genome.fa.s8.2.7.7.80.10.50.1000.3.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   

This is table  3  of  163  ( 19493 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)
940865--941766	443	2.0	442	85	3	1226	42	14	10	33	1.80
941799--944911	437	7.2	432	83	9	3447	42	13	9	34	1.76
941799--944936	876	3.6	873	84	6	3870	42	13	9	34	1.76
945182--945217	18	1.9	19	94	5	65	75	2	5	16	1.12
949643--949744	34	3.0	34	88	1	141	27	9	31	31	1.89
954504--954539	17	2.1	17	94	0	63	47	5	38	8	1.57
960968--961035	20	3.5	19	74	18	59	61	1	16	20	1.41
961203--961285	9	9.2	9	73	10	71	24	24	9	42	1.84
961207--961286	27	3.0	27	90	3	117	23	23	10	42	1.84
965847--965875	3	9.7	3	100	0	58	65	0	34	0	0.93
969924--969948	13	1.9	13	100	0	50	56	4	8	32	1.47
974676--974791	60	1.9	60	96	0	214	22	21	16	39	1.92
985577--985637	21	2.9	21	90	0	95	16	36	8	39	1.78
985604--985662	30	2.0	30	89	0	91	16	33	10	38	1.83
992640--992666	3	9.0	3	100	0	54	66	0	0	33	0.92
995822--995892	18	3.6	19	76	16	65	81	2	5	9	0.95
995833--995867	1	35.0	1	88	0	52	94	0	5	0	0.32
997786--999505	438	3.9	438	96	0	3143	41	13	10	33	1.79
997786--999505	877	2.0	877	96	0	3170	41	13	10	33	1.79
999276--999762	257	1.9	258	83	3	631	39	13	10	36	1.80
1000386--1000410	5	5.0	5	100	0	50	80	0	0	20	0.72
999578--1000405	445	1.9	443	85	4	1176	42	12	11	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006293--1006332	21	1.9	21	85	10	55	45	22	2	30	1.66
1006978--1007159	9	20.2	9	87	0	247	22	26	12	37	1.90
1014175--1014234	31	1.9	31	86	6	86	35	11	8	45	1.71
1015023--1015097	39	2.0	39	92	7	129	25	18	26	29	1.98
1015106--1015220	39	2.9	39	88	0	167	23	31	12	33	1.91
1015145--1015336	99	1.9	99	93	2	332	27	29	10	33	1.90
1015145--1015367	99	2.3	98	85	6	263	26	29	9	33	1.89
1017710--1017735	2	13.0	2	100	0	52	50	0	0	50	1.00
1027288--1027327	21	1.9	21	85	10	55	45	22	2	30	1.66
1027955--1028118	9	18.2	9	87	0	220	22	26	12	37	1.90
1029036--1029505	189	2.5	188	79	7	454	30	16	20	32	1.95
1040577--1040630	28	2.0	27	88	3	81	37	5	3	53	1.42
1044383--1044433	19	2.6	20	70	14	52	60	3	13	21	1.49
1044618--1044691	9	8.2	9	83	0	85	24	27	12	36	1.91
1044618--1044691	27	2.7	27	87	0	103	24	27	12	36	1.91
1044763--1044841	33	2.5	32	81	6	99	20	25	12	41	1.87
1050550--1050590	9	4.3	9	87	9	55	43	2	0	53	1.13
1054330--1054422	34	2.7	34	84	0	123	16	33	4	46	1.66
1054318--1054427	17	6.6	17	67	13	59	17	32	3	46	1.65
1062166--1062210	18	2.5	18	82	7	56	71	0	6	22	1.09
1062219--1062280	28	2.3	26	83	10	79	20	3	1	74	1.05
1062221--1062275	6	9.8	5	86	11	56	18	3	1	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063178--1063219	12	3.5	12	87	6	59	73	2	9	14	1.18
1074367--1074417	16	3.2	16	68	15	52	49	0	3	47	1.20
1092608--1092653	25	1.9	25	86	8	69	32	4	6	56	1.45
1102886--1102931	25	1.9	24	86	8	67	36	2	6	54	1.39
1119104--1119157	28	2.0	27	88	3	81	37	5	3	53	1.42
1130530--1131695	434	2.7	431	84	6	1430	42	12	9	35	1.75
1131733--1131791	29	2.0	30	86	3	84	28	8	15	47	1.74
1131983--1132041	31	2.0	30	83	6	75	47	11	5	35	1.62
1138464--1139457	513	2.0	506	93	2	1690	38	9	16	34	1.82
1139690--1139718	14	2.1	14	93	6	51	58	6	0	34	1.25
1144807--1144847	21	2.0	21	95	0	73	9	36	12	41	1.76
1144834--1144907	30	2.5	30	88	0	103	18	33	8	39	1.81
1148422--1149008	301	2.0	301	88	2	892	31	22	11	34	1.89
1152208--1152304	48	2.0	48	97	0	185	40	19	11	28	1.86
1152358--1152393	3	12.0	3	100	0	72	66	0	0	33	0.92
1155580--1155613	11	3.0	11	95	4	59	88	0	11	0	0.52
1155581--1155616	18	2.1	17	94	5	63	91	0	8	0	0.41
1157536--1159471	439	4.4	438	90	3	2732	42	13	10	33	1.79
1159083--1159131	25	2.0	25	100	0	98	36	8	16	38	1.78
1162593--1163434	445	1.9	438	85	4	1156	42	12	10	34	1.77
1172705--1172734	16	1.9	16	93	6	53	0	13	0	86	0.57
1175949--1177006	438	2.4	437	85	4	1386	43	12	9	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177373--1177401	5	6.0	5	96	4	51	79	0	0	20	0.74
1178597--1178630	14	2.5	13	90	4	50	79	5	0	14	0.91
1181408--1181443	16	2.1	16	90	10	54	44	0	0	55	0.99
1183442--1183479	11	3.5	11	80	20	53	0	47	23	28	1.52
1183428--1183480	21	2.5	21	93	0	88	0	47	20	32	1.51
1183476--1183623	66	2.2	66	86	2	208	15	24	15	44	1.85
1189025--1189128	26	4.0	26	70	18	90	45	5	2	46	1.42
1189221--1189316	8	11.3	9	69	16	55	46	3	0	50	1.17
1189203--1190169	49	19.1	49	75	14	578	44	6	1	46	1.38
1189246--1189334	18	5.0	18	72	8	65	43	3	1	51	1.25
1189509--1189611	18	6.0	18	71	15	83	42	4	1	50	1.34
1189285--1190046	228	3.3	229	91	5	1128	45	6	1	46	1.38
1189462--1189611	67	2.2	67	90	0	228	43	4	2	50	1.34
1189690--1190144	18	27.8	18	63	25	127	45	6	0	47	1.31
1189684--1189895	31	6.3	36	66	15	139	45	5	0	48	1.28
1189712--1189799	8	10.4	9	69	19	57	47	2	0	50	1.13
1189690--1189839	67	2.2	67	92	0	246	44	4	0	50	1.27
1189877--1190077	31	7.4	28	67	24	110	47	6	0	45	1.29
1189926--1189979	8	6.8	8	74	21	51	53	3	0	42	1.18
1189544--1190182	80	8.3	80	64	20	220	45	7	1	46	1.38
1189779--1190169	129	3.0	129	88	4	608	45	7	0	46	1.34
1190219--1190270	18	2.8	18	79	2	68	50	0	1	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194769--1195282	42	12.4	41	77	8	335	23	27	22	26	2.00
1194769--1195282	84	6.2	82	78	6	421	23	27	22	26	2.00
1194792--1195242	41	10.9	40	79	6	355	23	27	23	24	2.00
1195499--1195564	20	3.4	19	81	10	62	7	10	4	77	1.12
1196071--1196138	6	12.0	6	74	12	54	41	1	4	52	1.30
1196065--1196136	17	4.3	17	82	3	83	38	2	4	54	1.34
1200841--1200939	35	2.8	35	89	3	146	29	10	30	30	1.90
1202423--1202464	2	21.0	2	100	0	84	50	0	0	50	1.00
1212360--1212388	3	9.7	3	100	0	58	31	0	0	68	0.89
1214354--1214413	17	3.5	17	80	8	68	33	1	8	56	1.39
1215981--1216313	30	11.2	29	77	12	311	35	21	1	40	1.64
1215981--1216325	60	5.8	60	81	7	355	35	22	1	40	1.64
1215989--1216325	90	3.8	90	82	5	355	34	22	1	40	1.65
1216000--1216414	30	14.0	29	78	6	295	34	21	1	41	1.65
1216250--1216409	59	2.7	57	81	5	158	35	20	1	43	1.63
1216366--1216502	59	2.3	58	84	1	175	34	25	5	35	1.78
1216308--1216501	30	6.6	28	69	15	81	34	22	4	38	1.73
1216001--1216468	30	15.8	29	75	8	158	35	22	2	40	1.66
1216510--1216570	27	2.2	27	85	2	77	31	32	11	24	1.91
1221561--1221831	43	6.4	42	82	6	278	22	20	28	28	1.99
1221560--1221831	86	3.2	84	83	8	318	22	20	28	28	1.98
1222385--1222448	25	2.5	25	78	12	76	57	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224372--1224412	20	2.0	21	85	4	57	41	2	2	53	1.27
1229752--1229795	19	2.3	18	82	17	54	52	9	6	31	1.59
1236140--1236400	91	2.8	93	77	11	261	33	14	9	41	1.80
1236463--1236503	19	2.2	19	86	0	55	68	4	2	24	1.22
1236479--1236552	27	2.6	28	85	8	96	63	1	1	33	1.11
1236538--1236598	19	3.2	19	80	13	72	68	0	3	27	1.05
1236533--1236589	10	5.9	10	75	8	55	64	0	1	33	1.04
1236511--1236612	47	2.2	47	82	12	129	65	0	1	31	1.10
1236652--1236697	19	2.4	19	85	0	65	65	0	8	26	1.21
1237189--1237376	84	2.2	84	81	7	204	38	4	15	40	1.69

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