genome.fa.s5.2.7.7.80.10.50.1000.15.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: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Length:  37252039

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   

This is table  15  of  120  ( 14335 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)
4156369--4156431	20	2.9	22	74	11	58	11	3	20	65	1.38
4156533--4156614	39	2.1	38	82	10	103	28	1	4	65	1.20
4157315--4157371	24	2.4	24	82	11	64	15	36	0	47	1.46
4170541--4170604	30	2.1	32	82	5	78	39	10	12	37	1.78
4174960--4175030	28	2.5	30	80	15	71	33	1	1	63	1.12
4188812--4188846	17	2.0	17	88	5	52	74	2	0	22	0.95
4189144--4189197	28	2.0	25	82	13	63	25	20	7	46	1.77
4197842--4198585	372	2.0	372	94	0	1290	24	14	23	37	1.93
4199746--4199770	12	2.1	12	100	0	50	40	8	0	52	1.31
4199762--4199839	17	4.7	16	77	13	77	50	0	2	47	1.15
4201485--4201528	23	2.0	23	86	4	63	25	9	0	65	1.21
4201800--4202081	30	9.4	30	80	7	270	35	20	4	38	1.75
4209280--4209307	11	2.5	11	100	0	56	64	7	0	28	1.20
4211989--4212026	19	2.1	18	85	14	51	31	5	7	55	1.51
4212507--4212544	18	2.2	18	90	4	60	18	2	5	73	1.14
4213759--4213796	18	2.1	18	85	9	51	55	13	7	23	1.64
4214124--4214148	5	5.0	5	100	0	50	20	20	20	40	1.92
4216276--4216316	17	2.4	18	84	8	50	63	7	4	24	1.40
4217153--4217262	58	1.9	57	83	5	141	29	19	17	34	1.94
4217153--4217262	57	1.9	58	83	9	145	29	19	17	34	1.94
4217331--4217395	34	1.9	34	93	0	112	33	9	18	38	1.83
4217177--4217454	95	2.9	96	84	6	311	32	16	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4217633--4217692	31	1.9	31	89	0	93	21	11	23	43	1.85
4221181--4221229	12	3.8	12	75	19	53	51	0	8	40	1.32
4221271--4221325	25	2.2	25	96	0	101	41	7	5	45	1.55
4221335--4221486	48	3.5	46	65	25	103	38	6	5	49	1.51
4221421--4221565	45	3.4	45	66	24	123	38	3	5	52	1.42
4221467--4221596	35	3.3	36	66	25	93	42	1	3	52	1.29
4221319--4221608	83	3.5	83	90	2	438	41	4	4	49	1.43
4223959--4224056	30	3.3	30	85	2	108	25	6	4	64	1.35
4224002--4224056	17	3.5	16	71	19	53	21	9	3	65	1.37
4224201--4224255	29	1.9	29	82	10	69	49	7	1	41	1.41
4226698--4226737	17	2.4	17	91	0	62	15	7	25	52	1.68
4226726--4226821	41	2.3	41	98	0	183	29	5	29	36	1.79
4228796--4228856	27	2.2	28	82	2	79	26	21	22	29	1.99
4228793--4228975	28	6.5	28	70	14	92	28	21	18	31	1.96
4230251--4230317	22	3.0	22	75	12	66	38	17	25	17	1.92
4231109--4231142	16	2.1	17	88	5	52	41	17	0	41	1.50
4241912--4242001	23	4.0	23	91	7	141	13	22	22	42	1.88
4248549--4248603	22	2.6	21	80	5	74	49	10	20	20	1.78
4251916--4251964	25	2.0	24	84	11	64	22	0	30	46	1.52
4253828--4253875	23	2.0	23	88	11	71	52	4	20	22	1.64
4255140--4255193	27	2.0	27	86	10	76	35	3	27	33	1.75
4255685--4255725	12	3.5	12	80	12	50	51	2	4	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4256200--4256261	25	2.6	23	76	16	63	22	4	24	48	1.70
4255986--4257123	153	7.4	152	85	2	1431	24	6	19	49	1.72
4259551--4259711	55	2.9	55	80	7	175	33	25	17	23	1.96
4263848--4263894	12	3.9	12	80	8	51	55	0	2	42	1.12
4264533--4264564	7	4.4	7	92	7	55	25	0	15	59	1.36
4264533--4264564	15	2.2	14	94	5	55	25	0	15	59	1.36
4265092--4265140	21	2.3	21	100	0	98	24	10	26	38	1.87
4265931--4266047	62	1.9	59	87	5	171	49	2	3	44	1.32
4266475--4266514	18	2.2	18	95	0	71	20	12	25	42	1.86
4267486--4267541	22	2.5	22	91	5	85	39	0	0	60	0.97
4269710--4269734	2	12.5	2	100	0	50	52	0	0	48	1.00
4270509--4270559	25	2.1	24	88	3	75	52	7	5	33	1.54
4270715--4270749	6	6.0	6	96	3	63	68	0	0	31	0.90
4270878--4270926	17	2.9	17	82	11	66	63	2	0	34	1.06
4270882--4270933	17	3.0	18	77	8	54	61	3	0	34	1.14
4270837--4270927	44	2.1	44	85	6	123	62	3	1	32	1.18
4270837--4271005	9	18.4	9	65	18	73	60	4	1	33	1.26
4271597--4271677	9	9.4	9	71	22	50	38	1	3	56	1.25
4271589--4271640	25	2.2	24	86	6	70	32	0	1	65	1.04
4271656--4271699	16	3.0	14	87	9	61	29	0	0	70	0.88
4271686--4271739	19	2.8	18	75	10	54	24	1	3	70	1.13
4271687--4271737	18	2.7	19	84	6	59	23	1	3	70	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4282244--4282292	21	2.3	21	85	0	62	46	0	0	53	1.00
4282300--4282397	19	4.7	20	68	25	60	44	3	3	48	1.33
4282894--4282947	26	2.0	27	82	3	65	35	1	12	50	1.52
4286210--4286505	52	5.7	52	93	0	475	34	26	15	23	1.95
4288683--4288741	22	2.7	22	94	2	102	44	6	0	49	1.29
4295097--4295316	51	4.3	51	80	3	228	32	15	22	29	1.95
4298074--4298153	30	2.7	29	82	7	97	55	3	3	37	1.36
4308252--4308309	25	2.5	24	76	20	68	58	0	0	41	0.98
4308250--4308304	26	2.1	26	86	6	76	58	0	0	41	0.98
4308430--4308499	24	3.1	22	73	13	61	38	2	0	58	1.13
4308438--4308483	17	2.8	17	86	3	67	39	0	0	60	0.97
4313419--4313791	59	6.4	59	91	1	581	36	5	27	30	1.79
4313419--4313794	176	2.1	177	94	1	650	36	5	27	30	1.79
4313454--4313791	29	11.5	28	66	9	165	37	5	26	30	1.79
4313866--4314536	163	4.1	163	94	1	1057	46	12	15	25	1.80
4315352--4315403	23	2.3	21	81	12	59	30	11	5	51	1.61
4316084--4316192	6	18.3	6	74	18	95	49	1	2	45	1.27
4316089--4316171	31	2.9	30	86	10	111	51	0	3	44	1.18
4316084--4316192	17	6.5	16	80	11	96	49	1	2	45	1.27
4316087--4316172	37	2.3	38	84	13	115	52	0	3	44	1.18
4316472--4316939	68	6.8	68	88	3	679	27	20	17	34	1.95
4316485--4316938	137	3.3	136	94	2	759	27	20	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4316472--4316938	205	2.3	205	91	0	738	27	20	17	34	1.95
4328852--4329135	29	9.8	28	66	10	133	36	5	27	30	1.79
4328855--4329155	116	2.6	116	92	4	491	36	5	27	30	1.79
4328852--4329163	58	5.4	58	88	4	443	36	5	26	31	1.79
4329260--4329898	162	3.9	162	95	1	1104	46	12	15	25	1.81
4330721--4330772	23	2.3	21	81	12	59	30	11	5	51	1.61
4331453--4331561	6	18.3	6	74	18	95	49	1	2	45	1.27
4331458--4331540	31	2.9	30	86	10	111	51	0	3	44	1.18
4331453--4331561	17	6.5	16	80	11	96	49	1	2	45	1.27
4331456--4331541	37	2.3	38	84	13	115	52	0	3	44	1.18
4331841--4332308	68	6.8	68	88	3	679	27	20	17	34	1.95
4331854--4332307	137	3.3	136	94	2	759	27	20	17	34	1.95
4331841--4332307	205	2.3	205	91	0	738	27	20	17	34	1.95
4334352--4334394	12	3.7	12	79	17	54	55	0	0	44	0.99
4335450--4335712	139	1.9	139	98	0	508	27	21	13	38	1.90
4350505--4350547	19	2.3	19	84	4	61	60	2	0	37	1.10
4371307--4371598	154	1.9	153	91	2	478	28	15	14	41	1.86
4383957--4383989	15	2.3	15	89	5	50	0	18	3	78	0.87
4383962--4383998	18	2.0	19	89	5	58	2	18	2	75	1.04
4393094--4393120	2	13.5	2	100	0	54	0	48	0	51	1.00
4396554--4396668	29	4.0	29	80	2	133	25	6	30	38	1.80
4396559--4396677	58	2.1	57	85	1	157	29	5	29	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4396682--4396805	30	4.2	30	86	4	164	38	1	24	35	1.65
4396682--4396805	59	2.1	58	86	5	169	38	1	24	35	1.65
4398497--4398548	17	3.1	17	77	0	59	51	7	1	38	1.42
4404166--4404211	22	2.0	23	84	12	60	47	2	43	6	1.41
4404160--4404208	22	2.3	21	76	13	55	42	2	46	8	1.45
4405478--4405546	35	2.0	35	97	0	129	43	7	7	42	1.60
4410796--4410862	29	2.3	29	76	10	73	73	2	4	19	1.14
4414527--4414597	29	2.4	30	70	13	76	73	4	4	18	1.16
4418259--4418325	29	2.3	29	76	10	73	73	2	4	19	1.14
4423968--4424034	29	2.3	29	76	10	73	73	2	4	19	1.14

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