genome.fa.s1.2.7.7.80.10.50.1000.19.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   126   

This is table  19  of  126  ( 15035 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)
6192389--6192414	2	13.0	2	100	0	52	50	0	0	50	1.00
6209598--6209671	31	2.4	31	86	2	96	27	18	13	40	1.88
6210823--6210877	17	3.0	17	82	12	65	69	0	0	30	0.89
6210823--6210879	18	3.1	18	78	14	62	68	0	0	31	0.90
6211086--6211129	22	2.0	21	82	4	52	52	11	2	34	1.50
6215578--6215610	16	1.9	18	88	11	52	36	39	0	24	1.56
6217795--6219132	228	5.9	228	85	3	1395	28	23	24	22	1.99
6217795--6219132	457	2.9	455	81	3	1463	28	23	24	22	1.99
6220500--6220586	27	2.9	31	78	11	83	31	5	3	59	1.37
6221734--6221771	1	38.0	1	94	0	67	2	0	97	0	0.18
6222670--6224036	228	6.0	228	81	3	1132	28	22	25	23	1.99
6222670--6224036	456	3.0	451	80	3	1441	28	22	25	23	1.99
6227976--6228026	22	2.3	23	83	6	61	58	0	3	37	1.16
6243092--6243145	27	2.0	27	85	7	74	31	3	1	62	1.23
6243438--6243469	13	2.5	13	94	0	55	59	0	0	40	0.97
6246198--6246225	5	5.6	5	100	0	56	0	78	0	21	0.75
6251247--6251308	29	2.1	31	81	6	74	32	8	17	41	1.79
6265286--6265324	3	13.0	3	100	0	78	66	0	33	0	0.92
6265323--6265376	3	17.7	3	92	3	90	35	0	62	1	1.06
6265375--6265399	3	8.3	3	100	0	50	68	0	32	0	0.90
6268138--6268219	3	27.3	3	100	0	164	67	0	32	0	0.91
6278580--6278616	7	5.3	7	100	0	74	13	27	0	59	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6281572--6281596	3	8.3	3	100	0	50	36	32	0	32	1.58
6283398--6283424	4	6.8	4	100	0	54	25	0	25	48	1.52
6286752--6286781	14	2.2	13	94	5	51	76	0	0	23	0.78
6291443--6293503	344	6.0	343	98	0	3955	39	12	11	37	1.79
6291443--6293503	687	3.0	687	98	0	3959	39	12	11	37	1.79
6296945--6296995	27	1.9	26	84	4	66	31	11	11	45	1.77
6299161--6299186	3	8.7	3	100	0	52	0	30	0	69	0.89
6299771--6299839	36	1.9	36	93	0	120	36	15	20	27	1.93
6306032--6306336	59	5.2	59	84	2	303	30	29	3	36	1.75
6306112--6306265	30	5.2	28	69	21	77	32	24	4	38	1.76
6306021--6306335	118	2.7	117	81	6	352	31	28	3	36	1.75
6306139--6306292	30	5.2	29	68	21	97	33	26	3	36	1.75
6306142--6306293	29	5.2	28	68	21	89	32	25	3	37	1.75
6311055--6311085	15	2.1	15	100	0	62	25	6	9	58	1.54
6311372--6311402	4	7.8	4	100	0	62	51	0	22	25	1.48
6315978--6316013	15	2.4	15	86	13	56	52	2	5	38	1.39
6323199--6323228	15	1.9	16	93	6	53	66	3	6	23	1.30
6328484--6328537	8	6.5	8	80	14	56	75	0	24	0	0.80
6328483--6328542	24	2.3	27	77	11	72	73	0	26	0	0.84
6328498--6328535	14	2.7	14	88	8	51	76	0	23	0	0.79
6329454--6329599	50	2.9	50	86	0	193	36	17	25	20	1.94
6329704--6331531	80	22.8	80	92	1	2912	32	22	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6331501--6331560	29	2.1	29	100	0	120	33	26	13	26	1.93
6331421--6331639	109	2.0	109	98	0	420	31	23	18	26	1.97
6331535--6331705	39	4.3	39	72	9	123	32	23	16	26	1.96
6331529--6331708	79	2.3	80	86	3	247	32	23	16	27	1.96
6334601--6334643	22	2.0	22	85	0	59	39	2	4	53	1.34
6341092--6341134	18	2.4	18	92	7	70	44	0	0	55	0.99
6356954--6356989	17	2.3	15	90	9	54	69	0	0	30	0.89
6356889--6357042	67	2.4	67	89	8	239	58	1	0	39	1.09
6357015--6357056	18	2.3	18	84	8	59	78	0	2	19	0.86
6357097--6357126	15	1.9	16	93	6	53	23	6	3	66	1.30
6360515--6360550	17	2.3	15	90	9	54	69	0	0	30	0.89
6360450--6360603	67	2.4	67	89	8	239	58	1	0	39	1.09
6360576--6360617	18	2.3	18	84	8	59	78	0	2	19	0.86
6360658--6360687	15	1.9	16	93	6	53	23	6	3	66	1.30
6364076--6364111	17	2.3	15	90	9	54	69	0	0	30	0.89
6364011--6364164	67	2.4	67	88	8	230	57	1	0	39	1.14
6364137--6364178	18	2.3	18	84	8	59	78	0	2	19	0.86
6364219--6364248	15	1.9	16	93	6	53	23	6	3	66	1.30
6370554--6370589	15	2.4	15	86	13	56	38	5	2	52	1.39
6370619--6370673	2	28.5	2	92	7	96	50	0	0	49	1.00
6370757--6370792	15	2.4	15	86	13	56	38	5	2	52	1.39
6370822--6370867	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6373866--6373929	34	1.9	33	83	3	83	45	9	10	34	1.72
6376540--6376573	16	2.1	17	88	5	52	41	8	5	44	1.60
6378064--6378138	17	4.4	17	74	1	69	45	1	30	22	1.61
6382949--6383012	33	1.9	34	87	3	94	43	21	9	25	1.82
6386607--6386828	101	2.2	101	95	0	390	23	20	25	29	1.99
6386920--6386993	24	3.1	24	82	3	105	27	20	22	29	1.98
6398123--6398770	216	3.0	216	99	0	1287	34	12	12	40	1.81
6404643--6404704	32	2.0	31	90	3	97	40	11	14	33	1.82
6404651--6404714	32	2.0	32	87	0	92	43	12	14	29	1.81
6405046--6405084	18	2.2	18	95	0	69	64	2	0	33	1.08
6405155--6405210	21	2.8	19	74	12	58	42	8	0	48	1.34
6405157--6405210	20	2.7	21	77	5	58	44	9	0	46	1.35
6407398--6407460	27	2.3	27	83	5	74	39	11	3	46	1.55
6419120--6419155	16	2.2	17	90	5	56	47	2	0	50	1.15
6419831--6419859	7	4.3	7	95	4	51	89	0	0	10	0.48
6419826--6419859	14	2.5	13	86	9	50	88	0	2	8	0.62
6420375--6420405	16	1.9	16	93	0	53	48	9	6	35	1.62
6421108--6421159	23	2.3	21	76	20	52	30	3	0	65	1.10
6433637--6433666	15	2.0	15	93	0	51	30	30	6	33	1.83
6434210--6434392	90	2.0	90	98	0	357	41	10	8	39	1.69
6437937--6437961	13	1.9	13	100	0	50	48	12	0	40	1.40
6441604--6441794	82	2.3	82	87	3	260	32	19	27	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6441604--6441872	41	6.6	41	75	5	206	30	20	28	20	1.98
6441605--6441835	123	1.9	123	82	5	297	31	19	28	21	1.97
6441604--6441869	123	2.2	122	79	6	270	31	19	27	21	1.97
6442104--6442821	182	4.0	179	82	4	800	33	11	20	34	1.88
6444986--6445155	43	4.0	42	74	5	162	25	17	25	31	1.97
6445010--6445169	85	1.9	85	80	5	189	26	18	23	31	1.97
6446414--6446489	36	2.2	35	81	9	84	35	35	7	21	1.82
6447149--6447194	20	2.2	20	84	3	56	54	28	0	17	1.43
6448104--6448141	9	4.3	9	81	18	53	55	0	2	42	1.14
6448103--6448138	17	2.1	17	90	10	56	55	0	2	41	1.14
6452404--6452449	23	1.9	23	86	8	65	58	6	2	32	1.36
6455171--6455230	29	2.1	29	93	0	102	15	15	21	48	1.81
6456103--6456157	26	2.1	26	83	6	67	50	3	1	43	1.30
6456218--6456247	2	15.0	2	100	0	60	50	0	0	50	1.00
6456571--6456596	11	2.4	11	100	0	52	26	0	0	73	0.84
6456576--6456798	95	2.4	92	79	12	258	30	11	8	49	1.69
6456875--6456958	42	2.0	42	83	0	105	29	15	26	28	1.96
6460334--6460374	13	2.8	15	75	17	50	70	2	0	26	0.99
6461172--6461200	13	2.1	14	93	6	51	48	0	3	48	1.18
6472742--6473002	129	2.0	129	100	0	522	42	15	10	31	1.80
6478669--6478694	5	5.2	5	100	0	52	0	42	0	57	0.98
6481378--6481422	3	15.0	3	92	0	54	2	33	6	57	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6483770--6483846	29	2.6	31	80	10	90	41	0	3	54	1.19
6483966--6484042	29	2.6	30	77	8	86	41	0	5	53	1.23
6488630--6488685	29	2.0	28	89	3	85	64	1	7	26	1.29
6490770--6490821	2	26.5	2	96	3	97	50	0	0	50	1.00
6496397--6496492	31	3.0	31	86	6	113	46	13	15	23	1.82
6501692--6501722	13	2.4	13	100	0	62	19	6	32	41	1.77
6504190--6504250	19	3.3	18	84	8	70	34	1	3	60	1.23
6504191--6504251	10	6.4	9	74	14	52	32	1	3	62	1.21
6504201--6504249	18	2.6	19	87	3	64	34	2	2	61	1.19
6504206--6504259	28	1.9	28	85	7	74	35	1	3	59	1.26

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   126