genome.fa.s53.2.7.7.80.10.50.1000.6.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   

This is table  6  of  28  ( 3325 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)
902110--902312	94	2.2	94	80	3	221	24	21	13	40	1.89
902779--902828	21	2.4	22	83	9	61	32	20	0	48	1.50
904525--904575	21	2.3	23	86	6	70	37	3	15	43	1.66
905225--905278	20	2.7	19	77	11	56	35	12	14	37	1.85
909962--910110	52	2.9	51	88	4	226	30	16	18	33	1.94
910099--910123	13	1.9	13	100	0	50	36	16	16	32	1.90
910187--910211	13	1.9	13	100	0	50	32	16	16	36	1.90
910554--910661	32	3.4	32	100	0	216	31	21	21	25	1.98
917791--917827	9	3.9	9	89	10	56	86	10	2	0	0.67
917791--917829	14	2.8	13	85	14	51	87	10	2	0	0.65
917789--917828	10	4.0	10	83	9	55	85	12	2	0	0.71
918769--918956	31	6.0	30	84	7	180	24	31	15	27	1.96
918903--920735	34	54.8	34	79	11	1864	20	34	12	32	1.90
918900--920702	435	4.1	433	89	4	2485	20	34	12	32	1.90
920492--920735	71	3.5	70	93	1	373	20	33	11	34	1.88
918903--920788	104	18.8	102	78	12	893	20	34	12	32	1.90
920744--920849	33	3.3	33	87	8	157	28	33	18	18	1.95
920842--921113	43	5.7	49	82	11	343	25	24	18	31	1.98
920837--921122	92	3.1	92	92	2	464	25	25	17	31	1.97
921023--921176	52	2.9	53	81	4	193	24	24	15	35	1.94
921126--921252	67	1.9	68	85	1	175	23	24	12	39	1.89
921841--921865	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
921928--921952	13	1.9	13	100	0	50	32	16	16	36	1.90
921961--922085	52	2.4	52	95	0	223	36	18	17	28	1.94
926794--926863	29	2.2	33	82	12	85	54	21	1	22	1.53
932822--932847	13	2.0	13	100	0	52	38	15	15	30	1.88
932799--932868	33	2.1	34	89	2	106	34	18	14	32	1.91
932893--932950	20	2.9	20	87	5	82	37	15	10	36	1.82
940584--940651	19	3.9	19	78	21	85	35	11	14	38	1.83
940586--940648	32	2.0	32	96	0	117	34	12	15	36	1.86
940605--940629	13	1.9	13	100	0	50	36	16	16	32	1.90
943128--943199	27	2.6	28	84	2	92	23	33	20	22	1.97
943182--943404	52	4.3	50	80	9	223	29	25	12	33	1.92
943184--943404	105	2.1	103	84	3	273	29	25	11	33	1.91
943418--943486	28	2.5	28	95	0	120	26	30	20	23	1.98
945022--945335	157	2.0	157	94	1	558	39	21	16	22	1.92
946635--947072	28	15.6	28	86	4	569	28	29	19	22	1.98
947544--947821	138	2.0	138	91	0	448	27	20	21	30	1.98
948033--948088	20	2.8	20	80	0	67	26	19	14	39	1.90
948103--948133	16	1.9	16	93	0	53	35	16	16	32	1.91
951863--951916	20	2.7	21	83	16	78	25	14	14	44	1.84
951813--951965	69	2.2	69	87	4	211	28	18	13	39	1.89
954386--954452	28	2.4	27	85	9	82	23	37	13	25	1.92
954348--954605	107	2.4	106	82	4	306	27	25	12	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954483--954559	28	2.7	29	82	4	86	20	31	23	24	1.98
954542--954668	51	2.5	50	79	3	148	29	24	11	35	1.90
954670--954843	52	3.4	51	93	3	294	24	29	17	28	1.97
954671--954869	104	1.9	104	85	4	276	25	26	16	31	1.97
963262--963338	40	1.9	40	100	0	154	41	11	29	16	1.84
967201--967254	12	4.4	12	79	11	56	87	9	1	1	0.71
967201--967238	15	2.6	14	88	8	58	89	7	0	2	0.57
967201--967254	27	2.0	28	88	3	83	87	9	1	1	0.71
967209--967254	16	2.8	17	87	9	60	86	10	2	0	0.64
967201--967253	13	3.8	13	79	18	54	86	9	1	1	0.71
967202--967243	19	2.2	19	91	0	66	88	9	0	2	0.61
968268--968437	61	3.0	55	80	10	196	26	26	20	26	1.99
968323--968450	61	2.1	61	94	0	220	22	28	19	28	1.98
968300--968591	156	1.9	155	88	3	444	25	27	20	26	1.99
968461--969127	117	5.7	117	81	8	723	27	26	19	26	1.99
968480--969119	61	10.9	58	80	10	610	27	26	19	26	1.99
972137--972281	51	2.8	51	68	3	121	31	21	10	36	1.87
972272--972341	28	2.5	27	86	9	88	25	38	12	22	1.90
972231--972495	107	2.5	107	79	5	286	27	25	13	32	1.94
972431--972547	51	2.3	51	86	4	164	29	24	11	33	1.91
972560--972680	51	2.4	51	91	0	188	23	32	18	25	1.97
980538--980662	20	5.7	20	69	18	79	39	12	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980588--980663	20	3.8	20	82	6	82	35	15	15	32	1.90
982340--982391	20	2.6	20	88	11	72	36	19	13	30	1.90
982437--982466	13	2.3	13	94	0	51	33	13	13	40	1.83
985354--985378	13	1.9	13	100	0	50	32	16	16	36	1.90
985387--985511	52	2.4	52	95	0	223	36	18	16	28	1.93
989206--989995	155	5.1	154	81	5	887	40	18	13	27	1.88
989212--989995	312	2.5	307	88	3	1126	40	19	13	27	1.88
993543--993768	40	5.7	40	72	5	145	47	16	20	15	1.83
993710--993787	40	2.0	40	84	0	102	51	15	19	14	1.77
999072--999121	20	2.5	20	86	0	64	38	16	16	30	1.90
1001512--1001550	13	3.0	13	96	0	69	35	15	17	30	1.91
1003800--1003825	13	2.0	13	100	0	52	38	15	15	30	1.88
1007883--1007913	15	2.1	15	93	0	53	48	16	22	12	1.80
1009992--1010030	13	3.0	13	100	0	78	30	15	15	38	1.88
1010151--1010197	21	2.3	20	82	10	60	31	19	4	44	1.70
1012465--1012516	20	2.6	20	84	6	70	36	17	15	30	1.91
1013478--1013517	15	2.6	15	84	4	53	17	20	20	42	1.89
1015954--1015984	9	3.4	9	95	0	53	25	35	0	38	1.56
1017593--1017617	13	1.9	13	100	0	50	36	16	16	32	1.90
1017570--1017637	33	2.1	33	88	2	102	32	14	17	35	1.91
1017691--1017740	20	2.5	20	86	0	64	38	16	16	30	1.90
1019758--1020111	80	4.6	80	75	9	279	29	25	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019786--1020082	149	2.0	148	83	3	373	29	23	11	36	1.89
1033715--1033746	16	2.0	16	100	0	64	31	18	25	25	1.98
1033839--1033946	55	2.0	54	90	1	171	44	19	13	22	1.86
1035546--1035580	18	1.9	18	94	0	61	51	17	14	17	1.77
1036642--1036696	20	2.7	21	82	2	67	32	12	9	45	1.74
1041640--1041675	15	2.4	15	90	0	54	86	8	0	5	0.72
1042711--1042922	76	2.9	77	80	8	210	23	22	11	42	1.86
1043088--1043215	44	2.9	43	77	3	148	21	25	12	41	1.88
1043550--1043605	21	2.7	21	100	0	112	44	14	10	30	1.79
1043656--1043681	13	2.0	13	100	0	52	38	15	15	30	1.88
1049842--1049880	13	3.0	13	92	0	60	33	17	12	35	1.88
1050004--1050049	21	2.2	20	81	11	58	32	19	4	43	1.71
1052460--1052485	13	2.0	13	100	0	52	38	15	15	30	1.88
1052540--1052582	20	2.0	22	91	8	72	46	13	9	30	1.75
1053426--1053588	71	2.3	72	83	3	213	26	22	15	35	1.94
1056857--1057120	80	3.3	79	81	6	293	29	26	11	31	1.92
1056863--1057172	80	3.9	80	80	6	283	29	28	11	30	1.92
1057178--1057448	80	3.4	79	77	5	260	26	29	12	30	1.92
1057527--1057710	80	2.3	78	80	8	194	33	21	9	35	1.86
1057987--1058121	60	2.2	60	90	0	207	40	16	16	27	1.89
1059904--1059955	19	2.7	20	81	3	61	32	19	11	36	1.87
1059983--1060049	33	2.0	33	85	5	91	38	11	17	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064612--1064684	20	3.6	20	81	3	101	35	13	19	31	1.91
1064630--1064705	21	3.7	21	80	3	100	42	11	17	28	1.84
1064612--1064705	41	2.3	41	98	0	179	39	12	18	29	1.88
1064744--1064769	13	2.0	13	100	0	52	38	15	15	30	1.88
1068832--1068862	15	2.1	15	93	0	53	48	16	22	12	1.80
1070922--1070946	13	1.9	13	100	0	50	32	20	16	32	1.94
1072738--1072798	31	2.0	31	100	0	122	26	3	26	44	1.69
1073419--1073491	20	3.6	20	81	3	101	35	13	19	31	1.91
1073437--1073512	21	3.7	21	80	3	100	42	11	17	28	1.84
1073419--1073512	41	2.3	41	98	0	179	39	12	18	29	1.88

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