genome.fa.s9.2.7.7.80.10.50.1000.24.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  24  of  182  ( 21729 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)
10071188--10071224	19	2.0	19	89	5	58	48	0	2	48	1.15
10084106--10084132	3	9.0	3	100	0	54	33	0	0	66	0.92
10095650--10095682	13	2.5	13	81	18	50	72	3	0	24	0.98
10101112--10101136	6	4.2	6	100	0	50	68	0	32	0	0.90
10101980--10102019	15	2.9	15	78	14	50	50	27	12	10	1.72
10102086--10102175	41	2.2	41	85	0	117	25	28	23	22	1.99
10102765--10102873	6	18.0	6	74	16	82	49	0	1	47	1.18
10102769--10102833	17	4.1	15	81	15	78	43	0	3	53	1.16
10102773--10102836	31	2.1	31	91	5	103	43	0	3	53	1.16
10102755--10102835	11	7.5	11	72	19	64	41	0	3	54	1.18
10102765--10102858	42	2.3	41	83	5	109	47	0	2	50	1.13
10102821--10102873	20	2.8	18	80	11	52	60	1	0	37	1.08
10103037--10103095	20	2.9	20	75	12	57	15	44	18	22	1.87
10103608--10103663	3	18.3	3	75	10	51	57	3	1	37	1.27
10104515--10104862	162	2.1	161	83	5	434	25	15	12	45	1.82
10104932--10105248	30	10.5	30	84	3	397	37	23	3	35	1.72
10104937--10105248	90	3.5	90	91	1	457	37	23	3	36	1.71
10105243--10105399	29	5.4	29	67	13	99	29	27	5	38	1.78
10105235--10105423	58	3.2	58	85	4	256	31	25	4	38	1.77
10105264--10105423	29	5.5	28	65	18	85	32	26	5	36	1.78
10105265--10105462	58	3.4	58	76	8	188	28	28	7	34	1.85
10107097--10107134	18	2.1	18	85	9	51	50	13	10	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10110332--10110384	16	3.3	16	83	0	70	41	3	24	30	1.72
10110582--10110667	24	3.6	23	76	10	75	48	1	0	50	1.08
10110551--10110684	62	2.0	65	81	14	152	49	1	1	47	1.19
10119665--10119694	4	7.5	4	100	0	60	0	23	0	76	0.78
10121278--10121335	30	2.0	29	89	3	89	50	3	0	46	1.18
10121417--10121472	28	2.0	27	89	3	85	50	3	19	26	1.64
10128160--10128226	19	3.5	20	74	13	70	55	4	1	38	1.29
10128996--10129032	2	18.5	2	100	0	74	48	0	0	51	1.00
10138998--10139024	14	1.9	14	100	0	54	40	7	14	37	1.74
10139007--10139185	89	2.0	88	95	1	322	34	17	17	30	1.93
10140195--10140242	5	9.8	5	90	4	71	25	0	33	41	1.55
10140936--10140986	18	2.8	18	76	5	50	54	1	0	43	1.11
10149850--10149874	5	5.0	5	100	0	50	0	0	20	80	0.72
10151833--10151864	6	5.3	6	96	0	55	0	40	15	43	1.47
10158951--10158988	20	1.9	20	94	0	67	34	0	2	63	1.09
10159687--10159776	41	2.1	43	84	8	114	57	22	2	17	1.50
10166789--10166864	38	2.0	38	89	5	118	30	19	6	43	1.76
10171722--10171760	20	2.0	20	85	10	53	33	12	0	53	1.39
10171985--10172018	17	1.9	18	88	5	52	50	5	8	35	1.58
10173979--10174026	23	2.1	22	85	11	62	64	2	0	33	1.05
10174227--10174262	19	2.0	20	84	15	51	66	2	5	25	1.27
10174275--10174312	13	2.8	14	84	8	51	34	0	2	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10177506--10177797	29	9.9	29	75	6	194	35	24	3	36	1.72
10177506--10177786	59	4.8	59	79	5	223	36	24	3	35	1.72
10180041--10180098	26	2.5	22	73	21	55	46	0	8	44	1.34
10180043--10180094	26	2.0	26	92	0	86	44	0	7	48	1.31
10203485--10203591	30	3.4	30	76	20	78	48	2	1	46	1.27
10203767--10203830	13	5.0	13	70	9	51	42	18	6	32	1.76
10205235--10205319	41	2.2	39	81	10	93	56	2	0	41	1.12
10205992--10206050	30	2.0	29	83	9	75	54	10	3	32	1.51
10206225--10206263	14	2.7	14	88	4	51	48	2	12	35	1.55
10206242--10206291	21	2.6	18	77	17	55	42	8	8	42	1.63
10211375--10211439	31	2.2	29	83	5	76	30	4	6	58	1.43
10212125--10212187	24	2.6	24	87	0	90	23	15	11	49	1.77
10214110--10214172	24	2.6	24	87	0	90	25	14	9	50	1.72
10224192--10224221	2	15.0	2	100	0	60	50	50	0	0	1.00
10227964--10228047	37	2.3	37	97	0	159	44	13	8	34	1.73
10228424--10228717	145	2.0	145	96	0	543	40	11	16	31	1.84
10232746--10232771	3	8.7	3	100	0	52	0	34	0	65	0.93
10236329--10236353	2	12.5	2	100	0	50	48	0	0	52	1.00
10236771--10236809	2	19.5	2	100	0	78	48	0	0	51	1.00
10240265--10240293	12	2.3	13	94	5	51	13	3	0	82	0.79
10246000--10246045	24	1.9	24	86	8	67	63	2	4	30	1.26
10251876--10251911	17	2.1	17	90	10	56	52	8	0	38	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10251864--10251930	25	2.7	24	76	2	71	53	4	0	41	1.21
10262536--10262586	6	8.5	6	91	0	75	47	0	31	21	1.51
10263893--10264027	40	3.4	38	74	12	105	29	28	20	21	1.98
10263925--10264028	37	2.7	38	77	5	111	30	26	20	22	1.98
10264293--10264332	15	2.7	15	84	3	55	37	20	0	42	1.52
10268781--10268808	5	5.6	5	100	0	56	21	0	0	78	0.75
10279799--10279826	3	9.3	3	100	0	56	32	0	32	35	1.58
10283716--10283780	34	2.0	33	85	8	89	32	15	16	35	1.91
10294075--10294121	20	2.3	21	85	3	69	25	0	6	68	1.13
10297353--10297423	37	1.9	37	100	0	142	36	22	19	21	1.95
10298174--10298242	24	3.0	24	68	20	67	49	2	5	42	1.41
10303927--10304058	9	14.6	9	68	23	55	31	2	2	64	1.18
10303926--10304014	26	3.2	28	69	18	78	29	3	2	65	1.21
10304009--10304051	22	1.9	22	85	4	59	32	0	2	65	1.06
10308252--10308297	18	2.5	19	92	3	69	36	26	19	17	1.94
10308257--10308297	18	2.3	18	100	0	82	34	29	21	14	1.93
10315511--10315550	18	2.3	17	86	4	53	35	7	15	42	1.75
10315853--10315892	15	2.8	14	85	7	53	42	10	2	45	1.51
10316343--10316367	10	2.5	10	100	0	50	92	0	0	8	0.40
10324183--10324208	4	6.5	4	100	0	52	76	0	0	23	0.78
10327449--10327508	28	2.2	27	81	3	66	23	3	10	63	1.40
10328463--10328488	5	5.2	5	100	0	52	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10335509--10335778	10	28.4	9	67	19	106	61	3	1	33	1.23
10335577--10335658	26	3.1	26	81	13	96	64	3	0	31	1.11
10335564--10335712	18	7.8	19	67	16	69	60	3	1	34	1.22
10335676--10335732	21	2.8	20	79	12	62	63	3	1	31	1.22
10336376--10336419	21	2.1	21	83	8	54	34	0	4	61	1.16
10336435--10336515	18	4.3	18	70	20	58	38	0	1	60	1.05
10336481--10336513	8	3.7	9	88	12	50	36	0	0	63	0.95
10336397--10336517	10	13.0	9	75	16	88	37	0	2	60	1.10
10336726--10336773	25	2.0	25	83	4	62	25	12	6	56	1.59
10336720--10336833	56	2.0	57	86	5	158	26	14	8	50	1.71
10337040--10337112	31	2.4	30	81	6	92	43	10	17	27	1.83
10336979--10337157	89	2.0	89	84	4	236	45	11	17	26	1.82
10345478--10345542	25	2.6	24	74	13	60	60	1	0	38	1.07
10349755--10349978	120	1.9	120	96	0	412	35	9	11	43	1.73
10374140--10374186	20	2.3	22	85	10	64	29	2	6	61	1.32
10374857--10374898	13	3.1	15	80	19	56	69	0	0	30	0.89
10376617--10376675	6	10.3	6	72	17	54	44	3	0	52	1.17
10376617--10376683	17	3.9	17	82	0	71	46	4	0	49	1.22
10376738--10376778	13	3.1	14	75	10	50	48	24	14	12	1.78
10377477--10377518	7	6.0	7	83	10	59	57	0	0	42	0.99
10377478--10377518	13	3.0	13	86	13	64	58	0	0	41	0.98
10378552--10378706	30	5.3	27	74	18	134	34	29	1	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10378539--10378706	58	2.9	58	83	7	216	35	29	2	33	1.71
10378687--10378756	29	2.5	28	82	13	81	37	25	4	32	1.76
10381578--10381682	23	4.6	22	81	9	104	13	23	19	43	1.86
10381578--10381682	46	2.3	46	86	3	149	13	23	19	43	1.86
10381602--10381700	23	4.3	23	88	0	117	15	21	18	45	1.85
10381602--10381749	69	2.2	66	80	9	154	14	21	18	45	1.84
10381579--10381699	46	2.6	46	82	2	118	14	23	18	44	1.85
10383203--10383257	26	2.1	26	96	0	101	18	20	3	58	1.54
10383420--10383454	14	2.5	14	86	13	54	20	2	0	77	0.90
10384441--10384499	6	9.5	6	77	14	57	22	1	13	62	1.39

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182