genome.fa.s8.2.7.7.80.10.50.1000.14.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  14  of  163  ( 19493 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)
3831071--3831116	17	2.7	17	89	0	65	52	6	0	41	1.27
3831084--3831138	17	3.2	17	84	0	74	56	7	0	36	1.27
3831401--3832125	91	7.9	91	92	2	1147	28	17	19	33	1.95
3831401--3832125	183	4.0	183	92	2	1156	28	17	19	33	1.95
3831733--3831873	45	3.1	45	60	20	103	29	19	19	31	1.96
3831401--3832121	274	2.6	274	93	1	1216	28	18	19	33	1.95
3844263--3844341	30	2.6	30	88	4	106	40	1	18	39	1.59
3844263--3844351	30	3.0	30	77	6	92	38	2	20	39	1.65
3845463--3845506	21	2.0	21	83	12	54	40	4	0	54	1.21
3845471--3845513	18	2.6	16	92	7	68	39	2	0	58	1.11
3846252--3846297	17	2.7	17	89	0	65	52	6	0	41	1.27
3846265--3846319	17	3.2	17	84	0	74	56	7	0	36	1.27
3852421--3852481	19	3.2	19	80	0	77	18	14	26	40	1.89
3854366--3854588	43	5.0	43	84	8	252	30	27	20	21	1.98
3854373--3854558	93	2.0	92	88	5	277	29	26	21	22	1.99
3856316--3856463	10	16.4	9	67	21	62	63	2	3	31	1.22
3856384--3856463	17	4.6	17	70	16	65	62	1	1	35	1.11
3856384--3856464	35	2.3	37	81	8	98	61	1	1	35	1.12
3856457--3856516	27	2.3	27	83	8	81	45	3	1	50	1.28
3856500--3856584	29	3.0	27	79	8	64	61	8	1	29	1.33
3858578--3858602	10	2.5	10	100	0	50	44	0	0	56	0.99
3861253--3861303	26	2.0	25	81	11	59	33	5	0	60	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3861331--3861365	18	1.9	18	88	0	52	57	5	2	34	1.37
3862266--3862323	29	2.0	28	83	12	73	50	3	3	43	1.36
3866680--3866730	26	2.0	25	85	11	68	33	3	0	62	1.13
3867038--3867103	29	2.4	28	82	10	82	48	3	1	46	1.26
3870681--3870772	46	2.0	46	95	0	166	46	5	7	40	1.55
3870917--3870960	22	2.0	22	90	0	70	61	6	4	27	1.41
3871309--3871347	20	2.0	20	84	0	51	56	2	5	35	1.35
3875006--3875045	19	2.0	20	85	9	55	55	15	2	27	1.53
3878567--3878632	32	2.1	32	82	5	80	39	4	0	56	1.20
3892742--3892783	19	2.2	20	91	4	68	38	11	28	21	1.89
3900823--3900902	38	2.1	38	83	4	99	27	30	22	20	1.98
3900834--3901023	39	4.8	38	73	9	123	27	29	16	26	1.97
3901207--3901462	85	3.0	85	83	2	327	36	17	22	23	1.94
3901295--3901993	208	3.4	207	89	1	1040	38	16	21	23	1.92
3901048--3901669	293	2.1	293	85	1	836	38	16	21	23	1.93
3901511--3901669	85	1.9	85	88	2	239	41	13	22	22	1.89
3901795--3902165	171	2.2	172	91	0	591	38	16	22	21	1.93
3901596--3902370	380	2.0	378	90	1	1212	38	17	21	22	1.93
3923282--3923312	16	1.9	16	93	0	53	45	12	19	22	1.84
3930074--3930107	17	1.9	17	88	5	50	41	26	20	11	1.87
3938187--3938235	23	2.1	23	84	0	62	32	18	18	30	1.95
3962822--3962873	2	26.0	2	100	0	104	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3979804--3979831	7	4.0	7	100	0	56	28	0	0	71	0.86
3981443--3981476	17	1.9	18	94	5	61	64	0	0	35	0.94
3981859--3981899	19	2.2	19	86	8	57	29	7	0	63	1.21
3983182--3983219	14	2.8	14	80	4	51	42	0	0	57	0.98
3993547--3993662	57	2.0	57	96	0	214	43	4	15	37	1.67
3997329--3997458	57	2.4	54	80	12	163	20	29	33	17	1.95
3997344--3997478	57	2.3	58	87	3	191	21	29	31	17	1.96
3998730--3998763	4	8.5	4	100	0	68	23	50	0	26	1.50
4002207--4002242	16	2.2	17	90	5	56	72	19	8	0	1.10
4002221--4002270	21	2.4	21	80	9	59	70	14	14	2	1.27
4005056--4005089	11	3.1	11	91	0	50	70	5	0	23	1.09
4005062--4005092	11	2.8	11	95	0	53	80	3	0	16	0.83
4013681--4013707	8	3.4	8	100	0	54	51	0	0	48	1.00
4018650--4018697	19	2.5	20	87	12	66	62	12	8	16	1.53
4024321--4024348	2	14.0	2	100	0	56	50	0	0	50	1.00
4039213--4039254	3	14.0	3	100	0	84	33	0	0	66	0.92
4041380--4041424	2	22.5	2	100	0	90	48	0	0	51	1.00
4044180--4044233	18	3.1	17	77	15	58	16	1	14	66	1.34
4044199--4044239	18	2.2	19	83	12	50	24	2	9	63	1.37
4049116--4049155	21	1.9	21	85	10	55	27	5	17	50	1.67
4049836--4049876	22	1.9	21	85	14	57	63	7	2	26	1.33
4050371--4050419	19	2.4	22	83	10	68	28	2	2	67	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4050434--4050496	20	3.2	20	86	8	85	34	4	7	52	1.52
4050434--4050496	19	3.2	19	86	8	83	34	4	7	52	1.52
4063795--4063829	14	2.5	14	95	0	61	34	0	0	65	0.93
4068097--4068147	25	1.9	28	88	11	81	58	3	0	37	1.16
4068266--4068346	31	2.6	31	100	0	162	37	4	9	48	1.58
4073362--4073433	37	1.9	37	86	8	101	58	4	1	36	1.26
4076165--4076205	17	2.4	17	87	0	55	46	0	2	51	1.14
4076165--4076205	21	2.0	21	90	0	64	46	0	2	51	1.14
4077206--4077251	15	3.1	14	81	6	56	67	2	8	21	1.29
4079572--4079658	32	2.9	30	76	20	92	32	5	2	59	1.33
4080088--4080142	20	2.9	20	71	7	53	20	23	0	56	1.42
4088958--4088988	13	2.4	13	100	0	62	35	35	6	22	1.80
4094852--4094893	21	2.0	21	81	9	50	45	2	9	42	1.49
4096982--4097132	58	2.5	59	76	8	155	45	8	15	30	1.77
4106354--4106401	17	2.9	16	87	3	60	60	2	0	37	1.09
4106354--4106411	23	2.5	22	86	5	71	56	3	1	37	1.26
4108373--4108531	58	2.7	57	73	15	153	33	30	3	33	1.74
4108444--4108524	29	2.7	30	74	16	87	38	27	0	34	1.57
4113307--4113429	61	2.0	61	93	0	210	29	13	26	31	1.93
4114058--4114115	26	2.2	26	96	0	107	39	13	8	37	1.76
4120488--4120552	17	3.8	17	78	13	80	44	1	4	49	1.32
4120560--4120651	46	2.0	46	89	0	139	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4121346--4121386	15	2.7	15	88	3	55	46	0	0	53	1.00
4121321--4121394	37	1.9	39	81	13	91	45	0	4	50	1.20
4122473--4122840	29	12.7	27	66	24	150	33	31	2	32	1.70
4122412--4122840	58	7.3	58	85	5	546	33	31	2	32	1.71
4122412--4122841	175	2.5	176	87	5	613	33	31	2	32	1.71
4122412--4122840	117	3.7	116	86	6	582	33	31	2	32	1.71
4128290--4128329	13	3.3	13	73	20	50	57	0	10	32	1.32
4128283--4128331	23	2.1	23	96	0	89	59	0	8	32	1.27
4132428--4132502	38	1.9	38	81	2	87	41	5	4	49	1.44
4134144--4134205	28	2.2	29	80	11	74	25	9	29	35	1.88
4134221--4134442	30	7.5	29	77	8	178	38	2	23	34	1.69
4134229--4134443	60	3.6	59	80	6	245	37	2	23	35	1.70
4135494--4135540	21	2.2	22	88	3	69	38	2	2	57	1.23
4136280--4136331	6	9.0	6	79	8	63	53	3	0	42	1.19
4136281--4136331	23	2.2	23	89	0	75	54	3	0	41	1.19
4136281--4136327	11	4.2	11	83	5	67	53	4	0	42	1.20
4136528--4137242	355	2.0	355	93	0	1232	24	21	18	36	1.95
4137028--4137730	205	3.4	205	90	2	1094	23	22	18	35	1.96
4137028--4137784	200	3.7	201	88	3	972	23	22	18	35	1.96
4138057--4138251	101	1.9	101	87	0	282	31	17	15	34	1.92
4138349--4138713	100	3.7	100	80	5	262	17	25	17	40	1.91
4138386--4138766	50	7.7	50	73	12	297	16	24	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138360--4138684	150	2.2	149	84	3	420	16	24	16	42	1.88
4145785--4145869	29	2.9	29	77	11	91	38	2	23	35	1.68
4145776--4146022	30	8.2	30	80	6	232	39	1	21	36	1.64
4145776--4146022	90	2.7	89	81	6	257	39	1	21	36	1.64
4146671--4146721	22	2.4	22	83	6	70	9	45	23	21	1.82
4147102--4147148	21	2.2	22	88	3	69	38	2	2	57	1.23
4147635--4147711	25	3.1	25	88	0	100	22	10	48	19	1.79
4147929--4148008	11	7.0	12	76	9	78	55	2	0	42	1.13
4147911--4148008	17	5.8	16	77	13	81	55	2	0	42	1.11
4147929--4148008	40	2.0	40	90	0	124	55	2	0	42	1.13

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163