genome.fa.s6.2.7.7.80.10.50.1000.12.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  12  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)
3984347--3984406	24	2.5	22	78	21	59	43	0	0	56	0.99
3984373--3984432	15	3.7	16	73	13	52	33	0	0	66	0.92
3986118--3986160	18	2.4	17	85	11	59	69	0	16	13	1.19
3986129--3986158	6	5.0	6	100	0	60	66	0	16	16	1.25
3986431--3986493	31	1.9	34	87	9	96	44	14	14	26	1.83
3988464--3988530	17	4.1	16	71	19	57	52	1	2	43	1.25
3988462--3988525	33	2.0	32	84	3	83	50	1	3	45	1.27
3988577--3988615	20	1.9	21	94	5	71	51	0	0	48	1.00
3988570--3988635	13	5.0	13	75	14	55	48	0	0	51	1.00
3988597--3988643	15	3.4	14	88	8	69	42	0	0	57	0.98
3988596--3988655	29	2.1	28	84	3	75	43	1	0	55	1.10
3989193--3989232	21	2.0	20	90	5	62	65	0	0	35	0.93
3989183--3989232	26	2.0	25	84	4	64	68	0	0	32	0.90
3993956--3994106	78	1.9	78	82	0	185	30	21	30	17	1.96
3994684--3994717	15	2.3	15	90	10	52	47	2	0	50	1.16
4007970--4008049	29	2.6	30	75	16	85	33	13	8	43	1.75
4012387--4012415	2	14.5	2	100	0	58	48	0	0	51	1.00
4012648--4012713	28	2.2	30	87	12	93	50	3	1	45	1.26
4015470--4015532	27	2.3	28	81	10	69	46	1	1	50	1.20
4029925--4029976	25	2.1	25	85	0	68	32	3	9	53	1.51
4032940--4032997	25	2.3	25	84	3	71	27	10	10	51	1.68
4042905--4042939	3	11.7	3	100	0	70	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4044304--4044346	19	2.2	20	83	4	52	58	6	4	30	1.45
4044310--4044353	19	2.2	20	88	8	63	59	4	4	31	1.38
4044343--4044426	19	4.6	17	68	16	53	52	4	1	41	1.30
4044350--4044386	19	2.0	18	89	5	56	56	2	0	40	1.13
4044414--4044448	17	2.0	18	94	5	63	62	0	5	31	1.18
4047770--4047822	24	2.3	23	80	3	61	49	1	7	41	1.42
4051667--4051699	17	1.9	17	88	11	50	36	0	9	54	1.32
4053194--4053238	16	2.6	17	82	6	56	66	2	2	28	1.15
4054836--4054881	18	2.7	18	76	6	51	52	4	0	43	1.21
4054830--4054887	27	2.1	28	84	12	75	48	8	0	43	1.34
4054909--4054950	21	2.0	21	85	0	57	42	7	2	47	1.43
4054984--4055028	15	3.0	15	75	12	56	33	6	4	55	1.46
4055058--4055111	27	2.0	27	100	0	108	48	0	14	37	1.45
4055117--4055293	51	3.6	51	80	13	228	38	13	15	32	1.86
4055177--4055256	42	1.9	42	97	0	151	40	8	18	32	1.82
4055273--4055314	21	2.0	21	85	0	57	50	4	19	26	1.67
4055218--4055365	72	2.1	72	89	1	235	40	11	16	31	1.84
4055294--4055529	51	4.8	51	81	9	301	35	13	17	33	1.89
4055342--4055421	42	1.9	42	92	0	133	37	8	21	32	1.84
4055133--4055458	165	2.0	165	93	0	562	38	11	17	32	1.86
4055294--4055472	93	1.9	93	90	2	288	35	12	18	32	1.89
4055637--4055707	31	2.3	31	86	11	94	43	21	14	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4055748--4055777	14	2.1	14	93	0	51	46	10	10	33	1.71
4055829--4055956	47	2.8	46	78	8	116	57	18	3	19	1.55
4056256--4056326	31	2.3	30	88	11	101	21	14	21	43	1.87
4059677--4059751	11	6.5	11	75	11	62	5	25	0	69	1.09
4059684--4059748	23	2.8	22	79	11	58	6	24	0	69	1.11
4060121--4060188	21	3.2	21	91	2	109	44	33	0	22	1.53
4060172--4060201	15	2.0	15	93	0	51	43	33	3	20	1.68
4060238--4060292	20	2.7	20	82	2	65	16	23	32	27	1.96
4060238--4060285	10	4.7	10	84	2	60	16	27	31	25	1.97
4061383--4061433	3	17.3	3	95	4	95	31	0	0	68	0.90
4069255--4069295	18	2.3	18	87	8	57	24	2	31	41	1.68
4078577--4078635	27	2.1	29	93	6	104	28	20	6	44	1.77
4078901--4079009	28	3.8	29	79	9	100	58	8	4	28	1.47
4078855--4079011	85	1.8	86	84	4	219	58	9	5	26	1.50
4078964--4079026	25	2.4	27	76	5	67	57	11	6	25	1.57
4082464--4082500	6	6.2	6	93	0	65	35	0	0	64	0.94
4082602--4082692	40	2.3	40	83	7	105	41	1	5	51	1.32
4084468--4084515	21	2.3	21	85	3	62	58	2	0	39	1.10
4088015--4088079	24	2.8	23	77	9	69	49	1	0	49	1.10
4092862--4092915	27	2.0	28	85	10	76	24	7	3	64	1.35
4102889--4102996	6	18.0	6	73	14	80	49	1	1	47	1.23
4102879--4102965	11	7.5	11	69	18	52	43	1	3	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4102916--4102996	31	2.6	30	80	9	83	53	1	1	44	1.16
4103025--4103058	14	2.4	14	95	0	59	35	32	17	14	1.91
4104466--4104778	162	1.9	161	87	3	450	24	15	12	46	1.81
4104871--4105065	30	6.5	30	89	2	286	36	21	4	37	1.73
4105081--4105357	30	9.5	30	71	12	220	31	27	5	36	1.78
4105053--4105362	58	5.3	58	94	1	487	30	28	5	35	1.79
4105051--4105399	58	6.0	59	90	2	350	29	28	6	35	1.82
4117224--4117678	37	13.4	31	65	23	109	36	17	19	26	1.94
4117210--4118157	137	6.9	137	94	1	1591	35	18	18	26	1.94
4117210--4118157	206	4.6	206	95	1	1656	35	18	18	26	1.94
4117210--4118140	343	2.7	343	94	1	1607	35	18	18	26	1.94
4118462--4118569	6	18.0	6	73	14	80	48	1	2	47	1.27
4120043--4120355	162	1.9	161	87	3	459	24	15	12	46	1.82
4120448--4120642	30	6.5	30	89	2	286	36	23	3	36	1.72
4120659--4120876	30	7.5	30	70	13	143	32	25	5	37	1.78
4120630--4120876	58	4.2	59	92	2	367	31	25	4	37	1.77
4120727--4120883	29	5.4	29	68	15	99	29	28	5	35	1.80
4120658--4120918	58	4.5	59	89	3	266	29	27	6	36	1.82
4124418--4124460	21	2.0	21	82	8	52	44	0	2	53	1.13
4124505--4124546	19	2.1	20	86	8	59	30	9	11	47	1.72
4126142--4126175	6	5.7	6	100	0	68	35	0	14	50	1.44
4133851--4133897	15	3.2	15	78	6	60	36	2	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133842--4133895	14	3.9	14	79	9	58	37	1	0	61	1.07
4135880--4135960	40	2.0	40	95	0	144	62	13	11	12	1.54
4143974--4144009	18	1.9	19	94	5	65	44	2	8	44	1.48
4144104--4144153	24	2.0	25	84	3	66	48	2	2	48	1.24
4145182--4145261	15	5.2	15	67	10	54	40	8	27	23	1.84
4162806--4162848	22	2.0	22	86	9	61	30	6	4	58	1.45
4172677--4172716	20	2.1	19	85	4	53	45	0	2	52	1.14
4180808--4180902	48	2.0	49	95	2	174	41	18	9	30	1.83
4187440--4187515	28	2.7	28	81	0	80	34	17	17	31	1.93
4187455--4187529	28	2.7	28	79	8	80	37	17	14	30	1.90
4187476--4187551	28	2.7	29	78	8	77	36	15	14	32	1.88
4190671--4190705	18	1.9	18	88	0	52	25	8	8	57	1.57
4190852--4191306	83	5.5	83	90	1	657	51	3	5	39	1.43
4190976--4191115	45	3.3	46	61	21	113	50	5	6	37	1.52
4191422--4191469	12	3.7	12	77	20	51	41	10	0	47	1.37
4191432--4191466	17	2.1	16	89	5	52	48	8	0	42	1.33
4191422--4191479	28	2.1	28	83	0	71	43	12	0	44	1.41
4195251--4195535	99	2.8	101	84	6	335	39	16	17	26	1.91
4195257--4195549	103	2.9	102	83	6	285	37	16	17	29	1.91
4195460--4195592	56	2.4	56	92	1	212	38	18	17	25	1.92
4203007--4203048	21	2.0	21	100	0	84	28	14	33	23	1.94
4204270--4204309	22	1.9	21	89	5	55	27	7	5	60	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4208554--4208592	16	2.3	18	86	8	55	25	5	0	69	1.09
4210713--4210825	58	2.0	56	93	5	192	26	16	3	53	1.60
4211641--4211672	7	4.7	7	96	3	57	37	15	31	15	1.89
4212424--4212473	25	2.0	24	85	11	66	40	2	0	58	1.10
4212415--4212569	81	1.9	84	85	5	217	47	1	1	49	1.24
4238132--4238184	24	2.2	24	86	3	72	41	0	3	54	1.18
4242804--4242841	20	1.9	20	88	0	58	73	5	0	21	1.02
4245236--4245348	60	1.9	59	92	1	190	25	15	11	47	1.78
4252375--4252413	12	3.2	12	85	10	53	43	0	0	56	0.99
4252331--4252455	49	2.4	49	78	10	124	49	0	0	49	1.06

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