genome.fa.s4.2.7.7.80.10.50.1000.28.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  28  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)
9021263--9021287	13	1.9	13	100	0	50	28	0	0	72	0.86
9022161--9022194	14	2.5	14	90	4	52	23	8	11	55	1.63
9023250--9023283	17	1.9	18	94	5	61	64	0	0	35	0.94
9025799--9025945	61	2.4	61	77	0	141	40	14	5	40	1.69
9029310--9029357	16	3.0	15	82	11	51	33	4	2	60	1.27
9029626--9029743	60	2.0	61	86	1	166	52	13	11	22	1.72
9029626--9029770	60	2.4	60	81	3	150	54	11	9	24	1.65
9029640--9029766	61	2.1	60	82	1	146	56	9	10	23	1.61
9031492--9031607	57	2.1	54	90	4	178	56	6	12	24	1.61
9034165--9034202	18	2.2	18	85	4	51	55	13	5	26	1.59
9034259--9034301	19	2.3	19	79	0	50	48	11	4	34	1.60
9037817--9037868	20	2.8	18	78	21	63	51	3	1	42	1.31
9038571--9038603	17	1.9	17	100	0	66	18	6	18	57	1.60
9038781--9038897	20	5.9	20	71	16	82	49	1	0	47	1.17
9038787--9038827	19	2.0	21	86	9	59	48	2	0	48	1.14
9038790--9038899	28	4.1	27	77	17	122	50	1	0	47	1.11
9038781--9038860	22	3.5	22	77	21	83	50	1	1	47	1.17
9038781--9038896	51	2.3	49	89	4	171	50	1	0	47	1.17
9038781--9038860	11	7.9	11	76	18	68	50	1	1	47	1.17
9039757--9039808	17	3.2	17	76	15	65	51	0	32	15	1.43
9039757--9039800	14	2.9	15	83	10	54	52	0	34	13	1.41
9039857--9039920	18	4.1	17	73	24	68	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)
9039854--9039930	10	8.1	10	73	21	76	50	0	0	49	1.00
9039832--9039960	28	4.6	28	93	4	199	48	0	0	51	1.00
9039828--9039960	56	2.3	58	89	7	227	49	0	0	50	1.00
9039920--9039963	23	2.0	22	87	12	65	54	0	0	45	0.99
9039857--9039940	17	5.6	17	69	30	84	48	0	0	51	1.00
9041465--9041531	35	1.9	35	85	11	93	44	5	2	46	1.43
9041921--9041962	21	2.0	21	81	9	50	30	0	7	61	1.22
9042336--9042406	24	3.0	24	85	8	108	50	18	12	18	1.77
9044870--9044935	28	2.4	28	81	0	78	28	1	22	46	1.61
9044893--9044933	21	2.0	21	85	0	55	24	0	26	48	1.51
9045287--9045324	6	6.3	6	96	0	58	0	39	10	50	1.37
9047156--9047204	16	3.2	16	72	21	50	32	0	6	61	1.21
9047299--9047351	23	2.4	23	76	14	58	35	7	0	56	1.28
9047854--9047906	20	2.6	21	88	8	74	0	39	0	60	0.97
9052237--9052268	4	8.2	4	93	6	57	21	0	78	0	0.76
9073130--9073313	90	2.1	87	87	9	264	28	15	6	48	1.70
9077909--9077957	2	24.5	2	91	0	80	48	2	0	48	1.12
9083575--9083631	29	2.0	28	82	3	69	43	8	0	47	1.34
9084881--9084923	21	2.0	21	86	4	59	44	13	6	34	1.72
9085346--9085417	38	1.9	38	83	10	96	34	8	25	31	1.85
9086182--9086241	30	2.0	31	86	3	86	25	16	10	48	1.77
9086496--9086556	31	2.0	31	84	12	81	47	9	18	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9086420--9086596	90	2.0	90	83	3	223	50	12	14	23	1.76
9089962--9089992	3	10.3	3	100	0	62	67	0	32	0	0.91
9112039--9112076	16	2.4	16	86	0	58	60	2	0	36	1.11
9117084--9117146	31	2.0	31	100	0	126	46	6	6	41	1.55
9117633--9117713	3	27.0	3	100	0	162	66	0	0	33	0.92
9123544--9123579	2	18.0	2	100	0	72	50	0	0	50	1.00
9132156--9132208	22	2.5	22	84	3	72	39	1	9	49	1.46
9133079--9133105	4	6.8	4	100	0	54	0	51	0	48	1.00
9138909--9138976	23	3.2	22	71	25	74	58	2	5	32	1.37
9144515--9144722	93	2.3	91	79	8	201	40	22	7	29	1.80
9144804--9144868	18	3.2	20	80	14	71	53	4	4	36	1.42
9145127--9145203	19	4.2	19	68	24	56	36	2	1	59	1.19
9145088--9145203	55	2.1	57	84	9	150	31	5	1	61	1.28
9145221--9145254	18	2.0	16	88	11	50	29	0	0	70	0.87
9145312--9145537	90	2.5	88	83	5	276	33	8	22	35	1.84
9149998--9150045	21	2.2	22	85	3	62	27	0	10	62	1.27
9150018--9150068	23	2.2	23	86	6	68	19	1	13	64	1.37
9151387--9151442	28	2.0	28	96	0	103	32	26	10	30	1.90
9154481--9154529	3	16.3	3	91	0	80	32	36	0	30	1.58
9154719--9154761	2	21.5	2	80	0	50	39	0	51	9	1.34
9154717--9154759	6	7.2	6	97	0	68	37	0	51	11	1.39
9161132--9161163	2	16.0	2	100	0	64	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9173368--9173442	32	2.4	31	84	6	89	60	0	4	36	1.16
9173383--9173436	11	5.0	11	76	13	58	62	0	1	35	1.06
9173392--9173433	21	2.1	20	86	8	59	66	0	2	30	1.04
9176196--9176222	6	4.5	6	100	0	54	85	0	0	14	0.61
9176671--9176782	58	1.9	58	88	0	170	38	20	13	27	1.90
9180575--9180620	24	1.9	23	86	8	65	54	6	4	34	1.46
9185286--9185339	24	2.2	24	100	0	108	29	3	27	38	1.74
9186293--9186382	37	2.4	37	98	0	171	11	21	31	36	1.88
9186313--9186382	21	3.6	21	70	18	69	10	21	32	35	1.87
9187585--9187639	22	2.5	22	84	3	65	61	16	0	21	1.34
9193476--9193550	30	2.4	32	76	10	84	42	4	5	48	1.44
9193947--9194149	98	2.1	98	91	0	325	27	3	22	46	1.69
9196197--9196221	2	12.5	2	100	0	50	0	52	0	48	1.00
9199095--9199168	29	2.7	27	75	17	71	54	4	2	39	1.34
9199116--9199179	29	2.2	29	91	5	103	43	1	3	51	1.26
9208167--9208209	22	2.0	22	86	9	61	20	11	9	58	1.61
9208708--9208736	15	1.9	15	100	0	58	48	6	0	44	1.29
9208709--9208747	15	2.5	15	87	4	51	53	7	0	38	1.30
9210867--9210910	19	2.4	18	85	7	61	47	4	2	45	1.35
9214954--9214978	4	6.2	4	100	0	50	24	0	24	52	1.48
9216903--9216955	27	2.0	26	85	3	70	39	0	1	58	1.09
9217268--9217299	3	10.7	3	100	0	64	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)
9226774--9226891	41	2.9	41	92	2	184	22	27	11	38	1.88
9227733--9227780	22	2.2	21	81	3	60	37	14	0	47	1.44
9229181--9229228	23	2.1	22	81	11	53	58	2	29	10	1.43
9231120--9232656	80	19.2	80	91	1	2348	26	18	22	32	1.97
9232731--9232887	50	3.1	50	84	3	190	22	22	18	35	1.95
9234790--9234830	19	2.0	20	90	9	66	9	14	0	75	1.04
9238515--9238547	11	3.0	11	100	0	66	45	0	45	9	1.35
9238877--9238908	4	8.5	4	93	6	50	75	0	0	25	0.81
9238877--9238927	18	2.8	18	85	11	61	76	0	1	21	0.88
9238878--9238926	22	2.2	22	85	7	64	75	0	2	22	0.90
9241593--9241630	18	2.1	18	85	9	51	57	2	0	39	1.12
9241580--9241634	28	1.9	29	85	10	78	58	3	0	38	1.16
9241651--9241694	12	3.4	12	77	17	52	70	6	0	22	1.11
9241700--9241732	2	17.0	2	87	6	50	48	3	0	48	1.17
9249766--9249790	2	12.5	2	100	0	50	52	0	48	0	1.00
9249817--9249845	6	4.8	6	100	0	58	68	0	31	0	0.89
9251547--9251584	15	2.4	16	86	8	51	44	0	2	52	1.14
9252081--9252123	23	1.9	22	85	4	59	30	0	4	65	1.13
9252536--9252594	25	2.3	26	81	18	72	38	0	5	55	1.22
9252702--9252730	15	2.0	15	93	6	51	41	3	0	55	1.17
9257148--9257204	30	1.9	29	82	10	71	35	1	1	61	1.17
9257148--9257242	26	3.5	26	75	20	70	35	1	2	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9257176--9257242	26	2.5	26	78	7	73	37	0	2	59	1.13
9259468--9259549	31	2.7	30	85	7	96	59	4	6	29	1.42
9261502--9261540	21	1.9	20	89	5	60	38	12	28	20	1.89
9271483--9271582	20	4.8	20	70	19	71	6	6	21	67	1.35
9271486--9271604	62	1.9	62	83	6	152	5	6	21	67	1.34
9284615--9284640	8	3.2	8	100	0	52	11	26	11	50	1.73
9299422--9299459	12	3.2	12	82	14	51	44	0	7	47	1.32
9304653--9304713	21	3.0	21	83	9	65	65	0	1	32	1.02
9304669--9304730	21	3.1	20	77	13	65	66	0	3	30	1.08
9312840--9312869	5	6.2	5	92	7	53	0	20	40	40	1.52

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