genome.fa.s3.2.7.7.80.10.50.1000.78.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  78  of  171  ( 20472 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)
26587711--26587741	3	10.3	3	92	0	53	29	0	3	67	1.06
26588885--26588981	6	16.5	6	72	8	83	40	4	0	55	1.19
26588885--26588970	41	2.1	41	91	0	136	41	3	0	54	1.17
26588904--26588995	35	2.6	35	82	3	105	41	3	2	53	1.29
26589737--26589812	36	2.1	37	85	9	102	52	2	2	42	1.29
26589769--26589817	20	2.5	20	90	3	73	53	2	0	44	1.12
26590876--26591074	30	6.7	29	83	5	220	36	26	3	34	1.72
26590875--26591185	59	5.3	58	80	6	306	36	26	3	33	1.74
26590875--26591185	29	10.6	29	74	9	238	36	26	3	33	1.74
26592834--26592872	17	2.3	17	86	8	53	43	25	15	15	1.86
26596993--26597037	22	2.0	22	100	0	90	26	33	4	35	1.77
26597159--26597248	25	3.6	25	72	3	65	14	18	8	57	1.63
26597187--26597247	30	2.0	30	87	0	86	14	16	8	60	1.57
26597191--26597257	15	4.5	15	72	7	55	17	14	5	61	1.53
26597200--26597258	15	3.9	15	73	8	57	16	15	8	59	1.60
26597210--26597266	25	2.3	24	80	14	62	10	15	12	61	1.57
26597294--26597323	15	2.0	15	93	0	51	16	13	10	60	1.59
26597278--26597307	10	3.0	10	95	0	51	26	10	3	60	1.45
26600570--26600635	25	2.6	25	85	4	89	13	15	6	65	1.45
26600599--26600639	15	2.7	15	92	0	64	14	14	7	63	1.50
26601736--26601779	16	2.6	17	82	7	63	65	18	15	0	1.27
26605648--26605725	38	2.1	38	100	0	156	23	17	15	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26606698--26606769	22	3.3	22	82	3	83	56	19	13	9	1.64
26606712--26606890	22	7.9	22	74	11	96	62	17	12	7	1.53
26606741--26606813	31	2.3	31	90	4	110	65	13	13	6	1.45
26606774--26606890	21	5.6	21	71	18	91	64	17	10	6	1.45
26606764--26606890	42	3.0	41	82	7	150	64	18	11	6	1.46
26606866--26606911	17	2.7	17	80	6	58	60	19	8	10	1.55
26606742--26606873	5	25.4	5	69	18	65	63	17	12	6	1.49
26613284--26613341	24	2.4	24	82	0	71	48	12	12	27	1.76
26615383--26615440	30	1.9	31	92	3	100	36	6	18	37	1.78
26616276--26616300	4	6.2	4	100	0	50	76	0	0	24	0.80
26617314--26617964	42	16.3	41	74	10	453	25	17	26	30	1.97
26617314--26617969	122	5.5	124	75	12	491	25	17	26	30	1.97
26617316--26617969	161	4.1	161	81	6	608	25	17	25	30	1.97
26617721--26617929	40	5.3	39	74	14	171	27	16	24	31	1.96
26617373--26617964	78	7.5	76	81	8	496	25	17	25	31	1.97
26618243--26618627	49	7.9	49	73	7	253	21	28	15	35	1.93
26618243--26618626	98	3.9	98	83	2	466	21	28	15	35	1.93
26619472--26622400	587	5.0	587	97	0	5479	36	20	13	29	1.90
26623650--26623701	24	2.3	23	81	18	65	46	11	0	42	1.40
26624624--26624679	6	9.8	6	78	21	59	0	14	0	85	0.59
26624621--26624680	17	3.5	17	84	13	86	0	15	0	85	0.61
26624623--26624679	22	2.5	22	86	10	80	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26624624--26624679	29	1.9	30	89	7	89	0	14	0	85	0.59
26624621--26624670	7	7.1	7	82	8	66	0	16	0	84	0.63
26627846--26627889	13	3.4	13	74	0	52	31	6	11	50	1.65
26627834--26627889	26	2.2	26	90	0	85	28	7	14	50	1.69
26630053--26630107	27	2.0	27	85	0	74	61	16	20	1	1.43
26632124--26632247	23	5.2	23	81	14	144	11	26	23	38	1.88
26632124--26632249	48	2.7	46	81	11	155	11	26	23	39	1.88
26632129--26632275	73	2.0	73	84	7	192	14	27	20	38	1.91
26632393--26632447	28	2.0	28	96	0	101	36	3	29	30	1.75
26637460--26637510	24	2.1	24	96	0	93	54	13	11	19	1.69
26639450--26639500	24	2.1	24	92	0	84	54	11	11	21	1.68
26640749--26640899	56	2.6	57	81	5	171	39	3	3	52	1.39
26641068--26641123	16	3.5	16	87	0	76	28	26	7	37	1.83
26643915--26643978	25	2.6	25	75	9	76	12	12	14	60	1.58
26643927--26643980	20	2.7	20	75	11	56	12	11	14	61	1.58
26646830--26646864	18	1.9	18	100	0	70	31	11	11	45	1.76
26647083--26647122	20	2.0	20	100	0	80	50	25	0	25	1.50
26647259--26647317	25	2.4	25	88	0	91	10	16	8	64	1.48
26647259--26647327	25	2.8	25	82	4	68	11	15	8	63	1.50
26647291--26647331	15	2.7	15	80	0	55	12	12	9	65	1.46
26648417--26648471	27	2.0	27	85	0	74	58	18	21	1	1.49
26648657--26648764	56	1.9	56	100	0	216	34	12	34	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26652936--26653062	5	24.2	5	67	12	67	62	14	14	8	1.52
26652941--26653197	27	9.5	26	75	13	209	63	15	12	8	1.50
26653057--26653111	22	2.5	22	91	5	85	61	21	7	9	1.50
26652941--26653163	79	2.8	81	81	9	235	63	16	11	8	1.51
26653101--26653175	5	14.6	5	72	10	53	65	17	13	4	1.41
26653101--26653179	20	3.8	20	77	12	70	65	16	12	5	1.42
26652927--26653226	27	11.0	28	70	20	113	64	14	12	9	1.50
26653168--26653219	21	2.4	23	87	9	74	73	5	11	9	1.25
26653166--26653272	22	4.8	22	68	17	58	64	15	11	8	1.48
26654602--26654644	3	14.3	3	90	0	68	0	4	32	62	1.15
26654602--26654643	12	3.5	12	96	0	75	0	4	33	61	1.17
26662028--26662319	30	10.0	29	72	17	158	35	1	26	36	1.67
26662023--26662320	29	10.1	29	74	14	200	35	1	27	35	1.67
26662023--26662290	59	4.6	58	76	11	212	34	1	27	35	1.68
26663279--26663342	34	1.9	34	87	3	94	46	6	1	45	1.37
26663780--26664150	172	2.2	172	85	3	489	22	22	18	36	1.95
26663953--26664731	209	3.7	209	84	2	945	23	21	17	36	1.95
26675939--26676091	29	5.3	29	78	10	161	31	6	26	35	1.82
26675931--26676091	86	1.9	87	88	8	249	34	6	25	34	1.81
26675956--26676359	29	13.9	29	75	14	243	37	3	24	33	1.74
26675939--26676359	58	7.2	58	77	7	338	37	4	24	34	1.75
26676047--26676396	59	6.0	58	76	8	176	38	3	23	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26677537--26677596	12	4.8	12	76	8	57	40	3	0	56	1.16
26678295--26678335	22	1.9	21	90	5	64	53	9	0	36	1.34
26678393--26678460	32	2.1	32	88	0	100	61	10	16	11	1.56
26678430--26678667	27	9.5	26	69	23	122	64	15	11	8	1.48
26678435--26678609	22	7.6	22	68	23	101	65	13	10	9	1.47
26678457--26678667	32	6.9	31	70	14	129	65	15	11	8	1.46
26678409--26678667	49	5.0	53	74	15	179	64	14	11	8	1.49
26678620--26678683	17	3.9	16	82	13	78	62	17	12	7	1.52
26678521--26678649	69	1.9	69	86	3	188	65	14	10	9	1.48
26684626--26684684	6	9.8	6	88	0	64	72	3	3	20	1.13
26688324--26688853	149	3.6	149	80	1	483	18	29	16	35	1.93
26688262--26688909	248	2.6	247	81	2	714	18	29	16	35	1.93
26688271--26688892	50	12.6	50	73	7	401	18	29	16	35	1.93
26688277--26688928	99	6.6	100	77	6	413	18	29	16	35	1.93
26698129--26698155	14	1.9	14	100	0	54	59	7	3	29	1.42
26698358--26698392	18	1.9	18	100	0	70	65	11	5	17	1.43
26699135--26699175	19	2.3	19	83	8	50	41	9	0	48	1.36
26699193--26699235	17	2.4	19	80	11	54	46	6	2	44	1.43
26701526--26701563	14	2.6	15	83	4	51	60	2	0	36	1.11
26702258--26702303	20	2.3	20	88	0	65	28	0	6	65	1.17
26702310--26702367	24	2.5	23	71	23	57	27	1	10	60	1.39
26708215--26708551	41	8.3	39	79	9	277	21	26	24	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26717615--26717646	16	2.0	16	100	0	64	37	18	12	31	1.88
26717963--26718009	18	2.6	18	80	10	60	34	0	0	65	0.93
26717964--26718008	17	2.6	18	85	3	56	35	0	0	64	0.94
26720295--26720334	21	2.0	21	90	5	64	55	0	0	45	0.99
26721442--26721698	29	8.7	29	77	11	179	36	24	3	35	1.71
26721451--26721698	59	4.2	59	77	6	193	37	23	3	35	1.71
26721800--26721861	28	2.2	28	91	5	99	35	30	9	24	1.87
26721683--26722018	146	2.3	146	83	2	390	30	24	8	36	1.84
26729333--26729382	25	2.0	25	100	0	100	32	12	8	48	1.69
26732404--26732453	23	2.2	23	85	0	64	22	20	24	34	1.97

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