Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 198 of 222
Found at i:63243007 original size:105 final size:101
Alignment explanation
Indices: 63242824--63243018 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 101
63242814 AATTGACAGA
* * *
63242824 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAACTAGGCAATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCACAACTAGGCAATGACATTTTAA
63242889 TGAAATGACCATAACTGGGTTATGGCACCTTGAACG
66 TGAAATGACCATAACTGGGTTATGGCACCTTGAACG
* * * *
63242925 TAAGACCATGGTTGGACCATGGCAGTGTAGATACATGTGTAAGACCACAGCT-GGACTATGACAT
1 TAAGACCATGGTTGGACCATGGCAATGT--ATA-A-ATGTAAGACCACAACTAGG-CAATGACAT
* *
63242989 TTTGATTATAA-GACCATAACTGGGTTATGG
61 TTTAATGA-AATGACCATAACTGGGTTATGG
63243019 TACTACAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
101 27 0.34
103 2 0.03
104 3 0.04
105 45 0.57
106 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCACAACTAGGCAATGACATTTTAA
TGAAATGACCATAACTGGGTTATGGCACCTTGAACG
Found at i:63243033 original size:105 final size:101
Alignment explanation
Indices: 63242824--63243070 Score: 236
Period size: 105 Copynumber: 2.4 Consensus size: 101
63242814 AATTGACAGA
* * *
63242824 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAACTAGGCAATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCACAACTAGGCAATGACATTTTAA
**
63242889 TGAAATGACCATAACTGGGTTATGGCACCTTGAACG
66 TGAAATGACCATAACTGGGTTATGGCACCTCAAACG
* * * *
63242925 TAAGACCATGGTTGGACCATGGCAGTGTAGATACATGTGTAAGACCACAGCT-GGACTATGACAT
1 TAAGACCATGGTTGGACCATGGCAATGT--ATA-A-ATGTAAGACCACAACTAGG-CAATGACAT
* * * *
63242989 TTTGATTATAA-GACCATAACTGGGTTATGGTA-CTACAAATG
61 TTTAATGA-AATGACCATAACTGGGTTATGGCACCT-CAAACG
** *
63243030 TAAGACCATGGCAGGGA-CATGGCAATGCAT--ATGTAAGACCA
1 TAAGACCATGG-TTGGACCATGGCAATGTATAAATGTAAGACCA
63243071 TAGTTGGACT
Statistics
Matches: 120, Mismatches: 18, Indels: 18
0.77 0.12 0.12
Matches are distributed among these distances:
99 10 0.08
101 27 0.22
103 4 0.03
104 5 0.04
105 69 0.57
106 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCACAACTAGGCAATGACATTTTAA
TGAAATGACCATAACTGGGTTATGGCACCTCAAACG
Found at i:63244136 original size:21 final size:20
Alignment explanation
Indices: 63244112--63244163 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
63244102 TACCCAAAAA
*
63244112 TAAATAAAATTTGAAAATTCT
1 TAAATAAAATTTAAAAATT-T
63244133 TAAATCAATAA-TTAAAAATTT
1 TAAAT-AA-AATTTAAAAATTT
*
63244154 TAAAAAAAAT
1 TAAATAAAAT
63244164 GATAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 10 0.38
22 10 0.38
23 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAATAAAATTTAAAAATTT
Found at i:63244431 original size:13 final size:15
Alignment explanation
Indices: 63244399--63244432 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
63244389 CAAATAAATA
*
63244399 AAAAAACAATTATTT
1 AAAAAACAATGATTT
63244414 AAAAAA-AATGATTT
1 AAAAAACAATGATTT
63244428 AAAAA
1 AAAAA
63244433 TTATAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAAACAATGATTT
Found at i:63248325 original size:30 final size:31
Alignment explanation
Indices: 63248277--63248336 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
63248267 AAACCTTTTA
**
63248277 TTTTCCCCCAAATTTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
63248307 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
63248337 TCTCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:63248975 original size:5 final size:5
Alignment explanation
Indices: 63248965--63248990 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
63248955 GAACAAATAT
63248965 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
63248991 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:63257286 original size:9 final size:9
Alignment explanation
Indices: 63257272--63257296 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
63257262 CTAATCTTAC
63257272 AGGAAAATG
1 AGGAAAATG
63257281 AGGAAAATG
1 AGGAAAATG
63257290 AGGAAAA
1 AGGAAAA
63257297 CAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (9 bp):
AGGAAAATG
Found at i:63261077 original size:2 final size:2
Alignment explanation
Indices: 63261070--63261102 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
63261060 AAACCCTCCA
63261070 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
63261103 TCACTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:63265064 original size:14 final size:14
Alignment explanation
Indices: 63265045--63265077 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
63265035 CATGCAATGC
63265045 ACACTTCTTATTTT
1 ACACTTCTTATTTT
63265059 ACACTTCTTATTTT
1 ACACTTCTTATTTT
63265073 ACACT
1 ACACT
63265078 CGTACACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (14 bp):
ACACTTCTTATTTT
Found at i:63267487 original size:23 final size:23
Alignment explanation
Indices: 63267443--63267514 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
63267433 GAATAGCCAT
* *
63267443 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGCTCAAGAGAGCC
**
63267466 ATATCGGGAAGCTCTGGAGAGCC
1 ATATCGGGAAGCTCAAGAGAGCC
* *
63267489 ATTAATCAGGAAGCTCACAAAGAGCC
1 A-T-ATCGGGAAGCTCA-AGAGAGCC
63267515 TTTAATCGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 20 0.53
24 1 0.03
25 11 0.29
26 6 0.16
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (23 bp):
ATATCGGGAAGCTCAAGAGAGCC
Found at i:63267519 original size:26 final size:26
Alignment explanation
Indices: 63267483--63267539 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
63267473 GAAGCTCTGG
63267483 AGAGCCATTAATCAGG-AAGCTCACAA
1 AGAGCCATTAATC-GGAAAGCTCACAA
* *
63267509 AGAGCCTTTAATCGGAAAGCTCACGA
1 AGAGCCATTAATCGGAAAGCTCACAA
63267535 AGAGC
1 AGAGC
63267540 TATATCACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
AGAGCCATTAATCGGAAAGCTCACAA
Found at i:63271775 original size:46 final size:47
Alignment explanation
Indices: 63271660--63271776 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 47
63271650 GAGTTTCCAT
* * * * * * *
63271660 ATAATACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACTGT
1 ATAAGACCATAGCTAGGATATGGCATCAGTGTGATATGTGATACCGA
* * *
63271707 GTAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-CCGA
1 ATAAGACCATAGCTAGGATATGGCATCAGTGTGATATGTGATACCGA
* *
63271753 ATAAGACCATGGCTAGGCTATGGC
1 ATAAGACCATAGCTAGGATATGGC
63271777 TTTGGTGTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
46 21 0.36
47 38 0.64
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (47 bp):
ATAAGACCATAGCTAGGATATGGCATCAGTGTGATATGTGATACCGA
Found at i:63276364 original size:24 final size:22
Alignment explanation
Indices: 63276346--63276388 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63276336 ACCATACTTA
63276346 TAATT-TCAAATAACACCATAT
1 TAATTCTCAAATAACACCATAT
63276367 TAATTCTCAAATAA-ACACATAT
1 TAATTCTCAAATAACAC-CATAT
63276389 CACATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATTCTCAAATAACACCATAT
Found at i:63277132 original size:48 final size:50
Alignment explanation
Indices: 63277061--63277159 Score: 175
Period size: 48 Copynumber: 2.0 Consensus size: 50
63277051 ATTAAGCTAC
63277061 AACAATTTCAAAACACATAAATTTAC-AAAAAAAAGGTG-AAAATGGCTT
1 AACAATTTCAAAACACATAAATTTACGAAAAAAAAGGTGAAAAATGGCTT
*
63277109 AACAATTTCAAAACACATAAATTTACGAAAAGAAAGGTGAAAAATGGCTT
1 AACAATTTCAAAACACATAAATTTACGAAAAAAAAGGTGAAAAATGGCTT
63277159 A
1 A
63277160 CCATGCAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 26 0.54
49 11 0.23
50 11 0.23
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (50 bp):
AACAATTTCAAAACACATAAATTTACGAAAAAAAAGGTGAAAAATGGCTT
Found at i:63288164 original size:20 final size:20
Alignment explanation
Indices: 63288139--63288233 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
63288129 GACTAGACCA
63288139 AAAAATTATAATAAAATA-TT
1 AAAAATTATAA-AAAATATTT
*
63288159 AAAAATCATAAAATAATATTT
1 AAAAATTATAAAA-AATATTT
63288180 AAAAA-TATATAAAAATA-TT
1 AAAAATTATA-AAAAATATTT
* *
63288199 AAAAA-TGTAAAATATATTT
1 AAAAATTATAAAAAATATTT
*
63288218 AAAAATTGTAAAAAAT
1 AAAAATTATAAAAAAT
63288234 TAAATGTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.09
19 19 0.29
20 30 0.46
21 10 0.15
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAAAATATTT
Found at i:63288192 original size:10 final size:10
Alignment explanation
Indices: 63288151--63288223 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
63288141 AAATTATAAT
63288151 AAAATAT-TA
1 AAAATATATA
63288160 AAAATCATA-A
1 AAAAT-ATATA
*
63288170 AATAATATTTA
1 AA-AATATATA
63288181 AAAATATATA
1 AAAATATATA
63288191 AAAATAT-TA
1 AAAATATATA
*
63288200 AAAATGTA-A
1 AAAATATATA
* *
63288209 AATATATTTA
1 AAAATATATA
63288219 AAAAT
1 AAAAT
63288224 TGTAAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 19 0.37
10 26 0.51
11 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAATATATA
Found at i:63288229 original size:28 final size:27
Alignment explanation
Indices: 63288179--63288231 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
63288169 AAATAATATT
63288179 TAAAAATATATAAAAATATTAAAAATG
1 TAAAAATATATAAAAATATTAAAAATG
*
63288206 TAAAATATATTTAAAAAT-TGTAAAAA
1 TAAAA-ATATATAAAAATAT-TAAAAA
63288232 ATTAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
TAAAAATATATAAAAATATTAAAAATG
Found at i:63288237 original size:8 final size:9
Alignment explanation
Indices: 63288151--63288237 Score: 72
Period size: 9 Copynumber: 9.2 Consensus size: 9
63288141 AAATTATAAT
63288151 AAAATATTA
1 AAAATATTA
*
63288160 AAAATCATAA
1 AAAAT-ATTA
63288170 AATAATATTTA
1 AA-AATA-TTA
63288181 AAAATATATA
1 AAAATAT-TA
63288191 AAAATATTA
1 AAAATATTA
*
63288200 AAAAT-GTA
1 AAAATATTA
63288208 AAATATATTTA
1 AAA-ATA-TTA
63288219 AAAAT-TGTA
1 AAAATAT-TA
63288228 AAAA-ATTA
1 AAAATATTA
63288236 AA
1 AA
63288238 TGTTGTTAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
8 10 0.15
9 22 0.34
10 21 0.32
11 12 0.18
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATATTA
Found at i:63288237 original size:28 final size:26
Alignment explanation
Indices: 63288178--63288237 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
63288168 AAAATAATAT
63288178 TTAAAAATATATAAAAATATTAAAAA
1 TTAAAAATATATAAAAATATTAAAAA
*
63288204 TGTAAAATATATTTAAAAAT-TGTAAAAAA
1 T-TAAAA-ATATATAAAAATAT-T-AAAAA
63288233 TTAAA
1 TTAAA
63288238 TGTTGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 16 0.55
29 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (26 bp):
TTAAAAATATATAAAAATATTAAAAA
Found at i:63288248 original size:38 final size:37
Alignment explanation
Indices: 63288139--63288326 Score: 130
Period size: 37 Copynumber: 4.8 Consensus size: 37
63288129 GACTAGACCA
*
63288139 AAAAATTATAATAAAATATTAAAAATCATAAAATAATATTT
1 AAAAATTAT-A-AAAATATTAAAAAT-GTAAAAT-ATATTT
63288180 AAAAATATATAAAAATATTAAAAATGTAAAATATATTT
1 AAAAAT-TATAAAAATATTAAAAATGTAAAATATATTT
* **
63288218 AAAAATTGTAAAAA-ATTAAATGTTGTTAAAA-ATATTT
1 AAAAATTATAAAAATATTAAA-AATG-TAAAATATATTT
* * * *
63288255 TAAAATTCTAAAAAGGTTATTAAAAATAATAAAAATTTATTT
1 AAAAATTATAAAAA---TATTAAAAAT-GT-AAAATATATTT
***
63288297 AATTTTTA-AAAAATTATTAAAAATTGTAAA
1 AAAAATTATAAAAA-TATTAAAAA-TGTAAA
63288327 TAATTAACAA
Statistics
Matches: 120, Mismatches: 16, Indels: 25
0.75 0.10 0.16
Matches are distributed among these distances:
36 6 0.05
37 27 0.22
38 20 0.17
39 17 0.14
40 17 0.14
41 22 0.18
42 11 0.09
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (37 bp):
AAAAATTATAAAAATATTAAAAATGTAAAATATATTT
Found at i:63288326 original size:20 final size:19
Alignment explanation
Indices: 63288139--63288326 Score: 98
Period size: 20 Copynumber: 9.6 Consensus size: 19
63288129 GACTAGACCA
63288139 AAAAATTATAATAAAATATT
1 AAAAATTATAA-AAAATATT
*
63288159 AAAAATCATAAAATAATATTT
1 AAAAATTATAAAA-AATA-TT
63288180 AAAAA-TATATAAAAATATT
1 AAAAATTATA-AAAAATATT
* *
63288199 AAAAA-TGTAAAATATATTT
1 AAAAATTATAAAAAATA-TT
*
63288218 AAAAATTGT-AAAAA-ATT
1 AAAAATTATAAAAAATATT
** * *
63288235 AAATGTTGTTAAAAATATTT
1 AAAAATTATAAAAAATA-TT
* * *
63288255 TAAAATTCTAAAAAGGTTATT
1 AAAAATTATAAAAA--ATATT
* *
63288276 AAAAATAATAAAAATTTATT
1 AAAAATTATAAAAA-ATATT
* * *
63288296 -TAATTTTTAAAAAATTATT
1 AAAAATTATAAAAAA-TATT
*
63288315 AAAAATTGTAAA
1 AAAAATTATAAA
63288327 TAATTAACAA
Statistics
Matches: 131, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
17 9 0.07
18 12 0.09
19 37 0.28
20 48 0.37
21 23 0.18
22 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAAATTATAAAAAATATT
Found at i:63288355 original size:12 final size:12
Alignment explanation
Indices: 63288338--63288364 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63288328 AATTAACAAA
63288338 TCTCCTTCTTCT
1 TCTCCTTCTTCT
63288350 TCTCCTTCTTCT
1 TCTCCTTCTTCT
63288362 TCT
1 TCT
63288365 TCTATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCCTTCTTCT
Found at i:63288540 original size:21 final size:21
Alignment explanation
Indices: 63288516--63288706 Score: 67
Period size: 20 Copynumber: 9.6 Consensus size: 21
63288506 CCACCAATTC
*
63288516 ACAATTATTTAATCATTATTT
1 ACAATTATTTAATAATTATTT
*
63288537 ACAATTTTTTAATAATTA-TT
1 ACAATTATTTAATAATTATTT
* *
63288557 AGC-ATTTTTTAAT-ATT-TTCC
1 A-CAATTATTTAATAATTATT-T
*
63288577 CCAATT-TTTAATAATT-TTT
1 ACAATTATTTAATAATTATTT
* *
63288596 ACAAATT-TTAAATAAGGT-TTT
1 AC-AATTATTTAATAA-TTATTT
* *
63288617 ATAATT-TTTAATAACTTTTTTT
1 ACAATTATTTAATAA--TTATTT
* *
63288639 ACAA-CA-TTAA-AATATTTTT
1 ACAATTATTTAATAAT-TATTT
63288658 AACAA-TATTTAATAATTA-TT
1 -ACAATTATTTAATAATTATTT
* *
63288678 ACAA-TAATTAAT--TTTTTT
1 ACAATTATTTAATAATTATTT
63288696 ACAATT-TTTAA
1 ACAATTATTTAA
63288707 ATGTTTTTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.01
18 11 0.08
19 29 0.21
20 52 0.39
21 32 0.24
22 9 0.07
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (21 bp):
ACAATTATTTAATAATTATTT
Found at i:63288592 original size:10 final size:10
Alignment explanation
Indices: 63288579--63288636 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
63288569 TATTTTCCCC
63288579 AATTTTTAAT
1 AATTTTTAAT
63288589 AATTTTTACA-
1 AATTTTTA-AT
*
63288599 AATTTTAAAT
1 AATTTTTAAT
*
63288609 AAGGTTTT-AT
1 AA-TTTTTAAT
63288619 AATTTTTAAT
1 AATTTTTAAT
63288629 AACTTTTT
1 AA-TTTTT
63288637 TTACAACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 5 0.13
10 25 0.64
11 9 0.23
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:63288602 original size:20 final size:20
Alignment explanation
Indices: 63288518--63288636 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 20
63288508 ACCAATTCAC
*
63288518 AATTATTTAATCATTATTTACA
1 AATT-TTTAATAATT-TTTACA
* *
63288540 ATTTTTTAATAATTATTAGC-
1 AATTTTTAATAATTTTTA-CA
* ** *
63288560 ATTTTTTAAT-ATTTTCCCC
1 AATTTTTAATAATTTTTACA
63288579 AATTTTTAATAATTTTTACA
1 AATTTTTAATAATTTTTACA
* * *
63288599 AATTTTAAATAAGGTTTTA-T
1 AATTTTTAATAA-TTTTTACA
63288619 AATTTTTAATAACTTTTT
1 AATTTTTAATAA-TTTTT
63288637 TTACAACATT
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 13 0.17
20 45 0.58
21 15 0.19
22 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTTAATAATTTTTACA
Found at i:63288733 original size:20 final size:19
Alignment explanation
Indices: 63288687--63288761 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
63288677 TACAATAATT
*
63288687 AATTTTTTTACAATTTTTA
1 AATTTTTTTACAATTTGTA
**
63288706 AATGTTTTTTTTAATTTGTA
1 AAT-TTTTTTACAATTTGTA
* * *
63288726 ACATTTTTTAATAATTT-AA
1 A-ATTTTTTTACAATTTGTA
63288745 ATATTTTTTTACAATTT
1 A-ATTTTTTTACAATTT
63288762 ATATATATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 18 0.40
20 25 0.56
21 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (19 bp):
AATTTTTTTACAATTTGTA
Found at i:63288750 original size:19 final size:19
Alignment explanation
Indices: 63288728--63288767 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63288718 AATTTGTAAC
*
63288728 ATTTTTTAATAATTTAAAT
1 ATTTTTTAACAATTTAAAT
* *
63288747 ATTTTTTTACAATTTATAT
1 ATTTTTTAACAATTTAAAT
63288766 AT
1 AT
63288768 ATTACGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTTAACAATTTAAAT
Found at i:63290284 original size:18 final size:17
Alignment explanation
Indices: 63290270--63290307 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
63290260 ATAAAAACTA
63290270 TTTTAAAAAA-TAAAAT
1 TTTTAAAAAAGTAAAAT
*
63290286 TTATTAAAAAAGTATAAT
1 TT-TTAAAAAAGTAAAAT
63290304 TTTT
1 TTTT
63290308 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 10 0.53
18 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAAAAAGTAAAAT
Found at i:63290313 original size:18 final size:18
Alignment explanation
Indices: 63290270--63290315 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
63290260 ATAAAAACTA
63290270 TTTTAAAAAATAAAA-TT
1 TTTTAAAAAATAAAATTT
* *
63290287 TATTAAAAAAGTATAATTT
1 TTTTAAAAAA-TAAAATTT
63290306 TTTTAAAAAA
1 TTTTAAAAAA
63290316 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTTAAAAAATAAAATTT
Found at i:63290321 original size:18 final size:18
Alignment explanation
Indices: 63290270--63290322 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
63290260 ATAAAAACTA
* *
63290270 TTTT-AAAAAATAAAATT
1 TTTTAAAAAAATTAATTT
* *
63290287 TATTAAAAAAGTATAATTT
1 TTTTAAAAAAAT-TAATTT
63290306 TTTTAAAAAAATTAATT
1 TTTTAAAAAAATTAATT
63290323 AATTGCTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
19 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTTTAAAAAAATTAATTT
Found at i:63291160 original size:5 final size:5
Alignment explanation
Indices: 63291150--63291175 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
63291140 ATGCACTTGC
63291150 AGGTG AGGTG AGGTG AGGTG AGGTG A
1 AGGTG AGGTG AGGTG AGGTG AGGTG A
63291176 CCATATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
AGGTG
Found at i:63294206 original size:36 final size:38
Alignment explanation
Indices: 63294151--63294225 Score: 120
Period size: 36 Copynumber: 2.0 Consensus size: 38
63294141 GAATATATAA
63294151 TAAATATATTTTTTATTTTTTA-TTTTAAAAT-ATTTT
1 TAAATATATTTTTTATTTTTTATTTTTAAAATAATTTT
63294187 TAAA-ATACTTTTTTATTTTTTATTTTTAAAATAATTTT
1 TAAATATA-TTTTTTATTTTTTATTTTTAAAATAATTTT
63294225 T
1 T
63294226 TGGTGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.08
36 18 0.50
37 9 0.25
38 6 0.17
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (38 bp):
TAAATATATTTTTTATTTTTTATTTTTAAAATAATTTT
Found at i:63294234 original size:26 final size:26
Alignment explanation
Indices: 63294181--63294236 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
63294171 TATTTTAAAA
* * *
63294181 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTTAGTGTT
*
63294207 TATTTTTAAAATAATTTTTTGGTGTT
1 TATTTTTAAAATAATTTTTTAGTGTT
63294233 TATT
1 TATT
63294237 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
TATTTTTAAAATAATTTTTTAGTGTT
Found at i:63299374 original size:27 final size:28
Alignment explanation
Indices: 63299316--63299384 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
63299306 AAATTTTAGA
*
63299316 TTGTTGGATATTGATATATGTCTTGAAT
1 TTGTTGGATATTGATATATGTCTTGAAC
* *
63299344 TTGTTAGATATTGAT-TATGT-TTTAACC
1 TTGTTGGATATTGATATATGTCTTGAA-C
63299371 TTGTTGGATATTGA
1 TTGTTGGATATTGA
63299385 ATTGATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.11
27 18 0.50
28 14 0.39
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (28 bp):
TTGTTGGATATTGATATATGTCTTGAAC
Found at i:63300797 original size:14 final size:14
Alignment explanation
Indices: 63300774--63300813 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
63300764 ACAAAAAAGT
*
63300774 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
63300788 AAATCATTTTACGG
1 AAAACATTTTACAG
63300802 AAAACATTTTAC
1 AAAACATTTTAC
63300814 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:63305105 original size:20 final size:19
Alignment explanation
Indices: 63305067--63305105 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
63305057 GGTGAACACC
*
63305067 AGAACACTCGATACAAAGA
1 AGAACACCCGATACAAAGA
*
63305086 AGAACACCCAGATTCAAAGA
1 AGAACACCC-GATACAAAGA
63305106 TGCCCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.10
Consensus pattern (19 bp):
AGAACACCCGATACAAAGA
Found at i:63313482 original size:14 final size:14
Alignment explanation
Indices: 63313463--63313490 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63313453 GGCTTGAGAA
63313463 CTTAAATGGAAATT
1 CTTAAATGGAAATT
63313477 CTTAAATGGAAATT
1 CTTAAATGGAAATT
63313491 AACCAAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
CTTAAATGGAAATT
Found at i:63316944 original size:20 final size:20
Alignment explanation
Indices: 63316919--63316959 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
63316909 GTAGAAATTA
* *
63316919 TTATTCTCAGAAAATAGAAT
1 TTATTCTAAGAAAATAAAAT
63316939 TTATTCTAAGAAAATAAAAT
1 TTATTCTAAGAAAATAAAAT
63316959 T
1 T
63316960 CCTCTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
TTATTCTAAGAAAATAAAAT
Found at i:63317309 original size:24 final size:23
Alignment explanation
Indices: 63317273--63317318 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
63317263 GACCCCAATT
*
63317273 TTTTTATTTTATTACTAGTATATG
1 TTTTTATTGTATTA-TAGTATATG
*
63317297 TTTTTATTGTATTATATTATAT
1 TTTTTATTGTATTATAGTATAT
63317319 TTTATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (23 bp):
TTTTTATTGTATTATAGTATATG
Found at i:63317596 original size:13 final size:13
Alignment explanation
Indices: 63317574--63317609 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
63317564 AATAAATATT
63317574 ATTTAATTAATTA
1 ATTTAATTAATTA
*
63317587 ATTTAGTTAATTA
1 ATTTAATTAATTA
*
63317600 AATTAATTAA
1 ATTTAATTAA
63317610 ACTAATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTTAATTAATTA
Found at i:63317633 original size:16 final size:17
Alignment explanation
Indices: 63317603--63317636 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
63317593 TTAATTAAAT
63317603 TAATTAAACTAATTTTC
1 TAATTAAACTAATTTTC
63317620 TAATTAAA-TAATTTTC
1 TAATTAAACTAATTTTC
63317636 T
1 T
63317637 TAACTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTAAACTAATTTTC
Found at i:63320368 original size:31 final size:31
Alignment explanation
Indices: 63320320--63320903 Score: 358
Period size: 31 Copynumber: 18.8 Consensus size: 31
63320310 TTTGATTGTT
* * * *
63320320 TTATATATTGCCG-AATTAATTCGTATATAA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
63320350 CTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
63320381 TTATACAATGGTGAAATTGAA-TTGTATATGGATA
1 TTATACATTGCTGAAATT-AATTTGTATAT-G--A
* * *
63320415 TATATGGTTGTACATTGCTAAAATTTATTTGTATATGG
1 T-TA------TACATTGCTGAAATTAATTTGTATATGA
* *
63320453 TTATACATT-ATCGAAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTAATTTGTATATGA
** * *
63320484 AGATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
63320514 ATATACTTTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
63320545 TTATACATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* *
63320577 -TATA-AGTTGCTG-AATTAATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * * * *
63320606 TTGTACATTGCTAAAATTTATTTGTATCTGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
63320637 TTATACATT-ATAGAAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTAATTTGTATATGA
** * * *
63320668 AGATA-AGTTGCCG-AATTAATTCGTATATAA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
*
63320698 TTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
63320729 TTATACATT-TTGAAATTAAATTGTATATGGA
1 TTATACATTGCTGAAATTAATTTGTATAT-GA
* *
63320760 -TATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * ** *
63320789 TTATACATTGCTGAACTTGATTCATATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
** *
63320820 TTATACATT-CCCAAATTGATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
63320850 TTATACATTACCGAATTTGATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * * *
63320881 ATATATATTGTTG-AATTGATTTG
1 TTATACATTGCTGAAATTAATTTG
63320904 AGCATTGGAT
Statistics
Matches: 430, Mismatches: 87, Indels: 74
0.73 0.15 0.13
Matches are distributed among these distances:
29 6 0.01
30 158 0.37
31 232 0.54
32 6 0.01
34 1 0.00
35 2 0.00
37 2 0.00
38 1 0.00
40 2 0.00
41 20 0.05
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGA
Found at i:63320385 original size:61 final size:62
Alignment explanation
Indices: 63320320--63320879 Score: 381
Period size: 61 Copynumber: 9.0 Consensus size: 62
63320310 TTTGATTGTT
* * * *
63320320 TTATATATTGCCG-AATTAATTCGTATATAACTATACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* ** * *
63320381 TTATACAATGGTGAAATTGAA-TTGTATATGGATATATATGGTTGTACATTGCTAAAATTTATTT
1 TTATACATTGCCGAAATT-AATTTGTATAT-G--AT-TA------TACATTGCTGAAATTAATTT
63320445 GTATATGG
55 GTATATGG
** * ** * * *
63320453 TTATACATTATCGAAATTGATTTGTATATGAAGATA-AGTTGCCG-AATTAATTCGTATATGA
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACA-TTGCTGAAATTAATTTGTATATGG
* * * * *
63320514 ATATACTTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAA-TTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * * * *
63320576 ATATA-AGTTGCTG-AATTAATTCGTATATGGTTGTACATTGCTAAAATTTATTTGTATCTGG
1 TTATACA-TTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
*** * ** * * **
63320637 TTATACATTATAGAAATTGATTTGTATATGAAGATA-AGTTGCCG-AATTAATTCGTATATAA
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACA-TTGCTGAAATTAATTTGTATATGG
* * * *
63320698 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATT-TTGAAATTAAATTGTATATGG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* * * * **
63320759 ATATA-AGTTGCCG-AATTAATTCGTATATGATTATACATTGCTGAACTTGATTCATATATGG
1 TTATACA-TTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
* * * * * *
63320820 TTATACATT-CCCAAATTGATTTGTATATGATTATACATTACCGAATTTGATTTGTATATG
1 TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATG
63320880 AATATATATT
Statistics
Matches: 381, Mismatches: 90, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
60 29 0.08
61 229 0.60
62 64 0.17
63 4 0.01
65 1 0.00
66 2 0.01
68 1 0.00
69 1 0.00
71 2 0.01
72 48 0.13
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (62 bp):
TTATACATTGCCGAAATTAATTTGTATATGATTATACATTGCTGAAATTAATTTGTATATGG
Found at i:63320439 original size:41 final size:41
Alignment explanation
Indices: 63320374--63320457 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
63320364 AATTAATTTG
* *
63320374 TATATGGTTATACAATGGTGAAATTGAATTGTATATGGATA
1 TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
* * * * *
63320415 TATATGGTTGTACATTGCTAAAATTTATTTGTATATGGTTA
1 TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
63320456 TA
1 TA
63320458 CATTATCGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (41 bp):
TATATGGTTATACAATGCTAAAATTGAATTGTATATGGATA
Found at i:63320572 original size:92 final size:91
Alignment explanation
Indices: 63320425--63320903 Score: 577
Period size: 92 Copynumber: 5.2 Consensus size: 91
63320415 TATATGGTTG
* * *
63320425 TACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
63320490 GTTGCCGAATTAATTCGTATATGAATA
65 GTTGCCGAATTAATTCGTATATGAATA
* * * *
63320517 TACTTTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
* ** *
63320582 GTTGCTGAATTAATTCGTATATGGTTG
65 GTTGCCGAATTAATTCGTATATGAATA
* * * * *
63320609 TACATTGCTAAAATTTATTTGTATCTGGTTATACATTATAGAAATTGATTTGTATATGAAGATAA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATT-TCGAAATTGATTTGTATATGAATATAA
63320674 GTTGCCGAATTAATTCGTATAT-AATTA
65 GTTGCCGAATTAATTCGTATATGAA-TA
* * * *
63320701 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTTGAAATTAAATTGTATATGGATATAAG
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATAAG
*
63320766 TTGCCGAATTAATTCGTATATGATTA
66 TTGCCGAATTAATTCGTATATGAATA
* * ** * * *
63320792 TACATTGCTGAACTTGATTCATATATGGTTATACATTCCCAAATTGATTTGTATATGATTATACA
1 TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATA-A
* * *
63320857 -TTACCGAATTTGATTTGTATATGAATA
65 GTTGCCGAA-TTAATTCGTATATGAATA
* * *
63320884 TATATTGTTG-AATTGATTTG
1 TACATTGCTGAAATTAATTTG
63320904 AGCATTGGAT
Statistics
Matches: 329, Mismatches: 54, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
91 112 0.34
92 217 0.66
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (91 bp):
TACATTGCTGAAATTAATTTGTATATGGTTATACATTTCGAAATTGATTTGTATATGAATATAAG
TTGCCGAATTAATTCGTATATGAATA
Found at i:63323716 original size:25 final size:24
Alignment explanation
Indices: 63323688--63323735 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
63323678 ATCTAAGCAA
63323688 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
* *
63323713 TATAATGGGTAGCTCCAAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
63323736 AATTAACAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:63323747 original size:24 final size:24
Alignment explanation
Indices: 63323683--63323773 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 24
63323673 AGCTTATCTA
* *
63323683 AGCAATATAACGGGAAGCTCACAAAG
1 AGCAAT-TAAAGGGTAGCTC-CAAAG
* *
63323709 AGC-CTATAATGGGTAGCTCCAAAG
1 AGCAAT-TAAAGGGTAGCTCCAAAG
* *
63323733 AGCAATTAACA-GGTAGTTCCGAAG
1 AGCAATTAA-AGGGTAGCTCCAAAG
63323757 AGCAATTAAAGGGTAGC
1 AGCAATTAAAGGGTAGC
63323774 ATCGGGTAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 36 0.67
25 14 0.26
26 3 0.06
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (24 bp):
AGCAATTAAAGGGTAGCTCCAAAG
Found at i:63323998 original size:24 final size:24
Alignment explanation
Indices: 63323968--63324023 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
63323958 AAGAACACTA
63323968 TAACGGGAAGCTTGAAAGGGCTTG
1 TAACGGGAAGCTTGAAAGGGCTTG
63323992 TAACGGGAAGCTTGAAAGGGCTTG
1 TAACGGGAAGCTTGAAAGGGCTTG
63324016 TAACGGGA
1 TAACGGGA
63324024 CGCTCTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.38, T:0.20
Consensus pattern (24 bp):
TAACGGGAAGCTTGAAAGGGCTTG
Found at i:63331123 original size:46 final size:45
Alignment explanation
Indices: 63331056--63331335 Score: 348
Period size: 46 Copynumber: 6.6 Consensus size: 45
63331046 TTTGAGTACT
*
63331056 TCTGATCAGGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
63331102 TCTGATCAAGTGACAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
63331138 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
63331184 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
63331230 TCTGATCAAGTGACAAAGTGAT-A-----AG-TT--CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
63331266 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
63331311 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
63331336 ATCATATGTA
Statistics
Matches: 210, Mismatches: 5, Indels: 41
0.82 0.02 0.16
Matches are distributed among these distances:
36 62 0.30
37 3 0.01
38 2 0.01
40 4 0.02
42 4 0.02
43 14 0.07
44 5 0.02
45 19 0.09
46 97 0.46
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:63331193 original size:82 final size:82
Alignment explanation
Indices: 63331056--63331210 Score: 274
Period size: 82 Copynumber: 1.9 Consensus size: 82
63331046 TTTGAGTACT
* * * *
63331056 TCTGATCAGGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
63331121 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
63331138 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
63331203 GATAAGTG
66 GATAAGTG
63331211 GTAGCTTTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGCTACACTTA
Found at i:63331261 original size:82 final size:79
Alignment explanation
Indices: 63331175--63331334 Score: 275
Period size: 82 Copynumber: 2.0 Consensus size: 79
63331165 GTAGCTTTAG
63331175 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AG
*
63331240 TGACAAAGTGATAAGTT
64 GGAC-AAGTGATAAGTT
*
63331257 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGG
1 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGG
63331322 ACAAGTGATAAGT
66 ACAAGTGATAAGT
63331335 GATCATATGT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
79 11 0.14
80 5 0.07
81 20 0.26
82 40 0.53
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (79 bp):
CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGG
ACAAGTGATAAGTT
Found at i:63331284 original size:128 final size:127
Alignment explanation
Indices: 63331056--63331335 Score: 483
Period size: 128 Copynumber: 2.2 Consensus size: 127
63331046 TTTGAGTACT
* *
63331056 TCTGATCAGGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
63331121 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTTAGCTACACTTA
66 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGC-TTAGCTACACTTA
63331184 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* * *
63331249 GATAAGTTCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
66 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
*
63331311 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
63331336 ATCATATGTA
Statistics
Matches: 146, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
125 12 0.08
126 5 0.03
127 20 0.14
128 109 0.75
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (127 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
Found at i:63331591 original size:20 final size:20
Alignment explanation
Indices: 63331563--63331603 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
63331553 AAATGTTTGG
*
63331563 TAAGGTTTCTATGAA-CTTAC
1 TAAGCTTTCTAT-AAGCTTAC
63331583 TAAGCTTTCTATAAGCTTAC
1 TAAGCTTTCTATAAGCTTAC
63331603 T
1 T
63331604 TGTGTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
TAAGCTTTCTATAAGCTTAC
Found at i:63331992 original size:8 final size:8
Alignment explanation
Indices: 63331939--63331983 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
63331929 TTAAAAAAAT
63331939 ATTATTAA
1 ATTATTAA
63331947 ATTATT--
1 ATTATTAA
63331953 ATTATTAA
1 ATTATTAA
63331961 ATTATTAA
1 ATTATTAA
63331969 ATTATTAA
1 ATTATTAA
63331977 ATTATTA
1 ATTATTA
63331984 TTATATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.17
8 29 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTATTAA
Found at i:63332131 original size:16 final size:17
Alignment explanation
Indices: 63332110--63332141 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63332100 TATTGTATTA
63332110 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
63332126 TATTATATTTATTAAA
1 TATTATATTTATTAAA
63332142 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:63332178 original size:18 final size:17
Alignment explanation
Indices: 63332157--63332196 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
63332147 AACAAAACAT
*
63332157 AAACTAAAAGAATAAAAG
1 AAAC-AAAAGAAGAAAAG
*
63332175 AAACAAAAGGAGAAAAG
1 AAACAAAAGAAGAAAAG
63332192 AAACA
1 AAACA
63332197 GAATAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.05
Consensus pattern (17 bp):
AAACAAAAGAAGAAAAG
Found at i:63333165 original size:39 final size:40
Alignment explanation
Indices: 63333122--63333209 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
63333112 CGAATTATAG
* * *
63333122 AATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAA
*
63333161 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
*
63333201 ATTACTGAA
1 AATACTGAA
63333210 GTAAAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 21 0.50
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (40 bp):
AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
Found at i:63333436 original size:38 final size:39
Alignment explanation
Indices: 63333384--63333466 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
63333374 ATTTGCCGAC
*
63333384 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
* *
63333422 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTGTTACTG
63333461 TTACTG
1 TTACTG
63333467 TTACCGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 12 0.30
39 28 0.70
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
Found at i:63333464 original size:39 final size:39
Alignment explanation
Indices: 63333384--63333559 Score: 140
Period size: 45 Copynumber: 4.2 Consensus size: 39
63333374 ATTTGCCGAC
* * *
63333384 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
63333422 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
63333461 TTACTGTTACCGACTCGGCACGTTGTGTGTCGAATACTGTTACCATTACTG
1 TTAC---T---GATTCGGCACTTTGTGTGTCGAATACTG------TTACTG
* * * *
63333512 TTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
63333551 TTACTGATT
1 TTACTGATT
63333560 ACTGTATACT
Statistics
Matches: 111, Mismatches: 13, Indels: 27
0.74 0.09 0.18
Matches are distributed among these distances:
38 12 0.11
39 39 0.35
42 1 0.01
45 49 0.44
51 10 0.09
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:63333479 original size:45 final size:45
Alignment explanation
Indices: 63333411--63333561 Score: 212
Period size: 45 Copynumber: 3.3 Consensus size: 45
63333401 ATGTGCCGAC
*
63333411 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
63333456 TACTGTTACTGTTACCGACTCGGCACGTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
** * * *
63333501 TACCATTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
63333546 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
63333562 TGTATACTGG
Statistics
Matches: 92, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 88 0.96
46 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:63345192 original size:12 final size:12
Alignment explanation
Indices: 63345175--63345199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63345165 TTTAAAAACC
63345175 AAATTTAAACTA
1 AAATTTAAACTA
63345187 AAATTTAAACTA
1 AAATTTAAACTA
63345199 A
1 A
63345200 TTACAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTTAAACTA
Found at i:63348346 original size:50 final size:51
Alignment explanation
Indices: 63348230--63348362 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
63348220 CCATGACAGC
* * *
63348230 GGTATATGGCGTAAAACCATAGATGAAAGAGGTTATGCCAATCTGGTATAA
1 GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
* * * * *
63348281 GGTATATGGCATAAGACTATAGACGAACGAGG-TATGACAGTCTGGTTTAA
1 GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
* *
63348331 GGTATATGGCGTAAGATCATAGATGAAAGAGG
1 GGTATATGGCGTAAGACCATAGACGAAAGAGG
63348363 CTATTTGTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (51 bp):
GGTATATGGCGTAAGACCATAGACGAAAGAGGTTATGACAATCTGGTATAA
Found at i:63351501 original size:21 final size:22
Alignment explanation
Indices: 63351477--63351521 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
63351467 AGAAAACGAG
63351477 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
63351498 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
63351520 AA
1 AA
63351522 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:63353883 original size:32 final size:33
Alignment explanation
Indices: 63353824--63353997 Score: 199
Period size: 35 Copynumber: 5.2 Consensus size: 33
63353814 CAGGTCCAAA
* *
63353824 AAGAAATAATACATGAACAGGAGAGATTCCCTGC
1 AAGAAATAAT-CGTGAACAGGAAAGATTCCCTGC
* * *
63353858 AAGAAATGAT-GTAAACAGTAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
* *
63353890 AACAAAATAATGCGTGAACAGGAGAGATTCCCTGC
1 AA-GAAATAAT-CGTGAACAGGAAAGATTCCCTGC
*
63353925 AAGAAATGAT-GTGAACAGGAAAGATTCCCTGC
1 AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
* *
63353957 AACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
63353992 AAGAAA
1 AAGAAA
63353998 AGACAAGTGA
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
32 44 0.38
33 11 0.09
34 17 0.15
35 45 0.38
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (33 bp):
AAGAAATAATCGTGAACAGGAAAGATTCCCTGC
Found at i:63353935 original size:67 final size:67
Alignment explanation
Indices: 63353827--63353997 Score: 279
Period size: 67 Copynumber: 2.6 Consensus size: 67
63353817 GTCCAAAAAG
* * *
63353827 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGTAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
63353892 CA
66 CA
*
63353894 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
63353959 CA
66 CA
* * *
63353961 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAA
63353998 AGACAAGTGA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 97 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
CA
Found at i:63354286 original size:14 final size:13
Alignment explanation
Indices: 63354261--63354294 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
63354251 TGAAAATTTG
*
63354261 AAATTAATTTTTC
1 AAATTAAGTTTTC
63354274 AAACTTAAGTTTTC
1 AAA-TTAAGTTTTC
63354288 AAATTAA
1 AAATTAA
63354295 AAATATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (13 bp):
AAATTAAGTTTTC
Found at i:63355375 original size:21 final size:22
Alignment explanation
Indices: 63355345--63355389 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
63355335 GAGCAAATTG
63355345 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
63355367 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
63355388 TT
1 TT
63355390 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:63359959 original size:17 final size:17
Alignment explanation
Indices: 63359938--63359974 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
63359928 AAAATGAAAC
63359938 AAAAAGAAAAAGAAAGA
1 AAAAAGAAAAAGAAAGA
*
63359955 AAAAAGAAGAAGAAAGA
1 AAAAAGAAAAAGAAAGA
63359972 AAA
1 AAA
63359975 TGGAGAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAGA
Found at i:63362762 original size:28 final size:27
Alignment explanation
Indices: 63362710--63362763 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
63362700 GACGAGACAA
** *
63362710 TAAACAAGGGTAAGTTTGTTGGGATAG
1 TAAACAAGGGTAAGTCCGTTAGGATAG
63362737 TAAACATAGGGTAAGTCCGTTAGGATA
1 TAAACA-AGGGTAAGTCCGTTAGGATA
63362764 AGGGAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (27 bp):
TAAACAAGGGTAAGTCCGTTAGGATAG
Found at i:63365982 original size:23 final size:23
Alignment explanation
Indices: 63365939--63365982 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
63365929 ACACATAAAG
* *
63365939 GAACAAAAAGCATGCAGTGAAAA
1 GAACAAAAAACAAGCAGTGAAAA
63365962 GAACAAAAAACACAGCA-TGAA
1 GAACAAAAAACA-AGCAGTGAA
63365983 GGCCTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.59, C:0.16, G:0.18, T:0.07
Consensus pattern (23 bp):
GAACAAAAAACAAGCAGTGAAAA
Found at i:63369147 original size:15 final size:15
Alignment explanation
Indices: 63369127--63369160 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
63369117 CCATCATATA
63369127 TGTATACTTTTTTGC
1 TGTATACTTTTTTGC
63369142 TGTATACTTTTTTGC
1 TGTATACTTTTTTGC
63369157 TGTA
1 TGTA
63369161 ACTATCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (15 bp):
TGTATACTTTTTTGC
Found at i:63373845 original size:96 final size:96
Alignment explanation
Indices: 63373681--63374026 Score: 417
Period size: 96 Copynumber: 3.6 Consensus size: 96
63373671 TTGGAGTCTG
** * * * * * **
63373681 GGGCTAACTCTAGTATTTGGTGTCTTTCTTGAATCGGGTACATTCTGTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
63373746 GTTATCACCATTTGGTAGAGTTTGAAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* * *
63373777 GGGCTAACTCTAGTATTTAACGTCTTTCTTGAGTCAGTTGGATCCCATGTCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
63373842 GTTATCAACATTTGGTACATTTTGGAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* ** * * *
63373873 GGGCTAACTCTAGTA-TTAGATGTCTTTATTGAGAGAGTTGCATCCCTTAAT-TTCTCAGTGTTG
1 GGGCTAACTCTAGTATTTA-ATGTCTTTCTTGAGTCAGTTGCATCCCAT-ATCTTCTCAATGTTT
*
63373936 GAGTTATCACCATTAGGTAGATTTTGGAACCTT
64 GAGTTATCACCATTTGGTAGATTTTGGAACCTT
* * * *
63373969 GGGCTAACTCTAGTATTTGATGTCTTTCTTGGGTCGGTTGCACCCCATATCTTCTCAA
1 GGGCTAACTCTAGTATTTAATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAA
63374027 ATTTTGGTAG
Statistics
Matches: 209, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
95 5 0.02
96 201 0.96
97 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
GTTATCACCATTTGGTAGATTTTGGAACCTT
Found at i:63374155 original size:177 final size:177
Alignment explanation
Indices: 63373852--63374431 Score: 923
Period size: 177 Copynumber: 3.3 Consensus size: 177
63373842 GTTATCAACA
* * *
63373852 TTTGGTACATTTTGGAACCTTGGGCTAACTCTAGTATTAGATGTCTTTATTGAGAGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
* * * *
63373917 CCTTAAT-TTCTCAGTGTTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGGGCTAACTCTA
66 CCTT-TTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
* *
63373981 GTATTTGATGTCTTTCTTGGGTCGGTTGCACCCCATATCTTCTCAAAT
130 GTATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
*
63374029 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGGGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
**
63374094 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGAACTAACTCTAG
66 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
63374159 TATTTGATGT-TGTTCTTGAGTCGGTTGCATCCCATATCTTCTC-AAT
131 TATTTGATGTCT-TTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
*
63374205 ATTTGGTAGATTTTGGAACCTTGGGCTAGCTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
1 -TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
63374270 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
65 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
* * * ** *
63374335 GTATTTGATTTCTTTCTTGTGTCAGTTGCATCCCGCATCTTCACAAAT
130 GTATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
63374383 TTTGGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTG
1 TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTG
63374432 CCGAGTCAGT
Statistics
Matches: 373, Mismatches: 25, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
176 5 0.01
177 364 0.98
178 4 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (177 bp):
TTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
TATTTGATGTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
Found at i:63374267 original size:81 final size:81
Alignment explanation
Indices: 63374128--63374283 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
63374118 ACCACCATTA
*
63374128 GGTAGATTTTGAAACCTTGAACTAACTCTAGTATTTGATGTTGTTCTTGAGTCGGTTGCATCCCA
1 GGTAGATTTTGAAACCTTGAACTAACTCTAGTATTTGATGTTGTTCTTGAGTAGGTTGCATCCCA
63374193 TATCTTCTCAATATTT
66 TATCTTCTCAATATTT
* ** * *
63374209 GGTAGATTTTGGAACCTTGGGCTAGCTCTAGTATTTGATGTCT-TTGTTGAG-AGAGTTGCATCC
1 GGTAGATTTTGAAACCTTGAACTAACTCTAGTATTTGATGT-TGTTCTTGAGTAG-GTTGCATCC
* *
63374272 CTTTTCTTCTCA
64 CATATCTTCTCA
63374284 TTGTTGGAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.97
82 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTAGATTTTGAAACCTTGAACTAACTCTAGTATTTGATGTTGTTCTTGAGTAGGTTGCATCCCA
TATCTTCTCAATATTT
Found at i:63374440 original size:81 final size:82
Alignment explanation
Indices: 63374305--63374466 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 82
63374295 ACCACCATTA
* * * *
63374305 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGTGTCAGTTGCATCCCG
1 GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATCCCG
63374370 CATCTTCACAA-ATTTT
66 CATCTTCACAATATTTT
* * *
63374386 GGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGC-CGAGTCAGTTTCATTCC
1 GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTT-CTCGAGTCAGTTGCATCCC
*
63374450 GTATCTTCACAATATTT
65 GCATCTTCACAATATTT
63374467 GAGTTAGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
81 66 0.93
82 5 0.07
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (82 bp):
GGTAGATTTTGAAACCTCGGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATCCCG
CATCTTCACAATATTTT
Found at i:63374517 original size:69 final size:69
Alignment explanation
Indices: 63374404--63374540 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
63374394 TTGGAACCTC
**
63374404 GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTTTCATTCCGTATCTTCACAATATTTGA
1 GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTCGCATTCCGTATCTTCACAATATTTGA
63374469 GTTA
66 GTTA
* * * * *
63374473 GGGCTAGCTCTAGTATTTGATTTCTTT-CCTGAGTCAGTCGCATTCCTTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGATATCTTTGCC-GAGTCAGTCGCATTCCGTATCTTCACAATATTTG
63374537 AGTT
65 AGTT
63374541 CCCAACGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (69 bp):
GGGCTAACTCTAGTATTTGATATCTTTGCCGAGTCAGTCGCATTCCGTATCTTCACAATATTTGA
GTTA
Found at i:63374612 original size:96 final size:96
Alignment explanation
Indices: 63374473--63374675 Score: 266
Period size: 96 Copynumber: 2.1 Consensus size: 96
63374463 ATTTGAGTTA
* * * *
63374473 GGGCTAGCTCTAGTATTTGATTTCTTTCCTGAGTCAGTCGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCGA
*
63374538 GTTCCCA-ACGTTTAGTAGATTTTGAAACCTT
66 GTTACCACA-GTTTAGTAGATTTTGAAACCTT
* * * * *
63374569 GGGCTACCTCTAGTATTTAATGTT-TTTCTTGATTTAGTTGCATTCCATATCTTCTCAATGTTCG
1 GGGCTAACTCTAGTATTTAAT-TTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCG
*
63374633 AGTTACCACAGTTTGGTAGATTTTGAAACCTT
65 AGTTACCACAGTTTAGTAGATTTTGAAACCTT
*
63374665 GGACTAACTCT
1 GGGCTAACTCT
63374676 TCGCTGTATT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 90 0.97
97 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTCGCATTCCATATCTTCTCAATGTTCGA
GTTACCACAGTTTAGTAGATTTTGAAACCTT
Found at i:63387514 original size:159 final size:158
Alignment explanation
Indices: 63387250--63387545 Score: 405
Period size: 159 Copynumber: 1.9 Consensus size: 158
63387240 TAGCGGCGTT
*** * *
63387250 CCGCCATAGGTCGACCATTAGCGGTGTTTTTTAAAAAATGCCGCAAAAAAATTAAGCACAACACC
1 CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCACAAAAAAATTAAGCACAACACC
* * * *
63387315 GTCGTTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTGAAAAATGCCGCTATAGATCGAG
66 ATCATTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTAAAAAACGCCGCTATAGATCGAG
63387380 CTTTAGCAGCTCTTTTAAAAAAAAAACG
131 CTTTAGCAGCTCTTTTAAAAAAAAAACG
* * **
63387408 CCGCTATAGGTCGACCATTAGCGGCACTTTTTGAAAAACGCCACAAAAAAAATTAAGCACAATGC
1 CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCAC-AAAAAAATTAAGCACAACAC
* * * *
63387473 CATCATTTTATGTTGAGCTTTAGTGGCATTA-ACGGCGCTTTTTAAAAAACGTCGCTATAGATCG
65 CATCATTTTATGTTGAGCTTTAGTGGCACTAGA-GACCCTTTTTAAAAAACGCCGCTATAGATCG
*
63387537 AGTTTTAGC
129 AGCTTTAGC
63387546 GGCGCTTTAT
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
158 38 0.32
159 80 0.68
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (158 bp):
CCGCCATAGGTCGACCATTAGCGGCACTTTTTAAAAAACGCCACAAAAAAATTAAGCACAACACC
ATCATTTTATGTTGAGCTTTAGTGGCACTAGAGACCCTTTTTAAAAAACGCCGCTATAGATCGAG
CTTTAGCAGCTCTTTTAAAAAAAAAACG
Found at i:63392457 original size:24 final size:24
Alignment explanation
Indices: 63392423--63392468 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
63392413 TCATTTATTC
* *
63392423 ATCAAGTTTTCAATTAATTCATGA
1 ATCAAGCTTTCAATTAAGTCATGA
63392447 ATCAAGCTTTCAATTAAGTCAT
1 ATCAAGCTTTCAATTAAGTCAT
63392469 TCATTAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (24 bp):
ATCAAGCTTTCAATTAAGTCATGA
Found at i:63392572 original size:23 final size:22
Alignment explanation
Indices: 63392546--63392591 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
63392536 GTCTTTTCTA
*
63392546 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATAAAG-TCTTT
*
63392569 TTAAGTTTTTCATAAAGTCTTT
1 TTAAGTTTTGCATAAAGTCTTT
63392591 T
1 T
63392592 CATAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (22 bp):
TTAAGTTTTGCATAAAGTCTTT
Found at i:63392593 original size:13 final size:12
Alignment explanation
Indices: 63392571--63392615 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
63392561 AGTTCTTTTT
63392571 AAGTTTTTCATA
1 AAGTTTTTCATA
63392583 AAGTCTTTTCATA
1 AAGT-TTTTCATA
* * *
63392596 AAATTTTCCATC
1 AAGTTTTTCATA
63392608 AAGTTTTT
1 AAGTTTTT
63392616 AATCATTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (12 bp):
AAGTTTTTCATA
Found at i:63395257 original size:19 final size:19
Alignment explanation
Indices: 63395233--63395271 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
63395223 GAGCATTTTT
63395233 TTTACTGATGCACAAACCC
1 TTTACTGATGCACAAACCC
63395252 TTTACTGATGCACAAACCC
1 TTTACTGATGCACAAACCC
63395271 T
1 T
63395272 CAGAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (19 bp):
TTTACTGATGCACAAACCC
Found at i:63395480 original size:24 final size:24
Alignment explanation
Indices: 63395453--63395503 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
63395443 TAAATTACGA
*
63395453 ACAAA-ATTATACATAAAAATATAT
1 ACAAATATTATAAATAAAAA-ATAT
*
63395477 ACAAATTTTATAAATAAAAAATAT
1 ACAAATATTATAAATAAAAAATAT
63395501 ACA
1 ACA
63395504 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ACAAATATTATAAATAAAAAATAT
Found at i:63396615 original size:114 final size:114
Alignment explanation
Indices: 63396429--63396909 Score: 694
Period size: 114 Copynumber: 4.2 Consensus size: 114
63396419 GTTTCCCAGA
* * * * * *
63396429 AAGCGCTGATAATGTTCA-GGCTTTAGCGGCGTTTTTGAGAAAGCACCACAAAAAAACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACCTAAGCC
*
63396493 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAAT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* * *
63396542 ATGCGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACCTAAGCC
* *
63396607 CAACGACGCCGTTTTGTGAGCTTTTGGGGATTTAGTGGCGTTTTTAAGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* * * *
63396656 AAGTGCCGCTAATGCTCAGGGCTTTATCGGCGTTTTTGGGAAGGCGCCGCAAAAATACCTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACCTAAGCC
* * *
63396721 CAACGACGCTGTTTACTGAGCTTTCGGGGATTTAGTGGCGTTTTTATGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* *
63396770 AAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACTTAAGCC
1 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACCTAAGCC
* * * * * *
63396835 CAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGACGTTTGTATGT
66 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
* *
63396884 AAGCGCCGCTAATACTCAGGGATTTA
1 AAGCGCCGCTAATGCTCAGGGCTTTA
63396910 AAATAATTTA
Statistics
Matches: 329, Mismatches: 38, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
113 14 0.04
114 315 0.96
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (114 bp):
AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGCAAAAATACCTAAGCC
CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGT
Found at i:63397482 original size:14 final size:15
Alignment explanation
Indices: 63397455--63397488 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
63397445 TAAGTTTTAT
63397455 AGATTATGGAATTAG
1 AGATTATGGAATTAG
63397470 AGATTAT-GAATTAG
1 AGATTATGGAATTAG
*
63397484 GGATT
1 AGATT
63397489 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:63397559 original size:7 final size:7
Alignment explanation
Indices: 63397511--63397561 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
63397501 TTAATGTGAT
*
63397511 TTAGGGT
1 TTAGGGG
*
63397518 TTATGGG
1 TTAGGGG
*
63397525 TTAAGGG
1 TTAGGGG
63397532 TTAGGGG
1 TTAGGGG
*
63397539 TTAGGGA
1 TTAGGGG
63397546 TTA--GG
1 TTAGGGG
63397551 TTAGGGG
1 TTAGGGG
63397558 TTAG
1 TTAG
63397562 ATGTTAAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 4 0.11
7 32 0.89
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:63397678 original size:95 final size:96
Alignment explanation
Indices: 63397602--63397775 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
63397592 ATTTGGTGTT
*
63397602 AGGTTA-GAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TTATATATTAAATAAGGTTTAGG
1 AGGTTATG-GTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGG
***
63397665 GGTTAGGGATTAGGGGCTAGGGGCTAGGGATC
65 GGTTAGGGATTAGGGGCTAGAAACTAGGGATC
* *
63397697 GGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAGGG
1 AGGTTATGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGG
*
63397762 GTTAGGGGTTAGGG
66 GTTAGGGATTAGGG
63397776 ATTTGGGGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
95 36 0.49
96 37 0.51
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.40
Consensus pattern (96 bp):
AGGTTATGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGG
GTTAGGGATTAGGGGCTAGAAACTAGGGATC
Found at i:63397775 original size:82 final size:84
Alignment explanation
Indices: 63397674--63397841 Score: 198
Period size: 89 Copynumber: 2.0 Consensus size: 84
63397664 GGGTTAGGGA
* * **
63397674 TTAGGGGCTAGGGGCTAGGGA-TCGGGTTATGGTTTAGGGTTT-A-GATTAATTAGTGTTTTTTA
1 TTAGGGGCTAGGGGCTAGGGATTCGGGGT-TGGGTTAGGGTTTAATGATTAATTAGTACTTTTTA
63397736 ATTTATATATTAAATAAAGT
65 ATTTATATATTAAATAAAGT
* * *
63397756 TTAGGGGTTAGGGGTTAGGGATTTGGGGTTGGGTTAGGGTTTAAGATTTGGATTAATTAGTACTT
1 TTAGGGGCTAGGGGCTAGGGATTCGGGGTTGGGTTAGGGTTT-A-A--T-GATTAATTAGTACTT
63397821 TTTAATTTATATATTAAATAA
61 TTTAATTTATATATTAAATAA
63397842 GTTCTTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
82 31 0.44
83 5 0.07
85 1 0.01
89 34 0.48
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (84 bp):
TTAGGGGCTAGGGGCTAGGGATTCGGGGTTGGGTTAGGGTTTAATGATTAATTAGTACTTTTTAA
TTTATATATTAAATAAAGT
Found at i:63397943 original size:21 final size:21
Alignment explanation
Indices: 63397890--63397943 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
63397880 TAAAGATTAT
63397890 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
63397911 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
63397932 TAATTTAAAATT
1 TAATTTAAAATT
63397944 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:63397952 original size:9 final size:9
Alignment explanation
Indices: 63397938--63397981 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
63397928 ATAATAATTT
63397938 AAAATTGTA
1 AAAATTGTA
63397947 AAAATTGT-
1 AAAATTGTA
63397955 AAAATTGTAAAA
1 AAAATTGT---A
63397967 AAAATTGTA
1 AAAATTGTA
63397976 AAAATT
1 AAAATT
63397982 ACAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
12 8 0.26
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (9 bp):
AAAATTGTA
Found at i:63397959 original size:17 final size:16
Alignment explanation
Indices: 63397933--63397967 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
63397923 TGAATATAAT
63397933 AATTTAAAATTGTAAA
1 AATTTAAAATTGTAAA
63397949 AATTGTAAAATTGTAAA
1 AATT-TAAAATTGTAAA
63397966 AA
1 AA
63397968 AAATTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AATTTAAAATTGTAAA
Found at i:63397978 original size:8 final size:8
Alignment explanation
Indices: 63397933--63397966 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
63397923 TGAATATAAT
63397933 AATT-TAA
1 AATTGTAA
63397940 AATTGTAAA
1 AATTGT-AA
63397949 AATTGTAA
1 AATTGTAA
63397957 AATTGTAA
1 AATTGTAA
63397965 AA
1 AA
63397967 AAAATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AATTGTAA
Found at i:63397978 original size:11 final size:12
Alignment explanation
Indices: 63397955--63397979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63397945 TAAAAATTGT
63397955 AAAATTGTAAAA
1 AAAATTGTAAAA
63397967 AAAATTGTAAAA
1 AAAATTGTAAAA
63397979 A
1 A
63397980 TTACAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTGTAAAA
Found at i:63397987 original size:20 final size:20
Alignment explanation
Indices: 63397946--63397990 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
63397936 TTAAAATTGT
*
63397946 AAAAATTGTAAAATTGTAAA
1 AAAAATTGTAAAAATGTAAA
*
63397966 AAAAATTGTAAAAAT-TACA
1 AAAAATTGTAAAAATGTAAA
63397985 AAAAAT
1 AAAAAT
63397991 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAAATTGTAAAAATGTAAA
Found at i:63398005 original size:18 final size:19
Alignment explanation
Indices: 63397984--63398033 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
63397974 TAAAAATTAC
63397984 AAAAAATAAAATTA-AAAT
1 AAAAAATAAAATTAGAAAT
63398002 AAAAAATAAAA--AGAAAT
1 AAAAAATAAAATTAGAAAT
63398019 AAAAACACTAAAATT
1 AAAAA-A-TAAAATT
63398034 TTTAGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 9 0.33
18 12 0.44
19 5 0.19
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAATTAGAAAT
Found at i:63398080 original size:47 final size:49
Alignment explanation
Indices: 63398018--63398117 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 49
63398008 TAAAAAGAAA
** * *
63398018 TAAAAACACTAAAATTTTTAGTTTTACCTAA-TTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTTATAAATATTACC
* * *
63398066 TAAAAA-ACTGAAATTGATAATTTTATCTAATTTTTTTTAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTTATAAATATTACC
63398114 TAAA
1 TAAA
63398118 TTAACAAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 19 0.43
48 25 0.57
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (49 bp):
TAAAAACACTAAAATTGATAATTTTACCTAATTTTTTATAAATATTACC
Found at i:63399423 original size:6 final size:6
Alignment explanation
Indices: 63399412--63399494 Score: 166
Period size: 6 Copynumber: 13.8 Consensus size: 6
63399402 AAAATTTATA
63399412 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
63399460 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
63399495 ACAGAATTGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:63400340 original size:18 final size:19
Alignment explanation
Indices: 63400317--63400360 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
63400307 CATAATTTTC
*
63400317 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
63400335 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
63400354 TGTTTCT
1 TGTTTCT
63400361 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:63400376 original size:7 final size:7
Alignment explanation
Indices: 63400364--63400412 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
63400354 TGTTTCTTTA
63400364 TTTTCTG
1 TTTTCTG
63400371 TTTTCTG
1 TTTTCTG
*
63400378 TTTTCTA
1 TTTTCTG
63400385 TTTTCTG
1 TTTTCTG
63400392 TTTTCTG
1 TTTTCTG
*
63400399 TTTTGCTA
1 TTTT-CTG
63400407 TTTTCT
1 TTTTCT
63400413 ATTGAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:63400388 original size:21 final size:22
Alignment explanation
Indices: 63400362--63400412 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
63400352 TATGTTTCTT
63400362 TATTTTCTGTTTTCTGTTTT-C
1 TATTTTCTGTTTTCTGTTTTGC
63400383 TATTTTCTGTTTTCTGTTTTGC
1 TATTTTCTGTTTTCTGTTTTGC
63400405 TATTTTCT
1 TATTTTCT
63400413 ATTGAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.06, C:0.14, G:0.10, T:0.71
Consensus pattern (22 bp):
TATTTTCTGTTTTCTGTTTTGC
Found at i:63400952 original size:13 final size:13
Alignment explanation
Indices: 63400915--63400975 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
63400905 TAATTTAACT
63400915 TATTAC-TAATATA
1 TATTACTTAA-ATA
* * *
63400928 TATAAGTTAAATT
1 TATTACTTAAATA
63400941 TATTACTTAAATA
1 TATTACTTAAATA
*
63400954 TGTTACTTAAATA
1 TATTACTTAAATA
*
63400967 CATTACTTA
1 TATTACTTA
63400976 CTAAAATTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
13 35 0.92
14 3 0.08
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (13 bp):
TATTACTTAAATA
Found at i:63401130 original size:9 final size:9
Alignment explanation
Indices: 63401116--63401435 Score: 202
Period size: 9 Copynumber: 35.8 Consensus size: 9
63401106 TATGTACAAG
63401116 AACTTACAT
1 AACTTACAT
*
63401125 AACTTA-TT
1 AACTTACAT
*
63401133 AATATTTACAT
1 -A-ACTTACAT
63401144 AAACTTACAT
1 -AACTTACAT
63401154 AACTATCACAT
1 AACT-T-ACAT
*
63401165 AAACTTATATGT
1 -AACTTACA--T
63401177 AAACTTACAT
1 -AACTTACAT
63401187 AA--TACAT
1 AACTTACAT
* *
63401194 AATTTACAC
1 AACTTACAT
63401203 AACTTACAT
1 AACTTACAT
*
63401212 AACCTACAT
1 AACTTACAT
63401221 AACTTACAT
1 AACTTACAT
63401230 AA--TACA-
1 AACTTACAT
63401236 AAGCTTACAT
1 AA-CTTACAT
* *
63401246 AACTGAAAT
1 AACTTACAT
* *
63401255 AGCTTACAC
1 AACTTACAT
*
63401264 AACATACAT
1 AACTTACAT
63401273 AACTTACAT
1 AACTTACAT
*
63401282 AACTTACAC
1 AACTTACAT
63401291 AACTTACAT
1 AACTTACAT
*
63401300 AATACATA-AT
1 -A-ACTTACAT
63401310 AACTTAC--
1 AACTTACAT
63401317 AACTTACAT
1 AACTTACAT
*
63401326 AACATACAT
1 AACTTACAT
* **
63401335 TACTTTGAT
1 AACTTACAT
63401344 AACTTACAT
1 AACTTACAT
*
63401353 AAGTTACAT
1 AACTTACAT
*
63401362 AA--TACAC
1 AACTTACAT
63401369 AACTTACAT
1 AACTTACAT
** *
63401378 AGTTTACTT
1 AACTTACAT
63401387 AA--TACAT
1 AACTTACAT
63401394 AACTTACAT
1 AACTTACAT
63401403 AACTT--AT
1 AACTTACAT
*
63401410 ACACGTACAT
1 A-ACTTACAT
63401420 AACTTACAT
1 AACTTACAT
*
63401429 AATTTAC
1 AACTTAC
63401436 TTAATACATA
Statistics
Matches: 241, Mismatches: 44, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 33 0.14
8 8 0.03
9 150 0.62
10 23 0.10
11 12 0.05
12 13 0.05
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:63401221 original size:34 final size:33
Alignment explanation
Indices: 63401182--63401305 Score: 85
Period size: 34 Copynumber: 3.6 Consensus size: 33
63401172 TATGTAAACT
63401182 TACATAA-TACATAATTTACACAA-CTTACATAACC
1 TACATAACTACATAA--TACA-AAGCTTACATAACC
63401216 TACATAACTTACATAATACAAAGCTTACATAA-C
1 TACATAAC-TACATAATACAAAGCTTACATAACC
* * * *
63401249 TGAAATAGCTTACACAACATACATAA-CTTACATAACT
1 T-ACATAAC-TACA-TA-ATACA-AAGCTTACATAACC
*
63401286 TACACAACTTACATAATACA
1 TACATAAC-TACATAATACA
63401306 TAATAACTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
33 4 0.05
34 35 0.47
35 2 0.03
36 30 0.41
37 3 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (33 bp):
TACATAACTACATAATACAAAGCTTACATAACC
Found at i:63401334 original size:53 final size:51
Alignment explanation
Indices: 63401259--63401378 Score: 143
Period size: 53 Copynumber: 2.3 Consensus size: 51
63401249 TGAAATAGCT
* *
63401259 TACACAACATACATAACTTACATAACTTACACAACTTACATAA-TACATAA
1 TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
* ** *
63401309 TAACTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAA
1 T-AC--ACAACTTACATAACATACATAACTTACACAACTTACATAAG-TACATAA
63401364 TACACAACTTACATA
1 TACACAACTTACATA
63401379 GTTTACTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 2 0.03
52 12 0.20
53 34 0.58
54 2 0.03
55 8 0.14
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.30
Consensus pattern (51 bp):
TACACAACTTACATAACATACATAACTTACACAACTTACATAAGTACATAA
Found at i:63401384 original size:25 final size:26
Alignment explanation
Indices: 63401342--63401446 Score: 119
Period size: 25 Copynumber: 4.2 Consensus size: 26
63401332 CATTACTTTG
63401342 ATAACTTACATAAG-TTACATAATAC
1 ATAACTTACATAAGTTTACATAATAC
* *
63401367 ACAACTTACAT-AGTTTACTTAATAC
1 ATAACTTACATAAGTTTACATAATAC
* **
63401392 ATAACTTACATAACTTATACA-CGTAC
1 ATAACTTACATAAGTT-TACATAATAC
*
63401418 ATAACTTACATAA-TTTACTTAATAC
1 ATAACTTACATAAGTTTACATAATAC
63401443 ATAA
1 ATAA
63401447 ATATATATCA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
24 5 0.08
25 39 0.59
26 19 0.29
27 3 0.05
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (26 bp):
ATAACTTACATAAGTTTACATAATAC
Found at i:63401435 original size:51 final size:50
Alignment explanation
Indices: 63401182--63401446 Score: 153
Period size: 52 Copynumber: 5.1 Consensus size: 50
63401172 TATGTAAACT
* * * * *
63401182 TACATAA--TACATAATTTACACAACTTACATAACCTACATAACTTACATAA
1 TACATAACTTACATAACTTACACAA--TACACAACTTACATAATTTACTTAA
* * * * * * *
63401232 TACA-AAGCTTACATAACTGAAATAGCTTACACAACATACATAACTTACATAA
1 TACATAA-CTTACATAACTTACACA--ATACACAACTTACATAATTTACTTAA
* * ** *
63401284 CTTACACAACTTACATAA--TACATAATAACTTACAACTTACATAACATACATTACT
1 --TACATAACTTACATAACTTACACAAT-AC--ACAACTTACATAATTTAC-TTA-A
** * * *
63401339 TTGATAACTTACATAAGTTACATAATACACAACTTACATAGTTTACTTAA
1 TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
* * *
63401389 TACATAACTTACATAACTTATACACGTACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACACA-ATACACAACTTACATAATTTACTTAA
63401440 TACATAA
1 TACATAA
63401447 ATATATATCA
Statistics
Matches: 170, Mismatches: 29, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
49 2 0.01
50 24 0.14
51 35 0.21
52 53 0.31
53 29 0.17
54 17 0.10
55 10 0.06
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (50 bp):
TACATAACTTACATAACTTACACAATACACAACTTACATAATTTACTTAA
Found at i:63404544 original size:21 final size:21
Alignment explanation
Indices: 63404520--63404588 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
63404510 GTACAACTTA
*
63404520 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
63404541 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
** * *
63404562 AAGCAGAGGTTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
63404583 AAGCAG
1 AAGCAG
63404589 CGAGAGAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:63405030 original size:43 final size:41
Alignment explanation
Indices: 63404993--63405199 Score: 252
Period size: 42 Copynumber: 5.0 Consensus size: 41
63404983 TTTTTTATAA
* * **
63404993 AAGCGCTGCTAAAGAACATGATCTATAGCGGCGTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TT
*
63405035 AAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTT
* * *
63405077 AAGCGTCGCTAAAGAATATTATCTTTAGCGGCGATTTTTTTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTT-T
*
63405120 AACCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
* * * * *
63405161 AAGTGCCGTTAAAAAACATAATCTTTAGTGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
63405200 CTATAAACGC
Statistics
Matches: 145, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
41 34 0.23
42 75 0.52
43 36 0.25
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
Found at i:63409331 original size:30 final size:30
Alignment explanation
Indices: 63409295--63409352 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
63409285 GTATGTATAA
63409295 ATAATTATATATATGTTAATATTGGATAGC
1 ATAATTATATATATGTTAATATTGGATAGC
*
63409325 ATAATTATATATATGTTAATATTTGATA
1 ATAATTATATATATGTTAATATTGGATA
63409353 TTAGTGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (30 bp):
ATAATTATATATATGTTAATATTGGATAGC
Found at i:63409789 original size:16 final size:17
Alignment explanation
Indices: 63409768--63409805 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
63409758 ATATTTCTAA
63409768 AAAATAAA-ATAATTTT
1 AAAATAAACATAATTTT
63409784 AAAATAAACATAATTTT
1 AAAATAAACATAATTTT
63409801 AAAAT
1 AAAAT
63409806 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACATAATTTT
Found at i:63414765 original size:16 final size:16
Alignment explanation
Indices: 63414744--63414812 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
63414734 TTTGGTTCGC
63414744 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
63414760 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
63414776 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
63414793 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
63414809 TGTA
1 TGTA
63414813 ATAACTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:63414790 original size:33 final size:32
Alignment explanation
Indices: 63414744--63414812 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
63414734 TTTGGTTCGC
63414744 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
63414776 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
63414809 TGTA
1 TGTA
63414813 ATAACTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:63415066 original size:18 final size:17
Alignment explanation
Indices: 63415045--63415079 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63415035 TTATTATTAA
*
63415045 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
63415063 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
63415080 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:63415126 original size:61 final size:61
Alignment explanation
Indices: 63415060--63415247 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
63415050 TTTTAATTAA
63415060 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
63415121 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
63415180 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
63415241 AATATAT
1 AATATAT
63415248 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:63415177 original size:120 final size:121
Alignment explanation
Indices: 63415028--63415320 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
63415018 ATCATATTTA
63415028 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
63415093 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
63415148 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
63415213 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
63415269 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
63415321 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:63415193 original size:14 final size:15
Alignment explanation
Indices: 63415144--63415195 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
63415134 ATAAAATATA
63415144 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
63415159 TATTAAATATATTAT
1 AATTAAATATATTAT
63415174 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
63415187 AATTTAATA
1 AATTAAATA
63415196 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:63415367 original size:101 final size:93
Alignment explanation
Indices: 63415261--63415543 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
63415251 ACTATAAAAG
* * * *
63415261 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
63415325 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
63415362 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
63415425 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
63415453 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
63415516 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
63415544 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:63415390 original size:26 final size:28
Alignment explanation
Indices: 63415361--63415421 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
63415351 TATGAATTTG
*
63415361 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
63415387 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
63415415 TAAAATT
1 TATAATT
63415422 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:63415419 original size:47 final size:46
Alignment explanation
Indices: 63415368--63415511 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
63415358 TTGTATAATT
63415368 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
63415415 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
63415459 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
63415506 TAAAAT
1 TAAAAT
63415512 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:63415431 original size:91 final size:90
Alignment explanation
Indices: 63415336--63415543 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
63415326 TAATTATAAC
* * * *
63415336 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
63415401 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
63415427 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
63415492 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
63415518 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
63415544 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Done.