genome.fa.s401.2.7.7.80.10.50.1000.8.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

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

This is table  8  of  13  ( 1464 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)
1074700--1074764	10	6.3	10	75	12	60	58	1	0	40	1.07
1074684--1074764	41	2.0	41	87	4	119	58	1	0	40	1.06
1074697--1074796	41	2.5	38	80	16	96	57	3	1	39	1.21
1075377--1075435	16	3.6	17	77	6	59	66	0	0	33	0.92
1075371--1075426	19	2.9	19	71	12	51	69	0	0	30	0.89
1075389--1075444	17	3.1	17	73	17	51	62	0	0	37	0.95
1075472--1075516	16	2.6	18	77	19	51	64	0	0	35	0.94
1075651--1075706	26	2.2	26	100	0	112	16	41	7	35	1.75
1075796--1075837	19	2.2	20	86	4	59	35	0	2	61	1.09
1075858--1075899	16	2.4	18	88	7	61	61	0	2	35	1.09
1076685--1076727	17	2.6	16	82	14	52	46	0	0	53	1.00
1076728--1076770	19	2.3	19	84	8	52	44	0	0	55	0.99
1077916--1077958	12	3.5	12	84	6	59	23	0	0	76	0.78
1077916--1077959	13	3.5	13	90	6	65	25	0	0	75	0.81
1078808--1078854	3	15.7	3	100	0	94	31	0	0	68	0.90
1080487--1080933	221	2.0	221	99	0	885	35	12	13	37	1.84
1083168--1083200	16	2.0	17	88	5	50	18	0	12	69	1.18
1083914--1083951	18	2.1	18	100	0	76	52	5	5	36	1.47
1083969--1084012	22	1.9	23	81	9	54	47	0	4	47	1.22
1085851--1085883	16	2.0	17	88	5	50	36	9	0	54	1.32
1085978--1086052	19	4.3	17	74	14	64	45	0	0	54	0.99
1085978--1086015	16	2.4	16	86	13	60	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086006--1086063	19	2.9	19	73	17	55	50	0	0	50	1.00
1086188--1086260	32	2.3	32	88	2	103	61	2	0	35	1.10
1086213--1086263	20	2.5	20	90	6	77	64	0	0	35	0.94
1086238--1086270	15	2.1	16	88	5	50	66	0	0	33	0.92
1092398--1092434	2	18.5	2	100	0	74	48	0	0	51	1.00
1094165--1094786	78	7.9	78	87	3	836	26	18	25	30	1.97
1094165--1094786	240	2.6	234	85	5	872	26	18	25	30	1.97
1098663--1098687	2	12.5	2	100	0	50	52	0	0	48	1.00
1104686--1104723	18	2.2	18	85	4	51	65	0	0	34	0.93
1108416--1108500	36	2.4	36	78	7	93	47	0	1	51	1.08
1108725--1108845	19	6.4	19	67	17	56	54	0	0	44	1.05
1108739--1108855	59	2.0	59	80	12	136	54	0	0	44	1.05
1109395--1109427	11	2.9	12	82	17	52	57	0	0	42	0.98
1109431--1109479	24	2.0	24	88	0	71	42	0	0	57	0.99
1109393--1109480	24	4.1	22	71	20	60	51	0	0	48	1.00
1109431--1109493	24	2.7	22	78	7	63	39	1	0	58	1.07
1113330--1113359	2	15.0	2	92	0	51	46	0	3	50	1.18
1119314--1119472	82	1.9	82	98	0	309	41	19	16	22	1.90
1120857--1120889	15	2.2	15	94	0	57	42	3	0	54	1.15
1120865--1120910	15	3.0	15	87	3	56	54	0	0	45	0.99
1124382--1124421	17	2.5	17	84	8	57	42	0	0	57	0.98
1124395--1124451	18	3.2	18	81	13	66	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124409--1124455	25	2.0	25	87	8	71	38	0	0	61	0.96
1127198--1127229	12	2.7	12	95	0	55	43	0	0	56	0.99
1131363--1131390	13	2.2	13	100	0	56	35	0	7	57	1.26
1132179--1132264	41	2.1	41	84	2	109	58	1	0	40	1.06
1132185--1132319	9	15.6	9	70	17	72	50	1	0	47	1.15
1132244--1132300	27	2.0	29	86	6	82	42	1	1	54	1.21
1132882--1132913	3	10.7	3	93	0	55	65	3	0	31	1.08
1133157--1133203	15	3.0	15	82	11	58	38	0	0	61	0.96
1142712--1142835	48	2.5	46	75	13	106	47	0	0	50	1.12
1143079--1143131	26	2.1	25	82	3	61	58	0	0	41	0.98
1144047--1144115	20	3.5	19	72	18	52	57	4	0	37	1.18
1144779--1144845	32	2.1	33	85	2	91	26	28	19	25	1.99
1153063--1153114	19	2.7	20	79	11	54	40	0	0	59	0.97
1154423--1154465	13	3.4	13	83	3	61	51	0	4	44	1.22
1154440--1154468	7	4.3	7	91	8	51	51	0	0	48	1.00
1154491--1154527	16	2.4	15	90	4	56	59	0	0	40	0.97
1163455--1163488	2	17.0	2	100	0	68	50	0	0	50	1.00
1165070--1165123	2	28.5	2	89	10	87	0	48	0	51	1.00
1165561--1165586	2	13.0	2	100	0	52	0	50	0	50	1.00
1178973--1179000	14	2.0	14	100	0	56	35	0	0	64	0.94
1179054--1179084	3	10.3	3	100	0	62	32	0	0	67	0.91
1179932--1179986	19	2.8	20	75	8	58	34	12	14	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180614--1180647	3	11.3	3	100	0	68	35	0	0	64	0.94
1182479--1182509	3	10.3	3	100	0	62	67	0	0	32	0.91
1182733--1182805	17	4.6	17	69	20	68	54	1	0	43	1.08
1183126--1183173	17	2.9	17	82	11	55	54	0	0	45	0.99
1183168--1183256	26	3.4	28	76	17	91	38	1	0	60	1.04
1183178--1183249	35	2.0	36	81	7	85	34	1	0	63	1.03
1189102--1189254	79	1.9	79	89	0	234	33	9	18	37	1.83
1195739--1195781	22	1.9	23	85	4	61	67	0	4	27	1.10
1195739--1195780	23	1.9	22	85	9	59	66	0	4	28	1.12
1196533--1196566	2	17.0	2	93	0	59	47	0	2	50	1.16
1200756--1200792	2	18.5	2	94	0	65	51	0	2	45	1.15
1202753--1202800	23	2.0	24	88	11	73	25	2	2	70	1.09
1203155--1203194	19	2.0	20	85	4	55	67	2	0	30	1.04
1203905--1203989	19	4.3	19	75	14	66	40	0	1	58	1.05
1204025--1204071	23	2.0	23	83	8	58	36	0	0	63	0.94
1204035--1204080	23	2.0	24	86	4	67	32	2	0	65	1.05
1204066--1204103	19	2.0	19	90	10	60	36	5	0	57	1.21
1204440--1204464	3	8.3	3	100	0	50	32	0	0	68	0.90
1204628--1204690	22	2.9	21	72	19	58	60	0	0	39	0.97
1205279--1205326	18	2.6	18	83	9	53	52	2	0	45	1.12
1205910--1205979	27	2.8	25	77	10	79	55	0	0	44	0.99
1205950--1205989	18	2.2	19	90	4	64	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208207--1208255	13	3.8	13	80	0	53	46	0	2	51	1.12
1209934--1209958	4	6.2	4	100	0	50	24	0	24	52	1.48
1210502--1210542	21	2.0	21	85	9	57	68	0	2	29	1.03
1214042--1214102	20	3.0	20	76	9	61	63	0	0	36	0.94
1214279--1214316	2	19.0	2	100	0	76	50	0	0	50	1.00
1214773--1214819	21	2.2	21	85	11	60	44	23	4	27	1.72
1226630--1226949	157	2.0	159	90	2	509	27	14	21	37	1.92
1227036--1227077	20	2.1	20	86	8	59	35	0	0	64	0.94
1227095--1227134	21	2.0	21	85	14	57	35	2	0	62	1.09
1227190--1227266	37	2.1	38	80	7	86	35	2	1	61	1.18
1227205--1227266	19	3.3	19	84	6	74	33	1	0	64	1.03
1227223--1227276	19	2.7	19	86	11	65	33	1	0	64	1.04
1227221--1227309	24	3.7	24	75	20	78	30	2	1	66	1.11
1227385--1227440	21	2.7	21	73	15	62	25	0	5	69	1.09
1227392--1227433	11	3.8	11	81	9	50	21	0	4	73	1.01
1227610--1227660	22	2.3	21	81	15	59	35	1	0	62	1.06
1227736--1227777	11	3.7	11	81	12	50	80	0	19	0	0.70
1227735--1227775	21	1.9	22	90	5	66	78	0	21	0	0.76
1227737--1227778	14	2.8	15	82	10	59	80	0	19	0	0.70
1228736--1228810	36	2.0	38	84	7	100	54	5	2	37	1.37
1229507--1229554	23	2.2	23	85	7	64	31	0	2	66	1.03
1229868--1229910	16	2.6	17	82	10	54	55	0	2	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230615--1230644	14	2.1	14	93	0	51	46	0	3	50	1.18
1231154--1231219	12	5.3	12	73	7	51	43	0	0	56	0.99
1231160--1231222	32	1.9	33	83	3	83	46	0	0	53	1.00
1231166--1231218	26	2.0	26	85	0	70	45	0	0	54	0.99
1236374--1236429	29	1.9	29	82	7	69	39	0	0	60	0.97
1239880--1239926	24	2.0	24	100	0	94	34	0	8	57	1.29
1239962--1240005	17	2.4	18	85	14	56	68	0	4	27	1.09
1239977--1240017	17	2.4	17	80	19	50	63	0	4	31	1.15
1240658--1240731	6	11.7	6	71	21	53	59	1	1	37	1.14
1240644--1240731	28	3.1	28	70	23	76	59	1	2	37	1.18

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