genome.fa.s125.2.7.7.80.10.50.1000.7.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  7  of  18  ( 2131 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)
987289--987338	14	3.5	14	75	5	55	64	4	0	32	1.12
987765--987798	2	17.0	2	100	0	68	50	0	0	50	1.00
988999--989026	3	9.3	3	100	0	56	67	0	0	32	0.91
990128--990182	28	2.0	28	82	13	69	36	0	0	63	0.95
990162--990191	15	2.1	15	93	6	53	40	0	0	60	0.97
990174--990227	18	2.9	19	73	15	58	48	0	0	51	1.00
990149--990238	35	2.5	36	82	10	105	44	0	0	55	0.99
990389--990428	18	2.3	17	86	4	53	32	0	2	65	1.06
991048--991089	13	3.2	13	75	24	52	35	0	0	64	0.94
991048--991098	26	2.0	25	92	3	84	35	0	0	64	0.94
991480--991542	19	3.3	19	73	8	56	47	0	1	50	1.10
991837--991896	6	10.0	6	96	0	102	46	33	20	0	1.51
998047--998092	18	2.6	17	86	6	65	73	0	0	26	0.83
998047--998092	9	5.1	9	81	7	58	73	0	0	26	0.83
998043--998093	16	3.1	16	75	22	52	68	0	0	31	0.90
1001852--1001906	27	2.0	27	85	0	74	43	25	7	23	1.79
1005022--1005095	29	2.6	29	83	10	82	40	0	0	59	0.97
1005039--1005097	23	2.6	22	77	12	66	40	0	0	59	0.97
1005124--1005213	41	2.2	42	79	15	100	46	0	1	52	1.07
1005887--1005920	17	2.1	17	88	5	52	61	2	2	32	1.26
1006086--1006116	11	2.8	11	95	0	53	67	0	0	32	0.91
1009686--1009720	17	2.1	17	88	0	52	31	8	37	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009799--1009835	2	18.5	2	100	0	74	0	48	0	51	1.00
1014268--1014299	3	10.7	3	100	0	64	31	0	0	68	0.90
1014688--1014720	6	5.5	6	92	0	57	33	12	36	18	1.88
1017844--1017892	14	3.3	15	81	13	57	67	0	0	32	0.91
1017861--1017902	22	2.0	22	86	13	61	64	0	0	35	0.94
1022326--1022358	14	2.4	14	94	0	57	54	0	18	27	1.44
1027706--1027742	2	18.5	2	94	0	65	51	2	0	45	1.15
1028333--1028369	6	6.2	6	100	0	74	16	35	48	0	1.46
1028551--1028623	36	2.0	36	97	0	137	38	9	16	35	1.81
1045371--1045410	18	2.2	19	90	4	64	32	0	0	67	0.91
1045987--1046022	16	2.2	16	100	0	72	50	0	0	50	1.00
1046420--1046473	17	3.0	18	84	10	58	70	0	0	29	0.88
1046442--1046525	16	4.9	18	68	24	56	64	0	1	34	1.02
1046481--1046534	22	2.5	21	82	11	65	66	0	0	33	0.92
1048410--1048450	16	2.5	17	88	4	57	58	0	0	41	0.98
1048863--1048921	27	2.2	27	82	11	68	37	6	0	55	1.26
1048962--1049017	27	2.0	27	82	10	67	57	7	3	32	1.43
1050612--1050646	18	2.0	17	94	5	61	57	2	0	40	1.14
1050705--1050738	2	17.0	2	100	0	68	50	0	0	50	1.00
1050999--1051031	14	2.4	14	94	0	57	39	0	0	60	0.97
1051036--1051068	17	2.0	17	88	5	50	57	0	0	42	0.98
1051120--1051161	15	2.8	16	82	13	54	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051128--1051163	11	3.4	10	88	11	54	25	0	0	75	0.81
1051124--1051162	11	3.5	11	86	13	53	25	0	0	74	0.82
1052166--1052212	24	2.0	24	83	8	60	40	0	0	59	0.97
1052234--1052274	15	2.9	14	86	10	57	70	4	0	24	1.06
1053673--1053774	43	2.4	41	77	16	102	36	3	0	58	1.23
1053993--1054052	11	5.5	11	80	9	70	63	1	1	33	1.14
1053993--1054052	16	3.8	16	72	14	52	63	1	1	33	1.14
1056676--1056715	20	2.0	20	86	13	57	32	0	0	67	0.91
1057260--1057298	17	2.3	17	86	0	51	82	2	7	7	0.94
1062468--1062497	2	15.0	2	100	0	60	0	50	0	50	1.00
1065579--1065616	16	2.4	16	90	0	58	44	0	0	55	0.99
1070423--1070522	49	2.0	49	98	0	191	22	21	9	48	1.77
1071853--1072859	501	2.0	501	99	0	2005	31	19	25	22	1.98
1077947--1077975	9	3.3	9	95	4	51	31	0	0	68	0.89
1080355--1080390	2	18.0	2	100	0	72	50	0	0	50	1.00
1081352--1081426	6	12.7	6	71	18	59	29	0	4	66	1.09
1081351--1081383	11	2.9	11	95	4	57	27	0	0	72	0.85
1083123--1083206	12	7.0	12	72	9	55	30	3	1	64	1.18
1083418--1083476	22	2.6	25	71	20	65	30	3	3	62	1.28
1086296--1086367	30	2.5	29	76	14	78	52	1	0	45	1.09
1087609--1087669	32	1.9	32	83	6	79	59	3	0	37	1.14
1092681--1092727	3	15.3	3	95	4	85	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093161--1093249	44	2.0	44	95	0	160	31	16	11	40	1.84
1095092--1095152	26	2.4	25	76	10	70	54	8	0	37	1.31
1095885--1095926	21	2.0	20	86	4	57	38	0	2	59	1.10
1096566--1096594	2	15.0	2	92	7	51	48	0	0	51	1.00
1097742--1097785	2	22.0	2	100	0	88	50	0	0	50	1.00
1106448--1106538	45	2.0	45	100	0	182	31	19	10	37	1.87
1107655--1107688	17	2.0	17	100	0	68	35	11	17	35	1.87
1113024--1113053	2	15.0	2	92	0	51	50	3	0	46	1.18
1114491--1114531	20	2.2	18	86	8	55	43	4	0	51	1.23
1117931--1117966	3	12.0	3	100	0	72	33	0	0	66	0.92
1120459--1120489	2	15.5	2	93	0	53	48	0	3	48	1.17
1122651--1122719	23	3.0	23	71	16	61	53	0	0	46	1.00
1123472--1123544	32	2.2	32	81	9	85	53	2	1	42	1.23
1126318--1126348	2	16.0	2	93	6	55	51	0	0	48	1.00
1127496--1127529	17	2.0	17	88	11	52	35	0	0	64	0.94
1128053--1128086	15	2.2	16	89	5	52	32	0	0	67	0.91
1128030--1128088	27	2.2	27	84	6	75	38	0	0	61	0.96
1128379--1128423	19	2.4	19	80	0	54	66	0	0	33	0.92
1128342--1128422	10	8.7	10	74	18	61	60	0	1	38	1.05
1128388--1128441	20	2.8	20	82	2	56	53	0	1	44	1.11
1128761--1128798	2	19.0	2	100	0	76	50	0	0	50	1.00
1129443--1129486	11	4.2	11	77	11	56	50	20	6	22	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129539--1129607	10	6.8	10	74	12	52	44	0	0	55	0.99
1129632--1129670	20	1.9	21	84	5	53	58	0	0	41	0.98
1146422--1146471	18	2.8	17	85	8	64	46	0	2	52	1.12
1146404--1146469	25	2.7	25	81	9	82	42	1	4	51	1.31
1146696--1146762	23	2.8	24	73	8	64	52	2	1	43	1.25
1150049--1150246	98	2.0	98	99	0	387	50	14	18	16	1.78
1150988--1151014	6	4.5	6	100	0	54	37	14	14	33	1.88
1158430--1158472	23	2.0	21	82	13	52	27	11	0	60	1.31
1160002--1160033	16	1.9	17	93	6	57	56	3	0	40	1.15
1160329--1160381	21	2.5	21	78	0	61	50	0	0	49	1.00
1160324--1160370	16	2.9	16	78	6	51	46	0	2	51	1.13
1161183--1161262	29	2.7	29	80	7	72	58	6	0	35	1.23
1161748--1161779	2	16.0	2	100	0	64	50	0	0	50	1.00
1162158--1162182	2	12.5	2	100	0	50	48	0	0	52	1.00
1164754--1164781	3	9.3	3	100	0	56	32	0	35	32	1.58
1166553--1166594	2	21.0	2	100	0	84	0	50	0	50	1.00
1169659--1169686	2	14.0	2	100	0	56	50	0	0	50	1.00
1170169--1170229	28	2.2	28	82	5	70	44	11	1	42	1.50
1172229--1172337	55	2.0	55	98	0	209	19	27	2	50	1.61
1172968--1173009	21	2.0	22	85	4	59	38	2	2	57	1.25
1173731--1173755	6	4.2	6	100	0	50	16	0	0	84	0.63
1176415--1176461	24	2.1	21	85	14	60	46	12	4	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176583--1176625	23	1.9	22	90	4	68	41	0	0	58	0.98
1177237--1177279	22	2.0	21	86	9	59	48	6	6	37	1.57
1179143--1179181	19	2.1	19	85	9	53	58	0	0	41	0.98
1180707--1180743	18	2.1	18	90	10	58	35	0	5	59	1.20
1180711--1180751	19	2.2	19	86	8	57	36	0	4	58	1.20
1181470--1181514	19	2.3	20	80	3	56	46	0	0	53	1.00
1182059--1182097	2	19.5	2	100	0	78	48	0	0	51	1.00
1182433--1182457	3	8.3	3	100	0	50	32	0	32	36	1.58
1187275--1187318	19	2.5	17	78	10	52	45	0	0	54	0.99
1187672--1187704	17	1.9	17	93	0	57	36	0	0	63	0.95

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