genome.fa.s38.2.7.7.80.10.50.1000.7.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: Scaffold38
Parameters: 2 7 7 80 10 50 1000
Length:  2073527

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

This is table  7  of  15  ( 1750 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)
923707--923780	16	4.4	16	80	14	87	58	0	0	41	0.98
923685--923780	16	5.6	18	76	21	82	56	0	2	41	1.11
926718--926790	29	2.5	29	76	8	76	41	9	2	46	1.51
928216--928277	28	2.2	29	85	8	83	37	1	3	58	1.24
928331--928364	2	17.0	2	100	0	68	50	0	0	50	1.00
931784--931808	13	1.9	13	100	0	50	88	0	12	0	0.53
935550--935575	13	2.0	13	100	0	52	30	15	15	38	1.88
935529--935594	33	2.0	34	87	3	98	27	13	16	42	1.86
936221--936301	39	2.0	40	83	6	103	33	23	6	37	1.80
938126--938163	13	2.9	13	96	0	67	31	15	18	34	1.92
942076--942120	21	2.1	21	84	8	56	22	20	4	53	1.63
944350--944375	13	2.0	13	100	0	52	30	15	15	38	1.88
944329--944394	33	2.0	34	87	3	98	27	13	16	42	1.86
945101--945293	92	2.1	92	82	3	237	44	6	14	34	1.72
946201--946264	32	2.0	32	93	0	110	32	17	17	32	1.93
947892--947959	27	2.4	27	90	4	109	45	8	1	44	1.44
949810--949866	21	2.8	21	83	2	71	33	10	12	43	1.76
955649--955675	13	2.1	13	100	0	54	29	14	14	40	1.86
955629--955693	32	2.0	33	93	3	114	32	12	16	38	1.86
969321--969424	7	14.1	7	79	11	86	81	15	1	0	0.83
969326--969396	1	71.0	1	74	0	61	87	9	2	0	0.65
969321--969425	8	12.9	8	78	15	108	81	15	1	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969321--969410	15	6.3	14	81	13	87	83	13	2	1	0.80
969321--969425	49	2.1	48	83	10	124	81	15	1	0	0.82
969326--969425	34	3.0	34	82	10	100	83	15	2	0	0.75
970885--971040	34	4.5	36	81	9	180	19	32	12	35	1.89
970883--971040	69	2.3	69	83	3	210	20	32	12	35	1.89
971030--971163	63	2.1	63	89	6	202	29	34	18	17	1.94
971030--971163	31	4.3	32	85	6	186	29	34	18	17	1.94
973672--973738	20	3.7	20	70	25	76	31	11	19	37	1.88
973672--973769	33	3.0	33	93	1	171	31	12	18	37	1.88
973797--973842	20	2.3	20	100	0	92	26	19	15	39	1.91
977210--977286	20	3.9	19	80	8	91	41	12	14	31	1.83
982569--983136	284	2.0	284	96	0	1037	33	23	14	28	1.94
984774--984808	8	4.1	9	92	7	56	42	0	0	57	0.99
984754--984808	27	2.1	25	83	6	65	41	1	1	54	1.21
985752--985793	17	2.5	18	77	14	54	38	2	0	59	1.10
985801--985855	20	2.6	22	77	11	62	38	0	3	58	1.16
985896--985936	20	2.0	22	85	9	59	34	7	2	56	1.40
988075--988128	20	2.7	20	85	5	74	33	20	12	33	1.91
988209--988262	20	2.7	20	97	0	99	46	14	12	25	1.81
991000--991043	23	2.1	20	84	16	54	27	9	15	47	1.76
994352--994403	20	2.6	20	90	0	86	42	13	15	28	1.85
997981--998031	20	2.5	20	87	9	68	27	17	13	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999005--999089	40	2.1	40	93	0	143	47	5	27	20	1.73
999296--999484	67	2.9	63	75	8	173	46	11	22	19	1.82
1000306--1000358	20	2.6	21	78	6	63	37	11	18	32	1.87
1010423--1010677	79	3.2	79	84	3	282	30	15	29	24	1.95
1013051--1013076	13	2.0	13	100	0	52	38	15	15	30	1.88
1013128--1013179	21	2.6	21	87	6	72	32	13	13	40	1.83
1013747--1013848	42	2.4	41	82	8	107	45	11	26	16	1.82
1013864--1014066	61	3.3	62	90	1	329	26	21	27	24	1.99
1016477--1016552	20	3.8	20	81	10	91	27	14	14	43	1.84
1018839--1019016	51	3.5	51	83	3	191	29	25	10	35	1.88
1018952--1019337	79	4.9	79	84	4	460	26	25	14	33	1.94
1025440--1025959	62	8.4	62	85	5	680	24	28	20	27	1.99
1025435--1025959	120	4.3	123	89	3	720	24	28	20	27	1.99
1025935--1026211	43	6.3	43	78	10	247	21	29	12	36	1.90
1026019--1026169	46	3.3	46	80	8	132	21	27	12	37	1.90
1025933--1026247	43	7.2	45	80	11	246	20	28	12	38	1.89
1026985--1027009	13	1.9	13	100	0	50	36	16	16	32	1.90
1027027--1027120	20	4.7	20	88	5	120	28	17	12	41	1.86
1029210--1029376	51	3.3	50	79	5	174	30	25	11	32	1.91
1029312--1029721	79	5.2	79	81	5	454	26	25	15	31	1.96
1029315--1029721	158	2.6	154	82	4	510	26	26	14	32	1.95
1034303--1034357	8	6.8	8	76	12	58	81	14	1	1	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034304--1034357	9	5.8	9	77	14	56	83	12	1	1	0.81
1035613--1036378	28	26.7	28	80	10	671	29	30	17	22	1.96
1035619--1036378	57	13.2	56	83	6	821	29	30	17	22	1.96
1036244--1036383	30	4.8	30	81	9	116	31	34	15	19	1.92
1037290--1037366	20	3.8	20	80	0	100	33	14	10	41	1.80
1037239--1037414	91	1.9	91	87	2	255	30	17	11	40	1.85
1041776--1041800	13	1.9	13	100	0	50	36	16	16	32	1.90
1043012--1043439	165	2.6	165	81	5	456	30	10	10	48	1.71
1047002--1047081	31	2.6	31	91	0	133	18	15	27	38	1.91
1048152--1048214	32	2.0	32	83	0	81	31	15	26	25	1.96
1048202--1048550	41	8.5	42	78	7	142	41	13	24	20	1.88
1048244--1048736	41	11.9	41	77	10	296	41	13	24	20	1.88
1048363--1048747	86	4.7	81	74	10	309	41	14	24	20	1.89
1048293--1048732	166	2.7	163	83	6	525	42	13	25	18	1.87
1048574--1048680	37	2.9	38	73	9	103	42	15	23	18	1.89
1048826--1049894	62	17.3	62	87	1	1455	31	19	25	23	1.98
1054370--1054423	27	2.0	27	100	0	108	29	25	7	37	1.83
1056020--1056459	79	5.6	79	79	6	385	35	12	24	27	1.92
1056056--1056457	157	2.6	158	84	2	495	34	13	24	27	1.93
1056063--1056455	79	5.0	79	81	4	409	34	12	24	28	1.92
1056393--1056510	51	2.3	51	89	0	173	30	14	25	29	1.95
1056313--1056588	130	2.1	130	85	0	365	32	13	24	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056443--1056824	79	4.8	79	82	4	423	32	14	26	26	1.94
1056155--1056747	287	2.1	288	83	4	752	32	13	25	27	1.94
1056234--1056667	208	2.1	208	84	5	574	33	14	24	28	1.94
1056443--1056824	158	2.4	157	86	3	507	32	14	26	26	1.94
1059122--1059192	20	3.5	20	88	0	88	42	14	15	28	1.86
1061869--1061894	13	2.0	13	100	0	52	38	15	15	30	1.88
1061851--1061914	32	2.0	33	90	3	103	39	18	14	28	1.90
1062351--1062417	37	1.9	35	88	11	102	32	11	25	29	1.92
1065536--1065560	13	1.9	13	100	0	50	36	16	16	32	1.90
1066752--1066828	38	2.0	39	82	7	95	35	5	23	36	1.77
1067463--1067488	13	2.0	13	100	0	52	38	15	15	30	1.88
1067445--1067508	32	2.0	33	90	3	103	39	18	14	28	1.90
1067945--1068011	37	1.9	35	88	11	102	32	11	25	29	1.92
1068268--1069360	164	6.8	162	78	9	947	40	12	10	37	1.77
1068262--1069361	160	6.9	159	79	7	1043	40	12	10	37	1.77
1069425--1069484	28	2.1	29	81	9	70	38	20	0	41	1.52
1070813--1071278	169	2.8	163	85	6	634	52	9	10	28	1.65
1070814--1071393	167	3.5	165	81	8	495	51	8	10	29	1.66
1072302--1072481	42	4.3	42	76	12	165	36	20	26	17	1.94
1072554--1072815	42	6.3	42	74	6	201	37	15	24	22	1.93
1072543--1072790	125	2.0	126	82	7	308	37	15	25	22	1.93
1072682--1072855	84	2.1	84	80	8	194	37	15	27	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072577--1072814	125	1.9	125	82	6	302	37	15	26	21	1.92
1072709--1072855	42	3.5	42	78	3	127	40	14	25	19	1.89
1073091--1073130	19	2.2	19	90	4	64	17	15	0	67	1.23
1074119--1074235	56	2.1	58	83	4	150	15	15	13	55	1.69
1088044--1088119	12	6.9	11	75	15	52	39	2	48	9	1.49
1088043--1088128	24	3.8	24	72	17	85	41	2	45	10	1.51
1088034--1088152	42	2.8	42	90	0	184	43	2	45	8	1.47
1098257--1098311	20	2.7	21	80	2	67	36	0	0	63	0.95
1098265--1098317	26	2.1	26	86	10	74	39	0	0	60	0.97
1098851--1098908	30	1.9	31	85	3	82	36	6	0	56	1.26

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