genome.fa.s1.2.7.7.80.10.50.1000.2.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  2  of  126  ( 15035 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)
339163--339244	40	2.0	40	95	0	146	45	14	14	25	1.83
344706--344752	21	2.3	20	85	3	58	40	2	19	38	1.63
347906--347930	2	12.5	2	100	0	50	52	0	48	0	1.00
349379--349422	14	2.9	14	83	12	52	45	2	13	38	1.56
349732--349789	29	2.0	28	80	9	64	55	3	0	41	1.17
364702--364730	2	14.5	2	100	0	58	0	48	0	51	1.00
366949--366999	22	2.3	22	79	0	57	45	1	3	49	1.32
367676--367738	30	2.2	28	83	8	81	55	7	6	30	1.54
367686--367742	29	1.9	29	92	3	96	54	8	5	31	1.53
369692--369757	33	2.0	33	90	0	105	27	21	10	40	1.86
380044--380085	2	21.0	2	100	0	84	50	0	0	50	1.00
380689--380723	16	2.2	16	89	0	52	37	5	5	51	1.50
394343--395111	212	3.6	212	83	5	832	25	18	21	34	1.96
399054--399151	43	2.3	43	98	0	187	31	11	13	43	1.79
399710--399767	29	2.0	28	83	3	71	39	5	12	43	1.64
402457--402497	2	20.5	2	100	0	82	48	0	0	51	1.00
402921--402996	31	2.5	31	80	4	82	48	2	2	46	1.30
402953--403009	28	2.0	28	82	0	69	49	3	0	47	1.18
410758--410797	21	1.9	21	100	0	80	40	25	5	30	1.77
414720--415328	194	3.0	207	85	6	727	26	14	19	39	1.91
419556--419626	20	3.7	19	81	11	74	25	4	2	67	1.22
419557--419626	9	7.4	9	75	15	61	25	2	2	68	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419605--419640	19	1.9	19	88	5	56	36	0	2	61	1.11
423750--423776	7	3.9	7	100	0	54	0	11	0	88	0.50
427612--427757	75	1.9	75	97	0	274	47	11	7	33	1.68
436512--436549	17	2.2	18	86	9	53	63	2	0	34	1.09
438480--438521	18	2.2	20	87	8	61	52	2	2	42	1.27
441619--441686	25	2.7	25	88	4	102	30	16	20	32	1.94
446267--446302	19	1.9	18	88	5	54	38	0	2	58	1.13
450870--450941	30	2.4	30	86	11	96	47	1	2	48	1.25
452680--452707	6	4.7	6	100	0	56	17	0	14	67	1.22
454260--454318	30	2.0	30	93	6	102	54	0	1	44	1.10
455428--455491	29	2.5	24	80	16	74	37	4	3	54	1.37
455431--455487	26	2.1	26	87	9	78	40	5	3	50	1.42
456603--456662	29	2.0	30	83	3	77	53	0	1	45	1.10
457306--458801	146	10.8	137	78	10	1292	28	7	17	46	1.76
457543--457768	120	1.9	120	95	0	407	26	6	18	48	1.72
457427--457900	255	1.9	255	89	2	747	28	6	18	45	1.75
457680--458801	278	3.9	276	80	9	1131	28	8	17	46	1.76
463175--463240	27	2.4	28	78	19	68	42	1	4	51	1.31
463198--463252	28	2.0	27	82	10	67	38	1	7	52	1.40
464849--464898	15	3.6	15	79	15	63	46	18	0	36	1.49
464850--464899	25	2.0	26	84	4	66	48	18	0	34	1.48
474865--474926	28	2.2	29	85	2	81	66	1	3	29	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474888--474926	14	2.7	15	84	8	53	71	0	0	28	0.86
490783--490885	51	2.0	51	100	0	206	31	1	11	55	1.47
510335--510613	117	2.4	112	80	12	285	40	12	14	31	1.84
510557--510627	30	2.4	30	80	0	79	42	9	14	33	1.78
510770--510817	4	12.2	4	91	4	53	33	25	16	25	1.96
510769--510815	12	4.0	12	80	5	60	36	23	14	25	1.93
512020--512066	22	2.1	23	84	11	71	29	0	0	70	0.88
512043--512081	18	2.2	17	86	4	51	33	2	0	64	1.08
512240--512595	185	1.9	184	81	1	426	38	16	9	35	1.81
525322--525531	96	2.2	96	89	0	321	27	20	22	30	1.98
525322--525588	96	2.8	96	82	4	288	26	21	20	31	1.98
525713--526194	96	5.1	95	68	11	369	22	19	26	31	1.97
525639--526406	189	4.1	189	91	2	1217	23	20	25	31	1.98
528502--528568	15	4.5	15	74	7	64	7	2	46	43	1.47
528516--528572	30	1.9	30	88	0	87	7	3	47	42	1.47
529151--529412	130	2.0	130	90	1	409	42	9	4	43	1.59
529796--529849	25	2.1	25	89	3	81	57	14	18	9	1.64
530576--530624	26	1.9	25	88	12	73	46	4	12	36	1.60
531160--531206	20	2.3	20	81	0	58	38	2	2	57	1.23
534699--534757	31	1.9	31	89	0	91	50	6	5	37	1.51
535417--535442	7	3.7	7	100	0	52	57	0	0	42	0.98
545704--545904	30	6.7	29	83	5	188	39	23	2	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545705--545904	90	2.2	90	81	5	217	39	23	3	34	1.70
548814--548852	15	2.6	15	83	0	51	58	0	28	12	1.34
551995--552047	24	2.2	24	100	0	106	33	39	13	13	1.83
552161--552212	21	2.5	21	83	0	68	15	55	5	23	1.61
553276--553423	73	2.0	73	98	0	287	39	12	18	28	1.88
555833--555885	17	3.1	17	78	8	54	56	3	1	37	1.28
563828--563860	16	2.0	17	88	5	50	15	39	3	42	1.62
565058--565123	31	2.1	31	83	5	80	51	12	4	31	1.59
565767--565817	21	2.5	21	87	9	70	66	7	1	23	1.28
568328--568395	31	2.2	31	86	5	93	38	10	7	44	1.67
570959--571011	21	2.5	20	81	6	61	47	1	0	50	1.12
570959--571003	20	2.2	21	84	4	56	48	2	0	48	1.13
573194--573885	190	3.7	180	78	9	608	42	17	19	20	1.89
579006--579054	24	2.0	25	84	8	64	46	0	2	51	1.12
579076--579146	30	2.4	30	83	4	81	47	2	11	38	1.54
586529--586585	28	2.0	29	86	6	80	61	8	5	24	1.46
586515--586586	30	2.5	28	78	12	83	59	6	5	27	1.46
588456--588489	13	2.7	12	90	9	50	67	11	11	8	1.42
589248--589426	86	2.1	86	84	0	232	28	17	15	37	1.91
593558--593588	16	1.9	16	93	0	53	19	0	0	80	0.71
594341--594383	13	3.4	13	87	9	54	79	0	2	18	0.85
604273--604339	31	2.2	31	88	0	98	37	4	11	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611460--611490	15	2.1	15	100	0	62	19	12	25	41	1.87
625669--625738	23	3.2	23	64	15	58	25	7	17	50	1.71
625654--625743	42	2.2	41	95	2	162	23	6	15	54	1.65
626221--626465	135	1.8	137	93	1	431	23	17	28	31	1.97
627719--627770	2	26.0	2	94	0	86	46	1	0	51	1.12
632304--632682	132	2.9	132	84	4	460	22	20	16	40	1.91
633261--633314	27	2.0	27	81	0	63	37	3	1	57	1.27
634325--634415	37	2.2	41	74	23	102	48	18	8	24	1.76
634339--634421	37	2.2	37	93	4	141	43	18	10	27	1.83
639337--640282	316	3.0	315	89	2	1344	36	20	14	29	1.92
646506--646543	18	2.1	18	100	0	76	31	47	10	10	1.72
653826--653863	18	2.1	18	100	0	76	31	47	10	10	1.72
662413--662466	2	27.0	2	100	0	108	50	0	0	50	1.00
666290--666369	23	3.5	22	87	3	106	36	28	22	12	1.91
666262--666411	23	6.4	23	80	9	89	40	23	25	11	1.88
668917--669120	84	2.4	83	78	4	214	44	12	13	29	1.81
670289--671026	366	2.0	366	99	0	1467	30	16	17	35	1.92
671951--672391	211	2.1	213	84	2	566	28	24	16	31	1.96
671978--672451	211	2.2	213	79	3	519	27	24	17	30	1.97
678038--678104	22	3.1	22	70	12	75	40	11	11	35	1.79
678390--678433	23	2.0	22	82	13	54	34	0	18	47	1.49
678559--678588	16	1.9	16	93	6	53	63	0	10	26	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
680500--680675	97	1.8	97	86	2	255	39	13	18	29	1.88
681006--681155	27	5.3	28	69	15	85	39	1	28	31	1.65
681039--681296	29	9.0	28	73	11	164	39	0	23	36	1.60
681010--681226	58	3.8	57	82	10	219	38	1	24	35	1.64
681094--681285	59	3.3	59	85	1	226	39	0	22	37	1.58
682859--682949	6	15.7	6	68	11	64	53	4	2	39	1.33
682859--682949	17	5.2	17	71	11	69	53	4	2	39	1.33
682859--682949	35	2.6	35	78	11	107	53	4	2	39	1.33
684562--684620	23	2.6	23	78	10	75	23	23	23	28	1.99
690228--690273	24	1.9	23	86	8	65	54	4	4	36	1.40

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