genome.fa.s8242.2.7.7.80.10.50.1000.56.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  56  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)
13198097--13198182	36	2.4	37	82	7	104	22	4	8	65	1.38
13198136--13198213	22	3.6	22	68	11	63	25	7	8	57	1.56
13198174--13198511	85	4.0	85	75	7	278	25	17	5	51	1.66
13198141--13198511	43	8.7	42	74	12	251	25	16	5	52	1.66
13199336--13199709	192	1.9	192	83	5	488	27	23	23	26	2.00
13200417--13200486	16	4.4	16	88	0	86	24	22	11	41	1.87
13200771--13200817	14	3.7	14	71	26	50	44	0	4	51	1.21
13200770--13200819	23	2.1	24	96	3	93	48	0	4	48	1.20
13200986--13201053	7	9.7	7	78	0	55	20	0	29	50	1.49
13200982--13201053	21	3.4	21	84	0	81	20	0	29	50	1.49
13200986--13201053	14	4.9	14	81	0	64	20	0	29	50	1.49
13201662--13201722	19	3.2	19	86	4	86	39	4	6	49	1.50
13202022--13202082	7	8.7	7	81	0	68	18	0	36	45	1.49
13202166--13202213	2	23.0	2	87	8	69	45	2	2	50	1.25
13202819--13202847	14	2.1	14	100	0	58	41	13	6	37	1.72
13203992--13204052	20	3.0	20	86	9	88	21	36	27	14	1.93
13205322--13205369	19	2.5	20	82	3	62	54	6	10	29	1.59
13206977--13207041	27	2.4	27	78	14	64	61	3	4	30	1.31
13207078--13207129	23	2.3	23	82	0	68	67	0	0	32	0.91
13207255--13207285	2	15.5	2	100	0	62	51	0	0	48	1.00
13207499--13207539	11	3.6	11	87	6	55	65	4	4	24	1.32
13207622--13207666	12	3.7	12	81	3	54	66	0	4	28	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13209017--13210497	106	14.0	106	89	1	2102	23	17	24	34	1.96
13211306--13211382	22	3.5	22	89	0	118	22	14	27	36	1.92
13211986--13212036	15	3.3	15	81	13	52	1	11	3	82	0.89
13211987--13212041	19	2.8	20	78	18	62	1	10	5	81	0.92
13216481--13216616	30	4.7	28	71	17	100	74	3	7	14	1.18
13216469--13216560	28	3.3	27	74	21	82	71	3	9	15	1.25
13216481--13216672	27	7.1	27	68	22	77	70	3	6	18	1.24
13216641--13216686	18	2.7	17	78	15	51	65	0	2	32	1.05
13216979--13217030	21	2.4	21	84	12	61	65	0	5	28	1.16
13217162--13217202	11	3.6	11	87	6	55	65	4	4	24	1.32
13217220--13217269	25	2.0	26	88	11	77	70	2	0	28	0.99
13217284--13217328	12	3.7	12	81	3	54	66	0	4	28	1.11
13217224--13217324	5	19.8	5	70	21	50	65	0	5	27	1.22
13217890--13217986	37	2.6	37	86	0	149	31	12	15	40	1.84
13218292--13218332	20	2.0	20	100	0	82	19	36	29	14	1.92
13218367--13218406	20	2.0	21	85	14	57	20	35	27	17	1.95
13219681--13219728	19	2.5	20	82	3	62	54	6	10	29	1.59
13221266--13221343	29	2.7	27	75	16	77	78	3	3	14	1.04
13221634--13221698	2	32.5	2	100	0	130	50	0	0	49	1.00
13222044--13222088	12	3.7	12	81	3	54	66	0	4	28	1.11
13222637--13222741	37	2.8	37	85	0	147	32	12	14	40	1.83
13223047--13223086	20	2.0	20	100	0	80	20	35	30	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13223122--13223192	21	3.4	21	86	3	108	19	33	32	14	1.92
13225535--13225623	4	21.2	4	71	13	63	67	1	2	29	1.10
13225535--13225623	39	2.3	38	79	5	99	67	1	2	29	1.10
13225484--13225618	30	4.5	30	75	10	132	63	2	1	32	1.15
13226111--13226169	4	13.8	4	76	13	55	71	3	3	22	1.16
13226108--13226178	12	5.8	13	70	18	53	73	2	2	21	1.09
13226137--13226179	8	5.0	8	81	15	50	81	2	0	16	0.79
13237076--13237313	129	1.8	129	96	0	440	29	11	16	42	1.83
13241108--13241210	45	2.3	45	75	0	107	29	32	15	23	1.95
13242379--13242410	14	2.1	16	88	11	50	15	25	0	59	1.36
13242372--13242412	15	2.5	17	81	18	52	14	26	0	58	1.37
13243097--13243124	9	3.1	9	100	0	56	46	21	10	21	1.81
13244338--13244365	9	3.1	9	100	0	56	46	21	10	21	1.81
13245579--13245606	9	3.1	9	100	0	56	46	21	10	21	1.81
13246820--13246847	9	3.1	9	100	0	56	46	21	10	21	1.81
13256297--13256329	15	2.1	16	88	5	50	0	27	9	63	1.24
13258216--13258280	32	2.0	32	87	0	94	30	24	26	18	1.98
13259411--13259473	31	2.0	31	93	0	108	22	1	38	38	1.64
13273376--13273418	23	1.9	23	90	4	70	69	11	0	18	1.17
13273407--13273444	6	6.3	6	82	11	51	81	0	5	13	0.85
13280906--13280962	14	3.5	17	76	13	57	59	0	0	40	0.97
13282304--13282328	10	2.5	10	100	0	50	8	20	32	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13283915--13283960	20	2.3	21	77	11	51	45	8	6	39	1.61
13287667--13287718	26	2.0	26	85	7	70	3	23	0	73	1.00
13294151--13294194	6	7.3	6	80	19	56	81	0	2	15	0.78
13294151--13294185	14	2.7	13	91	8	54	82	0	2	14	0.77
13294153--13294194	10	4.2	10	82	11	59	80	0	2	16	0.81
13294205--13294417	37	5.8	36	84	8	218	42	8	2	46	1.49
13294205--13294418	109	2.0	110	90	2	342	42	8	2	46	1.48
13294391--13294481	28	3.4	27	85	13	109	40	3	3	52	1.34
13299729--13299816	22	4.0	22	68	11	63	62	6	14	15	1.52
13302562--13302798	117	2.0	117	100	0	474	31	24	13	30	1.94
13302865--13302960	48	2.0	48	100	0	192	27	16	27	29	1.97
13306642--13306668	6	4.5	6	100	0	54	55	0	0	44	0.99
13306814--13306861	25	1.9	25	86	0	69	75	0	10	14	1.06
13308032--13308074	6	7.3	6	85	15	63	81	0	2	16	0.79
13308040--13308074	16	2.1	17	94	5	63	80	0	2	17	0.84
13308085--13308328	37	6.7	36	79	12	250	42	7	3	46	1.49
13308085--13308327	109	2.2	110	83	3	312	42	7	3	46	1.49
13308085--13308328	71	3.3	71	80	10	269	42	7	3	46	1.49
13308290--13308372	25	3.3	25	77	15	89	38	3	6	51	1.44
13308796--13308838	12	3.5	12	87	3	59	32	2	0	65	1.06
13310196--13310287	46	2.0	47	80	6	107	31	7	19	41	1.80
13317100--13317174	22	3.4	22	94	0	123	32	30	6	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13323426--13323479	22	2.5	22	100	0	108	27	22	22	27	1.99
13326115--13326165	19	2.7	19	84	6	68	17	25	31	25	1.97
13326159--13326222	17	3.7	17	95	2	110	17	40	25	17	1.90
13333643--13333700	17	3.4	17	95	0	107	18	44	22	13	1.85
13340037--13340079	13	3.3	13	96	0	77	13	37	11	37	1.82
13340590--13340628	17	2.3	17	100	0	78	17	41	25	15	1.89
13340620--13340656	7	5.4	7	87	6	58	16	27	29	27	1.97
13342591--13342620	3	10.0	3	92	0	51	0	36	0	63	0.95
13344695--13344786	32	2.9	32	80	1	96	47	8	5	38	1.57
13344694--13344798	32	3.3	32	76	6	90	45	9	5	39	1.61
13345304--13345382	4	19.8	4	94	0	95	49	16	1	32	1.54
13345324--13345431	4	27.0	4	98	0	144	50	7	0	42	1.30
13346725--13346777	23	2.3	22	90	6	79	28	20	18	32	1.97
13347785--13347967	7	26.1	7	76	0	105	21	4	32	40	1.75
13347785--13347966	56	3.2	56	78	6	199	21	4	32	40	1.75
13347785--13347933	28	5.3	28	73	12	126	21	4	33	40	1.74
13357194--13357266	29	2.5	28	76	12	76	50	1	2	45	1.24
13357323--13357376	23	2.3	24	96	3	101	42	0	9	48	1.35
13357632--13357680	23	2.2	22	85	10	64	44	6	12	36	1.67
13360831--13360864	7	4.7	7	85	7	50	79	0	0	20	0.73
13360825--13360864	22	1.9	22	90	10	66	77	0	0	22	0.77
13360831--13360870	15	2.7	15	92	3	64	77	0	0	22	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13361044--13361124	6	13.8	6	75	5	58	7	4	41	45	1.53
13361091--13361130	12	3.3	12	89	0	62	7	7	42	42	1.61
13361053--13361121	17	4.0	17	75	9	68	7	5	40	46	1.55
13361091--13361148	18	3.2	18	85	0	71	8	8	41	41	1.66
13361097--13361148	6	8.7	6	80	0	50	9	9	40	40	1.71
13361091--13361142	12	4.3	12	87	0	59	7	9	42	40	1.66
13361924--13362007	29	2.8	29	89	7	116	48	5	1	44	1.34
13362024--13362136	31	3.5	31	76	13	120	50	0	3	45	1.25
13362156--13362215	24	2.5	25	78	15	72	45	3	3	48	1.35
13362222--13362300	36	2.2	36	93	0	131	44	8	3	43	1.53

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