genome.fa.s2.2.7.7.80.10.50.1000.2.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  2  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)
321786--321825	20	2.0	21	95	5	73	42	0	57	0	0.98
321857--321918	16	3.5	16	76	23	70	40	0	0	59	0.97
321858--321940	38	2.1	38	88	6	121	45	0	0	54	0.99
322353--322405	19	2.6	21	77	17	67	69	7	1	20	1.22
322341--322395	18	3.1	17	81	5	56	70	5	0	23	1.07
322716--322863	74	2.0	74	95	0	269	35	13	15	35	1.87
326461--326631	86	2.0	86	87	2	245	32	14	16	36	1.88
327190--327275	43	2.0	43	97	0	163	40	4	18	36	1.72
329524--329569	22	2.1	22	91	0	74	23	10	10	54	1.67
334138--334242	45	2.4	45	82	7	128	35	8	17	39	1.80
336064--336107	2	22.0	2	100	0	88	50	0	0	50	1.00
336264--336309	23	2.0	23	82	0	56	60	0	6	32	1.22
338378--338414	19	2.0	19	89	5	58	48	8	2	40	1.47
340245--340293	22	2.1	23	85	11	64	65	2	2	30	1.15
354444--354473	2	15.0	2	100	0	60	50	0	0	50	1.00
361910--361953	8	5.5	8	88	0	52	34	4	15	45	1.67
361916--361955	20	2.0	20	85	0	53	35	7	15	42	1.75
361680--362054	162	2.4	157	84	7	467	44	14	13	27	1.82
362089--362121	17	1.9	17	100	0	66	33	6	18	42	1.75
364290--364361	31	2.3	31	82	0	99	43	1	4	51	1.29
370618--370663	24	1.9	23	86	8	65	30	4	8	56	1.49
371835--371901	22	3.0	22	93	0	116	50	13	8	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395651--395714	30	2.1	30	82	8	76	40	10	1	46	1.48
398146--398205	28	2.2	27	82	11	77	53	18	0	28	1.45
400842--400906	29	2.3	27	77	15	67	46	12	3	38	1.57
402841--402887	24	2.0	24	86	0	67	40	6	0	53	1.27
403635--403667	15	2.1	17	88	11	52	36	12	24	27	1.91
404202--404268	31	2.2	29	84	5	80	61	11	4	22	1.48
405883--406010	60	2.2	59	80	10	145	38	9	17	34	1.83
417386--417482	48	2.0	48	97	0	185	37	10	21	30	1.87
426675--426708	6	5.8	6	86	6	52	70	0	0	29	0.87
445260--445326	20	3.2	22	64	20	61	40	11	2	44	1.56
445250--445331	41	2.0	40	97	2	155	41	12	2	43	1.55
445258--445344	41	2.1	41	93	0	147	41	11	5	41	1.65
445545--445676	31	4.3	30	73	10	106	41	18	0	39	1.56
448002--448044	18	2.4	18	80	7	52	46	2	0	51	1.13
451612--451668	29	2.0	29	82	0	69	33	1	1	63	1.15
452910--452939	15	2.0	15	93	0	51	43	26	3	26	1.70
452977--453021	20	2.2	21	88	4	65	15	17	33	33	1.92
453011--453076	7	9.7	7	80	6	73	16	21	25	36	1.94
453011--453068	13	4.3	14	82	8	66	17	20	25	36	1.94
453011--453076	20	3.2	20	86	2	87	16	21	25	36	1.94
456594--456730	31	4.5	31	71	10	93	40	13	3	43	1.61
460084--460150	20	3.2	22	61	26	54	38	11	4	44	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460078--460168	41	2.2	41	96	0	164	38	10	6	43	1.66
460283--460365	30	2.7	31	80	12	93	49	6	7	37	1.55
460369--460500	31	4.3	30	73	13	108	43	18	0	37	1.55
466389--466432	17	2.6	17	82	3	54	34	11	9	45	1.72
484083--484128	7	6.7	7	85	2	58	58	19	10	10	1.61
485951--486030	41	2.0	41	84	0	106	22	3	10	63	1.41
486016--486074	26	2.4	24	81	10	66	37	1	3	57	1.25
486010--486051	21	2.0	21	81	9	50	33	0	4	61	1.17
486027--486074	26	1.9	24	87	8	69	39	2	4	54	1.32
490481--490563	43	2.0	42	90	2	130	24	13	19	43	1.86
494494--494569	30	2.5	30	83	8	93	36	9	11	42	1.74
496452--496509	29	2.0	29	82	0	71	37	8	18	34	1.82
500847--500871	6	4.2	6	100	0	50	84	0	0	16	0.63
501402--501442	21	2.0	20	90	9	66	21	29	21	26	1.99
502529--502553	2	12.5	2	100	0	50	0	48	0	52	1.00
517200--517261	31	2.0	31	90	0	97	35	8	9	46	1.66
528102--528154	19	2.7	19	85	2	61	54	3	1	39	1.29
528259--528307	20	2.7	18	77	22	57	42	2	4	51	1.32
533006--533040	18	1.9	18	88	11	54	40	2	0	57	1.14
533555--533611	27	2.1	27	96	0	105	45	1	17	35	1.59
533739--533781	19	2.3	19	84	8	52	58	2	0	39	1.11
539017--539047	2	15.5	2	100	0	62	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546600--546628	13	2.2	13	100	0	58	55	24	13	6	1.63
550204--550269	30	2.2	30	78	7	73	34	7	4	53	1.50
550837--550917	22	3.6	22	79	12	94	6	3	22	67	1.29
550856--550940	41	2.0	44	88	9	131	5	3	21	69	1.25
550878--550954	18	3.7	22	72	22	67	7	3	18	70	1.28
550949--551003	12	4.6	12	90	0	56	12	7	10	69	1.37
550928--550992	24	2.7	24	78	0	67	10	6	15	67	1.39
550946--551018	36	2.1	35	87	7	105	10	5	12	71	1.30
550972--551032	30	2.0	31	87	3	88	8	1	14	75	1.11
551059--551101	21	2.0	21	81	0	50	25	0	4	69	1.07
555968--556011	22	2.0	21	83	12	54	18	2	18	61	1.45
583272--583301	14	2.1	14	100	0	60	33	0	20	46	1.51
583190--583377	103	1.8	103	88	2	288	35	6	25	32	1.83
583845--583995	71	2.1	68	85	11	198	14	21	19	44	1.86
583854--583947	48	2.0	46	85	4	125	14	20	21	43	1.87
583821--583948	23	5.4	24	83	8	138	13	22	20	43	1.86
586163--587306	210	5.4	209	87	2	1329	33	17	17	30	1.94
586242--587426	210	5.6	209	84	5	1019	34	18	17	30	1.94
586242--587426	420	2.8	412	80	7	1305	34	18	17	30	1.94
586208--587378	630	1.9	630	84	5	1573	33	18	17	30	1.94
591465--591507	17	2.6	16	82	13	52	76	4	2	16	1.05
591465--591507	16	2.7	15	86	13	52	76	4	2	16	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595821--595893	31	2.4	30	75	6	74	32	9	5	52	1.57
598554--598638	23	3.7	23	69	9	66	11	27	21	40	1.88
600418--600448	15	2.0	16	93	6	55	25	3	0	70	1.02
604719--604744	8	3.2	8	100	0	52	53	0	0	46	1.00
620246--620275	15	2.0	15	100	0	60	53	6	0	40	1.27
622207--622285	39	2.0	39	92	0	131	45	15	12	26	1.82
642818--644895	513	4.0	513	97	0	3870	26	24	19	29	1.99
648038--648242	59	3.5	59	81	4	191	32	5	29	32	1.80
648054--648217	29	5.6	29	68	11	93	32	5	29	32	1.80
650052--650144	17	5.4	17	84	6	125	54	2	1	41	1.19
650052--650144	6	16.2	6	71	16	72	54	2	1	41	1.19
650072--650126	11	4.8	12	84	6	60	58	1	0	40	1.09
650052--650153	52	2.0	52	84	7	136	55	1	0	41	1.17
655863--655919	26	2.2	27	87	6	82	56	5	5	33	1.44
660142--660171	13	2.3	13	100	0	60	63	0	0	36	0.95
662703--662810	31	3.5	31	71	14	98	25	19	12	42	1.87
662703--662890	60	3.2	59	86	4	236	23	16	14	45	1.84
662733--662832	31	3.4	29	68	14	80	25	18	14	43	1.87
662703--662890	59	3.2	58	85	4	225	23	16	14	45	1.84
663079--663146	31	2.2	31	86	0	91	45	10	16	27	1.79
663024--663194	90	1.9	90	83	1	225	47	13	15	23	1.80
663032--663216	90	2.1	90	81	2	210	47	14	14	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676126--676576	29	15.4	30	69	18	161	35	3	29	31	1.73
676126--676489	59	6.2	59	88	3	490	35	3	28	32	1.73
676126--676489	117	3.1	117	90	3	565	35	3	28	32	1.73
676469--676597	59	2.2	59	91	1	206	34	4	31	30	1.78
676301--676605	146	2.1	145	89	4	470	34	2	29	33	1.73
677686--677738	3	17.7	3	96	0	97	35	0	0	64	0.94
678533--678588	15	4.0	13	72	22	51	41	1	0	57	1.09
680581--680659	39	2.0	39	95	0	140	39	11	11	37	1.77
686768--686826	31	1.9	31	85	0	82	47	8	5	38	1.56
689949--690008	31	1.9	32	86	3	86	50	3	1	45	1.28

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