genome.fa.s12.2.7.7.80.10.50.1000.15.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: 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  15  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)
4238115--4238154	19	2.1	19	90	0	62	35	0	5	60	1.19
4239704--4239771	31	2.2	31	86	5	93	32	14	13	39	1.85
4255536--4255565	6	5.0	6	100	0	60	16	50	16	16	1.79
4274650--4274691	19	2.2	19	86	0	57	42	0	0	57	0.99
4282886--4282930	15	2.9	15	83	3	54	28	4	11	55	1.54
4285970--4286010	19	2.2	18	86	4	55	48	2	9	39	1.49
4288569--4288611	20	2.2	20	87	8	61	60	2	0	37	1.10
4297707--4297924	92	2.4	90	79	8	203	36	12	9	40	1.76
4298005--4298120	10	12.2	10	70	18	61	62	0	4	31	1.20
4298007--4298120	9	12.1	9	72	15	63	63	0	4	31	1.20
4297998--4298075	27	2.8	27	81	11	86	62	1	5	30	1.24
4298027--4298120	48	2.0	48	85	8	129	62	1	4	31	1.21
4301601--4301663	17	3.7	17	76	4	56	28	33	20	17	1.95
4308227--4308268	11	3.8	11	84	6	50	38	0	2	59	1.10
4312546--4312739	23	8.3	23	81	8	189	42	21	23	11	1.86
4312546--4312739	69	2.8	68	83	10	214	42	21	23	11	1.86
4319931--4320124	23	8.3	23	81	8	189	42	21	23	11	1.86
4319931--4320124	69	2.8	68	83	10	214	42	21	23	11	1.86
4326415--4326706	30	9.8	30	74	5	207	36	20	3	38	1.71
4326415--4326706	60	4.9	60	73	8	236	36	20	3	38	1.71
4326424--4326686	119	2.2	118	78	4	278	36	20	4	38	1.72
4327585--4327764	96	1.9	96	82	2	227	40	12	16	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4328032--4328111	29	2.8	29	72	14	74	45	1	21	32	1.60
4327971--4328308	58	5.8	58	76	8	246	41	2	22	33	1.67
4328158--4328250	30	3.1	30	76	14	102	43	3	19	34	1.67
4328158--4328308	29	5.1	30	69	17	102	44	1	19	34	1.62
4327968--4328308	59	5.9	59	77	7	281	41	2	22	32	1.68
4329326--4329408	3	27.0	3	78	9	87	34	1	3	60	1.22
4329327--4329424	12	8.2	12	75	15	78	36	1	4	58	1.24
4330074--4330144	17	4.2	17	81	0	88	52	2	4	40	1.36
4330082--4330152	34	2.1	34	91	0	115	53	5	4	36	1.44
4333902--4333938	18	2.1	18	100	0	74	27	16	21	35	1.94
4334178--4334217	20	2.0	20	90	0	62	45	10	10	35	1.71
4341430--4341487	29	2.0	30	86	3	82	46	17	6	29	1.74
4341552--4341597	25	1.9	24	82	8	58	41	4	6	47	1.49
4345953--4346010	19	2.9	19	78	14	64	34	5	3	56	1.38
4345953--4346014	21	3.0	21	81	9	67	35	4	3	56	1.37
4351554--4351588	19	1.9	17	88	11	52	20	2	11	65	1.37
4352094--4352135	14	2.8	15	89	7	59	42	2	4	50	1.36
4359418--4359923	38	13.3	37	68	14	246	34	14	17	33	1.90
4359418--4359925	76	6.7	76	91	0	795	34	14	17	33	1.90
4362318--4362583	30	8.9	30	85	3	331	37	24	2	34	1.70
4362574--4362752	59	3.1	56	73	9	153	28	29	5	37	1.78
4362920--4363124	30	6.8	30	84	3	270	38	24	1	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4362920--4363124	60	3.4	60	88	4	306	38	24	1	35	1.67
4363096--4363293	59	3.4	57	74	6	173	29	29	4	37	1.76
4362379--4363459	541	2.0	541	95	0	1957	31	24	5	38	1.78
4364863--4364895	17	1.9	17	93	0	57	60	24	0	15	1.35
4365933--4365959	13	2.1	13	100	0	54	22	18	29	29	1.97
4366081--4366137	24	2.4	23	82	2	69	43	1	0	54	1.10
4368889--4368915	4	6.8	4	100	0	54	0	22	0	77	0.76
4371487--4371550	19	3.3	18	77	18	58	59	1	0	39	1.07
4371487--4371541	17	3.1	18	82	10	60	60	1	0	38	1.08
4371542--4371584	21	2.0	23	86	9	63	58	2	0	39	1.11
4371520--4371585	35	1.9	33	81	6	78	57	3	0	39	1.14
4379796--4379915	58	2.1	58	90	3	188	48	20	0	31	1.50
4388356--4388498	72	2.0	73	95	1	261	46	8	14	30	1.74
4391164--4391206	21	1.9	24	86	13	65	74	20	0	4	1.00
4391473--4391570	42	2.3	42	91	0	160	29	0	24	45	1.53
4391796--4391840	23	2.0	23	86	0	63	35	15	13	35	1.87
4393125--4393155	15	2.1	15	100	0	62	38	12	35	12	1.82
4405642--4405690	22	2.3	23	75	13	59	59	4	2	34	1.28
4405642--4405690	21	2.3	22	80	20	59	59	4	2	34	1.28
4405651--4405696	21	2.3	21	82	17	62	60	2	4	32	1.28
4405814--4405868	19	2.9	19	77	0	65	49	7	10	32	1.65
4406812--4406837	10	2.6	10	100	0	52	19	0	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410183--4410221	7	5.6	7	85	11	53	25	2	25	46	1.66
4410183--4410268	28	3.0	29	75	6	70	24	3	24	47	1.67
4410534--4410657	45	2.8	45	86	3	169	22	22	23	31	1.98
4413353--4413395	21	2.1	21	86	4	61	62	11	0	25	1.29
4413567--4413601	18	1.9	18	88	11	54	60	11	0	28	1.32
4413737--4413787	27	1.9	26	84	4	66	1	33	0	64	1.05
4413745--4413804	4	15.5	4	85	13	72	1	28	0	70	0.97
4416263--4416293	15	2.0	16	93	6	55	58	0	0	41	0.98
4416369--4416409	20	2.0	21	85	9	57	53	4	4	36	1.44
4418535--4419043	29	17.6	29	69	19	252	31	4	26	36	1.78
4418535--4419069	59	9.2	56	73	14	347	31	4	26	36	1.78
4418535--4418863	143	2.3	144	88	5	472	31	4	27	36	1.78
4418531--4419069	88	6.2	89	79	9	474	31	5	26	36	1.78
4418591--4419222	29	21.9	27	69	16	215	32	3	27	36	1.75
4421117--4421191	35	2.1	35	85	9	100	60	4	1	34	1.24
4421114--4421191	17	4.4	18	80	12	83	57	5	1	35	1.29
4421579--4422257	208	3.3	208	85	1	828	22	20	19	37	1.94
4422667--4423032	50	7.3	50	78	6	233	17	30	17	34	1.93
4422724--4423048	100	3.2	101	81	5	349	16	32	17	33	1.93
4422660--4423048	150	2.6	148	81	5	417	16	30	17	35	1.93
4423960--4424011	21	2.5	20	82	11	70	3	13	0	82	0.80
4423960--4424022	10	6.1	10	75	12	56	6	11	0	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4423963--4424024	31	2.0	30	84	9	81	6	12	0	80	0.89
4428054--4428523	58	8.1	58	72	13	292	34	5	24	35	1.79
4428078--4428699	29	21.3	29	71	14	263	33	5	26	35	1.79
4428105--4428523	117	3.6	117	74	16	287	34	4	25	35	1.77
4428194--4428505	88	3.5	88	84	4	362	33	4	24	36	1.76
4430530--4430596	35	1.9	35	90	0	107	59	4	2	32	1.32
4430531--4430605	17	4.3	17	81	5	87	58	4	2	34	1.31
4435044--4435086	22	1.9	22	85	4	59	62	2	0	34	1.08
4435394--4435432	19	2.0	20	90	5	62	25	10	2	61	1.41
4436425--4436455	14	2.2	14	100	0	62	12	19	16	51	1.76
4436871--4436927	2	28.5	2	100	0	114	50	0	0	49	1.00
4436974--4437016	21	2.0	22	86	4	61	60	13	0	25	1.34
4442976--4443109	49	2.7	50	84	6	159	29	19	23	26	1.98
4450726--4450766	12	3.5	12	80	6	57	39	4	0	56	1.21
4450723--4450777	11	4.8	11	78	8	56	43	3	0	52	1.18
4450723--4450778	23	2.4	23	100	0	112	42	3	0	53	1.18
4452744--4452775	15	2.1	15	100	0	64	28	40	6	25	1.79
4460921--4460976	16	3.5	16	92	0	94	33	5	32	28	1.80
4461148--4461292	57	2.5	58	83	7	188	53	2	1	43	1.21
4461137--4461274	57	2.4	58	86	6	192	52	2	0	44	1.18
4461270--4461316	24	2.0	24	83	8	60	55	0	6	38	1.26
4461137--4461306	58	3.0	54	77	15	155	52	1	1	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4470652--4470698	20	2.3	19	86	13	67	57	0	2	40	1.11
4488298--4488352	21	2.6	21	100	0	110	36	21	12	29	1.91
4489071--4489177	11	9.7	11	83	11	123	39	0	3	57	1.17
4489085--4489177	28	3.4	28	92	4	118	39	0	4	55	1.19
4489069--4489173	5	19.4	5	79	18	104	40	0	3	55	1.18
4489377--4489430	28	1.9	28	81	7	65	16	46	12	24	1.82
4489926--4490036	29	3.8	29	80	5	116	39	25	0	34	1.62
4489926--4490343	58	7.2	57	78	9	321	34	27	3	35	1.73
4489985--4490329	59	5.9	59	81	6	400	32	28	3	35	1.75
4490017--4490300	29	9.8	28	68	22	135	32	28	4	35	1.77

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