12.0	4	84	6	62	22	4	0	72	1.01
7921061--7921107	12	3.8	12	83	10	51	17	6	0	76	0.98
7921048--7921123	15	5.0	15	73	19	50	19	6	0	73	1.04
7924034--7924109	23	3.3	23	75	14	84	73	10	11	3	1.22
7924027--7924116	46	2.0	46	91	4	146	72	10	13	4	1.26
7924031--7924112	16	5.3	15	75	15	53	73	9	13	3	1.22
7924719--7924770	22	2.4	21	90	9	86	38	28	13	19	1.89
7925585--7925936	102	3.4	105	88	3	514	35	23	17	23	1.96
7925867--7926014	43	3.6	42	67	16	119	35	24	18	22	1.96
7925859--7926017	81	2.0	81	91	0	255	34	23	18	22	1.96
7925762--7926123	187	1.9	187	92	0	598	35	24	17	22	1.95
7925940--7926761	106	7.8	106	88	1	1185	33	24	18	23	1.97
7925659--7926761	316	3.6	294	85	7	1339	33	24	18	23	1.97
7925940--7926909	316	3.1	315	87	4	1331	33	24	18	23	1.97
7926687--7926835	43	3.4	43	70	12	151	34	22	21	21	1.97
7926675--7926848	87	2.0	87	100	0	348	32	21	22	22	1.98
7927638--7927742	37	2.8	37	86	0	147	40	15	14	30	1.87
7928321--7928361	2	20.5	2	100	0	82	48	0	0	51	1.00
7928598--7928686	4	21.2	4	72	15	56	17	7	0	74	1.05
7928556--7928619	25	2.6	25	73	9	60	28	6	0	65	1.16
7928598--7928686	13	7.1	12	75	16	56	17	7	0	74	1.05
7930482--7930622	64	2.2	64	84	9	184	47	6	3	42	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7936520--7936577	19	3.0	19	80	10	64	51	15	15	17	1.76
7936697--7936743	20	2.4	19	82	10	67	53	10	17	19	1.72
7936706--7936748	20	2.3	19	88	11	63	51	11	16	20	1.75
7938928--7938992	21	3.1	21	80	6	69	40	15	29	15	1.88
7939024--7939089	33	2.0	33	90	0	105	28	0	48	22	1.51
7940810--7940858	19	2.6	19	93	0	80	30	2	10	57	1.43
7940977--7941939	198	4.9	198	96	1	1769	36	15	16	31	1.90
7943385--7943473	6	14.3	6	74	6	61	37	7	34	20	1.82
7943400--7943477	3	26.0	3	74	0	66	35	6	34	23	1.80
7943388--7943469	39	2.2	39	89	6	125	35	8	35	20	1.83
7943388--7943473	12	6.9	12	79	7	91	36	8	34	20	1.83
7943388--7943477	18	4.8	18	76	8	81	35	7	34	22	1.83
7944538--7944640	53	2.0	52	98	1	197	26	11	11	50	1.73
7944989--7945499	181	2.8	182	93	0	882	34	14	17	33	1.91
7947943--7948007	25	2.6	25	80	0	85	35	9	13	41	1.77
7948353--7948416	23	2.8	23	87	0	92	35	6	20	37	1.78
7948353--7948425	23	3.2	23	82	7	85	34	5	20	39	1.76
7948467--7949131	331	2.0	333	97	1	1273	42	8	11	37	1.70
7949602--7949635	2	17.0	2	100	0	68	50	0	0	50	1.00
7953288--7953898	205	3.0	205	93	2	1007	32	15	13	38	1.86
7960181--7960215	18	1.9	18	100	0	70	28	22	22	25	1.99
7964322--7964444	49	2.5	51	86	5	180	26	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7964456--7964580	51	2.5	50	81	1	151	20	31	32	16	1.94
7964954--7965018	23	2.9	23	76	2	60	41	7	18	32	1.79
7964871--7965093	87	2.6	87	91	0	347	43	9	14	32	1.78
7965321--7965359	20	2.0	20	89	0	60	35	20	10	33	1.86
7965141--7965772	199	3.2	198	87	4	830	32	15	13	39	1.85
7965887--7965959	28	2.4	31	78	17	82	45	1	2	50	1.24
7965884--7965970	14	6.2	14	69	9	52	45	1	2	50	1.21
7965898--7965966	28	2.5	28	74	6	70	47	1	2	47	1.25
7965985--7966053	24	2.9	25	79	18	76	43	1	2	52	1.25
7966651--7966739	28	2.9	32	79	11	89	51	0	0	48	1.00
7966656--7966739	31	2.8	28	79	15	89	50	0	0	50	1.00
7966667--7966739	28	2.4	32	82	11	91	47	0	0	52	1.00
7966664--7966765	14	7.2	14	70	11	57	49	0	0	50	1.07
7966678--7966746	28	2.5	28	76	2	77	50	0	0	49	1.00
7966729--7966773	14	3.1	15	84	6	58	55	2	0	42	1.12
7966782--7966833	24	2.2	24	80	16	65	38	0	5	55	1.24
7967088--7967137	23	2.2	23	88	0	73	34	18	10	38	1.84
7967072--7967271	87	2.3	87	91	0	310	33	12	9	45	1.74
7967197--7967336	64	2.2	64	89	2	219	32	9	12	45	1.74
7967392--7967516	62	2.0	62	96	0	232	44	16	11	28	1.82
7970797--7970849	16	3.3	16	100	0	106	11	24	32	32	1.91
7972429--7972462	9	3.9	9	84	7	52	61	2	0	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7972425--7972463	17	2.4	17	95	4	71	61	5	0	33	1.18
7973582--7973652	30	2.3	31	87	2	99	29	9	9	50	1.68
7981603--7981631	14	2.0	15	93	6	51	62	10	6	20	1.50
7985542--7985598	28	2.0	28	100	0	114	31	10	24	33	1.89
7989555--7989583	14	2.0	15	93	6	51	62	10	6	20	1.50
7997602--7997636	17	1.9	19	88	11	56	51	8	2	37	1.47
7997943--7997984	22	1.9	22	85	9	59	40	9	7	42	1.65
7998493--7998521	14	2.0	15	93	6	51	13	13	13	58	1.63
7998868--7998905	20	2.0	20	94	5	69	23	31	31	13	1.93
8001858--8001892	17	1.9	19	88	11	56	51	8	2	37	1.47

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55