genome.fa.s9.2.7.7.80.10.50.1000.176.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  176  of  182  ( 21729 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)
53295738--53295771	3	11.3	3	100	0	68	67	0	0	32	0.91
53304584--53304671	33	2.8	32	78	14	101	43	9	7	39	1.66
53304584--53304685	31	3.2	32	77	13	104	41	11	6	40	1.68
53304912--53304970	16	3.6	17	71	15	52	47	20	8	23	1.77
53322241--53322293	20	2.7	20	79	2	63	54	1	0	43	1.11
53323290--53323364	36	2.1	36	100	0	150	46	16	18	18	1.84
53327049--53327148	50	2.0	50	96	0	182	29	7	23	41	1.80
53327061--53327165	50	2.1	49	82	7	122	32	7	20	40	1.80
53328202--53328300	50	1.9	52	80	8	114	37	24	15	23	1.93
53330884--53330941	19	3.1	19	77	7	55	25	0	5	68	1.10
53330891--53330943	24	2.2	24	83	12	65	30	0	3	66	1.10
53331088--53331134	17	2.8	17	80	6	51	25	0	6	68	1.13
53341057--53341090	13	2.5	13	95	4	59	70	0	0	29	0.87
53343708--53343784	38	2.0	38	94	0	136	37	16	22	23	1.94
53348231--53348323	46	2.0	46	100	0	186	32	12	19	35	1.90
53355755--53356312	234	2.4	230	88	3	820	30	9	17	41	1.82
53356319--53356849	228	2.3	231	82	5	635	29	8	16	46	1.76
53361933--53362011	39	2.0	39	100	0	158	32	5	15	46	1.67
53364931--53365330	198	2.0	197	98	0	773	38	19	12	29	1.89
53377852--53378890	235	4.6	223	84	8	1012	29	14	19	36	1.92
53378252--53378890	235	2.7	234	93	1	1039	28	14	20	36	1.92
53394116--53394201	42	2.0	42	100	0	172	30	18	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53401643--53401677	14	2.5	15	90	9	56	34	11	0	54	1.37
53401917--53401955	19	2.0	21	85	10	55	38	0	0	61	0.96
53402124--53402148	10	2.5	10	100	0	50	28	20	32	20	1.97
53406170--53406232	32	1.9	33	81	9	76	34	26	11	26	1.90
53406753--53406803	15	3.4	14	84	10	66	56	1	0	41	1.10
53407663--53407720	29	2.0	29	82	0	71	34	6	10	48	1.64
53417142--53417204	26	2.4	26	81	5	65	31	11	23	33	1.90
53417163--53417248	45	1.9	45	85	0	118	30	15	25	29	1.96
53423441--53423480	19	2.2	18	86	13	55	55	5	2	37	1.35
53424080--53424138	21	2.7	21	89	5	82	37	30	3	28	1.74
53429335--53429952	308	2.0	308	100	0	1236	36	17	11	35	1.85
53439132--53439169	14	2.6	15	83	8	51	60	10	0	28	1.30
53443074--53443110	19	1.9	19	88	0	56	37	0	8	54	1.30
53443080--53443155	34	2.2	35	86	13	113	40	1	1	56	1.16
53443099--53443156	17	3.5	16	77	11	64	39	1	0	58	1.08
53443097--53443160	33	1.9	33	87	9	94	42	1	0	56	1.09
53445491--53445588	48	2.1	48	94	1	171	31	15	30	22	1.95
53446730--53446780	21	2.4	22	87	9	70	29	0	1	68	1.00
53446730--53446786	20	2.8	20	76	12	62	29	0	1	68	1.00
53449819--53450289	252	1.9	250	86	1	665	40	16	10	32	1.82
53454565--53454629	33	2.0	33	84	0	85	29	30	10	29	1.91
53457297--53457321	2	12.5	2	100	0	50	52	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53465731--53465764	17	2.1	16	88	5	50	29	0	2	67	1.05
53469873--53469923	21	2.3	22	80	16	61	50	0	9	39	1.35
53479725--53479768	21	2.1	21	83	8	54	34	4	13	47	1.63
53488007--53488188	61	3.0	59	69	13	138	45	8	2	43	1.48
53492371--53492403	17	1.9	17	93	0	57	30	6	6	57	1.47
53499885--53499922	17	2.2	17	100	0	76	55	5	10	28	1.56
53503057--53503096	7	5.7	7	93	0	71	85	0	15	0	0.61
53504617--53504642	12	2.2	12	100	0	52	23	61	0	15	1.33
53508220--53508302	35	2.4	35	89	4	123	44	10	18	26	1.82
53511461--53511531	30	2.4	29	77	6	81	46	11	2	39	1.54
53517159--53517200	20	2.0	22	90	9	70	52	0	0	47	1.00
53517119--53517197	29	2.6	31	92	5	128	49	1	0	49	1.09
53517150--53517206	20	3.0	20	74	23	59	47	1	0	50	1.11
53526943--53526981	2	19.5	2	94	0	69	51	2	0	46	1.14
53534780--53534823	6	7.3	6	94	0	79	31	50	0	18	1.47
53545690--53545777	30	2.9	30	80	10	99	45	7	6	39	1.60
53564534--53564565	6	5.3	6	92	0	55	31	56	0	12	1.37
53569555--53569619	18	3.8	17	71	13	53	32	1	1	64	1.12
53569907--53570094	59	3.1	60	82	4	218	24	9	12	53	1.68
53569907--53570094	60	3.1	58	83	3	214	24	9	12	53	1.68
53570300--53570382	32	2.7	31	81	5	105	49	9	13	27	1.73
53570333--53570416	28	2.8	29	73	20	75	53	10	10	25	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53580815--53580853	17	2.3	17	95	0	69	17	12	23	46	1.83
53581193--53581226	16	2.1	16	88	5	50	14	11	11	61	1.56
53605474--53605506	14	2.5	13	86	13	50	54	9	12	24	1.66
53605481--53605507	14	1.9	14	100	0	54	51	11	14	22	1.73
53607074--53607113	6	6.7	6	100	0	80	15	52	0	32	1.43
53620770--53620816	25	2.0	23	87	8	67	55	6	6	31	1.51
53620884--53620917	13	2.6	13	85	0	50	58	11	0	29	1.33
53622383--53622514	68	1.9	70	89	4	205	37	22	23	16	1.94
53626539--53626610	11	6.8	11	77	15	62	40	4	1	54	1.28
53626549--53626631	6	14.0	6	69	20	59	45	4	0	49	1.23
53626556--53626614	31	1.9	31	96	0	109	40	5	0	54	1.23
53626550--53626617	11	6.5	11	73	8	52	44	4	0	51	1.21
53627338--53627362	13	1.9	13	100	0	50	44	0	0	56	0.99
53628439--53628690	59	4.3	58	84	4	274	34	25	3	36	1.72
53628478--53628690	59	3.6	59	89	1	311	32	27	2	37	1.70
53654343--53654373	16	1.9	16	93	0	53	45	0	0	54	0.99
53654619--53654646	6	4.7	6	100	0	56	71	0	0	28	0.86
53654610--53654646	12	2.9	13	88	8	58	64	0	0	35	0.94
53682158--53682199	20	2.1	19	86	8	57	52	16	7	23	1.68
53691368--53691530	85	1.9	85	88	0	245	22	25	15	36	1.94
53691455--53691585	48	2.7	48	96	0	235	22	25	16	36	1.94
53691618--53691709	48	1.9	48	88	4	141	25	19	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53691636--53691747	48	2.3	48	83	6	129	24	22	11	41	1.86
53691463--53691879	171	2.4	169	86	2	564	23	21	15	39	1.92
53691666--53691989	123	2.6	122	84	4	427	24	20	14	41	1.89
53691918--53692074	85	1.8	85	86	0	224	22	24	15	36	1.94
53692059--53692366	159	1.9	159	87	1	447	23	21	17	37	1.94
53692382--53692569	46	4.2	46	80	8	217	25	20	21	32	1.98
53692720--53692967	49	5.0	49	72	7	187	16	31	17	33	1.93
53692713--53692967	99	2.6	99	82	1	296	17	30	17	34	1.93
53692802--53692953	50	3.1	50	75	9	157	16	32	17	32	1.93
53693912--53693949	17	2.3	17	86	4	51	2	18	0	78	0.86
53708771--53708902	68	1.9	69	87	4	194	18	25	21	35	1.95
53720327--53720380	2	27.0	2	100	0	108	50	0	0	50	1.00
53720412--53720458	22	2.1	22	88	0	67	44	0	6	48	1.28
53721561--53721680	58	2.1	58	90	3	188	32	0	20	47	1.50
53721888--53721933	23	2.0	23	86	0	65	34	15	13	36	1.86
53725500--53725551	25	2.1	25	88	0	77	26	17	15	40	1.89
53729933--53729980	20	2.5	20	79	3	62	60	2	12	25	1.43
53730355--53730427	20	3.6	20	74	7	58	57	4	15	23	1.55
53730360--53730413	20	2.7	20	76	2	63	55	3	14	25	1.56
53730411--53730466	21	2.8	20	86	10	78	51	12	16	19	1.75
53732089--53732139	25	2.0	26	84	3	68	64	0	1	33	1.05
53734206--53734262	26	2.2	26	81	12	64	61	1	0	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53739942--53740001	25	2.4	24	83	13	77	60	0	1	38	1.07
53739951--53740001	24	2.1	25	89	10	79	62	0	1	35	1.06
53746189--53746245	30	2.0	29	93	6	98	35	10	7	47	1.65
53746900--53746956	22	2.6	22	91	0	87	38	19	7	35	1.79
53747831--53747856	7	3.7	7	100	0	52	38	0	0	61	0.96
53747808--53747865	24	2.5	24	80	2	64	29	1	1	67	1.11
53748199--53748237	21	1.9	21	84	5	53	28	0	7	64	1.21
53748021--53748311	142	2.1	138	87	7	426	36	3	4	54	1.38
53748242--53748266	13	1.9	13	100	0	50	40	4	0	56	1.18
53751617--53751716	52	1.9	52	80	9	116	33	13	17	37	1.88

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