genome.fa.s1.2.7.7.80.10.50.1000.4.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  4  of  126  ( 15035 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)
1020466--1020824	176	2.1	174	89	2	540	33	2	29	33	1.72
1020606--1020852	29	8.5	29	65	24	87	34	2	28	34	1.71
1021553--1021597	11	4.0	11	80	13	56	0	20	2	77	0.87
1021560--1021603	22	2.0	23	90	4	72	2	15	4	77	1.04
1021857--1021903	3	15.3	3	82	12	51	36	0	0	63	0.94
1022583--1022668	13	6.8	13	72	17	58	46	0	5	47	1.26
1022583--1022670	6	14.2	6	74	16	65	46	0	5	47	1.26
1022612--1022662	11	4.8	11	76	9	52	52	0	5	41	1.25
1022609--1022679	17	4.4	17	82	12	87	53	1	4	40	1.29
1023612--1023869	87	3.0	86	86	5	333	27	20	29	22	1.98
1026641--1026783	49	3.1	47	63	20	115	27	18	29	24	1.98
1026591--1026854	87	3.0	87	91	1	413	28	19	29	22	1.98
1029060--1029124	24	2.7	24	82	0	85	24	18	7	49	1.74
1031938--1032201	87	3.0	86	89	3	388	29	20	29	20	1.98
1036245--1036508	87	3.0	87	88	1	377	29	20	28	21	1.98
1039194--1039367	87	2.0	87	88	2	260	29	19	27	22	1.98
1039350--1039380	15	2.1	15	100	0	62	32	35	12	19	1.90
1039263--1039569	102	3.0	102	97	0	569	29	23	25	21	1.99
1039452--1039482	15	2.1	15	100	0	62	32	35	12	19	1.90
1041036--1041293	87	3.0	87	91	2	403	29	20	28	21	1.98
1044027--1044246	87	2.5	87	92	0	368	28	20	28	22	1.98
1044229--1044259	15	2.1	15	100	0	62	32	35	12	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044142--1044345	102	2.0	102	98	0	390	29	22	26	21	1.99
1047712--1047760	14	3.3	15	77	8	55	38	0	8	53	1.31
1048087--1048117	14	2.2	14	94	0	53	38	19	6	35	1.77
1055218--1055271	23	2.3	23	80	0	63	18	22	27	31	1.97
1055230--1055273	23	1.9	23	90	0	70	15	20	31	31	1.94
1064193--1064241	14	3.3	15	74	8	55	38	0	12	48	1.41
1065193--1065221	5	5.8	5	100	0	58	37	0	20	41	1.53
1071422--1071662	51	4.6	51	84	2	284	28	23	15	32	1.95
1075138--1075262	23	5.3	23	83	11	155	12	25	22	40	1.88
1075138--1075264	48	2.7	46	84	7	175	11	25	22	40	1.87
1075138--1075287	48	3.2	44	81	11	156	12	26	22	39	1.89
1075138--1075285	71	2.1	71	81	7	167	12	27	21	39	1.89
1077364--1077392	6	4.8	6	100	0	58	17	13	0	68	1.20
1077845--1078012	91	1.8	91	98	0	327	32	10	16	41	1.82
1078443--1078506	19	3.3	20	83	14	73	76	4	10	7	1.14
1078448--1078534	30	2.8	31	74	17	83	72	4	14	8	1.24
1078461--1078520	21	3.0	20	82	4	59	75	3	13	8	1.16
1078468--1078520	20	2.5	20	81	6	61	73	3	15	7	1.20
1078450--1078506	10	5.8	10	83	10	73	75	5	10	8	1.18
1087482--1087509	12	2.3	12	100	0	56	60	7	14	17	1.55
1090464--1090566	30	3.3	30	83	12	143	52	19	0	28	1.46
1090475--1090552	35	2.3	35	95	2	140	51	21	0	26	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090741--1090796	19	3.0	20	67	20	57	41	17	1	39	1.60
1090728--1090796	36	1.9	36	96	0	129	42	14	1	42	1.54
1097527--1097575	17	2.8	18	73	20	50	57	0	8	34	1.29
1097910--1097941	17	1.9	16	93	6	55	34	9	0	56	1.32
1102610--1102646	16	2.3	16	90	0	56	59	0	2	37	1.12
1109090--1109133	21	2.3	19	84	11	54	52	4	0	43	1.22
1109103--1109142	19	2.1	19	85	4	53	40	7	0	52	1.30
1123855--1123911	27	2.1	27	96	0	105	28	19	17	35	1.94
1130834--1130904	32	2.3	31	82	2	88	46	8	8	36	1.65
1140757--1140785	14	2.1	14	100	0	58	34	13	0	51	1.42
1147321--1147372	18	3.0	18	83	10	56	44	0	0	55	0.99
1148978--1149034	27	2.1	27	93	0	96	29	22	15	31	1.95
1149063--1149520	231	2.0	231	90	0	727	30	33	10	25	1.90
1150993--1151062	29	2.4	28	86	6	104	34	15	10	40	1.81
1153509--1153677	60	2.9	56	77	12	144	24	18	16	40	1.91
1156582--1156625	10	4.5	10	80	5	54	31	0	9	59	1.29
1158036--1158301	132	2.0	132	82	0	325	37	19	18	24	1.94
1165054--1165093	18	2.2	18	90	0	62	47	7	7	37	1.60
1165090--1165138	23	2.1	23	100	0	98	57	0	8	34	1.29
1166864--1166895	15	2.1	16	94	5	57	31	12	21	34	1.91
1167318--1167361	21	2.1	21	82	0	52	34	9	11	45	1.72
1169467--1169497	15	2.0	15	93	6	53	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173883--1173920	11	3.6	11	82	13	53	47	2	0	50	1.15
1173883--1173920	20	1.9	20	94	0	67	47	2	0	50	1.15
1175087--1175300	81	2.6	81	80	1	232	38	12	10	38	1.77
1176693--1176722	15	1.9	16	93	6	53	56	0	0	43	0.99
1180307--1180339	12	2.8	12	86	13	50	27	60	9	3	1.42
1180303--1180361	24	2.5	24	77	5	66	22	61	8	8	1.52
1189740--1189785	19	2.5	19	86	6	60	8	4	6	80	1.01
1190105--1190228	59	2.1	59	84	3	160	45	15	12	27	1.81
1192703--1192754	27	2.0	26	84	3	68	57	7	11	23	1.59
1207233--1207274	22	1.9	23	85	9	61	47	19	2	30	1.62
1207233--1207276	21	2.0	22	83	12	56	47	18	4	29	1.68
1244125--1244172	23	2.0	24	84	4	62	50	0	6	43	1.27
1244694--1244766	31	2.4	30	86	11	96	45	20	13	20	1.85
1244902--1245024	47	2.6	46	80	8	124	53	21	7	17	1.67
1260181--1260223	22	2.0	22	85	0	59	16	13	11	58	1.64
1262816--1262841	6	4.3	6	100	0	52	34	0	0	65	0.93
1262992--1263026	18	1.9	18	88	0	52	34	0	0	65	0.93
1265244--1265282	15	2.4	16	87	8	53	35	0	0	64	0.94
1265291--1265353	29	2.2	30	83	10	80	42	0	3	53	1.16
1266760--1266817	20	2.7	22	79	10	68	65	18	3	12	1.39
1266774--1266875	12	8.8	12	65	15	63	68	18	4	7	1.33
1266802--1266868	12	6.0	11	75	15	66	70	16	4	8	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266778--1266884	56	1.9	56	82	3	135	69	17	4	8	1.32
1266836--1266886	23	2.2	23	82	6	59	74	15	1	7	1.13
1266881--1266947	18	3.4	18	83	10	71	67	17	8	5	1.38
1266871--1266962	40	2.3	42	83	11	129	67	18	6	7	1.37
1267321--1267362	18	2.4	18	80	11	52	35	0	0	64	0.94
1271521--1271572	27	1.9	27	88	0	77	50	32	0	17	1.47
1271521--1271578	27	2.1	27	83	0	71	50	34	0	15	1.45
1274420--1274456	2	18.5	2	94	0	65	51	45	0	2	1.15
1274456--1274515	2	30.0	2	96	0	111	48	0	0	51	1.00
1278206--1278244	21	1.9	21	85	15	55	17	2	15	64	1.41
1282759--1282785	2	13.5	2	100	0	54	48	0	0	51	1.00
1285568--1285628	29	2.1	29	100	0	122	40	16	16	26	1.89
1295756--1296036	142	2.0	141	90	2	438	36	21	12	29	1.90
1302840--1303048	110	1.9	110	87	0	310	36	20	13	29	1.90
1305822--1305873	26	2.0	26	85	7	70	55	11	9	23	1.64
1309017--1309049	15	2.1	16	88	5	50	72	6	3	18	1.18
1319694--1319742	25	2.0	25	88	4	73	36	0	0	63	0.95
1319707--1319740	18	1.9	18	88	5	52	32	0	0	67	0.91
1323319--1323390	35	2.1	35	94	0	126	29	19	2	48	1.63
1324879--1324947	29	2.4	29	95	0	111	28	2	14	53	1.55
1326072--1326122	16	3.2	16	80	0	57	27	11	9	50	1.70
1339462--1339539	29	2.7	29	97	2	147	71	0	7	20	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339521--1339634	38	3.0	38	100	0	228	65	15	5	13	1.43
1340272--1340320	21	2.5	19	83	6	53	55	0	0	44	0.99
1341049--1341140	38	2.5	37	84	8	107	40	0	2	57	1.11
1341052--1341137	20	4.4	19	67	23	54	41	0	2	55	1.12
1341783--1341855	29	2.6	29	75	14	80	32	6	6	53	1.54
1343341--1343375	6	6.0	6	86	6	54	45	0	0	54	0.99
1343340--1343373	17	2.0	17	100	0	68	41	0	0	58	0.98
1343894--1344060	30	5.6	31	80	9	152	36	19	3	40	1.69
1343881--1344089	89	2.4	87	79	10	210	38	21	2	37	1.68
1347232--1347261	14	2.1	15	93	6	53	50	0	0	50	1.00

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