genome.fa.s10.2.7.7.80.10.50.1000.13.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   

This is table  13  of  135  ( 16099 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)
5901666--5901869	53	3.8	53	71	8	144	39	14	15	30	1.88
5903631--5903672	18	2.3	18	80	8	50	33	2	2	61	1.21
5906164--5906203	21	2.0	19	90	9	62	30	20	0	50	1.49
5911568--5911615	23	2.1	23	84	0	60	41	8	6	43	1.60
5914601--5914673	13	5.6	13	73	3	58	43	1	10	43	1.48
5919165--5919222	31	1.9	30	86	10	82	46	8	8	36	1.65
5920234--5920294	30	2.1	29	81	9	70	47	0	1	50	1.10
5920504--5920551	17	2.6	17	90	9	69	64	8	6	20	1.43
5925466--5925512	4	12.2	4	86	8	62	78	0	21	0	0.75
5925514--5925539	9	2.9	9	100	0	52	53	0	46	0	1.00
5925680--5925714	18	1.9	18	88	0	52	28	0	14	57	1.38
5925734--5925811	23	3.3	23	74	15	61	24	0	10	65	1.23
5926650--5926695	14	3.1	15	71	22	51	60	8	0	30	1.26
5926648--5926697	16	3.2	16	73	21	61	60	8	0	32	1.26
5926730--5926829	30	3.4	30	76	8	105	35	6	14	45	1.69
5928019--5928103	43	2.0	43	86	4	118	32	11	8	47	1.70
5928671--5928806	45	3.0	45	91	0	209	31	28	19	19	1.97
5929066--5929144	21	3.8	21	75	9	72	48	29	1	21	1.58
5929072--5929129	14	4.3	13	76	6	53	48	25	1	24	1.61
5932148--5932190	20	2.2	20	87	4	61	0	32	0	67	0.91
5932289--5932327	19	2.1	19	95	0	69	69	17	0	12	1.19
5932717--5932783	24	2.8	24	97	0	125	35	20	1	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5935260--5935302	22	2.0	22	85	0	59	53	2	0	44	1.13
5936152--5936182	2	15.5	2	100	0	62	48	0	0	51	1.00
5942700--5942725	2	13.0	2	100	0	52	50	0	0	50	1.00
5948646--5948725	29	2.8	29	96	0	142	26	10	15	48	1.75
5951592--5951728	31	4.6	30	77	12	122	27	11	8	52	1.65
5951648--5951717	32	2.3	30	85	5	86	25	11	8	54	1.64
5953187--5953228	19	2.2	19	86	0	57	42	7	0	50	1.30
5954083--5954377	161	1.8	158	84	3	403	42	8	10	37	1.71
5954083--5954377	80	3.7	82	84	5	356	42	8	10	37	1.71
5954061--5954466	80	5.1	77	79	7	352	41	8	12	37	1.74
5954508--5954543	18	2.0	18	94	0	63	44	11	2	41	1.54
5954515--5954573	30	2.0	28	84	15	75	42	13	5	38	1.66
5956030--5956076	22	2.1	22	84	4	58	48	6	0	44	1.28
5956760--5956831	31	2.4	31	83	9	94	44	12	4	38	1.62
5958675--5958951	79	3.6	76	82	8	319	40	9	13	36	1.78
5958675--5958951	77	3.6	78	84	4	348	40	9	13	36	1.78
5967482--5967544	30	2.1	30	100	0	126	34	6	6	52	1.52
5967589--5967626	2	19.0	2	100	0	76	50	0	50	0	1.00
5970118--5970154	13	3.0	13	80	11	51	40	0	0	59	0.97
5970802--5970836	18	1.9	18	88	0	52	45	0	0	54	0.99
5972658--5972821	63	2.5	64	85	8	217	37	0	2	59	1.15
5972656--5972821	67	2.5	66	85	8	205	37	0	2	59	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5977821--5977877	6	9.0	6	81	11	69	78	1	19	0	0.83
5977822--5977876	19	2.9	18	80	15	74	80	1	18	0	0.81
5977820--5977876	25	2.2	27	84	9	82	80	1	17	0	0.79
5977822--5977877	20	2.8	20	84	10	80	78	1	19	0	0.84
5978800--5978945	50	2.9	50	86	4	204	34	19	24	21	1.96
5978800--5978976	50	3.5	50	85	1	194	36	16	24	22	1.94
5979031--5981208	80	27.2	80	93	1	3582	31	23	19	25	1.98
5979031--5981208	478	4.5	479	93	1	3621	31	23	19	25	1.98
5981731--5981894	63	2.5	64	85	8	217	37	0	2	59	1.15
5981729--5981894	67	2.5	66	85	8	205	37	0	2	59	1.15
6002652--6002698	19	2.5	20	82	10	62	42	2	0	55	1.12
6006625--6006667	22	2.0	23	86	9	63	55	2	4	37	1.33
6009176--6009235	15	4.1	15	82	8	79	33	15	15	36	1.88
6014839--6014984	58	2.5	58	85	11	192	47	2	0	50	1.18
6014903--6014984	32	2.9	26	69	19	74	50	0	1	48	1.08
6015153--6015224	16	4.5	16	87	0	108	29	29	4	37	1.76
6025976--6026045	26	2.6	28	73	15	67	61	8	2	27	1.39
6026079--6026123	21	2.0	23	83	8	58	53	0	13	33	1.40
6027464--6027600	64	2.1	64	82	5	170	29	20	29	19	1.97
6030886--6030912	2	13.5	2	100	0	54	48	0	0	51	1.00
6031201--6031452	105	2.4	105	85	0	333	33	17	17	30	1.94
6031369--6031538	86	2.0	86	86	6	238	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6032687--6032740	28	2.0	27	89	10	83	33	5	9	51	1.57
6038697--6038726	11	2.7	11	100	0	60	36	33	0	30	1.58
6041811--6042016	102	2.0	102	100	0	412	27	13	19	39	1.90
6050783--6050826	20	2.2	20	84	8	54	50	9	0	40	1.34
6064238--6064288	13	3.7	13	76	21	50	72	3	1	21	1.11
6072651--6072702	12	4.2	12	82	4	59	28	1	1	67	1.12
6072651--6072702	25	2.1	24	86	10	70	28	1	1	67	1.12
6077726--6077765	14	2.6	16	81	18	57	67	0	0	32	0.91
6077726--6077764	17	2.5	16	84	16	55	66	0	0	33	0.92
6083053--6083117	31	2.1	31	94	0	112	47	3	12	36	1.57
6088367--6088540	97	1.8	96	86	6	257	39	1	6	52	1.37
6088831--6088894	20	3.0	21	76	17	62	56	25	0	18	1.42
6107186--6107225	21	1.9	21	89	0	62	30	7	2	60	1.38
6116637--6116674	18	2.1	18	90	9	60	31	5	7	55	1.51
6116718--6116763	23	2.0	23	82	0	56	34	17	13	34	1.88
6116961--6116996	14	2.6	14	90	0	54	38	8	25	27	1.84
6120611--6120658	24	1.9	26	84	16	66	45	0	22	31	1.53
6120725--6120778	26	2.3	23	81	15	65	11	24	20	44	1.83
6120731--6120803	26	2.8	26	85	2	94	12	27	19	41	1.87
6121342--6121367	5	5.2	5	100	0	52	38	42	0	19	1.51
6136541--6136566	2	13.0	2	100	0	52	50	0	0	50	1.00
6141537--6141581	20	2.2	21	88	4	65	64	6	2	26	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6150229--6150379	29	5.2	29	68	24	102	35	2	26	35	1.71
6150168--6150379	59	3.6	58	81	8	259	34	2	27	34	1.72
6150453--6150798	162	2.1	162	92	1	568	43	12	18	25	1.85
6151245--6151283	16	2.6	14	81	14	51	0	25	2	71	0.98
6151582--6151624	16	2.6	16	81	7	50	37	0	4	58	1.19
6151581--6151623	3	14.0	3	80	4	50	34	0	4	60	1.17
6152395--6152463	17	4.1	16	80	10	75	55	5	1	37	1.33
6152395--6152463	34	2.0	34	88	0	102	55	5	1	37	1.33
6157239--6157292	25	2.2	25	96	0	99	25	11	16	46	1.80
6166636--6166694	28	2.1	28	81	6	66	33	1	3	61	1.23
6169160--6169208	23	2.2	22	82	13	64	57	4	4	34	1.37
6172978--6173017	20	2.0	21	90	5	64	57	0	2	40	1.12
6182512--6182539	7	4.0	7	100	0	56	28	28	42	0	1.56
6188099--6188136	6	6.3	6	100	0	76	65	15	0	18	1.27
6189254--6189379	63	2.0	61	87	6	182	42	15	11	30	1.82
6195988--6196048	32	1.9	32	86	3	88	34	11	13	40	1.80
6196629--6196681	24	2.2	24	86	0	70	43	1	5	49	1.37
6196637--6196688	24	2.2	24	89	0	77	36	1	3	57	1.28
6198796--6198866	37	2.0	35	86	10	99	39	1	2	56	1.23
6198796--6198870	12	6.7	11	71	19	50	40	1	2	56	1.22
6202509--6202552	16	2.7	16	75	3	52	34	2	2	61	1.21
6205377--6205431	27	2.1	26	82	3	65	67	1	0	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6207415--6207643	115	2.0	115	92	0	386	35	12	7	44	1.70
6208448--6208479	5	6.4	5	100	0	64	40	0	18	40	1.51
6218633--6218677	14	3.2	15	84	12	60	64	4	4	26	1.32
6222951--6223044	39	2.5	37	82	5	98	39	23	7	29	1.82
6223001--6223076	32	2.4	32	84	6	102	36	17	13	32	1.88
6224278--6224310	12	2.8	12	90	4	50	9	48	15	27	1.74
6227357--6227403	25	1.9	24	95	4	85	46	4	2	46	1.34
6239153--6240107	243	4.0	239	86	5	1214	38	12	10	39	1.77
6247285--6247313	3	9.7	3	100	0	58	31	0	34	34	1.58
6247815--6247839	1	25.0	1	100	0	50	0	0	100	0	0.00

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