genome.fa.s4.2.7.7.80.10.50.1000.20.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  20  of  193  ( 23090 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)
6880323--6880392	26	2.7	25	84	6	95	0	32	2	64	1.08
6881793--6881835	5	8.6	5	100	0	86	18	60	0	20	1.36
6884773--6884832	31	2.0	29	87	6	84	43	8	11	36	1.71
6886890--6886916	7	3.9	7	100	0	54	25	14	14	44	1.84
6890948--6890982	10	3.7	9	88	11	52	17	0	0	82	0.66
6901105--6901167	30	2.1	30	88	5	92	0	17	1	80	0.78
6901108--6901158	27	2.0	27	84	7	70	0	15	1	82	0.76
6902595--6902654	3	20.0	3	87	0	57	1	21	33	43	1.63
6902601--6902654	12	4.5	12	88	0	63	1	20	33	44	1.62
6902592--6902653	15	4.1	15	85	0	70	1	19	33	45	1.60
6905370--6905408	2	19.5	2	94	0	69	51	2	46	0	1.14
6908267--6908328	23	2.7	23	76	11	65	48	3	4	43	1.40
6914757--6915463	357	2.0	356	96	1	1310	30	19	14	36	1.91
6918673--6918715	19	2.4	17	80	7	50	53	9	2	34	1.46
6919588--6919635	13	3.5	13	78	15	60	27	0	6	66	1.15
6919590--6919635	14	3.2	14	79	14	58	23	0	6	69	1.11
6919590--6919624	15	2.3	15	90	5	52	22	0	5	71	1.07
6922257--6922308	23	2.3	23	82	0	59	7	9	21	61	1.51
6924124--6924178	27	2.0	27	92	0	92	49	1	32	16	1.56
6940996--6941052	23	2.5	22	75	10	53	29	5	1	63	1.27
6941499--6941597	29	3.6	28	70	20	75	58	1	1	39	1.12
6941582--6941636	20	2.8	19	81	10	58	61	3	3	30	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6941854--6941967	10	11.9	10	72	19	66	30	4	1	63	1.24
6941828--6942033	19	11.0	19	70	16	67	33	3	2	60	1.28
6941944--6941975	11	3.1	11	91	8	50	34	0	0	65	0.93
6941958--6941996	20	2.0	20	85	10	53	46	2	0	51	1.14
6941827--6942040	9	23.1	9	69	15	100	32	3	2	61	1.26
6942002--6942040	8	4.5	8	87	9	51	23	0	2	74	0.94
6942198--6942356	89	1.9	84	82	12	200	39	10	13	37	1.78
6942534--6942573	2	20.0	2	100	0	80	50	0	0	50	1.00
6954866--6954907	15	3.0	14	83	16	52	21	19	59	0	1.38
6955630--6955688	27	2.2	27	85	8	77	8	22	1	67	1.26
6956702--6956742	15	2.6	16	84	11	57	65	0	0	34	0.93
6962073--6962268	74	2.6	74	86	1	277	32	18	15	34	1.92
6975018--6975080	23	2.7	23	92	0	99	9	28	19	42	1.82
6983500--6983532	10	3.4	10	87	4	50	60	0	0	39	0.97
6984889--6984993	43	2.4	43	83	0	156	18	16	23	41	1.89
6988857--6988890	14	2.2	16	90	10	54	76	0	11	11	1.02
6989058--6989144	24	3.6	24	88	0	129	52	10	11	25	1.69
6996911--6996972	17	3.6	16	77	14	61	48	6	0	45	1.28
7001932--7002348	30	14.1	28	80	10	320	33	2	27	36	1.72
7001979--7002339	119	3.0	114	78	12	354	33	3	27	35	1.73
7001942--7002348	89	4.6	86	78	10	385	33	2	27	36	1.72
7003133--7003169	15	2.5	15	90	0	56	16	0	8	75	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7006643--7006705	24	2.5	26	75	17	71	66	3	3	26	1.22
7013812--7013874	24	2.6	24	87	0	90	49	11	14	25	1.76
7015803--7015861	24	2.5	24	85	0	82	47	11	13	27	1.78
7020890--7021044	58	2.7	58	79	12	167	43	2	3	50	1.31
7021236--7021281	16	2.9	16	80	0	56	32	15	6	45	1.71
7021221--7021281	32	1.9	32	86	0	86	31	13	4	50	1.62
7024303--7024357	23	2.4	23	84	0	65	34	0	1	63	1.05
7027888--7027994	56	1.9	56	94	0	187	25	14	16	42	1.87
7035881--7035970	32	2.8	32	84	6	101	7	5	16	70	1.31
7035884--7035989	12	9.3	12	75	11	89	8	3	17	69	1.29
7035885--7035990	44	2.4	45	82	6	137	8	3	17	69	1.29
7035884--7035953	23	3.0	24	77	8	65	7	2	17	72	1.19
7035912--7036003	44	2.1	44	87	0	130	8	3	19	68	1.30
7036536--7036657	52	2.3	54	85	5	158	32	18	28	20	1.96
7038067--7038124	13	4.6	13	71	14	50	50	1	3	44	1.29
7041363--7041408	23	2.0	23	83	8	58	30	0	6	63	1.20
7043179--7043203	2	12.5	2	100	0	50	52	0	0	48	1.00
7044225--7044266	21	2.0	22	85	4	59	33	4	4	57	1.41
7049574--7049606	9	3.7	9	84	15	50	51	0	0	48	1.00
7057563--7057613	22	2.3	22	76	10	59	33	0	0	66	0.92
7058992--7059055	32	2.0	32	93	0	110	48	4	1	45	1.32
7059454--7059487	17	1.9	18	88	5	52	23	11	0	64	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7060190--7060232	11	3.7	11	82	11	59	60	2	0	37	1.10
7060191--7060258	24	2.8	25	82	10	88	55	4	0	39	1.20
7061982--7062658	174	3.9	173	89	1	940	28	17	23	29	1.97
7070815--7070870	21	2.5	21	78	21	60	51	1	3	42	1.29
7070933--7070966	17	1.9	18	94	5	61	67	0	0	32	0.91
7071577--7071637	31	2.0	31	83	0	77	40	14	1	42	1.56
7073556--7073654	48	2.1	47	85	7	130	11	25	23	40	1.87
7073556--7073654	23	4.2	23	81	12	112	11	25	23	40	1.87
7073615--7073693	39	2.0	39	90	0	122	12	20	21	45	1.84
7073654--7073748	23	4.1	23	75	16	79	11	24	18	45	1.83
7075755--7075822	6	11.3	6	80	12	77	42	1	1	54	1.18
7075749--7075822	17	4.2	17	74	20	71	41	1	1	55	1.17
7077501--7077708	30	7.0	30	88	3	287	36	24	4	35	1.75
7077501--7077708	59	3.5	59	88	3	276	36	24	4	35	1.75
7077501--7077708	89	2.3	89	88	3	294	36	24	4	35	1.75
7077712--7078117	59	6.8	58	88	5	546	30	30	5	33	1.81
7090071--7090243	31	5.2	31	68	15	121	34	19	21	24	1.97
7090020--7090293	68	4.0	69	92	1	428	33	18	20	26	1.96
7090025--7090219	37	5.5	37	68	15	162	32	17	21	27	1.96
7090655--7090722	6	11.3	6	80	12	77	42	1	1	54	1.18
7090649--7090722	17	4.2	17	74	20	71	41	1	1	55	1.17
7092404--7092578	30	5.9	30	92	2	264	38	24	2	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7092582--7092924	59	5.8	58	85	4	447	30	29	5	33	1.81
7092582--7092922	119	2.9	115	89	4	463	31	29	5	33	1.80
7092740--7092894	29	5.3	29	62	11	75	30	30	5	33	1.81
7092587--7092917	30	11.2	29	62	18	105	31	29	5	34	1.80
7108174--7108257	29	2.9	29	69	18	68	13	11	19	55	1.67
7110881--7110931	24	2.2	23	86	6	68	49	0	1	49	1.12
7119076--7119111	8	4.5	8	100	0	72	61	0	38	0	0.96
7128738--7128777	7	5.7	7	100	0	80	0	40	15	45	1.46
7131982--7132075	25	3.8	24	79	9	84	32	20	18	28	1.96
7133811--7133876	33	2.0	33	96	0	123	46	3	33	16	1.62
7136605--7136710	45	2.4	45	85	1	133	28	10	12	49	1.73
7143564--7143590	6	4.5	6	100	0	54	33	51	0	14	1.43
7145353--7145395	22	1.9	23	90	4	70	34	0	2	62	1.08
7150481--7150526	24	1.9	24	81	0	56	34	4	2	58	1.30
7150729--7150778	25	2.0	25	100	0	100	36	20	8	36	1.82
7155849--7155887	15	2.5	15	83	8	51	38	28	17	15	1.91
7172079--7172252	53	3.1	54	73	11	170	32	20	13	33	1.92
7171949--7172252	113	2.7	114	82	6	345	29	20	15	34	1.93
7172272--7172392	62	2.0	61	88	4	181	28	14	16	41	1.87
7172554--7172613	31	1.9	31	89	0	93	21	11	23	43	1.85
7176166--7176334	89	1.9	89	93	0	293	42	3	2	51	1.34
7178758--7178831	30	2.5	30	84	8	89	27	6	5	60	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7178812--7178876	31	2.1	31	88	0	94	24	7	3	64	1.34
7179682--7180018	60	5.8	58	71	13	207	34	15	19	30	1.93
7179802--7179994	53	3.5	52	69	21	142	31	16	22	30	1.95
7179742--7180018	113	2.4	112	84	7	364	32	15	20	31	1.93
7180028--7180154	58	2.3	55	79	8	139	37	18	18	25	1.94
7180645--7180697	23	2.3	23	90	0	79	16	24	24	33	1.96
7181728--7181771	19	2.4	19	80	3	54	27	0	11	61	1.30
7192256--7192286	15	2.1	15	93	0	53	41	19	3	35	1.67
7195527--7195638	56	2.0	56	100	0	224	51	10	14	23	1.73
7207060--7207095	3	12.0	3	100	0	72	66	0	0	33	0.92

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   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193