genome.fa.s3.2.7.7.80.10.50.1000.11.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: 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  11  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)
5113305--5113377	36	2.0	36	100	0	146	27	27	10	34	1.90
5118198--5118233	18	2.0	18	94	0	63	63	0	5	30	1.17
5119768--5119864	51	1.9	51	82	2	124	35	16	16	31	1.91
5119831--5120458	62	10.5	62	73	12	394	28	16	15	39	1.89
5120130--5120413	55	5.0	55	71	19	206	29	16	16	38	1.90
5119782--5120413	116	5.4	114	79	11	515	29	16	15	38	1.89
5121310--5121368	17	3.7	17	71	28	58	62	5	5	27	1.37
5121295--5121386	30	3.1	31	90	6	145	63	4	5	27	1.36
5122578--5122627	20	2.5	20	83	0	64	52	2	6	40	1.38
5122801--5122835	15	2.2	16	90	5	54	71	0	2	25	1.00
5123704--5123762	22	2.7	23	73	7	68	16	6	40	35	1.76
5125607--5125649	21	2.0	21	90	4	68	16	6	4	72	1.24
5128075--5128245	62	2.8	61	79	10	188	38	16	15	28	1.90
5145645--5145709	29	2.2	31	86	8	91	32	12	3	52	1.54
5146652--5146691	14	2.9	14	84	0	53	52	5	0	42	1.23
5149232--5149582	174	2.0	174	85	3	474	35	17	17	29	1.93
5149617--5149676	28	2.1	28	84	6	75	33	11	6	48	1.66
5150485--5150542	31	1.9	30	86	10	82	24	0	22	53	1.46
5161350--5161376	13	2.1	13	100	0	54	44	0	14	40	1.46
5162332--5162379	25	1.9	25	83	8	62	75	0	10	14	1.06
5163441--5163475	12	2.9	12	100	0	70	40	0	0	60	0.97
5166808--5166839	5	6.4	5	100	0	64	40	37	0	21	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5175975--5176007	15	2.3	15	89	5	50	42	3	0	54	1.15
5178647--5178685	20	2.0	20	85	10	53	41	2	2	53	1.28
5182993--5183036	14	2.8	16	80	16	56	52	0	0	47	1.00
5183363--5183398	16	2.1	16	90	10	54	44	0	0	55	0.99
5187853--5188027	87	2.0	87	98	0	341	37	17	16	28	1.91
5193043--5193081	6	6.5	6	87	0	51	46	0	30	23	1.53
5243889--5243943	21	2.5	23	74	14	62	41	5	0	52	1.24
5243892--5243942	22	2.3	22	78	18	61	41	5	0	52	1.25
5245255--5245369	56	2.0	56	89	6	176	46	0	15	37	1.52
5255340--5255383	18	2.5	18	82	10	56	36	15	2	45	1.59
5258042--5258115	28	2.6	28	85	6	87	31	6	6	55	1.52
5274300--5274329	5	6.2	5	92	7	53	60	0	0	40	0.97
5275374--5275618	85	2.9	85	90	3	386	37	11	12	38	1.79
5280727--5281494	258	3.0	258	95	0	1344	19	22	17	40	1.91
5291404--5291451	25	1.9	25	87	8	71	37	22	8	31	1.84
5292841--5294057	607	2.0	607	100	0	2434	30	19	19	30	1.96
5294942--5295486	269	2.0	269	96	1	1002	31	22	15	30	1.94
5300302--5300465	23	7.3	23	75	16	139	11	23	22	42	1.86
5300302--5300422	48	2.6	46	81	6	145	12	24	22	40	1.88
5300387--5300461	39	1.9	39	94	0	132	10	22	22	44	1.84
5300446--5300517	25	2.8	25	95	2	126	11	29	20	38	1.87
5305252--5305288	17	2.1	18	90	5	58	67	5	0	27	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5305238--5305290	22	2.5	22	81	9	56	67	7	0	24	1.16
5326672--5326735	17	3.8	17	77	6	67	65	0	34	0	0.93
5326766--5326804	18	2.2	18	90	4	62	17	23	2	56	1.53
5339848--5339889	18	2.2	20	87	8	61	30	0	0	69	0.89
5340894--5340973	38	2.2	35	84	10	99	32	10	5	52	1.56
5343161--5343204	16	2.6	17	80	16	56	75	4	4	15	1.14
5344996--5345021	6	4.3	6	100	0	52	53	0	30	15	1.42
5346451--5346508	29	2.0	30	82	3	73	32	10	15	41	1.81
5346670--5346735	30	2.2	29	84	7	80	48	12	7	31	1.68
5348776--5348814	15	2.5	17	88	12	57	23	0	2	74	0.94
5351022--5351063	18	2.5	17	82	17	52	23	16	11	47	1.80
5355663--5355705	21	2.0	21	100	0	86	27	34	9	27	1.88
5364674--5364698	3	8.3	3	100	0	50	32	36	0	32	1.58
5380343--5380376	18	1.9	17	88	5	50	52	0	2	44	1.16
5381133--5381171	18	2.1	19	85	4	53	33	0	25	41	1.56
5382178--5382228	20	2.3	23	74	19	54	54	7	7	29	1.57
5399379--5399546	50	3.4	49	87	4	230	23	12	19	44	1.84
5399573--5399786	39	5.4	39	75	9	184	26	14	23	35	1.93
5399613--5399748	40	3.4	41	79	9	172	26	11	25	36	1.90
5399574--5399790	80	2.7	79	90	4	339	26	13	23	35	1.93
5399824--5399968	51	2.9	50	82	2	164	17	22	21	38	1.93
5404293--5404386	47	2.0	47	100	0	188	31	14	12	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5410211--5410262	26	2.0	26	96	0	95	28	3	21	46	1.69
5420357--5420384	11	2.5	11	100	0	56	25	0	0	75	0.81
5420658--5420718	26	2.5	25	75	24	67	34	0	4	60	1.18
5420452--5420873	148	2.8	150	86	4	611	36	0	14	48	1.50
5420914--5420956	16	2.8	15	86	6	59	27	0	4	67	1.10
5420919--5421028	37	2.9	40	66	21	101	30	0	6	62	1.26
5422381--5422450	29	2.5	28	77	13	74	15	15	10	58	1.62
5426544--5426613	21	3.2	21	64	28	56	25	30	8	35	1.86
5426529--5426621	44	2.1	44	100	0	186	25	30	8	35	1.86
5427939--5428743	209	3.9	209	96	0	1481	32	17	18	31	1.94
5427939--5428743	415	1.9	417	96	1	1490	32	17	18	31	1.94
5444306--5444332	6	4.5	6	100	0	54	29	55	0	14	1.40
5444477--5444506	11	2.7	11	89	0	51	16	0	23	60	1.36
5452958--5452992	14	2.5	14	90	0	52	34	2	2	60	1.26
5456885--5456946	31	2.0	31	90	0	97	40	3	4	51	1.39
5457916--5457946	3	10.3	3	100	0	62	67	0	0	32	0.91
5478970--5479023	23	2.3	23	84	6	65	68	1	7	22	1.24
5479083--5479143	12	5.2	12	82	4	70	70	18	3	8	1.26
5479083--5479151	23	3.0	23	78	2	75	72	15	2	8	1.21
5479145--5479189	19	2.3	19	88	3	63	73	8	6	11	1.25
5479145--5479225	22	3.8	22	72	9	69	70	14	6	8	1.32
5488336--5488399	22	2.9	22	76	15	69	43	3	3	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5494829--5494954	23	5.5	22	78	9	94	41	23	23	12	1.88
5494896--5494971	23	3.3	23	88	0	107	46	18	23	11	1.82
5497667--5497708	15	2.8	15	85	0	66	28	26	14	30	1.95
5498586--5498627	10	3.9	10	82	17	57	42	0	2	54	1.13
5499211--5499245	17	2.1	17	88	0	52	65	0	34	0	0.93
5500532--5500566	2	17.0	2	94	5	61	48	2	0	48	1.16
5502556--5502612	30	1.9	30	85	0	78	38	26	1	33	1.67
5502594--5502700	29	3.7	29	79	8	110	31	18	7	42	1.78
5502599--5502748	58	2.6	58	77	10	146	34	22	9	34	1.86
5502599--5502748	29	5.1	28	72	7	93	34	22	9	34	1.86
5505874--5505928	25	2.2	24	78	9	58	41	1	7	49	1.41
5512738--5512801	31	2.1	31	84	0	83	45	7	14	32	1.73
5519097--5519154	31	1.9	31	85	3	82	46	10	1	41	1.48
5520142--5520480	127	2.6	128	85	5	436	36	8	12	43	1.73
5523816--5523845	14	2.1	14	93	0	51	16	6	3	73	1.18
5530975--5531020	18	2.6	18	89	6	67	54	0	2	43	1.12
5549209--5549316	33	3.3	33	81	5	110	30	23	27	18	1.98
5549246--5549314	33	2.1	34	91	2	113	28	23	33	14	1.94
5554963--5554992	11	2.7	11	100	0	60	40	0	0	60	0.97
5555797--5555822	12	2.2	12	100	0	52	30	7	15	46	1.74
5557012--5557042	12	2.6	12	89	0	53	58	0	32	9	1.31
5560457--5560724	87	3.0	88	85	4	344	36	20	10	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5561131--5561339	92	2.3	90	81	2	222	34	10	15	38	1.82
5570077--5570124	25	2.0	24	84	12	62	18	4	4	72	1.17
5590015--5590049	3	11.7	3	100	0	70	65	0	0	34	0.93
5591512--5591537	6	4.3	6	100	0	52	0	15	15	69	1.20
5597057--5597099	21	2.0	22	86	4	61	48	0	4	46	1.22
5601474--5601529	28	2.0	28	96	0	103	51	17	5	25	1.66
5602108--5602177	31	2.3	31	82	5	79	32	11	8	47	1.70
5609085--5609112	13	2.2	13	100	0	56	39	0	14	46	1.44
5614831--5614895	33	1.9	34	84	12	89	35	9	15	40	1.79
5614818--5614909	33	2.8	32	78	15	84	36	10	14	38	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