genome.fa.s11.2.7.7.80.10.50.1000.18.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  18  of  143  ( 17057 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)
5514117--5514156	20	2.0	20	90	0	62	32	7	17	42	1.77
5528017--5528081	29	2.2	29	80	0	76	41	18	21	18	1.90
5528828--5528862	5	7.0	5	100	0	70	80	0	0	20	0.72
5529681--5529724	23	1.9	23	85	0	61	13	2	6	77	1.07
5530105--5530143	8	4.6	8	84	9	51	10	2	5	82	0.93
5535403--5535446	23	1.9	23	81	9	54	47	4	4	43	1.44
5537077--5537120	3	14.7	3	95	0	79	0	34	2	63	1.07
5544179--5544253	24	3.1	24	98	0	141	54	8	13	24	1.65
5546938--5546993	25	2.2	26	81	9	62	67	3	1	26	1.16
5551114--5551149	17	2.1	17	100	0	72	47	5	30	16	1.70
5558743--5558804	25	2.6	23	75	12	61	43	4	4	46	1.46
5565577--5565652	37	2.1	37	100	0	152	23	15	18	42	1.89
5569627--5569732	31	3.5	29	72	17	83	34	15	8	41	1.77
5576081--5576111	16	2.0	16	93	6	55	58	0	6	35	1.24
5576346--5576391	23	2.0	23	83	12	58	52	0	4	43	1.21
5576529--5576585	3	19.0	3	100	0	114	33	0	0	66	0.92
5577406--5577456	18	2.8	18	87	3	66	33	0	0	66	0.92
5577407--5577443	13	2.8	14	84	8	51	29	0	0	70	0.88
5578332--5578376	18	2.3	20	81	14	67	40	4	6	48	1.49
5578339--5578378	18	2.2	18	95	0	71	37	5	7	50	1.53
5582067--5582121	17	3.1	17	75	17	58	25	0	5	69	1.10
5582070--5582127	17	3.2	17	77	15	55	27	1	5	65	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5582409--5582449	9	4.8	9	85	11	59	48	0	0	51	1.00
5582409--5582451	17	2.5	17	81	7	52	48	0	0	51	1.00
5582613--5582657	22	2.0	23	83	12	58	31	4	20	44	1.71
5591006--5591901	208	4.3	208	86	2	1228	22	21	17	38	1.93
5591244--5591405	85	1.9	85	83	5	211	22	25	14	37	1.93
5591718--5592060	159	2.2	159	86	5	471	24	20	18	37	1.94
5592170--5592411	39	6.2	39	78	2	225	28	17	27	26	1.97
5592174--5592402	117	2.0	117	88	0	341	29	17	27	25	1.97
5592666--5592887	49	4.5	48	70	6	131	18	28	15	37	1.92
5593831--5593868	18	2.2	18	90	4	60	2	15	0	81	0.80
5593848--5593891	23	2.0	23	86	4	63	9	11	0	79	0.93
5599431--5599629	59	3.4	58	84	4	240	41	4	20	34	1.71
5599431--5599621	30	6.4	30	80	4	217	40	4	20	34	1.72
5599433--5599597	89	1.9	89	83	5	217	40	4	21	33	1.73
5608124--5608174	24	2.1	24	100	0	102	56	3	9	29	1.49
5612360--5612425	12	5.4	12	75	8	53	22	13	6	57	1.58
5622809--5623099	37	7.9	37	83	1	352	13	18	30	36	1.90
5622809--5623099	74	3.9	74	87	0	404	13	18	30	36	1.90
5622939--5623008	21	3.6	21	64	25	53	12	21	31	34	1.91
5623577--5625318	870	2.0	870	97	0	3297	32	15	24	27	1.95
5626415--5626450	18	2.1	18	89	5	56	41	0	25	33	1.55
5632946--5633081	37	3.7	37	87	0	200	14	19	29	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5633895--5634193	37	8.1	37	83	3	334	15	16	30	37	1.90
5633982--5634051	16	4.1	16	70	18	52	15	15	30	38	1.89
5633913--5634199	111	2.6	111	84	2	380	15	17	29	37	1.90
5635390--5635462	34	2.1	34	85	5	94	32	10	15	41	1.82
5636868--5636976	45	2.4	45	81	0	110	29	22	15	33	1.95
5638016--5638133	61	1.9	61	96	0	218	35	4	11	49	1.58
5641543--5641725	91	2.0	91	96	0	339	45	16	10	27	1.81
5642625--5642709	29	2.9	29	74	10	84	27	28	24	20	1.99
5647900--5648032	30	4.5	30	75	11	107	36	23	0	40	1.55
5647962--5648225	29	8.9	29	68	10	133	32	26	2	38	1.70
5647941--5648225	119	2.4	118	83	3	358	32	25	2	39	1.69
5647905--5648229	59	5.5	59	81	3	341	32	25	2	40	1.69
5653708--5653784	38	2.0	38	97	0	145	27	11	7	53	1.64
5654179--5654270	40	2.3	40	96	0	175	32	11	10	44	1.76
5665080--5665384	151	2.0	151	99	0	601	48	11	9	30	1.71
5665814--5665847	6	5.7	6	100	0	68	35	0	0	64	0.94
5668672--5668717	20	2.2	20	96	3	83	4	8	65	21	1.38
5672513--5672704	95	2.0	96	95	1	350	29	13	26	30	1.94
5681524--5681562	7	5.7	7	93	6	71	56	0	12	30	1.37
5681524--5681562	13	2.9	14	92	7	71	56	0	12	30	1.37
5685428--5685464	13	2.8	14	88	8	51	48	2	0	48	1.15
5698906--5699000	11	8.5	11	79	13	97	40	0	4	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5698904--5698989	5	16.0	5	78	17	84	40	0	2	56	1.12
5699759--5699802	19	2.2	20	80	4	54	52	0	2	45	1.13
5700450--5700512	32	2.1	30	85	8	83	14	15	11	58	1.63
5700560--5700874	161	2.0	162	94	0	551	25	17	13	43	1.86
5700559--5700923	161	2.3	161	89	1	518	24	19	15	41	1.89
5700965--5701217	59	4.3	58	86	3	319	33	28	2	34	1.72
5701139--5701220	29	2.8	29	80	7	94	32	29	4	32	1.79
5700963--5701219	118	2.2	117	88	2	372	33	29	2	34	1.72
5700963--5701255	59	5.0	57	81	6	255	32	30	4	33	1.77
5713482--5713790	161	1.9	162	93	0	539	25	18	12	42	1.86
5713496--5713845	161	2.2	161	86	2	479	25	19	14	40	1.90
5713874--5714134	29	8.9	29	73	20	199	32	31	2	32	1.71
5713887--5714134	59	4.2	59	94	1	437	33	30	2	33	1.69
5721680--5721738	28	2.1	28	84	3	75	11	1	20	66	1.33
5721677--5721731	28	2.0	28	88	0	83	12	0	23	63	1.29
5721926--5721965	13	2.9	14	88	7	64	75	0	25	0	0.81
5722301--5722341	21	1.9	21	85	5	55	48	12	4	34	1.62
5724764--5724792	14	2.0	15	93	6	51	34	13	13	37	1.85
5726544--5726594	2	25.5	2	100	0	102	50	0	0	49	1.00
5730434--5730476	2	21.5	2	100	0	86	51	0	0	48	1.00
5735028--5735055	14	2.0	14	100	0	56	35	0	0	64	0.94
5735819--5735904	44	2.0	44	97	0	163	32	15	15	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5747126--5747323	98	2.0	98	98	0	378	20	17	18	43	1.88
5753932--5754009	20	3.9	20	85	6	86	10	25	25	38	1.87
5759380--5759438	30	2.0	30	86	6	84	27	20	13	38	1.90
5762298--5762604	59	5.2	59	87	4	399	36	1	27	33	1.68
5762447--5762633	28	6.5	28	73	15	166	35	1	28	34	1.65
5762505--5762676	87	2.0	86	89	1	263	34	1	29	34	1.68
5762298--5762604	119	2.6	117	88	3	372	36	1	27	33	1.68
5764541--5764587	13	3.7	13	88	2	60	25	6	25	42	1.78
5764517--5764584	13	5.5	12	76	10	57	22	10	26	41	1.85
5765016--5765339	152	2.2	147	89	2	495	18	24	23	33	1.97
5777217--5777247	15	2.1	15	93	0	53	25	0	12	61	1.32
5778249--5778299	13	4.2	13	76	23	56	45	0	9	45	1.36
5778360--5778399	20	2.1	20	86	9	57	62	0	0	37	0.95
5784096--5784142	4	12.8	4	90	4	57	72	0	25	2	0.96
5786611--5786682	34	2.1	35	82	7	85	30	1	2	65	1.15
5788869--5789074	105	2.0	105	95	0	367	38	18	20	22	1.93
5796281--5796356	34	2.2	34	88	0	107	25	17	10	47	1.79
5798955--5798981	4	6.8	4	100	0	54	48	0	0	51	1.00
5803181--5803261	28	2.9	28	88	1	117	20	6	16	56	1.61
5808826--5808904	34	2.3	34	80	0	95	26	18	11	43	1.84
5825864--5825924	20	3.0	21	80	20	69	49	0	0	50	1.00
5825868--5825921	28	2.0	27	92	3	90	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5825855--5825922	9	7.2	9	77	21	68	47	1	0	51	1.09
5829647--5829710	29	2.2	29	88	2	94	29	10	9	50	1.69
5833041--5833074	14	2.4	14	90	0	50	73	0	20	5	1.04
5834171--5834238	34	2.0	34	97	0	127	39	2	11	45	1.56
5834679--5834725	24	2.0	24	87	8	69	68	2	0	29	1.02
5845748--5845816	23	3.0	22	77	14	68	60	2	5	30	1.34
5846748--5846798	22	2.3	23	82	3	59	50	0	1	47	1.12
5847845--5847869	12	2.1	12	100	0	50	52	8	8	32	1.60
5848030--5848060	6	5.2	6	100	0	62	67	0	16	16	1.23
5865882--5865976	47	2.0	47	95	0	172	6	27	21	45	1.75

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