genome.fa.s4.2.7.7.80.10.50.1000.109.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  109  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)
34932158--34932183	7	3.7	7	100	0	52	38	0	0	61	0.96
34932201--34932229	2	14.5	2	100	0	58	51	0	0	48	1.00
34935702--34935765	31	2.1	31	82	5	78	37	14	10	37	1.81
34936796--34936858	31	2.0	31	100	0	126	28	3	12	55	1.52
34936796--34936848	17	3.3	17	69	15	58	28	3	11	56	1.51
34937212--34937265	27	1.9	28	81	7	65	18	11	7	62	1.50
34937209--34937271	27	2.3	27	75	5	63	19	9	6	65	1.43
34938300--34938343	20	2.3	19	88	4	61	65	4	0	29	1.12
34941487--34941564	39	2.0	39	100	0	156	17	23	15	43	1.87
34942008--34942033	6	4.3	6	100	0	52	15	0	69	15	1.20
34944705--34944802	33	3.0	33	95	3	171	47	36	0	15	1.45
34945258--34945316	22	2.8	20	82	9	82	64	11	5	18	1.44
34945491--34945543	28	1.9	28	96	3	99	58	1	0	39	1.09
34948397--34948434	19	2.0	20	84	5	51	26	31	0	42	1.56
34949245--34949288	18	2.5	17	82	7	52	18	9	15	56	1.65
34960365--34960405	20	2.0	20	100	0	82	19	14	14	51	1.77
34962918--34962942	12	2.1	12	100	0	50	36	8	16	40	1.77
34978283--34978344	31	2.1	30	88	11	92	35	8	3	53	1.47
34987823--34987956	56	2.4	57	92	3	227	62	0	4	32	1.20
34987873--34987909	17	2.2	17	90	0	56	70	0	0	29	0.88
34987823--34987956	57	2.4	56	90	6	209	62	0	4	32	1.20
34987930--34987968	17	2.3	17	86	0	51	58	2	0	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34993922--34994242	62	5.2	62	90	3	497	32	10	22	34	1.88
34997788--34997818	14	2.3	13	94	5	53	67	3	0	29	1.06
35005599--35005651	4	14.0	4	77	18	60	77	0	1	20	0.87
35011203--35011423	50	4.4	50	71	11	164	22	16	21	39	1.92
35011207--35011423	100	2.2	101	87	2	312	22	16	20	40	1.91
35011207--35011433	101	2.3	99	85	3	260	23	16	19	40	1.91
35028256--35028641	192	2.0	194	96	3	717	25	10	15	47	1.78
35039536--35040533	80	12.5	80	96	2	1764	31	24	19	23	1.98
35040567--35040673	39	2.8	38	78	14	121	35	23	14	27	1.93
35044698--35044746	15	3.5	15	78	16	68	30	22	4	42	1.72
35044703--35044942	56	4.3	55	83	4	234	27	22	7	42	1.80
35044706--35044942	83	2.8	82	81	8	255	27	22	7	42	1.79
35044706--35044942	28	8.5	27	77	9	158	27	22	7	42	1.79
35044721--35044942	111	2.0	114	82	4	272	27	22	7	42	1.80
35046394--35046450	17	3.3	17	80	2	60	38	1	5	54	1.33
35048254--35048474	30	7.4	30	79	11	165	37	23	2	36	1.69
35048265--35048474	29	7.1	30	79	10	200	37	23	2	37	1.68
35048279--35048479	59	3.4	58	82	11	228	36	23	2	37	1.68
35048592--35048653	28	2.2	28	88	0	88	33	30	8	27	1.86
35061047--35061088	16	2.9	14	83	16	59	45	0	0	54	0.99
35065031--35065102	29	2.5	29	93	0	117	44	4	20	30	1.71
35068392--35068416	12	2.1	12	100	0	50	48	8	0	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35077535--35077591	24	2.8	18	68	26	51	40	22	14	22	1.90
35084625--35084679	24	2.2	24	83	3	65	52	12	21	12	1.72
35084643--35084690	25	2.0	24	83	4	60	54	12	22	10	1.68
35090511--35090552	2	21.0	2	100	0	84	50	0	0	50	1.00
35092163--35092191	2	14.5	2	100	0	58	51	0	0	48	1.00
35094157--35094206	26	1.9	26	95	0	91	34	10	12	44	1.75
35117317--35117363	22	2.1	22	88	11	69	51	4	14	29	1.62
35130742--35130787	15	3.1	15	90	0	65	56	0	6	36	1.25
35130829--35130868	19	2.1	19	86	9	55	65	2	0	32	1.06
35130937--35130986	20	2.6	19	75	9	57	40	0	0	60	0.97
35132197--35132290	44	2.1	44	96	2	170	40	15	7	36	1.76
35134540--35134680	27	5.2	27	77	5	115	36	17	14	32	1.89
35135798--35135904	53	2.0	53	92	0	178	48	10	21	19	1.78
35140642--35140707	6	10.8	6	93	1	96	56	0	27	16	1.41
35157533--35157559	13	2.1	13	100	0	54	22	7	22	48	1.75
35163187--35163232	14	3.2	15	77	17	53	39	0	0	60	0.97
35163636--35163682	24	1.9	25	86	4	69	31	6	6	55	1.51
35163672--35163733	32	1.9	32	81	12	74	30	1	8	59	1.36
35165780--35165815	12	3.0	12	87	0	54	75	0	8	16	1.04
35165780--35165814	17	2.1	17	89	10	54	77	0	5	17	0.96
35168596--35168737	69	2.1	68	94	1	248	30	24	22	22	1.99
35171374--35171531	19	8.5	19	81	2	153	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35171374--35171529	37	4.2	37	82	1	188	24	21	27	26	1.99
35172235--35172302	21	3.2	21	87	0	91	33	14	23	27	1.94
35176223--35176258	17	2.1	17	94	0	63	50	2	30	16	1.60
35177653--35177747	43	2.2	43	94	0	163	42	16	10	30	1.82
35178418--35178676	134	1.9	134	79	4	290	39	14	15	30	1.86
35178648--35178696	20	2.5	20	77	12	55	46	18	10	24	1.79
35179229--35179364	69	2.0	69	92	0	227	41	23	12	22	1.88
35202552--35202597	25	1.9	25	86	8	69	34	4	6	54	1.46
35202976--35203014	14	2.7	15	80	8	53	25	7	10	56	1.59
35214642--35214681	20	2.0	20	90	0	62	37	22	22	17	1.94
35214735--35214811	33	2.3	33	97	0	145	22	0	32	45	1.53
35215885--35215959	12	6.3	12	78	3	89	69	18	4	8	1.30
35215906--35215963	15	3.5	15	72	20	53	67	17	6	8	1.39
35215911--35215948	20	1.9	20	89	10	60	68	18	5	7	1.34
35215892--35215971	35	2.3	35	91	2	124	67	18	6	7	1.37
35215885--35215988	47	2.2	47	81	5	113	69	18	4	7	1.31
35215974--35216073	35	2.9	32	78	12	94	67	20	7	6	1.36
35216002--35216076	37	2.1	35	92	5	123	66	21	6	5	1.35
35215994--35216088	21	4.9	21	79	17	98	67	22	6	4	1.31
35216001--35216085	19	4.5	19	80	18	97	67	22	5	4	1.32
35216007--35216075	21	3.7	19	83	16	99	69	18	5	5	1.29
35220031--35220093	25	2.5	26	86	5	92	23	17	31	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35227248--35227338	26	3.5	26	89	0	119	24	17	27	30	1.97
35236458--35236508	24	2.1	24	85	0	66	60	3	33	1	1.26
35236618--35236689	17	4.2	17	80	0	72	22	23	9	44	1.82
35236619--35236684	34	1.9	34	87	0	96	22	21	10	45	1.82
35237746--35237803	26	2.2	26	81	6	73	24	15	25	34	1.95
35245943--35245968	3	8.7	3	100	0	52	30	0	0	69	0.89
35246597--35246641	16	2.9	15	87	9	63	71	4	2	22	1.15
35247343--35247398	23	2.5	22	91	5	94	39	10	3	46	1.56
35247367--35247722	141	2.5	145	88	4	526	44	8	3	43	1.52
35248148--35248187	12	3.3	12	85	0	53	55	0	10	35	1.34
35258445--35258487	4	10.8	4	94	0	77	27	0	20	51	1.48
35262921--35262974	21	2.6	21	74	11	65	24	16	11	48	1.79
35265253--35265283	11	2.8	11	100	0	62	35	29	16	19	1.93
35265536--35265589	20	2.7	20	79	0	54	33	7	11	48	1.67
35267330--35267363	2	17.5	2	87	6	52	50	2	0	47	1.16
35270679--35270729	20	2.5	20	80	0	57	31	11	27	29	1.92
35273711--35273779	20	3.5	20	78	4	68	33	13	26	27	1.93
35275510--35275536	14	1.9	14	100	0	54	66	0	33	0	0.92
35277408--35277779	198	1.9	200	84	5	504	30	19	17	32	1.95
35279229--35279377	51	2.9	51	87	1	226	36	14	12	36	1.84
35291293--35291343	18	2.6	21	73	20	56	13	11	11	62	1.54
35291902--35291949	15	3.3	15	86	11	57	75	0	22	2	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35294119--35294230	51	2.2	51	85	0	143	39	12	10	37	1.78
35304615--35304656	13	3.1	13	83	16	50	45	4	0	50	1.23
35305934--35305981	25	2.0	25	87	4	71	45	0	0	54	0.99
35306218--35306290	13	5.3	14	67	12	53	43	1	1	53	1.17
35306220--35306290	29	2.6	26	78	12	72	43	1	1	53	1.18
35306384--35306427	21	2.1	21	83	8	54	50	2	2	45	1.27
35311247--35311331	39	2.2	39	89	0	125	41	18	15	24	1.89
35312124--35312162	19	2.1	19	100	0	78	28	10	25	35	1.89
35312181--35312254	36	2.1	36	92	0	121	28	9	27	35	1.88
35321713--35321757	24	1.9	24	82	13	58	46	2	4	46	1.35

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