genome.fa.s12.2.7.7.80.10.50.1000.4.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  4  of  132  ( 15769 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)
949514--949548	12	2.9	12	95	0	61	5	25	2	65	1.28
951174--951233	31	1.9	32	86	3	86	35	6	10	48	1.63
952039--952509	233	2.0	234	91	2	766	36	7	9	46	1.63
952807--952844	19	2.0	19	100	0	76	36	0	5	57	1.21
962909--962945	19	1.9	19	88	0	56	51	0	0	48	1.00
963813--963859	23	2.0	24	84	12	62	27	2	4	65	1.22
964632--964665	11	3.0	11	83	8	50	29	2	0	67	1.05
973328--973358	8	3.9	8	100	0	62	38	0	0	61	0.96
973625--973671	20	2.3	20	81	0	58	53	0	0	46	1.00
975967--976173	90	2.4	88	81	9	221	42	13	1	42	1.54
976287--976342	19	2.9	20	81	7	62	64	3	5	26	1.32
976448--976501	23	2.3	23	96	0	99	51	16	3	27	1.61
981167--981199	18	1.9	17	88	11	50	6	3	6	84	0.84
989529--989603	23	3.3	23	70	26	79	26	9	8	56	1.59
989526--989617	44	2.1	44	100	0	184	23	8	9	57	1.59
997522--998268	265	2.8	260	85	3	930	29	14	19	36	1.91
1001840--1001898	31	1.9	31	85	0	82	28	1	18	50	1.56
1003935--1003978	23	2.0	23	86	4	63	27	2	13	56	1.49
1005715--1005787	2	37.5	2	85	10	98	50	1	1	46	1.18
1006167--1006203	4	9.2	4	100	0	74	24	0	24	51	1.49
1009132--1009427	152	1.9	152	88	4	450	28	13	16	41	1.85
1011277--1011343	18	3.8	17	74	7	55	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011284--1011343	25	2.3	27	88	5	88	45	0	0	55	0.99
1012721--1012776	29	1.9	29	85	7	78	46	5	12	35	1.65
1021101--1021156	27	2.1	27	83	12	71	21	1	14	62	1.40
1021101--1021151	26	2.0	26	84	7	68	21	1	15	60	1.44
1023695--1024293	144	4.3	142	79	10	599	36	18	16	28	1.93
1023935--1024185	130	1.9	129	85	4	344	36	17	16	29	1.92
1023781--1024293	274	1.9	275	82	6	655	35	19	16	28	1.93
1028705--1028732	5	5.6	5	100	0	56	0	39	0	60	0.97
1030258--1030338	29	2.7	29	75	5	81	54	11	2	32	1.49
1032549--1032574	3	8.7	3	100	0	52	34	30	0	34	1.58
1034088--1034128	21	1.9	22	90	5	66	51	2	4	41	1.36
1036989--1037064	29	2.6	29	89	6	109	36	21	3	38	1.72
1038171--1038220	22	2.3	22	78	0	55	18	6	30	46	1.73
1040664--1040703	17	2.3	18	80	20	50	60	0	0	40	0.97
1041095--1041143	21	2.3	21	83	16	66	40	2	0	57	1.10
1043828--1043853	2	13.0	2	100	0	52	50	0	0	50	1.00
1045272--1045474	103	2.0	102	86	6	286	47	9	7	34	1.65
1045877--1045917	8	5.1	8	84	0	55	63	2	0	34	1.08
1059051--1059087	18	2.1	18	90	5	58	43	0	0	56	0.99
1061112--1061368	87	3.0	85	84	7	313	24	13	17	43	1.85
1071803--1071829	13	2.1	13	100	0	54	51	7	14	25	1.68
1073061--1073104	17	2.4	18	82	17	56	59	2	0	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085770--1085843	29	2.5	29	78	12	78	50	16	12	21	1.77
1085999--1086067	26	2.7	26	72	16	72	43	0	4	52	1.21
1088255--1088483	123	1.9	120	87	2	332	52	3	14	28	1.59
1088255--1088501	61	4.1	60	81	5	266	52	4	14	27	1.61
1088558--1088702	23	6.5	23	71	15	97	66	5	0	27	1.19
1088558--1088706	54	2.7	56	87	4	203	66	5	0	27	1.18
1088564--1088702	16	8.8	16	69	26	77	64	5	0	28	1.21
1088564--1088702	7	17.6	8	69	26	77	64	5	0	28	1.21
1088559--1088706	11	13.3	11	70	17	85	66	5	0	27	1.18
1088671--1088742	29	2.4	30	82	13	78	65	11	1	22	1.32
1089002--1089208	93	2.2	93	85	6	270	40	12	7	39	1.72
1089892--1089955	29	2.2	27	79	17	67	46	9	3	40	1.52
1090285--1090328	22	2.0	22	81	4	52	56	6	6	29	1.51
1095516--1096028	258	2.0	256	95	0	927	43	10	6	39	1.65
1097293--1097322	12	2.5	12	100	0	60	36	6	20	36	1.79
1098702--1098740	20	2.0	19	90	5	60	51	7	5	35	1.53
1111063--1111110	26	1.9	26	83	8	64	43	0	22	33	1.54
1111178--1111286	22	4.9	22	86	3	130	10	23	25	40	1.86
1112955--1112984	10	3.0	10	90	0	51	70	3	0	26	1.03
1113355--1113392	15	2.5	15	100	0	76	26	36	21	15	1.93
1115048--1115175	59	2.2	59	81	9	145	46	11	15	26	1.80
1120437--1120907	175	2.7	174	87	1	667	44	18	10	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122038--1122179	41	3.5	40	75	5	115	21	28	17	33	1.96
1128939--1129237	41	7.3	41	73	6	171	21	25	18	34	1.96
1128984--1129090	42	2.6	41	78	1	106	20	27	17	34	1.95
1128938--1129090	83	1.8	83	83	2	200	21	26	16	34	1.95
1134218--1134688	175	2.7	175	90	0	737	43	19	11	25	1.84
1135722--1136020	41	7.3	41	73	6	171	21	25	18	34	1.96
1135767--1135873	42	2.6	41	78	1	106	20	27	17	34	1.95
1135721--1135873	83	1.8	83	83	2	200	21	26	16	34	1.95
1143666--1143697	2	16.0	2	100	0	64	50	0	0	50	1.00
1145951--1146424	175	2.7	175	88	1	693	43	19	12	24	1.85
1147174--1147267	43	2.2	43	90	0	143	24	25	22	27	2.00
1147548--1147828	41	6.9	40	74	6	154	22	24	17	35	1.95
1147593--1147699	42	2.6	41	78	1	106	21	26	17	34	1.96
1150277--1150308	14	2.3	14	94	0	55	46	0	3	50	1.17
1152139--1152187	24	2.1	23	81	11	55	59	2	2	36	1.21
1152910--1152984	25	3.0	26	83	16	88	32	0	17	50	1.46
1153145--1155749	175	14.9	175	88	1	3654	43	20	11	24	1.85
1153145--1155749	699	3.7	697	92	1	4073	43	20	11	24	1.85
1156135--1156206	21	3.6	21	79	11	78	31	5	2	59	1.35
1156135--1156214	39	2.1	39	81	9	92	32	5	2	60	1.32
1156177--1156325	29	5.2	29	74	12	130	35	3	2	59	1.26
1156156--1156376	10	23.4	9	69	18	96	32	2	2	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156379--1156558	89	2.0	88	89	5	274	37	7	21	33	1.81
1157828--1157875	23	2.1	23	88	0	69	66	6	2	25	1.26
1160241--1160360	61	2.0	61	96	0	222	26	19	10	43	1.84
1161563--1161619	29	1.9	30	82	3	71	40	5	14	40	1.68
1168266--1168401	67	2.0	67	98	0	263	49	22	5	22	1.71
1168764--1169602	114	7.6	114	72	16	584	51	12	13	21	1.74
1168764--1169142	108	3.4	109	80	7	415	52	13	12	21	1.74
1168764--1169273	222	2.2	224	83	7	622	51	13	12	22	1.74
1169156--1169360	113	1.8	112	84	5	279	50	13	17	19	1.78
1169245--1169946	209	3.4	205	87	3	955	53	12	16	18	1.73
1171415--1171484	26	2.7	26	97	2	131	60	8	12	18	1.58
1175780--1175832	20	2.8	18	75	13	52	50	9	5	33	1.58
1180461--1180523	30	2.1	30	100	0	126	33	9	25	31	1.88
1183410--1183464	23	2.3	25	87	6	78	16	9	5	69	1.34
1184259--1184294	17	2.1	17	94	0	63	44	0	0	55	0.99
1184262--1184316	23	2.3	23	84	3	74	49	0	0	50	1.00
1185024--1185064	20	2.0	20	85	9	55	41	2	9	46	1.50
1186128--1186203	30	2.5	31	87	6	102	36	17	3	42	1.68
1186190--1186295	29	3.7	29	71	27	91	32	29	5	33	1.81
1186159--1186469	58	5.3	56	85	6	345	31	28	4	35	1.77
1186158--1186470	116	2.7	115	86	5	389	31	28	4	35	1.77
1186219--1186440	29	7.6	30	70	20	159	31	29	3	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194411--1194919	151	3.4	150	75	12	407	41	20	23	13	1.89
1194443--1194924	101	4.8	102	81	5	527	41	20	23	14	1.89
1194411--1194919	50	10.1	51	72	8	303	41	20	23	13	1.89
1194919--1198814	92	42.5	92	94	0	6580	32	15	20	31	1.94
1195626--1195767	39	3.5	39	69	19	119	30	12	23	33	1.92
1199070--1199099	15	2.0	15	100	0	60	46	0	0	53	1.00
1199069--1199116	21	2.2	22	88	7	71	50	0	0	50	1.00
1199801--1199841	20	2.0	20	85	9	55	41	2	9	46	1.50
1199839--1199882	23	2.0	23	86	4	63	61	4	2	31	1.28
1200884--1200957	30	2.5	30	77	16	73	40	16	2	40	1.62

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