genome.fa.s12.2.7.7.80.10.50.1000.19.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  19  of  132  ( 15769 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)
5557984--5558104	48	2.6	46	86	10	165	40	23	24	11	1.88
5564266--5564308	22	2.0	22	85	0	59	6	11	4	76	1.13
5576738--5576898	84	1.9	84	96	0	295	23	25	11	39	1.88
5577356--5577608	126	2.0	126	98	0	488	27	18	18	35	1.94
5579033--5579070	20	1.9	20	94	0	67	10	28	26	34	1.90
5583493--5583549	20	2.8	20	78	0	60	12	26	24	36	1.91
5587318--5587380	31	2.0	32	93	3	110	36	11	0	52	1.37
5612251--5612309	11	5.4	11	82	15	77	42	0	0	57	0.98
5612249--5612326	5	14.4	5	76	17	59	43	0	2	53	1.14
5612266--5612326	27	2.3	27	82	5	79	42	0	3	54	1.17
5612251--5612351	44	2.2	46	84	8	127	42	0	2	54	1.15
5612237--5612326	17	5.4	16	84	10	101	42	1	3	53	1.24
5613917--5614254	161	2.1	162	86	3	468	26	18	10	44	1.82
5614313--5614726	59	7.1	59	84	5	454	35	30	2	32	1.70
5614314--5614733	175	2.4	174	84	5	510	34	30	2	32	1.70
5614313--5614726	29	14.2	27	69	16	188	35	30	2	32	1.70
5615888--5615939	3	17.3	3	100	0	104	67	0	0	32	0.91
5618813--5618867	2	27.5	2	100	0	110	50	0	0	49	1.00
5620879--5620954	30	2.5	30	87	4	100	40	2	22	34	1.68
5622032--5622072	21	1.9	22	85	5	57	36	4	0	58	1.20
5622862--5622896	17	2.1	17	94	0	61	51	2	0	45	1.16
5622841--5622887	6	8.2	6	76	9	53	53	2	0	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5624113--5624151	18	2.2	18	86	9	53	38	0	0	61	0.96
5629612--5629652	16	2.6	16	84	7	57	29	0	0	70	0.87
5629998--5630109	17	6.7	15	82	11	89	42	0	2	53	1.21
5630011--5630120	22	4.9	22	77	14	100	44	0	2	52	1.15
5630013--5630101	6	15.7	6	76	17	84	43	0	2	53	1.13
5630013--5630102	12	8.0	11	79	17	96	43	0	2	54	1.12
5630810--5630878	10	7.2	10	76	12	56	60	1	1	36	1.14
5630838--5630878	13	3.2	13	89	3	66	65	0	0	34	0.93
5630838--5630878	3	13.0	3	85	10	55	65	0	0	34	0.93
5631931--5632212	29	9.7	27	70	23	134	35	30	1	32	1.68
5631931--5632241	59	5.3	59	91	4	456	34	30	2	32	1.70
5631931--5632241	117	2.7	115	88	6	457	34	30	2	32	1.70
5633574--5633688	42	2.7	43	86	1	160	32	26	18	22	1.97
5633576--5633715	43	3.3	43	84	1	165	30	27	17	24	1.97
5633928--5634069	41	3.5	41	92	0	214	14	29	25	30	1.94
5640356--5640435	30	2.7	30	77	14	94	50	2	2	45	1.28
5646511--5646565	18	3.1	18	89	5	76	43	0	1	54	1.10
5646516--5646578	20	3.3	19	88	6	83	41	0	3	55	1.16
5650808--5650841	2	17.0	2	93	0	59	47	0	2	50	1.16
5652294--5652341	22	2.1	23	92	3	80	43	12	0	43	1.42
5658893--5658933	2	20.5	2	100	0	82	48	0	0	51	1.00
5660133--5660356	111	2.0	110	93	0	385	28	11	15	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5671485--5671551	33	2.0	33	100	0	134	22	11	8	56	1.63
5681320--5681391	7	10.3	7	90	0	117	26	27	1	44	1.63
5688586--5688629	23	1.9	23	95	0	79	38	18	13	29	1.89
5694428--5694476	24	2.1	23	92	7	82	42	12	2	42	1.53
5695324--5695386	27	2.3	28	80	5	74	38	6	0	55	1.25
5695343--5695391	9	5.4	9	76	9	55	34	2	0	63	1.06
5695298--5695394	18	5.4	18	70	16	58	34	4	2	59	1.28
5696803--5696851	3	16.3	3	100	0	98	32	0	0	67	0.91
5712297--5712334	15	2.4	16	82	4	51	36	15	7	39	1.77
5722733--5722816	30	2.8	30	82	5	91	35	7	23	33	1.82
5722804--5722916	30	3.8	30	81	0	136	40	2	20	36	1.66
5722774--5722906	60	2.2	61	78	4	144	39	4	20	35	1.73
5722803--5722917	60	1.9	60	87	0	167	40	3	20	35	1.69
5722901--5723300	203	2.0	203	97	0	755	44	10	17	27	1.81
5723955--5723993	20	2.0	20	85	10	53	17	0	7	74	1.05
5729756--5729830	24	3.2	24	61	21	59	26	16	16	41	1.88
5729760--5729852	46	2.0	46	100	0	186	21	15	16	47	1.82
5731506--5731544	17	2.4	16	86	4	60	58	0	2	38	1.12
5738758--5738996	119	2.0	119	100	0	478	20	23	11	43	1.85
5741533--5741571	18	2.0	20	85	9	55	30	0	2	66	1.05
5741748--5741776	14	2.1	14	100	0	58	27	6	24	41	1.80
5742384--5742458	37	2.0	37	100	0	150	22	18	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5742460--5742556	50	1.9	50	95	0	176	18	15	12	53	1.72
5742867--5742908	19	2.1	21	82	8	52	61	2	4	30	1.29
5744377--5744421	3	15.0	3	100	0	90	66	0	0	33	0.92
5751985--5752022	15	2.4	17	91	8	62	89	0	10	0	0.49
5751985--5752022	17	2.2	17	90	0	58	89	0	10	0	0.49
5751985--5752013	11	2.7	11	94	5	51	93	0	6	0	0.36
5753141--5753257	61	1.9	61	87	0	171	42	12	10	34	1.77
5755415--5755453	17	2.3	17	86	0	51	48	25	10	15	1.76
5761435--5761461	14	1.9	14	100	0	54	48	7	0	44	1.31
5763034--5763132	20	4.9	20	71	11	69	24	18	13	44	1.85
5763445--5763503	20	2.8	21	74	7	57	61	6	10	22	1.51
5763534--5763594	20	3.0	20	76	11	70	57	11	11	19	1.64
5763862--5763933	22	3.3	22	75	11	76	63	4	11	20	1.43
5763862--5763931	23	3.2	22	74	13	72	65	4	11	18	1.40
5763841--5763944	22	4.9	22	71	18	69	59	4	12	23	1.52
5766187--5766253	23	2.7	23	80	11	71	52	2	1	43	1.25
5767859--5767999	45	3.2	44	71	25	138	29	21	18	30	1.97
5767849--5768017	85	2.0	85	91	2	277	28	20	18	31	1.96
5768767--5768811	21	2.1	22	83	4	56	44	4	17	33	1.69
5779937--5779984	24	2.0	24	92	4	80	68	4	0	27	1.07
5779960--5780000	15	2.6	16	84	7	57	58	4	0	36	1.20
5779961--5779998	17	2.2	17	86	9	51	60	5	0	34	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5780077--5780130	17	2.8	19	86	10	67	48	0	1	50	1.11
5783166--5783207	9	4.6	9	80	16	50	59	0	0	40	0.97
5783328--5783522	99	2.0	99	88	0	291	23	30	8	37	1.85
5784112--5784164	16	3.4	16	71	23	58	43	0	0	56	0.99
5784106--5784164	31	2.0	29	90	9	93	47	0	0	52	1.00
5784104--5784194	38	2.4	39	89	9	143	47	0	0	52	1.00
5784569--5784604	16	2.1	16	90	10	54	55	0	0	44	0.99
5784911--5784961	24	2.1	25	82	10	61	58	7	1	31	1.37
5788157--5788190	2	17.0	2	100	0	68	0	50	0	50	1.00
5790299--5790351	2	26.5	2	96	0	97	49	0	1	49	1.12
5792432--5792476	21	2.1	21	95	0	81	20	20	11	48	1.79
5796451--5796508	25	2.3	26	80	14	68	20	10	27	41	1.85
5796474--5796547	25	3.0	25	75	0	76	24	10	24	40	1.87
5798520--5798549	2	15.0	2	100	0	60	50	0	0	50	1.00
5800573--5800624	2	26.0	2	100	0	104	0	50	0	50	1.00
5804385--5804494	29	3.8	29	95	0	184	25	11	14	48	1.78
5804622--5804651	14	2.1	14	93	0	51	56	0	0	43	0.99
5804988--5805028	14	2.7	16	81	14	59	51	0	0	48	1.00
5820227--5820472	122	2.0	122	100	0	492	33	21	12	32	1.90
5822672--5822719	18	2.7	17	78	9	51	43	0	4	52	1.20
5825839--5825901	23	2.7	24	76	11	69	34	15	23	25	1.95
5829822--5830137	29	10.8	30	74	10	242	38	4	23	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5829826--5830167	59	5.8	58	78	7	352	38	4	23	33	1.75
5830119--5830176	29	2.0	30	83	10	75	36	3	24	36	1.72
5830170--5830220	25	2.0	25	96	0	93	27	11	25	35	1.91
5831931--5832307	49	7.7	47	74	9	251	18	23	19	39	1.92
5831929--5832363	97	4.4	97	85	4	563	18	22	18	40	1.92
5843948--5844237	29	9.9	30	72	12	201	41	5	21	32	1.75
5843964--5844237	58	4.7	59	83	4	331	41	4	20	33	1.74
5845344--5845368	3	8.3	3	100	0	50	36	0	0	64	0.94
5845926--5845971	9	4.8	10	78	10	60	15	23	41	19	1.89
5845926--5845971	19	2.4	19	100	0	92	15	23	41	19	1.89

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