genome.fa.s1.2.7.7.80.10.50.1000.56.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  56  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)
16447923--16448067	58	2.5	58	87	5	204	45	0	1	52	1.14
16448216--16448271	16	3.4	17	85	9	71	32	28	0	39	1.57
16452260--16452342	41	2.0	41	95	0	148	15	25	27	31	1.96
16455190--16455296	42	2.5	42	79	5	119	6	11	18	63	1.48
16464554--16464845	158	1.8	158	83	2	381	29	23	22	25	1.99
16473373--16473440	20	3.3	20	69	18	68	55	5	4	33	1.44
16474278--16474592	93	3.4	91	72	6	258	27	25	15	31	1.96
16474232--16474825	186	3.2	186	78	8	606	27	25	16	31	1.96
16474333--16474818	180	2.7	182	80	7	502	27	25	16	30	1.97
16474371--16474832	93	5.0	94	67	12	271	26	25	16	30	1.97
16487795--16487959	39	4.2	39	89	6	212	38	9	27	25	1.86
16487809--16487945	39	3.5	39	93	2	231	38	8	27	25	1.84
16487798--16487945	77	1.9	77	91	5	246	37	9	26	26	1.87
16487772--16487959	79	2.4	79	84	9	258	38	8	26	26	1.85
16493098--16493136	21	1.9	20	89	5	60	35	20	10	33	1.86
16494487--16494548	30	2.1	30	90	0	97	38	30	3	27	1.72
16504182--16504525	55	6.3	55	86	4	435	32	15	18	33	1.92
16504182--16504493	167	1.9	169	89	1	493	31	14	19	34	1.92
16505554--16505602	16	3.1	16	91	2	73	44	2	22	30	1.64
16505560--16505609	16	3.1	16	94	0	82	42	4	24	30	1.73
16507329--16507477	50	3.0	50	86	2	192	35	18	22	22	1.96
16507623--16507752	39	3.3	39	77	10	147	33	30	14	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16508532--16508572	19	2.2	19	86	0	55	24	2	0	73	0.96
16508573--16508631	17	3.0	20	76	18	70	71	3	1	23	1.11
16509737--16509909	30	5.9	30	78	8	160	34	22	6	36	1.80
16510806--16510835	12	2.5	12	94	0	51	56	0	10	33	1.32
16511053--16511086	3	11.0	3	93	6	59	67	0	0	32	0.91
16511249--16511335	17	5.1	17	83	2	111	36	1	4	57	1.27
16511244--16511336	6	15.8	6	70	11	50	37	1	4	56	1.26
16511249--16511335	35	2.5	34	87	3	129	36	1	4	57	1.27
16511848--16511892	11	4.3	11	76	21	51	35	2	2	60	1.22
16512940--16513042	30	3.4	30	89	2	136	37	25	0	35	1.63
16513028--16513091	29	2.2	30	86	8	87	39	23	4	32	1.75
16513030--16513101	30	2.5	29	76	17	78	36	22	4	37	1.73
16518416--16518482	6	10.8	6	83	12	73	80	0	17	1	0.79
16518414--16518483	19	3.7	18	84	5	86	80	0	18	1	0.80
16518414--16518497	7	11.7	7	78	18	68	79	1	17	1	0.86
16518416--16518483	31	2.2	31	83	0	91	80	0	17	1	0.78
16518414--16518497	16	5.3	15	72	18	64	79	1	17	1	0.86
16519427--16519921	50	9.9	50	78	6	504	35	17	31	15	1.91
16519443--16519923	149	3.2	151	84	5	570	35	17	32	15	1.91
16520283--16520392	39	2.8	38	75	6	105	25	31	18	24	1.97
16520576--16520744	85	2.0	85	81	2	196	34	16	24	24	1.95
16520405--16521296	208	4.3	207	83	2	995	36	17	22	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16521214--16521371	80	2.0	80	82	0	190	35	17	24	22	1.95
16521715--16521776	17	3.6	17	82	2	79	37	1	4	56	1.30
16523301--16523508	30	7.0	30	79	12	196	35	23	1	38	1.66
16523320--16523508	60	3.2	59	82	7	242	37	22	1	39	1.64
16523302--16523508	90	2.3	89	85	6	269	35	23	1	39	1.64
16523348--16523589	59	4.1	58	78	9	179	38	24	2	35	1.67
16523406--16523628	30	7.5	30	76	12	122	36	24	3	35	1.73
16523495--16523599	29	3.6	30	75	8	108	37	24	2	35	1.71
16523348--16523619	89	3.1	90	81	9	258	37	24	2	35	1.71
16523507--16523687	59	3.1	58	82	6	188	34	26	4	34	1.78
16523537--16523721	29	6.3	29	72	5	129	32	28	5	32	1.81
16523726--16523793	30	2.3	29	82	7	75	30	20	8	39	1.83
16523750--16523827	30	2.6	30	83	4	86	33	20	7	38	1.81
16529749--16529786	15	2.5	15	87	8	51	18	13	21	47	1.82
16529875--16529915	17	2.4	17	88	8	57	24	26	2	46	1.65
16529962--16529994	2	16.5	2	100	0	66	48	0	0	51	1.00
16530170--16530213	21	2.1	21	87	4	63	70	2	4	22	1.17
16532346--16532395	17	2.9	17	81	0	55	36	4	4	56	1.37
16534094--16534229	30	4.5	30	84	7	127	35	24	2	37	1.71
16534094--16534225	60	2.2	60	84	6	162	34	25	3	37	1.71
16538192--16538230	14	2.8	13	85	11	51	74	0	23	2	0.94
16538191--16538251	31	2.0	30	87	3	86	73	0	24	1	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16538215--16538248	17	2.0	17	88	11	52	76	0	20	2	0.92
16539540--16539619	41	2.0	41	80	9	92	33	18	15	32	1.92
16539621--16539747	39	3.3	39	73	2	121	22	33	18	25	1.97
16539878--16540221	160	2.2	159	92	2	566	35	19	22	22	1.96
16540366--16540436	37	1.9	37	85	5	99	36	15	23	23	1.94
16540038--16541237	209	5.8	210	85	3	1463	36	18	22	23	1.95
16540038--16541204	411	2.8	411	85	4	1546	36	17	22	23	1.95
16543382--16543607	30	7.7	29	78	12	187	35	25	4	34	1.76
16543378--16543607	59	3.9	57	75	13	191	35	25	4	34	1.77
16543561--16543637	29	2.6	30	75	18	74	28	24	10	36	1.88
16543843--16544036	97	2.0	97	87	4	284	28	18	14	38	1.91
16550959--16550995	19	1.9	19	89	10	58	67	0	5	27	1.12
16553408--16553469	31	2.0	31	84	6	81	38	8	11	41	1.70
16556055--16556096	19	2.2	20	84	12	54	66	7	2	23	1.28
16556379--16556417	15	2.8	13	85	14	60	74	7	0	17	1.05
16559167--16559207	21	2.1	19	86	9	55	9	24	2	63	1.37
16559836--16559914	31	2.5	31	91	0	131	12	17	40	29	1.87
16569810--16569836	12	2.2	12	100	0	54	29	0	0	70	0.88
16570667--16570740	24	3.1	24	86	1	96	28	20	24	27	1.99
16570961--16571220	134	1.9	133	96	0	484	22	12	23	41	1.87
16576683--16576712	15	2.0	15	93	0	51	30	13	13	43	1.82
16577456--16577555	22	4.8	20	79	9	110	4	7	23	66	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16577456--16577555	21	4.7	21	78	10	114	4	7	23	66	1.34
16577729--16577753	12	2.1	12	100	0	50	16	0	16	68	1.22
16578662--16578721	29	2.1	28	81	3	66	55	0	3	41	1.16
16590862--16590938	36	2.1	36	82	0	91	37	31	10	20	1.87
16595559--16595602	3	15.0	3	90	4	72	0	2	34	63	1.07
16605612--16605668	24	2.4	23	85	8	71	38	15	10	35	1.82
16605762--16605794	11	2.9	12	82	17	52	57	24	9	9	1.58
16606258--16606321	29	2.2	30	86	8	87	46	1	14	37	1.53
16617923--16617961	18	2.2	18	85	0	51	64	0	15	20	1.30
16618023--16618303	145	1.9	145	82	5	343	29	14	25	30	1.95
16619182--16619327	72	2.0	73	95	1	267	30	16	11	41	1.84
16621844--16621885	2	21.0	2	100	0	84	50	0	0	50	1.00
16621912--16622736	427	1.9	427	96	0	1533	29	16	18	35	1.93
16622536--16622651	20	5.8	19	71	11	63	21	25	18	34	1.96
16622596--16622671	40	1.9	40	86	0	107	18	25	21	35	1.95
16622595--16622672	20	3.9	20	73	6	68	20	24	20	34	1.96
16630720--16630757	20	2.0	20	94	5	69	63	5	0	31	1.17
16632199--16632229	15	2.1	15	93	0	53	48	0	12	38	1.42
16634577--16634657	32	2.6	32	86	2	101	30	14	9	44	1.78
16635733--16635788	27	2.1	27	86	6	78	50	8	12	28	1.70
16637261--16637350	33	2.7	33	85	0	117	48	22	5	23	1.71
16637744--16637843	41	2.4	42	76	17	120	44	11	12	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16641959--16642469	143	3.4	151	79	12	548	43	9	2	44	1.50
16642892--16642925	3	11.3	3	100	0	68	64	0	0	35	0.94
16642924--16642952	3	9.7	3	100	0	58	34	0	31	34	1.58
16643370--16643749	126	3.1	126	78	9	331	33	23	19	22	1.97
16643365--16643635	42	6.5	42	80	1	292	33	22	20	22	1.97
16643602--16643666	31	2.1	31	94	0	112	24	30	24	20	1.98
16643560--16643703	73	2.0	72	88	1	216	29	27	21	21	1.99
16643633--16643751	41	2.9	42	88	2	177	34	25	19	21	1.96
16643534--16643744	114	1.8	115	88	3	327	32	25	20	21	1.98
16644141--16644207	32	2.0	34	88	8	102	2	14	5	76	1.10

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