genome.fa.s142.2.7.7.80.10.50.1000.5.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 953 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)
871739--871778	21	1.9	21	85	10	55	45	0	2	52	1.14
872210--872243	2	17.0	2	100	0	68	50	0	0	50	1.00
873679--873704	5	5.2	5	100	0	52	38	0	0	61	0.96
875112--875164	6	8.8	6	91	0	52	50	33	15	0	1.44
875917--875960	23	1.9	23	81	9	54	59	0	0	40	0.98
876370--876397	14	2.0	14	100	0	56	71	0	0	28	0.86
876418--876473	17	3.1	17	80	12	51	46	0	1	51	1.11
876418--876469	18	2.8	18	77	14	52	44	0	1	53	1.11
877061--877100	2	20.0	2	94	0	71	52	0	0	47	1.00
878280--878406	64	2.0	63	90	3	202	43	10	6	40	1.64
881120--881435	106	3.0	105	86	2	404	43	20	13	22	1.87
881975--882009	2	17.5	2	100	0	70	51	0	48	0	1.00
885976--886004	2	14.5	2	100	0	58	48	0	0	51	1.00
886135--886232	8	12.5	8	70	15	55	41	0	0	58	0.98
886147--886183	18	2.0	19	89	5	58	43	0	0	56	0.99
894184--894214	2	15.5	2	100	0	62	48	0	0	51	1.00
901941--901979	3	13.0	3	94	0	69	0	35	0	64	0.94
902214--902239	2	13.0	2	100	0	52	50	0	0	50	1.00
902507--902580	26	2.9	26	73	13	73	47	2	0	50	1.15
902745--902793	22	2.3	21	86	10	64	53	0	0	46	1.00
903238--903287	21	2.4	22	80	10	59	34	0	0	66	0.92
903247--903285	10	3.8	10	83	6	51	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
903699--903756	26	2.2	28	79	14	70	55	0	0	44	0.99
903699--903779	34	2.4	34	74	16	85	54	1	1	43	1.16
904253--904327	5	14.8	5	72	22	59	53	4	1	41	1.28
904252--904324	9	7.3	9	74	19	65	53	4	1	41	1.28
904260--904334	17	4.5	16	73	12	53	50	4	1	44	1.29
912418--912478	28	2.1	29	88	8	90	32	0	0	67	0.91
913133--913182	24	2.0	24	85	11	66	46	0	0	54	1.00
913910--913937	2	14.0	2	100	0	56	50	0	0	50	1.00
915499--915528	2	15.0	2	100	0	60	50	0	0	50	1.00
916159--916200	13	3.3	13	86	3	59	64	0	0	35	0.94
916501--916562	27	2.3	27	88	2	90	50	0	0	50	1.00
916549--916596	21	2.2	21	85	3	60	33	0	0	66	0.92
916869--916902	2	17.0	2	100	0	68	50	0	0	50	1.00
920680--920734	21	2.7	20	83	10	67	67	0	1	30	1.01
920691--920726	10	3.5	10	85	7	54	75	0	0	25	0.81
920705--920742	14	2.7	15	80	16	53	71	0	0	28	0.87
920691--920747	21	2.7	21	83	2	60	70	0	0	29	0.88
921849--921881	4	8.8	4	93	6	52	54	0	0	45	0.99
921848--921878	14	2.1	15	94	5	55	54	0	0	45	0.99
922058--922102	2	23.0	2	86	4	65	55	0	0	44	0.99
922043--922097	8	7.0	8	83	2	58	52	0	1	45	1.11
922296--922344	23	2.1	23	81	7	55	51	4	0	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
922466--922504	19	2.0	20	85	5	53	33	5	0	61	1.18
922488--922545	31	2.0	30	83	10	75	27	5	3	63	1.31
922860--922885	8	3.2	8	100	0	52	38	11	11	38	1.78
924837--924896	21	2.9	21	87	0	66	55	1	6	36	1.36
924848--924916	21	3.5	21	82	11	83	56	0	1	42	1.08
924994--925034	22	1.9	21	90	5	64	65	0	0	34	0.93
924943--925062	62	1.9	61	80	9	136	56	0	1	40	1.15
925512--925567	14	3.9	14	77	15	60	62	1	0	35	1.06
925556--925615	27	2.3	26	80	8	68	55	1	0	43	1.10
927459--927486	3	9.3	3	100	0	56	35	0	0	64	0.94
928236--928289	21	2.6	20	77	8	54	42	5	1	50	1.36
930388--930418	2	15.5	2	100	0	62	48	0	0	51	1.00
930856--930941	38	2.2	40	83	8	106	37	1	2	59	1.18
934869--934900	2	16.0	2	100	0	64	50	0	0	50	1.00
936940--936984	22	2.0	22	95	0	81	48	8	15	26	1.74
938679--938721	2	21.5	2	86	9	61	53	0	2	44	1.13
939993--940094	53	1.9	53	95	0	186	35	16	14	33	1.90
942850--942887	19	2.0	19	100	0	76	36	10	15	36	1.82
943385--943426	2	21.0	2	90	0	57	47	0	0	52	1.00
946690--946848	8	19.8	8	67	24	61	37	0	0	62	1.00
946652--946760	42	2.6	40	73	18	98	42	2	0	55	1.14
946754--946841	5	17.4	5	73	11	54	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946717--946794	13	4.9	16	75	24	69	42	1	0	56	1.07
946777--946869	10	9.5	10	68	19	54	32	1	0	66	0.99
946767--946850	12	7.0	12	79	8	82	32	0	0	67	0.91
946863--946902	19	2.1	19	90	9	64	47	0	0	52	1.00
947573--947612	1	40.0	1	94	0	71	2	0	97	0	0.17
950283--950366	37	2.2	37	87	2	114	23	15	13	47	1.80
952375--952420	2	23.0	2	100	0	92	50	0	0	50	1.00
956161--956216	28	2.0	28	100	0	112	35	3	21	39	1.71
959041--959073	15	2.1	17	88	11	52	45	0	0	54	0.99
960680--960704	2	12.5	2	100	0	50	52	0	48	0	1.00
960819--960872	27	2.0	27	100	0	108	22	25	18	33	1.97
975119--975182	23	2.7	24	83	11	78	40	0	0	59	0.97
975119--975193	25	3.1	23	79	11	71	42	0	0	57	0.98
975419--975485	29	2.4	28	76	2	71	26	0	4	68	1.08
975382--975485	25	3.9	24	68	22	73	26	0	5	67	1.13
976401--976444	22	2.0	23	86	4	63	63	0	0	36	0.95
976423--976472	18	2.7	18	81	3	55	60	2	2	36	1.20
977036--977083	25	1.9	24	84	16	62	50	0	0	50	1.00
977437--977466	2	15.0	2	100	0	60	50	0	50	0	1.00
977661--977700	2	20.0	2	94	0	71	0	50	2	47	1.14
981550--981623	32	2.3	32	100	0	148	64	0	0	35	0.94
984697--984734	2	19.5	2	94	5	69	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990146--990200	22	2.4	23	77	17	62	50	0	0	49	1.00
990376--990458	38	2.4	33	80	11	87	40	0	0	59	0.98
990715--990764	20	2.5	20	87	9	66	56	0	0	44	0.99
991143--991187	11	3.9	12	80	13	51	48	2	0	48	1.13
991371--991402	2	16.0	2	93	0	55	50	3	0	46	1.17
991619--991672	24	2.2	24	83	0	63	53	3	0	42	1.18
991810--991848	3	13.0	3	100	0	78	33	0	0	66	0.92
992111--992153	16	2.6	16	88	3	59	55	0	2	41	1.12
992268--992322	28	2.0	28	85	0	74	43	0	0	56	0.99
992271--992318	22	2.1	24	88	7	73	41	0	0	58	0.98
993148--993232	27	3.0	28	71	22	72	49	0	0	50	1.00
993205--993256	23	2.3	23	83	9	70	46	0	1	51	1.12
993263--993305	13	3.5	12	81	12	52	58	0	4	37	1.19
993747--993779	14	2.4	14	90	5	50	48	0	0	51	1.00
995156--995184	2	14.5	2	100	0	58	51	0	0	48	1.00
995364--995398	17	2.1	17	88	0	52	34	0	0	65	0.93
995652--995684	3	11.0	3	100	0	66	66	0	0	33	0.92
998546--998628	39	2.1	40	93	2	141	32	8	32	26	1.86
1001212--1001381	84	2.0	84	100	0	340	37	12	17	32	1.88
1005110--1005167	11	5.3	11	79	6	64	39	1	1	56	1.19
1005115--1005169	21	2.5	22	82	5	67	40	1	0	58	1.09
1005115--1005176	32	1.9	32	83	6	81	41	1	0	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006277--1006341	25	2.6	24	85	7	85	40	1	0	58	1.07
1006188--1006370	16	11.6	15	73	17	126	42	0	1	55	1.14
1009068--1009097	3	10.0	3	100	0	60	66	0	33	0	0.92
1010350--1010411	18	3.7	18	72	25	55	37	0	6	56	1.25
1010365--1010426	32	1.9	33	86	3	90	37	1	6	54	1.36
1015409--1015435	2	13.5	2	100	0	54	0	0	51	48	1.00
1016624--1016661	2	19.0	2	100	0	76	50	0	50	0	1.00
1020170--1020224	27	2.0	28	86	10	78	58	3	0	38	1.16
1020191--1020233	11	4.0	11	78	6	52	62	2	0	34	1.08
1020902--1020982	42	1.9	42	85	9	112	56	2	2	38	1.26

Tables:   1   2   3   4   5   6   7   8