genome.fa.s8242.2.7.7.80.10.50.1000.68.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  68  of  73  ( 8740 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)
15698014--15699092	80	13.2	80	84	2	1188	23	19	23	33	1.97
15703655--15703721	10	6.7	10	76	19	52	73	0	7	19	1.07
15703655--15703693	19	2.1	18	85	4	51	71	0	10	17	1.12
15703677--15703721	22	2.2	21	84	11	58	75	0	2	22	0.91
15703682--15703713	16	2.0	16	93	0	55	78	0	0	21	0.76
15704885--15704937	3	18.3	3	75	21	51	62	1	0	35	1.06
15704882--15704939	14	4.2	14	74	26	61	62	1	0	36	1.06
15704930--15705291	36	10.4	35	81	14	382	45	5	3	46	1.41
15705148--15705243	34	3.2	28	83	14	97	44	6	3	45	1.44
15705216--15705336	39	3.0	42	83	11	137	45	4	2	47	1.38
15705216--15705338	43	3.0	41	82	11	135	45	4	2	47	1.37
15705587--15705638	17	3.1	17	100	0	104	40	0	23	36	1.55
15706207--15706237	2	15.5	2	100	0	62	48	0	0	51	1.00
15707612--15707710	52	1.9	51	87	2	144	26	10	15	48	1.76
15710970--15711011	21	2.0	21	95	0	75	30	14	7	47	1.71
15711006--15711104	33	3.0	33	92	1	155	32	8	15	44	1.75
15711090--15711144	13	4.2	13	75	13	58	36	3	10	49	1.56
15711818--15711870	15	3.4	15	72	10	52	33	7	11	47	1.68
15715508--15715554	3	15.7	3	90	0	76	4	0	34	61	1.15
15716269--15716316	23	2.1	23	88	0	69	35	12	18	33	1.89
15716656--15716694	20	2.0	20	89	0	60	48	10	15	25	1.76
15717043--15717079	18	2.1	18	89	0	56	51	10	5	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15717283--15717347	23	2.8	23	90	0	94	38	18	7	35	1.80
15717308--15719068	407	4.3	408	98	1	3396	38	12	8	40	1.73
15717308--15719074	815	2.2	815	97	1	3438	38	12	8	40	1.73
15721534--15722389	184	4.7	184	98	0	1631	34	15	14	35	1.89
15723858--15723931	3	24.7	3	78	0	76	25	33	5	35	1.79
15723866--15723956	42	2.2	42	87	0	128	21	32	7	37	1.82
15723871--15723938	9	7.6	9	73	6	57	23	33	7	35	1.83
15723862--15723959	6	16.3	6	76	8	56	21	32	7	38	1.81
15725422--15727235	395	4.6	398	98	1	3455	31	15	14	38	1.88
15725422--15727235	199	9.1	199	95	1	3308	31	15	14	38	1.88
15727317--15727361	19	2.4	19	92	0	72	57	8	2	31	1.41
15729155--15729220	33	2.0	33	87	0	96	24	45	1	28	1.62
15731520--15731561	19	2.3	18	88	11	68	21	16	9	52	1.72
15731525--15731570	19	2.4	19	88	3	74	19	17	8	54	1.68
15731691--15731736	20	2.3	20	89	10	76	17	17	10	54	1.70
15731801--15732244	226	2.0	225	92	3	741	39	6	8	45	1.61
15734540--15734637	22	4.3	22	66	12	63	38	0	9	52	1.34
15734478--15734595	15	7.5	15	79	13	130	45	0	2	50	1.21
15734478--15734675	47	4.2	46	73	17	138	40	0	7	51	1.34
15734575--15734779	80	2.5	83	88	7	294	33	0	12	54	1.38
15734645--15734900	32	8.7	32	72	22	229	32	0	15	52	1.43
15734678--15734720	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15734646--15734752	54	2.0	54	98	0	205	34	0	12	53	1.38
15734768--15734863	26	3.5	26	69	15	84	28	0	20	51	1.48
15734624--15734900	144	1.9	148	90	3	445	31	0	15	52	1.43
15734736--15734931	58	3.5	57	90	4	290	32	0	15	52	1.43
15734880--15734922	22	2.0	22	100	0	86	34	0	13	51	1.42
15734947--15735005	31	1.9	31	92	0	100	44	8	6	40	1.61
15740422--15740469	22	2.2	22	81	7	53	27	4	35	33	1.76
15747053--15747101	19	2.7	17	84	9	53	26	20	28	24	1.99
15747721--15747745	13	1.9	13	100	0	50	44	16	0	40	1.47
15749905--15749985	23	3.6	22	74	14	76	27	23	23	25	2.00
15755777--15755862	46	1.9	45	86	9	122	31	18	18	31	1.95
15757063--15757113	21	2.4	22	87	9	70	31	15	25	27	1.96
15764684--15764733	20	2.4	22	75	24	54	44	2	2	52	1.24
15770610--15770669	21	2.9	21	94	0	102	25	25	26	23	2.00
15778981--15779022	21	2.0	21	95	0	75	40	4	14	40	1.67
15782511--15782559	23	2.1	23	96	0	89	59	12	20	8	1.58
15786870--15787300	214	2.0	214	99	0	853	37	8	13	40	1.75
15787728--15787817	24	3.5	25	82	13	87	41	4	1	53	1.28
15787800--15787848	21	2.4	20	86	10	64	44	0	2	53	1.12
15787961--15788025	31	2.1	31	88	0	94	52	9	10	27	1.67
15788443--15788595	65	2.4	64	84	3	164	30	21	17	30	1.96
15791357--15791780	208	2.0	208	97	0	794	38	11	19	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15796794--15796956	81	2.0	81	100	0	326	38	13	24	23	1.91
15799701--15799780	23	3.6	22	75	13	83	26	22	22	28	1.99
15800276--15800323	13	3.8	12	78	8	51	39	10	0	50	1.37
15800270--15800322	26	2.1	26	89	3	81	39	11	0	49	1.39
15802369--15802488	55	2.2	55	98	0	231	27	29	15	28	1.96
15811302--15811382	40	2.0	41	87	4	119	32	12	17	38	1.87
15828479--15828642	41	4.0	41	87	0	229	39	17	18	24	1.92
15829582--15829662	38	2.1	38	100	0	162	35	23	2	38	1.68
15829851--15829875	11	2.3	11	100	0	50	40	8	36	16	1.77
15831293--15831319	10	2.7	10	100	0	54	18	0	18	62	1.32
15832455--15832614	41	3.9	41	94	0	275	39	17	18	24	1.92
15835449--15835489	20	2.0	20	100	0	82	34	12	9	43	1.75
15836150--15836313	41	4.0	41	91	0	265	38	18	19	23	1.93
15837220--15837264	13	3.5	13	87	0	72	20	17	22	40	1.92
15838828--15838872	20	2.2	20	96	0	81	22	24	8	44	1.81
15839138--15839309	57	3.0	57	87	1	229	16	18	28	36	1.93
15841366--15841406	17	2.4	18	84	12	59	12	26	29	31	1.92
15843913--15844027	57	2.0	57	89	3	178	13	19	30	36	1.91
15855225--15855350	20	6.6	20	65	18	61	32	15	23	28	1.95
15855746--15856151	59	6.9	58	90	1	544	33	14	21	31	1.93
15855746--15856163	118	3.6	118	88	1	608	33	14	21	30	1.93
15855746--15856163	177	2.4	177	87	1	606	33	14	21	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15858892--15858959	35	1.9	35	85	5	93	42	16	5	35	1.72
15869435--15869546	55	2.0	55	100	0	224	31	12	14	41	1.83
15881881--15881923	11	4.0	11	85	11	54	34	0	0	65	0.93
15882369--15882423	28	2.0	28	100	0	110	29	0	34	36	1.58
15885025--15885124	33	3.0	34	83	2	139	39	3	4	54	1.35
15885644--15885737	21	4.5	21	92	5	129	20	26	35	18	1.95
15885741--15885788	21	2.3	21	85	0	60	22	12	39	25	1.89
15887513--15887582	14	4.7	15	70	16	56	58	1	0	40	1.07
15887510--15887585	16	4.8	17	68	22	58	59	1	0	39	1.06
15887510--15887585	33	2.4	30	85	12	91	59	1	0	39	1.06
15887544--15887616	33	2.2	34	83	9	89	64	5	0	30	1.16
15889108--15889163	2	28.0	2	96	0	103	50	0	1	48	1.11
15894120--15894216	35	2.8	36	80	13	96	32	0	19	47	1.50
15896215--15896257	21	2.0	21	82	8	52	37	2	18	41	1.63
15897647--15897713	22	3.0	22	91	2	107	28	28	23	19	1.98
15899375--15899419	21	2.1	21	87	0	63	15	24	28	31	1.96
15902560--15902626	22	3.0	22	95	2	116	25	28	26	19	1.99
15904290--15904329	20	2.0	20	85	0	53	17	22	30	30	1.97
15907918--15908003	32	2.7	31	84	11	113	54	6	9	29	1.58
15908148--15908247	32	3.1	31	83	11	121	54	8	8	30	1.58
15909591--15909651	21	3.2	21	65	26	62	47	16	4	31	1.68
15909573--15909652	36	2.2	36	93	2	135	45	18	5	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15913015--15913050	16	2.2	17	95	5	65	44	25	0	30	1.54
15913495--15913555	21	3.2	21	65	26	62	47	16	4	31	1.68
15913486--15913556	36	2.0	35	97	2	133	46	16	5	30	1.70
15918085--15918244	38	4.2	39	87	5	211	25	20	26	28	1.99
15918083--15918256	77	2.2	77	85	5	235	25	19	25	28	1.99
15920662--15920743	25	3.3	25	100	0	164	35	15	29	19	1.93
15920894--15920938	21	2.1	22	91	4	74	62	11	0	26	1.29
15921215--15921298	32	2.7	32	71	14	77	39	13	4	42	1.65
15923642--15923691	23	2.2	23	85	0	64	38	16	20	26	1.92
15925692--15925726	11	3.3	10	88	11	52	42	2	0	54	1.15

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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73