genome.fa.s6.2.7.7.80.10.50.1000.10.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: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  10  of  22  ( 2632 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)
3989557--3989862	28	10.6	29	69	19	126	62	0	2	34	1.14
3989597--3989784	21	8.5	22	71	21	119	64	0	1	33	1.03
3989725--3989790	26	2.5	26	85	9	80	68	0	0	31	0.90
3990027--3990065	15	2.6	15	88	8	53	35	23	5	35	1.77
4002248--4002321	29	2.5	29	82	6	87	55	0	1	43	1.08
4017864--4017902	21	1.9	20	84	5	51	51	28	2	17	1.59
4024652--4024687	17	2.1	17	89	0	54	55	5	38	0	1.23
4024948--4024991	23	1.9	23	81	9	54	38	0	15	45	1.47
4029875--4029916	20	2.2	19	87	12	59	40	0	0	59	0.97
4031358--4031387	2	15.0	2	100	0	60	50	0	0	50	1.00
4034613--4034672	20	2.9	21	77	5	68	70	10	11	8	1.35
4034327--4035146	299	2.8	290	85	4	1173	47	12	10	29	1.74
4036759--4036803	14	3.3	14	87	3	56	75	13	8	2	1.13
4036766--4036809	7	6.3	7	86	5	54	75	13	9	2	1.14
4043596--4043698	42	2.4	42	80	9	111	53	1	1	42	1.23
4044085--4044134	26	1.9	26	83	0	64	44	4	4	48	1.40
4043904--4044403	159	3.1	157	84	5	632	54	3	2	39	1.29
4044869--4044923	28	2.0	28	92	0	92	61	12	3	21	1.46
4051724--4051778	19	2.8	19	80	5	56	54	3	0	41	1.18
4055135--4055192	31	1.9	31	89	3	91	58	3	1	36	1.25
4055358--4055382	2	12.5	2	100	0	50	52	0	0	48	1.00
4064576--4064623	22	2.1	24	84	7	64	25	4	0	70	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4065013--4065054	14	2.9	14	82	13	50	33	2	2	61	1.21
4068806--4068847	22	1.9	22	85	0	57	16	9	30	42	1.80
4068819--4068862	22	2.0	22	86	0	61	18	6	31	43	1.76
4069672--4069720	22	2.2	22	92	0	80	30	6	24	38	1.80
4069679--4069736	22	2.6	22	94	0	98	31	3	24	41	1.71
4074123--4074180	21	2.7	21	97	2	107	29	22	17	31	1.96
4074423--4074480	27	2.1	28	87	9	84	62	12	3	22	1.45
4077261--4077319	30	2.0	30	93	3	102	35	8	3	52	1.49
4078224--4078291	28	2.3	31	78	14	81	32	4	4	58	1.37
4078224--4078302	30	2.7	29	75	13	81	32	5	3	58	1.38
4080594--4080637	2	22.0	2	100	0	88	50	0	0	50	1.00
4084205--4084250	2	23.5	2	95	4	85	50	0	0	50	1.00
4086142--4086328	93	2.0	94	88	3	279	42	11	13	32	1.80
4088246--4088334	28	3.2	28	95	0	160	34	17	10	37	1.84
4090937--4091096	29	5.6	29	70	18	120	35	15	16	33	1.90
4090939--4091110	58	3.0	56	88	6	247	36	14	16	33	1.89
4091857--4091906	20	2.5	20	96	0	91	34	4	4	58	1.36
4094697--4094733	17	2.2	17	100	0	74	43	24	10	21	1.84
4110884--4110926	19	2.3	19	91	0	68	48	13	16	20	1.80
4119792--4119832	2	20.5	2	84	0	55	46	4	2	46	1.37
4121544--4121789	114	2.1	113	81	6	280	39	8	12	39	1.75
4129062--4129112	26	2.0	26	84	3	68	35	11	9	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4130562--4130635	22	3.4	22	74	10	80	47	2	1	48	1.24
4130557--4130727	92	1.8	93	83	6	231	50	2	3	43	1.32
4130800--4130839	6	7.2	6	78	16	50	82	0	2	15	0.77
4130800--4130844	21	2.1	21	92	8	74	82	0	2	15	0.77
4135284--4135675	197	2.0	197	91	1	642	24	21	16	37	1.93
4136241--4136313	38	1.9	37	86	2	101	32	16	8	42	1.78
4138009--4138048	19	2.1	19	85	0	53	27	0	15	57	1.38
4143143--4143172	15	2.0	15	93	0	51	36	0	0	63	0.95
4151505--4151564	30	2.0	31	93	3	104	58	3	18	20	1.53
4152956--4153155	59	3.3	58	68	8	150	32	16	30	21	1.95
4154758--4154824	30	2.2	30	86	0	98	50	2	13	32	1.56
4154789--4154900	59	1.9	59	86	0	161	50	5	16	28	1.67
4154787--4154911	59	2.1	59	83	0	160	47	4	16	32	1.67
4161781--4161969	103	1.8	103	88	0	288	31	16	15	37	1.90
4174741--4174810	34	2.1	34	81	10	81	42	0	0	57	0.99
4174855--4174941	33	2.6	32	83	7	111	31	1	0	67	0.98
4174855--4174935	25	3.3	23	78	20	69	32	1	0	66	0.99
4174865--4175051	82	2.3	81	78	13	222	30	1	1	67	1.05
4174975--4175039	7	9.7	7	71	15	57	26	0	0	73	0.83
4174978--4175050	33	2.2	33	85	11	96	30	0	0	69	0.88
4175001--4175041	15	2.8	15	88	3	57	29	0	0	70	0.87
4174985--4175050	21	3.2	21	78	8	73	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4175557--4175586	2	15.0	2	100	0	60	50	0	0	50	1.00
4178748--4178945	98	2.0	98	88	0	288	27	29	12	30	1.92
4182073--4182131	30	2.0	30	93	0	100	44	18	3	33	1.67
4196361--4196395	17	2.1	16	89	5	52	5	40	2	51	1.40
4198194--4198299	34	2.9	36	79	9	108	50	16	4	29	1.65
4198250--4198283	15	2.2	16	89	5	52	52	14	8	23	1.69
4201577--4201609	15	2.2	15	94	0	57	54	0	3	42	1.15
4225685--4225739	27	2.0	27	82	0	65	65	9	1	23	1.31
4228251--4228276	3	8.7	3	100	0	52	0	30	0	69	0.89
4229636--4229664	14	2.0	15	93	6	51	37	6	0	55	1.27
4244354--4244393	15	2.7	15	84	0	62	32	27	7	32	1.85
4245353--4245407	10	5.6	10	75	12	51	67	0	0	32	0.91
4245350--4245416	29	2.3	29	92	2	109	61	0	0	38	0.96
4253353--4253412	28	2.1	28	100	0	120	38	18	13	30	1.89
4260902--4261034	67	2.0	67	97	2	252	29	27	26	17	1.97
4261326--4261738	206	2.0	206	99	0	808	22	11	18	47	1.80
4274174--4274300	62	2.0	62	85	5	168	48	3	5	42	1.45
4276675--4276703	11	2.7	11	94	5	51	6	6	0	86	0.72
4283789--4283824	2	18.0	2	100	0	72	50	0	0	50	1.00
4284781--4284828	21	2.2	23	85	7	64	47	2	0	50	1.12
4284871--4284919	23	2.1	23	88	0	71	67	0	0	32	0.91
4285115--4285170	26	2.2	26	83	0	67	51	0	3	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4285103--4285429	162	2.0	162	82	7	403	49	2	3	45	1.29
4285432--4285504	16	5.1	15	73	21	59	50	1	5	42	1.34
4285397--4285504	41	2.7	41	81	12	116	50	1	3	44	1.30
4308360--4308443	42	2.0	41	83	2	105	28	14	16	40	1.88
4308508--4308548	21	2.0	21	85	0	55	56	0	29	14	1.39
4309370--4309440	35	2.0	35	97	0	133	30	7	16	45	1.75
4322544--4322599	24	2.4	23	82	11	69	1	32	3	62	1.23
4322896--4322942	20	2.3	20	92	0	76	29	10	8	51	1.66
4323112--4323153	20	2.1	20	86	8	59	38	0	4	57	1.20
4323754--4323826	33	2.2	33	90	0	110	28	5	0	65	1.14
4323743--4323808	33	2.1	30	81	13	80	24	7	1	66	1.26
4325371--4325589	119	1.8	119	86	4	318	61	1	5	31	1.28
4326034--4326075	21	2.0	21	90	0	66	42	11	2	42	1.54
4333403--4333436	6	5.7	6	100	0	68	17	52	14	14	1.74
4335278--4335308	2	15.5	2	100	0	62	51	0	0	48	1.00
4335668--4335711	17	2.8	16	83	10	54	40	0	0	59	0.98
4339098--4339146	24	2.0	24	96	0	89	53	0	42	4	1.20
4344150--4344183	16	2.1	16	88	0	50	11	5	20	61	1.50
4349969--4350035	1	67.0	1	100	0	134	0	0	100	0	0.00
4351685--4351767	33	2.6	33	85	9	102	66	0	4	28	1.12
4352071--4352112	15	2.8	15	81	0	57	40	11	0	47	1.40
4353551--4353590	2	20.0	2	89	0	62	50	5	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4361635--4361884	16	15.5	15	64	18	53	65	0	1	32	1.06
4361653--4361846	16	13.4	15	68	25	80	63	0	2	34	1.10
4361630--4361943	27	11.1	27	68	22	150	63	0	2	33	1.11
4361707--4361773	6	11.0	6	73	20	50	68	0	0	31	0.90
4361626--4361954	113	2.9	113	96	1	590	63	0	2	33	1.10
4367452--4367514	23	2.7	23	78	9	65	47	3	1	47	1.27
4375487--4375523	2	18.5	2	100	0	74	0	48	0	51	1.00
4376050--4376079	2	15.0	2	92	0	51	46	0	53	0	1.00
4378952--4379089	69	2.0	68	85	1	186	27	22	11	38	1.89
4378641--4379172	284	1.9	284	90	1	843	27	23	10	38	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22