genome.fa.s7.2.7.7.80.10.50.1000.5.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  5  of  144  ( 17169 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)
1198618--1198684	31	2.2	31	86	0	89	40	20	17	20	1.92
1201205--1201251	19	2.4	20	89	7	78	10	8	12	68	1.40
1201180--1201243	19	3.1	20	79	18	69	10	9	9	70	1.35
1201238--1201272	13	2.6	13	90	4	52	20	5	14	60	1.54
1202565--1203051	245	2.0	245	92	0	803	28	25	14	31	1.94
1204031--1204156	38	3.3	38	86	2	162	34	11	15	38	1.84
1205651--1205877	53	4.3	53	85	1	292	35	18	14	30	1.92
1205651--1205877	107	2.1	106	86	0	310	35	18	14	30	1.92
1214703--1214727	13	1.9	13	100	0	50	56	4	8	32	1.47
1214955--1214991	19	2.0	19	89	5	58	35	0	8	56	1.29
1214955--1215005	18	2.7	19	85	8	61	39	0	7	52	1.30
1214960--1215005	19	2.4	18	85	10	56	36	0	8	54	1.32
1220688--1220947	90	2.9	89	97	2	490	34	15	12	38	1.84
1220688--1220944	86	2.9	86	95	3	469	33	15	12	38	1.85
1221145--1221205	19	3.4	17	80	13	68	27	0	3	68	1.05
1221890--1221923	2	17.0	2	87	0	50	50	0	0	50	1.00
1222129--1222175	10	4.5	10	86	7	67	65	0	0	34	0.93
1239292--1239410	60	2.0	60	83	6	152	22	17	19	40	1.91
1241500--1241541	18	2.4	18	84	11	52	71	2	2	23	1.10
1246153--1246313	49	3.2	49	73	13	148	24	24	14	36	1.93
1246329--1246370	22	1.9	22	85	0	57	28	28	14	28	1.95
1249822--1249918	15	6.5	15	76	0	77	31	22	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249803--1249919	30	3.9	29	75	9	92	30	23	20	25	1.98
1255507--1255607	15	6.7	15	81	0	121	26	19	22	30	1.98
1255507--1255607	30	3.4	30	90	0	148	26	19	22	30	1.98
1255507--1255607	45	2.2	45	87	0	139	26	19	22	30	1.98
1256893--1256959	20	3.3	20	70	12	64	53	8	7	29	1.59
1270701--1270746	22	2.1	22	83	0	56	23	19	39	17	1.92
1273507--1273624	29	4.3	29	76	16	135	51	6	1	39	1.38
1273556--1273602	22	2.1	22	96	0	85	53	10	0	36	1.36
1273527--1273624	51	1.9	51	89	4	153	52	8	2	37	1.43
1286344--1286400	29	2.0	27	83	6	69	50	12	17	19	1.77
1286319--1286420	31	3.4	30	73	13	93	46	12	19	21	1.83
1296142--1296217	27	2.7	27	76	8	73	31	0	5	63	1.17
1296143--1296217	37	2.1	36	85	7	98	30	0	5	64	1.16
1298008--1298060	17	3.3	15	81	7	52	35	0	1	62	1.06
1298008--1298047	15	2.6	15	88	4	53	37	0	2	60	1.11
1298015--1298060	15	2.8	17	83	9	60	39	0	2	58	1.10
1303393--1303472	37	2.2	37	86	0	106	35	13	21	30	1.92
1304076--1304552	237	2.0	237	99	0	945	35	12	11	40	1.78
1305518--1305547	16	1.9	16	93	6	53	33	0	3	63	1.11
1307839--1307905	26	2.6	26	97	0	125	26	19	20	32	1.97
1310248--1310293	25	1.9	25	86	8	69	32	0	2	65	1.05
1318070--1318105	7	5.0	7	96	3	63	69	2	0	27	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318214--1318275	24	2.5	26	80	17	71	61	1	0	37	1.06
1318863--1318912	24	2.1	24	85	7	66	56	0	0	44	0.99
1321361--1321452	30	3.2	30	72	18	104	29	21	3	45	1.68
1325067--1325160	24	3.9	25	86	5	131	29	26	20	23	1.99
1325142--1325277	27	5.0	27	83	0	146	39	22	13	23	1.90
1327677--1327703	13	2.1	13	100	0	54	22	22	7	48	1.75
1336742--1336782	19	2.2	19	86	8	57	41	2	0	56	1.13
1343460--1343490	2	15.5	2	93	0	53	45	0	3	51	1.17
1349456--1349497	15	2.7	16	79	17	52	66	0	0	33	0.92
1349455--1349507	23	2.3	23	80	0	61	66	0	0	33	0.92
1349509--1349556	14	3.7	14	78	13	50	56	0	0	43	0.99
1349520--1349573	25	2.3	23	80	6	54	59	0	0	40	0.98
1349789--1349843	28	1.9	28	88	3	83	36	1	0	61	1.06
1349819--1349888	18	4.2	16	77	20	65	34	2	1	61	1.20
1355314--1355340	13	2.1	13	100	0	54	22	14	25	37	1.93
1356348--1356385	19	2.0	20	85	10	53	52	10	0	36	1.36
1357228--1358280	84	12.6	84	79	5	816	24	14	20	40	1.89
1358007--1358159	77	2.0	77	82	5	184	22	15	24	38	1.92
1387506--1387582	31	2.5	31	89	10	115	18	12	22	46	1.82
1387920--1387998	6	13.8	6	75	15	78	45	2	1	50	1.23
1387920--1388004	23	3.8	23	79	3	84	45	2	1	50	1.22
1387920--1387963	17	2.6	17	92	0	70	43	2	0	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387936--1387980	11	4.1	10	81	18	54	42	4	0	53	1.21
1388052--1388092	13	3.1	14	75	10	50	48	24	14	12	1.78
1388018--1388092	26	2.8	26	78	11	80	49	22	14	13	1.78
1388796--1388837	7	6.0	7	83	10	59	57	0	0	42	0.99
1388797--1388837	13	3.0	13	86	13	64	58	0	0	41	0.98
1389870--1389978	29	3.7	30	81	15	122	35	31	0	32	1.64
1389893--1389978	29	3.0	29	85	13	131	37	31	0	31	1.58
1389829--1390006	58	3.1	58	79	12	213	31	31	3	33	1.76
1402115--1402719	200	3.0	200	90	1	924	37	20	22	19	1.95
1403093--1403153	11	5.3	11	80	9	59	42	1	1	54	1.20
1403100--1403205	6	18.0	6	70	21	73	44	2	0	52	1.15
1403123--1403205	17	4.7	17	80	16	89	44	3	0	51	1.18
1403100--1403155	29	1.9	29	82	7	69	42	1	0	55	1.10
1403162--1403221	17	3.6	16	88	4	75	50	3	1	45	1.28
1403275--1403315	13	3.1	14	75	10	50	48	24	14	12	1.78
1403920--1403971	9	5.7	9	78	13	52	50	7	3	38	1.50
1404015--1404059	7	6.0	7	80	14	54	57	0	0	42	0.98
1404016--1404058	15	2.8	15	92	3	68	58	0	0	41	0.98
1405095--1405254	29	5.6	29	77	9	175	35	30	2	31	1.71
1405054--1405261	29	7.1	29	72	18	173	33	31	3	31	1.74
1405054--1405289	58	4.1	58	79	10	266	32	31	3	32	1.76
1405241--1405311	29	2.5	28	84	9	81	32	28	7	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410333--1410368	18	2.0	18	94	0	63	58	11	19	11	1.62
1413522--1413566	8	5.3	9	79	12	51	51	0	0	48	1.00
1426484--1426688	102	2.0	102	97	0	383	43	8	23	23	1.82
1428040--1428071	15	2.0	17	88	11	50	34	9	6	50	1.60
1428793--1428831	21	1.9	19	85	10	51	35	17	10	35	1.84
1431874--1431939	23	2.9	23	81	0	87	45	22	18	13	1.84
1431874--1431951	23	3.3	25	75	10	83	44	23	20	11	1.84
1432825--1432852	14	2.0	14	100	0	56	64	7	7	21	1.43
1435135--1435193	29	2.0	29	90	0	91	38	10	13	37	1.79
1451177--1451215	3	13.0	3	83	0	51	0	35	5	58	1.20
1458399--1458524	68	1.9	66	85	3	171	31	11	11	45	1.76
1459988--1460032	19	2.2	21	84	7	58	71	13	2	13	1.25
1459988--1460032	20	2.2	21	88	7	67	71	13	2	13	1.25
1473112--1473140	10	2.7	11	89	10	51	79	0	0	20	0.74
1473576--1473604	12	2.5	12	94	5	51	68	0	0	31	0.89
1474713--1474845	59	2.2	59	83	9	162	32	10	19	37	1.86
1480199--1480248	20	2.6	19	81	12	66	34	0	8	58	1.28
1480301--1480330	15	2.0	15	100	0	60	46	6	0	46	1.29
1480596--1480630	18	1.9	18	94	0	61	37	0	2	60	1.12
1480590--1480644	18	2.9	18	73	26	51	40	0	1	58	1.09
1493180--1493300	52	2.3	52	100	0	242	42	14	11	30	1.82
1495420--1495453	6	5.7	6	96	0	50	41	32	8	17	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502909--1502943	12	2.9	12	91	0	52	51	22	17	8	1.72
1511698--1511723	4	6.5	4	100	0	52	50	23	0	26	1.50
1512369--1512419	25	2.0	26	92	3	86	41	19	3	35	1.70
1513141--1513205	14	4.7	14	81	5	62	16	13	6	63	1.50
1513161--1513218	27	2.1	28	87	3	82	22	15	3	58	1.52
1514435--1514494	9	6.5	10	79	12	51	36	1	1	60	1.17
1514625--1514716	46	2.0	46	80	4	105	50	8	7	33	1.62
1519032--1519082	23	2.2	23	82	0	57	52	1	1	43	1.23
1542644--1542853	84	2.5	84	90	0	321	39	6	9	44	1.63
1543667--1543735	27	2.5	28	83	4	77	17	0	30	52	1.45

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