genome.fa.s10.2.7.7.80.10.50.1000.3.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   

This is table  3  of  135  ( 16099 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)
976249--976463	29	7.3	29	77	12	181	33	27	4	34	1.78
976249--976463	59	3.7	59	78	9	201	33	27	4	34	1.78
976328--976472	30	4.9	29	80	8	123	33	28	4	33	1.78
981679--981750	21	3.3	21	71	21	76	50	1	0	48	1.09
981695--981763	18	3.4	18	69	27	57	44	1	0	53	1.09
981674--981763	44	2.0	44	100	0	180	46	2	0	51	1.13
986783--986952	22	7.3	22	82	10	178	10	22	24	42	1.85
986783--986953	48	3.7	45	83	12	202	10	23	23	42	1.85
986783--986953	70	2.4	70	93	0	279	10	23	23	42	1.85
995545--995575	15	2.1	15	100	0	62	54	0	6	38	1.26
997871--997965	6	16.5	6	66	12	56	43	1	3	52	1.24
997871--997996	17	7.4	17	74	12	71	42	1	3	51	1.30
997885--997921	11	3.3	11	85	7	56	35	2	0	62	1.10
997880--997931	23	2.2	25	89	6	81	40	1	1	55	1.22
997902--997965	16	3.7	17	81	8	67	42	1	3	53	1.26
1008189--1008219	15	2.1	15	100	0	62	54	0	6	38	1.26
1010535--1010652	6	20.5	6	68	11	77	42	1	2	53	1.24
1010535--1010652	17	7.2	17	71	15	70	42	1	2	53	1.24
1010549--1010608	11	5.3	11	84	7	84	36	3	0	60	1.14
1010544--1010618	23	3.2	23	94	3	123	40	2	1	56	1.22
1010544--1010618	12	6.3	12	81	7	91	40	2	1	56	1.22
1010595--1010668	16	4.7	16	78	15	66	40	1	6	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010611--1010689	33	2.3	34	84	4	97	44	1	8	45	1.43
1010606--1010668	17	3.7	17	82	6	65	41	1	7	49	1.42
1013932--1013974	21	2.0	21	82	8	52	32	0	25	41	1.56
1014038--1014076	6	6.5	6	87	0	51	46	0	30	23	1.53
1015261--1015544	29	9.6	30	74	11	128	36	25	2	35	1.71
1015307--1015512	29	7.1	28	72	11	132	36	26	2	34	1.72
1015292--1015508	58	3.7	57	77	10	192	37	26	2	33	1.71
1015410--1015717	29	10.6	29	75	7	189	35	27	5	31	1.79
1015556--1015717	87	1.9	86	85	1	225	32	28	7	31	1.85
1020757--1020801	19	2.4	19	81	7	56	37	0	4	57	1.19
1028040--1028072	2	16.5	2	93	0	57	54	0	45	0	0.99
1028097--1028133	9	4.1	9	96	0	65	0	18	67	13	1.23
1033815--1034094	142	2.0	142	98	0	542	38	10	10	41	1.74
1033866--1034154	142	2.0	141	80	6	325	42	8	11	37	1.73
1034977--1035042	28	2.5	25	80	17	80	28	4	6	60	1.40
1035782--1035836	29	1.9	28	85	3	74	29	3	5	61	1.35
1039826--1039880	28	1.9	29	85	10	78	45	0	14	40	1.45
1043622--1043670	17	3.1	17	72	22	52	44	0	0	55	0.99
1044196--1044222	3	9.0	3	100	0	54	66	0	0	33	0.92
1047187--1047220	16	2.1	16	94	0	59	17	8	5	67	1.37
1056271--1056313	23	2.0	23	86	9	63	30	6	0	62	1.21
1071168--1071197	16	1.9	16	93	6	53	33	3	3	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072324--1072359	2	18.0	2	100	0	72	50	0	0	50	1.00
1092386--1092425	21	2.0	21	85	9	57	27	0	15	57	1.38
1092420--1092460	22	2.0	21	85	9	57	21	4	14	58	1.55
1092580--1092646	2	33.5	2	100	0	134	49	0	0	50	1.00
1108263--1108288	3	8.7	3	100	0	52	0	0	69	30	0.89
1115006--1115035	15	1.9	16	93	6	53	80	3	0	16	0.85
1115759--1115797	18	2.2	18	90	4	62	30	10	7	51	1.64
1117401--1117428	13	2.2	13	100	0	56	21	35	14	28	1.92
1117664--1117708	24	1.9	23	82	13	56	51	6	6	35	1.55
1124833--1124857	2	12.5	2	100	0	50	48	0	0	52	1.00
1133608--1133645	20	1.9	20	84	10	51	18	10	13	57	1.63
1133763--1133802	18	2.2	18	91	8	64	57	0	0	42	0.98
1137076--1137118	17	2.4	18	80	3	52	41	4	9	44	1.57
1145040--1145084	22	2.1	22	88	8	67	64	8	4	22	1.40
1145363--1145395	3	11.0	3	100	0	66	33	0	0	66	0.92
1160037--1160102	29	2.2	30	81	2	80	43	13	7	34	1.73
1173861--1173885	13	1.9	13	100	0	50	64	0	0	36	0.94
1180062--1180347	151	1.9	151	88	4	434	32	12	15	39	1.85
1180390--1180419	15	2.0	15	93	0	51	23	3	26	46	1.68
1181819--1181869	26	1.9	27	92	4	86	43	5	5	45	1.52
1182458--1182501	15	2.9	15	89	0	70	34	0	2	63	1.07
1183419--1183446	12	2.3	12	100	0	56	14	28	14	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186661--1186705	3	15.0	3	90	0	72	28	0	4	66	1.11
1186765--1186794	6	5.0	6	95	0	51	80	0	20	0	0.72
1187784--1187826	12	3.6	12	77	0	50	62	6	4	25	1.40
1188059--1188107	18	2.7	19	81	15	59	67	6	6	20	1.35
1199760--1199789	5	6.2	5	92	7	53	0	0	80	20	0.72
1202090--1202129	16	2.5	16	87	0	62	42	5	25	27	1.75
1202116--1202204	44	2.0	46	84	8	121	30	5	25	38	1.79
1202292--1202431	26	5.1	26	67	17	86	50	0	1	48	1.09
1202301--1202403	51	2.0	52	88	5	156	50	0	0	49	1.00
1202414--1202464	24	2.1	24	82	10	59	56	0	5	37	1.23
1208516--1208546	16	1.9	16	93	0	53	70	0	9	19	1.14
1209347--1209406	19	3.2	19	64	17	52	41	8	16	33	1.78
1220589--1220631	22	2.0	22	86	9	61	53	11	11	23	1.69
1222573--1222622	17	3.0	17	85	2	57	68	2	0	30	1.01
1223295--1223341	20	2.4	20	85	3	60	68	4	0	27	1.08
1223294--1223341	19	2.5	20	80	10	55	66	4	0	29	1.10
1226541--1226585	22	2.0	22	83	8	56	13	11	0	75	1.05
1233686--1233770	33	2.6	34	80	14	106	43	0	12	43	1.43
1242546--1242622	36	2.1	38	90	4	122	37	0	7	54	1.29
1253015--1253039	2	12.5	2	100	0	50	0	48	0	52	1.00
1258453--1258478	6	4.3	6	100	0	52	69	0	0	30	0.89
1258554--1258608	28	2.0	27	82	3	65	49	0	1	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259919--1259957	20	2.0	19	85	5	51	48	0	10	41	1.37
1264460--1264493	2	17.0	2	93	0	59	0	2	50	47	1.16
1266956--1267103	72	2.1	72	92	0	242	20	25	23	29	1.99
1268085--1268171	24	3.4	24	75	20	77	6	47	18	27	1.74
1268088--1268166	30	2.6	30	94	4	133	6	44	20	29	1.76
1268100--1268175	30	2.9	24	77	20	89	6	44	21	27	1.76
1268214--1268274	6	10.2	6	90	0	77	6	57	18	18	1.61
1268166--1268566	96	4.0	96	82	9	478	15	43	16	24	1.87
1268316--1268381	6	11.0	6	82	6	62	12	46	16	24	1.81
1268316--1268381	30	2.2	30	86	5	98	12	46	16	24	1.81
1268108--1268566	108	4.4	104	79	10	510	14	43	17	24	1.86
1268424--1268476	6	8.8	6	89	0	61	11	54	15	18	1.70
1268424--1268480	18	3.2	18	79	0	69	10	54	15	19	1.70
1268108--1268566	204	2.2	204	89	4	688	14	43	17	24	1.86
1268520--1268570	6	8.5	6	84	0	57	11	47	17	23	1.81
1268520--1268570	24	2.1	24	88	0	75	11	47	17	23	1.81
1268520--1268568	18	2.7	18	83	0	71	12	46	18	22	1.82
1277954--1278007	3	18.0	3	100	0	108	66	0	0	33	0.92
1278837--1278883	24	2.0	24	83	8	60	34	2	2	61	1.20
1278988--1279042	24	2.2	25	83	3	67	67	3	3	25	1.23
1280686--1280730	16	2.9	16	83	3	65	28	0	0	71	0.87
1290092--1290125	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296115--1296139	2	12.5	2	100	0	50	52	0	0	48	1.00
1302192--1302258	31	2.2	31	83	2	82	37	1	2	58	1.23
1308614--1308661	24	1.9	26	84	16	66	45	0	22	31	1.53
1308778--1308831	25	2.2	25	86	3	74	11	31	18	38	1.86
1314872--1315017	45	3.2	45	67	15	138	25	13	10	50	1.73
1314838--1315017	90	2.0	91	93	3	310	25	13	10	51	1.72
1344397--1344430	2	17.0	2	100	0	68	50	0	0	50	1.00
1345356--1345513	76	2.1	76	89	2	237	41	12	18	27	1.86
1347108--1347137	3	10.0	3	100	0	60	66	0	33	0	0.92
1356152--1356246	31	3.1	30	79	11	79	48	14	5	31	1.66

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