genome.fa.s8488.2.7.7.80.10.50.1000.51.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  51  of  54  ( 6450 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)
12072845--12072883	17	2.3	17	86	8	53	20	2	0	76	0.90
12074911--12074977	16	4.6	14	75	15	64	20	5	0	73	1.04
12075198--12075243	19	2.2	22	70	25	53	39	23	10	26	1.88
12075204--12075244	19	2.2	19	95	0	73	41	21	12	24	1.87
12078195--12078276	17	4.8	17	75	0	65	19	10	9	59	1.58
12078289--12078341	25	2.1	25	82	0	61	39	18	22	18	1.92
12078322--12078368	23	2.0	23	84	8	60	44	17	21	17	1.86
12078597--12078655	29	2.0	29	86	0	82	15	35	27	22	1.94
12078688--12078740	27	2.0	27	88	0	79	3	47	18	30	1.67
12078964--12079026	4	16.8	4	88	9	80	69	0	30	0	0.88
12078912--12078975	26	2.5	26	84	2	67	50	7	31	10	1.66
12081401--12081464	23	2.8	23	78	4	76	28	25	26	20	1.99
12081480--12081697	103	2.1	103	93	0	382	36	23	12	27	1.91
12082173--12082210	20	1.9	20	88	0	58	10	31	34	23	1.89
12082238--12082280	21	2.0	21	81	0	50	16	25	30	27	1.97
12082652--12082702	21	2.4	21	93	0	93	33	23	23	19	1.97
12082693--12082731	20	2.0	20	100	0	78	25	25	20	28	1.99
12084315--12084375	22	2.9	21	87	4	61	29	16	34	19	1.94
12084322--12084390	22	3.1	22	89	0	102	27	17	36	18	1.94
12084574--12084697	20	6.1	20	78	10	135	25	18	25	31	1.98
12084589--12084698	41	2.7	41	98	0	211	22	17	26	33	1.96
12084712--12084758	21	2.2	21	84	0	58	38	19	14	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12084807--12084859	19	2.8	19	91	0	88	26	16	16	39	1.91
12086313--12086434	65	2.0	60	85	8	163	40	4	7	47	1.50
12087658--12087767	29	3.8	29	82	3	132	13	30	30	25	1.94
12087981--12088063	29	2.8	30	87	3	114	22	31	32	13	1.92
12088604--12088647	21	2.1	21	86	0	61	29	0	13	56	1.38
12088617--12088682	28	2.4	28	80	10	89	31	0	10	57	1.33
12092159--12092231	30	2.4	30	84	11	87	47	10	0	41	1.39
12092537--12092584	14	3.6	13	78	10	53	2	41	0	56	1.11
12092542--12092584	13	3.3	12	81	12	50	0	41	0	58	0.98
12092786--12092843	25	2.3	26	91	5	93	20	20	34	24	1.97
12092837--12092888	27	1.9	27	92	0	86	26	15	51	5	1.65
12092921--12093037	29	4.0	29	88	0	171	23	24	36	15	1.93
12092921--12093037	58	2.0	58	91	0	189	23	24	36	15	1.93
12094251--12094290	17	2.3	19	79	16	50	65	0	7	27	1.20
12097411--12097446	15	2.4	15	90	0	54	19	13	38	27	1.90
12100191--12100229	19	2.1	19	100	0	78	76	0	10	12	1.01
12104171--12104218	19	2.5	20	75	3	53	47	2	4	45	1.33
12105199--12105316	41	2.8	42	88	2	175	25	32	10	32	1.89
12108999--12109110	24	4.7	24	91	2	163	22	21	21	34	1.97
12122387--12122421	17	2.1	17	94	0	61	54	8	17	20	1.68
12124093--12124129	2	18.5	2	100	0	74	48	0	0	51	1.00
12125848--12125942	15	6.0	15	76	9	64	44	0	3	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12129172--12129207	2	18.0	2	100	0	72	50	0	0	50	1.00
12129439--12129465	14	1.9	14	100	0	54	29	0	0	70	0.88
12134635--12134699	22	3.1	21	78	8	62	18	29	29	23	1.98
12140148--12140181	17	2.0	17	100	0	68	17	5	47	29	1.71
12141502--12141806	29	10.6	29	88	3	402	34	2	13	49	1.55
12141502--12141806	115	2.6	115	89	2	434	34	2	13	49	1.55
12142863--12142916	26	2.1	26	82	6	65	29	3	14	51	1.60
12148912--12148974	19	3.3	19	90	0	99	19	23	28	28	1.98
12148904--12148992	38	2.3	37	81	7	106	19	26	28	25	1.99
12149009--12149318	29	10.6	29	84	3	318	34	4	13	47	1.63
12149236--12149317	31	2.7	31	82	1	94	40	2	12	45	1.55
12149232--12149319	30	3.0	28	80	12	95	38	2	11	47	1.52
12149524--12149813	142	2.0	141	95	0	526	29	16	16	37	1.91
12157420--12157473	27	1.9	27	85	7	72	59	9	5	25	1.50
12157904--12157954	27	2.0	25	85	11	68	11	9	15	62	1.53
12159255--12159289	18	1.9	18	88	0	52	34	5	37	22	1.78
12159835--12159940	53	2.0	53	96	0	194	31	21	14	33	1.93
12162142--12162183	22	1.9	22	100	0	84	54	14	9	21	1.68
12164769--12164807	15	2.6	15	100	0	78	15	20	43	20	1.88
12165252--12165716	127	3.7	126	92	1	734	26	18	25	29	1.98
12166722--12166755	10	3.3	10	92	8	59	0	20	0	79	0.73
12166723--12166761	11	3.5	11	93	6	62	0	20	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12173608--12173680	29	2.5	30	82	6	87	28	6	19	45	1.76
12173694--12173720	13	2.1	13	100	0	54	55	14	14	14	1.70
12180161--12180188	3	9.3	3	100	0	56	67	0	0	32	0.91
12182100--12182140	21	2.0	21	90	4	66	17	7	14	60	1.55
12182162--12182197	17	2.2	17	95	5	65	30	11	19	38	1.86
12186397--12186591	108	1.8	108	89	0	309	18	32	16	32	1.94
12190104--12190191	46	1.9	46	84	9	117	60	4	1	34	1.25
12190929--12190989	2	30.5	2	100	0	122	50	0	0	49	1.00
12199669--12199702	12	2.7	13	86	9	52	38	5	5	50	1.51
12199705--12199747	17	2.5	17	96	0	77	9	48	0	41	1.35
12200838--12200867	15	2.0	15	100	0	60	26	26	6	40	1.81
12201423--12201461	12	3.1	12	85	7	51	46	7	10	35	1.67
12201933--12202009	23	3.7	20	78	14	75	31	18	19	31	1.96
12204623--12204721	10	10.3	9	79	12	90	16	28	27	28	1.97
12204624--12204721	19	5.1	19	81	14	87	15	28	27	28	1.96
12204623--12204721	29	3.4	28	87	5	126	16	28	27	28	1.97
12204718--12204775	5	10.8	5	78	14	62	18	51	22	6	1.70
12204718--12204782	22	3.0	22	100	0	130	18	49	23	9	1.76
12211970--12212104	19	7.1	19	89	7	186	16	27	30	25	1.97
12211951--12212106	29	5.4	28	77	13	147	16	28	28	26	1.97
12211950--12212104	38	4.0	38	85	11	190	16	27	29	27	1.97
12212103--12212160	5	10.8	5	78	14	62	18	51	22	6	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12212000--12212117	38	3.1	38	88	2	121	16	31	30	22	1.95
12212103--12212167	22	3.0	22	100	0	130	18	49	23	9	1.76
12212157--12212187	7	4.4	7	100	0	62	16	29	29	25	1.96
12218371--12218428	27	2.1	27	100	0	116	6	15	22	55	1.64
12218803--12218832	3	10.0	3	100	0	60	66	0	0	33	0.92
12221961--12222016	18	3.0	20	84	12	73	37	0	1	60	1.07
12221972--12222022	18	2.8	18	85	11	52	35	0	0	64	0.94
12222347--12222420	34	2.2	34	92	0	121	62	0	0	37	0.96
12222369--12222449	41	2.1	35	80	17	83	62	0	0	37	0.95
12225613--12225668	25	2.2	25	96	0	103	39	10	10	39	1.75
12238451--12238507	15	3.7	15	78	15	62	61	1	0	36	1.07
12238450--12238507	17	3.6	16	78	19	59	60	1	0	37	1.07
12238490--12238562	32	2.4	31	79	9	78	63	2	2	31	1.23
12238935--12239078	71	2.0	71	100	0	288	22	25	18	34	1.96
12239775--12239829	26	2.1	26	89	0	83	9	18	32	40	1.82
12239841--12239901	21	2.9	21	80	4	70	54	0	0	45	1.00
12240060--12240846	378	2.1	379	96	1	1447	36	21	19	22	1.95
12240061--12240846	76	10.4	76	96	1	1420	36	21	19	22	1.95
12241531--12241573	22	2.0	22	100	0	86	44	13	9	32	1.76
12243094--12243153	29	2.1	29	100	0	120	33	20	20	26	1.97
12250734--12250805	18	3.7	18	74	16	56	61	4	5	29	1.38
12250734--12250802	19	3.5	19	71	19	61	62	4	5	27	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12250752--12250814	18	3.2	19	76	17	58	65	1	4	28	1.22
12251547--12251588	20	2.0	22	90	9	70	64	2	0	33	1.07
12251560--12251611	17	3.2	16	79	12	54	63	1	0	34	1.06
12252789--12252843	26	2.1	26	86	0	74	9	16	32	41	1.80
12252850--12252917	3	22.7	3	71	11	50	57	0	0	42	0.98
12252852--12252917	27	2.4	27	78	14	73	56	0	0	43	0.99
12254285--12254334	20	2.5	20	96	0	91	30	16	2	52	1.55
12260660--12260707	19	2.5	19	83	10	53	33	12	2	52	1.51
12263364--12263406	20	2.2	20	86	0	59	34	20	9	34	1.85
12264498--12264663	83	2.0	83	100	0	332	27	25	8	38	1.85

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