genome.fa.s223.2.7.7.80.10.50.1000.6.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  6  of  26  ( 3021 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)
1031703--1031776	33	2.2	33	81	18	91	41	0	0	58	0.98
1031721--1031767	12	3.9	12	75	8	51	48	0	0	51	1.00
1032377--1032414	19	2.0	19	85	10	51	55	0	0	44	0.99
1035694--1035735	17	2.5	17	80	3	50	59	0	0	40	0.97
1035708--1035739	16	2.1	15	94	5	55	62	0	0	37	0.95
1036721--1036751	2	15.5	2	100	0	62	51	0	0	48	1.00
1039869--1039936	33	2.1	33	97	0	127	29	32	8	29	1.87
1040447--1040475	2	14.5	2	100	0	58	51	0	0	48	1.00
1045835--1045880	19	2.4	19	85	7	58	39	2	0	58	1.10
1045862--1045912	11	4.6	11	73	9	50	35	0	0	64	0.94
1045848--1045926	38	2.0	38	88	9	115	34	1	0	64	1.02
1046372--1046482	27	4.1	28	72	14	83	40	0	0	59	0.97
1047275--1047323	17	2.9	17	75	3	55	53	0	0	46	1.00
1047417--1047475	20	2.8	20	79	5	73	55	1	0	42	1.09
1047404--1047466	20	3.0	20	79	9	65	58	1	0	39	1.07
1047672--1047698	2	13.5	2	100	0	54	48	0	0	51	1.00
1047980--1048037	26	2.3	26	85	8	75	67	3	0	29	1.07
1047986--1048027	21	2.0	21	85	0	57	64	2	0	33	1.07
1048081--1048124	17	2.6	17	82	3	54	59	0	2	38	1.10
1048512--1048563	17	3.2	18	72	22	53	53	0	0	46	1.00
1048520--1048556	15	2.3	17	81	9	51	59	0	0	40	0.97
1049783--1049833	17	2.8	18	76	8	59	54	0	1	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061604--1061629	3	8.7	3	100	0	52	34	0	0	65	0.93
1067695--1067726	2	16.0	2	100	0	64	0	50	0	50	1.00
1068695--1068737	19	2.3	19	100	0	86	37	9	20	32	1.85
1073050--1073646	199	3.0	197	95	3	1049	33	17	19	29	1.95
1077066--1077103	2	19.0	2	88	0	58	44	0	5	50	1.24
1078262--1078433	86	2.0	86	95	0	308	45	20	11	23	1.83
1079746--1079783	20	1.9	20	88	0	58	39	2	23	34	1.69
1079950--1079979	2	15.0	2	100	0	60	50	0	0	50	1.00
1080505--1080684	90	2.0	90	100	0	360	33	17	17	31	1.94
1086014--1086049	15	2.4	15	90	0	54	47	16	33	2	1.61
1087514--1087603	30	3.1	29	79	9	76	47	0	3	48	1.18
1087553--1087630	30	2.6	30	80	8	77	56	1	1	41	1.15
1088159--1088194	6	6.0	6	86	0	54	44	0	2	52	1.15
1088160--1088195	18	1.9	19	94	5	65	41	0	2	55	1.14
1088879--1088907	2	14.5	2	100	0	58	48	0	0	51	1.00
1089019--1089251	80	2.9	80	93	0	394	41	7	10	39	1.69
1090510--1090543	2	17.0	2	93	0	59	50	2	0	47	1.16
1093332--1093382	21	2.2	25	83	13	65	49	3	0	47	1.20
1093460--1093504	17	2.6	18	82	6	58	44	0	0	55	0.99
1093451--1093509	26	2.2	26	82	8	75	44	1	0	54	1.10
1093462--1093515	26	2.0	27	82	3	65	40	3	0	55	1.17
1094419--1094502	18	4.7	18	72	24	63	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094423--1094494	16	4.8	16	71	20	57	59	0	0	40	0.97
1099115--1099296	93	2.0	93	86	0	256	42	6	12	39	1.68
1099447--1099493	21	2.2	21	77	7	51	63	2	0	34	1.06
1099780--1099812	2	16.5	2	100	0	66	48	0	0	51	1.00
1100778--1100808	2	15.5	2	100	0	62	48	0	0	51	1.00
1101591--1101690	44	2.2	44	86	8	139	31	0	5	64	1.15
1106671--1106721	21	2.2	25	83	13	65	49	3	0	47	1.20
1106799--1106830	16	2.0	16	93	0	55	40	0	0	59	0.97
1106790--1106856	26	2.6	26	81	6	75	43	4	0	52	1.21
1107189--1107228	2	20.0	2	89	0	62	45	2	2	50	1.28
1107477--1107531	21	2.6	22	82	5	62	60	0	0	40	0.97
1107494--1107532	11	3.6	11	82	6	53	61	0	0	38	0.96
1114434--1114467	3	11.3	3	93	0	59	67	2	0	29	1.05
1114997--1115040	23	1.9	23	86	9	63	45	0	0	54	0.99
1122141--1122206	16	4.2	16	84	3	89	62	0	1	36	1.05
1122140--1122235	31	3.0	31	80	4	111	60	1	3	35	1.19
1122204--1122277	38	2.0	35	84	7	94	62	1	2	33	1.18
1122167--1122271	16	6.2	16	72	16	52	60	0	1	36	1.14
1122219--1122272	18	2.9	18	73	15	56	66	0	0	33	0.92
1122454--1122510	25	2.5	21	83	13	60	50	1	1	45	1.22
1122500--1122555	23	2.4	24	77	22	66	62	0	0	37	0.95
1122705--1122802	23	4.0	23	73	20	83	51	1	0	47	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122724--1122788	31	2.1	32	85	8	89	52	0	0	47	1.00
1122731--1122793	18	3.7	18	72	25	64	49	0	0	50	1.00
1123123--1123157	2	17.5	2	100	0	70	0	48	0	51	1.00
1137402--1137699	149	2.0	149	93	1	508	23	19	23	33	1.97
1139117--1139150	2	17.0	2	100	0	68	50	0	0	50	1.00
1141665--1141703	13	3.0	13	84	0	60	61	0	0	38	0.96
1142442--1142491	25	2.0	24	84	3	64	40	0	4	56	1.18
1142607--1142648	15	2.9	15	85	3	50	42	2	0	54	1.13
1142712--1142775	32	2.1	29	85	8	83	68	0	0	31	0.90
1142831--1142868	20	1.9	20	88	0	58	52	0	7	39	1.31
1145838--1146303	242	1.9	242	85	2	641	22	16	20	40	1.91
1150012--1150037	7	3.7	7	100	0	52	42	0	0	57	0.98
1155506--1155544	15	2.6	15	91	0	60	5	15	5	74	1.17
1160206--1160595	192	2.0	192	96	0	726	41	13	18	26	1.87
1163054--1163115	27	2.3	26	83	2	88	59	0	0	40	0.97
1163794--1163850	25	2.3	26	79	11	66	54	0	0	45	0.99
1164196--1164416	34	6.5	33	81	9	257	41	26	7	24	1.81
1164198--1164416	68	3.2	67	85	3	287	41	26	7	25	1.81
1164196--1164416	102	2.2	101	88	1	343	41	26	7	24	1.81
1168819--1169032	34	6.3	34	80	10	197	41	24	6	27	1.79
1168820--1169032	68	3.1	67	81	4	241	41	24	6	27	1.80
1168821--1169020	102	2.0	102	85	0	274	42	24	7	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169398--1169434	19	2.0	19	89	5	58	45	0	0	54	1.00
1169374--1169434	17	3.6	17	68	14	54	44	0	1	54	1.10
1169928--1169976	6	8.3	6	75	20	50	63	0	2	34	1.06
1173675--1173704	2	15.0	2	100	0	60	50	0	0	50	1.00
1176262--1176291	2	15.0	2	100	0	60	50	0	0	50	1.00
1176291--1176317	2	13.5	2	100	0	54	51	0	48	0	1.00
1176537--1176561	6	4.2	6	100	0	50	36	0	0	64	0.94
1183673--1183743	15	4.8	16	70	23	57	61	0	0	38	0.96
1187536--1187582	10	4.9	10	78	17	55	63	0	0	36	0.94
1188432--1188488	13	4.4	14	80	10	52	54	0	1	43	1.10
1197056--1197108	27	2.0	27	92	0	88	28	37	16	16	1.91
1199023--1199116	15	6.1	15	72	13	75	56	1	1	41	1.13
1199036--1199107	23	3.2	23	77	16	71	56	1	1	40	1.16
1199051--1199132	2	42.5	2	75	16	57	57	1	2	39	1.20
1199027--1199132	31	3.5	29	83	7	115	57	0	1	39	1.16
1199044--1199132	31	2.9	31	93	0	142	57	1	2	39	1.19
1199937--1200014	33	2.5	32	79	12	90	52	0	0	47	1.00
1200002--1200074	25	3.0	25	68	9	60	54	4	1	39	1.28
1202226--1202260	17	2.0	18	88	5	54	60	0	0	40	0.97
1202227--1202264	18	2.1	19	90	5	60	63	0	0	36	0.95
1209314--1209358	20	2.2	21	81	18	60	48	0	0	51	1.00
1212274--1212330	23	2.6	21	78	10	53	50	1	3	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213452--1213578	63	2.0	63	100	0	254	26	9	23	40	1.85
1215294--1215328	2	17.5	2	87	0	52	42	2	2	51	1.31
1217023--1217077	16	3.3	16	78	16	58	40	0	0	60	0.97
1217024--1217115	27	3.6	27	77	11	86	44	0	0	55	0.99
1217054--1217091	18	2.2	17	90	4	58	50	0	0	50	1.00
1221703--1221730	3	9.3	3	100	0	56	32	0	0	67	0.91
1225596--1225636	21	2.0	21	85	0	55	51	0	4	43	1.23
1227405--1227468	18	3.6	18	81	12	60	59	0	1	39	1.07
1227421--1227499	29	2.7	30	77	14	94	59	0	1	39	1.06
1227439--1227484	11	4.5	11	79	20	64	58	0	0	41	0.98

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