genome.fa.s144.2.7.7.80.10.50.1000.8.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  8  of  21  ( 2468 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)
1007288--1007469	88	2.1	88	97	0	346	35	7	7	49	1.60
1013545--1013574	2	15.0	2	100	0	60	50	0	0	50	1.00
1013829--1013889	30	2.0	31	84	9	81	47	1	3	47	1.28
1013895--1013939	15	2.6	17	80	20	58	60	0	0	40	0.97
1013906--1013949	15	2.9	15	93	0	70	56	0	0	43	0.99
1013907--1013972	15	4.2	16	77	9	64	56	0	0	43	0.99
1013888--1013986	48	2.1	47	81	9	112	55	1	0	43	1.06
1014744--1014802	31	1.9	31	89	6	93	55	1	0	42	1.09
1014925--1014992	27	2.4	28	80	7	84	47	1	0	51	1.09
1014942--1014999	27	2.1	27	83	0	71	50	1	0	48	1.11
1015068--1015092	13	1.9	13	100	0	50	40	0	4	56	1.18
1015235--1015306	22	3.2	22	80	5	65	61	1	0	37	1.05
1015939--1016033	28	3.6	27	65	23	67	46	1	3	49	1.24
1017831--1017884	23	2.5	21	82	11	56	50	3	0	46	1.19
1019238--1019288	17	2.9	18	76	5	59	35	5	0	58	1.22
1025316--1025359	14	2.9	15	83	10	63	27	0	0	72	0.85
1026101--1026153	24	2.2	25	83	12	67	39	0	0	60	0.97
1026089--1026169	29	2.8	28	83	9	101	40	0	0	59	0.98
1026681--1026729	15	3.5	15	74	23	52	32	0	2	65	1.04
1028059--1028099	22	1.9	21	85	5	55	63	7	0	29	1.21
1029330--1029405	21	3.7	21	75	6	75	56	1	1	40	1.16
1029322--1029419	41	2.4	40	77	14	94	53	1	1	44	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029374--1029473	15	6.5	15	68	19	55	53	1	0	46	1.07
1029423--1029473	21	2.5	20	69	12	50	52	0	0	47	1.00
1032454--1032490	18	2.1	18	100	0	74	43	21	16	18	1.88
1040235--1040261	14	1.9	14	100	0	54	62	0	7	29	1.22
1041527--1041579	2	26.5	2	92	0	61	47	7	1	43	1.42
1046433--1046473	2	20.5	2	100	0	82	51	0	48	0	1.00
1046870--1046907	3	12.7	3	100	0	76	65	0	0	34	0.93
1046923--1046973	16	3.1	16	74	2	57	56	1	0	41	1.10
1049108--1049149	22	1.9	22	85	0	57	54	0	0	45	0.99
1049082--1049149	27	2.5	26	81	13	66	51	1	0	47	1.09
1049453--1049522	23	3.0	23	85	6	88	40	0	0	60	0.97
1050335--1050372	19	2.0	19	90	10	60	50	0	0	50	1.00
1050345--1050421	25	2.9	26	79	13	77	49	1	0	49	1.09
1050366--1050421	28	2.1	28	83	9	73	50	1	0	48	1.11
1051379--1051421	19	2.4	17	80	7	50	55	4	2	37	1.33
1051633--1051662	15	2.0	15	93	0	51	56	3	0	40	1.16
1059408--1059456	21	2.4	22	80	13	59	53	0	0	46	1.00
1061077--1061111	18	1.9	18	88	0	52	51	0	0	48	1.00
1061616--1061662	23	2.0	24	87	4	69	46	0	2	51	1.13
1061621--1061672	24	2.1	26	82	10	65	50	0	0	50	1.00
1061856--1061898	3	14.3	3	100	0	86	67	0	0	32	0.91
1066893--1066971	38	2.1	38	95	0	140	44	18	13	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068111--1068178	17	4.1	17	74	22	56	41	0	1	57	1.08
1068115--1068166	27	1.9	27	84	7	70	44	0	0	55	0.99
1068122--1068187	32	2.0	34	85	8	91	43	0	3	53	1.16
1069286--1069339	26	2.0	27	89	3	83	37	1	7	53	1.40
1070010--1070038	4	7.2	4	100	0	58	48	0	0	51	1.00
1070286--1070329	20	2.2	20	80	15	56	50	6	9	34	1.61
1073047--1073080	16	2.2	16	89	5	52	41	0	2	55	1.15
1074455--1074485	4	7.8	4	92	0	53	22	3	22	51	1.62
1074801--1074872	33	2.1	34	82	14	96	45	2	2	48	1.31
1076687--1076721	6	5.8	6	86	0	52	0	45	0	54	0.99
1079531--1079608	16	4.6	16	76	10	57	41	2	0	56	1.13
1079550--1079593	20	2.1	21	83	4	54	36	0	0	63	0.95
1079886--1079935	24	2.0	25	85	11	68	30	0	2	68	1.01
1080460--1080517	2	29.0	2	100	0	116	50	0	0	50	1.00
1083180--1083226	4	11.8	4	82	8	60	48	23	27	0	1.51
1084463--1084497	19	1.9	18	88	11	54	48	0	5	45	1.26
1084777--1084827	20	2.5	20	75	12	59	49	1	1	47	1.24
1085037--1085078	22	2.0	22	86	9	61	57	2	2	38	1.25
1091017--1091056	2	20.0	2	94	0	71	52	0	0	47	1.00
1092136--1092227	46	2.0	46	93	0	157	44	13	9	32	1.76
1092331--1092402	13	5.5	13	71	15	58	51	1	1	45	1.18
1095335--1095380	17	2.6	18	79	6	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098726--1098768	20	2.1	21	86	4	61	51	0	0	48	1.00
1098732--1098774	20	2.2	20	82	0	50	53	0	0	46	1.00
1100173--1100234	21	2.9	21	74	13	63	30	0	4	64	1.14
1100176--1100228	11	5.0	10	73	13	52	32	0	3	64	1.12
1100396--1100463	15	4.8	14	75	19	52	35	1	2	60	1.21
1100541--1100581	15	2.7	15	84	3	55	60	0	0	39	0.96
1100522--1100579	8	7.5	8	74	12	50	60	0	0	39	0.97
1106863--1107096	125	1.9	125	89	2	362	41	11	12	34	1.79
1112951--1112985	17	2.1	17	88	0	52	37	2	0	60	1.12
1115427--1115472	22	2.1	21	84	4	56	71	0	0	28	0.86
1121384--1121426	2	21.5	2	90	0	68	48	4	0	46	1.22
1123774--1123821	24	2.0	24	100	0	96	62	12	12	12	1.55
1132817--1132841	11	2.3	11	100	0	50	64	0	0	36	0.94
1132785--1132876	22	4.1	23	71	21	70	52	0	3	44	1.17
1139086--1139168	22	3.6	22	73	9	76	60	1	1	37	1.12
1140146--1140220	17	4.6	17	69	15	68	58	1	0	40	1.06
1140225--1140254	15	2.0	15	93	0	51	50	0	0	50	1.00
1140484--1140522	19	2.0	20	90	5	62	0	17	2	79	0.84
1142940--1142987	21	2.1	21	85	11	60	50	2	0	47	1.12
1143453--1143510	10	6.1	9	80	11	62	68	5	0	25	1.10
1143498--1143626	8	17.6	7	73	18	79	68	3	0	27	1.10
1143459--1143686	8	26.1	9	66	26	52	65	3	0	29	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143593--1143661	8	8.6	8	73	23	65	60	4	0	34	1.16
1143593--1143661	17	4.3	16	74	23	65	60	4	0	34	1.16
1143456--1143626	8	20.8	8	71	19	72	67	4	0	27	1.12
1143686--1143782	9	10.7	9	69	14	56	31	1	1	65	1.06
1143705--1143782	9	8.4	10	78	13	78	29	1	0	69	0.97
1143687--1143790	37	2.9	37	82	5	97	31	0	0	66	1.05
1143726--1143809	7	10.6	7	73	24	53	28	1	1	69	1.04
1143706--1143790	35	2.4	35	86	7	109	30	1	0	68	0.97
1143768--1143814	21	2.2	21	96	0	85	23	0	2	74	0.93
1143772--1143809	13	2.7	14	84	8	51	23	0	2	73	0.95
1144304--1144343	11	3.6	11	83	9	55	40	2	0	57	1.12
1144490--1144523	3	11.3	3	100	0	68	32	0	0	67	0.91
1145310--1145340	15	2.1	15	93	0	53	45	0	0	54	0.99
1145774--1145814	3	13.7	3	100	0	82	31	0	0	68	0.90
1145966--1146009	18	2.3	18	80	7	52	47	0	6	45	1.29
1147106--1147175	37	1.9	37	94	2	124	45	4	5	44	1.47
1147757--1147831	22	3.5	22	70	12	57	41	0	2	56	1.13
1149902--1150022	40	3.0	40	89	2	181	32	5	14	47	1.67
1153837--1153877	17	2.3	18	80	12	50	48	0	0	51	1.00
1154110--1154162	17	3.1	17	78	5	61	26	0	7	66	1.18
1154084--1154144	20	3.2	19	70	25	56	32	0	3	63	1.10
1154046--1154162	35	3.3	38	77	15	110	29	0	5	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154082--1154229	60	2.4	58	80	11	147	29	0	4	65	1.17
1154266--1154317	14	3.7	14	78	14	54	42	0	0	57	0.98
1154697--1154761	26	2.4	26	85	12	78	23	3	9	64	1.37
1155944--1155976	17	2.0	17	88	5	50	45	0	0	54	0.99
1156023--1156095	29	2.6	29	77	12	82	47	2	0	49	1.15
1156130--1156172	21	2.2	21	84	12	56	55	2	0	41	1.12
1156130--1156186	21	2.6	22	81	8	55	59	1	0	38	1.08
1156687--1156723	13	3.0	13	84	11	51	78	2	0	18	0.87
1157458--1157674	34	6.5	34	87	2	287	40	26	7	24	1.82
1157456--1157674	100	2.2	101	90	0	359	40	26	7	24	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21