genome.fa.s8527.2.7.7.80.10.50.1000.27.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  27  of  37  ( 4336 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)
6632031--6632157	33	3.8	33	87	4	193	43	19	22	14	1.88
6632032--6632164	66	2.0	66	95	0	239	42	19	21	16	1.89
6632157--6632246	33	2.7	33	89	0	135	15	22	20	42	1.89
6632188--6632246	19	3.4	19	66	22	56	13	22	20	44	1.86
6632355--6632391	14	2.6	14	91	0	65	45	24	0	29	1.53
6633786--6633949	42	3.9	42	79	0	193	23	17	36	21	1.95
6633777--6633952	84	2.1	84	96	0	325	24	17	36	21	1.95
6634171--6634355	91	2.0	90	85	8	248	48	17	10	23	1.78
6636041--6636149	19	5.9	19	79	12	120	45	20	22	11	1.82
6636066--6636130	33	2.0	33	93	0	112	41	23	24	10	1.86
6636049--6636167	52	2.3	53	89	2	186	42	21	23	12	1.86
6636802--6636834	16	2.1	16	100	0	66	24	18	24	33	1.97
6636914--6636954	21	2.0	21	85	0	55	34	31	17	17	1.93
6639059--6639323	36	7.4	36	92	0	406	34	24	22	18	1.96
6639059--6639326	143	1.9	143	90	0	428	34	23	23	18	1.96
6640436--6640466	2	15.5	2	100	0	62	51	0	0	48	1.00
6642425--6642547	42	3.0	42	89	3	178	19	17	30	32	1.95
6648080--6648205	65	1.9	65	88	0	189	46	5	11	36	1.63
6648164--6648220	23	2.4	23	75	13	62	50	5	3	40	1.42
6648176--6648222	17	2.7	18	80	6	53	51	4	2	42	1.33
6648124--6648288	82	2.0	82	98	0	321	46	4	10	38	1.59
6652446--6652555	33	3.3	33	89	0	148	27	22	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6661376--6661409	16	2.1	16	94	0	59	32	8	26	32	1.87
6667395--6667438	20	2.2	20	88	8	63	65	0	0	34	0.93
6668162--6668186	10	2.5	10	100	0	50	80	0	20	0	0.72
6680454--6680480	7	3.9	7	100	0	54	70	0	29	0	0.88
6681986--6682029	20	2.3	19	85	11	63	43	9	25	22	1.82
6681992--6682036	20	2.6	16	86	13	54	44	11	20	24	1.83
6682179--6682251	36	2.0	37	86	5	105	49	4	0	46	1.21
6685611--6685660	2	25.0	2	100	0	100	50	0	0	50	1.00
6686604--6686654	22	2.3	22	89	0	84	21	41	13	23	1.89
6687065--6687112	20	2.4	20	85	0	60	16	12	20	50	1.78
6687077--6687115	20	2.0	20	94	0	69	12	10	17	58	1.61
6687079--6687122	20	2.2	20	87	0	61	13	11	18	56	1.66
6689000--6689048	20	2.5	20	89	0	71	34	24	20	20	1.96
6689089--6689305	20	11.4	20	75	11	161	22	19	21	36	1.95
6689234--6689317	20	4.2	20	89	3	116	22	22	20	34	1.97
6689089--6689318	94	2.5	95	89	2	349	22	20	20	36	1.95
6691406--6691463	20	2.9	20	89	0	89	41	24	20	13	1.89
6691482--6691732	20	12.9	20	85	5	343	26	19	23	31	1.98
6691453--6691704	40	6.7	34	76	16	141	25	19	23	32	1.97
6692046--6692080	18	1.9	18	88	0	52	20	2	25	51	1.61
6694993--6695040	20	2.4	20	92	0	78	22	18	29	29	1.98
6695147--6695183	19	1.9	19	88	0	56	24	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6697837--6697892	18	3.1	18	92	0	94	42	26	14	16	1.86
6698144--6698189	23	2.0	23	95	0	83	34	36	0	28	1.58
6699623--6699815	30	6.4	30	97	0	359	33	22	19	24	1.97
6699623--6699840	90	2.4	90	92	0	319	33	23	19	23	1.97
6699801--6699893	31	3.0	31	79	3	98	34	21	17	26	1.95
6700935--6700972	20	1.9	20	88	0	58	10	31	34	23	1.89
6704372--6704564	30	6.4	30	96	0	350	33	23	18	24	1.97
6704372--6704589	90	2.4	90	92	0	319	34	23	18	23	1.96
6704550--6704639	31	2.9	31	78	3	92	34	22	16	26	1.95
6704816--6704844	4	7.2	4	100	0	58	48	24	0	27	1.51
6705691--6705728	20	1.9	20	88	0	58	10	31	34	23	1.89
6709754--6709821	25	2.7	25	97	0	127	36	14	22	26	1.93
6715369--6715407	17	2.3	17	90	0	60	17	38	23	20	1.93
6715412--6715482	29	2.4	29	88	0	97	25	5	21	47	1.72
6715460--6715563	29	3.6	29	89	5	158	28	4	24	42	1.75
6716277--6716340	24	2.7	24	82	0	74	28	10	17	43	1.82
6716381--6716428	2	24.0	2	100	0	96	50	0	0	50	1.00
6716888--6716926	19	2.1	19	86	13	55	30	5	5	58	1.41
6722092--6722130	17	2.3	17	100	0	78	17	43	23	15	1.87
6722139--6722219	29	2.8	29	82	0	90	25	6	19	48	1.72
6722197--6722322	29	4.3	30	87	7	163	30	4	21	42	1.73
6723008--6723078	24	3.0	24	74	0	61	26	12	15	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6732250--6732308	21	2.7	23	76	10	68	47	16	16	18	1.83
6736420--6736494	32	2.3	32	93	0	123	22	12	32	33	1.91
6736892--6736950	21	2.7	23	73	10	68	47	15	16	20	1.83
6764414--6764609	29	6.8	29	83	5	209	31	4	12	51	1.59
6764411--6764610	57	3.5	58	83	3	242	31	4	13	51	1.61
6765315--6765397	24	3.5	24	77	6	87	26	10	16	45	1.80
6765420--6765477	2	29.0	2	100	0	116	50	0	0	50	1.00
6774618--6774652	18	1.9	18	88	11	54	28	34	22	14	1.93
6774761--6774804	23	1.9	23	95	0	79	27	27	29	15	1.96
6778450--6778475	2	13.0	2	100	0	52	50	0	0	50	1.00
6784391--6784449	22	2.7	22	94	0	100	28	28	25	16	1.97
6806500--6806534	18	1.9	18	88	0	52	28	17	0	54	1.43
6807848--6807890	18	2.4	18	96	0	77	11	20	48	18	1.79
6813000--6813042	18	2.4	18	96	0	77	11	20	48	18	1.79
6816811--6816845	18	1.9	18	88	0	52	28	17	0	54	1.43
6818166--6818211	18	2.6	18	92	0	83	13	17	50	19	1.78
6818153--6818189	13	2.8	13	91	0	65	13	21	48	16	1.80
6818146--6818206	31	2.0	31	93	0	104	16	18	47	18	1.83
6823470--6823512	6	7.2	6	100	0	86	16	0	16	67	1.24
6823576--6823600	6	4.2	6	100	0	50	0	20	32	48	1.50
6824185--6824276	45	2.0	45	97	0	175	31	28	7	32	1.85
6826388--6826422	18	1.9	18	88	11	54	54	5	17	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6826752--6826791	2	20.0	2	100	0	80	50	0	0	50	1.00
6827339--6827653	149	2.1	149	94	2	544	26	17	21	34	1.96
6827621--6827665	23	2.0	23	90	0	72	22	26	26	24	2.00
6830798--6830958	64	2.5	65	86	7	204	33	18	21	26	1.96
6831450--6831484	18	1.9	18	88	11	54	54	5	17	22	1.64
6832385--6832699	149	2.1	149	94	2	544	26	17	21	34	1.96
6832667--6832711	23	2.0	23	90	0	72	22	26	26	24	2.00
6844100--6844163	23	2.8	23	75	0	74	32	25	23	18	1.97
6845679--6845710	14	2.3	14	100	0	64	53	25	15	6	1.65
6846339--6846459	59	2.1	59	93	0	206	34	23	4	37	1.76
6847864--6847902	2	19.5	2	100	0	78	51	0	0	48	1.00
6847968--6848037	35	2.0	35	82	0	86	30	28	30	11	1.92
6848100--6848178	24	3.3	24	82	7	88	39	18	13	27	1.89
6848691--6848729	18	2.2	18	95	0	69	12	23	48	15	1.79
6850614--6850688	2	37.5	2	100	0	150	50	0	0	49	1.00
6850851--6850948	24	4.1	24	81	7	110	39	19	14	26	1.90
6855141--6855168	2	14.0	2	100	0	56	0	50	0	50	1.00
6857224--6857281	29	2.0	29	80	9	66	29	12	3	55	1.53
6860695--6861633	480	2.0	481	98	0	1808	42	12	10	35	1.77
6862260--6862301	20	2.0	21	90	4	68	35	14	9	40	1.78
6863274--6863858	290	2.0	290	98	0	1145	32	24	12	30	1.92
6867361--6867405	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6867987--6868021	18	1.9	18	88	11	54	54	5	17	22	1.64
6868905--6869208	149	2.0	149	98	0	590	27	17	20	34	1.95
6869187--6869231	23	2.0	23	86	0	63	20	24	28	26	1.99
6870442--6870480	21	1.9	20	89	5	60	35	15	7	41	1.76
6881627--6881665	17	2.4	16	83	8	51	30	0	2	66	1.05
6886366--6886428	27	2.3	28	97	2	119	42	25	11	20	1.85
6891347--6891377	2	15.5	2	100	0	62	51	0	0	48	1.00
6892053--6892090	15	2.4	16	95	4	69	15	5	0	78	0.91
6895063--6895125	8	7.0	9	74	15	51	79	6	12	1	0.99
6895062--6895125	18	3.6	18	76	17	71	78	7	12	1	1.03

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