genome.fa.s220.2.7.7.80.10.50.1000.4.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  4  of  19  ( 2201 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)
742016--742062	19	2.6	18	83	6	58	40	4	8	46	1.54
744776--744854	19	4.2	18	76	10	77	45	3	5	45	1.43
744776--744837	19	3.3	19	86	4	81	46	3	6	43	1.45
747885--747926	2	21.0	2	100	0	84	50	0	50	0	1.00
748116--748145	2	15.0	2	92	0	51	46	0	3	50	1.18
755096--755129	14	2.4	14	90	0	50	64	0	0	35	0.94
755417--755441	6	4.2	6	100	0	50	68	16	16	0	1.22
761683--761725	2	21.5	2	95	0	77	51	0	0	48	1.00
771153--771216	29	2.2	29	94	2	112	48	12	23	15	1.79
775874--775921	22	2.2	21	82	10	53	52	0	0	47	1.00
780864--780889	3	8.7	3	100	0	52	69	0	0	30	0.89
795631--795674	16	2.8	16	82	3	54	38	0	0	61	0.96
796162--796234	36	2.1	36	86	2	103	50	2	0	46	1.15
796154--796230	16	4.6	16	69	13	57	45	2	0	51	1.14
797099--797126	2	14.0	2	100	0	56	50	0	0	50	1.00
798312--798418	47	2.3	47	80	4	117	53	9	4	32	1.54
813096--813139	19	2.3	18	81	11	52	31	0	2	65	1.05
815053--815089	2	18.5	2	100	0	74	48	0	0	51	1.00
815948--815976	2	14.5	2	100	0	58	48	0	0	51	1.00
816957--816983	2	13.5	2	100	0	54	48	0	0	51	1.00
817029--817101	15	4.9	15	69	11	51	49	1	1	47	1.18
820907--821165	50	5.2	50	89	2	346	32	18	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
825556--825800	50	4.9	50	86	4	350	31	17	20	30	1.96
825556--825800	100	2.5	100	95	0	436	31	17	20	30	1.96
828150--828197	19	2.6	19	81	12	55	60	0	0	39	0.97
833385--833480	49	1.9	49	81	8	113	34	17	16	31	1.93
836716--836794	17	4.3	19	79	12	94	41	0	0	58	0.98
837466--837504	19	2.1	19	85	0	51	33	0	0	66	0.92
842475--842556	27	3.1	26	74	13	78	54	0	0	45	0.99
842736--842771	3	12.0	3	93	0	63	30	2	0	66	1.06
842911--842948	16	2.4	15	87	12	58	44	0	0	55	0.99
848515--848585	37	1.9	36	83	8	90	40	2	1	54	1.23
855795--856021	124	1.8	125	93	0	393	28	17	19	35	1.94
861681--861749	30	2.3	31	80	10	79	53	2	0	43	1.15
861732--861768	19	1.9	19	94	0	65	51	2	0	45	1.15
864103--864157	18	3.2	17	79	20	62	41	0	0	58	0.98
864120--864162	18	2.3	19	80	12	52	41	0	0	58	0.98
864116--864177	17	3.7	18	74	22	55	43	0	0	56	0.99
864126--864178	15	3.4	14	74	20	52	47	0	0	52	1.00
866000--866029	3	10.0	3	92	0	51	66	0	3	30	1.07
866720--866761	2	21.5	2	95	4	77	50	0	0	50	1.00
871253--871295	20	2.2	20	87	8	61	67	4	0	27	1.10
872413--872451	3	13.0	3	100	0	78	33	0	0	66	0.92
873375--873414	2	20.0	2	94	0	71	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
882072--882201	36	3.6	36	73	13	104	50	0	0	49	1.00
886157--886219	26	2.4	26	78	7	74	53	0	0	46	1.00
887632--887690	22	2.7	21	77	12	66	54	0	0	45	0.99
887839--887927	40	2.2	39	78	9	90	41	1	7	49	1.39
888373--888406	3	11.3	3	100	0	68	35	0	0	64	0.94
890025--890248	115	1.9	115	92	0	376	33	21	16	28	1.95
896046--896086	17	2.4	17	84	15	66	43	4	0	51	1.23
896055--896124	24	2.7	26	78	8	81	45	1	0	52	1.09
902686--902713	2	14.0	2	100	0	56	50	0	0	50	1.00
910202--910266	2	32.5	2	90	0	58	38	1	10	49	1.47
913605--913714	56	2.0	56	85	7	152	44	16	12	26	1.83
919372--919397	3	8.7	3	100	0	52	65	0	34	0	0.93
919263--919458	75	2.7	75	92	2	317	53	11	25	10	1.68
920595--920638	21	2.1	21	87	8	63	65	0	2	31	1.05
920661--920694	15	2.3	15	89	0	59	41	0	0	58	0.98
921554--921603	17	2.8	19	75	22	54	42	4	2	52	1.31
921786--921817	2	16.0	2	100	0	64	50	0	0	50	1.00
931329--931676	174	2.0	175	91	2	565	33	16	14	35	1.90
935254--935287	12	2.7	13	86	9	52	50	0	0	50	1.00
943790--943814	11	2.3	11	100	0	50	48	0	16	36	1.46
946375--946406	16	2.1	15	94	5	55	21	15	12	50	1.77
948788--948812	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949566--949600	13	2.6	14	91	8	56	0	8	0	91	0.42
951961--951996	3	12.0	3	100	0	72	33	0	0	66	0.92
952229--952262	2	17.0	2	100	0	68	50	0	0	50	1.00
954146--954200	22	2.5	22	83	16	71	69	0	0	30	0.89
954198--954247	17	3.1	17	72	27	54	50	2	0	48	1.12
954181--954278	31	3.1	31	85	7	126	56	2	0	41	1.11
955070--955106	2	18.5	2	100	0	74	51	0	0	48	1.00
955219--955260	2	21.0	2	100	0	84	50	0	0	50	1.00
956563--956624	24	2.7	23	82	12	65	51	0	0	48	1.00
960505--960551	23	2.0	23	87	0	67	82	2	2	12	0.84
960496--960554	17	3.5	17	81	9	66	81	1	1	15	0.86
960910--960948	18	2.2	18	85	0	51	28	2	2	66	1.18
961077--961108	17	1.9	17	93	6	57	59	3	0	37	1.13
967157--967186	14	2.2	14	94	5	53	60	0	0	40	0.97
967544--967587	20	2.2	20	84	8	54	56	0	2	40	1.11
969227--969296	30	2.4	29	75	15	72	62	0	0	37	0.95
969323--969371	19	2.8	18	79	11	57	51	2	0	46	1.12
969361--969403	23	1.9	22	95	4	77	34	0	2	62	1.08
971595--971681	38	2.4	37	79	11	97	60	2	0	36	1.09
973264--973357	29	3.0	33	75	13	99	37	2	0	60	1.09
973262--973308	15	2.8	16	76	17	51	46	0	0	53	1.00
976751--976792	17	2.3	18	76	12	50	35	2	0	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982020--982054	2	17.5	2	100	0	70	51	0	0	48	1.00
985919--985978	27	2.2	28	82	11	79	30	5	1	63	1.25
1002115--1002413	149	2.0	149	100	0	598	26	16	25	31	1.96
1010975--1011006	2	16.0	2	93	0	55	53	0	46	0	1.00
1012128--1012201	34	2.2	33	80	7	78	58	4	1	36	1.26
1014015--1014089	17	4.4	17	69	15	57	45	0	0	54	0.99
1014064--1014100	15	2.3	17	86	9	51	40	0	2	56	1.13
1014757--1014790	2	17.0	2	100	0	68	50	0	0	50	1.00
1017336--1017364	2	15.0	2	92	7	51	51	0	0	48	1.00
1017709--1017851	8	18.5	8	66	24	67	57	0	1	41	1.07
1017705--1017737	15	2.2	15	94	0	57	54	0	3	42	1.15
1017704--1017847	17	8.6	16	67	16	60	57	0	1	40	1.07
1017685--1017860	29	5.7	30	72	15	101	56	0	2	41	1.12
1019125--1019172	21	2.2	21	82	10	53	54	0	2	43	1.12
1024152--1024188	18	2.1	18	100	0	74	51	10	0	37	1.37
1030876--1030936	3	20.3	3	93	6	106	67	0	1	31	1.01
1031055--1031085	14	2.2	14	94	0	53	38	19	0	41	1.51
1033347--1033382	6	6.0	6	100	0	72	66	0	33	0	0.92
1033342--1033381	18	2.3	17	87	8	62	70	2	27	0	1.01
1037530--1037586	22	2.7	22	81	5	64	40	0	0	59	0.97
1037508--1037578	28	2.5	29	74	2	72	46	0	0	53	1.00
1038488--1038542	23	2.3	25	81	12	71	58	0	1	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038796--1038824	13	2.1	14	93	6	51	27	0	0	72	0.85
1038836--1038888	11	5.1	11	80	19	69	47	0	0	52	1.00
1038837--1038898	19	3.4	19	88	4	92	46	0	0	53	1.00
1038837--1038913	19	4.2	18	82	12	77	46	1	0	51	1.09
1038836--1038906	29	2.4	31	88	9	103	45	1	0	53	1.09
1039833--1039858	11	2.4	11	100	0	52	53	0	11	34	1.37
1042413--1042463	22	2.3	21	81	15	59	60	1	0	37	1.08
1043876--1043978	51	2.0	51	94	0	179	34	10	19	34	1.86
1048918--1049005	28	3.1	29	80	6	108	61	1	1	36	1.11
1055071--1055117	2	23.5	2	100	0	94	0	51	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19