genome.fa.s4.2.7.7.80.10.50.1000.157.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  157  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)
48537186--48537286	29	3.5	28	68	18	80	32	24	3	38	1.74
48537184--48537321	59	2.3	59	92	0	222	34	27	3	34	1.74
48537225--48537323	30	3.3	30	64	18	71	33	29	3	34	1.73
48537184--48537356	59	2.9	58	85	5	170	31	28	5	34	1.81
48549270--48549764	68	7.3	67	93	1	846	35	17	19	27	1.94
48549270--48549774	135	3.7	136	95	1	874	35	17	19	27	1.94
48550074--48550181	6	18.0	6	73	14	80	49	1	1	47	1.23
48550074--48550150	17	4.4	17	76	15	77	44	0	2	53	1.14
48550064--48550150	11	7.5	11	72	18	61	43	0	3	52	1.18
48550064--48550160	11	8.5	11	71	13	52	47	0	3	49	1.17
48550210--48550263	14	4.0	14	83	9	76	37	27	16	18	1.93
48550210--48550262	26	2.0	27	88	7	81	37	28	16	16	1.91
48551947--48552128	60	3.0	60	87	2	258	35	24	3	36	1.74
48551947--48552106	30	5.3	30	88	1	241	38	22	3	35	1.72
48552098--48552238	59	2.4	59	91	0	219	32	30	4	32	1.77
48551989--48552231	30	8.2	29	74	13	106	34	25	3	35	1.74
48552100--48552209	29	3.8	28	73	13	96	32	28	4	34	1.77
48552155--48552238	29	2.9	29	72	12	82	33	33	4	28	1.78
48552098--48552270	59	2.9	58	86	3	177	30	30	5	32	1.81
48557180--48557496	59	5.4	59	88	3	458	35	1	28	34	1.68
48557185--48557496	30	10.6	30	66	26	134	36	1	27	34	1.67
48557608--48557913	163	1.9	163	94	0	540	45	12	17	24	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48559482--48559586	6	18.0	6	70	13	67	50	0	2	45	1.22
48559503--48559586	41	2.0	42	88	2	125	53	1	3	41	1.26
48559488--48559551	18	3.7	17	84	10	76	51	1	1	45	1.20
48559508--48559612	41	2.5	41	81	1	111	54	1	2	40	1.26
48559518--48559610	24	3.7	24	74	21	75	53	2	3	40	1.29
48562399--48562457	26	2.3	27	82	11	70	50	6	3	38	1.45
48573118--48573205	42	2.1	42	85	4	115	32	13	25	28	1.94
48575079--48575117	6	6.5	6	100	0	78	48	0	33	17	1.48
48575221--48575322	37	2.6	38	75	6	98	21	19	27	31	1.97
48579469--48579521	16	3.4	15	82	7	61	28	0	1	69	0.99
48579479--48579523	8	5.8	8	84	5	65	28	0	0	71	0.87
48579471--48579524	15	3.4	16	82	7	65	27	0	3	68	1.06
48579480--48579523	23	1.9	23	90	0	70	29	0	0	70	0.88
48579695--48579754	8	7.6	8	77	17	63	33	0	3	63	1.11
48580730--48580813	30	2.8	29	89	5	123	59	9	20	10	1.58
48582432--48582501	23	3.0	23	87	8	106	41	4	15	38	1.67
48586273--48586339	12	5.6	12	78	3	73	71	16	2	8	1.24
48586363--48586469	21	5.3	20	74	14	78	68	14	8	8	1.39
48586374--48586404	16	1.9	16	93	0	53	74	9	6	9	1.23
48586316--48586418	49	2.1	47	82	8	118	69	17	3	8	1.29
48586401--48586458	21	2.8	20	92	7	82	65	17	10	6	1.44
48587813--48587857	23	2.0	23	86	0	63	31	13	20	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48587887--48587920	13	2.4	15	90	9	54	32	14	11	41	1.82
48588069--48588183	58	2.0	58	91	3	187	46	20	0	33	1.51
48590876--48590908	17	1.9	17	88	11	50	66	0	3	30	1.06
48592311--48592352	17	2.3	18	80	8	50	19	2	7	71	1.20
48598955--48599006	22	2.4	22	78	12	61	61	0	0	38	0.96
48598966--48599030	29	2.2	29	83	5	87	58	0	0	41	0.98
48598961--48599011	22	2.3	22	86	3	66	60	0	0	39	0.97
48599468--48599492	2	12.5	2	100	0	50	52	0	48	0	1.00
48604413--48604908	115	4.4	115	81	7	613	43	15	8	31	1.77
48604413--48604908	221	2.2	224	84	6	655	43	15	8	31	1.77
48606255--48606314	28	2.1	28	90	6	95	25	13	31	30	1.93
48606294--48606434	59	2.4	58	82	3	176	34	6	29	29	1.82
48607027--48607065	20	2.0	20	85	10	53	10	46	20	23	1.81
48607518--48607551	3	11.3	3	100	0	68	35	0	0	64	0.94
48608338--48608426	17	5.2	17	84	8	110	57	4	2	35	1.32
48608342--48608408	6	11.7	6	70	20	54	53	4	1	40	1.30
48608696--48608740	19	2.3	19	84	7	54	44	2	0	53	1.13
48608698--48608746	21	2.3	22	80	16	59	42	4	0	53	1.20
48609335--48609622	111	2.5	115	83	5	345	52	16	9	21	1.71
48615428--48615464	18	2.1	18	89	0	56	54	0	8	37	1.30
48617286--48617334	20	2.4	21	76	6	57	55	8	4	32	1.48
48617547--48617586	21	2.0	20	85	14	55	47	2	2	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48627159--48627219	32	1.9	32	83	12	81	39	0	0	60	0.97
48628551--48628612	21	3.0	21	88	4	90	59	8	6	25	1.50
48638729--48638942	79	2.7	77	80	5	223	21	17	27	33	1.96
48640710--48640806	39	2.5	39	88	3	133	23	22	21	31	1.98
48646851--48646970	58	2.1	57	84	6	152	30	0	21	47	1.57
48647190--48647234	23	2.0	23	86	0	63	35	20	13	31	1.91
48647597--48647675	30	2.6	29	80	7	86	50	0	2	46	1.14
48647911--48647940	14	2.1	15	93	6	53	60	0	0	40	0.97
48651850--48651892	18	2.4	18	84	0	59	65	0	0	34	0.93
48651980--48652023	21	2.2	20	88	12	63	56	0	2	40	1.11
48651980--48652023	20	2.1	21	88	12	65	56	0	2	40	1.11
48652700--48652745	2	23.0	2	95	0	83	52	0	0	47	1.00
48654814--48654883	19	3.5	19	86	5	86	52	8	0	38	1.32
48658652--48658679	3	9.3	3	100	0	56	35	32	0	32	1.58
48661002--48661126	23	5.3	23	84	5	108	13	21	20	44	1.86
48661033--48661171	71	2.0	69	86	11	192	15	20	19	44	1.86
48664339--48664363	7	3.6	7	100	0	50	24	0	0	76	0.80
48664387--48664426	21	1.9	21	85	10	55	32	0	2	65	1.06
48678034--48678132	49	2.0	50	86	2	137	44	7	19	29	1.77
48679581--48679620	22	1.9	21	85	10	55	50	2	0	47	1.14
48680519--48680547	15	2.0	15	93	6	51	55	0	0	44	0.99
48680521--48680588	7	10.0	7	84	10	54	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48682973--48683070	31	3.2	31	69	16	94	37	4	1	57	1.25
48682977--48683101	62	2.0	64	92	3	209	35	3	1	60	1.23
48683817--48683867	26	2.0	26	84	0	66	41	1	5	50	1.37
48685752--48685951	101	2.0	101	81	2	231	39	10	3	47	1.55
48688681--48688829	23	6.4	24	88	6	148	11	22	22	43	1.85
48688702--48688828	46	2.7	46	91	2	200	11	21	22	44	1.85
48688681--48688874	69	2.8	68	83	10	214	11	23	21	42	1.86
48689418--48689580	29	5.5	29	76	9	141	34	26	3	35	1.72
48691563--48691628	20	3.3	19	73	12	62	34	3	3	59	1.28
48691583--48691645	30	2.2	30	83	13	80	31	3	3	61	1.27
48692228--48692265	15	2.5	15	86	4	58	60	0	2	36	1.11
48694376--48694418	23	2.0	22	86	9	61	48	11	13	25	1.77
48696413--48696463	18	2.8	18	83	13	61	43	7	5	43	1.57
48721366--48721404	15	2.5	17	80	19	50	33	0	0	66	0.92
48727021--48727074	28	2.0	27	85	10	74	33	9	9	48	1.67
48727342--48727433	41	2.2	42	84	5	125	32	17	19	30	1.95
48727355--48727444	41	2.2	41	91	0	144	24	21	21	33	1.97
48739304--48739350	16	2.9	16	87	0	67	27	27	0	44	1.55
48743097--48743140	22	2.0	22	100	0	88	27	13	27	31	1.94
48749832--48749882	23	2.3	21	80	9	57	66	3	0	29	1.09
48751292--48751320	14	2.0	15	93	6	51	44	13	6	34	1.71
48752325--48752368	17	2.6	17	77	0	52	77	2	13	6	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48755236--48755317	43	1.9	43	100	0	164	34	9	15	40	1.81
48759366--48759445	39	2.0	40	90	2	126	30	21	16	32	1.95
48764313--48764392	39	2.0	40	95	2	144	30	22	17	30	1.97
48764317--48764409	39	2.4	38	85	7	107	30	23	17	29	1.97
48771739--48771789	17	2.9	18	82	11	70	33	0	0	66	0.92
48771978--48772025	20	2.3	20	85	3	60	64	2	4	29	1.23
48772448--48772474	3	9.0	3	100	0	54	66	0	33	0	0.92
48773782--48773818	7	5.3	7	96	0	65	29	27	10	32	1.90
48780040--48780078	6	6.5	6	87	0	51	46	0	30	23	1.53
48784791--48784949	87	1.8	87	91	2	266	36	17	8	37	1.81

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