genome.fa.s12.2.7.7.80.10.50.1000.21.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   127   128   
          129   130   131   132   

This is table  21  of  132  ( 15769 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)
6124473--6124521	6	8.3	6	95	4	91	0	46	0	53	1.00
6136143--6136286	47	3.1	47	96	0	261	22	15	23	37	1.93
6138907--6138954	24	2.0	24	87	0	69	25	18	22	33	1.97
6143049--6143242	97	2.0	97	95	0	352	48	30	4	16	1.65
6143664--6143707	23	1.9	23	85	0	61	50	0	4	45	1.22
6144626--6145045	30	14.2	30	78	6	266	35	25	2	36	1.70
6145208--6145258	25	2.0	25	92	0	84	25	7	5	60	1.47
6148254--6148296	22	2.1	21	87	12	63	44	0	0	55	0.99
6148273--6148321	17	3.2	17	72	27	63	46	0	0	53	1.00
6148257--6148354	29	3.4	29	86	5	130	55	0	0	44	0.99
6148309--6148346	19	2.1	19	85	5	51	71	0	0	28	0.87
6148306--6148363	27	2.2	26	90	3	89	60	0	0	39	0.97
6149217--6149263	17	2.6	18	78	18	53	57	0	0	42	0.98
6156033--6156067	14	2.3	16	90	9	56	77	5	0	17	0.96
6157761--6158083	158	2.0	158	89	1	486	23	23	22	29	1.99
6172380--6172412	16	2.1	16	88	5	50	36	0	0	63	0.95
6175419--6175539	23	5.2	23	82	11	156	11	25	23	39	1.88
6175419--6175539	48	2.6	46	87	7	172	11	25	23	39	1.88
6175504--6175578	39	1.9	39	91	0	123	12	22	21	44	1.85
6175538--6175631	23	4.0	23	73	16	77	12	25	18	43	1.85
6176920--6176979	23	2.6	23	91	0	93	20	20	18	41	1.90
6176940--6176991	11	4.6	11	73	4	50	19	17	21	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6176940--6177007	34	2.0	34	100	0	136	20	17	20	41	1.91
6176920--6177031	57	1.9	58	89	1	172	21	19	18	40	1.92
6176974--6177074	24	4.2	24	88	1	150	19	18	21	39	1.92
6178706--6178762	23	2.5	23	79	0	60	43	15	17	22	1.87
6178939--6179222	79	3.6	78	82	1	354	31	27	18	22	1.97
6184858--6184915	28	2.1	28	90	0	89	29	25	8	36	1.86
6186217--6186247	14	2.2	14	94	0	53	70	3	0	25	1.02
6186165--6186240	31	2.6	28	76	17	73	64	7	1	26	1.29
6193172--6193212	9	4.6	9	84	0	55	53	4	2	39	1.35
6193172--6193212	18	2.3	18	95	0	73	53	4	2	39	1.35
6212717--6212768	23	2.2	24	77	16	56	42	1	1	53	1.23
6217009--6217043	18	2.1	16	89	10	52	25	0	0	74	0.82
6217186--6217225	21	1.9	21	84	0	53	42	2	0	55	1.13
6217187--6217237	21	2.4	21	78	15	52	41	1	0	56	1.10
6217223--6217275	20	2.7	20	82	8	56	50	1	3	43	1.30
6225939--6225986	19	2.6	18	83	9	53	56	4	2	37	1.30
6230378--6230413	17	2.2	17	90	9	58	63	0	0	36	0.94
6231546--6231579	17	2.1	17	88	5	52	67	0	0	32	0.91
6231515--6231575	29	2.1	29	81	0	68	62	1	1	34	1.15
6231526--6231577	20	2.7	20	85	8	63	63	1	0	34	1.06
6234685--6234716	15	2.1	15	94	0	55	43	0	0	56	0.99
6238662--6238843	51	3.5	51	86	3	240	30	23	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6238808--6238873	33	2.0	33	100	0	132	27	24	15	33	1.95
6252632--6252661	11	2.6	11	94	5	51	36	0	6	56	1.26
6255233--6255257	11	2.3	11	100	0	50	68	0	0	32	0.90
6257880--6257926	20	2.3	21	85	3	60	25	0	2	72	0.96
6259524--6259579	2	28.0	2	79	13	62	46	5	0	48	1.25
6260038--6260092	6	9.2	6	73	15	51	45	1	1	50	1.22
6260956--6261001	24	1.9	24	82	8	58	56	6	17	19	1.62
6261880--6262132	29	8.7	28	77	10	215	36	25	3	35	1.72
6261890--6262140	59	4.3	58	86	7	307	35	24	3	36	1.72
6261893--6262140	116	2.1	117	84	10	321	36	24	3	35	1.72
6263853--6263892	20	2.0	20	90	4	64	42	22	22	12	1.87
6274695--6274759	13	5.1	13	81	1	51	36	4	18	40	1.71
6274842--6274882	19	2.1	19	86	4	55	60	0	2	36	1.10
6279845--6279886	19	2.2	20	86	4	59	47	2	23	26	1.64
6280321--6280380	17	3.6	17	74	17	63	0	20	3	76	0.92
6280319--6280368	23	2.3	22	80	12	59	0	18	2	80	0.82
6280308--6280372	19	3.7	18	73	20	50	0	21	1	76	0.86
6280313--6280387	32	2.3	33	84	6	100	0	24	2	73	0.96
6280444--6280617	91	1.9	90	84	2	226	39	9	14	37	1.78
6281881--6281916	2	18.0	2	100	0	72	50	0	0	50	1.00
6282128--6282178	2	25.5	2	100	0	102	49	0	0	50	1.00
6282527--6282571	13	3.5	13	77	17	58	33	0	2	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6282526--6282579	25	2.2	24	83	6	65	38	0	1	59	1.08
6282705--6282740	18	2.0	18	89	10	56	72	0	0	27	0.85
6283521--6283561	21	2.0	21	90	4	66	46	0	0	53	1.00
6291651--6291694	3	14.7	3	86	9	63	70	0	0	29	0.88
6299694--6300095	201	2.0	201	99	0	795	35	20	17	27	1.95
6300765--6300812	19	2.6	19	93	3	80	22	14	39	22	1.91
6301456--6301523	34	2.0	34	100	0	136	23	38	2	35	1.70
6305360--6305395	7	5.1	7	100	0	72	16	13	55	13	1.69
6306459--6306484	4	6.5	4	100	0	52	23	0	0	76	0.78
6306519--6306559	4	10.2	4	80	19	50	24	0	0	75	0.80
6306457--6306622	67	2.4	68	86	10	225	38	0	2	58	1.16
6306457--6306614	71	2.2	71	87	7	223	38	0	2	58	1.16
6308900--6309051	67	2.4	62	88	9	216	57	2	0	39	1.18
6308900--6309062	62	2.5	64	87	9	226	58	2	0	38	1.16
6309027--6309070	22	2.0	22	82	8	54	75	0	2	22	0.92
6309668--6310521	80	10.7	80	94	0	1478	24	18	24	32	1.97
6310607--6310752	50	2.9	50	88	0	211	21	25	19	34	1.96
6311676--6311755	6	12.7	6	74	20	58	2	13	1	82	0.83
6311676--6311734	7	8.7	7	80	12	54	0	16	1	81	0.78
6311679--6311753	14	5.6	14	75	12	59	2	14	1	81	0.87
6311676--6311732	20	2.8	20	82	15	73	0	17	1	80	0.79
6311682--6311753	8	8.6	8	71	19	58	2	13	1	81	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6311677--6311752	26	3.0	26	86	5	93	2	14	1	81	0.86
6311688--6311753	33	1.9	36	84	9	93	3	13	1	81	0.87
6316714--6316870	67	2.4	65	87	9	230	39	0	2	57	1.17
6320547--6320625	40	2.0	40	82	5	97	37	1	40	20	1.60
6322735--6322759	7	3.6	7	100	0	50	48	0	0	52	1.00
6334315--6334359	16	2.8	16	86	0	72	31	26	0	42	1.56
6347072--6347102	16	2.0	16	93	6	55	48	0	6	45	1.28
6371011--6371163	71	2.2	71	87	0	216	35	20	18	25	1.95
6373595--6373636	21	2.0	21	86	9	59	40	7	2	50	1.43
6377326--6377360	18	1.9	18	88	11	54	68	8	0	22	1.16
6381874--6382218	29	11.9	28	66	20	131	34	4	28	32	1.76
6381872--6382218	58	6.0	58	84	7	418	34	4	28	32	1.76
6381909--6382218	58	5.3	59	87	4	425	35	3	28	33	1.73
6381906--6382218	117	2.7	117	90	3	472	34	3	28	33	1.74
6382002--6382224	30	7.6	28	70	22	122	36	3	27	33	1.73
6382002--6382224	29	7.7	30	70	26	153	36	3	27	33	1.73
6382346--6382645	164	1.8	164	91	1	503	44	12	17	26	1.83
6383226--6383252	14	1.9	14	100	0	54	22	11	0	66	1.22
6383395--6383432	15	2.5	15	91	0	58	28	7	2	60	1.38
6383399--6383454	24	2.3	24	87	6	78	32	7	5	55	1.50
6384144--6384224	6	13.7	6	77	12	87	56	1	1	40	1.15
6384144--6384233	17	5.5	17	85	9	116	58	1	1	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6384160--6384224	11	5.4	12	80	10	62	56	0	0	43	0.99
6384144--6384230	11	7.4	12	71	18	58	57	1	1	40	1.14
6384171--6384252	28	2.9	27	78	8	67	56	3	1	39	1.25
6384588--6385147	69	7.9	69	84	6	685	29	20	16	34	1.94
6384531--6385147	145	4.3	145	89	2	867	29	19	16	34	1.94
6397233--6397695	29	15.9	28	70	15	271	35	4	28	31	1.77
6397231--6397695	59	7.9	60	86	4	587	35	4	28	31	1.77
6398552--6398578	14	1.9	14	100	0	54	22	11	0	66	1.22
6398721--6398758	15	2.5	15	91	0	58	28	7	2	60	1.38
6398725--6398780	24	2.3	24	87	6	78	32	7	5	55	1.50

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   127   128   
          129   130   131   132