genome.fa.s7926.2.7.7.80.10.50.1000.19.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  19  of  42  ( 5024 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)
3924578--3924606	15	1.9	15	100	0	58	13	41	3	41	1.62
3936059--3936139	41	2.0	41	95	2	146	25	7	27	39	1.82
3940965--3941009	20	2.5	18	80	19	58	46	11	20	22	1.81
3941156--3941227	37	2.0	37	83	2	92	50	5	0	44	1.25
3943419--3943455	16	2.5	15	91	8	58	51	5	13	29	1.63
3952864--3952922	29	2.0	29	100	0	118	23	13	13	49	1.78
3957524--3957582	29	2.0	29	100	0	118	23	13	13	49	1.78
3967796--3967862	34	2.0	33	85	2	89	23	10	13	52	1.71
3968399--3968444	20	2.3	20	92	0	74	34	30	6	28	1.82
3968587--3968725	35	3.9	35	88	3	208	18	24	19	37	1.94
3968587--3968730	71	2.0	71	97	0	270	18	24	18	38	1.92
3978295--3978344	14	3.5	15	84	15	54	54	6	0	40	1.25
3978447--3978509	23	3.2	19	73	20	65	57	0	3	39	1.15
3982353--3982431	39	2.1	39	85	7	108	24	11	7	56	1.60
3990344--3990400	30	1.9	30	100	0	114	45	21	7	26	1.77
3990392--3990421	15	2.0	15	100	0	60	26	13	6	53	1.64
3999395--3999421	14	1.9	14	100	0	54	44	7	7	40	1.60
3999413--3999624	38	5.7	38	82	7	240	46	0	6	46	1.34
3999419--3999622	36	5.5	37	80	9	231	46	0	6	46	1.35
3999607--3999649	2	22.0	2	95	4	79	48	0	0	51	1.00
4000074--4000113	17	2.2	19	86	8	57	62	20	15	2	1.43
4004455--4004533	2	40.0	2	97	2	151	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4006849--4006888	21	1.9	21	90	10	64	50	17	0	32	1.47
4011264--4011322	31	1.9	31	89	0	91	38	6	11	42	1.68
4011335--4011379	22	2.0	22	87	8	65	57	2	0	40	1.11
4011352--4011502	80	1.9	80	91	0	248	52	9	0	38	1.34
4011337--4012107	134	5.6	133	71	17	544	51	9	0	38	1.37
4011449--4011539	32	2.8	32	88	0	146	52	7	0	39	1.30
4011449--4011524	14	4.9	14	71	21	53	52	6	0	40	1.27
4011432--4012154	54	13.2	54	74	15	569	52	9	0	38	1.36
4011369--4012152	112	7.1	112	77	13	438	51	9	0	38	1.37
4011584--4011636	14	3.5	14	72	18	52	56	3	0	39	1.17
4011432--4012152	166	4.4	166	75	16	694	52	9	0	38	1.36
4011625--4011667	22	2.0	22	100	0	86	51	9	0	39	1.34
4011627--4011675	22	2.2	22	88	3	71	55	10	0	34	1.34
4011759--4011801	22	2.0	22	100	0	86	51	13	0	34	1.42
4011544--4012152	242	2.7	220	76	15	651	51	9	0	38	1.37
4011815--4011863	22	2.2	22	85	3	62	55	12	0	32	1.37
4011857--4011904	22	2.2	22	85	7	62	54	2	0	43	1.12
4011867--4011909	22	2.0	22	95	0	77	51	6	0	41	1.29
4011869--4011917	22	2.2	22	85	3	62	55	8	0	36	1.30
4011872--4012000	40	3.2	40	67	16	104	51	10	0	37	1.37
4011974--4012030	18	3.4	18	72	18	59	52	12	0	35	1.39
4012024--4012071	22	2.4	19	75	21	53	56	4	0	39	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4011835--4012103	86	3.2	85	81	11	311	52	10	0	37	1.38
4012132--4012219	15	5.5	15	79	18	97	54	2	0	43	1.12
4012078--4012219	69	2.1	66	85	6	187	52	4	0	41	1.28
4012087--4012189	22	4.5	22	70	11	82	52	6	0	40	1.28
4012635--4012664	2	15.0	2	100	0	60	50	0	0	50	1.00
4022639--4022688	24	2.2	23	92	7	84	44	14	14	28	1.83
4022650--4022695	24	1.9	24	90	0	74	50	15	10	23	1.75
4023588--4023631	17	2.8	16	83	10	54	50	31	2	15	1.57
4025899--4025938	20	2.0	20	90	9	64	42	5	17	35	1.71
4027477--4027553	22	3.5	22	89	0	118	28	31	24	15	1.96
4034374--4034439	22	3.0	22	90	0	114	28	31	24	15	1.95
4036401--4036434	15	2.3	15	94	0	59	29	11	8	50	1.69
4037321--4037378	25	2.3	25	82	11	66	48	12	8	31	1.70
4041365--4041420	24	2.4	23	82	8	69	51	17	7	23	1.70
4045649--4045685	2	19.0	2	94	5	67	51	0	0	48	1.00
4050275--4050308	2	17.0	2	100	0	68	50	50	0	0	1.00
4050236--4050454	72	3.0	72	98	1	420	38	37	9	13	1.78
4050347--4050380	2	17.0	2	100	0	68	50	50	0	0	1.00
4050419--4051290	2	449.5	2	92	6	1492	48	51	0	0	1.00
4052108--4052140	14	2.4	14	100	0	66	42	51	6	0	1.26
4055158--4055242	37	2.3	37	86	6	120	42	21	4	31	1.73
4061471--4061553	21	3.9	22	73	9	64	14	22	34	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4069028--4069147	35	3.3	36	89	5	181	43	20	5	31	1.73
4069079--4069139	21	3.2	21	65	29	64	42	21	4	31	1.74
4069030--4069174	35	4.1	36	83	11	142	41	19	6	33	1.76
4071383--4071417	17	2.1	16	89	5	52	37	0	2	60	1.12
4080237--4080263	3	9.0	3	100	0	54	66	0	33	0	0.92
4080270--4080444	87	2.0	87	96	0	323	29	22	19	28	1.98
4080449--4080761	156	2.0	156	99	0	617	25	29	13	31	1.94
4081227--4081277	26	2.0	24	85	7	66	56	7	3	31	1.46
4081523--4081559	15	2.5	15	95	0	65	5	67	18	8	1.36
4081535--4081574	19	2.1	19	95	0	71	7	70	17	5	1.30
4084109--4084153	24	1.9	23	86	4	63	55	2	0	42	1.12
4090490--4090695	113	1.8	112	88	1	313	31	13	17	37	1.89
4090790--4090874	41	2.1	41	88	0	125	35	15	14	35	1.87
4095052--4095168	14	8.4	14	68	16	55	29	0	22	47	1.57
4105052--4105084	17	2.0	16	94	5	57	12	6	21	60	1.53
4105281--4105401	64	1.9	63	83	6	156	30	17	23	28	1.97
4105768--4105800	17	1.9	17	100	0	66	63	12	0	24	1.28
4118362--4118388	5	5.4	5	100	0	54	40	0	22	37	1.54
4119313--4119488	43	4.2	42	79	10	189	49	3	18	28	1.64
4119465--4119501	14	2.6	14	95	0	65	54	0	21	24	1.45
4119431--4119544	56	2.0	57	83	11	146	50	3	20	26	1.64
4119396--4119588	98	2.0	98	81	10	225	48	4	20	26	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119488--4119731	42	5.7	41	75	10	163	50	7	16	26	1.71
4119353--4119632	140	2.0	141	82	8	349	48	5	19	26	1.70
4119479--4119667	85	2.2	83	75	11	177	50	6	17	25	1.69
4120032--4120090	31	1.9	31	86	6	84	38	8	10	42	1.69
4120115--4120157	22	2.0	22	100	0	86	51	13	0	34	1.42
4120117--4120165	22	2.2	22	88	3	71	55	14	0	30	1.40
4120105--4121121	54	18.6	54	76	13	693	52	13	0	33	1.42
4120105--4121251	80	13.9	83	80	12	823	52	13	0	33	1.43
4120105--4121089	134	7.2	134	81	10	817	52	13	0	33	1.42
4120244--4120287	22	2.2	19	75	24	54	52	6	0	40	1.28
4120249--4120291	22	2.0	22	100	0	86	51	9	0	39	1.34
4120222--4120300	22	4.4	18	67	25	51	53	10	0	36	1.35
4120251--4120299	22	2.2	22	88	3	71	55	10	0	34	1.34
4120305--4120379	22	3.2	23	75	17	82	54	17	0	28	1.43
4120449--4120497	22	2.2	22	85	3	62	55	12	2	30	1.48
4120501--4120543	22	2.0	22	100	0	86	51	13	0	34	1.42
4120503--4120551	22	2.2	22	88	3	71	55	14	0	30	1.40
4120558--4120606	22	2.2	22	82	7	55	53	12	0	34	1.39
4120612--4120686	22	3.2	22	78	12	71	53	17	0	29	1.44
4120721--4120763	22	2.0	22	100	0	86	51	13	0	34	1.42
4120723--4120771	22	2.2	22	88	3	71	55	14	0	30	1.40
4120777--4120851	22	3.2	23	75	17	82	54	17	0	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4120857--4120905	22	2.2	22	85	3	62	57	12	0	30	1.36
4120914--4120986	22	3.3	22	66	19	53	54	16	0	28	1.42
4120991--4121065	22	3.2	23	75	17	82	54	17	0	28	1.43
4120271--4121251	134	7.1	136	78	15	699	52	13	0	33	1.44
4121106--4121178	22	3.3	22	66	19	53	54	16	0	28	1.42
4120200--4121268	54	19.5	54	71	16	572	52	13	0	34	1.43
4121254--4121358	15	7.0	15	91	0	156	48	0	1	48	1.18
4121254--4121358	30	3.5	30	94	0	174	48	0	1	48	1.18
4122017--4122154	60	2.3	59	79	7	152	34	18	18	28	1.95
4126337--4126438	18	5.7	18	75	0	96	0	24	31	43	1.61

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