genome.fa.s2.2.7.7.80.10.50.1000.3.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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  ( 16151 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)
691432--691484	8	6.2	8	79	12	52	20	0	3	75	0.96
702658--702700	3	14.3	3	100	0	86	67	0	32	0	0.91
705838--705891	17	3.1	16	80	19	56	24	0	3	72	1.01
705845--705891	17	2.7	17	81	12	60	21	0	4	74	0.99
710826--712902	513	4.0	513	97	0	3823	26	24	19	29	1.99
713214--713240	14	1.9	14	100	0	54	37	11	0	51	1.37
713285--713313	13	2.2	13	100	0	58	41	24	6	27	1.80
715106--715536	59	7.3	59	90	2	670	34	29	2	34	1.69
715106--715536	176	2.4	177	91	1	679	34	29	2	34	1.69
715106--715536	117	3.7	117	89	2	650	34	29	2	34	1.69
716921--716964	21	2.2	20	87	4	61	47	2	4	45	1.35
716921--716963	20	2.2	20	87	8	61	46	2	4	46	1.36
734575--734633	31	1.9	31	85	0	82	47	8	5	38	1.56
737731--737775	18	2.5	18	89	7	65	44	0	0	55	0.99
739200--739245	17	2.7	18	78	18	53	23	0	4	71	1.03
746067--746145	39	2.0	39	95	0	140	39	11	11	37	1.77
752956--753013	29	2.0	29	86	0	80	25	12	29	32	1.92
760949--760999	24	2.1	24	96	0	93	25	19	37	17	1.94
781556--781811	59	4.3	59	90	1	352	35	6	28	29	1.82
781627--781720	29	3.2	29	68	19	86	36	7	24	31	1.83
781715--781822	29	3.7	29	76	17	114	32	3	32	31	1.75
783644--783673	14	2.2	14	94	5	53	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)
783642--783731	6	15.3	6	71	13	62	48	2	1	47	1.21
783642--783731	17	5.1	17	78	9	74	48	2	1	47	1.21
798414--798440	12	2.2	12	100	0	54	74	0	25	0	0.83
798535--798601	23	2.8	24	86	4	100	28	11	7	52	1.65
800533--800598	24	2.8	24	88	0	96	27	10	7	54	1.61
800540--800610	24	3.0	24	85	4	81	28	12	8	50	1.69
803358--803386	13	2.2	13	100	0	58	31	0	0	68	0.89
803931--803996	31	2.1	31	85	0	87	50	10	3	36	1.53
803938--804003	31	2.1	31	88	0	96	48	10	1	39	1.47
804076--804160	42	2.1	40	88	4	125	24	17	14	43	1.86
811258--811306	24	2.0	25	84	4	64	24	2	12	61	1.42
815686--815767	3	27.7	3	95	2	148	65	1	0	32	1.00
819036--819069	2	17.5	2	93	6	61	50	0	0	50	1.00
820507--820589	42	1.9	43	87	4	123	56	6	4	32	1.45
835254--835283	14	2.2	13	94	5	51	70	0	3	26	1.03
838178--838202	9	2.8	9	100	0	50	12	0	12	76	1.04
845278--845438	60	2.7	58	78	16	179	39	7	20	32	1.81
862036--862074	19	2.1	19	100	0	78	53	5	5	35	1.45
868941--870814	236	7.9	236	93	0	3061	33	16	18	31	1.93
874527--874965	236	1.9	236	91	0	725	34	16	17	31	1.92
899353--899416	28	2.3	28	89	5	94	45	7	15	31	1.75
901799--901865	24	2.8	24	90	0	98	41	2	7	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906241--906297	24	2.4	24	82	5	62	36	5	14	43	1.67
908725--908753	14	2.0	15	93	6	51	48	6	3	41	1.47
915260--915312	26	2.0	26	100	0	106	33	11	20	33	1.88
915264--915320	26	2.5	21	73	24	60	35	10	14	40	1.80
918704--918982	60	4.9	58	79	12	303	59	0	10	29	1.34
918704--918969	111	2.3	111	85	7	329	60	0	11	28	1.34
922194--922288	48	2.0	48	95	0	172	35	12	23	28	1.91
936436--936486	18	2.9	18	85	2	68	47	0	0	52	1.00
936436--936491	21	2.9	19	79	10	62	48	0	0	51	1.00
936435--936492	18	3.3	18	76	11	66	46	0	0	53	1.00
937665--937700	17	2.1	17	89	0	54	41	2	19	36	1.66
937922--937990	28	2.4	28	85	4	84	42	0	4	53	1.20
941468--941517	21	2.4	21	83	3	66	26	16	2	56	1.51
942228--942261	17	1.9	18	88	5	52	64	5	2	26	1.30
942783--942844	29	2.1	29	82	11	74	43	1	1	53	1.20
942986--943052	27	2.5	27	77	15	68	31	2	7	58	1.41
949883--950026	72	2.0	72	82	5	175	38	9	18	33	1.82
956242--956277	17	2.1	17	94	0	63	38	2	22	36	1.69
959997--960026	2	15.0	2	92	0	51	50	3	0	46	1.18
962524--962569	19	2.2	22	85	11	62	39	0	2	58	1.10
962961--962990	13	2.3	13	100	0	60	33	0	0	66	0.92
966245--966289	24	1.9	24	86	4	65	2	24	2	71	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971378--971413	14	2.6	14	86	0	54	30	0	25	44	1.54
972528--972563	18	2.0	18	88	0	54	22	0	25	52	1.47
973822--973860	15	2.4	16	87	8	53	35	2	0	61	1.10
974244--974366	63	1.9	64	90	1	194	45	9	13	31	1.75
974693--974732	19	2.1	19	90	4	62	5	5	17	72	1.21
975312--975409	45	2.2	45	87	1	144	52	8	11	28	1.66
976420--976980	296	1.9	300	83	4	733	29	8	20	41	1.82
978749--978823	37	2.0	37	94	0	132	28	25	13	33	1.93
981960--981984	3	8.3	3	100	0	50	36	0	32	32	1.58
999469--999594	61	2.0	62	89	1	191	23	25	14	36	1.93
1003125--1003186	26	2.2	28	83	13	76	61	4	4	29	1.37
1015084--1015140	28	2.0	28	93	0	96	29	12	7	50	1.66
1015085--1015150	28	2.4	28	87	5	89	31	15	7	45	1.74
1015281--1015404	59	2.2	56	83	4	149	37	8	16	37	1.79
1020011--1020053	22	2.0	22	86	9	61	48	2	0	48	1.14
1025263--1025999	60	12.5	60	78	11	594	23	20	17	37	1.94
1025494--1025999	179	2.8	177	81	8	574	22	21	17	37	1.94
1025492--1025993	119	4.2	119	85	4	645	23	21	17	37	1.94
1029414--1029454	15	2.8	15	81	3	57	31	0	4	63	1.15
1032515--1032587	23	3.2	23	86	0	101	41	17	12	28	1.86
1032707--1032748	3	14.0	3	100	0	84	66	0	0	33	0.92
1032768--1032805	15	2.4	16	82	8	51	55	5	5	34	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032781--1032809	15	2.0	15	93	6	51	62	6	3	27	1.37
1034345--1034387	22	2.0	22	86	4	61	48	2	0	48	1.14
1034598--1034678	41	2.0	41	100	0	162	24	2	27	45	1.66
1034655--1034770	56	2.1	56	96	0	214	33	10	17	38	1.83
1038335--1038372	19	2.0	20	84	5	51	52	13	2	31	1.54
1042224--1042280	29	2.0	29	85	0	78	42	5	3	49	1.42
1042411--1042471	2	30.5	2	100	0	122	50	0	0	49	1.00
1045348--1045388	3	12.7	3	94	5	55	29	0	0	70	0.87
1045980--1046066	23	3.7	23	80	4	95	40	16	11	32	1.84
1049445--1049521	40	1.9	40	86	5	111	36	11	18	33	1.87
1049616--1049653	13	2.8	14	80	8	51	52	7	0	39	1.31
1051874--1051936	25	2.5	25	81	2	81	19	11	6	63	1.48
1057144--1057485	94	3.7	90	79	7	350	47	19	7	25	1.74
1057060--1057510	183	2.4	189	82	6	560	50	19	7	23	1.72
1057156--1057485	89	3.6	88	79	6	354	47	20	6	25	1.74
1059638--1059692	22	2.4	21	80	14	56	49	0	1	49	1.11
1071204--1071263	24	2.6	23	78	5	66	45	1	5	48	1.34
1075337--1075449	50	2.2	51	84	4	140	44	7	9	38	1.67
1083405--1083438	16	2.1	16	94	5	59	32	5	11	50	1.63
1100632--1100700	27	2.6	26	79	4	75	23	0	7	69	1.13
1105550--1105592	13	3.5	13	81	12	63	51	2	0	46	1.13
1107353--1107407	20	2.7	21	91	5	94	41	7	12	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109454--1109496	10	4.3	10	85	8	52	74	0	0	25	0.82
1116422--1116723	158	1.9	159	93	0	525	37	10	14	36	1.82
1129451--1129485	16	2.1	17	89	5	54	42	5	0	51	1.25
1130076--1130257	64	2.8	64	70	10	172	34	21	18	25	1.96
1130075--1130279	65	3.2	64	71	6	189	33	20	20	25	1.97
1130075--1130325	129	1.9	128	84	4	326	33	21	20	23	1.97
1141529--1141564	17	2.2	17	90	5	56	47	0	13	38	1.44
1146327--1146382	25	2.2	25	81	6	69	39	7	1	51	1.40
1146742--1146770	2	14.5	2	100	0	58	48	0	0	51	1.00
1147463--1147825	29	12.4	29	76	10	242	39	23	3	33	1.72

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