genome.fa.s11.2.7.7.80.10.50.1000.3.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  3  of  143  ( 17057 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)
834169--834205	18	2.1	18	94	0	65	0	10	2	86	0.67
842742--842789	3	16.0	3	91	0	78	29	0	66	4	1.10
850946--850985	6	6.7	6	97	0	71	50	30	2	17	1.59
852652--852729	31	2.6	30	82	6	88	53	6	12	26	1.62
858705--858766	32	1.9	32	86	0	88	64	3	1	30	1.19
861241--861294	27	2.0	26	85	3	72	35	12	16	35	1.87
869668--869711	21	2.1	21	83	8	54	38	0	0	61	0.96
878166--878203	13	2.7	14	80	15	51	34	7	0	57	1.28
878353--878409	28	2.0	28	100	0	114	22	7	24	45	1.77
888138--888185	22	2.2	22	96	0	87	25	10	6	58	1.54
890442--890480	18	2.2	18	90	0	60	51	0	7	41	1.31
895727--895762	18	2.1	17	90	10	56	63	0	5	30	1.17
897570--897651	29	2.8	30	76	20	84	63	2	2	31	1.20
897586--897643	20	2.8	20	75	12	55	60	3	1	34	1.24
904751--904926	61	2.9	61	82	3	212	29	19	15	35	1.92
905244--905313	36	1.9	36	94	5	124	35	4	21	38	1.73
905290--905491	106	1.9	107	85	2	280	33	15	22	28	1.95
905352--905440	45	2.0	46	93	2	153	28	17	24	29	1.98
905399--905608	59	3.5	58	84	7	271	36	16	22	25	1.94
907653--907692	21	1.9	21	89	0	62	55	15	0	30	1.41
908013--908055	13	3.5	13	84	6	54	0	20	0	79	0.74
910659--910706	21	2.3	21	88	0	69	22	8	14	54	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
912588--912741	56	2.7	57	83	5	195	42	1	2	52	1.26
925876--925970	31	3.1	31	95	3	167	46	11	16	25	1.81
927265--927304	15	2.5	17	84	12	57	75	5	2	17	1.10
927268--927305	16	2.5	15	87	8	51	73	5	2	18	1.14
927343--927392	21	2.4	20	75	21	57	20	4	2	74	1.08
933178--933217	20	2.0	20	85	5	53	42	15	7	35	1.75
939042--939068	9	3.0	9	100	0	54	55	0	22	22	1.44
948755--948789	17	1.9	18	88	11	54	62	8	2	25	1.38
951468--951525	29	2.0	29	89	0	89	15	10	6	67	1.41
960249--960407	76	2.1	76	97	0	300	38	18	6	37	1.76
966049--966171	64	1.9	63	80	9	142	49	8	1	40	1.42
966289--966329	19	2.2	19	100	0	82	53	0	0	46	1.00
966268--966340	26	3.0	24	75	13	69	52	0	0	47	1.00
966792--966834	21	2.0	22	90	4	70	72	4	2	20	1.14
973143--973194	20	2.8	18	78	21	63	51	3	1	42	1.31
981088--981135	21	2.3	20	82	10	60	64	0	2	33	1.05
981094--981153	29	2.1	29	87	6	86	56	0	5	38	1.21
981421--981459	18	2.2	18	86	9	53	51	12	5	30	1.62
981631--981700	27	2.5	28	79	6	79	47	5	7	40	1.55
982702--983190	164	3.0	163	96	0	879	26	20	16	36	1.94
985292--985361	14	4.9	14	73	11	52	62	2	0	34	1.10
985298--985339	22	2.0	21	85	4	57	59	4	0	35	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988491--988551	30	2.0	31	81	12	74	55	0	0	44	0.99
989738--989783	24	1.9	24	95	0	83	52	6	13	28	1.65
993131--993179	18	2.7	19	84	6	66	63	0	2	34	1.06
1002455--1002504	21	2.3	23	82	10	68	40	0	0	60	0.97
1002448--1002500	21	2.6	21	80	14	65	37	0	0	62	0.96
1016443--1016486	18	2.5	18	82	14	56	59	0	0	40	0.98
1016443--1016486	17	2.5	18	82	14	56	59	0	0	40	0.98
1022371--1022441	29	2.5	28	82	8	81	38	2	0	59	1.12
1032669--1032719	3	16.7	3	87	4	75	0	37	0	62	0.95
1033915--1033954	21	1.9	21	84	0	53	27	2	25	45	1.66
1038863--1038892	15	1.9	16	93	6	53	53	6	0	40	1.27
1047932--1047956	2	12.5	2	100	0	50	52	0	0	48	1.00
1049474--1049536	29	2.2	29	82	5	74	47	11	0	41	1.39
1050540--1050608	31	2.2	32	82	15	81	52	13	8	26	1.69
1051574--1051620	20	2.4	20	83	13	62	51	6	4	38	1.47
1057367--1057480	4	28.0	4	83	3	120	25	1	5	67	1.21
1060615--1060763	23	6.4	24	88	6	148	11	22	22	43	1.85
1060636--1060762	46	2.7	46	91	2	200	11	21	22	44	1.85
1060615--1060805	69	2.7	68	82	10	208	12	23	21	42	1.86
1067766--1067914	23	6.4	24	88	6	148	11	22	22	43	1.85
1067787--1067913	46	2.7	46	91	2	200	11	21	22	44	1.85
1067766--1067956	69	2.7	68	82	10	208	12	23	21	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069020--1069057	15	2.4	16	83	16	53	50	5	2	42	1.39
1070959--1071022	2	32.0	2	100	0	128	50	0	0	50	1.00
1073451--1073535	24	3.7	23	76	11	70	74	3	1	21	1.04
1073458--1073509	24	2.2	25	86	10	74	73	3	0	23	1.00
1074651--1074729	28	2.9	27	69	19	65	32	6	7	53	1.55
1075034--1075224	59	3.2	60	81	2	222	23	15	13	48	1.80
1075034--1075141	31	3.5	31	69	18	91	25	14	11	49	1.76
1076022--1076065	16	2.8	15	76	10	52	40	4	0	54	1.21
1077044--1077071	8	3.5	8	100	0	56	89	0	0	10	0.49
1077244--1077294	23	2.2	25	82	10	63	43	7	0	49	1.32
1078558--1078596	18	2.2	17	86	4	51	35	0	5	58	1.20
1079546--1079664	54	2.1	56	90	6	188	30	10	6	52	1.62
1079569--1079651	28	3.0	28	71	13	91	32	9	8	49	1.66
1081458--1081514	25	2.3	24	85	11	71	54	0	3	42	1.17
1088164--1088289	63	2.0	63	87	0	180	33	19	11	34	1.89
1089586--1089633	25	2.0	24	83	4	60	43	4	8	43	1.53
1092176--1092204	2	14.5	2	100	0	58	48	0	0	51	1.00
1098810--1098847	18	2.1	19	85	14	53	18	5	0	76	0.97
1103157--1103209	24	2.1	26	83	13	67	26	1	3	67	1.17
1103951--1103984	17	2.0	17	88	0	50	50	2	0	47	1.16
1113253--1113318	31	2.1	31	88	5	98	40	15	0	43	1.46
1113260--1113326	30	2.3	29	79	7	73	41	11	0	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116369--1116402	16	2.0	18	88	11	54	47	2	2	47	1.32
1117029--1117082	28	1.9	28	88	0	81	50	12	7	29	1.68
1117057--1117100	16	2.8	16	82	0	61	54	13	2	29	1.51
1117967--1117997	15	2.0	16	93	6	55	45	0	9	45	1.36
1119265--1119313	16	3.1	17	74	11	50	34	4	0	61	1.15
1124790--1124841	22	2.4	22	100	0	104	36	7	13	42	1.73
1130895--1131698	149	5.4	149	88	6	1137	24	22	22	31	1.98
1130895--1131698	306	2.7	297	89	5	1176	24	22	22	31	1.98
1138341--1138388	22	2.2	22	85	7	62	58	4	0	37	1.18
1141062--1141112	27	1.9	26	84	4	66	45	9	13	31	1.76
1161338--1161766	216	2.0	216	88	1	646	38	22	11	27	1.88
1171952--1172025	36	2.1	36	97	0	139	40	2	16	40	1.62
1173913--1173951	17	2.4	17	86	4	53	33	0	0	66	0.92
1173908--1173959	26	2.0	26	92	7	88	36	0	0	63	0.95
1174041--1174075	19	1.9	19	88	11	56	40	2	0	57	1.14
1174040--1174084	19	2.4	18	81	3	54	51	2	0	46	1.13
1174314--1174343	15	1.9	16	93	6	53	33	6	0	60	1.23
1174362--1174407	2	23.0	2	100	0	92	50	0	0	50	1.00
1175243--1175336	6	16.0	6	77	16	99	44	2	1	52	1.20
1175243--1175347	17	6.4	16	76	13	79	47	1	0	49	1.18
1175276--1175335	31	1.9	31	89	0	93	46	1	1	50	1.21
1175697--1175766	28	2.6	27	79	4	77	50	18	10	21	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176114--1176161	3	15.3	3	78	8	51	58	2	4	35	1.29
1176114--1176161	22	2.2	22	88	0	69	58	2	4	35	1.29
1177008--1177353	164	2.1	163	86	5	486	26	17	11	44	1.82
1177421--1177632	30	7.0	30	78	9	198	38	24	3	33	1.73
1177607--1177743	58	2.3	58	91	1	220	32	35	1	31	1.67
1179879--1179908	1	30.0	1	100	0	60	0	100	0	0	0.00
1184481--1184546	29	2.2	32	83	8	84	42	1	4	51	1.31
1184556--1184589	17	1.9	18	94	5	61	55	5	2	35	1.39
1184645--1184678	6	5.7	6	100	0	68	29	52	0	17	1.45
1202367--1202428	33	1.9	33	84	12	85	59	0	0	40	0.97

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