genome.fa.s3.2.7.7.80.10.50.1000.133.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  133  of  171  ( 20472 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)
41397860--41397927	4	17.0	4	70	11	50	55	0	2	41	1.15
41397860--41397927	22	3.2	22	83	4	86	55	0	2	41	1.15
41397892--41398050	78	2.1	74	79	6	158	49	1	2	45	1.26
41397966--41398489	112	4.8	112	89	6	835	45	4	2	46	1.39
41398197--41398240	18	2.4	19	85	11	65	45	0	2	52	1.13
41398242--41398443	99	2.0	99	96	0	368	43	5	2	47	1.42
41397966--41398489	211	2.4	218	91	4	832	45	4	2	46	1.39
41398242--41398475	99	2.4	99	90	5	339	44	5	2	47	1.38
41401042--41401220	41	4.4	41	91	1	261	25	26	27	21	1.99
41405051--41405075	3	8.3	3	100	0	50	32	0	0	68	0.90
41409073--41409146	31	2.4	31	95	0	130	14	37	4	43	1.65
41413855--41413932	41	1.9	41	100	0	156	28	7	19	44	1.78
41419317--41419370	21	2.5	21	81	3	54	24	7	11	57	1.58
41424584--41424629	22	2.0	23	88	12	69	36	0	0	63	0.95
41429597--41429656	14	4.3	15	78	20	67	40	0	0	60	0.97
41440184--41440212	3	9.7	3	100	0	58	68	0	31	0	0.89
41447985--41448067	12	6.9	12	76	15	75	43	1	2	53	1.21
41450583--41450623	21	1.9	21	85	5	55	9	0	17	73	1.09
41464197--41464242	22	2.1	22	100	0	92	21	8	21	47	1.77
41465346--41465390	21	2.1	22	87	4	65	40	28	6	24	1.80
41472671--41472742	37	1.9	37	86	5	101	41	1	2	54	1.23
41472710--41472768	25	2.3	27	80	11	70	38	1	5	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41476194--41476240	10	4.8	10	73	5	51	8	0	17	74	1.05
41477753--41477787	17	2.1	17	100	0	70	20	5	34	40	1.76
41478648--41478706	23	2.6	23	83	0	73	33	27	18	20	1.96
41483234--41483272	15	2.6	15	88	8	53	10	12	20	56	1.65
41485564--41485609	20	2.3	20	85	7	58	43	32	2	21	1.65
41485531--41485601	14	5.1	14	72	17	58	42	33	1	22	1.63
41485549--41485615	27	2.5	27	79	13	75	41	31	4	22	1.73
41487636--41487727	37	2.5	37	78	1	94	29	32	22	15	1.95
41507515--41507689	96	1.8	96	81	4	219	39	12	19	29	1.87
41508060--41508200	29	4.7	30	79	3	133	36	2	21	38	1.69
41508060--41508222	59	2.8	60	83	4	197	36	4	20	38	1.73
41508067--41508230	30	5.5	30	77	6	138	35	4	21	39	1.73
41509232--41509288	15	3.7	15	81	4	51	29	3	8	57	1.45
41509599--41509644	11	4.3	11	86	2	58	45	2	0	52	1.13
41509582--41509643	11	5.1	12	76	18	56	46	1	0	51	1.10
41510545--41510576	16	2.1	16	94	5	57	56	0	0	43	0.99
41510549--41510589	16	2.4	18	80	19	52	46	2	0	51	1.14
41522104--41522176	8	9.7	7	72	19	58	54	0	0	45	0.99
41523739--41523781	18	2.4	18	88	7	61	46	0	0	53	1.00
41523913--41523959	15	3.2	15	75	6	51	61	4	0	34	1.15
41529113--41529154	15	2.9	15	82	3	50	38	0	2	59	1.10
41529624--41529656	12	2.8	12	95	0	57	21	21	15	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41539538--41539623	31	2.8	31	89	0	136	30	11	10	47	1.73
41539853--41539914	28	2.3	27	84	15	85	59	6	3	30	1.38
41544550--41544584	5	7.0	5	100	0	70	20	60	0	20	1.37
41545592--41545627	18	2.0	18	88	0	54	19	13	13	52	1.74
41550475--41550500	2	13.0	2	100	0	52	50	0	0	50	1.00
41556348--41556389	16	2.7	15	82	13	57	69	9	0	21	1.17
41556618--41556676	17	3.4	17	81	11	75	44	0	1	54	1.10
41557336--41557367	3	10.7	3	100	0	64	68	0	0	31	0.90
41558227--41558324	30	3.3	30	74	8	101	29	23	5	41	1.76
41558226--41558488	59	4.6	57	80	9	270	32	24	3	39	1.72
41558274--41558377	50	2.1	50	83	3	129	37	22	1	38	1.65
41558326--41558638	29	10.6	30	70	14	170	33	25	3	37	1.73
41558226--41558433	109	1.9	110	86	3	294	32	24	3	38	1.74
41558327--41558662	59	5.7	58	84	5	306	33	25	4	37	1.75
41558619--41558680	28	2.2	28	88	5	90	33	27	8	30	1.86
41560689--41560714	8	3.2	8	100	0	52	88	0	0	11	0.52
41572212--41572280	23	3.0	23	84	0	93	36	17	15	30	1.91
41572891--41572966	21	3.5	22	81	12	93	28	18	11	40	1.86
41572894--41572966	23	3.3	22	84	5	103	30	17	12	39	1.87
41572894--41572979	44	1.9	45	88	2	129	31	17	12	38	1.87
41576751--41576801	19	2.6	20	76	17	70	43	9	7	39	1.67
41578714--41578811	24	4.1	24	91	0	169	48	21	13	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41581832--41581872	22	2.0	21	90	9	66	53	14	0	31	1.41
41582255--41582329	4	18.2	4	76	15	73	0	28	1	70	0.95
41582255--41582307	21	2.6	19	82	11	70	0	30	1	67	1.01
41582271--41582329	24	2.6	22	89	7	84	0	27	0	72	0.84
41582470--41582506	13	2.9	13	88	4	58	75	8	2	13	1.13
41582750--41582814	4	15.2	4	75	12	58	73	0	26	0	0.83
41582745--41582811	9	7.6	9	77	11	59	73	0	26	0	0.84
41582745--41582814	13	5.3	13	75	14	63	72	0	27	0	0.84
41582747--41582819	21	3.5	21	75	5	76	71	0	28	0	0.87
41582865--41582895	12	2.6	12	94	0	53	29	0	3	67	1.06
41583047--41583075	5	5.8	5	100	0	58	17	0	0	82	0.66
41583061--41583128	28	2.5	26	81	6	82	30	0	10	58	1.31
41586209--41586258	24	2.1	24	92	0	82	20	14	24	42	1.88
41586619--41586656	16	2.3	16	86	13	51	71	2	0	26	1.00
41588180--41588304	42	2.9	42	86	2	178	28	26	17	28	1.98
41588180--41588318	43	3.3	43	85	2	172	30	26	16	26	1.97
41590350--41590801	29	15.8	29	72	14	251	33	6	25	34	1.81
41590444--41590713	59	4.6	57	77	7	240	33	7	24	35	1.82
41590465--41590626	88	1.8	89	81	4	202	34	6	24	35	1.80
41590444--41590730	117	2.4	116	82	5	337	33	6	25	34	1.83
41590676--41590777	51	2.0	51	88	3	152	31	6	28	33	1.83
41590704--41590748	22	2.0	22	91	0	72	26	4	33	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41590760--41590835	41	1.9	40	86	5	109	32	6	23	36	1.81
41592541--41592606	17	3.8	17	78	7	69	60	3	1	34	1.21
41595622--41595660	3	13.0	3	94	0	69	0	33	2	64	1.08
41605371--41605463	29	3.2	30	67	11	77	32	11	21	34	1.90
41605504--41605825	29	11.0	29	74	11	171	35	4	24	35	1.77
41605503--41605784	117	2.4	116	83	6	347	35	4	24	35	1.76
41605591--41605852	89	2.9	91	79	11	260	34	4	24	35	1.77
41605719--41605845	30	4.3	29	75	19	95	36	5	22	35	1.78
41605950--41606072	30	4.1	29	75	9	106	34	23	4	36	1.76
41605966--41606252	29	9.8	29	72	12	171	35	24	3	36	1.72
41605967--41606269	58	5.2	57	79	8	256	35	23	4	36	1.75
41605967--41606180	87	2.4	87	80	6	220	36	25	3	34	1.73
41606345--41606438	28	3.3	28	77	1	98	34	28	8	28	1.87
41606026--41606438	29	14.3	29	73	8	137	34	24	6	35	1.80
41622689--41622792	29	3.6	30	84	3	135	33	1	26	37	1.68
41624919--41625847	201	4.6	202	87	2	1280	24	21	18	35	1.95
41624919--41625847	403	2.3	403	87	2	1332	24	21	18	35	1.95
41633813--41633877	17	3.8	17	89	0	94	55	1	1	41	1.18
41633805--41633906	6	17.0	6	69	11	66	50	1	3	44	1.32
41644624--41645173	49	11.2	49	70	10	313	18	25	16	39	1.91
41644856--41645137	50	5.7	48	73	9	226	18	25	16	39	1.91
41644601--41645228	99	6.4	98	84	2	638	18	25	17	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41644601--41645228	198	3.2	197	81	4	714	18	25	17	39	1.91
41644589--41645234	49	13.2	48	67	15	236	18	24	17	39	1.92
41662726--41662801	17	4.4	17	81	6	98	56	3	1	38	1.26
41662726--41662801	36	2.2	36	90	4	120	56	3	1	38	1.26
41662718--41662769	6	8.8	6	75	12	54	55	3	0	40	1.18
41665841--41665932	48	1.9	47	82	10	116	63	5	1	30	1.24
41665902--41665944	14	3.0	14	89	3	59	72	2	0	25	0.97
41669510--41669540	12	2.6	12	100	0	62	51	9	6	32	1.60
41675378--41675416	20	2.0	20	94	0	69	28	20	5	46	1.72
41683243--41683289	20	2.4	20	79	10	53	55	0	0	44	0.99

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