genome.fa.s10.2.7.7.80.10.50.1000.11.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   

This is table  11  of  135  ( 16099 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)
4917045--4917082	10	3.7	10	89	3	58	39	21	2	36	1.67
4917069--4917146	24	3.2	24	75	20	90	37	19	5	38	1.74
4917008--4917176	59	3.1	58	78	18	214	36	19	4	39	1.73
4917056--4917172	48	2.4	48	92	1	189	36	19	5	38	1.74
4917641--4917725	36	2.4	36	93	0	143	35	24	11	28	1.91
4922856--4922880	7	3.6	7	100	0	50	0	12	48	40	1.40
4929398--4929465	25	2.7	26	80	10	72	60	1	4	33	1.26
4934473--4934544	34	2.1	35	84	10	103	48	2	1	47	1.25
4935445--4935471	4	6.8	4	100	0	54	77	0	0	22	0.76
4943242--4943385	48	3.0	48	98	0	279	28	16	17	37	1.92
4962304--4962356	9	6.2	8	79	16	54	67	0	30	1	1.01
4962304--4962356	24	2.1	26	83	16	67	67	0	30	1	1.01
4972644--4972695	26	2.0	25	85	3	68	25	0	5	69	1.10
4988313--4988368	22	2.5	23	80	11	62	50	0	1	48	1.11
4988340--4988399	31	2.0	30	86	3	84	43	0	6	50	1.28
4992079--4992144	17	3.7	17	67	11	51	45	0	1	53	1.09
4992077--4992148	37	2.0	36	94	2	126	43	0	1	55	1.08
4995534--4995631	32	3.1	32	93	0	178	37	12	17	32	1.87
5002316--5002527	111	1.9	111	97	0	399	42	7	8	42	1.61
5029616--5029808	58	3.3	57	74	11	160	37	6	24	32	1.80
5029641--5029780	58	2.4	58	82	4	167	39	6	23	30	1.80
5029758--5030013	29	9.1	28	76	13	190	33	2	26	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5031843--5031946	17	6.1	17	83	0	127	56	4	1	36	1.31
5033913--5033942	15	2.0	15	93	0	51	50	0	0	50	1.00
5036818--5036843	11	2.4	11	100	0	52	26	15	23	34	1.94
5055402--5055433	3	10.7	3	93	0	55	34	34	0	31	1.58
5059531--5059556	12	2.2	12	100	0	52	7	42	7	42	1.62
5066480--5066691	9	22.8	9	68	15	87	33	3	3	59	1.31
5066483--5066587	28	3.8	29	71	14	87	34	2	2	60	1.26
5066623--5066661	10	4.0	10	83	6	53	30	2	5	61	1.31
5066615--5066672	29	2.0	29	86	0	80	32	5	3	58	1.37
5066624--5066673	19	2.6	19	83	3	55	32	4	4	60	1.34
5071100--5071165	33	2.0	33	93	0	114	36	15	36	12	1.84
5076546--5076579	17	2.1	17	88	5	52	32	2	0	64	1.08
5076686--5076721	2	18.0	2	100	0	72	50	0	0	50	1.00
5078820--5078858	13	3.1	13	81	7	53	51	2	2	43	1.29
5079059--5079248	92	2.1	92	89	4	285	40	15	13	30	1.86
5079181--5079248	29	2.3	29	82	5	82	38	16	16	29	1.90
5083011--5083051	18	2.3	18	91	0	64	17	12	17	53	1.72
5088121--5088205	42	2.0	42	88	0	125	21	25	11	41	1.87
5090530--5090592	30	2.1	31	87	3	92	47	0	3	49	1.17
5095289--5095485	100	2.0	101	92	3	335	34	11	17	36	1.86
5103285--5103329	19	2.3	21	75	21	53	37	0	4	57	1.19
5106696--5106763	22	3.0	22	72	14	66	64	4	1	29	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109212--5109292	31	2.6	31	83	11	103	28	14	9	46	1.77
5109482--5109540	28	2.1	28	84	3	75	54	5	13	27	1.60
5111172--5111254	24	3.6	24	70	18	68	67	15	6	10	1.39
5111174--5111237	15	4.3	15	71	11	60	67	18	6	7	1.38
5111174--5111272	44	2.2	44	83	3	119	68	16	5	10	1.35
5111161--5111266	56	1.9	56	82	3	133	66	18	4	9	1.37
5113419--5113486	31	2.2	32	80	12	81	50	4	1	44	1.31
5118687--5118727	5	8.2	5	100	0	82	19	41	0	39	1.52
5126099--5126155	30	1.9	30	85	7	80	22	3	50	22	1.64
5132676--5132710	18	1.9	18	88	0	52	60	0	5	34	1.21
5132685--5132735	22	2.4	22	80	9	61	64	0	1	33	1.05
5138302--5138339	19	2.0	19	85	10	51	36	5	2	55	1.37
5140126--5140179	28	2.0	28	85	3	74	7	7	14	70	1.32
5140126--5140187	28	2.2	28	82	5	72	8	6	14	70	1.30
5140182--5140294	21	5.0	23	74	11	83	8	4	19	67	1.35
5140184--5140296	12	9.9	12	72	11	76	8	4	18	68	1.34
5140182--5140310	43	2.9	43	76	12	127	9	3	19	67	1.34
5143341--5143382	15	2.6	17	81	11	61	66	0	0	33	0.92
5149002--5149065	32	2.0	32	90	6	103	31	26	10	31	1.91
5150666--5150707	21	2.0	21	100	0	84	42	23	19	14	1.87
5166825--5168139	338	3.9	338	93	1	2212	27	20	14	36	1.92
5168427--5168451	8	3.1	8	100	0	50	88	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5169740--5169798	20	2.9	20	87	7	75	6	3	16	72	1.20
5169749--5169818	23	3.2	22	82	8	81	10	4	14	71	1.27
5169766--5169872	12	9.2	12	69	7	78	9	4	16	69	1.33
5169768--5169901	56	2.4	56	82	5	155	9	5	16	68	1.35
5177897--5177923	6	4.5	6	100	0	54	0	14	14	70	1.17
5182552--5182579	13	2.2	13	100	0	56	50	0	0	50	1.00
5186824--5186886	27	2.3	27	97	0	117	17	33	31	17	1.93
5187044--5187085	15	2.8	15	82	10	50	30	0	4	64	1.14
5194075--5194117	21	2.0	21	95	0	77	6	46	6	39	1.58
5227808--5227855	23	2.1	22	82	17	55	77	0	20	2	0.88
5234580--5234640	21	2.8	22	83	11	65	52	1	1	44	1.20
5248121--5248212	24	3.9	24	89	1	114	27	10	8	53	1.65
5250141--5250225	24	3.5	24	93	0	134	28	9	9	52	1.64
5253326--5253350	1	25.0	1	100	0	50	100	0	0	0	0.00
5254825--5254851	14	1.9	14	100	0	54	37	11	14	37	1.82
5260671--5260719	20	2.6	18	84	12	62	67	0	0	32	0.91
5260667--5260717	19	2.5	20	87	9	68	64	0	0	35	0.94
5269204--5269269	20	3.3	19	77	14	62	34	0	6	59	1.22
5274195--5274250	27	2.1	27	100	0	112	50	10	7	32	1.64
5280183--5280236	20	2.7	19	83	11	63	37	9	7	46	1.64
5283848--5283885	6	6.3	6	100	0	76	31	0	68	0	0.90
5286659--5286786	64	2.0	64	100	0	256	26	29	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5286757--5286859	50	2.1	49	85	8	138	28	31	15	25	1.96
5287909--5287944	18	2.0	18	89	10	56	61	0	0	38	0.96
5303191--5303221	15	2.1	15	93	0	53	41	0	6	51	1.27
5316600--5316638	2	19.5	2	84	10	53	2	46	0	51	1.14
5321731--5321765	18	1.9	18	88	0	52	25	8	25	40	1.84
5321890--5321930	20	2.0	21	85	9	57	24	31	0	43	1.54
5322479--5322549	18	3.9	17	70	14	52	40	5	0	53	1.24
5322653--5322690	19	2.0	19	94	0	67	39	10	18	31	1.85
5330080--5330258	91	2.0	91	100	0	358	26	7	25	40	1.83
5332608--5332651	21	2.1	21	87	8	63	20	27	34	18	1.96
5334880--5334904	6	4.2	6	100	0	50	32	68	0	0	0.90
5345631--5345789	79	2.0	79	79	4	169	49	10	20	19	1.78
5356893--5357060	80	2.1	80	100	0	336	38	13	12	36	1.82
5367705--5367740	18	2.0	18	88	0	54	55	2	0	41	1.14
5368990--5369030	6	6.7	6	94	2	55	41	34	24	0	1.55
5368990--5369032	18	2.3	19	84	8	61	41	32	25	0	1.56
5372589--5372639	16	3.2	16	73	15	61	52	0	0	47	1.00
5372585--5372640	18	3.4	18	67	23	59	53	0	0	46	1.00
5372586--5372642	10	5.7	9	76	19	51	54	0	0	45	0.99
5372588--5372646	31	1.9	31	100	0	118	54	0	0	45	0.99
5381501--5381532	14	2.3	14	100	0	64	34	0	0	65	0.93
5381632--5381913	109	2.5	111	76	17	269	37	8	7	45	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5382795--5382824	14	2.1	15	93	6	53	80	0	0	20	0.72
5383470--5383512	19	2.3	19	84	8	52	58	4	0	37	1.19
5404515--5404563	6	8.2	6	95	0	53	2	8	65	24	1.31
5404524--5404563	18	2.2	18	90	0	62	0	5	67	27	1.11
5404878--5404916	17	2.2	18	86	13	55	33	7	0	58	1.26
5412837--5412864	12	2.3	12	100	0	56	39	0	0	60	0.97
5417148--5417185	14	2.7	15	88	12	62	44	5	13	36	1.66
5427204--5427264	31	1.9	32	90	3	97	60	16	4	18	1.52
5432350--5432410	19	3.2	17	72	26	50	68	1	0	29	0.99
5432358--5432409	24	2.1	25	83	16	65	67	1	0	30	1.02

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