genome.fa.s9.2.7.7.80.10.50.1000.3.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  3  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)
800934--800987	11	4.5	11	76	15	54	70	1	1	25	1.07
801806--801875	36	1.9	36	97	0	131	31	17	15	35	1.91
807906--807944	15	2.7	14	76	7	51	43	0	0	56	0.99
810855--810947	45	2.1	45	100	0	186	46	6	8	38	1.60
810953--811053	24	4.2	24	65	28	63	41	7	2	47	1.48
810952--811056	22	4.4	23	67	28	60	41	7	2	47	1.47
810949--811096	73	2.0	73	100	0	296	39	9	2	47	1.50
811198--811291	47	2.0	47	100	0	188	25	36	21	17	1.94
817183--817257	19	3.8	19	85	7	89	42	22	20	14	1.88
817299--817347	20	2.3	21	89	6	73	8	6	34	51	1.57
818130--818167	20	1.9	20	94	0	67	39	2	2	55	1.28
827029--827798	172	4.5	172	76	8	699	25	12	23	38	1.90
835721--835774	22	2.5	21	88	8	74	35	1	0	62	1.06
842268--842293	5	5.2	5	100	0	52	38	19	19	23	1.93
849319--849462	72	2.0	72	100	0	288	41	16	16	25	1.89
854150--854178	13	2.2	13	100	0	58	34	13	27	24	1.93
866573--866617	19	2.3	20	84	3	56	68	6	4	20	1.29
867630--867703	37	2.0	37	100	0	148	29	16	16	37	1.90
878900--878968	11	6.1	11	79	15	52	52	0	0	47	1.00
878913--878948	14	2.8	12	84	15	54	61	0	0	38	0.96
879551--879718	48	3.6	46	76	8	153	13	28	17	39	1.88
879551--879709	23	6.8	22	79	11	138	13	28	17	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
880418--880643	92	2.5	89	75	16	203	30	16	16	35	1.92
886317--886355	6	6.5	6	100	0	78	48	0	51	0	1.00
895721--895776	24	2.3	25	78	9	62	25	17	35	21	1.95
897469--897514	24	1.9	24	86	8	67	17	32	34	15	1.91
900067--900427	186	1.9	187	90	1	571	26	17	17	38	1.92
903605--903640	18	2.0	18	89	10	56	47	0	0	52	1.00
903688--903737	2	25.0	2	95	0	91	48	0	0	52	1.00
907179--907227	23	2.1	23	88	3	71	73	4	8	14	1.21
908091--908324	103	2.2	103	80	9	260	26	23	11	39	1.88
908971--909022	4	12.8	4	77	18	54	78	0	3	17	0.89
914631--914679	23	2.1	23	88	3	71	73	4	8	14	1.21
916950--916982	11	2.8	12	81	9	50	15	15	15	54	1.71
919138--919178	16	2.7	16	85	7	50	48	4	0	46	1.23
921764--921809	2	23.0	2	100	0	92	50	0	0	50	1.00
922366--922426	11	5.4	11	80	9	61	6	0	22	70	1.10
922366--922451	23	3.7	23	84	4	93	6	2	22	68	1.25
922363--922457	12	8.2	12	70	6	61	8	2	21	68	1.27
940260--940288	13	2.1	14	93	6	51	31	17	24	27	1.97
944257--944331	35	2.2	33	78	4	78	56	2	1	40	1.22
949538--949579	12	3.5	12	76	23	52	26	0	0	73	0.83
949537--949584	21	2.2	22	85	10	64	29	0	0	70	0.87
959314--959463	23	6.4	23	80	8	128	40	23	24	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959893--959921	10	2.7	11	89	10	51	24	17	0	58	1.38
960313--960378	33	1.9	36	87	9	102	9	33	4	53	1.53
965668--965751	42	2.0	42	100	0	168	40	16	11	30	1.85
990237--990290	28	1.9	28	88	0	81	25	5	12	55	1.59
992332--992405	23	3.3	22	81	5	85	55	1	2	40	1.22
995513--995545	18	1.9	18	88	11	52	54	3	0	42	1.15
997904--997936	15	2.3	15	90	10	52	63	0	0	36	0.95
998457--998556	19	5.4	19	81	10	93	65	1	4	30	1.18
998485--998612	46	2.8	44	82	15	152	61	2	4	31	1.29
998478--998562	9	9.5	8	72	20	62	67	1	3	28	1.15
998479--998610	56	2.4	55	80	9	142	63	2	4	29	1.26
998891--998949	28	2.1	28	83	0	73	35	0	0	64	0.94
999000--999195	90	2.2	88	85	5	250	33	7	17	41	1.78
999000--999211	91	2.3	90	83	7	268	33	7	18	41	1.77
999630--999944	162	2.0	162	97	0	596	51	7	4	37	1.49
1010718--1010746	12	2.3	13	94	5	51	68	0	0	31	0.89
1010783--1010827	20	2.2	20	84	8	54	71	2	4	22	1.15
1013210--1013494	141	2.0	141	100	0	570	27	14	22	35	1.94
1014477--1014547	26	2.7	26	74	20	76	33	4	8	53	1.51
1014480--1014531	26	2.1	26	89	7	81	28	5	11	53	1.60
1014533--1014571	19	2.0	20	90	5	62	43	0	2	53	1.14
1014675--1014756	29	2.9	29	72	13	73	30	1	6	62	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023207--1023752	271	2.0	271	100	0	1092	37	15	15	31	1.88
1031962--1032020	31	1.9	31	82	6	75	42	5	5	47	1.47
1043124--1043148	5	5.0	5	100	0	50	80	0	0	20	0.72
1043156--1043213	29	1.9	30	89	6	91	53	8	1	36	1.42
1043154--1043222	29	2.4	27	81	13	84	52	7	1	39	1.38
1043127--1043220	31	3.1	29	80	7	100	57	6	1	35	1.31
1046887--1046928	21	2.0	22	90	4	68	2	4	21	71	1.16
1047483--1047511	7	4.1	7	100	0	58	31	27	27	13	1.94
1048880--1049025	60	2.4	59	84	3	184	23	15	10	49	1.77
1049243--1049336	31	3.1	31	78	16	101	51	9	14	24	1.73
1049870--1049904	18	1.9	18	88	0	52	71	2	8	17	1.23
1051528--1051554	10	2.7	10	100	0	54	40	0	11	48	1.39
1053539--1053605	31	2.2	31	88	0	98	38	8	10	41	1.71
1082663--1082693	3	10.3	3	100	0	62	64	0	0	35	0.94
1083092--1083232	43	3.3	42	86	3	165	31	28	15	24	1.96
1083785--1083843	26	2.3	26	82	5	75	52	11	11	23	1.71
1085481--1085519	2	19.5	2	100	0	78	0	0	51	48	1.00
1087092--1087305	41	5.2	41	83	2	130	24	28	16	30	1.96
1087112--1087305	82	2.4	82	84	0	253	24	28	17	30	1.97
1088582--1088607	2	13.0	2	100	0	52	50	0	0	50	1.00
1089472--1089617	40	3.6	41	81	2	152	25	21	23	28	1.99
1089604--1089712	41	2.6	42	76	4	114	23	22	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096545--1096614	29	2.4	30	75	2	79	38	8	5	47	1.58
1097376--1097413	6	6.3	6	87	0	58	0	63	21	15	1.31
1097376--1097413	12	3.2	12	96	0	67	0	63	21	15	1.31
1100549--1100589	18	2.3	18	86	0	55	31	17	31	19	1.95
1100557--1100598	18	2.3	18	87	0	57	30	11	33	23	1.91
1104707--1104788	29	2.8	30	83	9	80	51	0	7	41	1.30
1104730--1104775	23	2.0	22	83	4	56	56	0	2	41	1.11
1104718--1104788	29	2.4	30	83	9	92	54	0	4	40	1.20
1109178--1109213	18	2.0	18	88	0	54	27	13	38	19	1.90
1114050--1114157	53	2.0	53	100	0	216	37	22	11	28	1.88
1116711--1116739	1	29.0	1	100	0	58	0	0	100	0	0.00
1117709--1117743	16	2.2	16	89	0	52	37	0	0	62	0.95
1118103--1118152	24	2.1	24	96	0	91	44	24	14	18	1.86
1120338--1120371	13	2.8	12	82	8	50	11	8	8	70	1.34
1123498--1123554	10	5.3	10	75	20	53	54	0	1	43	1.10
1128216--1128258	19	2.2	19	83	4	50	58	2	0	39	1.11
1128498--1128536	19	2.1	19	85	9	53	51	0	0	48	1.00
1129642--1129671	15	1.9	16	93	6	53	30	3	0	66	1.07
1130918--1130978	31	2.0	31	90	0	95	37	13	8	40	1.74
1131914--1131974	31	2.0	31	90	0	95	45	11	11	31	1.76
1149727--1149880	76	2.0	75	95	3	274	33	10	8	47	1.68
1150132--1150184	26	2.2	25	83	10	65	50	0	3	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150682--1150744	30	2.1	30	85	5	83	50	4	12	31	1.61
1152983--1153014	16	2.0	16	100	0	64	43	25	6	25	1.77
1156142--1156197	11	5.2	11	78	16	55	42	1	0	55	1.10
1156851--1157248	152	2.6	155	93	3	658	32	21	6	39	1.77
1158289--1158319	15	2.1	15	93	0	53	67	0	0	32	0.91
1162532--1162608	12	5.9	13	70	15	52	50	2	1	45	1.23
1172448--1172480	14	2.4	14	85	5	50	48	3	9	39	1.50
1183754--1183779	2	13.0	2	100	0	52	50	0	0	50	1.00
1184159--1184338	93	1.9	92	91	3	290	47	12	3	36	1.59
1187448--1187486	20	2.0	20	85	10	53	58	15	0	25	1.37

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