genome.fa.s4.2.7.7.80.10.50.1000.8.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  8  of  193  ( 23090 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)
2901428--2901481	21	2.8	19	78	13	56	51	3	11	33	1.55
2902425--2902459	18	1.9	18	88	0	52	34	0	11	54	1.37
2904221--2904251	2	15.5	2	93	0	53	45	0	0	54	0.99
2916806--2916962	52	3.0	52	99	0	305	34	18	11	35	1.87
2917170--2917238	25	2.7	25	77	16	70	57	1	1	39	1.16
2918026--2918066	16	2.6	16	81	11	50	68	2	0	29	1.03
2921689--2921735	25	1.9	25	86	4	69	53	2	2	42	1.25
2923801--2923834	17	2.0	17	88	0	50	55	2	0	41	1.15
2932018--2932073	29	1.9	29	88	0	85	48	1	10	39	1.49
2932799--2932859	31	2.0	30	87	9	88	55	3	8	32	1.45
2933606--2933649	23	1.9	23	95	0	79	72	0	0	27	0.85
2937372--2937402	11	2.8	11	95	0	53	35	0	0	64	0.94
2940424--2940478	28	2.1	24	83	12	65	49	3	7	40	1.48
2950414--2950447	14	2.6	14	90	9	54	67	5	0	26	1.13
2952296--2952332	6	6.3	6	90	9	51	0	0	86	13	0.57
2955785--2956199	173	2.4	173	80	2	485	31	14	21	32	1.93
2963816--2963902	29	2.9	29	74	5	75	43	9	10	36	1.71
2968919--2969113	30	6.7	28	72	13	117	32	6	27	33	1.82
2969040--2969122	29	2.9	28	84	8	87	33	4	22	38	1.76
2969035--2969152	30	4.0	28	78	10	112	32	4	24	38	1.75
2970518--2970572	17	3.2	16	89	7	74	54	3	1	40	1.28
2970571--2970595	13	1.9	13	100	0	50	52	8	0	40	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2970518--2970586	18	4.0	17	84	7	77	53	4	1	40	1.30
2973903--2973959	27	2.1	28	90	3	89	19	12	12	56	1.67
2980070--2980100	14	2.2	14	100	0	62	51	19	6	22	1.69
2981244--2981300	29	1.9	30	89	7	89	63	3	12	21	1.43
2997025--2997065	20	2.0	21	90	4	66	43	2	2	51	1.28
2997423--2997495	31	2.4	30	81	4	83	38	8	9	43	1.67
2998429--2998488	29	2.1	29	93	0	102	43	5	8	43	1.56
3000314--3000348	18	2.0	18	88	5	54	74	5	0	20	1.02
3005110--3005158	19	2.5	20	80	6	55	24	0	4	71	1.03
3010532--3010914	205	1.9	203	84	4	520	24	11	20	44	1.84
3029177--3029225	16	3.2	16	68	26	52	53	4	0	42	1.20
3038717--3038752	18	1.9	20	88	11	58	38	0	0	61	0.96
3038766--3038875	51	2.2	51	79	0	112	41	3	3	50	1.37
3043644--3043696	27	2.0	27	92	0	88	35	20	16	26	1.94
3044441--3044504	30	2.1	30	100	0	128	34	15	6	43	1.72
3049333--3049384	20	2.5	20	81	9	59	19	3	9	67	1.35
3049874--3049934	31	2.0	31	86	0	86	39	9	4	45	1.59
3058399--3058451	26	2.0	27	82	10	65	62	5	3	28	1.35
3059440--3059511	29	2.4	30	77	11	76	37	2	0	59	1.12
3062782--3062823	21	2.0	22	85	4	59	14	9	16	59	1.60
3065191--3065224	7	4.9	7	88	0	50	14	2	44	38	1.61
3074457--3074602	72	2.0	74	89	2	224	19	26	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3077872--3078054	29	6.3	26	69	19	80	34	3	28	32	1.75
3077870--3078056	58	3.2	57	81	7	205	34	4	28	32	1.77
3077935--3078028	28	3.3	28	71	21	86	36	3	29	30	1.73
3077961--3078054	29	3.2	29	68	24	81	34	4	30	30	1.77
3077896--3078082	58	3.2	58	87	3	225	33	3	28	33	1.75
3079898--3079976	6	13.3	6	71	7	54	54	3	0	41	1.18
3079898--3080010	36	3.2	35	79	3	109	54	7	0	38	1.28
3079911--3079999	17	5.0	17	73	18	65	58	6	0	34	1.25
3080362--3082280	200	9.6	201	88	1	2823	20	22	20	35	1.96
3080362--3082280	401	4.8	401	90	1	2979	20	22	20	35	1.96
3092551--3092731	96	1.9	96	82	11	228	38	15	18	28	1.91
3093077--3093146	29	2.4	29	85	0	95	42	2	21	32	1.67
3092996--3093127	59	2.2	60	79	15	157	40	0	22	36	1.60
3093093--3093155	29	2.2	29	85	2	83	41	4	17	36	1.71
3095138--3095204	18	3.8	17	82	6	71	56	5	0	37	1.24
3095496--3095676	86	2.1	86	91	2	301	48	19	12	19	1.81
3104009--3104064	22	2.4	24	88	8	89	58	0	5	35	1.21
3105284--3105309	7	3.7	7	100	0	52	46	0	0	53	1.00
3106848--3106894	24	2.0	24	83	8	60	48	6	2	42	1.40
3110601--3111999	465	3.0	465	99	0	2771	28	14	19	38	1.90
3114468--3114498	16	1.9	16	93	0	53	45	22	9	22	1.81
3116938--3117139	111	1.8	111	91	0	332	13	15	35	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3117139--3117191	18	2.9	18	72	8	54	22	0	45	32	1.53
3117139--3117207	36	1.9	35	82	11	86	21	0	47	30	1.51
3120955--3120984	15	2.0	15	93	0	51	30	26	6	36	1.82
3121067--3121194	23	5.4	23	82	12	127	40	21	25	12	1.88
3121091--3121194	48	2.2	46	84	6	138	42	22	24	11	1.86
3121043--3121203	23	6.9	22	76	12	115	40	19	26	13	1.89
3126216--3126255	20	2.0	21	90	5	64	62	0	5	32	1.17
3126210--3126270	16	3.6	15	75	25	59	60	0	3	36	1.13
3133449--3133481	16	2.1	16	100	0	66	39	18	6	36	1.75
3134444--3134537	31	3.0	31	92	1	152	53	3	9	34	1.50
3134444--3134537	32	3.0	32	90	1	145	53	3	9	34	1.50
3134442--3134547	31	3.4	31	89	6	144	53	3	9	33	1.51
3144623--3144656	11	3.1	11	86	0	50	11	0	20	67	1.21
3145041--3145083	23	1.9	22	85	4	59	30	6	4	58	1.45
3145041--3145083	22	1.9	22	86	13	61	30	6	4	58	1.45
3145475--3145521	24	2.0	23	84	8	60	53	8	2	36	1.44
3147469--3147502	11	3.1	11	86	0	50	11	0	20	67	1.21
3147887--3147929	23	1.9	22	85	4	59	30	6	4	58	1.45
3147887--3147929	22	1.9	22	86	13	61	30	6	4	58	1.45
3148322--3148368	24	2.0	23	84	8	60	53	8	2	36	1.44
3150438--3150479	22	2.0	21	85	4	57	66	14	9	9	1.44
3150939--3150968	14	2.1	15	93	6	53	20	3	6	70	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153501--3153535	17	2.0	17	88	5	52	60	8	2	28	1.41
3159522--3159550	10	2.7	11	94	5	51	10	0	51	37	1.36
3161033--3161105	31	2.3	33	80	7	87	36	4	6	52	1.48
3162107--3162178	28	2.7	27	84	16	105	52	6	2	37	1.43
3170587--3170651	30	2.2	30	100	0	130	30	33	7	27	1.85
3173057--3173518	242	1.9	242	90	2	739	34	19	18	27	1.95
3177878--3177926	20	2.5	20	86	0	62	57	2	10	30	1.43
3183700--3183726	9	3.0	9	100	0	54	33	0	0	66	0.92
3184350--3184388	15	2.6	14	84	11	51	43	0	0	56	0.99
3188916--3191116	364	6.1	359	82	6	2389	37	15	12	34	1.85
3188941--3191116	718	3.0	711	82	7	2485	37	15	12	34	1.85
3189705--3191116	365	3.9	363	84	4	1793	36	15	12	35	1.85
3191296--3191412	40	2.9	40	78	14	123	39	15	25	19	1.91
3191313--3191412	40	2.5	41	86	1	139	43	15	23	19	1.88
3191421--3191606	41	4.5	41	79	4	196	28	21	29	20	1.98
3191546--3191662	41	2.9	41	84	1	137	29	23	22	23	1.99
3191455--3191662	82	2.5	81	77	9	181	30	22	25	21	1.99
3194031--3194062	4	8.0	4	92	0	55	3	0	21	75	0.95
3194792--3194818	2	13.5	2	100	0	54	48	0	51	0	1.00
3200075--3200121	24	1.9	24	86	4	67	34	8	2	55	1.42
3200075--3200128	24	2.2	24	83	6	65	33	9	3	53	1.50
3202745--3202794	21	2.4	21	80	6	57	14	28	6	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3214553--3215186	123	5.3	119	78	9	526	28	17	15	38	1.90
3214553--3215192	61	10.6	60	77	8	506	28	17	15	38	1.90
3216029--3216147	30	4.0	30	84	2	150	62	4	6	26	1.39
3216094--3216137	23	2.0	22	82	13	54	63	2	4	29	1.26
3217418--3217617	109	1.8	112	85	3	289	40	12	15	31	1.84
3217580--3217672	48	2.0	48	84	2	125	44	12	12	30	1.80
3217533--3217730	107	1.9	104	82	4	252	43	13	15	28	1.83
3217665--3217826	61	2.7	60	86	3	204	41	12	21	23	1.88
3217628--3217826	58	3.3	58	82	4	218	40	13	19	26	1.89
3217628--3217849	58	3.7	59	79	6	205	40	13	18	27	1.88

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   183   184   185   186   187   188   189   190   191   192   
          193