genome.fa.s21.2.7.7.80.10.50.1000.7.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

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

This is table  7  of  15  ( 1753 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)
887835--887931	48	2.0	48	82	9	117	56	0	0	43	0.99
888209--888263	18	3.1	18	76	23	55	47	0	0	52	1.00
888219--888266	18	2.5	20	80	13	64	45	0	0	54	0.99
888240--888294	11	4.9	11	80	8	58	32	0	0	67	0.91
888847--888913	16	3.9	18	74	14	61	40	0	0	59	0.97
888857--888947	15	5.6	16	71	17	71	39	0	0	60	0.97
888867--888965	46	2.1	45	80	12	103	39	1	0	59	1.04
889275--889317	21	2.0	22	86	4	61	53	0	0	46	1.00
889498--889522	3	8.3	3	100	0	50	64	0	0	36	0.94
890979--891041	30	2.1	30	93	0	108	44	4	22	28	1.73
891453--891516	2	32.0	2	81	6	76	46	4	1	46	1.33
896624--896673	20	2.4	21	80	12	59	48	0	2	50	1.12
903796--903834	11	3.5	11	85	3	51	66	2	2	28	1.18
904278--904310	16	2.1	16	100	0	66	42	6	12	39	1.67
911664--911690	2	13.5	2	100	0	54	48	0	0	51	1.00
911703--911736	14	2.4	14	95	0	59	17	26	5	50	1.69
913607--913632	2	13.0	2	100	0	52	50	0	0	50	1.00
923155--923185	6	5.0	6	96	4	53	64	0	0	35	0.94
924794--924837	20	2.2	20	100	0	88	65	4	0	29	1.12
925937--925967	2	15.0	2	93	6	53	48	3	0	48	1.17
925967--926002	2	18.0	2	100	0	72	50	0	50	0	1.00
927568--927713	5	30.6	5	64	21	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
927575--927713	11	12.9	11	63	25	57	58	0	0	41	0.98
927608--927688	18	4.6	18	67	28	50	51	0	0	48	1.00
927589--927696	29	3.7	29	76	13	89	55	0	0	44	0.99
928594--928634	19	2.3	18	80	20	50	53	0	9	36	1.34
929693--929767	17	4.3	17	70	16	64	50	0	0	49	1.00
929678--929758	18	5.0	17	73	19	59	49	0	0	50	1.00
929679--929757	34	2.4	32	76	13	81	49	0	0	50	1.00
929679--929758	16	5.0	15	72	21	56	50	0	0	50	1.00
931004--931050	3	15.7	3	100	0	94	31	0	0	68	0.90
931672--931712	13	3.2	13	83	10	57	68	0	0	31	0.90
932597--932629	2	16.5	2	100	0	66	51	0	0	48	1.00
933292--933360	36	1.9	36	82	11	88	49	0	0	50	1.00
933337--933376	20	2.0	20	85	14	55	60	0	2	37	1.11
933938--933967	3	10.0	3	100	0	60	33	0	0	66	0.92
935077--935123	21	2.5	18	83	16	60	46	0	0	53	1.00
935586--935649	11	6.0	11	75	12	62	39	0	1	59	1.07
935586--935652	31	2.3	28	82	14	82	40	0	1	58	1.07
935625--935676	17	3.1	15	81	13	50	50	0	0	50	1.00
935636--935680	16	2.7	17	83	13	58	55	0	0	44	0.99
935638--935680	18	2.6	18	89	10	65	55	0	0	44	0.99
935701--935753	25	2.1	25	82	6	63	33	1	1	62	1.17
937622--937659	3	12.7	3	100	0	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940210--940247	2	19.0	2	100	0	76	50	0	0	50	1.00
943255--943336	14	6.1	14	71	22	59	42	0	0	57	0.98
943248--943305	17	3.2	17	75	7	53	43	0	0	56	0.99
943237--943318	37	2.3	35	81	8	92	45	0	1	53	1.08
943250--943301	23	2.3	23	86	6	70	44	0	0	55	0.99
943292--943330	16	2.4	16	80	12	53	43	0	0	56	0.99
943288--943343	28	2.0	27	83	13	69	48	0	0	51	1.00
943252--943322	37	1.9	37	88	5	108	45	0	0	54	0.99
951658--951700	9	4.7	9	82	2	50	67	2	0	30	1.03
951657--951700	18	2.4	19	81	14	56	65	2	0	31	1.05
954995--955024	1	30.0	1	93	0	51	0	96	3	0	0.21
963871--963903	14	2.4	14	90	5	50	57	3	3	36	1.29
964230--964279	12	3.5	14	84	15	59	44	0	4	52	1.20
964321--964371	18	2.8	18	75	19	52	54	0	0	45	0.99
964898--964951	27	2.0	28	85	7	76	50	0	0	50	1.00
965579--965631	16	2.9	17	78	18	54	52	0	1	45	1.11
965796--965831	15	2.6	14	87	12	56	88	2	8	0	0.59
968218--968263	23	2.0	23	83	8	58	50	0	0	50	1.00
968275--968321	17	2.9	17	81	9	62	31	0	0	68	0.90
969118--969148	5	6.0	5	96	3	53	77	0	0	22	0.77
970384--970446	26	2.4	27	82	12	78	44	0	0	55	0.99
970380--970450	27	2.7	26	80	8	81	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
972264--972362	51	1.9	51	93	0	171	27	37	16	19	1.92
980381--980414	2	17.0	2	87	0	50	44	0	5	50	1.26
981981--982024	20	2.2	20	92	8	72	54	0	4	40	1.21
982059--982126	33	2.1	33	84	13	88	36	1	2	58	1.22
982059--982140	33	2.5	33	77	16	82	40	1	2	56	1.20
982171--982247	22	3.3	23	79	16	72	36	3	2	57	1.31
982161--982246	12	7.6	11	69	17	52	37	3	2	56	1.29
982228--982271	23	1.9	23	81	9	54	34	2	9	54	1.44
982599--982629	16	1.9	16	93	0	53	51	0	0	48	1.00
985803--985836	8	4.4	8	85	7	52	61	2	23	11	1.43
988155--988196	2	21.0	2	100	0	84	50	0	0	50	1.00
988688--988716	2	14.5	2	100	0	58	51	0	0	48	1.00
988853--988903	19	2.7	19	75	16	52	68	0	0	31	0.90
988855--988910	21	2.7	22	78	18	66	67	1	0	30	1.01
988857--988902	11	4.4	11	76	20	53	69	0	0	30	0.89
988855--988903	18	2.5	20	80	12	57	71	0	0	28	0.86
989352--989399	3	16.0	3	100	0	96	33	0	0	66	0.92
989744--989782	2	19.0	2	94	5	69	48	2	0	48	1.15
991218--991259	21	2.0	21	81	9	50	16	23	9	50	1.75
997479--997503	9	2.8	9	100	0	50	12	0	0	88	0.53
998205--998234	2	15.0	2	100	0	60	0	0	50	50	1.00
1002841--1002879	20	1.9	21	89	5	62	64	2	25	7	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005908--1005953	15	3.1	15	71	22	51	65	0	13	21	1.26
1006366--1006402	14	2.6	14	86	0	56	59	2	0	37	1.12
1014136--1014169	2	17.0	2	88	11	52	50	2	0	47	1.16
1014796--1014835	6	6.7	6	94	0	71	0	0	32	67	0.91
1015199--1015247	25	2.0	25	88	4	73	38	0	0	61	0.96
1015218--1015289	38	1.9	37	83	10	94	41	0	0	58	0.98
1015715--1015836	50	2.4	51	85	9	162	40	5	2	51	1.39
1016042--1016080	20	2.1	18	90	9	60	48	2	5	43	1.38
1019119--1019156	18	2.1	19	85	5	51	76	2	0	21	0.91
1028775--1028823	18	2.9	18	75	19	52	51	0	0	48	1.00
1030011--1030048	19	2.0	19	89	0	58	47	0	0	52	1.00
1030902--1030943	14	2.8	15	82	10	59	50	0	0	50	1.00
1033373--1033406	2	17.0	2	93	0	59	50	2	47	0	1.16
1035182--1035271	44	2.0	44	95	0	162	52	10	15	22	1.72
1037464--1037602	71	2.0	67	83	6	172	56	3	12	27	1.52
1040677--1040748	30	2.3	30	78	9	72	55	0	1	43	1.08
1041575--1041602	2	14.0	2	100	0	56	50	0	0	50	1.00
1043653--1043697	21	2.1	21	88	8	65	48	2	0	48	1.13
1043775--1043824	23	2.2	23	82	13	59	44	0	0	56	0.99
1046917--1046955	18	2.1	19	85	4	53	64	0	0	35	0.94
1052479--1052514	2	18.5	2	88	5	56	52	0	0	47	1.00
1052726--1052764	21	1.9	20	84	5	51	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053022--1053061	9	4.4	9	96	0	71	47	0	0	52	1.00
1053019--1053059	5	8.8	5	82	15	52	46	0	0	53	1.00
1058839--1058873	17	1.9	19	88	11	56	37	0	0	62	0.95
1058831--1058898	13	4.9	14	75	21	63	39	0	0	60	0.97
1061914--1061950	14	2.5	15	83	16	51	40	0	0	59	0.97
1062614--1062647	13	2.6	13	85	0	50	47	0	0	52	1.00
1062620--1062651	13	2.3	15	89	10	50	50	0	0	50	1.00
1063452--1063481	2	15.0	2	92	0	51	0	46	3	50	1.18
1067635--1067671	16	2.4	16	86	13	51	37	0	2	59	1.12
1074677--1074706	2	15.0	2	100	0	60	50	0	0	50	1.00

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