genome.fa.s8243.2.7.7.80.10.50.1000.48.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  48  of  49  ( 5786 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)
9949031--9949087	7	8.4	7	92	7	100	15	29	29	24	1.96
9949031--9949083	13	4.0	13	97	2	97	15	30	30	24	1.95
9949031--9949087	20	2.8	21	92	7	100	15	29	29	24	1.96
9954537--9954579	18	2.4	18	85	14	63	58	0	4	37	1.19
9958844--9959057	105	2.0	105	90	1	340	42	23	11	21	1.86
9961249--9961320	29	2.4	31	83	4	94	58	0	2	38	1.13
9963851--9963926	29	2.6	29	87	0	107	43	13	11	31	1.80
9968525--9968634	28	3.9	28	91	3	175	42	11	14	30	1.82
9968525--9968634	57	1.9	57	90	3	177	42	11	14	30	1.82
9969034--9969072	17	2.4	16	82	4	51	41	0	2	56	1.13
9972504--9972558	28	2.0	28	89	7	85	25	16	29	29	1.97
9972576--9972640	28	2.3	28	81	0	76	30	13	29	26	1.94
9972668--9972868	54	3.7	54	75	2	213	33	19	21	24	1.97
9972668--9972942	54	5.0	55	73	4	198	32	18	22	25	1.97
9972677--9972942	110	2.4	110	86	3	374	32	18	23	25	1.97
9981251--9981286	17	2.1	17	89	0	54	22	33	11	33	1.89
9983034--9983098	32	2.0	32	100	0	130	49	6	6	38	1.53
9984164--9984278	46	2.5	47	84	1	151	38	13	5	42	1.67
9986983--9987040	21	2.8	21	81	0	71	22	36	29	12	1.90
9990479--9990548	33	2.1	34	83	2	88	37	1	17	44	1.57
9993593--9993646	21	2.6	21	100	0	108	44	20	3	31	1.69
9998599--9998629	7	4.6	7	92	8	55	87	0	0	12	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9998598--9998634	13	3.0	12	88	7	56	86	0	0	13	0.57
9998821--9998851	16	1.9	16	93	0	53	54	0	0	45	0.99
10004088--10004136	21	2.3	22	86	10	66	57	2	4	36	1.30
10005732--10005767	4	9.0	4	93	0	63	25	2	25	47	1.65
10008291--10008420	47	2.8	47	85	0	179	36	13	6	43	1.68
10011350--10011417	27	2.5	27	85	0	82	26	29	20	23	1.99
10014283--10014404	25	4.9	25	93	0	208	40	22	0	36	1.60
10014570--10014622	21	2.5	21	84	0	70	20	26	18	33	1.96
10014862--10014921	18	2.9	22	71	19	65	25	38	16	20	1.93
10015294--10015343	20	2.5	20	90	0	73	12	12	24	52	1.72
10015312--10015351	20	2.0	20	85	0	53	15	12	22	50	1.77
10017210--10017313	20	5.5	20	80	13	121	37	23	20	19	1.94
10017213--10017334	54	2.3	54	91	0	190	39	21	21	18	1.93
10017358--10017406	20	2.5	20	82	0	62	22	18	24	34	1.96
10017393--10017456	33	1.9	33	87	0	92	9	18	21	50	1.75
10017939--10017980	21	2.2	20	87	12	61	21	35	16	26	1.94
10019405--10019440	14	2.6	14	90	0	54	30	0	22	47	1.52
10019598--10019691	20	4.7	20	92	2	154	18	22	25	34	1.96
10022107--10022160	24	2.2	24	93	0	90	40	20	18	20	1.91
10022107--10022174	24	2.8	24	84	0	64	38	20	17	23	1.93
10023001--10023230	40	5.7	40	73	11	173	25	19	23	32	1.97
10023022--10023168	20	7.3	21	78	7	110	21	19	21	37	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10023165--10023210	21	2.2	21	88	0	65	36	17	28	17	1.92
10024110--10024170	31	2.0	31	86	0	86	39	16	13	31	1.87
10026580--10026626	24	2.0	24	83	8	60	53	0	0	46	1.00
10026632--10026674	17	2.4	19	80	7	54	37	0	2	60	1.10
10026775--10026805	15	2.1	15	93	0	53	51	0	0	48	1.00
10027660--10027747	45	2.0	45	95	0	158	27	27	18	27	1.98
10029551--10029589	2	19.0	2	94	5	69	48	0	2	48	1.15
10031027--10031114	40	2.2	40	95	0	158	28	25	25	21	1.99
10031643--10031682	21	1.9	21	85	10	55	55	7	32	5	1.50
10032827--10033140	163	1.9	161	86	3	443	28	20	4	46	1.71
10033381--10033430	20	2.5	20	80	6	57	36	0	6	58	1.23
10035949--10036006	27	2.2	26	81	9	71	25	13	15	44	1.83
10035959--10036017	27	2.1	28	90	3	93	23	13	18	44	1.86
10037505--10037583	41	1.9	41	97	0	149	49	7	6	36	1.57
10038190--10038269	36	2.2	36	84	6	108	40	5	3	51	1.42
10042045--10042108	30	2.2	30	83	8	78	37	1	1	59	1.16
10042076--10042117	17	2.5	17	88	3	59	42	0	0	57	0.99
10042070--10042117	17	3.1	16	80	13	57	39	0	0	60	0.97
10049614--10049736	62	2.0	63	83	4	160	43	10	4	41	1.58
10049611--10049728	32	3.8	32	74	5	107	46	9	4	39	1.55
10055677--10055716	11	3.7	11	81	18	57	37	15	15	32	1.88
10055672--10055726	21	2.6	21	100	0	110	38	12	12	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10055672--10055726	10	5.3	10	76	23	60	38	12	12	36	1.82
10056869--10056961	31	2.9	32	87	4	127	26	18	19	35	1.95
10056869--10056988	31	3.9	31	84	9	115	26	17	20	35	1.94
10058454--10058493	15	2.7	15	88	3	55	37	10	5	47	1.59
10059900--10060099	105	1.9	106	94	5	361	19	25	11	45	1.82
10061139--10061187	16	3.1	16	100	0	98	26	18	12	42	1.85
10065722--10065791	34	2.1	32	89	5	104	21	31	15	31	1.95
10066074--10066115	21	2.0	21	95	0	75	26	28	21	23	1.99
10066207--10066266	29	2.0	31	90	6	97	41	16	6	35	1.75
10066630--10066749	59	2.0	59	90	0	186	26	15	22	35	1.94
10073494--10073544	13	3.5	13	76	23	57	52	29	13	3	1.58
10073494--10073544	14	3.5	14	78	17	59	52	29	13	3	1.58
10079347--10079423	36	2.2	35	95	4	138	22	3	31	42	1.71
10100476--10100526	23	2.3	23	93	3	86	25	17	17	39	1.92
10120064--10120105	20	2.2	19	87	8	59	38	28	0	33	1.58
10128410--10128443	16	2.1	16	88	0	50	50	0	2	47	1.16
10128485--10128518	16	2.0	18	88	11	54	26	2	5	64	1.30
10128731--10128772	21	2.0	21	100	0	84	52	9	0	38	1.34
10129011--10129258	130	1.9	130	94	0	433	36	12	14	36	1.84
10129655--10129731	36	2.2	36	88	2	111	37	1	22	38	1.62
10135263--10135460	82	2.4	82	80	5	211	28	16	22	32	1.96
10135305--10135414	41	2.6	42	70	17	95	23	16	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10135398--10135500	42	2.5	42	77	6	111	31	17	24	27	1.97
10135946--10135987	22	1.9	22	90	0	66	47	9	9	33	1.68
10137163--10137259	42	2.3	43	80	7	108	27	7	22	42	1.80
10137328--10137441	41	2.8	42	80	6	117	28	16	20	34	1.94
10137420--10137549	42	3.1	43	77	11	135	26	14	19	40	1.90
10138765--10138807	22	2.0	22	95	0	77	44	4	16	34	1.68
10139373--10139405	14	2.4	14	100	0	66	9	18	6	66	1.40
10142389--10142544	65	2.4	66	84	5	194	30	25	17	26	1.98
10148351--10148431	24	3.6	22	72	14	76	22	24	22	30	1.99
10151132--10151291	65	2.5	66	84	5	202	30	23	18	27	1.98
10157141--10157199	27	2.2	26	87	6	82	38	0	0	61	0.96
10165321--10165363	21	2.0	21	100	0	86	23	13	13	48	1.79
10167403--10167442	21	1.9	21	90	10	64	42	0	27	30	1.56
10176297--10176325	10	2.9	10	100	0	58	6	0	0	93	0.36
10176379--10176414	3	12.0	3	93	0	63	30	0	0	69	0.89
10178089--10178316	114	2.0	114	100	0	456	36	11	24	27	1.90
10181454--10181544	19	4.6	19	70	17	60	31	4	2	61	1.28
10181709--10181735	8	3.4	8	100	0	54	33	0	0	66	0.92
10181749--10181799	18	2.6	19	85	11	68	29	0	3	66	1.09
10181755--10181803	3	17.3	3	75	12	50	30	0	4	65	1.11
10181835--10181889	13	4.4	13	73	17	53	20	9	0	70	1.13
10182941--10182978	19	2.0	20	89	5	60	7	23	0	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10186316--10186373	16	3.7	15	74	21	57	77	8	13	0	0.98
10186315--10186373	23	2.5	26	76	18	74	76	10	13	0	1.02
10187160--10187254	22	4.3	22	93	2	147	40	27	12	20	1.88
10188062--10189755	106	16.0	106	90	1	2526	33	24	18	23	1.96
10190484--10190590	37	2.9	37	84	0	142	42	14	12	30	1.83
10191052--10191140	22	4.0	21	72	13	72	30	5	2	61	1.31
10191293--10191381	33	2.8	31	75	13	92	23	2	6	67	1.26
10191354--10191389	18	1.9	19	94	5	65	30	0	0	69	0.89
10191423--10191447	2	12.5	2	100	0	50	48	0	0	52	1.00
10191456--10191497	16	2.6	16	81	7	50	14	7	0	78	0.95

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