genome.fa.s4.2.7.7.80.10.50.1000.104.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  104  of  193  ( 23090 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)
33548626--33548808	58	3.1	58	81	4	181	48	13	10	26	1.76
33561006--33561113	40	2.7	40	75	5	110	35	18	19	26	1.95
33563410--33563456	24	2.0	24	91	0	76	21	12	6	59	1.55
33563421--33563472	24	2.2	24	85	0	68	21	15	9	53	1.70
33565364--33565418	24	2.3	24	87	0	74	27	14	10	47	1.78
33569050--33569074	9	2.8	9	100	0	50	44	0	0	56	0.99
33569082--33569169	23	3.9	23	72	8	81	43	5	2	48	1.39
33569095--33569167	22	3.3	22	73	3	74	41	5	2	50	1.40
33569082--33569167	45	1.9	45	92	0	145	43	5	2	48	1.39
33570745--33570788	18	2.4	19	88	11	65	63	6	4	25	1.38
33570937--33570986	23	2.2	23	85	0	64	70	18	4	8	1.28
33570930--33570998	35	2.0	35	88	0	102	69	15	4	10	1.32
33570964--33570996	15	2.2	15	89	10	50	66	18	6	9	1.40
33570930--33571001	12	6.1	12	80	3	74	69	15	4	11	1.32
33570960--33571031	24	3.1	23	75	11	67	68	15	5	11	1.38
33570968--33571010	12	3.6	12	83	0	50	67	11	6	13	1.41
33570989--33571041	21	2.6	21	72	3	54	66	13	7	13	1.45
33578503--33578538	17	2.2	17	90	5	56	33	19	2	44	1.65
33580922--33581140	51	4.3	51	84	1	269	32	13	21	31	1.93
33588194--33588430	51	4.6	51	86	3	316	33	13	22	29	1.93
33590214--33590305	48	1.9	48	88	0	139	32	16	18	32	1.93
33594359--33594400	19	2.2	20	86	4	59	45	26	7	21	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33595875--33596180	163	1.8	166	85	8	437	44	14	12	29	1.82
33595873--33596180	84	3.7	80	79	8	309	44	13	12	29	1.81
33597860--33597919	24	2.4	24	78	16	59	58	0	5	36	1.20
33599331--33599366	5	7.2	5	93	0	63	19	58	2	19	1.52
33605320--33605371	17	2.9	17	72	16	52	65	7	1	25	1.30
33605323--33605405	42	2.0	41	80	2	94	62	8	1	27	1.31
33606931--33606990	27	2.2	28	80	11	72	33	3	1	61	1.22
33611976--33612021	13	3.5	13	85	11	51	78	0	19	2	0.86
33611942--33612007	29	2.3	29	85	12	84	80	0	12	7	0.91
33611942--33612020	28	2.7	29	83	11	74	78	0	15	6	0.94
33612955--33614371	49	28.8	49	77	5	1030	35	16	29	17	1.93
33612955--33614371	99	14.4	99	76	7	860	35	16	29	17	1.93
33612955--33614409	148	9.8	148	77	5	1054	35	16	29	18	1.93
33614250--33614409	49	3.3	48	76	12	143	35	13	31	20	1.91
33614631--33615402	39	19.7	38	75	10	417	28	30	15	25	1.96
33614631--33615396	78	9.8	78	77	6	491	28	30	15	25	1.96
33615587--33615708	46	2.7	46	88	0	181	34	13	26	26	1.93
33617750--33617796	3	16.3	3	91	8	80	29	0	0	70	0.88
33617752--33617798	22	2.1	23	96	4	87	27	0	0	72	0.85
33617752--33617812	22	2.7	22	82	7	61	27	3	1	67	1.16
33626788--33626825	19	2.0	19	100	0	76	26	5	21	47	1.71
33636443--33636581	61	2.3	63	85	5	178	51	2	0	45	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33636505--33636564	24	2.3	27	77	16	72	50	3	1	45	1.28
33636528--33636605	25	3.0	26	87	5	97	44	1	1	52	1.17
33636562--33636621	25	2.5	24	86	10	79	43	0	0	56	0.99
33636915--33637184	89	3.1	90	76	11	215	40	15	9	34	1.79
33636961--33637184	89	2.6	88	79	6	233	39	15	9	35	1.80
33637431--33637543	10	11.3	10	72	13	56	30	3	0	65	1.09
33637467--33637513	11	4.3	11	86	7	69	21	2	0	76	0.89
33637467--33637513	23	2.1	22	96	4	85	21	2	0	76	0.89
33637463--33637538	22	3.6	20	74	17	64	32	1	0	65	1.01
33637501--33637575	30	2.5	30	89	6	109	36	0	0	64	0.94
33638080--33638135	19	2.9	19	80	15	62	57	1	3	37	1.27
33638112--33638147	19	1.9	18	88	5	54	55	2	0	41	1.14
33639510--33639548	3	13.0	3	100	0	78	33	0	0	66	0.92
33640280--33640315	10	3.5	10	85	7	54	75	0	5	19	1.00
33642781--33642814	13	2.8	12	86	8	50	35	0	17	47	1.48
33642830--33642859	14	2.1	14	100	0	60	20	6	0	73	1.05
33649793--33649863	6	11.5	6	73	11	54	16	5	1	76	1.05
33649822--33649863	17	2.4	17	88	4	57	21	2	0	76	0.90
33650906--33650981	30	2.5	30	84	0	98	34	3	22	39	1.73
33653094--33653219	39	3.2	37	69	16	94	24	18	31	25	1.97
33653107--33653374	78	3.4	78	79	5	283	24	21	30	24	1.99
33663537--33663584	24	2.0	24	100	0	96	25	12	25	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33664959--33665102	30	4.8	30	80	1	146	33	6	24	35	1.82
33668585--33668644	24	2.4	25	73	13	61	30	8	1	60	1.36
33672164--33672188	8	3.1	8	100	0	50	88	0	0	12	0.53
33685203--33685538	78	4.3	79	81	8	377	33	20	18	27	1.96
33685082--33685538	38	11.9	38	71	10	265	33	21	17	27	1.96
33685107--33685476	154	2.4	152	84	5	442	33	20	17	28	1.95
33685107--33685538	154	2.8	154	81	8	422	34	20	17	27	1.95
33686578--33686621	21	2.0	21	82	4	52	59	4	13	22	1.53
33687424--33687484	24	2.5	25	83	2	79	29	8	1	60	1.35
33687437--33687484	25	2.0	24	87	4	69	29	6	2	62	1.31
33696337--33696369	14	2.4	14	94	0	57	69	6	0	24	1.10
33697653--33697688	18	1.9	19	88	5	56	44	2	0	52	1.15
33697740--33697781	22	1.9	22	85	0	57	54	0	7	38	1.28
33699346--33699413	20	3.5	20	74	11	77	51	0	0	48	1.00
33699346--33699443	39	2.5	40	91	4	157	50	0	0	50	1.00
33700099--33700168	3	25.0	3	79	13	60	65	0	31	2	1.07
33701131--33701170	21	1.9	21	89	0	62	32	20	17	30	1.95
33701978--33702017	21	2.0	21	85	5	55	60	0	25	15	1.35
33702640--33702706	33	2.0	34	82	8	84	29	8	16	44	1.78
33708131--33708181	24	2.1	24	92	0	84	50	11	19	17	1.76
33720009--33720202	43	4.5	43	87	3	223	36	10	22	30	1.89
33721077--33721107	12	2.6	12	94	0	53	16	35	19	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33721675--33721825	26	5.8	26	80	9	94	29	24	14	31	1.95
33721702--33721895	78	2.5	78	88	2	293	28	26	15	28	1.96
33721692--33721895	26	7.9	26	82	0	221	29	26	15	28	1.96
33733773--33733831	28	2.1	28	100	0	118	49	0	28	22	1.50
33733802--33733890	42	2.1	42	87	0	133	39	6	28	25	1.81
33740514--33740561	3	16.3	3	95	4	89	66	0	0	33	0.92
33745250--33745333	24	3.5	24	93	0	141	26	36	19	17	1.94
33745249--33745349	24	4.2	24	88	0	85	29	34	16	18	1.94
33745345--33745378	14	2.4	14	90	0	50	23	20	20	35	1.96
33749703--33749765	26	2.4	27	79	15	69	38	6	12	42	1.68
33749992--33750109	24	5.0	24	86	7	152	35	16	32	16	1.91
33749992--33750109	48	2.5	49	86	4	170	35	16	32	16	1.91
33751599--33751655	29	2.0	29	90	10	91	40	3	17	38	1.67
33752278--33752321	17	2.5	18	78	14	56	38	29	11	20	1.87
33755286--33755418	67	2.0	65	88	2	194	34	14	15	36	1.87
33757509--33757697	63	3.0	63	95	0	333	44	22	10	22	1.83
33757720--33757821	51	2.0	51	92	0	168	41	15	23	19	1.90
33760361--33760394	2	17.0	2	100	0	68	50	0	0	50	1.00
33764380--33764520	76	1.9	76	89	3	221	35	32	13	18	1.90
33767403--33767607	30	7.0	28	72	10	142	32	1	28	37	1.69
33767402--33767607	60	3.5	59	78	10	188	32	1	29	36	1.69
33768663--33768699	13	2.8	13	91	0	56	35	2	2	59	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33768675--33768717	16	2.7	15	83	16	52	30	4	4	60	1.37
33769413--33769484	17	4.3	17	82	12	78	54	1	0	44	1.08
33769429--33769484	6	10.0	6	75	14	57	55	1	0	42	1.10
33769430--33769484	11	5.0	11	77	16	60	56	1	0	41	1.10
33769728--33770338	92	6.7	92	93	2	969	32	19	15	32	1.93
33782500--33782702	58	3.5	58	77	11	166	34	3	26	35	1.73
33782554--33782702	29	5.1	29	78	16	132	32	2	28	36	1.71
33782552--33782688	59	2.4	57	83	6	159	32	2	28	35	1.72
33783739--33783775	13	2.8	13	91	0	56	35	2	2	59	1.26
33783751--33783793	16	2.7	15	83	16	52	30	4	4	60	1.37

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193