genome.fa.s140.2.7.7.80.10.50.1000.7.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

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

This is table  7  of  20  ( 2326 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)
1087407--1087443	16	2.3	17	81	13	51	54	0	0	45	1.00
1087411--1087443	15	2.1	16	88	5	50	54	0	0	45	0.99
1088156--1088375	34	6.5	33	81	6	242	25	7	26	40	1.82
1088156--1088373	103	2.1	101	86	2	301	26	7	26	40	1.82
1088158--1088373	68	3.2	69	83	4	278	26	7	25	40	1.82
1092783--1093001	34	6.5	34	85	2	271	25	7	26	40	1.83
1092783--1093001	102	2.2	101	89	1	330	25	7	26	40	1.83
1094169--1094208	13	2.9	14	85	11	55	50	0	0	50	1.00
1095317--1095374	19	2.9	21	85	10	77	60	0	0	39	0.97
1095318--1095373	29	1.9	29	85	7	78	62	0	0	37	0.95
1096810--1096834	7	3.6	7	100	0	50	84	0	0	16	0.63
1102859--1102968	21	5.0	21	72	17	73	52	3	0	43	1.18
1102859--1102906	17	2.8	18	74	25	50	52	2	0	45	1.12
1102869--1102935	25	2.7	26	83	6	84	50	1	0	47	1.10
1102885--1102935	26	2.0	25	88	3	75	47	1	0	50	1.12
1103298--1103341	17	2.6	17	81	0	52	63	2	0	34	1.07
1104000--1104040	21	1.9	21	85	14	57	36	0	0	63	0.95
1105305--1105333	9	3.3	9	90	9	51	82	0	0	17	0.66
1105452--1105485	3	11.3	3	100	0	68	35	0	0	64	0.94
1106131--1106186	16	3.5	17	68	24	50	46	0	1	51	1.11
1106951--1107034	32	2.8	32	74	18	90	57	1	0	41	1.06
1106985--1107035	18	2.7	19	72	22	54	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106948--1107055	10	10.9	10	66	13	53	57	0	0	41	1.05
1106944--1107092	48	3.0	48	74	20	128	57	0	0	42	1.04
1107829--1107893	26	2.5	26	75	9	71	61	1	1	35	1.15
1108103--1108171	14	4.7	14	75	20	52	55	1	0	43	1.08
1108106--1108162	16	3.6	16	76	2	62	59	1	0	38	1.08
1109768--1109804	16	2.2	17	90	4	58	35	2	0	62	1.10
1109768--1109800	11	3.1	11	91	4	50	33	3	0	63	1.10
1110303--1110352	26	1.9	26	88	8	75	52	2	0	46	1.12
1110792--1110864	30	2.5	28	76	8	67	41	10	1	46	1.48
1113810--1113856	22	2.2	21	92	3	76	51	0	0	48	1.00
1113810--1113856	10	4.4	11	82	12	62	51	0	0	48	1.00
1113824--1113898	22	3.4	22	78	14	75	53	0	0	46	1.00
1113903--1113993	39	2.3	38	80	9	94	43	0	0	56	0.99
1113946--1114002	17	3.4	16	71	7	51	36	0	0	63	0.95
1114571--1114631	30	2.0	30	96	0	113	24	14	24	36	1.93
1115104--1115633	261	2.0	263	88	2	780	30	19	22	27	1.98
1126618--1126649	2	16.0	2	100	0	64	0	50	0	50	1.00
1127351--1127393	18	2.3	19	84	4	61	62	0	0	37	0.95
1127711--1127759	18	2.7	18	72	12	55	38	2	0	59	1.09
1128474--1128503	15	2.1	14	93	6	51	33	3	0	63	1.11
1128664--1128725	21	3.0	21	79	13	74	53	1	0	45	1.10
1128875--1128923	17	3.2	16	75	24	52	48	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128872--1128953	29	3.0	28	73	16	73	43	0	2	53	1.13
1128883--1128928	16	3.1	16	76	23	55	47	0	0	52	1.00
1128913--1128963	26	1.9	27	92	4	86	41	0	1	56	1.10
1128904--1128968	26	2.6	25	80	15	82	43	0	1	55	1.09
1128919--1128987	33	2.1	33	82	15	81	42	0	1	56	1.08
1129065--1129107	16	2.8	16	80	13	54	48	0	0	51	1.00
1135947--1136318	58	6.4	58	82	1	388	34	32	17	15	1.91
1135951--1136318	116	3.2	115	82	4	436	34	32	17	14	1.91
1140310--1140361	26	2.0	26	82	14	63	46	0	0	53	1.00
1140584--1140611	2	14.0	2	100	0	56	50	0	0	50	1.00
1141714--1141752	20	2.0	20	89	0	60	43	0	0	56	0.99
1141729--1141802	26	2.8	26	77	16	82	51	0	0	48	1.00
1141729--1141827	26	3.8	26	76	15	71	46	0	0	53	1.00
1141786--1141832	20	2.4	19	89	3	67	36	0	0	63	0.94
1147338--1147385	23	2.1	23	100	0	96	41	25	4	29	1.74
1158029--1158071	18	2.4	18	78	14	54	41	0	0	58	0.98
1158029--1158074	19	2.6	17	80	12	58	43	0	0	56	0.99
1158250--1158290	20	2.0	20	85	4	55	29	0	4	65	1.13
1158357--1158408	26	2.0	27	84	3	70	46	0	0	53	1.00
1163200--1163249	24	2.1	24	100	0	100	24	38	4	34	1.74
1163864--1164100	117	2.0	116	86	2	332	29	26	20	24	1.99
1166011--1166078	28	2.4	29	81	13	81	41	1	0	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167753--1167792	20	2.0	20	85	9	55	40	2	2	55	1.27
1168673--1168711	15	2.7	15	88	4	53	46	0	0	53	1.00
1168672--1168753	31	2.7	31	77	7	78	45	0	1	53	1.08
1169284--1169328	20	2.1	21	84	8	56	37	0	2	60	1.09
1172814--1172855	18	2.3	19	87	4	59	50	0	2	47	1.14
1174153--1174217	20	3.1	21	81	16	82	49	1	0	49	1.10
1177551--1177615	25	2.7	23	75	18	60	40	1	0	58	1.07
1178067--1178093	2	13.5	2	100	0	54	0	48	0	51	1.00
1185770--1185799	2	15.0	2	92	0	51	53	0	46	0	1.00
1188940--1188987	21	2.2	21	85	3	60	58	4	0	37	1.18
1189660--1189723	20	3.6	19	64	27	50	51	0	1	46	1.10
1189746--1189785	20	2.1	19	90	4	62	57	0	0	42	0.98
1189712--1189781	35	2.0	35	83	10	90	58	1	0	40	1.07
1190018--1190055	16	2.4	16	82	4	51	52	0	0	47	1.00
1190347--1190390	14	3.1	14	80	6	52	47	4	0	47	1.22
1190902--1190966	26	2.6	25	75	20	73	35	4	0	60	1.18
1191651--1191693	2	22.0	2	95	4	79	51	0	0	48	1.00
1192089--1192135	15	2.9	16	76	14	51	53	2	0	44	1.12
1192114--1192178	30	2.2	29	81	10	69	40	3	0	56	1.15
1193149--1193183	16	2.2	16	89	0	52	62	2	0	34	1.10
1193197--1193246	22	2.1	25	82	14	61	60	6	0	34	1.21
1195437--1195519	43	1.9	43	95	0	148	36	21	16	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1198231--1198271	11	3.7	11	83	9	57	58	0	7	34	1.26
1198219--1198278	19	3.2	19	82	13	70	61	0	5	33	1.17
1198223--1198278	26	2.2	25	83	6	67	62	0	5	32	1.18
1198328--1198366	16	2.6	15	88	8	53	56	0	5	38	1.22
1199364--1199405	14	2.8	16	78	14	52	47	0	0	52	1.00
1201904--1201940	2	18.5	2	100	0	74	0	48	0	51	1.00
1202001--1202032	2	16.0	2	100	0	64	50	0	0	50	1.00
1203081--1203115	13	2.7	13	86	0	52	71	0	0	28	0.86
1203072--1203115	14	3.2	14	83	6	54	70	0	0	29	0.88
1203949--1204005	21	2.7	21	74	15	55	5	15	0	78	0.91
1204032--1204102	26	2.8	26	83	10	78	38	0	0	61	0.96
1204092--1204131	17	2.3	18	86	4	55	37	2	2	57	1.26
1204084--1204125	22	1.9	22	85	9	59	35	2	2	59	1.23
1204286--1204315	14	2.1	15	93	6	53	60	0	0	40	0.97
1209013--1209053	21	2.0	21	95	0	73	53	0	4	41	1.22
1209180--1209226	19	2.3	21	82	10	62	57	0	0	42	0.98
1209320--1209369	24	2.0	25	84	3	66	54	0	4	42	1.19
1213574--1213611	15	2.8	13	88	11	51	44	0	0	55	0.99
1214315--1214341	14	1.9	14	100	0	54	29	3	7	59	1.42
1214474--1214513	18	2.2	18	86	0	53	45	2	0	52	1.14
1214594--1214644	14	3.5	14	83	5	57	58	0	0	41	0.98
1214592--1214662	15	4.9	15	80	1	65	54	1	0	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215285--1215312	6	4.7	6	100	0	56	14	0	0	85	0.59
1215662--1215692	2	15.5	2	100	0	62	51	0	0	48	1.00
1215794--1215852	27	2.2	27	81	6	75	50	0	3	45	1.18
1215816--1215861	21	2.2	21	85	11	60	60	0	0	39	0.97
1215958--1216056	36	2.8	33	78	14	101	60	0	1	38	1.04
1217860--1217890	16	1.9	16	93	0	53	32	6	0	61	1.21
1218333--1218367	18	1.9	17	88	11	52	45	0	0	54	0.99
1218385--1218446	31	2.0	30	82	14	74	59	3	0	37	1.13
1218855--1218889	2	17.5	2	100	0	70	51	0	0	48	1.00
1218974--1218999	13	2.0	13	100	0	52	69	0	0	30	0.89

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