genome.fa.s2.2.7.7.80.10.50.1000.19.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  19  of  135  ( 16151 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)
5109556--5109584	5	5.8	5	100	0	58	79	0	0	20	0.74
5115728--5115770	19	2.3	19	95	0	77	39	4	16	39	1.69
5125645--5125678	17	2.0	17	94	0	59	32	17	2	47	1.63
5126376--5126419	13	3.2	13	87	9	61	43	2	2	52	1.26
5128299--5128403	53	2.0	53	94	0	183	33	15	9	41	1.79
5131970--5132148	57	3.1	57	87	4	245	46	18	0	33	1.54
5132705--5132743	18	2.2	18	100	0	78	33	10	5	51	1.58
5132778--5132875	50	2.0	50	95	0	178	58	6	7	28	1.49
5132897--5133198	148	2.0	148	99	0	595	27	22	23	26	1.99
5133980--5134023	9	4.7	9	78	10	52	27	2	2	68	1.14
5143009--5143322	162	1.9	164	87	4	458	24	15	11	48	1.78
5143399--5143516	30	3.9	29	80	6	137	35	23	5	35	1.77
5143504--5143966	59	7.9	59	92	0	712	31	28	6	33	1.82
5143502--5143959	30	15.6	29	65	16	187	31	28	5	34	1.81
5155325--5155432	6	18.0	6	75	14	89	49	0	1	48	1.18
5155325--5155401	17	4.4	17	76	15	77	44	0	2	53	1.14
5155315--5155401	11	7.5	11	72	18	61	43	0	3	52	1.18
5155352--5155432	31	2.6	30	80	9	83	53	1	1	44	1.16
5156204--5156278	29	2.6	29	77	8	80	41	18	4	36	1.70
5156257--5156535	30	9.4	29	68	21	145	33	29	2	34	1.70
5156266--5156535	59	4.6	58	88	5	380	32	30	2	34	1.70
5172673--5172713	17	2.4	17	87	4	55	43	4	0	51	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5172683--5172751	6	11.8	6	75	10	63	44	2	2	49	1.32
5172704--5172751	17	2.8	17	90	3	69	41	2	4	52	1.32
5172683--5172736	23	2.3	23	90	0	81	46	3	0	50	1.19
5172688--5172736	11	4.3	11	79	7	53	42	4	0	53	1.20
5173523--5173578	9	6.0	9	87	4	67	53	1	1	42	1.21
5174712--5174820	28	3.8	27	72	20	87	35	27	0	36	1.57
5174701--5175063	29	12.3	28	66	24	135	32	30	3	34	1.73
5174719--5175042	178	1.8	176	87	2	479	33	29	2	34	1.72
5174719--5175058	119	2.9	117	87	2	475	33	29	2	34	1.72
5174719--5175058	59	5.7	59	88	1	466	33	29	2	34	1.72
5175139--5175184	15	3.0	16	75	12	51	23	13	6	56	1.60
5180674--5180716	21	2.0	21	100	0	86	41	18	23	16	1.89
5200451--5200501	21	2.4	21	90	0	84	27	5	11	54	1.59
5202986--5203033	2	24.5	2	91	4	80	50	2	0	47	1.12
5208615--5208714	36	2.8	36	93	0	173	24	27	15	34	1.94
5210407--5210529	23	5.4	23	82	3	142	42	21	24	11	1.86
5210407--5210543	46	3.0	46	79	7	127	42	22	23	11	1.86
5229549--5229612	20	3.0	21	80	15	69	29	3	3	64	1.24
5229791--5229823	15	2.3	15	89	5	50	27	6	3	63	1.32
5236454--5236578	23	5.4	23	77	11	112	16	16	26	40	1.89
5239663--5239699	18	2.1	18	89	0	56	48	0	27	24	1.51
5239801--5239901	38	2.6	40	75	10	109	20	18	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5239827--5239905	37	2.1	38	85	2	106	20	18	27	32	1.96
5244254--5244299	25	1.9	23	82	8	56	34	4	6	54	1.46
5244366--5244401	15	2.4	15	100	0	72	36	47	5	11	1.63
5245258--5245311	27	2.0	26	82	3	63	40	31	0	27	1.57
5255271--5255298	14	2.0	14	100	0	56	28	21	7	42	1.79
5256917--5256959	22	2.0	22	81	9	52	62	0	2	34	1.08
5257077--5257145	32	2.2	32	91	0	111	39	14	14	31	1.86
5260411--5260455	18	2.6	18	82	6	58	44	0	0	55	0.99
5260659--5260733	37	2.0	37	87	5	107	58	1	0	40	1.06
5260685--5260733	19	2.6	19	80	3	55	65	0	0	34	0.93
5260686--5260733	18	2.6	19	83	6	62	64	0	0	35	0.94
5263996--5264062	26	2.4	28	79	20	70	35	2	2	58	1.29
5264071--5264099	12	2.5	12	94	5	51	48	0	0	51	1.00
5266046--5266147	30	3.5	29	72	10	82	36	1	27	34	1.68
5266036--5266401	59	6.2	59	83	4	420	34	4	30	31	1.77
5266071--5266293	30	7.6	27	69	21	96	34	4	29	31	1.78
5266036--5266462	118	3.6	116	83	7	472	34	4	28	31	1.79
5268335--5268396	17	3.6	17	86	4	81	48	1	3	46	1.28
5268335--5268396	6	10.8	6	73	16	60	48	1	3	46	1.28
5270486--5270536	20	2.7	20	81	6	61	68	1	1	27	1.11
5271338--5271372	6	5.7	6	90	6	52	42	5	0	51	1.25
5272348--5272385	19	2.0	19	89	0	58	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5273433--5273868	49	8.9	49	72	11	322	35	17	27	19	1.94
5273433--5273901	98	4.8	98	86	2	656	36	17	26	19	1.94
5273909--5274055	48	3.0	49	83	2	206	34	21	28	16	1.95
5273913--5274094	97	1.9	97	80	4	215	37	20	25	15	1.93
5274140--5275042	102	9.0	102	88	3	1208	35	15	17	31	1.91
5274140--5275037	199	4.5	201	88	2	1195	35	15	17	31	1.91
5274138--5275024	301	3.0	300	90	1	1334	35	15	17	31	1.91
5277128--5277173	19	2.4	19	85	3	56	39	0	30	30	1.57
5278046--5278114	24	3.0	23	77	12	61	49	5	0	44	1.26
5280452--5280531	28	2.8	29	88	3	126	45	15	12	27	1.82
5286507--5286560	25	2.1	27	83	13	69	48	3	3	44	1.38
5306565--5306610	23	2.0	23	100	0	92	26	17	30	26	1.97
5308157--5308273	60	2.0	60	85	0	162	58	11	5	24	1.52
5311495--5311528	15	2.2	16	89	5	52	32	0	0	67	0.91
5319107--5319229	60	2.0	62	87	4	180	28	12	8	50	1.70
5319431--5319510	31	2.6	31	89	0	124	50	11	11	27	1.72
5330752--5330830	23	3.4	23	83	0	104	12	25	17	44	1.84
5330820--5330888	21	3.2	21	75	15	52	15	21	26	36	1.94
5330819--5330891	23	3.3	22	78	7	76	15	21	27	35	1.93
5331759--5332116	188	1.9	187	91	1	583	32	16	21	29	1.95
5332671--5333000	39	8.4	39	83	3	344	25	19	20	34	1.96
5332671--5332976	157	2.0	156	82	4	375	25	19	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5335402--5335428	6	4.5	6	100	0	54	55	0	29	14	1.40
5336723--5336760	13	3.1	13	85	11	53	86	5	0	7	0.69
5337241--5337294	27	2.0	27	85	7	74	18	24	31	25	1.97
5350687--5350754	27	2.5	27	81	11	68	36	2	1	58	1.22
5350717--5350759	11	3.8	11	80	17	52	32	2	0	65	1.06
5354499--5354569	35	2.1	34	86	7	99	45	4	2	47	1.36
5355369--5355415	24	2.0	24	95	0	85	44	19	17	19	1.87
5357838--5357888	7	7.1	7	84	10	59	23	0	29	47	1.52
5358303--5358366	6	10.7	6	89	0	56	3	40	14	42	1.61
5360224--5360272	16	3.2	16	69	30	52	30	2	8	59	1.38
5364875--5364916	22	1.9	22	85	9	59	26	2	2	69	1.13
5364901--5364966	26	2.5	26	73	4	62	39	0	3	57	1.14
5368145--5368197	24	2.2	24	82	0	61	30	5	24	39	1.78
5370304--5370337	6	5.7	6	85	0	50	0	64	0	35	0.94
5371656--5371689	2	17.0	2	100	0	68	50	0	0	50	1.00
5372270--5372324	21	2.5	22	85	2	76	47	3	0	49	1.19
5372348--5372403	23	2.6	21	78	13	60	50	5	1	42	1.35
5372750--5372869	58	2.1	58	87	3	170	46	20	1	31	1.60
5373075--5373124	21	2.4	21	86	6	66	4	4	18	74	1.14
5377202--5377289	28	3.1	28	75	15	90	37	2	1	59	1.18
5377202--5377242	19	2.2	19	86	0	55	39	2	0	58	1.11
5377407--5377440	17	1.9	18	88	5	52	73	0	2	23	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5377829--5377876	21	2.3	20	85	3	69	41	0	2	56	1.11
5387944--5388049	12	9.2	12	77	6	85	68	15	5	10	1.36
5387930--5388015	44	2.0	44	84	9	113	67	16	4	11	1.38
5388015--5388051	15	2.4	16	82	13	51	70	13	5	10	1.32
5387949--5388093	68	2.1	69	81	8	172	66	15	6	11	1.41
5391763--5391812	21	2.5	20	81	9	57	40	0	10	50	1.36
5392219--5392263	9	5.1	9	78	21	51	31	0	2	66	1.04
5393294--5393336	21	2.0	22	90	4	70	48	0	0	51	1.00
5393297--5393377	30	2.7	30	87	10	114	50	1	1	46	1.17
5394490--5394590	28	3.5	29	75	15	102	53	1	0	44	1.11

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