genome.fa.s3.2.7.7.80.10.50.1000.23.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  23  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)
10729057--10729111	20	2.8	19	74	17	58	61	3	0	34	1.13
10738427--10738465	5	7.8	5	100	0	78	0	0	38	61	0.96
10753948--10754006	25	2.3	26	85	5	84	69	5	0	25	1.09
10754909--10754956	3	16.0	3	82	8	53	68	0	27	4	1.07
10755317--10755359	9	4.6	9	78	21	52	76	11	4	6	1.13
10755300--10755364	29	2.3	29	86	2	96	76	10	4	7	1.13
10755333--10755372	12	3.4	12	82	6	55	70	15	7	7	1.33
10755347--10755429	34	2.4	34	78	4	87	68	16	6	8	1.35
10758672--10758727	28	2.1	25	83	9	67	64	5	0	30	1.16
10758685--10758741	25	2.3	25	81	0	69	61	3	0	35	1.13
10760149--10760212	2	32.0	2	100	0	128	50	0	0	50	1.00
10760372--10760403	2	16.0	2	100	0	64	0	50	0	50	1.00
10769446--10769496	18	3.1	17	81	13	61	31	0	1	66	1.03
10769709--10769756	20	2.3	20	82	3	60	35	10	12	41	1.77
10769746--10769866	20	6.1	19	72	18	77	38	14	4	42	1.68
10769742--10769817	40	1.9	40	86	5	109	38	13	6	42	1.70
10769932--10770038	40	2.7	41	78	4	112	35	12	4	47	1.62
10769989--10770052	20	3.2	20	72	12	60	34	12	4	48	1.62
10769978--10770065	40	2.2	41	85	6	117	35	12	4	47	1.62
10770159--10770197	20	2.0	21	85	10	55	41	7	2	48	1.45
10770193--10770278	40	2.2	39	81	8	93	41	10	5	41	1.63
10770327--10770375	21	2.4	20	79	3	53	28	12	6	53	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10770348--10770475	40	3.2	39	84	4	157	40	12	3	43	1.58
10770685--10770722	18	2.1	18	85	9	51	47	15	10	26	1.78
10770855--10770976	58	2.1	58	90	3	192	49	18	0	32	1.48
10775190--10775219	2	15.0	2	100	0	60	50	0	0	50	1.00
10778812--10778926	54	2.1	54	83	8	151	56	2	3	37	1.30
10778825--10778932	54	2.0	54	90	3	173	54	3	4	37	1.39
10778829--10778950	54	2.3	54	85	7	160	51	4	4	40	1.40
10779016--10779051	17	2.0	19	89	10	58	30	5	5	58	1.44
10779198--10779226	15	1.9	15	100	0	58	41	0	10	48	1.37
10783036--10783097	3	20.7	3	89	0	97	27	0	4	67	1.10
10786640--10786674	1	35.0	1	100	0	70	0	100	0	0	0.00
10797001--10797050	9	5.4	9	76	19	50	66	0	4	30	1.10
10800100--10800171	24	3.0	25	82	9	80	44	0	0	55	0.99
10802372--10802657	143	2.0	143	97	0	545	37	10	16	36	1.83
10813931--10813986	28	2.0	27	83	10	69	39	7	1	51	1.40
10822573--10822630	29	2.1	29	80	6	66	65	0	1	32	1.03
10823216--10823250	17	2.0	18	88	5	54	48	5	0	45	1.26
10823282--10823340	32	1.9	30	83	13	75	47	3	1	47	1.29
10831152--10831211	30	2.0	30	100	0	120	33	26	13	26	1.93
10835640--10835675	15	2.4	15	100	0	72	25	27	27	19	1.99
10840435--10840478	18	2.2	20	88	11	65	75	6	2	15	1.12
10841339--10841372	14	2.3	15	90	5	52	58	0	2	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10851538--10851609	28	2.7	27	75	12	78	43	5	1	50	1.34
10855564--10856370	402	2.0	403	99	0	1589	37	12	11	38	1.79
10857400--10857441	23	1.9	21	85	9	57	38	2	0	59	1.10
10872174--10872217	22	2.1	20	83	8	52	34	4	2	59	1.30
10872241--10872283	17	2.6	16	80	20	52	41	2	4	51	1.35
10872246--10872296	19	2.7	18	79	14	50	35	3	5	54	1.43
10877342--10877410	36	2.0	35	82	5	86	65	2	2	28	1.22
10879719--10879761	22	2.0	22	86	9	61	37	0	2	60	1.10
10887248--10887283	2	18.0	2	94	0	63	50	2	47	0	1.15
10888743--10889397	252	2.6	252	90	2	1044	50	11	12	25	1.74
10895830--10895910	32	2.5	31	78	13	85	51	7	1	39	1.38
10904853--10905057	102	2.0	104	88	5	308	32	10	7	50	1.64
10906031--10906071	18	2.3	19	79	12	50	56	0	2	41	1.13
10909261--10909288	14	2.0	14	100	0	56	21	0	21	57	1.41
10910829--10910870	18	2.5	17	85	11	52	38	0	4	57	1.20
10911102--10911169	33	2.2	31	82	12	79	44	14	14	26	1.84
10919579--10919604	13	2.0	13	100	0	52	30	7	23	38	1.83
10920563--10920600	19	2.0	19	85	10	51	44	2	0	52	1.14
10921872--10921942	20	3.5	20	88	3	97	69	12	8	9	1.38
10924156--10924366	116	1.8	116	83	2	280	41	6	12	38	1.70
10931748--10931781	15	2.3	15	100	0	68	41	5	17	35	1.74
10944706--10944738	6	5.5	6	92	0	57	48	0	30	21	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10944841--10944940	38	2.5	40	76	11	116	23	19	27	31	1.98
10944866--10944944	37	2.1	38	85	2	106	22	18	25	32	1.97
10945857--10945903	20	2.3	21	85	3	60	51	2	2	44	1.25
10947596--10947674	20	3.5	20	72	26	68	50	0	0	49	1.00
10947600--10947672	29	2.6	29	85	14	107	50	0	0	49	1.00
10947596--10947707	49	2.2	50	89	6	174	50	0	0	48	1.06
10948341--10948411	9	7.6	9	76	20	74	45	0	1	53	1.09
10948373--10948413	19	2.0	21	90	9	68	51	0	0	48	1.00
10948332--10948410	28	2.8	28	84	7	99	45	0	1	53	1.08
10948332--10948419	20	4.6	20	75	19	73	45	1	1	52	1.15
10979037--10979094	21	2.8	21	81	2	73	34	46	10	8	1.69
10980758--10980828	32	2.2	32	76	0	79	45	12	14	28	1.81
10999094--10999118	2	12.5	2	100	0	50	48	0	52	0	1.00
10999643--10999691	12	4.2	12	76	5	55	32	14	14	38	1.86
11001223--11001256	17	2.0	17	94	0	59	32	0	0	67	0.91
11004232--11004277	24	2.0	23	84	12	60	10	50	4	34	1.57
11005967--11005998	10	3.2	10	90	0	55	40	0	0	59	0.97
11007621--11007746	61	2.1	61	83	4	157	40	0	11	47	1.40
11007621--11007762	61	2.3	61	82	7	146	42	0	11	44	1.46
11014425--11014459	16	2.2	16	95	5	63	60	2	0	37	1.12
11015006--11015068	31	2.1	31	93	3	110	26	3	7	61	1.39
11015014--11015082	16	4.5	15	71	18	52	28	1	5	63	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11015006--11015082	31	2.5	31	85	4	93	29	2	6	61	1.35
11028316--11028475	80	2.0	80	98	0	311	28	18	20	33	1.96
11048741--11048800	30	2.0	30	100	0	120	46	10	0	43	1.37
11050363--11050402	13	3.0	13	78	7	53	27	5	2	65	1.27
11050363--11050403	14	3.0	14	82	3	57	26	4	2	65	1.25
11051522--11051548	2	13.5	2	100	0	54	48	0	0	51	1.00
11062229--11062259	16	1.9	16	93	0	53	3	12	0	83	0.75
11088533--11088641	27	4.2	26	76	15	91	37	3	4	54	1.39
11088587--11088656	18	4.0	18	74	9	56	32	1	4	61	1.24
11088545--11088656	53	2.1	55	89	3	174	33	1	5	59	1.30
11089476--11089526	21	2.4	21	86	0	75	27	3	13	54	1.56
11097233--11097311	38	2.1	38	97	0	149	31	7	20	40	1.80
11101772--11101857	43	2.0	43	93	4	147	39	9	3	47	1.53
11104998--11105024	2	13.5	2	100	0	54	48	0	0	51	1.00
11109977--11110028	14	3.9	14	76	14	56	50	1	0	48	1.12
11111408--11111434	3	9.0	3	100	0	54	66	0	0	33	0.92
11113996--11114046	22	2.2	22	82	6	57	41	5	3	49	1.45
11114015--11114060	17	2.8	16	80	6	56	41	2	2	54	1.25
11115023--11116034	29	34.4	29	69	14	334	35	25	4	34	1.76
11115149--11115459	117	2.7	116	79	11	341	33	24	5	36	1.79
11115590--11115668	40	2.0	41	89	2	124	34	22	3	39	1.72
11115558--11115695	71	1.9	72	85	2	190	36	23	2	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11115631--11115777	59	2.5	59	83	7	181	38	27	2	31	1.68
11115711--11116016	117	2.6	117	77	10	265	35	24	5	34	1.80
11115828--11116141	29	10.8	29	72	14	182	33	26	7	32	1.85
11115947--11116164	87	2.5	86	76	8	219	33	28	6	30	1.83
11122182--11122226	23	2.0	22	91	8	74	48	4	4	42	1.43
11132865--11132919	23	2.4	23	78	0	56	61	5	1	30	1.29
11133707--11133777	30	2.4	31	83	6	85	49	12	5	32	1.64
11134249--11134288	19	2.1	19	86	9	55	35	10	5	50	1.58
11136501--11136537	2	18.5	2	100	0	74	48	0	0	51	1.00
11146176--11146214	16	2.4	16	86	0	60	51	2	15	30	1.57

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