genome.fa.s4.2.7.7.80.10.50.1000.153.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  153  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)
47593400--47593447	23	2.1	22	85	11	62	66	2	2	29	1.14
47596724--47596792	30	2.5	27	78	15	70	43	13	5	37	1.67
47598073--47598108	18	1.9	19	88	5	56	75	0	0	25	0.81
47599046--47599149	37	2.7	38	76	5	93	31	26	19	22	1.97
47599252--47599288	12	3.1	12	92	0	65	21	27	0	51	1.48
47599252--47599284	6	5.5	6	92	0	57	21	30	0	48	1.50
47599435--47599480	22	2.1	22	100	0	92	32	17	4	45	1.68
47599439--47599488	22	2.5	20	87	12	68	34	20	4	42	1.70
47603726--47603871	73	2.0	73	95	0	265	32	20	17	28	1.96
47609729--47609786	22	2.5	24	78	13	68	18	6	3	70	1.24
47612470--47612529	6	10.2	6	96	3	113	16	0	0	83	0.65
47613816--47613952	60	2.3	60	81	5	154	37	4	24	33	1.75
47613938--47614133	31	6.5	29	73	14	141	38	2	22	36	1.68
47613933--47614133	60	3.4	57	80	13	226	37	2	23	36	1.69
47613909--47614133	120	1.9	120	84	9	307	37	2	23	36	1.69
47615195--47615255	3	20.0	3	78	9	52	37	1	1	59	1.17
47616791--47616840	24	2.2	22	86	13	66	22	2	4	72	1.12
47617233--47617324	6	15.8	6	73	18	79	42	1	0	56	1.06
47617228--47617337	17	6.8	17	82	13	124	42	0	0	55	1.12
47617921--47617963	21	2.0	22	90	4	70	32	6	4	55	1.47
47617926--47617970	21	2.1	21	87	0	63	35	8	4	51	1.54
47618066--47618104	14	2.6	16	88	8	55	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47618066--47618104	10	3.9	10	80	12	53	64	0	0	35	0.94
47619078--47619255	29	6.1	29	70	14	109	33	30	1	34	1.68
47619091--47619571	59	8.2	59	88	3	629	33	28	2	35	1.71
47619149--47619578	29	14.8	29	69	18	209	32	29	3	34	1.74
47619091--47619571	175	2.7	174	86	4	684	33	28	2	35	1.71
47619091--47619578	117	4.2	118	87	3	634	33	29	2	34	1.72
47628462--47628512	18	2.9	18	85	2	68	64	1	1	31	1.15
47629818--47629850	17	1.9	17	100	0	66	42	0	3	54	1.15
47631231--47631261	15	2.1	14	94	5	53	41	22	6	29	1.78
47633607--47633669	31	2.0	31	87	0	90	46	11	7	34	1.69
47635466--47635627	78	2.1	78	100	0	324	29	23	9	38	1.86
47640757--47640813	29	1.9	30	86	10	82	36	10	7	45	1.66
47647225--47647297	34	2.2	33	83	13	89	52	13	4	30	1.59
47647386--47647431	24	1.9	24	81	0	56	56	10	4	28	1.53
47650000--47650160	80	2.0	80	92	0	268	20	19	25	34	1.96
47654675--47654714	21	1.9	21	85	10	55	40	22	0	37	1.54
47668376--47668435	28	2.1	28	82	11	70	36	0	1	61	1.06
47668375--47668434	27	2.2	27	80	13	70	35	0	1	63	1.05
47670070--47670100	2	15.5	2	100	0	62	48	0	0	51	1.00
47671128--47671170	3	14.3	3	100	0	86	34	0	0	65	0.93
47671481--47671525	17	2.6	18	77	19	51	37	6	4	51	1.49
47671915--47671948	15	2.1	17	89	10	54	38	2	11	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47672136--47672166	14	2.1	15	94	5	55	51	0	0	48	1.00
47679985--47680016	3	11.0	3	93	6	57	0	31	0	68	0.90
47681486--47681529	16	2.7	17	82	6	56	59	15	6	18	1.58
47684691--47685122	59	7.4	58	78	10	407	33	2	30	33	1.72
47684695--47684850	30	5.2	31	69	24	120	34	3	30	31	1.76
47684837--47685228	30	13.3	30	67	22	142	32	2	29	35	1.71
47685005--47685241	89	2.7	88	82	6	280	32	3	27	35	1.74
47684690--47685139	234	1.9	234	84	4	604	33	2	30	33	1.73
47685175--47685241	30	2.2	30	79	10	75	32	1	26	38	1.66
47687128--47687152	13	1.9	13	100	0	50	52	8	0	40	1.31
47687096--47687143	17	2.8	17	87	6	62	56	6	0	37	1.25
47687715--47687819	49	2.1	49	92	3	176	19	20	21	38	1.94
47687498--47688110	249	2.5	248	90	1	931	19	22	20	37	1.94
47687947--47688068	49	2.5	49	88	5	176	19	24	18	37	1.94
47687996--47688190	86	2.3	86	86	0	264	21	25	18	34	1.96
47694586--47694613	3	9.3	3	100	0	56	0	35	0	64	0.94
47700584--47700795	30	7.3	29	71	17	129	32	2	30	34	1.71
47700540--47700809	58	4.6	58	78	8	246	32	2	31	33	1.72
47701276--47701300	13	1.9	13	100	0	50	52	8	0	40	1.31
47701244--47701291	17	2.8	17	87	6	62	56	6	0	37	1.25
47702133--47702189	30	1.9	30	85	7	80	57	8	0	33	1.29
47702420--47702453	12	2.8	12	87	12	52	44	0	14	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47705762--47705886	23	5.5	22	85	8	135	12	20	24	43	1.86
47705765--47705883	45	2.6	46	78	6	127	12	21	24	42	1.87
47707420--47708201	388	2.0	389	93	0	1332	26	25	13	35	1.92
47713540--47713615	36	2.1	36	87	0	107	26	17	13	43	1.85
47722677--47722728	27	1.9	27	92	0	86	15	28	34	21	1.94
47724096--47724162	27	2.5	27	74	13	75	19	16	35	28	1.93
47727108--47727157	26	1.9	26	87	0	73	30	0	12	58	1.34
47730455--47730488	17	2.0	17	88	0	50	50	2	2	44	1.32
47730910--47730947	20	1.9	20	84	10	51	31	0	0	68	0.90
47743069--47743138	29	2.4	28	81	9	86	47	1	5	45	1.35
47744988--47745045	29	2.0	30	89	3	91	32	10	8	48	1.68
47744983--47745056	30	2.5	31	82	6	98	32	10	9	47	1.71
47750241--47750373	65	2.0	65	95	0	239	30	23	13	33	1.93
47750794--47750831	7	5.4	7	100	0	76	13	26	0	60	1.33
47752164--47752196	3	11.0	3	100	0	66	33	0	0	66	0.92
47754608--47754702	42	2.3	42	94	0	163	40	10	26	23	1.87
47762104--47762132	13	2.1	14	93	6	51	55	3	20	20	1.58
47766684--47766753	35	2.0	35	100	0	140	48	20	5	25	1.71
47769288--47769313	6	4.3	6	100	0	52	69	0	0	30	0.89
47772331--47772374	21	2.1	21	100	0	88	22	0	54	22	1.45
47779209--47779466	29	8.8	29	68	20	137	34	3	29	32	1.73
47779207--47779477	30	9.2	29	68	16	132	33	3	30	32	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47779207--47779466	59	4.4	59	90	0	414	34	3	29	32	1.74
47781124--47781154	16	1.9	16	93	0	53	12	6	58	22	1.58
47781411--47781489	6	13.2	6	79	15	83	49	0	2	48	1.14
47781411--47781499	11	7.6	11	71	15	63	49	1	2	47	1.21
47781427--47781499	17	4.6	16	81	11	87	53	1	2	42	1.23
47787144--47787193	24	2.0	25	88	3	75	34	2	0	64	1.05
47789747--47789810	32	2.0	32	84	6	85	68	4	20	6	1.30
47790894--47790947	29	2.0	26	82	10	63	62	7	5	24	1.42
47796099--47796147	19	2.5	20	77	12	57	51	4	6	38	1.46
47797903--47797953	24	2.2	24	85	3	68	70	0	0	29	0.87
47798963--47798997	14	2.6	13	86	8	52	71	5	2	20	1.19
47804908--47805355	195	2.3	194	82	4	510	24	27	21	27	1.99
47807927--47807964	20	1.9	19	89	5	58	26	15	13	44	1.83
47813020--47813061	22	2.0	22	86	13	61	42	7	2	47	1.43
47815372--47815496	56	2.2	56	100	0	250	22	24	8	44	1.79
47827028--47827098	7	10.4	7	80	11	67	63	1	0	35	1.03
47827259--47827306	24	2.0	24	84	12	62	29	0	4	66	1.10
47827278--47827320	20	2.2	19	83	4	50	30	0	4	65	1.13
47827940--47827980	2	21.0	2	90	5	66	46	0	0	53	1.00
47833404--47833497	45	2.1	45	92	4	154	59	5	4	30	1.39
47833907--47833963	29	2.0	29	82	3	71	38	5	3	52	1.41
47837850--47837903	23	2.3	23	90	0	90	51	9	9	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47838104--47838154	24	2.1	24	92	0	84	62	9	5	21	1.47
47838535--47838576	18	2.3	18	80	8	50	23	0	2	73	0.94
47838543--47838581	19	2.1	19	90	9	62	25	0	5	69	1.09
47838538--47838590	20	2.7	19	82	14	63	26	1	3	67	1.17
47843503--47843540	3	12.7	3	100	0	76	65	0	0	34	0.93
47845881--47846025	77	1.9	77	85	0	200	27	7	22	42	1.80
47856477--47856515	20	2.0	20	85	9	55	2	15	2	79	0.95
47856488--47857003	207	2.5	205	88	4	747	30	13	9	46	1.75
47864886--47864951	13	5.1	13	74	7	62	36	3	18	42	1.66
47864889--47864951	26	2.4	26	76	10	74	38	3	17	41	1.65

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