genome.fa.s1.2.7.7.80.10.50.1000.12.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  12  of  126  ( 15035 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)
4052377--4052513	30	4.7	28	75	13	116	29	22	3	43	1.70
4052377--4052769	59	6.8	58	75	14	232	33	22	4	39	1.74
4052579--4052861	59	4.8	59	77	10	235	36	24	3	34	1.74
4052666--4052886	59	3.8	57	83	6	255	36	23	4	35	1.75
4052579--4052866	29	9.9	28	72	13	129	36	25	4	34	1.75
4054385--4054427	19	2.3	19	84	8	52	58	4	0	37	1.19
4066243--4066617	59	6.4	59	89	3	531	33	2	31	32	1.73
4066239--4066614	177	2.1	176	90	1	592	32	3	31	32	1.74
4066949--4067028	33	2.4	34	81	10	85	60	10	12	17	1.59
4073200--4073511	59	5.3	58	81	8	262	34	7	29	28	1.84
4073242--4073587	30	11.7	30	66	17	147	35	5	27	31	1.80
4073235--4073511	119	2.3	118	88	1	403	34	6	29	29	1.82
4073235--4073520	59	4.9	59	88	1	405	34	6	28	30	1.82
4073235--4073550	119	2.7	116	83	6	386	34	6	28	31	1.81
4073500--4073610	30	3.7	31	84	5	140	32	3	25	38	1.73
4074868--4074972	6	17.0	6	72	15	72	45	2	0	50	1.22
4074905--4074967	31	2.0	31	87	0	90	50	3	0	46	1.17
4074907--4074983	17	4.4	17	73	15	59	51	3	0	44	1.19
4075614--4075668	2	27.5	2	100	0	110	49	0	0	50	1.00
4085544--4085578	18	2.0	17	88	5	52	71	2	8	17	1.23
4085544--4085580	19	2.0	18	89	5	56	70	2	8	18	1.25
4086351--4086409	31	1.9	31	96	0	109	27	23	10	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086351--4086422	31	2.3	31	88	4	92	26	19	12	41	1.87
4086679--4086822	60	2.5	59	83	6	161	49	14	13	22	1.78
4086655--4086822	59	2.9	59	81	7	166	50	14	13	22	1.77
4092310--4094983	470	5.7	468	90	2	3812	29	15	18	36	1.92
4092310--4094983	941	2.9	935	88	3	3916	29	15	18	36	1.92
4095575--4095646	35	2.1	35	89	0	108	38	8	12	40	1.73
4097990--4098128	40	3.5	40	85	2	179	31	21	32	14	1.93
4098156--4098252	40	2.4	41	84	1	124	28	16	35	19	1.94
4099061--4099110	20	2.5	21	80	9	59	6	26	10	58	1.54
4102195--4102325	43	3.1	42	86	4	183	24	16	29	29	1.97
4110501--4110723	69	3.2	68	95	1	383	29	22	17	30	1.97
4113136--4113160	11	2.3	11	100	0	50	40	16	0	44	1.47
4115504--4115542	20	2.0	20	85	5	53	5	12	7	74	1.20
4118039--4118261	69	3.2	68	95	1	383	29	22	17	30	1.97
4127739--4127784	16	2.9	16	87	9	67	8	13	2	76	1.11
4127740--4127785	8	5.8	8	76	19	51	8	13	2	76	1.11
4128686--4128760	37	2.0	37	97	0	141	29	16	12	42	1.83
4129419--4129457	20	2.0	20	85	5	53	5	12	7	74	1.20
4131974--4132127	69	2.2	69	94	0	263	29	22	17	31	1.96
4137538--4137700	75	2.2	75	79	6	195	30	17	16	34	1.93
4138910--4138968	31	1.9	31	96	0	109	27	23	10	38	1.87
4138910--4138981	31	2.3	31	88	4	92	26	19	12	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4139238--4139382	60	2.5	59	82	6	154	48	13	13	23	1.78
4139216--4139382	59	2.9	59	80	8	157	49	13	13	22	1.78
4140850--4141070	101	2.2	101	94	0	388	33	13	25	28	1.94
4143335--4143487	51	3.1	48	74	14	132	42	3	3	50	1.34
4143381--4143421	21	2.0	19	86	13	55	41	0	0	58	0.98
4143333--4143443	49	2.1	49	77	12	116	41	0	2	54	1.20
4143562--4143620	31	2.0	30	86	6	84	47	10	5	37	1.59
4143567--4143630	29	2.1	30	85	5	85	51	7	4	35	1.52
4148478--4151154	451	5.9	453	89	2	3979	29	17	17	35	1.92
4148482--4151154	908	3.0	901	89	3	4010	30	17	17	35	1.92
4157300--4157340	18	2.3	18	83	8	57	48	0	2	48	1.14
4158796--4158827	3	10.7	3	100	0	64	65	0	34	0	0.93
4163570--4163794	111	2.0	111	93	1	380	45	8	2	43	1.49
4163742--4163801	24	2.5	26	78	15	74	48	1	1	48	1.21
4169764--4170782	458	2.2	447	84	7	1017	30	16	15	36	1.90
4171715--4174376	467	5.7	465	86	4	3526	30	16	17	36	1.92
4175580--4175866	29	9.8	29	70	19	186	33	4	30	31	1.79
4175580--4175887	59	5.2	59	85	3	397	33	4	30	31	1.79
4175794--4176096	30	10.2	30	87	4	409	33	3	27	35	1.73
4175582--4176067	59	8.2	59	84	6	347	34	4	28	33	1.77
4175581--4176014	118	3.7	117	82	8	429	34	4	28	33	1.77
4176200--4176511	163	1.9	161	84	5	414	43	13	17	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4177350--4177379	12	2.5	12	88	0	51	40	0	3	56	1.16
4177853--4177912	20	3.0	20	90	2	93	20	15	45	20	1.86
4177957--4177997	12	3.2	13	80	13	57	14	19	29	36	1.92
4178031--4178137	48	2.2	48	81	6	119	48	1	0	48	1.18
4178060--4178122	31	2.0	31	87	0	90	50	3	0	46	1.17
4178030--4178137	6	18.0	6	75	14	89	48	1	0	49	1.18
4178033--4178128	42	2.2	43	80	15	110	47	2	1	48	1.20
4178514--4178615	39	2.6	39	90	3	152	25	20	22	31	1.98
4178579--4179045	69	6.8	69	96	0	846	29	20	15	33	1.94
4178725--4179145	100	4.1	100	77	12	487	29	20	15	33	1.94
4178579--4179214	169	3.7	168	78	12	598	30	20	15	33	1.94
4179033--4179264	69	3.4	69	96	0	437	31	20	15	32	1.94
4178579--4179117	138	3.9	138	88	7	640	30	20	15	33	1.94
4178785--4179302	238	2.1	242	92	2	900	29	20	16	33	1.95
4183382--4183499	31	3.9	30	79	9	100	48	2	0	48	1.21
4183383--4183489	48	2.2	48	81	6	119	48	1	0	48	1.18
4183382--4183489	6	18.0	6	75	14	89	48	1	0	49	1.18
4183385--4183480	42	2.2	43	80	15	110	47	2	1	48	1.20
4184604--4184672	35	2.0	35	97	0	129	40	10	10	39	1.73
4186982--4187073	40	2.3	40	84	5	114	30	22	30	16	1.96
4186998--4187143	40	3.6	40	83	4	186	32	20	32	13	1.92
4187053--4187239	96	1.9	96	93	0	320	30	18	36	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4187152--4187311	41	3.9	41	81	3	198	30	19	34	15	1.93
4187151--4187311	81	2.0	81	86	2	225	30	19	34	16	1.93
4187446--4187497	19	2.7	19	100	0	104	17	44	0	38	1.49
4188136--4188185	20	2.5	21	80	9	59	6	26	10	58	1.54
4191269--4191398	42	3.1	41	86	4	179	24	17	29	28	1.97
4195042--4195091	25	2.0	25	88	4	73	70	2	8	20	1.23
4195383--4195451	2	35.0	2	95	2	122	50	1	0	47	1.09
4198422--4198644	69	3.2	68	94	1	365	28	22	17	30	1.97
4202221--4202257	13	2.8	13	91	4	56	27	0	0	72	0.84
4202221--4202251	14	2.2	14	100	0	62	19	0	0	80	0.71
4202206--4202257	13	3.9	13	78	11	52	28	0	1	69	0.99
4202206--4202262	14	4.0	14	79	6	53	29	0	1	68	1.00
4202829--4202873	14	3.3	14	84	3	65	48	20	0	31	1.49
4202829--4202884	21	2.7	20	83	8	60	44	21	0	33	1.52
4202844--4202880	14	2.7	14	80	19	51	48	21	0	29	1.50
4204077--4205036	477	2.0	474	91	1	1564	38	9	12	38	1.76
4212487--4212532	16	2.9	16	87	9	67	8	13	2	76	1.11
4212488--4212533	8	5.8	8	76	19	51	8	13	2	76	1.11
4213433--4213507	37	2.0	37	94	0	132	29	14	12	44	1.81
4214166--4214204	20	2.0	20	85	5	53	5	12	7	74	1.20
4216721--4216874	69	2.2	69	92	0	254	29	22	16	31	1.96
4222934--4223096	75	2.2	75	79	6	195	30	17	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250098--4250200	6	16.8	6	74	15	77	49	0	2	46	1.23
4250116--4250200	13	6.8	12	74	11	64	52	1	2	43	1.21
4250103--4250165	31	2.0	31	87	0	90	46	0	3	50	1.17
4250102--4250164	11	5.8	11	71	16	51	46	0	3	50	1.17
4250115--4250200	37	2.3	37	82	9	95	52	1	2	44	1.21
4251415--4251465	27	1.9	26	88	4	75	13	25	52	7	1.67
4252015--4252521	30	16.9	30	90	3	743	38	22	3	35	1.70
4252015--4252527	90	5.7	90	95	0	837	38	22	3	35	1.70
4252533--4252628	30	3.2	30	72	8	97	31	29	5	34	1.79
4252536--4252670	59	2.3	58	83	5	164	26	30	8	34	1.87

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