genome.fa.s48.2.7.7.80.10.50.1000.7.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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   

This is table  7  of  27  ( 3212 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)
843063--843142	33	2.5	32	79	8	99	48	10	12	28	1.73
859128--859206	16	4.9	16	78	7	79	34	1	7	56	1.35
859823--859872	5	9.0	5	83	16	55	42	4	0	54	1.19
860216--860250	10	3.5	10	88	0	52	31	20	8	40	1.82
864826--864850	4	6.2	4	100	0	50	76	0	0	24	0.80
865168--865204	2	18.5	2	100	0	74	51	0	48	0	1.00
868605--868669	18	3.4	18	71	19	60	16	18	10	53	1.71
868670--868726	12	4.5	12	77	12	60	68	1	0	29	1.00
869433--869485	21	2.5	20	77	14	54	41	0	0	58	0.98
877048--877096	20	2.5	20	93	3	82	28	12	4	55	1.55
878344--878370	2	13.5	2	100	0	54	51	0	0	48	1.00
878471--878513	19	2.4	17	85	11	59	34	0	4	60	1.17
878471--878512	18	2.3	18	88	8	59	33	0	4	61	1.17
878548--878626	16	4.9	16	79	1	86	37	2	3	55	1.31
879003--879046	3	14.7	3	100	0	88	31	0	0	68	0.90
879266--879315	5	9.0	5	83	16	55	42	4	0	54	1.19
879659--879693	10	3.5	10	88	0	52	31	20	8	40	1.82
884591--884625	2	17.5	2	93	0	61	45	2	51	0	1.16
890393--890492	47	2.1	47	98	0	191	24	12	26	38	1.90
897540--897600	20	3.1	20	79	11	56	40	0	4	54	1.22
897861--897901	19	2.2	19	86	8	57	43	2	0	53	1.13
898024--898063	19	2.1	19	86	9	55	52	0	2	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
898257--898299	22	2.0	22	86	4	61	58	2	0	39	1.11
899822--899876	28	2.0	28	85	7	76	47	1	1	49	1.23
900361--900404	21	2.1	21	87	8	63	40	0	2	56	1.11
901279--901337	22	2.7	22	75	10	59	55	0	5	38	1.22
901422--901471	22	2.3	21	83	10	64	54	2	0	44	1.11
901994--902035	10	4.3	10	78	6	50	42	0	0	57	0.99
901985--902065	17	5.1	17	66	28	54	40	2	0	56	1.12
902031--902072	17	2.3	18	80	8	50	45	2	0	52	1.13
902142--902175	12	2.8	12	86	0	50	58	0	0	41	0.98
904791--904841	2	26.0	2	96	4	95	0	49	0	50	1.00
907327--907354	2	14.0	2	100	0	56	50	0	0	50	1.00
908154--908197	23	1.9	23	85	0	61	43	0	0	56	0.99
909150--909198	25	2.0	25	87	0	71	44	8	0	46	1.33
909935--909994	26	2.3	25	80	11	75	51	0	0	48	1.00
909940--909991	26	1.9	26	88	7	77	51	0	0	48	1.00
909935--909998	27	2.4	28	82	10	80	53	0	0	46	1.00
910964--910992	2	14.5	2	100	0	58	51	0	0	48	1.00
916135--916160	2	13.0	2	100	0	52	50	0	50	0	1.00
917475--917512	19	2.0	19	85	10	51	50	0	5	44	1.24
926258--926295	17	2.1	19	85	9	53	57	0	0	42	0.98
926845--926876	16	2.0	16	93	0	55	53	0	0	46	1.00
926967--926999	16	2.1	16	88	5	50	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937759--937805	21	2.2	21	80	0	58	12	31	4	51	1.59
943844--943881	19	2.0	19	85	10	51	31	0	5	63	1.17
945281--945305	13	1.9	13	100	0	50	48	0	0	52	1.00
946811--946848	5	7.6	5	90	0	58	34	0	2	63	1.09
952113--952180	6	11.2	6	71	25	54	61	0	0	38	0.96
952077--952168	46	2.0	44	84	12	116	57	0	2	40	1.11
952099--952178	10	8.6	9	74	22	60	58	0	0	41	0.98
952113--952180	21	3.3	21	76	9	70	61	0	0	38	0.96
952099--952182	29	3.1	28	76	17	88	59	0	0	40	0.97
952707--952751	14	3.2	15	78	15	51	51	0	0	48	1.00
952844--952902	16	3.4	16	74	21	57	38	0	1	59	1.08
952796--952883	19	4.7	20	65	29	52	40	1	1	56	1.14
952800--952922	30	4.3	27	67	23	65	39	0	1	58	1.14
953078--953117	3	13.3	3	100	0	80	67	0	0	32	0.91
953105--953163	26	2.2	27	79	14	68	54	1	0	44	1.10
953377--953428	19	2.7	19	72	0	59	34	3	0	61	1.14
954134--954213	42	1.9	42	81	0	97	36	3	6	53	1.44
954134--954224	21	4.3	21	77	1	83	36	4	6	52	1.47
955556--955597	2	21.0	2	100	0	84	50	0	0	50	1.00
956099--956135	2	19.0	2	94	5	67	48	0	0	51	1.00
956326--956361	16	2.2	17	90	5	56	55	2	8	33	1.44
956426--956470	18	2.6	17	80	13	56	68	0	2	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957621--957682	19	3.0	20	82	15	58	38	0	0	61	0.96
961312--961343	2	16.0	2	93	0	55	46	0	0	53	1.00
961390--961438	16	3.2	16	77	16	59	61	2	0	36	1.08
961374--961433	29	2.1	29	93	0	102	61	5	0	33	1.17
964496--964593	49	2.0	49	93	0	169	40	7	18	33	1.78
966779--966873	24	4.0	24	73	16	92	41	1	0	57	1.05
966749--966868	47	2.5	48	81	16	128	42	1	0	55	1.09
966768--966879	14	7.6	16	77	15	93	41	0	0	58	1.04
972560--972608	23	2.1	23	88	0	71	22	10	28	38	1.87
976722--976770	21	2.4	21	86	3	64	46	0	0	53	1.00
976905--976961	21	2.7	21	94	0	96	45	1	0	52	1.11
976941--976974	15	2.3	15	84	0	50	47	2	0	50	1.16
982170--982262	5	17.6	5	69	10	51	64	0	4	31	1.13
982130--982219	21	4.3	21	76	6	67	61	1	2	35	1.16
982170--982261	11	8.7	10	75	9	76	64	0	4	31	1.13
985218--985274	16	3.7	16	84	11	66	52	0	0	47	1.00
985453--985493	15	2.8	15	85	3	57	56	0	0	43	0.99
985481--985590	5	22.2	5	69	15	59	61	0	0	38	0.96
985481--985590	32	3.6	31	77	18	115	61	0	0	38	0.96
985487--985593	18	6.5	17	69	24	70	61	0	0	38	0.96
985485--985593	16	7.0	16	69	16	86	62	0	0	37	0.96
986522--986599	40	1.9	40	84	10	104	48	0	1	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986670--986733	21	3.0	21	77	11	76	56	0	0	43	0.99
986676--986743	21	3.2	20	74	17	57	51	1	0	47	1.09
986831--986881	17	3.2	16	86	13	70	52	0	0	47	1.00
986831--986911	17	5.0	17	71	23	59	56	0	1	41	1.07
986839--986907	31	2.2	31	85	12	88	57	0	1	40	1.07
986888--986927	18	2.2	18	86	0	53	70	2	0	27	1.01
986854--986930	33	2.5	30	77	12	75	59	1	1	37	1.14
987083--987180	28	3.3	29	76	13	76	63	0	1	35	1.02
987083--987180	29	3.3	29	78	13	85	63	0	1	35	1.02
987302--987360	27	2.2	26	80	14	66	44	0	0	55	0.99
993686--993752	25	2.7	25	77	9	66	40	1	0	58	1.07
996279--996323	21	2.1	22	87	4	65	53	0	0	46	1.00
998413--998484	25	3.1	23	75	9	65	44	0	0	55	0.99
998428--998497	25	2.8	24	80	8	77	45	0	0	54	0.99
1004886--1004937	16	3.3	15	81	10	59	71	0	0	28	0.87
1004886--1004940	19	3.1	19	78	19	64	69	0	0	30	0.89
1004872--1004948	28	2.7	29	79	13	81	66	0	0	33	0.92
1004929--1004978	25	2.0	24	88	3	73	52	4	0	44	1.20
1005014--1005051	19	2.0	19	85	10	51	55	0	0	44	0.99
1005008--1005064	29	2.0	29	86	10	82	56	0	0	43	0.99
1005008--1005067	30	2.0	29	84	9	77	56	0	0	43	0.99
1014000--1014035	6	5.8	6	93	6	63	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014000--1014032	13	2.6	13	95	4	59	69	0	0	30	0.88
1013995--1014035	19	2.1	20	95	4	75	65	0	0	34	0.93
1014041--1014072	14	2.4	13	94	5	55	56	0	0	43	0.99
1014504--1014566	32	2.1	29	85	14	83	53	0	0	46	1.00
1015487--1015521	16	2.1	17	89	5	54	28	2	0	68	1.04
1016964--1016995	2	16.0	2	100	0	64	50	0	50	0	1.00
1020438--1020475	20	1.9	20	94	0	67	55	5	0	39	1.23
1020968--1021026	30	1.9	31	82	6	75	55	0	0	44	0.99
1021830--1021889	30	2.0	30	83	6	77	63	0	1	35	1.05
1021828--1021890	24	2.6	25	70	10	58	63	0	1	34	1.04

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