genome.fa.s11.2.7.7.80.10.50.1000.12.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  12  of  143  ( 17057 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)
3719549--3720266	237	3.0	235	83	5	863	32	23	17	26	1.96
3719561--3720245	277	2.5	276	83	5	826	32	23	16	26	1.96
3719561--3720245	40	17.3	39	78	8	579	32	23	16	26	1.96
3719549--3720272	119	6.1	116	75	10	452	32	23	16	26	1.96
3723720--3723808	42	2.2	39	80	6	97	33	33	22	10	1.88
3728258--3728326	30	2.3	31	85	7	88	50	17	13	18	1.77
3742525--3742556	15	2.1	15	94	0	55	53	0	3	43	1.16
3744437--3744495	30	2.0	30	90	3	93	54	5	6	33	1.49
3745158--3745222	6	11.0	6	72	21	57	41	1	1	55	1.18
3745158--3745215	17	3.6	17	81	13	77	39	1	1	56	1.19
3745174--3745220	11	3.9	12	83	13	53	40	0	2	57	1.11
3745146--3745224	31	2.7	29	84	7	104	40	2	1	55	1.21
3745801--3745836	15	2.4	15	90	0	54	52	2	8	36	1.46
3746060--3746093	16	2.1	16	100	0	68	11	17	23	47	1.81
3746956--3747303	29	12.0	27	66	19	103	33	29	2	35	1.72
3746969--3747399	59	7.4	59	87	4	547	33	28	3	34	1.74
3746969--3747399	117	3.7	115	86	6	544	33	28	3	34	1.74
3759485--3760209	76	9.6	76	89	4	1089	33	16	18	31	1.93
3760464--3760529	31	2.2	29	89	5	96	39	4	0	56	1.20
3760506--3760540	17	2.1	17	88	0	52	45	2	0	51	1.16
3761118--3761153	15	2.4	15	90	0	54	52	2	8	36	1.46
3761376--3761409	16	2.1	16	100	0	68	11	17	23	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3762307--3762712	58	6.9	59	84	5	488	33	29	3	33	1.74
3762307--3762675	117	3.2	115	87	6	487	34	29	2	33	1.71
3762307--3762649	29	11.8	28	71	21	167	34	29	2	33	1.70
3767573--3767619	24	2.0	24	86	0	67	21	6	40	31	1.78
3767521--3767727	93	2.2	93	94	0	360	26	5	36	31	1.80
3767692--3767768	30	2.6	30	93	0	136	25	5	41	27	1.76
3767692--3767772	15	5.4	15	71	11	67	24	6	41	27	1.78
3768069--3768142	30	2.5	29	84	6	87	48	5	1	44	1.34
3768123--3768173	23	2.3	23	89	3	77	54	3	0	41	1.19
3769972--3770038	17	4.0	15	75	17	53	70	1	1	26	1.05
3769972--3770203	10	25.0	9	68	17	77	64	2	4	29	1.24
3769972--3770067	25	3.6	26	77	17	74	69	1	3	26	1.09
3769973--3770065	18	5.2	17	72	21	59	69	1	3	25	1.10
3770101--3770179	19	4.1	20	70	12	58	67	1	5	26	1.19
3770023--3770203	10	18.9	10	70	9	85	62	2	4	30	1.28
3770220--3770248	12	2.3	13	94	5	51	31	0	0	68	0.89
3775495--3775523	14	2.0	15	93	6	51	72	6	0	20	1.07
3776769--3776827	11	5.5	11	73	15	61	1	6	22	69	1.21
3776769--3776839	19	3.5	19	87	12	106	1	5	23	69	1.18
3776834--3776919	24	3.7	23	76	7	84	9	6	15	68	1.37
3776813--3776895	33	2.4	34	84	4	105	7	4	18	69	1.29
3776863--3776952	24	4.0	21	71	17	56	10	4	17	67	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3776819--3776936	48	2.6	46	81	5	132	7	5	20	66	1.39
3786696--3786753	29	2.0	30	83	10	75	43	3	1	51	1.28
3798123--3798196	24	2.9	26	70	25	68	54	2	6	36	1.41
3808490--3808518	2	14.5	2	100	0	58	51	0	0	48	1.00
3808968--3808995	2	14.0	2	100	0	56	50	0	0	50	1.00
3809091--3809156	29	2.2	29	84	7	80	36	0	0	63	0.95
3809093--3809154	23	2.7	23	74	2	70	32	0	0	67	0.91
3810064--3810093	16	1.9	16	93	6	53	43	0	10	46	1.37
3817211--3817267	29	2.0	29	82	6	71	29	14	17	38	1.89
3820538--3820711	81	2.1	81	96	1	321	19	40	16	22	1.91
3822951--3823404	150	3.0	149	87	3	642	40	17	10	31	1.84
3822951--3823404	151	3.0	150	87	2	635	40	17	10	31	1.84
3825955--3826012	32	1.9	28	83	13	71	44	3	0	51	1.18
3830191--3830243	26	2.0	26	92	7	90	39	11	11	37	1.77
3853076--3853110	17	2.1	17	88	0	52	11	8	25	54	1.64
3854341--3854407	20	3.4	19	72	14	55	40	5	1	52	1.35
3854370--3854625	19	13.1	20	69	14	72	34	1	6	57	1.33
3854437--3854481	21	2.0	23	87	8	67	42	0	4	53	1.21
3854502--3854602	9	10.6	9	73	13	78	30	0	4	63	1.22
3854510--3854613	30	3.5	30	73	5	95	29	1	5	62	1.29
3854569--3854621	19	2.7	21	85	11	76	24	1	5	67	1.22
3863271--3863448	94	1.9	94	82	6	227	26	11	20	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3863515--3863777	103	2.7	96	79	12	277	25	11	17	45	1.81
3870948--3871027	21	3.6	21	75	12	61	28	2	0	68	1.02
3871331--3871463	59	2.3	58	90	1	203	52	9	3	34	1.51
3872928--3873004	38	2.0	38	94	0	136	23	18	20	37	1.94
3873424--3873492	27	2.5	28	81	9	88	69	0	0	30	0.89
3873436--3873495	27	2.3	27	91	2	95	68	0	0	31	0.90
3873484--3873519	13	2.8	13	86	0	54	77	0	0	22	0.76
3882578--3882641	33	2.0	32	82	14	80	53	7	1	37	1.40
3885311--3885347	17	2.2	17	90	0	56	45	24	13	16	1.83
3889710--3889749	18	2.3	18	86	4	55	32	10	5	52	1.56
3889842--3889874	2	17.0	2	93	6	59	48	0	0	51	1.00
3898385--3898442	28	2.3	26	78	18	68	20	8	5	65	1.40
3898738--3898794	30	1.9	30	85	7	80	61	8	7	22	1.50
3901163--3901202	22	1.9	20	85	10	53	42	15	0	42	1.46
3901785--3901845	31	2.0	31	83	6	79	34	8	13	44	1.73
3902475--3902517	15	2.9	15	85	0	59	23	2	30	44	1.66
3910209--3910260	26	1.9	27	84	7	70	28	3	9	57	1.48
3913181--3913225	21	2.0	22	83	12	56	46	2	2	48	1.26
3919958--3919997	17	2.4	17	91	4	64	42	2	0	55	1.13
3919953--3919997	16	2.8	16	86	3	63	42	2	0	55	1.12
3919936--3920029	27	3.4	28	76	5	84	45	3	3	47	1.34
3920700--3920781	12	6.6	12	71	18	60	53	1	3	41	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3920700--3920729	15	2.0	15	93	0	51	53	0	3	43	1.17
3921901--3922096	58	3.4	58	85	2	286	30	29	4	35	1.78
3921899--3922116	117	1.9	116	87	5	323	32	27	5	34	1.79
3927471--3927530	29	2.1	29	81	3	68	25	15	5	55	1.60
3928012--3928097	27	2.9	30	70	19	72	23	13	19	43	1.87
3928285--3928351	31	2.2	31	83	0	80	49	19	8	22	1.76
3928405--3928451	22	2.2	21	96	3	85	40	2	4	53	1.32
3930962--3931031	31	2.4	27	75	13	68	31	4	4	60	1.36
3931944--3932137	97	2.0	97	92	0	325	25	6	23	44	1.76
3955266--3955479	106	2.0	107	85	6	292	46	14	15	23	1.82
3957047--3957314	80	3.3	80	88	2	378	35	19	12	32	1.89
3957021--3957314	160	1.8	160	85	5	416	34	21	12	31	1.90
3974346--3974378	14	2.3	15	89	5	50	9	15	21	54	1.68
3978328--3978402	11	6.5	11	76	8	69	4	25	0	70	1.04
3978330--3978394	12	5.5	12	76	10	62	4	23	0	72	1.03
3978772--3978839	21	3.2	21	91	2	109	44	33	0	22	1.53
3978823--3978852	15	2.0	15	93	0	51	43	33	3	20	1.68
3978889--3978936	10	4.7	10	78	2	51	16	25	31	27	1.97
3978918--3978957	21	1.9	21	84	0	53	15	22	32	30	1.94
3978944--3978996	7	7.7	7	87	4	72	15	22	26	35	1.93
3978944--3978999	20	2.8	20	88	2	76	14	21	25	39	1.91
3980044--3980094	3	17.3	3	95	4	95	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3989999--3990027	14	2.0	15	93	6	51	68	3	0	27	1.05
4005401--4005462	32	2.0	31	90	3	97	38	3	43	14	1.62
4008314--4008372	21	2.8	20	82	12	64	54	0	0	45	0.99
4008377--4008427	21	2.4	21	78	12	59	45	15	3	35	1.65
4008470--4008510	21	2.0	20	85	4	55	53	0	0	46	1.00
4010389--4010436	7	6.9	7	85	0	69	29	25	0	45	1.53
4010383--4010448	14	4.7	14	82	0	69	31	25	0	42	1.55
4010389--4010450	21	3.0	21	90	0	97	30	24	0	45	1.54
4011475--4011514	18	2.2	18	90	0	62	50	10	15	25	1.74
4012208--4012315	53	2.0	54	98	1	209	42	13	1	41	1.55

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