genome.fa.s158.2.7.7.80.10.50.1000.4.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: scaffold149
Parameters: 2 7 7 80 10 50 1000
Length:  2538714

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 918 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)
1144488--1144563	37	2.1	37	100	0	152	32	7	19	39	1.81
1160006--1160545	70	7.8	68	71	16	279	27	13	17	40	1.88
1159963--1160575	93	6.6	93	91	0	967	27	14	17	40	1.88
1169405--1169463	29	2.0	31	83	12	79	28	13	6	50	1.67
1170141--1170184	22	2.0	22	82	8	54	47	2	0	50	1.13
1171272--1171298	2	13.5	2	100	0	54	51	0	0	48	1.00
1173381--1173497	44	2.6	44	90	6	166	24	23	17	34	1.96
1173409--1173497	44	2.0	44	100	0	178	25	22	17	33	1.96
1173187--1173457	130	2.1	131	89	2	420	25	23	19	30	1.98
1173507--1174027	44	11.9	44	84	5	628	25	26	18	28	1.98
1178669--1178720	21	2.5	21	100	0	104	30	25	19	25	1.98
1181030--1181085	18	3.1	18	79	18	55	16	5	5	73	1.21
1192687--1192713	2	13.5	2	100	0	54	51	0	0	48	1.00
1197375--1197426	24	2.2	24	89	0	77	50	7	3	38	1.50
1200319--1200370	24	2.2	24	89	0	77	53	7	3	34	1.48
1203109--1203136	2	14.0	2	100	0	56	50	0	0	50	1.00
1209384--1209409	2	13.0	2	100	0	52	50	0	0	50	1.00
1212344--1212373	16	1.9	15	93	6	51	30	10	13	46	1.75
1222404--1222556	37	4.2	37	79	9	152	34	15	17	32	1.92
1227640--1227885	50	4.8	50	84	3	258	27	20	28	23	1.99
1229791--1229833	12	3.5	12	83	3	50	44	34	4	16	1.68
1230487--1230536	24	2.1	24	81	7	57	66	2	0	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240990--1241056	34	1.9	35	87	3	100	34	7	11	46	1.69
1245686--1245754	26	2.7	25	76	14	61	62	4	2	30	1.29
1247849--1247933	33	2.6	33	78	9	93	21	37	16	24	1.93
1250775--1251280	140	3.6	140	79	1	494	25	18	22	34	1.96
1250766--1251280	70	7.4	70	76	7	323	25	18	22	34	1.96
1257638--1257682	24	2.0	23	82	8	56	46	4	0	48	1.22
1257894--1257924	15	2.0	16	93	6	55	38	0	0	61	0.96
1259189--1259226	19	2.0	19	100	0	76	31	5	5	57	1.43
1260842--1260884	20	2.1	21	86	4	61	37	2	2	58	1.24
1263703--1263738	18	1.9	19	88	5	56	55	8	0	36	1.30
1264340--1264397	29	2.0	29	93	0	98	53	5	5	36	1.46
1266624--1266774	75	2.0	75	100	0	302	60	7	11	19	1.56
1270718--1270767	2	25.0	2	95	0	91	2	50	0	48	1.12
1275129--1275183	14	4.0	14	76	21	53	69	0	29	1	0.99
1275355--1275473	60	2.0	60	89	0	184	35	0	12	51	1.46
1277823--1277868	20	2.3	19	82	10	56	76	4	2	17	1.06
1280003--1280200	98	2.0	98	92	1	326	22	23	19	34	1.96
1281014--1281048	18	1.9	18	88	0	52	31	28	40	0	1.57
1281160--1281270	33	3.4	31	82	8	96	17	38	11	32	1.86
1281182--1281279	33	3.0	33	84	3	135	14	38	13	33	1.85
1281184--1281294	33	3.4	33	79	9	120	14	40	12	32	1.83
1285790--1285826	17	2.2	16	90	4	56	27	0	5	67	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288493--1288641	71	2.1	71	86	2	201	32	27	13	26	1.94
1291897--1291995	43	2.3	43	85	3	128	24	30	17	28	1.97
1292153--1292188	16	2.2	16	90	0	54	30	19	0	50	1.48
1294607--1294652	20	2.3	20	84	0	65	32	2	28	36	1.69
1305294--1305413	9	13.6	9	74	11	97	33	0	18	48	1.48
1305293--1305413	54	2.3	52	92	2	197	33	0	18	47	1.48
1305433--1305499	35	1.9	35	93	0	116	37	5	10	46	1.63
1305432--1305511	35	2.4	32	82	13	108	36	6	8	48	1.59
1307400--1307452	24	2.2	24	93	0	88	47	3	5	43	1.45
1307972--1308012	17	2.4	17	87	0	55	43	14	29	12	1.82
1307981--1308018	17	2.2	17	100	0	76	42	13	34	10	1.78
1309250--1309324	22	3.3	23	76	14	66	40	2	34	22	1.68
1309411--1310087	116	5.9	115	82	7	731	33	22	16	28	1.95
1309411--1310087	233	3.0	228	83	6	788	33	22	16	28	1.95
1310563--1310624	15	4.2	15	75	4	63	19	0	29	51	1.47
1310564--1310624	22	2.8	22	82	0	68	19	0	29	50	1.48
1310564--1310626	7	8.7	7	79	6	54	20	0	30	49	1.49
1313019--1313061	22	2.0	22	85	0	59	13	20	23	41	1.88
1313139--1313322	43	4.2	46	84	7	147	31	28	20	20	1.97
1313198--1313342	43	3.4	43	92	3	238	31	31	17	20	1.96
1318336--1318493	41	3.9	41	89	1	237	28	31	22	17	1.97
1318544--1318659	40	2.9	39	80	3	133	21	20	21	36	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327204--1327339	46	3.0	46	89	1	220	52	19	2	25	1.60
1328444--1328489	7	6.9	7	92	7	78	26	0	13	60	1.32
1328444--1328495	13	4.0	13	87	7	79	25	0	13	61	1.32
1328441--1328495	20	2.8	19	86	10	76	23	0	12	63	1.29
1328581--1328617	14	2.6	14	91	0	56	18	59	5	16	1.55
1329054--1329199	44	3.3	44	91	0	247	19	6	29	45	1.74
1329394--1329440	23	2.0	23	95	0	85	14	14	17	53	1.74
1332563--1332619	29	2.0	29	86	6	80	59	3	0	36	1.14
1334614--1334710	20	4.8	20	76	9	92	43	10	13	32	1.78
1334608--1334710	40	2.6	40	87	6	147	45	9	12	32	1.75
1350218--1350329	48	2.4	48	89	1	172	25	15	23	36	1.93
1365375--1365476	26	3.9	26	82	1	114	29	22	10	37	1.88
1365413--1365496	26	3.3	26	85	5	64	26	23	8	41	1.82
1368760--1368885	27	4.6	27	85	7	148	43	19	17	19	1.88
1368783--1368899	55	2.1	54	81	10	132	41	17	20	19	1.90
1369070--1369135	22	3.0	22	69	8	62	13	18	18	50	1.79
1373568--1373653	45	1.9	45	87	0	127	19	20	18	40	1.91
1376572--1376795	34	6.5	34	72	3	160	25	24	26	23	2.00
1376680--1376761	35	2.4	34	77	6	85	30	24	24	20	1.99
1376577--1376777	104	1.9	104	82	2	251	27	23	26	21	1.99
1379814--1379866	25	2.1	25	100	0	106	32	7	20	39	1.81
1380246--1380352	25	4.3	24	77	7	81	25	23	24	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382064--1382118	25	2.2	25	100	0	110	30	7	20	41	1.79
1382498--1382604	25	4.3	24	77	7	81	25	23	24	27	2.00
1384701--1384726	13	2.0	13	100	0	52	38	15	23	23	1.92
1391451--1391540	25	3.7	24	76	4	81	30	14	24	31	1.95
1391687--1391774	24	3.6	25	80	3	90	34	18	27	20	1.96
1393358--1393475	25	4.7	25	78	8	114	23	20	26	29	1.99
1393368--1393475	50	2.2	49	86	6	155	24	21	25	28	1.99
1394271--1394532	131	2.0	131	100	0	524	48	16	14	20	1.80
1395170--1395288	25	4.8	25	80	10	127	25	22	25	26	2.00
1396310--1396594	142	2.0	143	98	0	554	32	17	9	40	1.83
1396690--1396724	16	2.2	16	95	5	63	28	11	17	42	1.83
1402427--1402466	21	1.9	21	84	0	53	40	5	0	55	1.22
1403291--1403325	17	2.0	18	88	5	54	34	8	0	57	1.29
1409422--1409492	29	2.4	29	92	0	115	29	19	7	43	1.77
1409633--1409683	22	2.3	22	86	0	66	43	25	0	31	1.55
1410855--1410883	5	5.8	5	100	0	58	17	0	0	82	0.66
1415914--1415964	24	2.1	23	86	13	68	29	1	0	68	1.00
1421113--1421334	114	1.9	114	89	0	345	27	18	17	36	1.93
1421485--1421575	35	2.7	34	84	3	121	41	19	0	38	1.52
1422875--1422913	18	2.2	18	90	0	60	51	0	2	46	1.14
1423774--1423849	26	2.9	25	71	23	66	68	0	30	1	0.98
1423800--1423837	18	2.1	18	90	9	60	60	0	39	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424695--1424770	36	2.1	37	92	5	127	35	2	13	48	1.56
1426608--1426691	33	2.6	33	79	7	100	21	39	17	21	1.93
1426608--1426703	33	2.9	32	78	9	97	19	40	17	21	1.91
1427678--1427732	19	2.9	19	86	0	83	16	29	41	12	1.85
1428292--1428329	6	6.3	6	84	9	51	15	2	0	81	0.80
1429681--1429715	16	2.2	16	94	0	61	20	17	20	42	1.89
1435595--1436096	50	10.1	50	75	2	294	31	21	20	26	1.98
1435603--1436094	99	5.0	101	78	3	374	31	21	20	26	1.98
1435595--1436026	149	2.9	149	86	1	564	30	21	21	25	1.99
1435603--1436093	149	3.3	149	82	3	427	31	21	20	26	1.98

Tables:   1   2   3   4   5   6   7   8