genome.fa.s11.2.7.7.80.10.50.1000.109.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  109  of  143  ( 17057 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)
33227184--33227241	29	2.0	29	100	0	116	34	10	10	44	1.73
33228437--33228611	60	2.9	60	83	8	212	24	12	11	51	1.72
33228834--33228954	31	4.0	31	75	17	119	52	9	12	25	1.70
33228865--33228949	28	2.9	29	71	16	77	55	9	10	24	1.63
33248474--33248624	80	1.9	80	94	0	266	31	25	20	22	1.98
33251738--33251782	22	2.0	22	91	0	72	33	13	22	31	1.92
33262175--33262234	20	3.0	20	77	0	66	28	8	13	50	1.70
33265109--33265153	23	2.0	23	95	0	81	26	13	13	46	1.80
33274744--33274780	18	2.1	18	94	0	65	51	0	24	24	1.49
33274744--33274780	12	3.1	12	84	0	56	51	0	24	24	1.49
33277680--33277723	21	2.1	21	84	12	56	43	18	4	34	1.70
33279652--33279680	3	9.7	3	100	0	58	68	0	31	0	0.89
33281022--33281054	15	2.2	15	94	0	57	27	12	30	30	1.92
33286944--33286997	28	1.9	28	84	0	72	55	9	16	18	1.67
33288190--33288259	31	2.2	32	89	2	106	42	5	14	37	1.69
33290316--33290399	14	6.1	14	71	20	61	25	4	4	65	1.32
33290322--33290383	21	2.8	22	85	9	74	25	4	3	66	1.27
33290322--33290396	11	6.7	11	80	7	80	25	4	4	66	1.26
33295075--33295109	12	3.0	12	87	8	54	71	0	0	28	0.86
33296901--33297214	30	10.6	29	74	10	199	37	3	24	34	1.74
33296915--33297228	89	3.5	89	75	6	287	36	3	24	34	1.74
33297959--33297994	2	18.0	2	94	0	63	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33298903--33299026	52	2.4	53	88	1	178	47	8	12	31	1.71
33302323--33302368	16	2.9	16	86	0	74	23	28	8	39	1.84
33307025--33307079	18	3.1	18	74	10	58	23	45	18	12	1.83
33307426--33307503	6	13.0	6	76	0	57	26	42	17	12	1.86
33307429--33307499	12	5.9	12	76	0	70	26	40	18	14	1.88
33307417--33307503	36	2.4	36	94	0	147	25	41	18	14	1.89
33307029--33307836	424	1.9	424	97	0	1528	29	22	15	32	1.95
33308704--33308785	34	2.4	34	78	8	96	48	3	29	18	1.65
33311577--33311694	53	2.2	53	90	0	182	46	8	12	32	1.72
33314765--33314865	20	5.2	20	70	21	70	43	0	1	53	1.18
33314737--33314894	58	2.7	57	86	6	212	45	1	1	51	1.20
33315050--33315105	16	3.5	16	92	0	94	28	32	7	32	1.84
33315750--33315793	20	2.2	20	88	8	63	59	0	0	40	0.98
33316189--33316261	38	1.9	38	97	0	137	31	21	19	27	1.97
33318331--33318404	6	13.0	6	71	16	59	44	1	2	51	1.24
33318327--33318370	17	2.5	17	88	3	61	40	2	2	54	1.25
33318319--33318404	11	7.5	11	73	12	59	43	1	3	52	1.26
33320304--33320436	29	4.5	29	81	7	133	34	28	4	32	1.77
33320175--33320436	30	8.8	29	78	10	183	35	26	3	33	1.75
33320170--33320468	30	10.1	29	78	9	171	34	27	4	33	1.77
33320487--33320557	28	2.5	29	83	4	99	33	28	1	36	1.66
33323178--33323235	17	3.4	18	77	15	61	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33328301--33328378	40	1.9	41	89	2	122	19	24	24	32	1.98
33328843--33328877	18	1.9	18	88	11	54	71	0	0	28	0.86
33328853--33328893	21	2.1	19	86	9	55	70	0	0	29	0.87
33332370--33332457	11	7.6	12	73	11	58	37	2	4	55	1.33
33332373--33332457	6	14.7	6	74	7	59	36	2	4	56	1.33
33332371--33332464	17	5.5	17	79	1	107	37	2	4	56	1.31
33335465--33335772	29	10.6	29	79	7	277	32	2	27	36	1.72
33335491--33335772	30	9.7	27	77	10	222	32	2	27	36	1.72
33335432--33335770	57	5.8	57	84	5	299	33	3	27	36	1.73
33335463--33335772	58	5.3	58	84	5	333	32	3	27	36	1.73
33337537--33337632	17	5.6	17	76	2	93	56	7	2	34	1.39
33337530--33337632	35	3.0	35	74	4	102	54	7	1	35	1.41
33344558--33344586	2	14.5	2	100	0	58	51	0	0	48	1.00
33346759--33346790	3	10.7	3	100	0	64	0	34	0	65	0.93
33348164--33348383	110	2.0	110	99	0	431	21	10	31	37	1.86
33353186--33353229	15	3.0	15	83	3	54	50	0	2	47	1.13
33353186--33353220	5	7.0	5	86	0	52	54	0	0	45	0.99
33353903--33354016	60	2.0	57	81	8	133	32	14	13	40	1.84
33354231--33354321	31	3.1	30	78	15	109	36	10	16	36	1.84
33354259--33354307	13	3.8	13	86	0	62	28	8	18	44	1.78
33354231--33354310	26	2.9	27	81	11	90	33	11	17	37	1.85
33357020--33357050	15	2.1	15	100	0	62	22	12	38	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33357026--33357086	26	2.3	27	77	2	70	18	18	39	24	1.92
33357208--33357295	17	5.1	18	75	8	76	55	3	3	37	1.33
33373602--33373638	16	2.3	16	86	13	58	59	0	0	40	0.97
33373597--33373721	13	8.4	15	68	23	52	48	3	1	46	1.27
33377037--33377306	19	15.1	18	68	21	126	23	2	17	56	1.54
33377035--33377212	9	19.1	9	67	21	64	25	3	15	55	1.58
33377124--33377208	30	2.9	30	78	13	97	27	4	14	54	1.60
33377201--33377336	42	3.0	43	77	15	157	22	0	18	58	1.43
33382004--33382030	2	13.5	2	100	0	54	48	0	0	51	1.00
33384656--33384718	24	2.6	24	87	0	90	26	14	7	50	1.70
33386617--33386663	24	2.0	24	91	0	76	23	10	8	57	1.60
33386625--33386677	24	2.2	24	82	0	61	28	11	9	50	1.69
33388354--33388383	2	15.0	2	92	0	51	50	3	0	46	1.18
33405985--33406033	26	1.9	26	87	4	73	59	12	2	26	1.44
33406298--33406430	71	1.9	72	83	1	178	30	12	21	35	1.91
33419604--33419633	14	2.1	15	93	6	53	30	0	6	63	1.20
33431014--33431099	27	3.2	28	67	20	85	59	15	3	22	1.51
33430995--33431099	52	2.0	51	92	1	174	58	15	6	20	1.59
33430995--33431084	27	3.4	27	70	11	78	55	16	7	20	1.65
33432772--33432826	3	18.3	3	80	0	56	1	3	34	60	1.25
33436279--33436412	58	2.3	56	80	11	146	38	6	23	30	1.81
33436369--33436630	29	8.8	30	74	12	170	35	3	25	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33436395--33436650	30	8.6	28	75	12	158	35	2	25	36	1.70
33436368--33436634	119	2.2	118	82	7	301	34	2	25	36	1.72
33436362--33436634	59	4.6	59	78	7	243	34	3	26	35	1.73
33436490--33436665	29	5.9	28	83	7	111	38	1	23	36	1.65
33437405--33437443	20	1.9	21	84	5	53	15	23	5	56	1.59
33438548--33438591	17	2.6	17	88	0	61	52	4	0	43	1.22
33438517--33438591	6	13.0	6	72	18	61	50	2	1	45	1.24
33438517--33438591	11	6.5	12	72	17	61	50	2	1	45	1.24
33439208--33439262	3	18.3	3	84	0	74	3	0	30	65	1.10
33439793--33439829	15	2.4	16	90	4	58	81	2	16	0	0.81
33446360--33446445	27	3.2	28	67	20	85	59	15	3	22	1.51
33446333--33446445	52	2.2	51	90	3	181	58	13	5	23	1.55
33446358--33446442	24	3.4	24	72	12	80	58	15	3	22	1.52
33448094--33448145	3	17.3	3	79	0	50	1	3	34	59	1.27
33453423--33453477	21	2.6	21	79	0	65	21	16	27	34	1.95
33454832--33454881	19	2.8	17	78	9	55	62	4	0	34	1.14
33458887--33458923	17	2.2	18	85	9	51	24	18	0	56	1.41
33465085--33465132	25	2.0	23	84	8	60	35	4	0	60	1.16
33466274--33466298	12	2.1	12	100	0	50	0	0	28	72	0.86
33479223--33479265	20	2.1	21	83	8	54	51	2	6	39	1.42
33479411--33479455	20	2.3	20	82	14	51	48	0	0	51	1.00
33481337--33481363	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33491004--33491074	19	3.7	18	77	18	72	40	2	1	54	1.23
33491000--33491074	20	3.9	19	79	19	75	40	2	1	56	1.22
33491001--33491079	39	2.1	37	83	9	97	40	2	2	54	1.27
33492578--33492626	15	3.3	15	80	2	55	28	0	0	71	0.86
33492581--33492647	26	2.6	26	77	17	68	29	0	1	68	0.98
33493405--33493462	13	4.4	13	79	10	55	70	0	27	1	0.97
33493633--33493657	12	2.1	12	100	0	50	48	0	0	52	1.00
33494310--33494359	16	3.2	16	71	21	52	60	6	0	34	1.21
33495659--33495743	43	2.0	43	83	4	109	32	11	9	45	1.73
33496372--33496416	21	2.1	21	88	8	65	22	33	15	28	1.95

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