genome.fa.s1.2.7.7.80.10.50.1000.26.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  26  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)
8196515--8196559	3	15.0	3	95	0	72	62	0	4	33	1.15
8197242--8197291	25	2.0	25	100	0	100	32	12	28	28	1.92
8199286--8199565	153	1.8	153	89	0	443	35	14	17	32	1.90
8200077--8200147	29	2.5	28	78	17	74	42	2	21	33	1.67
8200129--8200237	30	3.6	30	71	22	95	36	2	26	33	1.71
8200077--8200245	60	2.9	59	84	5	209	38	2	25	33	1.71
8200165--8200250	29	3.0	28	70	24	79	34	2	30	32	1.71
8202128--8202169	17	2.6	16	78	14	50	42	0	4	52	1.22
8202130--8202183	16	3.3	16	78	14	56	46	1	3	48	1.30
8202113--8202182	27	2.6	27	81	0	77	42	2	4	50	1.37
8202583--8203980	200	7.0	200	90	1	2144	19	21	21	37	1.95
8213383--8213662	153	1.8	153	86	0	407	34	14	17	33	1.90
8215732--8215821	17	5.8	17	68	20	72	56	4	0	38	1.19
8215735--8215799	27	2.4	27	100	0	130	60	3	0	36	1.13
8219271--8219343	30	2.3	32	88	6	105	26	1	4	68	1.15
8219944--8219979	18	1.9	19	88	5	56	33	0	2	63	1.08
8220031--8220060	15	2.0	15	100	0	60	40	6	6	46	1.56
8220041--8220208	54	3.2	54	85	4	211	38	10	5	45	1.61
8230602--8230659	30	1.9	30	83	13	75	67	8	1	22	1.27
8230610--8230673	29	2.2	28	79	17	69	68	7	1	21	1.23
8231277--8231313	17	2.2	17	90	0	56	78	5	2	13	1.03
8232279--8232346	24	3.0	22	79	10	84	36	7	1	54	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8232323--8232387	31	2.1	30	83	8	78	52	6	1	40	1.36
8232666--8232711	24	2.0	23	82	4	56	54	4	4	36	1.40
8232676--8232725	24	2.1	24	82	14	59	60	0	2	38	1.09
8233650--8233679	15	1.9	16	93	6	53	33	6	16	43	1.74
8234109--8234183	39	1.9	39	86	0	105	48	14	8	29	1.72
8235530--8235569	6	6.7	6	94	0	71	2	35	30	32	1.71
8235720--8235786	22	2.8	23	74	14	57	35	4	0	59	1.18
8235983--8236028	8	5.4	8	80	14	56	21	2	2	73	1.04
8235983--8236028	9	5.2	9	78	5	58	21	2	2	73	1.04
8235983--8236028	17	2.6	18	89	3	67	21	2	2	73	1.04
8239978--8240007	16	1.9	16	93	6	53	33	20	0	46	1.51
8242043--8242105	28	2.2	28	83	5	74	26	11	28	33	1.91
8242204--8242346	30	4.5	30	80	13	135	37	1	22	38	1.63
8242226--8242303	38	2.1	38	95	0	138	32	1	28	38	1.65
8244097--8244142	17	2.7	17	89	0	65	52	6	0	41	1.27
8244110--8244164	17	3.2	17	84	0	74	56	7	0	36	1.27
8244428--8245613	92	12.9	92	94	1	1914	28	18	19	33	1.95
8244428--8245613	367	3.2	367	94	0	1991	28	18	19	33	1.95
8247649--8247694	22	2.1	22	91	0	74	43	6	19	30	1.76
8247845--8247877	6	5.5	6	92	0	57	48	0	30	21	1.50
8247841--8247898	24	2.5	23	86	8	73	48	0	24	27	1.51
8247979--8248079	38	2.6	40	71	10	100	21	19	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8259284--8259528	30	8.2	30	89	2	316	38	2	21	37	1.65
8260524--8260556	7	4.9	7	88	7	50	45	0	0	54	0.99
8261290--8261335	17	2.7	17	86	0	56	52	4	0	43	1.21
8261290--8261346	6	10.0	6	74	11	57	50	3	0	45	1.18
8261277--8261339	28	2.3	27	83	5	72	52	3	0	44	1.17
8261304--8261353	17	2.9	17	90	0	73	56	2	0	42	1.11
8266134--8266167	15	2.3	15	94	0	59	35	23	11	29	1.90
8267683--8267791	51	2.1	51	87	0	155	34	25	8	31	1.86
8267773--8267804	15	2.1	15	94	0	55	37	28	12	21	1.90
8267830--8267999	33	5.1	32	70	18	109	22	44	1	31	1.63
8267915--8268016	33	3.1	33	77	7	116	21	49	0	28	1.56
8268177--8271603	577	5.9	585	93	2	5621	43	21	8	25	1.82
8271733--8271779	16	2.9	16	87	3	67	27	0	23	48	1.51
8271932--8271988	29	1.9	30	82	3	71	22	10	28	38	1.87
8272840--8272879	22	1.9	22	85	10	57	57	5	5	32	1.42
8272920--8272972	23	2.5	21	80	16	65	52	3	3	39	1.37
8273228--8273312	40	2.1	40	87	8	120	38	11	15	34	1.84
8289934--8289974	18	2.3	18	100	0	82	58	4	12	24	1.53
8300823--8300864	16	2.6	16	88	0	57	33	4	14	47	1.65
8301157--8301241	19	4.4	20	69	18	63	43	1	0	55	1.07
8301246--8301294	13	3.6	14	81	10	57	51	4	0	44	1.20
8303032--8303168	63	2.2	63	97	0	256	39	20	2	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8312422--8312461	21	1.9	21	85	10	55	35	0	17	47	1.48
8314798--8314838	21	1.9	22	85	5	57	46	2	4	46	1.37
8317222--8317256	18	1.9	18	94	0	61	57	8	11	22	1.61
8318686--8318743	26	2.3	25	85	5	80	34	10	6	48	1.64
8322119--8322158	13	3.0	14	82	10	57	57	2	0	40	1.12
8323344--8323390	14	3.4	14	87	0	67	34	27	17	21	1.95
8323386--8323419	11	3.1	11	82	0	50	23	26	29	20	1.99
8323424--8323455	17	1.9	16	93	6	55	9	12	34	43	1.75
8329222--8329264	12	3.4	13	84	12	54	60	2	0	37	1.10
8330351--8330384	15	2.3	15	89	0	50	8	8	32	50	1.64
8347261--8347340	41	2.0	41	82	9	101	58	1	0	40	1.06
8347886--8347929	20	2.2	20	88	4	63	56	6	0	36	1.26
8349847--8349895	23	2.0	25	88	7	75	51	0	0	48	1.00
8349861--8349895	8	4.2	8	85	7	52	48	0	0	51	1.00
8349852--8349893	17	2.4	17	88	4	66	52	0	0	47	1.00
8349853--8349915	25	2.6	22	76	18	56	49	1	0	49	1.10
8353182--8353240	30	2.0	30	90	6	93	6	32	35	25	1.82
8354786--8354832	20	2.3	21	88	3	69	72	4	0	23	1.02
8354800--8354839	20	2.0	20	90	0	62	67	7	2	22	1.28
8356855--8357371	49	10.6	48	72	11	338	18	25	18	37	1.93
8356854--8357177	98	3.3	98	91	0	504	17	26	18	37	1.93
8356905--8357324	147	2.9	146	85	3	488	18	25	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8356854--8357324	98	4.8	98	85	4	454	18	25	18	37	1.93
8357003--8357477	147	3.2	147	83	4	460	19	26	17	36	1.94
8362651--8362711	29	2.1	29	90	6	97	50	8	9	31	1.65
8364112--8364155	20	2.2	20	91	0	70	68	6	2	22	1.25
8367692--8367910	30	7.4	30	89	3	257	37	2	26	34	1.69
8367692--8367910	60	3.7	60	87	1	289	37	2	26	34	1.69
8371047--8371118	24	3.0	24	84	10	92	19	0	33	47	1.50
8376159--8376201	20	2.1	21	87	8	63	25	11	16	46	1.80
8378620--8378653	17	2.0	17	88	0	50	35	0	0	64	0.94
8386241--8386281	15	2.6	16	85	11	50	26	0	2	70	0.99
8392511--8392583	14	5.5	14	68	12	64	54	8	8	28	1.59
8392512--8392596	26	3.3	26	100	0	170	51	8	8	31	1.61
8392526--8392595	12	5.5	12	67	12	50	50	8	8	32	1.64
8392612--8392637	9	2.9	9	100	0	52	23	11	23	42	1.86
8392881--8392964	42	2.0	42	90	4	134	47	20	0	32	1.50
8395108--8395361	59	4.3	60	79	10	263	33	3	27	36	1.73
8395108--8395361	29	8.6	29	77	14	198	33	3	27	36	1.73
8396443--8396467	3	8.3	3	100	0	50	36	0	0	64	0.94
8396552--8396613	2	31.0	2	100	0	124	50	0	0	50	1.00
8397199--8397228	15	1.9	16	93	6	53	16	0	23	60	1.36
8397322--8397383	17	3.6	17	76	4	52	56	4	0	38	1.21
8401121--8401176	28	2.0	28	100	0	112	46	17	7	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8404718--8404799	23	3.5	23	83	5	85	34	9	15	40	1.81
8404764--8404810	23	2.0	23	88	8	69	44	8	12	34	1.73
8407441--8407468	6	4.7	6	100	0	56	17	0	14	67	1.22
8408120--8408180	28	2.1	28	82	8	70	44	6	4	44	1.51
8409404--8409450	22	2.1	22	88	7	69	10	6	2	80	0.96
8414184--8414208	12	2.1	12	100	0	50	16	24	40	20	1.91
8414588--8414638	25	2.0	26	88	3	77	43	5	1	49	1.38
8415784--8415828	21	2.1	21	84	8	56	35	4	2	57	1.31
8421358--8421426	21	3.3	21	68	11	61	57	2	1	37	1.22
8422772--8422797	2	13.0	2	100	0	52	50	0	0	50	1.00

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