genome.fa.s9.2.7.7.80.10.50.1000.22.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  22  of  182  ( 21729 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)
9015352--9015411	2	30.0	2	100	0	120	50	0	0	50	1.00
9022756--9022800	23	2.0	23	86	0	63	60	2	0	37	1.09
9030253--9030336	42	2.0	42	88	0	123	46	19	2	32	1.62
9039328--9039404	32	2.4	34	78	10	88	64	5	3	25	1.31
9043485--9043656	90	1.9	90	83	5	226	45	14	6	32	1.72
9043776--9043812	9	4.3	9	86	13	51	72	0	2	24	0.97
9043839--9043895	22	2.7	22	84	12	75	73	3	1	21	1.07
9043882--9043968	10	9.0	10	71	18	60	62	2	5	29	1.31
9043987--9044023	18	2.1	18	100	0	74	51	5	5	37	1.48
9045673--9045711	17	2.2	18	86	4	53	48	0	5	46	1.24
9046782--9046820	17	2.4	17	87	8	55	61	0	5	33	1.18
9046995--9047039	23	2.0	23	82	8	56	22	2	8	66	1.30
9050534--9050558	3	8.3	3	100	0	50	36	0	32	32	1.58
9058554--9058606	24	2.2	24	86	3	72	43	18	13	24	1.86
9059106--9059139	12	2.8	12	86	0	50	73	11	5	8	1.24
9059131--9059195	29	2.3	27	78	21	78	70	18	3	7	1.24
9059106--9059209	30	3.3	29	77	11	91	71	16	4	7	1.27
9059162--9059249	42	2.1	42	87	8	126	72	13	4	9	1.24
9063935--9063983	17	2.9	17	76	11	55	42	2	2	53	1.24
9064733--9064781	19	2.6	18	78	9	62	59	2	2	36	1.21
9064706--9064773	29	2.3	29	82	9	77	55	1	2	39	1.24
9065473--9065565	29	3.1	29	84	6	98	40	23	5	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9065495--9065632	29	4.8	28	73	14	95	35	26	2	34	1.72
9065543--9065632	28	3.1	28	71	20	87	31	28	1	38	1.64
9065504--9065662	29	5.5	29	71	16	91	33	25	3	37	1.72
9065533--9065662	58	2.2	57	81	10	147	33	26	2	38	1.69
9070290--9070340	20	2.3	24	74	19	56	43	3	3	49	1.39
9080020--9080059	12	3.1	14	79	13	50	42	0	0	57	0.98
9080156--9080236	38	2.1	38	88	4	117	37	2	6	54	1.39
9080968--9081095	44	2.8	44	81	8	141	10	3	19	67	1.34
9081032--9081095	20	3.0	20	75	16	65	9	1	21	67	1.28
9081034--9081079	24	2.0	24	86	4	67	8	2	21	67	1.29
9080968--9081081	12	9.9	12	66	12	53	9	3	19	67	1.34
9088221--9088260	2	20.0	2	100	0	80	0	50	0	50	1.00
9097454--9097492	2	19.5	2	94	0	69	51	0	48	0	1.00
9097591--9097615	11	2.3	11	100	0	50	40	8	0	52	1.31
9111748--9111781	16	2.1	16	88	0	50	29	5	0	64	1.17
9124166--9124198	17	1.9	17	88	11	50	12	3	9	75	1.14
9128706--9128748	2	21.5	2	100	0	86	48	0	0	51	1.00
9133911--9133948	16	2.3	17	86	4	51	52	0	5	42	1.24
9134954--9135055	30	3.1	32	81	13	111	44	1	1	51	1.23
9135109--9135153	16	2.7	17	75	6	56	40	0	0	60	0.97
9144406--9144443	19	2.0	20	84	5	51	36	13	2	47	1.56
9169069--9169098	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9169395--9169432	20	2.0	20	84	5	51	42	2	0	55	1.14
9172669--9172727	32	1.9	29	86	10	82	42	0	3	54	1.17
9172987--9173024	17	2.2	17	90	9	60	71	0	0	28	0.87
9175219--9175302	9	9.2	9	70	17	57	65	0	0	34	0.93
9175243--9175302	20	3.2	19	73	19	54	60	0	0	40	0.97
9175250--9175313	20	3.4	19	74	20	62	53	0	0	46	1.00
9175472--9175522	12	4.2	12	80	5	57	76	0	1	21	0.88
9175611--9175746	10	13.6	10	64	16	50	29	2	4	63	1.29
9175678--9175745	31	2.2	31	86	5	93	33	1	4	60	1.26
9177650--9177675	3	8.7	3	100	0	52	30	34	0	34	1.58
9179617--9179664	6	8.0	6	95	0	87	16	50	2	31	1.57
9188368--9188413	23	2.1	22	84	8	58	39	0	2	58	1.10
9194326--9194359	18	1.9	18	88	5	52	29	0	5	64	1.17
9195910--9195934	3	8.3	3	100	0	50	68	0	32	0	0.90
9197692--9197732	18	2.2	18	86	4	55	46	14	9	29	1.77
9207241--9207279	20	2.0	20	89	0	60	28	7	15	48	1.72
9207440--9207498	25	2.4	23	74	20	57	37	8	8	45	1.65
9216636--9216698	27	2.3	28	75	5	67	39	6	4	49	1.49
9216955--9217017	28	2.3	25	77	17	63	33	1	0	65	1.03
9222294--9222395	51	2.0	52	88	1	152	31	7	6	53	1.56
9225065--9225137	31	2.4	31	81	6	94	42	12	12	32	1.80
9225615--9225643	15	2.0	15	93	6	51	41	0	6	51	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9226950--9227024	3	25.0	3	94	0	87	33	9	0	57	1.31
9227429--9227474	2	23.0	2	100	0	92	50	0	0	50	1.00
9246094--9246156	29	2.2	29	80	11	67	50	6	3	39	1.44
9248408--9248446	17	2.3	17	86	8	53	30	2	2	64	1.21
9251762--9251808	21	2.2	20	82	10	58	57	0	0	42	0.98
9254809--9254857	21	2.4	21	76	10	57	67	0	8	24	1.18
9255315--9255366	25	2.1	25	82	7	61	30	11	3	53	1.54
9256064--9256108	19	2.3	18	82	14	54	11	13	2	73	1.19
9260909--9260950	16	2.7	16	77	3	50	30	9	2	57	1.44
9260995--9261028	13	2.7	13	90	4	52	38	2	0	58	1.13
9272463--9272500	20	1.9	20	84	10	51	63	2	2	31	1.22
9274417--9274455	6	6.5	6	84	0	51	0	46	17	35	1.49
9274417--9274455	12	3.2	12	92	0	60	0	46	17	35	1.49
9275861--9275892	2	16.0	2	100	0	64	50	0	0	50	1.00
9282618--9282642	5	5.0	5	100	0	50	0	20	0	80	0.72
9294287--9294373	37	2.4	36	78	16	97	32	0	2	65	1.05
9294319--9294363	18	2.5	17	82	7	54	31	0	2	66	1.04
9294310--9294371	19	3.2	20	78	21	78	30	0	1	67	1.00
9294819--9294927	9	11.9	9	70	12	71	60	1	4	33	1.28
9294877--9294938	27	2.4	25	86	10	88	64	0	4	30	1.14
9295383--9295434	21	2.5	22	84	9	74	44	0	0	55	0.99
9311885--9311911	6	4.5	6	100	0	54	14	18	14	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9317332--9317356	6	4.2	6	100	0	50	32	0	0	68	0.90
9319315--9319347	16	2.0	17	94	5	59	45	0	0	54	0.99
9341145--9341576	217	2.0	218	88	2	645	31	13	10	44	1.77
9348984--9349037	20	2.7	19	80	5	63	50	1	3	44	1.30
9358197--9358260	25	2.5	26	92	5	103	48	0	3	48	1.17
9358437--9358486	16	3.2	16	71	21	52	60	6	0	34	1.21
9358519--9358611	30	3.1	30	69	9	91	36	5	11	46	1.64
9362826--9362865	2	20.0	2	100	0	80	50	0	0	50	1.00
9388545--9388615	26	2.7	26	95	0	124	16	12	8	61	1.54
9392466--9392506	17	2.5	17	92	4	66	31	0	12	56	1.36
9405101--9405144	2	22.0	2	100	0	88	50	0	0	50	1.00
9405313--9405383	32	2.2	32	83	13	94	52	2	2	42	1.31
9410703--9410749	15	3.2	15	87	3	51	55	2	10	31	1.46
9410709--9410749	15	2.7	15	92	0	64	51	2	9	36	1.48
9425321--9425367	3	15.7	3	100	0	94	65	0	0	34	0.93
9426467--9426680	23	9.5	23	73	14	160	42	21	24	12	1.87
9426468--9426680	48	4.8	44	76	13	168	41	21	24	12	1.87
9426521--9426595	39	1.9	39	91	0	123	44	21	22	12	1.85
9432969--9433134	23	7.4	23	74	14	150	42	21	22	12	1.87
9432975--9433049	39	1.9	39	91	0	123	44	21	22	12	1.85
9433014--9433134	48	2.6	46	87	7	172	40	22	23	13	1.89
9439259--9439304	16	2.9	16	81	9	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9439647--9439702	22	2.5	22	82	5	69	26	3	0	69	1.04
9439684--9439709	7	3.7	7	100	0	52	15	0	0	84	0.62
9440167--9440202	14	2.7	13	87	8	54	61	0	5	33	1.19
9440551--9440594	23	2.0	22	82	8	54	34	0	4	61	1.16
9443410--9443435	3	8.7	3	100	0	52	34	0	65	0	0.93
9457504--9457572	31	2.2	31	97	0	129	28	17	15	37	1.91
9459417--9459450	14	2.4	15	90	9	54	70	0	11	17	1.16
9466051--9466136	41	2.1	41	97	0	163	40	11	17	30	1.85
9475277--9475333	25	2.1	27	81	9	64	43	10	3	42	1.56
9475470--9475513	2	22.0	2	100	0	88	50	0	50	0	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   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