genome.fa.s12.2.7.7.80.10.50.1000.40.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  40  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)
10835118--10835303	30	6.3	29	79	6	158	38	20	4	36	1.72
10835114--10835303	60	3.2	60	81	0	202	39	20	4	36	1.72
10846069--10846119	25	2.0	25	96	0	93	47	11	21	19	1.81
10850787--10850871	37	2.3	37	85	2	109	21	14	31	32	1.93
10852063--10852187	50	2.5	50	82	2	162	33	18	27	20	1.96
10852244--10852453	40	5.3	39	72	7	156	33	24	16	25	1.96
10852244--10852454	79	2.7	79	86	1	289	33	25	16	25	1.96
10854255--10854431	30	5.9	29	75	6	149	35	22	7	35	1.82
10854248--10854431	60	3.1	60	83	3	228	34	23	7	34	1.82
10855205--10855276	3	24.0	3	100	0	144	0	33	0	66	0.92
10860351--10860384	17	2.1	15	89	10	50	41	5	11	41	1.66
10860848--10860929	39	2.1	39	84	4	103	35	9	15	39	1.81
10860920--10860959	19	2.1	19	85	0	53	37	0	15	47	1.45
10862709--10862816	44	2.5	44	98	0	207	68	12	7	11	1.39
10866054--10866100	24	2.0	24	91	0	76	29	6	4	59	1.41
10873871--10873922	24	2.2	24	85	0	68	55	3	5	34	1.42
10875830--10875881	24	2.2	24	82	0	59	53	9	3	32	1.51
10877549--10877584	18	1.9	19	88	5	56	50	5	0	44	1.25
10877544--10877590	19	2.5	19	79	6	60	55	6	0	38	1.26
10878962--10879010	22	2.1	24	88	7	75	22	0	18	59	1.38
10879025--10879131	29	3.8	28	82	3	142	39	6	21	32	1.79
10882797--10883003	99	2.1	102	94	2	366	43	9	8	38	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10883507--10883549	19	2.3	19	84	8	52	58	0	4	37	1.19
10889025--10889060	15	2.5	15	90	4	56	27	0	0	72	0.85
10889036--10889073	17	2.4	17	86	8	53	28	0	0	71	0.87
10891202--10891287	30	2.8	30	87	5	100	50	5	13	30	1.66
10891227--10891287	30	2.0	30	96	0	113	47	3	16	32	1.63
10897175--10897228	21	2.6	21	84	0	72	33	25	11	29	1.91
10920591--10920653	25	2.6	23	73	9	54	28	7	6	57	1.52
10921167--10921223	16	3.5	16	73	2	51	43	29	3	22	1.70
10921159--10921229	32	2.2	32	80	9	74	43	29	4	22	1.72
10922219--10922376	33	4.8	32	79	5	163	32	0	43	23	1.59
10929244--10929316	24	3.2	24	69	15	82	41	12	10	35	1.78
10930124--10930226	42	2.4	43	85	6	147	48	16	22	12	1.79
10930727--10930763	2	18.5	2	94	0	65	45	0	0	54	1.00
10936102--10936183	24	3.4	24	87	0	83	51	7	14	26	1.69
10936122--10936194	24	3.1	24	92	2	112	53	4	12	30	1.57
10938460--10938527	24	2.9	24	82	2	84	48	10	14	26	1.76
10940895--10941079	91	2.0	91	100	0	370	35	33	12	18	1.89
10945521--10945545	11	2.3	11	100	0	50	8	8	0	84	0.79
10945574--10945611	3	12.7	3	100	0	76	34	31	0	34	1.58
10945610--10945654	3	15.0	3	100	0	90	33	0	0	66	0.92
10946523--10946991	240	2.0	237	90	1	740	36	7	15	40	1.75
10957026--10957650	42	14.9	42	82	4	686	19	21	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10957026--10957650	84	7.4	84	85	2	772	19	21	24	34	1.96
10958517--10958965	148	3.0	149	89	5	647	42	3	9	43	1.55
10960985--10961204	37	5.9	37	87	0	278	11	19	32	35	1.88
10960984--10961201	111	2.0	111	87	0	319	12	19	32	35	1.89
10970044--10970080	19	2.1	19	90	10	60	48	0	0	51	1.00
10970054--10970099	25	1.9	23	91	8	74	47	0	0	52	1.00
10977270--10977411	37	3.8	37	85	2	178	11	19	30	38	1.87
10977270--10977411	74	1.9	74	86	2	205	11	19	30	38	1.87
10977270--10977452	37	5.0	36	81	4	143	13	19	30	37	1.90
10977269--10977448	74	2.4	74	80	4	184	14	19	28	37	1.91
10985564--10985592	13	2.3	13	94	5	51	34	3	0	62	1.12
10986458--10986538	29	2.7	30	81	9	85	33	8	12	45	1.72
10986484--10986547	29	2.2	29	83	8	76	31	10	12	45	1.77
10989339--10989761	59	7.1	59	76	7	343	27	17	16	39	1.90
10990570--10990681	30	3.7	30	83	2	136	59	1	8	30	1.36
10991586--10991633	22	2.2	22	85	3	62	8	12	16	62	1.53
10995684--10995908	119	1.9	118	81	6	276	36	19	12	31	1.89
10997376--10997417	16	2.9	14	80	16	50	54	0	2	42	1.13
10998545--10998876	29	11.4	29	77	12	126	35	27	5	31	1.79
10998543--10998886	87	4.0	85	78	9	320	36	27	5	31	1.79
10998563--10998873	58	5.4	56	76	10	261	36	27	5	30	1.80
11007866--11007906	16	2.5	16	84	4	55	34	0	4	60	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11007922--11007969	19	2.5	20	86	10	64	50	25	6	18	1.70
11009776--11010086	29	10.8	29	76	8	235	33	28	6	30	1.83
11009890--11010101	117	1.8	117	83	5	286	34	27	7	30	1.84
11010085--11010175	28	3.1	29	78	12	80	31	20	4	42	1.72
11013337--11013395	4	14.8	4	72	13	50	72	5	0	22	1.03
11013339--11013411	27	2.7	27	75	12	78	73	5	0	20	1.02
11013473--11013516	3	14.7	3	100	0	88	68	0	0	31	0.90
11014189--11014334	45	3.2	45	80	6	161	26	17	26	30	1.97
11014463--11014891	98	4.4	98	78	3	382	18	21	17	41	1.90
11014463--11014889	49	8.7	49	74	5	243	18	22	17	41	1.90
11014492--11014891	196	2.0	196	83	7	519	18	21	18	41	1.91
11015915--11015977	24	2.6	25	84	5	92	1	20	1	76	0.96
11021185--11021236	27	2.0	26	88	11	79	19	0	5	75	1.01
11021191--11021236	10	4.9	10	82	17	55	19	0	6	73	1.04
11021185--11021234	17	3.0	17	80	13	59	18	0	4	78	0.91
11025098--11025147	13	3.6	13	83	8	55	78	4	2	16	1.00
11025099--11025141	15	2.6	17	82	7	54	76	4	2	16	1.05
11025208--11025248	15	2.8	15	82	13	50	75	4	2	17	1.08
11030967--11031019	27	2.0	26	85	10	72	39	1	0	58	1.09
11031728--11031754	2	13.5	2	100	0	54	48	0	0	51	1.00
11032043--11032088	12	3.8	12	82	8	58	69	0	0	30	0.89
11032030--11032088	18	3.2	18	85	9	75	67	1	0	30	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11034135--11034188	20	2.7	20	85	5	74	62	7	0	29	1.22
11034340--11034370	16	1.9	16	93	0	53	35	6	9	48	1.62
11034703--11034986	142	2.0	142	97	0	532	30	16	19	33	1.94
11036550--11036606	28	2.0	28	93	0	96	57	10	5	26	1.53
11036559--11036618	28	2.2	28	84	3	77	60	15	5	20	1.53
11036751--11036788	20	1.9	20	94	0	67	52	15	5	26	1.64
11037306--11037357	11	4.8	11	75	13	54	46	0	1	51	1.12
11037476--11037526	26	2.0	26	84	7	68	60	0	5	33	1.21
11038586--11039077	29	16.9	28	72	13	232	34	27	5	33	1.79
11038587--11038984	58	6.8	57	78	12	291	35	26	4	33	1.76
11038588--11039042	87	5.2	85	79	10	352	35	27	4	32	1.77
11038622--11038984	145	2.5	145	80	7	373	35	26	4	33	1.76
11038547--11039018	29	16.1	28	72	19	233	34	27	4	33	1.78
11038680--11039237	58	9.7	58	79	6	368	33	26	7	33	1.84
11038738--11039237	29	17.3	29	71	10	281	32	26	7	33	1.85
11038739--11039237	87	5.8	85	77	8	325	32	26	7	33	1.85
11039145--11039237	28	3.3	29	75	10	93	34	25	7	32	1.84
11040383--11040444	20	3.1	19	84	9	70	38	3	1	56	1.25
11040383--11040444	11	6.2	10	74	18	58	38	3	1	56	1.25
11040587--11040646	31	2.0	30	83	6	77	35	0	10	55	1.34
11040832--11040883	15	3.4	16	74	12	56	61	9	0	28	1.27
11051448--11051516	36	1.9	36	82	5	86	13	7	2	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11063405--11063704	30	10.1	30	69	20	163	35	2	29	32	1.72
11063406--11063702	59	5.0	59	78	8	307	34	2	29	32	1.72
11063406--11063727	119	2.7	118	82	6	375	34	2	28	33	1.72
11063567--11063727	30	5.4	30	73	20	110	35	3	26	34	1.72
11065666--11065729	17	3.8	17	74	10	60	46	1	3	48	1.27
11065701--11065741	17	2.4	16	88	8	55	56	4	0	39	1.21
11066978--11067030	24	2.2	23	81	15	63	39	1	5	52	1.36
11071183--11071269	24	3.6	24	93	0	147	50	5	14	28	1.66
11076868--11076985	55	2.2	55	83	7	143	27	13	13	44	1.81
11083366--11083422	28	2.0	28	86	10	80	22	21	5	50	1.68

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