genome.fa.s4.2.7.7.80.10.50.1000.32.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  32  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)
10077359--10077388	15	2.0	15	100	0	60	40	0	33	26	1.57
10078990--10079022	16	2.1	16	100	0	66	18	27	6	48	1.71
10085289--10085336	22	2.2	22	92	0	78	54	12	6	27	1.61
10087781--10087850	32	2.3	29	80	11	77	64	4	1	30	1.21
10092445--10092483	17	2.3	17	90	0	60	15	10	25	48	1.76
10094265--10094298	16	2.2	15	89	5	50	76	0	5	17	0.98
10095613--10095848	118	2.0	117	98	0	454	31	16	16	35	1.91
10100556--10100586	2	15.5	2	100	0	62	48	0	0	51	1.00
10104257--10104285	3	9.7	3	100	0	58	68	0	0	31	0.89
10109392--10109592	9	21.1	9	71	14	120	62	0	3	33	1.18
10109375--10109520	18	7.7	18	70	16	91	66	0	3	29	1.13
10109392--10109552	10	16.7	10	73	16	78	63	0	3	32	1.15
10109374--10109589	28	7.6	28	74	12	127	63	0	4	31	1.18
10109392--10109592	19	10.5	19	72	12	119	62	0	3	33	1.18
10109517--10109561	21	2.1	21	84	8	56	62	0	8	28	1.25
10109429--10109592	76	2.1	75	80	11	183	62	0	4	31	1.20
10109756--10109868	19	5.9	19	70	15	83	28	1	1	68	1.10
10109755--10109866	29	3.9	30	75	13	101	28	1	1	67	1.10
10109755--10109921	19	8.8	18	66	20	67	28	2	1	67	1.14
10109756--10109920	10	17.4	10	68	21	72	28	2	1	67	1.14
10110040--10110222	86	2.2	83	83	8	219	33	4	16	44	1.68
10110079--10110255	86	2.1	85	82	7	207	33	3	14	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10112341--10112379	16	2.4	16	83	12	53	41	0	0	58	0.98
10118298--10118335	19	2.0	20	84	5	51	44	5	15	34	1.69
10120183--10120261	24	3.3	24	84	7	90	27	6	24	41	1.79
10120196--10120269	24	3.1	24	88	5	114	28	5	27	39	1.78
10120550--10120583	13	2.5	13	85	4	50	41	0	2	55	1.15
10127940--10128014	29	2.6	29	95	4	134	56	1	1	41	1.16
10132072--10132131	27	2.2	27	82	5	68	20	20	16	43	1.88
10136876--10137210	166	2.0	166	95	0	598	24	14	17	43	1.86
10142932--10142989	21	2.8	21	94	0	98	41	10	27	20	1.85
10147156--10147207	3	17.3	3	100	0	104	65	0	34	0	0.93
10151608--10151642	18	2.0	17	88	5	52	22	0	5	71	1.07
10154146--10154206	29	2.1	29	84	0	77	14	31	0	54	1.41
10154146--10154222	29	2.6	29	81	2	73	14	29	0	55	1.39
10154935--10154980	24	1.9	24	82	8	58	30	4	2	63	1.26
10155896--10155924	2	14.5	2	100	0	58	48	0	0	51	1.00
10163671--10163710	19	2.1	19	95	0	71	25	22	0	52	1.47
10164049--10164103	12	4.7	12	71	10	51	27	23	0	49	1.51
10164820--10164846	14	1.9	14	100	0	54	0	40	0	59	0.98
10165620--10165705	20	4.1	20	75	12	82	68	20	3	6	1.28
10165634--10165705	12	6.3	12	74	9	62	69	22	4	4	1.23
10165638--10165713	12	6.8	11	72	19	59	68	22	3	5	1.27
10165638--10165711	24	3.3	23	78	12	91	68	21	4	5	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10165696--10165798	21	4.9	21	75	11	93	65	20	7	6	1.42
10169289--10169373	37	2.3	37	97	0	161	37	3	15	43	1.64
10170731--10170795	29	2.2	31	83	10	82	52	9	0	38	1.34
10174092--10174122	1	31.0	1	100	0	62	0	0	100	0	0.00
10181702--10181737	17	2.2	17	90	5	56	61	0	2	36	1.11
10189976--10190053	27	3.0	26	83	7	97	65	3	5	25	1.30
10189976--10190044	25	2.6	27	84	6	97	65	4	5	24	1.33
10189977--10190055	25	3.0	25	75	12	70	65	3	5	25	1.30
10192095--10192126	6	5.3	6	100	0	64	65	0	0	34	0.93
10192621--10192773	59	2.6	58	80	3	164	25	15	12	47	1.80
10192957--10193152	93	2.1	90	86	6	270	48	12	15	23	1.79
10193030--10193152	34	3.9	34	73	17	104	50	8	16	24	1.73
10196573--10196647	24	3.1	24	81	7	89	26	20	22	30	1.98
10201684--10201739	18	3.1	18	89	0	85	35	25	16	23	1.94
10203586--10203636	21	2.5	21	93	3	86	31	11	31	25	1.92
10206415--10206457	19	2.3	19	84	8	52	46	13	2	37	1.57
10207857--10207907	19	2.6	21	81	15	72	64	1	7	25	1.31
10208080--10208156	40	2.0	40	84	7	104	44	2	1	51	1.23
10208086--10208166	40	2.0	39	81	9	92	48	2	1	48	1.23
10208279--10208544	90	3.1	85	75	10	216	32	9	17	40	1.81
10214481--10214510	4	7.5	4	100	0	60	23	26	0	50	1.50
10217158--10217192	18	2.0	17	88	5	52	45	8	20	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10227924--10227983	31	2.0	31	87	9	88	45	6	13	35	1.70
10227922--10227995	30	2.5	31	82	8	91	43	9	12	35	1.74
10230697--10230734	17	2.3	17	81	4	51	39	0	0	60	0.97
10230667--10230752	26	3.3	26	74	12	79	41	2	0	55	1.12
10233927--10233951	12	2.1	12	100	0	50	60	0	16	24	1.36
10241590--10241634	16	2.8	16	86	10	56	26	8	13	51	1.70
10242948--10243010	14	4.3	14	70	9	54	63	1	3	31	1.19
10242941--10243006	22	3.0	23	77	6	73	63	1	3	31	1.19
10244965--10244996	11	2.9	11	90	0	55	65	3	0	31	1.08
10246239--10246272	12	2.8	12	95	0	59	38	8	32	20	1.84
10246551--10246592	22	1.9	22	85	9	59	80	0	2	16	0.81
10250901--10251176	143	1.9	144	81	6	328	36	8	22	32	1.84
10251173--10251272	29	3.5	28	78	5	76	43	2	21	34	1.64
10251174--10251362	59	3.2	58	81	5	182	42	2	19	35	1.65
10251228--10251419	30	6.6	28	73	12	102	45	2	15	36	1.58
10251197--10251391	29	6.6	29	79	5	185	41	2	20	36	1.64
10251194--10251391	59	3.4	59	78	8	208	41	2	19	36	1.63
10251392--10251433	17	2.5	17	92	0	66	54	0	2	42	1.13
10252449--10253418	100	9.7	100	91	1	1466	14	26	21	37	1.92
10260382--10260541	59	2.7	58	75	9	144	41	3	22	32	1.69
10260358--10260727	30	12.6	29	72	11	177	40	2	21	35	1.67
10260500--10260727	60	3.9	59	82	9	286	39	1	21	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10260382--10260705	118	2.7	115	78	11	268	41	2	21	34	1.66
10260500--10260727	59	3.9	58	82	7	273	39	1	21	38	1.62
10260503--10260727	30	7.7	29	75	10	215	39	1	21	37	1.62
10261983--10262019	19	1.9	19	88	0	56	43	5	0	51	1.24
10262299--10262360	27	2.4	25	79	12	70	25	12	19	41	1.87
10262724--10262767	17	2.6	17	77	0	52	50	4	0	45	1.22
10266050--10266082	11	3.0	11	90	0	57	63	3	0	33	1.10
10273793--10273826	3	11.3	3	100	0	68	64	0	0	35	0.94
10273943--10274007	22	2.8	23	86	6	78	41	1	1	55	1.18
10273955--10274003	11	4.3	11	79	7	53	42	2	0	55	1.11
10275181--10275212	15	2.1	15	94	0	55	37	3	12	46	1.57
10279317--10279345	14	2.1	14	100	0	58	31	6	6	55	1.53
10285276--10285417	57	2.5	56	86	4	187	41	3	3	51	1.36
10285275--10285427	56	2.7	57	84	4	193	41	3	3	51	1.34
10285594--10285645	16	3.3	15	83	5	50	32	25	1	40	1.67
10288024--10288075	22	2.4	22	80	6	61	9	26	21	42	1.83
10289787--10290231	195	2.3	196	84	1	581	26	25	18	29	1.98
10292753--10292778	5	5.2	5	100	0	52	80	0	0	19	0.71
10293318--10293376	28	2.0	30	90	6	95	55	1	0	42	1.09
10293635--10293711	38	2.0	38	97	0	145	27	22	20	29	1.98
10295477--10295527	20	2.4	21	81	15	61	50	0	1	47	1.12
10295414--10295510	33	2.9	35	73	21	91	47	0	3	49	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10295477--10295529	21	2.5	21	82	14	65	49	0	1	49	1.12
10295429--10295525	33	2.9	32	73	17	83	47	0	2	50	1.12
10295920--10296141	91	2.5	91	89	2	331	46	4	17	31	1.69
10296900--10296954	19	2.8	20	83	5	67	34	30	5	29	1.80
10297265--10297296	8	4.0	8	91	0	55	0	9	15	75	1.05
10298578--10298619	22	2.0	21	86	13	59	59	4	0	35	1.19
10327606--10327786	58	3.1	57	82	5	195	39	13	19	27	1.89
10328371--10328428	30	1.9	30	89	0	89	50	1	0	48	1.11
10329703--10329779	12	7.0	11	69	14	52	66	5	2	25	1.26
10330383--10330426	23	1.9	23	81	9	54	45	11	2	40	1.53

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