genome.fa.s6.2.7.7.80.10.50.1000.13.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: CP032250.1 Gossypioides kirkii chromosome KI_08
Parameters: 2 7 7 80 10 50 1000
Length:  39602670

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   

This is table  13  of  125  ( 14887 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)
4252358--4252435	13	5.9	14	69	23	53	46	0	0	53	1.00
4252358--4252455	49	1.9	52	85	6	139	47	0	0	52	1.00
4261926--4261995	35	2.0	35	97	0	131	27	11	8	52	1.66
4265200--4265354	76	2.0	76	98	0	301	15	10	16	57	1.65
4273795--4273832	2	19.0	2	94	0	67	47	50	0	2	1.15
4277969--4278334	181	2.0	181	99	0	723	36	13	17	32	1.89
4279045--4279104	12	4.8	12	80	8	57	46	15	5	33	1.67
4279071--4279104	6	5.7	6	92	0	59	47	14	2	35	1.60
4286710--4286780	24	3.0	24	82	0	88	28	9	7	54	1.59
4288721--4288795	24	3.1	24	86	7	116	25	9	9	56	1.61
4288728--4288805	24	3.3	23	82	7	93	26	10	11	51	1.70
4289806--4289855	22	2.3	22	96	0	91	24	8	20	48	1.76
4290301--4290400	6	17.2	6	74	13	84	41	2	1	56	1.18
4290294--4290397	17	6.2	18	75	13	64	38	1	1	57	1.21
4290333--4290406	11	6.2	12	74	13	55	44	4	0	51	1.20
4290646--4290696	26	2.0	26	84	7	68	19	43	19	17	1.89
4292006--4292141	29	4.7	29	66	23	81	35	25	2	36	1.71
4292004--4292255	59	4.3	59	84	4	314	34	26	2	36	1.70
4292044--4292197	30	5.2	30	69	20	108	35	26	2	35	1.71
4292004--4292289	118	2.4	117	80	7	285	33	28	3	34	1.74
4292064--4292302	29	8.1	29	67	21	124	34	28	3	33	1.74
4304226--4304854	92	6.9	92	93	1	1049	35	19	18	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4304482--4304808	46	7.1	46	61	23	125	36	18	18	26	1.94
4304777--4305304	76	6.7	76	84	7	707	34	16	17	32	1.92
4304854--4305303	243	1.9	243	92	0	765	34	16	17	32	1.92
4304930--4305249	167	1.9	165	94	1	568	35	15	17	31	1.91
4304685--4305304	319	1.9	321	90	1	987	34	16	17	31	1.92
4305581--4305663	6	14.2	6	77	14	84	43	2	1	53	1.21
4305599--4305669	11	6.1	12	73	16	51	45	4	0	50	1.21
4307232--4307485	59	4.3	59	85	2	339	33	27	3	36	1.73
4307274--4307485	29	7.1	30	68	21	124	32	27	3	36	1.73
4307232--4307514	118	2.4	119	84	4	313	32	28	4	34	1.77
4307472--4307532	29	2.1	29	87	6	88	32	29	11	26	1.91
4312827--4312856	15	1.9	16	93	6	53	43	0	3	53	1.17
4314654--4314689	18	1.9	19	88	5	56	61	19	5	13	1.52
4316514--4316914	59	6.9	56	83	5	394	33	27	2	35	1.72
4316484--4316648	29	5.6	28	75	19	126	33	26	4	35	1.78
4316517--4316764	29	8.5	29	68	25	107	33	27	3	34	1.75
4316750--4316842	29	3.2	27	72	17	80	36	23	1	38	1.62
4316514--4316938	115	3.6	119	83	5	514	33	27	2	36	1.72
4316877--4316938	29	2.1	30	84	3	81	32	27	0	40	1.57
4316538--4316959	117	3.6	116	83	6	318	34	26	3	35	1.72
4329090--4329408	162	2.0	162	94	0	566	36	22	22	18	1.95
4329224--4329702	200	2.4	199	89	1	724	35	21	24	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4330493--4330541	24	2.0	26	88	8	75	40	26	14	18	1.89
4330910--4330947	13	2.9	13	81	14	51	63	2	0	34	1.09
4330911--4330962	20	2.5	20	87	9	70	63	1	0	34	1.06
4332001--4332242	29	8.2	30	71	21	122	33	27	4	34	1.76
4332031--4332434	59	6.9	59	85	2	499	33	26	2	37	1.69
4332093--4332315	29	7.6	29	68	22	119	33	27	2	37	1.69
4332031--4332434	176	2.3	176	84	2	515	33	26	2	37	1.69
4332325--4332419	30	3.2	30	66	26	76	36	23	0	40	1.55
4332328--4332444	29	4.0	28	75	18	105	34	23	0	42	1.54
4332337--4332457	30	4.1	28	69	22	72	33	23	0	43	1.54
4340199--4340239	22	1.9	22	85	5	57	60	7	7	24	1.48
4343223--4343279	21	2.6	21	77	5	60	61	1	0	36	1.07
4346839--4346871	11	2.8	12	86	9	50	39	0	0	60	0.97
4346868--4346931	29	2.1	31	83	13	80	40	3	6	50	1.43
4346885--4347010	59	2.1	60	86	5	173	38	3	3	55	1.32
4350238--4350548	153	2.0	153	96	1	570	31	15	23	30	1.95
4354040--4354106	20	3.2	20	79	10	73	55	2	0	41	1.15
4354053--4354096	19	2.4	18	82	10	54	52	4	0	43	1.22
4358699--4358731	10	3.4	10	95	4	59	27	9	24	39	1.85
4360183--4360217	3	11.7	3	100	0	70	68	0	0	31	0.90
4371402--4371460	24	2.5	24	81	10	59	37	5	0	57	1.21
4371436--4371547	57	1.9	57	87	7	163	46	1	0	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4371452--4371574	57	2.1	57	82	10	144	50	0	0	47	1.12
4371678--4371806	46	2.8	45	88	3	186	37	25	6	31	1.81
4382819--4383205	193	2.0	194	98	0	749	38	16	13	31	1.87
4390750--4390829	17	4.7	18	77	10	71	45	0	3	51	1.19
4390758--4390831	33	2.2	32	80	4	85	45	0	2	51	1.15
4392625--4393063	30	14.7	30	75	9	269	36	20	2	40	1.66
4392640--4392966	61	5.5	59	84	6	374	37	18	2	41	1.64
4392640--4393075	180	2.4	181	80	6	478	36	20	2	41	1.65
4392969--4393159	59	3.3	59	85	5	219	31	25	3	40	1.71
4392999--4393107	30	3.7	29	81	14	134	32	27	1	38	1.67
4392961--4393120	30	5.4	30	74	17	129	32	24	1	41	1.66
4398586--4398615	14	2.2	14	94	5	53	86	0	13	0	0.57
4399173--4399422	102	2.5	99	91	5	405	23	22	12	41	1.88
4399974--4400711	100	7.4	100	90	0	1111	37	22	26	13	1.92
4400837--4401011	92	1.9	92	87	3	255	32	18	20	29	1.96
4401581--4401670	17	5.4	17	88	7	121	43	0	2	54	1.12
4401588--4401672	6	15.0	6	74	16	83	45	0	1	52	1.08
4401581--4401670	32	2.7	34	87	5	121	43	0	2	54	1.12
4403463--4403922	30	15.3	30	77	5	410	37	17	2	42	1.64
4403466--4403918	60	7.6	60	85	3	538	37	17	2	42	1.64
4403940--4404222	59	4.8	58	81	9	274	32	28	1	37	1.66
4403894--4404222	29	11.2	29	70	19	170	31	27	1	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4403939--4404228	58	4.9	57	82	10	270	31	29	1	37	1.68
4408034--4408080	21	2.1	21	84	7	58	36	0	6	57	1.24
4408468--4408506	20	2.0	20	85	10	53	43	0	0	56	0.99
4423056--4423086	15	2.0	16	93	6	55	29	0	12	58	1.35
4423234--4423258	7	3.6	7	100	0	50	44	0	0	56	0.99
4423242--4423318	17	4.6	17	73	9	68	37	2	5	54	1.37
4423242--4423323	34	2.5	32	88	9	121	39	2	4	53	1.35
4423275--4423333	22	2.6	23	70	8	57	40	3	3	52	1.35
4425057--4425221	29	5.7	29	82	4	163	37	25	1	35	1.67
4425015--4425221	58	3.6	58	79	7	172	35	26	3	34	1.75
4425502--4425696	98	2.0	98	86	1	275	28	18	14	37	1.91
4427574--4427600	9	3.0	9	100	0	54	66	0	33	0	0.92
4429993--4430090	48	2.0	48	90	0	151	35	28	13	22	1.92
4435488--4435595	34	3.2	34	87	0	162	34	18	12	34	1.89
4440509--4440674	83	2.0	83	91	0	269	35	22	12	29	1.91
4442199--4442278	38	2.1	38	97	0	151	42	23	13	20	1.88
4445098--4445123	3	8.7	3	100	0	52	34	0	65	0	0.93
4448730--4448770	22	1.9	21	90	5	64	46	9	0	43	1.36
4458165--4458204	20	2.0	20	95	0	71	40	32	0	27	1.57
4461563--4461611	21	2.3	22	75	10	57	42	0	2	55	1.11
4465385--4465429	21	2.0	21	83	8	54	24	2	6	66	1.27
4465396--4465428	14	2.4	14	85	5	50	24	0	3	72	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4470077--4470106	15	1.9	16	93	6	53	3	16	0	80	0.85
4474195--4474240	23	2.0	23	100	0	92	52	8	13	26	1.69
4477800--4477832	15	2.2	15	94	0	57	21	18	33	27	1.96
4484397--4484438	22	2.0	22	85	4	59	28	0	0	71	0.86
4484420--4484456	18	2.0	19	89	5	58	24	0	2	72	0.97
4486527--4486566	21	1.9	21	89	0	62	22	2	25	50	1.62
4491317--4491344	6	4.7	6	100	0	56	85	0	14	0	0.59
4491318--4491356	12	3.4	11	89	7	51	82	2	12	2	0.89
4491317--4491356	18	2.2	18	86	8	55	82	2	12	2	0.87
4491557--4491594	20	2.0	20	84	5	51	60	0	0	39	0.97

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125