genome.fa.s4.2.7.7.80.10.50.1000.168.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  168  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)
52306416--52306474	31	1.9	31	92	0	100	55	1	1	40	1.20
52306423--52306484	11	5.8	11	76	14	58	56	3	1	38	1.25
52307126--52307311	51	3.6	51	91	2	284	32	13	24	29	1.93
52310554--52310847	52	5.7	52	90	2	468	31	13	23	30	1.94
52310554--52310847	103	2.8	103	91	1	473	31	13	23	30	1.94
52312507--52312537	15	2.1	15	93	0	53	61	0	0	38	0.96
52313206--52313271	13	5.1	13	73	10	55	37	25	4	31	1.76
52314378--52314440	31	2.1	31	90	3	101	36	9	12	41	1.76
52315175--52315208	10	3.4	10	83	0	50	50	14	0	35	1.44
52346789--52347050	108	2.4	107	86	3	350	38	17	14	29	1.89
52347303--52347439	71	1.9	71	92	2	231	33	23	6	36	1.81
52348540--52348593	25	2.1	27	82	6	67	29	7	5	57	1.49
52350416--52350640	30	7.5	30	87	0	306	34	4	26	35	1.75
52352173--52352203	16	1.9	16	93	0	53	12	6	58	22	1.58
52352451--52352492	6	7.2	6	83	5	50	45	0	2	52	1.13
52362647--52362688	21	2.0	21	86	13	61	33	0	0	66	0.92
52362990--52363159	85	2.0	85	97	0	322	40	11	21	26	1.87
52364556--52364836	153	1.8	153	83	5	370	36	22	15	25	1.94
52371258--52371347	31	2.8	31	80	8	83	44	12	4	38	1.62
52379892--52379922	8	3.9	8	91	0	53	22	0	0	77	0.77
52380828--52380861	3	11.3	3	100	0	68	32	0	0	67	0.91
52381245--52381341	41	2.4	40	76	8	106	29	18	30	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52384666--52384764	43	2.3	43	84	3	119	23	16	27	33	1.95
52387323--52387371	22	2.2	23	79	17	59	34	2	8	55	1.41
52390955--52390997	22	1.9	23	90	4	70	44	11	2	41	1.53
52410438--52410470	11	3.1	11	86	8	50	33	0	3	63	1.10
52419907--52420127	108	2.0	108	99	0	433	54	19	12	14	1.71
52419907--52420071	52	3.1	52	62	19	122	52	20	12	14	1.73
52430484--52430938	127	3.6	127	96	0	797	30	10	20	38	1.86
52430943--52432405	366	4.0	366	90	2	2279	26	17	26	29	1.97
52430943--52432405	735	2.0	735	91	1	2382	26	17	26	29	1.97
52442370--52442456	26	3.1	26	78	15	86	65	1	0	33	1.00
52442372--52442424	17	3.3	15	77	15	52	67	0	0	32	0.91
52442387--52442433	16	2.9	17	81	9	62	68	0	0	31	0.90
52442398--52442460	33	2.0	31	81	12	74	63	1	0	34	1.04
52442391--52442456	31	2.2	30	80	19	77	66	1	0	31	1.01
52443490--52443540	26	2.0	26	84	0	66	29	27	3	39	1.74
52444282--52444337	9	6.1	9	82	12	60	26	0	3	69	1.04
52444289--52444371	18	4.6	18	78	8	73	30	0	2	67	1.03
52444282--52444340	27	2.3	26	85	5	84	27	0	3	69	1.04
52444282--52444367	28	3.1	27	82	9	95	31	0	2	66	1.04
52446336--52446391	24	2.3	25	78	12	62	48	3	5	42	1.43
52446909--52446957	20	2.5	20	87	12	66	53	16	0	30	1.43
52447354--52447461	31	3.6	30	88	7	173	52	1	13	31	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52452150--52452212	11	5.5	11	79	5	72	41	4	1	52	1.32
52452160--52452228	17	4.1	16	80	12	68	43	2	2	50	1.32
52452157--52452211	6	9.7	6	75	11	53	43	3	1	50	1.30
52452409--52452448	20	2.0	21	90	5	64	20	45	17	17	1.86
52452961--52453000	15	2.5	15	88	8	53	57	2	0	40	1.12
52452982--52453023	22	1.9	22	90	0	66	57	2	7	33	1.39
52454159--52454316	30	5.3	30	86	3	205	38	24	2	34	1.69
52454159--52454315	59	2.7	58	83	10	210	38	24	2	34	1.69
52454159--52454327	29	5.7	29	81	6	178	38	24	2	34	1.68
52454292--52454488	59	3.4	58	78	6	193	32	28	4	34	1.76
52454360--52454454	29	3.3	28	73	11	93	30	28	5	35	1.79
52454333--52454483	30	5.1	29	70	13	103	31	27	4	35	1.78
52456963--52457018	21	2.4	24	82	17	73	30	0	0	69	0.89
52456973--52457025	21	2.5	21	78	6	63	33	0	0	66	0.92
52462025--52462063	15	2.4	16	87	8	53	35	0	0	64	0.94
52467418--52467447	16	1.9	15	93	6	51	66	0	26	6	1.16
52473338--52473362	13	1.9	13	100	0	50	48	8	8	36	1.62
52474194--52474419	59	3.9	60	80	9	245	37	4	26	31	1.76
52474285--52474378	29	3.1	30	72	20	88	43	6	21	28	1.77
52474119--52474432	30	10.7	29	68	20	113	36	3	27	32	1.75
52488670--52488736	32	2.1	32	82	0	80	38	4	1	55	1.29
52494846--52494872	7	3.9	7	100	0	54	44	29	0	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52497942--52497967	12	2.2	12	100	0	52	38	7	7	46	1.61
52499867--52499909	17	2.5	17	81	11	52	44	6	0	48	1.29
52504341--52504395	29	2.0	27	89	7	83	54	10	20	14	1.69
52504743--52504794	7	7.4	7	82	0	59	17	0	11	71	1.15
52505696--52505734	20	1.9	19	85	10	51	48	5	5	41	1.47
52518074--52518526	153	3.0	152	90	0	694	29	14	30	25	1.95
52519079--52519288	36	5.8	36	81	0	204	40	21	18	20	1.92
52519079--52519289	72	2.9	72	78	2	226	39	21	18	19	1.92
52521387--52521592	42	5.0	42	86	1	265	31	21	26	20	1.98
52522768--52522839	30	2.4	30	88	0	99	33	9	1	55	1.41
52522791--52522839	16	3.2	16	71	11	57	34	8	0	57	1.29
52523356--52523400	21	2.2	21	84	4	56	55	4	6	33	1.46
52529424--52529456	2	16.5	2	100	0	66	48	0	0	51	1.00
52535368--52535406	15	2.6	15	95	0	69	51	0	10	38	1.36
52562283--52562339	23	2.4	24	85	2	71	29	12	12	45	1.78
52564777--52564814	19	2.0	20	89	5	60	47	0	0	52	1.00
52564781--52564815	18	2.0	18	88	5	54	48	0	0	51	1.00
52564779--52564820	19	2.2	19	83	8	50	47	0	0	52	1.00
52570270--52570315	22	2.0	23	84	12	60	52	8	6	32	1.58
52577255--52577310	25	2.2	25	84	6	69	23	1	5	69	1.18
52577322--52577392	23	3.2	21	80	7	70	38	8	22	30	1.84
52577347--52577392	21	2.1	21	88	4	65	36	8	21	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52577896--52577926	3	10.3	3	100	0	62	32	0	0	67	0.91
52583754--52583809	26	2.2	25	84	9	69	55	1	28	14	1.49
52586561--52586629	34	2.0	34	94	0	120	39	14	8	37	1.77
52586563--52586647	34	2.5	33	85	7	93	38	15	8	37	1.77
52586739--52586768	15	1.9	15	93	6	51	73	0	0	26	0.84
52586738--52586799	30	2.3	26	83	13	72	70	1	0	27	0.96
52589876--52590073	59	3.3	57	76	6	180	36	4	29	29	1.76
52590055--52590344	30	9.7	30	85	3	354	37	3	21	37	1.69
52590028--52590339	89	3.5	89	84	4	335	37	2	22	37	1.68
52592217--52592290	17	4.6	16	81	11	89	56	2	1	39	1.22
52592191--52592290	6	16.8	6	74	13	73	50	2	2	46	1.24
52592216--52592300	31	2.9	31	86	6	97	55	3	1	40	1.25
52592254--52592308	27	2.0	27	89	0	83	54	5	0	40	1.23
52593749--52593902	80	1.9	80	90	0	245	19	20	28	31	1.97
52594578--52594634	25	2.2	27	84	6	82	54	0	1	43	1.10
52594589--52594640	24	2.1	26	82	7	63	53	0	0	46	1.00
52594589--52594641	26	2.0	26	82	7	63	54	0	0	45	0.99
52597841--52597885	22	2.0	22	100	0	90	44	4	28	22	1.72
52601286--52601361	29	2.5	30	80	16	86	32	0	2	64	1.07
52601298--52601342	21	2.1	21	88	8	65	35	0	0	64	0.94
52605742--52605838	49	2.0	49	95	0	176	43	25	9	21	1.82
52606173--52606227	25	2.2	25	83	6	67	65	9	3	21	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52606732--52606771	20	2.0	21	95	5	73	57	12	0	30	1.36
52606807--52606845	20	2.0	20	89	0	60	66	0	2	30	1.05
52608016--52608094	32	2.5	30	75	13	79	54	10	8	26	1.63
52607974--52608130	31	5.0	31	72	13	108	46	12	9	31	1.73
52617229--52617286	11	5.1	11	72	6	53	25	3	3	67	1.22
52619779--52619803	6	4.2	6	100	0	50	16	16	52	16	1.76
52622537--52622569	2	16.5	2	100	0	66	48	0	0	51	1.00
52623164--52623231	31	2.2	31	86	5	93	32	0	1	66	1.01
52623430--52623483	21	2.5	22	84	6	74	57	0	5	37	1.22
52624882--52625078	23	8.5	23	76	11	152	44	20	22	12	1.85

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