genome.fa.s3.2.7.7.80.10.50.1000.25.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  25  of  171  ( 20472 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)
11555948--11555984	16	2.2	18	85	9	51	59	8	0	32	1.27
11569246--11569296	21	2.4	21	86	0	75	31	5	9	52	1.58
11577690--11577725	4	9.0	4	93	0	63	47	27	0	25	1.52
11584661--11584731	32	2.2	32	92	0	115	38	5	23	32	1.78
11588694--11588768	31	2.5	30	81	12	91	46	21	9	22	1.79
11589764--11589793	15	2.0	15	100	0	60	20	0	40	40	1.52
11598259--11598319	30	2.0	30	96	0	113	24	16	14	44	1.85
11599899--11599986	40	2.2	41	91	2	142	32	12	13	40	1.82
11600609--11600657	23	2.1	23	100	0	98	48	18	12	20	1.79
11604465--11604499	3	11.7	3	100	0	70	34	0	34	31	1.58
11605608--11605644	19	2.0	18	89	5	56	2	21	8	67	1.29
11606688--11606724	17	2.2	17	90	0	56	27	0	0	72	0.84
11607508--11607572	27	2.4	28	75	12	73	44	4	3	47	1.39
11614613--11614644	4	8.0	4	100	0	64	25	0	0	75	0.81
11623726--11623805	31	2.6	31	82	7	99	27	17	12	42	1.85
11624024--11624196	60	2.9	60	77	4	181	49	9	16	24	1.76
11627906--11627956	15	3.3	15	83	2	57	33	29	7	29	1.85
11629636--11629748	58	2.0	56	81	11	131	53	10	4	31	1.55
11629703--11629765	25	2.6	24	75	22	60	60	7	1	30	1.35
11639333--11639378	16	2.9	17	78	15	55	67	0	0	32	0.91
11639341--11639384	15	2.9	16	83	6	56	65	0	0	34	0.93
11644606--11644657	18	2.8	18	85	11	61	61	1	1	34	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11651467--11651497	3	10.7	3	93	6	55	0	29	0	70	0.87
11651748--11651782	18	1.9	18	88	0	52	34	8	11	45	1.71
11652515--11652552	14	2.9	13	84	7	51	39	5	0	55	1.23
11652517--11652552	13	2.8	12	88	12	54	38	5	0	55	1.23
11654027--11654056	12	2.5	12	100	0	60	13	30	0	56	1.37
11655432--11655649	23	9.7	23	73	14	159	41	22	24	11	1.86
11655433--11655648	48	4.8	44	75	14	165	41	21	25	11	1.87
11655486--11655560	39	1.9	39	91	0	123	44	21	22	12	1.85
11658250--11658688	60	7.3	60	89	5	515	26	20	18	34	1.96
11658292--11658688	180	2.2	184	88	5	587	28	19	18	33	1.95
11659556--11659647	30	3.1	30	84	6	98	61	5	6	26	1.42
11660505--11660618	59	1.9	60	91	7	189	35	18	21	23	1.95
11661111--11661155	11	3.9	11	77	11	54	57	4	0	37	1.19
11662117--11662229	56	2.0	56	92	0	190	27	22	1	48	1.60
11662942--11663000	9	6.3	9	72	20	50	69	1	1	27	1.07
11662942--11663000	18	3.2	17	80	17	64	69	1	1	27	1.07
11662575--11663114	187	2.9	187	87	4	784	52	15	7	24	1.67
11666361--11667595	7	181.1	7	89	8	1434	0	14	33	51	1.43
11667769--11668070	7	43.1	7	71	7	168	13	5	34	46	1.66
11667657--11667963	21	14.6	21	68	2	123	13	9	36	41	1.77
11666363--11667965	14	116.7	14	87	6	1261	3	13	33	49	1.58
11667802--11668070	28	9.9	28	78	8	214	14	4	32	48	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11667987--11668031	22	2.0	22	91	0	72	20	4	28	46	1.69
11668115--11668194	34	2.3	35	89	4	117	16	2	20	61	1.46
11668129--11668211	36	2.4	34	85	4	103	15	4	20	59	1.55
11668182--11668285	42	2.5	42	88	1	145	18	6	23	51	1.69
11668227--11668321	49	1.9	49	86	0	136	16	5	25	52	1.65
11668359--11668417	13	4.3	14	72	8	50	15	5	28	50	1.65
11668395--11668422	13	2.2	13	100	0	56	21	7	14	57	1.61
11668400--11668460	13	4.8	12	78	11	50	18	3	21	57	1.54
11668400--11668460	26	2.3	26	82	0	77	18	3	21	57	1.54
11668413--11668457	13	3.5	13	82	11	56	17	2	22	57	1.50
11673315--11673354	21	1.9	21	90	10	64	25	10	7	57	1.57
11673661--11673691	12	2.7	11	90	9	53	29	0	0	70	0.87
11673659--11673692	17	2.0	17	88	11	52	29	0	0	70	0.87
11674828--11674857	15	1.9	16	93	6	53	60	16	13	10	1.59
11677074--11677106	6	5.5	6	92	0	57	48	0	30	21	1.50
11678435--11678474	17	2.4	17	91	0	62	55	2	0	42	1.13
11682931--11682978	22	2.2	22	85	7	62	25	4	10	60	1.47
11683519--11683603	29	2.7	31	75	15	77	52	4	1	41	1.30
11697540--11697572	3	11.0	3	93	0	57	30	0	0	69	0.88
11698988--11699041	24	2.2	24	86	0	72	35	1	3	59	1.26
11712964--11713000	2	18.5	2	100	0	74	0	51	0	48	1.00
11736139--11736170	11	2.9	11	95	0	55	28	21	9	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11739352--11739382	2	15.5	2	100	0	62	48	0	0	51	1.00
11743571--11743600	15	2.0	15	93	0	51	30	13	10	46	1.75
11744260--11744302	19	2.3	19	84	8	52	58	4	0	37	1.19
11747433--11747474	21	2.0	21	81	9	50	33	4	21	40	1.74
11757276--11757311	2	18.0	2	100	0	72	50	0	0	50	1.00
11758028--11758181	70	2.2	70	89	2	238	22	17	31	29	1.96
11758495--11758540	23	2.0	23	100	0	92	34	17	4	43	1.69
11759614--11759660	17	2.9	17	75	18	55	63	0	0	36	0.94
11763130--11763209	36	2.2	36	82	4	90	3	7	51	37	1.48
11763140--11763216	24	3.2	23	78	7	73	5	7	49	37	1.54
11763155--11763223	36	1.9	36	87	0	102	8	5	49	36	1.58
11763202--11763290	24	3.7	23	76	7	88	10	10	50	29	1.68
11763200--11763336	48	2.9	48	81	2	150	9	11	48	29	1.71
11763389--11763432	18	2.4	18	84	0	52	15	0	61	22	1.34
11770707--11770750	23	1.9	23	90	0	70	22	2	27	47	1.63
11770722--11770783	29	2.1	30	87	3	90	17	1	33	46	1.58
11770785--11770825	13	3.0	14	80	16	50	19	0	24	56	1.42
11770789--11770835	15	3.2	15	76	14	53	17	0	23	59	1.37
11779196--11779226	14	2.2	14	94	0	53	48	0	0	51	1.00
11785442--11785483	21	2.0	21	85	4	57	45	2	0	52	1.13
11785589--11785646	30	1.9	31	85	3	82	60	0	3	36	1.14
11789205--11789303	38	2.5	41	74	9	107	31	28	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11790168--11790226	11	4.9	12	76	13	50	52	1	0	45	1.10
11792991--11793025	16	2.1	17	89	5	54	37	0	2	60	1.12
11804902--11805040	50	2.8	50	95	0	242	26	15	17	40	1.89
11809874--11809932	23	2.6	23	81	7	75	13	22	27	37	1.91
11825829--11825897	36	2.0	33	91	2	93	33	8	7	50	1.61
11828399--11828451	9	5.4	10	78	10	56	20	3	1	73	1.08
11828753--11828809	20	2.6	23	76	21	59	50	0	3	45	1.18
11828839--11828904	29	2.2	30	79	15	75	36	6	7	50	1.56
11829054--11829126	29	2.4	29	86	9	92	49	6	1	42	1.38
11829248--11829576	176	1.9	172	85	6	448	16	33	16	33	1.92
11832700--11832742	6	7.2	6	100	0	86	16	16	0	67	1.24
11837040--11837073	7	4.9	7	100	0	68	29	0	29	41	1.57
11845636--11845683	14	3.3	14	79	5	51	54	0	2	43	1.12
11849293--11849392	15	5.9	16	73	17	78	50	3	2	45	1.28
11849289--11849388	52	1.9	52	86	9	143	48	3	2	47	1.28
11852261--11852341	27	3.0	27	81	0	81	19	32	27	20	1.97
11852581--11852669	28	3.3	28	73	17	89	59	3	2	34	1.26
11853661--11853690	15	2.1	14	93	6	51	70	0	0	30	0.88
11856665--11856722	28	2.1	28	83	6	73	32	1	15	50	1.55
11856714--11856763	26	1.9	26	87	0	73	30	0	12	58	1.34
11857290--11857315	6	4.3	6	100	0	52	15	30	38	15	1.88
11859529--11859562	15	2.3	15	89	0	50	55	0	5	38	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11859564--11859593	7	4.4	7	95	4	53	73	0	0	26	0.84
11860305--11860338	17	2.0	17	94	0	59	52	2	0	44	1.16
11867000--11867027	7	4.0	7	100	0	56	28	14	28	28	1.95
11876778--11876813	7	5.3	7	96	3	65	44	11	30	13	1.79
11878893--11878931	17	2.3	17	86	8	53	79	12	2	5	1.00
11879244--11879293	24	2.0	26	88	11	79	48	22	26	4	1.68
11882375--11882556	90	2.0	90	94	0	319	41	17	16	25	1.89
11882924--11882964	4	10.2	4	100	0	82	51	24	0	24	1.49
11885121--11885155	6	5.8	6	90	10	54	85	2	11	0	0.69
11904728--11904764	16	2.3	16	86	13	58	59	0	0	40	0.97

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