genome.fa.s4.2.7.7.80.10.50.1000.173.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  173  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)
53897846--53897885	12	3.3	12	82	0	53	35	15	0	50	1.44
53900184--53900229	22	2.0	23	87	4	67	30	6	6	56	1.50
53908902--53909017	60	1.9	60	81	6	137	43	28	3	25	1.71
53909032--53909108	13	5.6	14	68	13	52	28	0	25	45	1.54
53909325--53909376	13	4.0	13	80	14	54	38	0	0	61	0.96
53913301--53913370	14	4.7	14	70	18	52	57	1	1	40	1.17
53913456--53913513	21	2.8	20	78	21	66	58	0	0	41	0.98
53921103--53921259	29	5.3	28	66	25	92	33	3	31	30	1.76
53921040--53921743	117	6.0	116	81	7	705	34	3	29	32	1.75
53921179--53921270	29	3.1	28	68	20	71	35	3	28	32	1.73
53921285--53921387	28	3.4	30	67	18	79	33	3	25	36	1.74
53921050--53921754	59	12.1	59	82	7	762	35	3	28	32	1.74
53921370--53921757	29	13.4	28	68	23	122	35	3	29	31	1.74
53921738--53921834	30	3.2	28	78	16	88	42	3	19	35	1.67
53921762--53921855	30	3.1	30	80	7	111	39	3	17	40	1.65
53921782--53921864	30	2.8	29	78	7	85	39	2	18	39	1.63
53921716--53921868	60	2.5	59	76	10	166	39	3	22	34	1.70
53923495--53923565	18	4.1	17	80	5	70	53	7	0	39	1.28
53923491--53923569	35	2.2	35	84	6	97	54	6	0	39	1.26
53924717--53924746	7	4.3	7	100	0	60	56	0	0	43	0.99
53933691--53933746	20	2.6	21	81	16	62	12	17	23	46	1.82
53936422--53936450	2	15.0	2	92	7	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53954671--53954832	82	2.0	81	92	4	274	17	16	16	50	1.79
53956745--53956855	56	2.0	56	100	0	222	23	12	20	43	1.86
53958973--53959086	56	2.0	56	100	0	228	42	20	12	25	1.87
53960997--53961158	82	2.0	81	92	4	274	50	16	16	17	1.79
53961000--53961230	81	2.9	78	84	11	249	51	17	15	16	1.77
53963867--53964035	46	3.7	46	78	6	166	40	22	26	11	1.87
53963894--53964035	69	2.1	68	82	11	166	38	22	28	10	1.87
53963843--53964038	23	8.4	23	80	8	141	40	22	25	11	1.87
53967242--53967280	13	2.9	13	88	3	60	41	23	20	15	1.90
53970952--53971113	82	2.0	81	92	4	274	17	15	16	50	1.78
53973024--53973137	56	2.0	56	100	0	228	25	12	20	42	1.87
53975254--53975367	56	2.0	56	100	0	228	42	20	12	25	1.87
53977269--53977338	21	3.3	21	66	15	63	48	15	18	17	1.81
53977260--53977345	42	2.0	42	100	0	172	47	19	16	16	1.82
53977320--53977483	82	2.0	82	90	7	262	49	15	17	17	1.80
53977323--53977556	82	2.9	79	82	12	239	50	17	16	15	1.79
53980192--53980360	46	3.7	46	78	6	166	40	22	26	11	1.87
53980219--53980360	69	2.1	68	82	11	166	38	22	28	10	1.87
53980168--53980363	23	8.4	23	80	8	141	40	22	25	11	1.87
53983567--53983605	13	2.9	13	88	3	60	41	23	20	15	1.90
53987271--53987432	82	2.0	81	92	4	274	17	16	16	50	1.79
53989342--53989455	56	2.0	56	100	0	228	25	12	20	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53993232--53993552	59	5.5	59	85	6	359	33	2	29	33	1.71
53993243--53993344	30	3.4	30	75	20	106	34	2	28	34	1.72
53993238--53993552	117	2.7	118	87	3	449	33	2	30	33	1.70
53995399--53995454	16	3.3	17	80	5	51	39	0	1	58	1.08
53995439--53995500	6	10.8	6	76	10	67	56	0	3	40	1.15
53995440--53995500	17	3.6	17	89	8	97	57	0	3	39	1.15
53995903--53996504	200	3.0	200	89	1	920	18	23	21	36	1.95
54008624--54008935	29	10.8	29	69	21	135	32	3	31	32	1.76
54008619--54008935	59	5.4	58	83	10	371	32	4	31	32	1.77
54008667--54008932	29	9.2	29	69	17	160	32	3	31	32	1.76
54017729--54017767	20	2.0	20	94	0	69	58	12	5	23	1.54
54020438--54020502	31	2.2	30	91	5	105	26	15	4	53	1.61
54026430--54026474	18	2.5	18	92	0	81	11	15	17	55	1.68
54047000--54047051	27	1.9	27	92	0	86	53	11	1	32	1.48
54047057--54047169	44	2.6	44	76	8	115	38	11	0	49	1.39
54056105--54056161	21	2.8	20	77	12	62	38	1	1	57	1.19
54056691--54056723	17	2.1	16	88	11	50	33	3	0	63	1.10
54059875--54059932	19	3.0	20	85	10	75	56	3	0	39	1.16
54059875--54059929	21	2.8	19	86	8	67	58	3	0	38	1.16
54059871--54059975	20	5.4	19	67	19	56	54	3	0	41	1.18
54064029--54064087	29	2.0	30	86	3	84	28	6	15	49	1.70
54064230--54064302	31	2.4	30	79	4	83	45	10	9	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54065098--54065129	16	2.0	16	93	0	55	34	0	0	65	0.93
54074944--54074973	15	2.1	14	93	6	51	63	3	0	33	1.11
54074944--54074977	8	4.4	8	85	7	52	64	2	0	32	1.08
54074986--54075032	19	2.6	17	78	12	58	63	0	14	21	1.30
54075719--54075804	43	2.0	42	95	2	154	44	8	13	33	1.74
54081639--54081698	29	2.0	30	83	3	77	48	1	1	48	1.21
54083060--54083124	24	2.7	24	72	13	62	53	0	0	46	1.00
54083060--54083123	12	5.3	12	75	17	53	53	0	0	46	1.00
54085306--54085347	9	4.8	9	79	5	50	73	2	0	23	0.94
54085304--54085338	17	2.0	18	94	5	63	68	0	0	31	0.90
54090624--54090653	16	1.9	16	93	6	53	66	0	0	33	0.92
54093608--54093641	15	2.2	16	94	5	61	35	0	0	64	0.94
54094225--54094255	2	15.5	2	100	0	62	48	0	0	51	1.00
54096587--54096634	19	2.5	19	74	12	53	47	2	12	37	1.53
54100875--54101015	23	6.3	23	78	15	145	12	23	21	42	1.86
54100875--54101015	39	3.2	46	78	16	145	12	23	21	42	1.86
54103749--54103785	18	2.0	20	89	10	60	45	40	8	5	1.56
54106575--54106624	23	2.2	23	82	3	57	38	2	2	58	1.21
54110587--54110626	18	2.3	18	86	4	55	32	2	7	57	1.40
54111991--54112029	21	1.9	20	84	5	51	35	12	2	48	1.55
54112042--54112085	24	2.0	22	86	13	63	38	2	0	59	1.10
54116588--54116614	3	9.0	3	100	0	54	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54117381--54117445	35	2.0	34	82	14	84	47	10	3	38	1.54
54117381--54117445	33	1.9	35	84	12	91	47	10	3	38	1.54
54119092--54119540	162	2.7	163	82	6	541	28	12	26	31	1.93
54136151--54136185	3	11.7	3	93	0	61	68	2	0	28	1.04
54144612--54144691	24	3.3	24	76	0	79	15	28	18	37	1.91
54152412--54152445	16	2.1	16	100	0	68	58	5	11	23	1.55
54157012--54157036	11	2.3	11	100	0	50	48	0	16	36	1.46
54162202--54162469	43	6.3	43	83	5	312	27	27	20	24	1.99
54162202--54162469	85	3.1	84	83	6	342	27	27	20	24	1.99
54163631--54163668	17	2.2	17	86	9	51	81	0	13	5	0.85
54164647--54164686	20	2.0	21	90	5	64	15	10	0	75	1.05
54165014--54165084	24	3.0	24	87	0	97	28	11	7	53	1.62
54165998--54166054	17	3.2	17	83	14	71	43	0	0	56	0.99
54170274--54170357	28	3.0	28	94	0	150	30	5	7	55	1.51
54193198--54193256	28	2.1	29	84	9	77	10	25	8	55	1.61
54196838--54196893	20	2.7	21	78	15	55	41	14	0	44	1.45
54226599--54226680	29	2.8	29	81	9	78	50	6	3	40	1.45
54226616--54226677	31	2.1	29	84	6	79	53	4	1	40	1.32
54232284--54232324	21	1.9	22	85	5	57	51	7	0	41	1.30
54238682--54238746	32	2.0	32	100	0	130	47	6	0	46	1.27
54241245--54241312	24	2.9	23	76	14	77	44	0	1	54	1.09
54242948--54242990	20	2.2	20	82	0	50	67	6	0	25	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54251268--54251303	2	18.0	2	100	0	72	50	0	0	50	1.00
54252670--54252717	25	2.0	25	88	8	73	56	4	2	37	1.30
54253624--54253680	22	2.5	22	77	2	60	49	8	0	42	1.34
54254860--54254893	12	2.8	12	86	0	50	8	17	17	55	1.66
54258075--54258142	22	3.1	22	83	8	86	39	1	4	54	1.30
54258077--54258143	21	3.1	21	89	2	89	38	1	4	55	1.29
54258090--54258158	21	3.2	21	87	6	77	36	1	4	57	1.27
54263504--54263544	3	13.7	3	100	0	82	65	0	0	34	0.93
54269573--54269600	6	4.7	6	100	0	56	50	14	17	17	1.79
54271680--54271710	12	2.6	12	94	0	53	58	6	9	25	1.54

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