Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 148 of 167
Found at i:48903880 original size:21 final size:21
Alignment explanation
Indices: 48903856--48903895 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48903846 TCCTTCCCAC
48903856 TTGCCACATGAATTGGGTCAA
1 TTGCCACATGAATTGGGTCAA
*
48903877 TTGCCACGTGAATTGGGTC
1 TTGCCACATGAATTGGGTC
48903896 CTCAATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGCCACATGAATTGGGTCAA
Found at i:48915372 original size:6 final size:6
Alignment explanation
Indices: 48915352--48915417 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
48915342 GATAATGATG
* * *
48915352 TTTAAT TTTA-T TTTATC TTTATC TTTATT TTTATT TTTATT TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
48915398 TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TT
48915418 ACCTTTAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
5 10 0.18
6 46 0.82
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:48915378 original size:17 final size:17
Alignment explanation
Indices: 48915358--48915429 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
48915348 GATGTTTAAT
48915358 TTTATTTTATCTTTATC
1 TTTATTTTATCTTTATC
* *
48915375 TTTATTTTTATTTTTATT
1 TTTA-TTTTATCTTTATC
* *
48915393 TTTATTTTATTTTTATT
1 TTTATTTTATCTTTATC
* *
48915410 TTTATTTTACCTTTAAC
1 TTTATTTTATCTTTATC
48915427 TTT
1 TTT
48915430 TAAATGCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
17 33 0.69
18 15 0.31
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTATCTTTATC
Found at i:48915383 original size:23 final size:23
Alignment explanation
Indices: 48915357--48915424 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
48915347 TGATGTTTAA
48915357 TTTTA-TTTTATCTTTATCTTTAT
1 TTTTATTTTTAT-TTTATCTTTAT
48915380 TTTTATTTTTATTTTTAT-TTTAT
1 TTTTATTTTTA-TTTTATCTTTAT
*
48915403 TTTTATTTTTATTTTACCTTTA
1 TTTTATTTTTATTTTATCTTTA
48915425 ACTTTTAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
22 5 0.12
23 25 0.61
24 10 0.24
25 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTATTTTATCTTTAT
Found at i:48919112 original size:20 final size:20
Alignment explanation
Indices: 48919087--48919144 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
48919077 TGCACATGGG
48919087 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
*
48919107 CAGGCCACACGGGCGTGTTC
1 CAGGCCACACGGGCATGTTC
*
48919127 CAAGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
48919145 GCCCTTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.31, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:48923856 original size:412 final size:412
Alignment explanation
Indices: 48923092--48923915 Score: 1639
Period size: 412 Copynumber: 2.0 Consensus size: 412
48923082 TTGCTACAAC
48923092 CTGTAATGATTCCAGAATGGAAGTGGGAACATGTGACGATGGATTTTGTATCTGGGTTGCCCGTG
1 CTGTAATGATTCCAGAATGGAAGTGGGAACATGTGACGATGGATTTTGTATCTGGGTTGCCCGTG
48923157 ACTCCGAAGAAGAAAGATTCGATTTGGGTGATAGTGGACAGATTAACTAAGTCAGCGGATTTTAT
66 ACTCCGAAGAAGAAAGATTCGATTTGGGTGATAGTGGACAGATTAACTAAGTCAGCGGATTTTAT
*
48923222 TCCGGTTAGAACAGATTTTTCGCTTGAAAAATTAGCGAAATTATATGTGTCAGAAATTGTGAGAT
131 TCCGGTTAGAACAGATTTTTCGCTTAAAAAATTAGCGAAATTATATGTGTCAGAAATTGTGAGAT
48923287 TACATGGGGTGCCGACATCAATTATTTCAAATCGAGATCTGAGGTTTACTTCGAGATTTTAGAGT
196 TACATGGGGTGCCGACATCAATTATTTCAAATCGAGATCTGAGGTTTACTTCGAGATTTTAGAGT
48923352 AAACTACAGGAAGATTTAGGTACCAAATTAAAATTTAATACAGCTTTTCATCCTCAAACTGACAG
261 AAACTACAGGAAGATTTAGGTACCAAATTAAAATTTAATACAGCTTTTCATCCTCAAACTGACAG
48923417 GCAATCAAAATGATTGATTCAAATTTTGGAAGATATGTTAAGGTGTTGTATACTAAGCTCAGTGG
326 GCAATCAAAATGATTGATTCAAATTTTGGAAGATATGTTAAGGTGTTGTATACTAAGCTCAGTGG
48923482 TAGCTGGAAAAGGTATTTACCT
391 TAGCTGGAAAAGGTATTTACCT
48923504 CTGTAATGATTCCAGAATGGAAGTGGGAACATGTGACGATGGATTTTGTATCTGGGTTGCCCGTG
1 CTGTAATGATTCCAGAATGGAAGTGGGAACATGTGACGATGGATTTTGTATCTGGGTTGCCCGTG
48923569 ACTCCGAAGAAGAAAGATTCGATTTGGGTGATAGTGGACAGATTAACTAAGTCAGCGGATTTTAT
66 ACTCCGAAGAAGAAAGATTCGATTTGGGTGATAGTGGACAGATTAACTAAGTCAGCGGATTTTAT
48923634 TCCGGTTAGAACAGATTTTTCGCTTAAAAAATTAGCGAAATTATATGTGTCAGAAATTGTGAGAT
131 TCCGGTTAGAACAGATTTTTCGCTTAAAAAATTAGCGAAATTATATGTGTCAGAAATTGTGAGAT
48923699 TACATGGGGTGCCGACATCAATTATTTCAAATCGAGATCTGAGGTTTACTTCGAGATTTTAGAGT
196 TACATGGGGTGCCGACATCAATTATTTCAAATCGAGATCTGAGGTTTACTTCGAGATTTTAGAGT
48923764 AAACTACAGGAAGATTTAGGTACCAAATTAAAATTTAATACAGCTTTTCATCCTCAAACTGACAG
261 AAACTACAGGAAGATTTAGGTACCAAATTAAAATTTAATACAGCTTTTCATCCTCAAACTGACAG
48923829 GCAATCAAAATGATTGATTCAAATTTTGGAAGATATGTTAAGGTGTTGTATACTAAGCTCAGTGG
326 GCAATCAAAATGATTGATTCAAATTTTGGAAGATATGTTAAGGTGTTGTATACTAAGCTCAGTGG
48923894 TAGCTGGAAAAGGTATTTACCT
391 TAGCTGGAAAAGGTATTTACCT
48923916 TTAGCTGAAT
Statistics
Matches: 411, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
412 411 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (412 bp):
CTGTAATGATTCCAGAATGGAAGTGGGAACATGTGACGATGGATTTTGTATCTGGGTTGCCCGTG
ACTCCGAAGAAGAAAGATTCGATTTGGGTGATAGTGGACAGATTAACTAAGTCAGCGGATTTTAT
TCCGGTTAGAACAGATTTTTCGCTTAAAAAATTAGCGAAATTATATGTGTCAGAAATTGTGAGAT
TACATGGGGTGCCGACATCAATTATTTCAAATCGAGATCTGAGGTTTACTTCGAGATTTTAGAGT
AAACTACAGGAAGATTTAGGTACCAAATTAAAATTTAATACAGCTTTTCATCCTCAAACTGACAG
GCAATCAAAATGATTGATTCAAATTTTGGAAGATATGTTAAGGTGTTGTATACTAAGCTCAGTGG
TAGCTGGAAAAGGTATTTACCT
Found at i:48924848 original size:13 final size:12
Alignment explanation
Indices: 48924820--48924844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48924810 AAATCGAGCC
48924820 ATAAATATTTTT
1 ATAAATATTTTT
48924832 ATAAATATTTTT
1 ATAAATATTTTT
48924844 A
1 A
48924845 ATAAGTTATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:48926017 original size:45 final size:45
Alignment explanation
Indices: 48925966--48926132 Score: 147
Period size: 53 Copynumber: 3.5 Consensus size: 45
48925956 TGCTTCCATC
48925966 TAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATTCCGTA
* *
48926011 TAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATAATGTGATTCTGTA
1 TAAGACCATAGCTGGGCTATGGCATC------A-GT-ACAATGTGATTCCGTA
* * * * *
48926064 TAAGACCATATCTGGGATATGGCATTAGTATGATATGTGA-TCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGTA-CA-ATGTGATTCCGTA
* * *
48926110 TAAGACCATGGCAGGGTTATGGC
1 TAAGACCATAGCTGGGCTATGGC
48926133 TTCGGTGTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
45 27 0.27
46 26 0.26
47 7 0.07
51 1 0.01
52 2 0.02
53 37 0.37
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (45 bp):
TAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATTCCGTA
Found at i:48926913 original size:20 final size:20
Alignment explanation
Indices: 48926888--48926947 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
48926878 TGCAAATGGG
*
48926888 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
*
48926908 CAGGCCACACGGGCGCGTGTCC
1 CAGGCCACAC-GG-GCATGTCC
*
48926930 CAAGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
48926948 GCCCCTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 15 0.44
21 4 0.12
22 15 0.44
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:48932063 original size:9 final size:9
Alignment explanation
Indices: 48932051--48932087 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
48932041 GAATTATTCG
*
48932051 AATCGAGTT
1 AATCGAATT
48932060 AATCGAATT
1 AATCGAATT
48932069 AATCGAATT
1 AATCGAATT
48932078 AACTCGAATT
1 AA-TCGAATT
48932088 TTTTTTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (9 bp):
AATCGAATT
Found at i:48932163 original size:18 final size:18
Alignment explanation
Indices: 48932127--48932163 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48932117 TGAATTCTCG
* *
48932127 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCAAAT
48932145 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
48932163 A
1 A
48932164 TAAACTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:48938247 original size:53 final size:53
Alignment explanation
Indices: 48938166--48938311 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
48938156 CTTACACGGT
* *
48938166 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
48938221 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
48938274 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
48938312 AATGGGTGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:48940977 original size:14 final size:14
Alignment explanation
Indices: 48940958--48940984 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48940948 TTGTGATCGA
48940958 TCATTTTAATAAAC
1 TCATTTTAATAAAC
48940972 TCATTTTAATAAA
1 TCATTTTAATAAA
48940985 GCATTTCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TCATTTTAATAAAC
Found at i:48941443 original size:125 final size:125
Alignment explanation
Indices: 48941303--48941532 Score: 309
Period size: 125 Copynumber: 1.8 Consensus size: 125
48941293 CATGCATTTG
* ** * ** *
48941303 AAATTTCAAAGGGATATTTGGCTA-TCTGGTCAAATGGTAAGTCGAAACCCAGCACGATTGGGCA
1 AAATTTCAAAAGGATATTCAGCTATTC-GGTCAAACGAAAAATCGAAACCCAGCACGATTGGGCA
48941367 CGATTTCTCGAATTTCTAAACACAAAATATTGTCTCATTTTAATTTAAGAAAACATGGACA
65 CGATTTCTCGAATTTCTAAACACAAAATATTGTCTCATTTTAATTTAAGAAAACATGGACA
* ** * *
48941428 AAATTTCAAAAGGATATTCAGTTATTCGGTTGAACGAAAAATTGAAACCCAGCACGATTGGGCAT
1 AAATTTCAAAAGGATATTCAGCTATTCGGTCAAACGAAAAATCGAAACCCAGCACGATTGGGCAC
* * *
48941493 GATTTCTCGAATTTCTAAACACGAAATATTTTCTTATTTT
66 GATTTCTCGAATTTCTAAACACAAAATATTGTCTCATTTT
48941533 TTAGAAATCC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
125 87 0.98
126 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (125 bp):
AAATTTCAAAAGGATATTCAGCTATTCGGTCAAACGAAAAATCGAAACCCAGCACGATTGGGCAC
GATTTCTCGAATTTCTAAACACAAAATATTGTCTCATTTTAATTTAAGAAAACATGGACA
Found at i:48942233 original size:3 final size:3
Alignment explanation
Indices: 48942227--48942289 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
48942217 AATAGAAGAC
* *
48942227 AAT AAT AAT AAT AAT AAT AAT AAT -AT ATT AAT AAA AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* *
48942271 GAT AAA AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
48942290 TAGGGAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:48942443 original size:3 final size:3
Alignment explanation
Indices: 48942435--48942572 Score: 87
Period size: 3 Copynumber: 47.0 Consensus size: 3
48942425 TAGTACCATG
* * * *
48942435 ATA ATA ATA ACA ATA ATA ATA ATA A-A ATA A-A A-A AAA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
48942479 TTA TTA ATA ATA ATA ATAA ATAA ATA ATG GTA ATAA ATA TATA AT- ATA
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA
48942527 ATA A-A TATA ATA AT- ATA AT- ATA ATA A-A TATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
48942570 ATA
1 ATA
48942573 TTTAAAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
2 16 0.14
3 80 0.72
4 15 0.14
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48942504 original size:17 final size:17
Alignment explanation
Indices: 48942484--48942572 Score: 98
Period size: 17 Copynumber: 5.4 Consensus size: 17
48942474 ATATGTTATT
48942484 AATAATAATAATAAATA
1 AATAATAATAATAAATA
**
48942501 AATAATGGTAATAAATA
1 AATAATAATAATAAATA
*
48942518 TATAAT-ATAATAAATA
1 AATAATAATAATAAATA
48942534 TAATAAT-ATAATATAATA
1 -AATAATAATAATA-AATA
48942552 AAT-ATAATAAT-AAT-
1 AATAATAATAATAAATA
48942566 AATAATA
1 AATAATA
48942573 TTTAAAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
14 3 0.05
15 6 0.10
16 11 0.17
17 39 0.62
18 4 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAATAATAATAAATA
Found at i:48942536 original size:22 final size:21
Alignment explanation
Indices: 48942510--48942572 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 21
48942500 AAATAATGGT
48942510 AATA-AATATATAATATAATA
1 AATATAATATATAATATAATA
48942530 AATATAATAATATAATATAATA
1 AATATAAT-ATATAATATAATA
48942552 AATATAATA-ATAATAATAATA
1 AATATAATATATAAT-ATAATA
48942573 TTTAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.22
21 10 0.25
22 21 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AATATAATATATAATATAATA
Found at i:48942583 original size:31 final size:29
Alignment explanation
Indices: 48942511--48942583 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 29
48942501 AATAATGGTA
*
48942511 ATAAATATATAATATAATAAATATAATAAT
1 ATAAAAATA-AATATAATAAATATAATAAT
48942541 ATAATATAATAAATATAAT-AATAATAATAAT
1 ATAA-A-AATAAATATAATAAAT-ATAATAAT
48942572 ATTTAAAAATAA
1 A--TAAAAATAA
48942584 CACTCCCCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
30 7 0.19
31 23 0.62
32 4 0.11
33 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAAAAATAAATATAATAAATATAATAAT
Found at i:48944622 original size:358 final size:359
Alignment explanation
Indices: 48943960--48944679 Score: 1424
Period size: 358 Copynumber: 2.0 Consensus size: 359
48943950 GACGGTGAAA
48943960 AATGAGAAAACCGATTTTGCTTTCTACTTCCATAATAAAATCCATAAATAATTTCATGCCAAGTA
1 AATGAGAAAACCGATTTTGCTTTCTACTTCCATAATAAAATCCATAAATAATTTCATGCCAAGTA
48944025 GTACATATATCGGGGTCTAATGAAATTAATGGTAAATAGATTTTTTTTTTTTTTTACAATTTGAA
66 GTACATATATCGGGGTCTAATGAAATTAATGGTAAATAGATTTTTTTTTTTTTTTACAATTTGAA
48944090 CCAACCCAGGGGTTCCTCAAAAGTTCTTGAACAACCCCAGCGGCCAGCCTTCCTCAAACCAAAAT
131 CCAACCCAGGGGTTCCTCAAAAGTTCTTGAACAACCCCAGCGGCCAGCCTTCCTCAAACCAAAAT
48944155 CACCTCATACTAGTGGCGGGACTGGAAGTTGCAGTAGACAGAGTACTCATCATTTTCCTCCTTTC
196 CACCTCATACTAGTGGCGGGACTGGAAGTTGCAGTAGACAGAGTACTCATCATTTTCCTCCTTTC
48944220 TTTCCTCTGTACAACCCGAAGATGTGGTGATGTGGGTTTTGTTGTTTCCTTGGAAGACCTAATGC
261 TTTCCTCTGTACAACCCGAAGATGTGGTGATGTGGGTTTTGTTGTTTCCTTGGAAGACCTAATGC
48944285 AACGATAAAATAATAATTCATTCATTCATAATCC
326 AACGATAAAATAATAATTCATTCATTCATAATCC
48944319 AATG-GAAAACCGATTTTGCTTTCTACTTCCATAATAAAATCCATAAATAATTTCATGCCAAGTA
1 AATGAGAAAACCGATTTTGCTTTCTACTTCCATAATAAAATCCATAAATAATTTCATGCCAAGTA
48944383 GTACATATATCGGGGTCTAATGAAATTAATGGTAAATAGATTTTTTTTTTTTTTTACAATTTGAA
66 GTACATATATCGGGGTCTAATGAAATTAATGGTAAATAGATTTTTTTTTTTTTTTACAATTTGAA
48944448 CCAACCCAGGGGTTCCTCAAAAGTTCTTGAACAACCCCAGCGGCCAGCCTTCCTCAAACCAAAAT
131 CCAACCCAGGGGTTCCTCAAAAGTTCTTGAACAACCCCAGCGGCCAGCCTTCCTCAAACCAAAAT
48944513 CACCTCATACTAGTGGCGGGACTGGAAGTTGCAGTAGACAGAGTACTCATCATTTTCCTCCTTTC
196 CACCTCATACTAGTGGCGGGACTGGAAGTTGCAGTAGACAGAGTACTCATCATTTTCCTCCTTTC
48944578 TTTCCTCTGTACAACCCGAAGATGTGGTGATGTGGGTTTTGTTGTTTCCTTGGAAGACCTAATGC
261 TTTCCTCTGTACAACCCGAAGATGTGGTGATGTGGGTTTTGTTGTTTCCTTGGAAGACCTAATGC
*
48944643 AACGATAAAATAATAATTCATTCATTCGTAATCC
326 AACGATAAAATAATAATTCATTCATTCATAATCC
48944677 AAT
1 AAT
48944680 TGGGGGCATT
Statistics
Matches: 360, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
358 356 0.99
359 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (359 bp):
AATGAGAAAACCGATTTTGCTTTCTACTTCCATAATAAAATCCATAAATAATTTCATGCCAAGTA
GTACATATATCGGGGTCTAATGAAATTAATGGTAAATAGATTTTTTTTTTTTTTTACAATTTGAA
CCAACCCAGGGGTTCCTCAAAAGTTCTTGAACAACCCCAGCGGCCAGCCTTCCTCAAACCAAAAT
CACCTCATACTAGTGGCGGGACTGGAAGTTGCAGTAGACAGAGTACTCATCATTTTCCTCCTTTC
TTTCCTCTGTACAACCCGAAGATGTGGTGATGTGGGTTTTGTTGTTTCCTTGGAAGACCTAATGC
AACGATAAAATAATAATTCATTCATTCATAATCC
Found at i:48949468 original size:20 final size:21
Alignment explanation
Indices: 48949430--48949470 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48949420 ATTTACTTAT
48949430 TATATTATTAAAAATATAATA
1 TATATTATTAAAAATATAATA
48949451 TATATT-TTGAAAAA-ATAATA
1 TATATTATT-AAAAATATAATA
48949471 AATTATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TATATTATTAAAAATATAATA
Found at i:48952318 original size:40 final size:40
Alignment explanation
Indices: 48952245--48952320 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
48952235 TATGTTAACT
* * *
48952245 CTTTTTGAAAAATACCGCTATAGATTGAGCATTAGCGGAA
1 CTTTTTGAAAAACACCGCTATAGATCGACCATTAGCGGAA
* *
48952285 CTTTTTTAAAAACACCGCTATAGGTCGACCATTAGC
1 CTTTTTGAAAAACACCGCTATAGATCGACCATTAGC
48952321 AGCGCCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (40 bp):
CTTTTTGAAAAACACCGCTATAGATCGACCATTAGCGGAA
Found at i:48952336 original size:40 final size:40
Alignment explanation
Indices: 48952247--48952337 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
48952237 TGTTAACTCT
* * * * *
48952247 TTTTGAAAAATACCGCTATAGATTGAGCATTAGCGGAACT
1 TTTTGAAAAACACCGCTATAGATCGACCATTAGCAGAACC
* * **
48952287 TTTTTAAAAACACCGCTATAGGTCGACCATTAGCAGCGCC
1 TTTTGAAAAACACCGCTATAGATCGACCATTAGCAGAACC
48952327 TTTTGAAAAAC
1 TTTTGAAAAAC
48952338 GCTGCAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTTGAAAAACACCGCTATAGATCGACCATTAGCAGAACC
Found at i:48952882 original size:7 final size:7
Alignment explanation
Indices: 48952870--48953045 Score: 50
Period size: 7 Copynumber: 24.7 Consensus size: 7
48952860 TATAATTATA
48952870 GTTTAGG
1 GTTTAGG
*
48952877 GTTTAGA
1 GTTTAGG
48952884 GTTTAGG
1 GTTTAGG
*
48952891 GTTTAGT
1 GTTTAGG
*
48952898 GTTTAAG
1 GTTTAGG
*
48952905 TTTTAGG
1 GTTTAGG
48952912 AGTTACTA--
1 -GTT--TAGG
* *
48952920 TTTTAAG
1 GTTTAGG
*
48952927 GTTTATG
1 GTTTAGG
**
48952934 AATTATGG
1 GTTTA-GG
48952942 GTTTAGG
1 GTTTAGG
** *
48952949 AATTATG
1 GTTTAGG
* *
48952956 ATTTATG
1 GTTTAGG
*
48952963 GTTTATG
1 GTTTAGG
*
48952970 GTTTAAG
1 GTTTAGG
48952977 GTTTAAGG
1 GTTT-AGG
* **
48952985 GTTAACT
1 GTTTAGG
*
48952992 GTTAAGG
1 GTTTAGG
*
48952999 GTTAAGG
1 GTTTAGG
*
48953006 GATTAGG
1 GTTTAGG
*
48953013 GATTAGG
1 GTTTAGG
*
48953020 GTTTATG
1 GTTTAGG
* *
48953027 TTTTATG
1 GTTTAGG
*
48953034 GTTTAGT
1 GTTTAGG
48953041 GTTTA
1 GTTTA
48953046 TGGGGATAGG
Statistics
Matches: 126, Mismatches: 36, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
5 2 0.02
7 111 0.88
8 11 0.09
10 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:48952888 original size:14 final size:14
Alignment explanation
Indices: 48952869--48952902 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48952859 TTATAATTAT
48952869 AGTTTAGGGTTTAG
1 AGTTTAGGGTTTAG
48952883 AGTTTAGGGTTTAG
1 AGTTTAGGGTTTAG
*
48952897 TGTTTA
1 AGTTTA
48952903 AGTTTTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
AGTTTAGGGTTTAG
Found at i:48952946 original size:15 final size:15
Alignment explanation
Indices: 48952926--48952955 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48952916 ACTATTTTAA
*
48952926 GGTTTATGAATTATG
1 GGTTTAGGAATTATG
48952941 GGTTTAGGAATTATG
1 GGTTTAGGAATTATG
48952956 ATTTATGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (15 bp):
GGTTTAGGAATTATG
Found at i:48952946 original size:22 final size:21
Alignment explanation
Indices: 48952921--48952974 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
48952911 GAGTTACTAT
48952921 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGTTTATGAATTAT-GG
* *
48952943 TTT-AGGAATTATGATTTATGG
1 TTTAAGG-TTTATGAATTATGG
*
48952964 TTTATGGTTTA
1 TTTAAGGTTTA
48952975 AGGTTTAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTATGAATTATGG
Found at i:48954693 original size:31 final size:31
Alignment explanation
Indices: 48954655--48954717 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
48954645 ACAAAAGAAG
48954655 TAAGCTTTCAAAGCTTAGTAAGTTTTAAGCA
1 TAAGCTTTCAAAGCTTAGTAAGTTTTAAGCA
48954686 TAAGCTTTCAAAGCTTAGTAAGTTTTAAGCA
1 TAAGCTTTCAAAGCTTAGTAAGTTTTAAGCA
48954717 T
1 T
48954718 CACAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (31 bp):
TAAGCTTTCAAAGCTTAGTAAGTTTTAAGCA
Found at i:48955408 original size:39 final size:39
Alignment explanation
Indices: 48955317--48955439 Score: 140
Period size: 39 Copynumber: 3.2 Consensus size: 39
48955307 GAATTTAAAC
* * * * * *
48955317 CCGG-TATAATACCAGCTCGAAGCCTGCGGAACTTTAGC
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
* * *
48955355 CCAGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
* *
48955394 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
48955433 CCGGATA
1 CCGGATA
48955440 CACATCAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
38 3 0.04
39 67 0.96
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
Found at i:48957057 original size:41 final size:41
Alignment explanation
Indices: 48956958--48957124 Score: 169
Period size: 41 Copynumber: 4.1 Consensus size: 41
48956948 CAAAAATTGT
* * * *
48956958 AAAACACATAGCAATAGCGGTGTTTTAACAAAAACGCCACT-
1 AAAAC-CAGAGCAATAGCGGAGTTTTAGCAAAAACGCCGCTA
*
48956999 AAAACCAGAGCAATAGCGGAGTTTTAGTAAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGAGTTTTAGCAAAAACGCCGCTA
* * * *
48957040 AAAACCAGAGCATTAGCGGCGCTTTT-GGAAAAACGTCGCTA
1 AAAACCAGAGCAATAGCGGAG-TTTTAGCAAAAACGCCGCTA
* * * *
48957081 AAAACCAGAGCATTAGCGGCGCTTTTGGC-AAAACGACGCTA
1 AAAACCAGAGCAATAGCGGAG-TTTTAGCAAAAACGCCGCTA
48957122 AAA
1 AAA
48957125 GTCATATAAC
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
40 30 0.27
41 77 0.69
42 5 0.04
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAACCAGAGCAATAGCGGAGTTTTAGCAAAAACGCCGCTA
Found at i:48957291 original size:7 final size:7
Alignment explanation
Indices: 48957281--48957424 Score: 63
Period size: 7 Copynumber: 19.4 Consensus size: 7
48957271 TTAATTATCA
*
48957281 TTATAGT
1 TTATGGT
48957288 TTATGGT
1 TTATGGT
48957295 TTATGGT
1 TTATGGT
* *
48957302 TTAAGAT
1 TTATGGT
*
48957309 ATATGGT
1 TTATGGT
**
48957316 TTGGGGT
1 TTATGGT
*
48957323 TTAAGGT
1 TTATGGT
48957330 TTATGAGT
1 TTATG-GT
48957338 TAACTATGGT
1 T---TATGGT
* *
48957348 TTAAGAT
1 TTATGGT
*
48957355 ATATGGT
1 TTATGGT
*
48957362 TTAGGGT
1 TTATGGT
*
48957369 TTAGGGT
1 TTATGGT
48957376 TTATGAGT
1 TTATG-GT
48957384 TAACTATGGT
1 T---TATGGT
* *
48957394 TTAAGAT
1 TTATGGT
*
48957401 ATATGGT
1 TTATGGT
*
48957408 TTAGGGT
1 TTATGGT
*
48957415 TTAAGGT
1 TTATGGT
48957422 TTA
1 TTA
48957425 AGAGTTAACT
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
7 81 0.80
8 6 0.06
10 6 0.06
11 8 0.08
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:48957348 original size:46 final size:46
Alignment explanation
Indices: 48957296--48957435 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
48957286 GTTTATGGTT
*
48957296 TATGGTTTAAGATATATGGTTTGGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
*
48957342 TATGGTTTAAGATATATGGTTTAGGGTTTAGGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
*
48957388 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
48957434 TA
1 TA
48957436 GTATTTGAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
Found at i:48957941 original size:75 final size:74
Alignment explanation
Indices: 48957765--48958064 Score: 503
Period size: 74 Copynumber: 4.0 Consensus size: 74
48957755 TGGCTTCCAA
* *
48957765 ATTATATCAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAACGCCACA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACA
48957830 AAAAACACT
66 AAAAACACT
* *
48957839 ATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAAAAACGCCA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTT--TAAAAAACGCCA
48957904 CAAAAAACACT
64 CAAAAAACACT
*
48957915 -TTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAATGCCACA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACA
48957979 AAAAACACT
66 AAAAACACT
* *
48957988 ATTACAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCG-TTTTTTAAAAAACGCCAC
48958053 AAAAAACACT
65 AAAAAACACT
48958063 AT
1 AT
48958065 GAAAACGGCG
Statistics
Matches: 212, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
73 21 0.10
74 92 0.43
75 78 0.37
76 21 0.10
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (74 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACA
AAAAACACT
Found at i:48957951 original size:149 final size:148
Alignment explanation
Indices: 48957766--48958062 Score: 531
Period size: 149 Copynumber: 2.0 Consensus size: 148
48957756 GGCTTCCAAA
* *
48957766 TTATATCAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAACGCCACAA
1 TTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACAA
*
48957831 AAAACACTATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAA
66 AAAACACTATTACAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTT-AAAAA
48957896 AAACGCCACAAAAAACACT
130 AAACGCCACAAAAAACACT
*
48957915 TTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAATGCCACAA
1 TTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACAA
**
48957980 AAAACACTATTACAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTTTAAAA
66 AAAACACTATTACAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAA
48958045 AACGCCACAAAAAACACT
131 AACGCCACAAAAAACACT
48958063 ATGAAAACGG
Statistics
Matches: 142, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
148 22 0.15
149 120 0.85
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (148 bp):
TTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACAA
AAAACACTATTACAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAA
AACGCCACAAAAAACACT
Found at i:48958217 original size:18 final size:18
Alignment explanation
Indices: 48958194--48958237 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
48958184 CCCAAAACAG
* *
48958194 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
48958212 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
48958230 ATTTCCCC
1 ATTTCCCC
48958238 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:48962479 original size:43 final size:42
Alignment explanation
Indices: 48962427--48962507 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
48962417 GTTTTTGGGG
* * *
48962427 AAAAACGCCGCTAAAGGTCATGTTCCTTAGCGGCGTTTCTTA
1 AAAAACGCCGATAAAGGTCATGGTCCTTACCGGCGTTTCTTA
* *
48962469 AAAAAGCGCCGATAAAGGTCCTGGTCTTTACCGGCGTTT
1 AAAAA-CGCCGATAAAGGTCATGGTCCTTACCGGCGTTT
48962508 TTTTTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 5 0.15
43 28 0.85
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGATAAAGGTCATGGTCCTTACCGGCGTTTCTTA
Found at i:48965381 original size:22 final size:21
Alignment explanation
Indices: 48965350--48965393 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
48965340 GTTTAATTTT
48965350 AAAAAATTATTAAATTATTAA
1 AAAAAATTATTAAATTATTAA
*
48965371 AAAAAATTTATTTAATTATTAA
1 AAAAAA-TTATTAAATTATTAA
48965393 A
1 A
48965394 TTGTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATTATTAAATTATTAA
Found at i:48966174 original size:24 final size:24
Alignment explanation
Indices: 48966129--48966175 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48966119 GATGCAGTAA
* *
48966129 TTAATATATATTATAAATTTTCAT
1 TTAATATATATAATAAAATTTCAT
48966153 TTAATA-ATATAATCAAAATTTCA
1 TTAATATATATAAT-AAAATTTCA
48966176 AAGGTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATATATATAATAAAATTTCAT
Found at i:48969584 original size:38 final size:39
Alignment explanation
Indices: 48969542--48969618 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
48969532 GATTAATTTA
48969542 TGTATTGGAT-AAAAAATTATGACGCAAATGTAGAGATT
1 TGTATTGGATAAAAAAATTATGACGCAAATGTAGAGATT
48969580 TGTATTGGATAAAAAAATTATGACGCAAATGTAGAGATT
1 TGTATTGGATAAAAAAATTATGACGCAAATGTAGAGATT
48969619 AACACAATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (39 bp):
TGTATTGGATAAAAAAATTATGACGCAAATGTAGAGATT
Found at i:48971220 original size:28 final size:28
Alignment explanation
Indices: 48971181--48971241 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
48971171 GGCTCAAATG
*
48971181 ACCC-AAACTTTGGTTTCAGAAATTGAA
1 ACCCTAAACTTTGGTTTCAGAAACTGAA
48971208 ACCCTAAACTTTGGTTTCAGAAACTGAA
1 ACCCTAAACTTTGGTTTCAGAAACTGAA
48971236 ACCCTA
1 ACCCTA
48971242 GCTAAACCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (28 bp):
ACCCTAAACTTTGGTTTCAGAAACTGAA
Found at i:48982269 original size:18 final size:18
Alignment explanation
Indices: 48982242--48982277 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48982232 GCTAATAGCT
* *
48982242 AGCAATAGCATAAGCCTA
1 AGCAAAAGCAAAAGCCTA
48982260 AGCAAAAGCAAAAGCCTA
1 AGCAAAAGCAAAAGCCTA
48982278 TATAATAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (18 bp):
AGCAAAAGCAAAAGCCTA
Found at i:48984058 original size:22 final size:22
Alignment explanation
Indices: 48984033--48984077 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48984023 GATCATGCAT
*
48984033 AGAATTAT-ATACTCTCATTGAC
1 AGAATT-TGATACACTCATTGAC
*
48984055 AGAATTTGATACACTGATTGAC
1 AGAATTTGATACACTCATTGAC
48984077 A
1 A
48984078 CTGTTGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (22 bp):
AGAATTTGATACACTCATTGAC
Found at i:48988871 original size:15 final size:15
Alignment explanation
Indices: 48988842--48988886 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
48988832 AGTGCTGTAA
48988842 ATGGTATTTCCTTATC
1 ATGG-ATTTCCTTATC
*
48988858 ATGGATTTCTTTATC
1 ATGGATTTCCTTATC
*
48988873 TTGGATTTCCTTAT
1 ATGGATTTCCTTAT
48988887 TCTGGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (15 bp):
ATGGATTTCCTTATC
Found at i:48991956 original size:46 final size:46
Alignment explanation
Indices: 48991891--48992077 Score: 232
Period size: 46 Copynumber: 4.1 Consensus size: 46
48991881 TTATCTTTGA
* * * * * *
48991891 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
48991937 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
**
48991983 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
48992029 CAGGCTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
48992075 CAT
1 CAT
48992078 AGAGCACACT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:48994674 original size:49 final size:49
Alignment explanation
Indices: 48994596--48994835 Score: 291
Period size: 49 Copynumber: 4.8 Consensus size: 49
48994586 ATATTGTGAG
* *
48994596 GTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* * *
48994645 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-A
* * * * * **
48994696 ATCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCAGATGGTTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* * * *
48994745 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTG
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* *
48994795 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
48994836 AATAGCTTTG
Statistics
Matches: 161, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 78 0.48
50 46 0.29
51 37 0.23
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
Found at i:48996164 original size:6 final size:6
Alignment explanation
Indices: 48996155--48996188 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
48996145 AGGAAAATGA
*
48996155 AAAAAT -AAAAG AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
48996189 GAGAGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:48999376 original size:24 final size:24
Alignment explanation
Indices: 48999328--48999382 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
48999318 TATTCAAGTT
*
48999328 TCATA-TTTCAATTCTATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
48999352 TCATATTTTCAATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
48999376 TCA-ATTT
1 TCATATTT
48999383 AATCACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 9 0.32
26 4 0.14
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:49002095 original size:23 final size:23
Alignment explanation
Indices: 49002052--49002095 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49002042 CCAATTCAAC
*
49002052 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
49002075 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
49002096 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:49018605 original size:58 final size:59
Alignment explanation
Indices: 49018515--49018633 Score: 204
Period size: 58 Copynumber: 2.0 Consensus size: 59
49018505 GTTACCACGA
* *
49018515 GGATCGATCACCACTTGGGAACAAATGACCG-AAAATTTTTGCTTAAATACTTTTCGCC
1 GGATCGATCACCACTTGGAAACAAATGACCGAAAAATTTTTGCTTAAATACTTTCCGCC
*
49018573 GGATCGATCACCACTTGGAAACAAGTGACCGAAAAATTTTTGCTTAAATACTTTCCGCC
1 GGATCGATCACCACTTGGAAACAAATGACCGAAAAATTTTTGCTTAAATACTTTCCGCC
49018632 GG
1 GG
49018634 CTAAACGGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 29 0.51
59 28 0.49
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (59 bp):
GGATCGATCACCACTTGGAAACAAATGACCGAAAAATTTTTGCTTAAATACTTTCCGCC
Found at i:49021860 original size:26 final size:27
Alignment explanation
Indices: 49021808--49021862 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
49021798 TTATTATCCC
* *
49021808 TACTTTATTCTAATTCTTTATTTTGTT
1 TACTTTATTCTAAGTCTTTATTATGTT
* *
49021835 TACTTTATT-TGAGTCTTTGTTATGTT
1 TACTTTATTCTAAGTCTTTATTATGTT
49021861 TA
1 TA
49021863 ATATTAGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (27 bp):
TACTTTATTCTAAGTCTTTATTATGTT
Found at i:49023471 original size:21 final size:21
Alignment explanation
Indices: 49023445--49023484 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49023435 ACGACCATAG
49023445 CTACTACCACCGGAGTATCAT
1 CTACTACCACCGGAGTATCAT
49023466 CTACTACCACCGGAGTATC
1 CTACTACCACCGGAGTATC
49023485 CTCTTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (21 bp):
CTACTACCACCGGAGTATCAT
Found at i:49025274 original size:13 final size:13
Alignment explanation
Indices: 49025256--49025281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49025246 CTAAGCCACC
49025256 CCACACGGGCGTG
1 CCACACGGGCGTG
49025269 CCACACGGGCGTG
1 CCACACGGGCGTG
49025282 TCCCTGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:49026331 original size:13 final size:13
Alignment explanation
Indices: 49026313--49026337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49026303 CTGTGCATTC
49026313 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
49026326 TTAGTTTAGTTA
1 TTAGTTTAGTTA
49026338 GAGAAAATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:49029742 original size:30 final size:30
Alignment explanation
Indices: 49029692--49029752 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49029682 GAGTTTTCAG
* * *
49029692 GATCTACACGGGCAGGCCACACGCCAATGT
1 GATCCACACAGGCAGACCACACGCCAATGT
* *
49029722 GATCCACACAGGCAGACCACATGCCCATGT
1 GATCCACACAGGCAGACCACACGCCAATGT
49029752 G
1 G
49029753 CCAGCCTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.25, T:0.13
Consensus pattern (30 bp):
GATCCACACAGGCAGACCACACGCCAATGT
Found at i:49030069 original size:81 final size:81
Alignment explanation
Indices: 49029934--49030096 Score: 258
Period size: 81 Copynumber: 2.0 Consensus size: 81
49029924 CAAATCCACC
* *
49029934 TCAAGATTGAAGATCTCCATTCAAATTTCTCTCGAAGTTTATTTGGGTTGTTTATGTCCTAT-TT
1 TCAAGATTGAAGATCTCCATTAAAATTTCTCTCGAAGTTTATTTGAGTTGTTTATG-CCT-TGTT
49029998 -TTTTTCTAAATTTGAGA
64 GTTTTTCTAAATTTGAGA
* *
49030015 TCAAGGTTGAAGATCTCCATTAAAATTTCTCTCGAAGTTTATTTGAGTTTTTTATGCCTTGTTGT
1 TCAAGATTGAAGATCTCCATTAAAATTTCTCTCGAAGTTTATTTGAGTTGTTTATGCCTTGTTGT
49030080 TTTTCTAAATTTGAGA
66 TTTTCTAAATTTGAGA
49030096 T
1 T
49030097 GTTTTCCTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
79 1 0.01
80 5 0.07
81 70 0.92
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (81 bp):
TCAAGATTGAAGATCTCCATTAAAATTTCTCTCGAAGTTTATTTGAGTTGTTTATGCCTTGTTGT
TTTTCTAAATTTGAGA
Found at i:49030382 original size:98 final size:98
Alignment explanation
Indices: 49030213--49030401 Score: 342
Period size: 98 Copynumber: 1.9 Consensus size: 98
49030203 CTTGTTCTTG
* * *
49030213 ATTATGTGTTGTTAATCCTTTTTTTAATATTTTCAGGATATTATTCCAAGTTTGATGTGCTTTTT
1 ATTATGTGTTCTTAATCCTTATTTTAATATTTTCAGGATATTATTCCAAGTTTGATGTGCTTATT
*
49030278 CAGTGGAGCAAAAGTTCCTGTTTAAGAGTATAT
66 CAGTGGAGCAAAAGTCCCTGTTTAAGAGTATAT
49030311 ATTATGTGTTCTTAATCCTTATTTTAATATTTTCAGGATATTATTCCAAGTTTGATGTGCTTATT
1 ATTATGTGTTCTTAATCCTTATTTTAATATTTTCAGGATATTATTCCAAGTTTGATGTGCTTATT
49030376 CAGTGGAGCAAAAGTCCCTGTTTAAG
66 CAGTGGAGCAAAAGTCCCTGTTTAAG
49030402 GGTAGATTTA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.46
Consensus pattern (98 bp):
ATTATGTGTTCTTAATCCTTATTTTAATATTTTCAGGATATTATTCCAAGTTTGATGTGCTTATT
CAGTGGAGCAAAAGTCCCTGTTTAAGAGTATAT
Found at i:49034243 original size:16 final size:16
Alignment explanation
Indices: 49034213--49034275 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
49034203 ATTCTTATAC
49034213 TTATATTTCTAATTTTT
1 TTATATTT-TAATTTTT
49034230 TTATATTTTAATTTTT
1 TTATATTTTAATTTTT
* *
49034246 ATATACTTTT-ATTATT
1 TTATA-TTTTAATTTTT
49034262 TTA-ATTTTAATTTT
1 TTATATTTTAATTTT
49034276 AATTTTGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.10
15 5 0.12
16 19 0.47
17 12 0.30
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATATTTTAATTTTT
Found at i:49034249 original size:31 final size:30
Alignment explanation
Indices: 49034213--49034275 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
49034203 ATTCTTATAC
*
49034213 TTATAT-TTCTAATTTTTTTATATTTTAATTT
1 TTATATATT-TAATTATTTTA-ATTTTAATTT
*
49034244 TTATATACTTTTATTATTTTAATTTTAATTT
1 TTATATA-TTTAATTATTTTAATTTTAATTT
49034275 T
1 T
49034276 AATTTTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 17 0.61
32 9 0.32
33 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (30 bp):
TTATATATTTAATTATTTTAATTTTAATTT
Found at i:49034303 original size:22 final size:22
Alignment explanation
Indices: 49034278--49034320 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49034268 TTAATTTTAA
49034278 TTTTGCTATTTCTATTTTTTTCT
1 TTTTGCT-TTTCTATTTTTTTCT
* *
49034301 TTTTTCTTTTGTATTTTTTT
1 TTTTGCTTTTCTATTTTTTT
49034321 ACTATTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTGCTTTTCTATTTTTTTCT
Found at i:49034370 original size:18 final size:18
Alignment explanation
Indices: 49034347--49034382 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
49034337 TTACCTTTTA
49034347 AGTTTATTGA-TATTATTT
1 AGTTTATT-ATTATTATTT
49034365 AGTTTATTATTATTATTT
1 AGTTTATTATTATTATTT
49034383 TATTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
AGTTTATTATTATTATTT
Found at i:49034374 original size:3 final size:3
Alignment explanation
Indices: 49034368--49034446 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
49034358 ATTATTTAGT
* * *
49034368 TTA TTA TTA TTA TT- TTA TTA TTA TTTA TCT- TTC TTT TTAA TT- TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TT-A TTA TTA
*
49034413 TT- TTA GTTG TT- TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49034447 TTCTCTTCAA
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
2 9 0.14
3 47 0.73
4 8 0.12
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:49042141 original size:23 final size:23
Alignment explanation
Indices: 49042115--49042179 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
49042105 CGGATACACG
* *
49042115 GATCCAACCAAACATACCAGAAT
1 GATCCACCCAAACACACCAGAAT
49042138 GATCCACCCAAACACACCAGAAT
1 GATCCACCCAAACACACCAGAAT
* *
49042161 AATCTACCCAAACACACCA
1 GATCCACCCAAACACACCA
49042180 AAACGACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.46, C:0.37, G:0.06, T:0.11
Consensus pattern (23 bp):
GATCCACCCAAACACACCAGAAT
Found at i:49042380 original size:24 final size:24
Alignment explanation
Indices: 49042328--49042386 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
49042318 GGGGTATTCA
*
49042328 ATTT-TCATA-TTTCAATTCCATC
1 ATTTCTCATATTTTCAATTCAATC
49042350 ATTTTCTCATATTTTCAATTCAAATC
1 A-TTTCTCATATTTTCAATTC-AATC
49042376 A-TTCTCA-ATTT
1 ATTTCTCATATTT
49042387 AATCACAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.03
23 7 0.22
24 11 0.34
25 9 0.28
26 4 0.12
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTCTCATATTTTCAATTCAATC
Found at i:49044375 original size:35 final size:35
Alignment explanation
Indices: 49044250--49044362 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
49044240 TAATCTCTGT
* ** * * *
49044250 TTGGTGTGTTTTGGTTGGACTAGTTCTTATGGGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* *
49044285 TTGGTGTGTTTCGGAGGGATTAACTTTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
** *
49044320 TTGGTGTGTTTCAAAGGGATTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
49044355 TTGGTGTG
1 TTGGTGTG
49044363 CTTTGGTTGG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:49054226 original size:30 final size:30
Alignment explanation
Indices: 49054191--49054278 Score: 142
Period size: 30 Copynumber: 2.9 Consensus size: 30
49054181 TAGGCAGTCC
*
49054191 CACACGGGTA-ATCCACACACCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
49054221 CACACGGGTAGACCACACGCCCGTGTGTGA
1 CACACGGGTAGACCACACGCCCGTGTGTGA
*
49054251 CACATGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
49054279 CATGGCCGCG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
30 54 0.98
31 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.27, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:49060188 original size:62 final size:62
Alignment explanation
Indices: 49060091--49060214 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
49060081 ACACCTAGAG
49060091 CAATTATCAGTGATAGGGGTACTCATTTTTTTAACACCCATTTTGATAAGACCCTTAAGAAA
1 CAATTATCAGTGATAGGGGTACTCATTTTTTTAACACCCATTTTGATAAGACCCTTAAGAAA
49060153 CAATTATCAGTGATAGGGGTACTCATTTTTTTAACACCCATTTTGATAAGACCCTTAAGAAA
1 CAATTATCAGTGATAGGGGTACTCATTTTTTTAACACCCATTTTGATAAGACCCTTAAGAAA
49060215 TACGGAGTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (62 bp):
CAATTATCAGTGATAGGGGTACTCATTTTTTTAACACCCATTTTGATAAGACCCTTAAGAAA
Found at i:49062039 original size:13 final size:13
Alignment explanation
Indices: 49062021--49062045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49062011 GGTTTATTTA
49062021 TTAAACTAATTAT
1 TTAAACTAATTAT
49062034 TTAAACTAATTA
1 TTAAACTAATTA
49062046 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:49065420 original size:8 final size:8
Alignment explanation
Indices: 49065407--49065435 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
49065397 ATTTCAACAG
49065407 TAATGGGT
1 TAATGGGT
49065415 TAATGGGT
1 TAATGGGT
49065423 TAATGGGT
1 TAATGGGT
49065431 TAATG
1 TAATG
49065436 ATTAGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TAATGGGT
Found at i:49067807 original size:70 final size:70
Alignment explanation
Indices: 49067694--49067834 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
49067684 GACGACATAA
* * *
49067694 TGTACCTGAAAATATATGAGCATTGATAGAATCTAAGATACATTAGTAGTTAAGCAAGAGGCCCC
1 TGTACCTGAAAATATATGAGCAATGATAGAATCCAAGATACATTAATAGTTAAGCAAGAGGCCCC
49067759 AAAAC
66 AAAAC
* *
49067764 TGTACCTGAAAATATATGAGCAATGATAGAATCCACGATACATTAATCGTTAAGCAAGAGGCCCC
1 TGTACCTGAAAATATATGAGCAATGATAGAATCCAAGATACATTAATAGTTAAGCAAGAGGCCCC
49067829 AAAAC
66 AAAAC
49067834 T
1 T
49067835 TGTATATGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (70 bp):
TGTACCTGAAAATATATGAGCAATGATAGAATCCAAGATACATTAATAGTTAAGCAAGAGGCCCC
AAAAC
Found at i:49071888 original size:13 final size:13
Alignment explanation
Indices: 49071870--49071894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49071860 GGTTTATTTA
49071870 TTAAACTAATTAT
1 TTAAACTAATTAT
49071883 TTAAACTAATTA
1 TTAAACTAATTA
49071895 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:49072111 original size:63 final size:63
Alignment explanation
Indices: 49072012--49072141 Score: 233
Period size: 63 Copynumber: 2.1 Consensus size: 63
49072002 ACTCTGAACC
* *
49072012 AGACGATTTATTCACTTGAGTTGATCCGTAGAGATCCCTAAGTTAAGTTATTATCCCTATTCA
1 AGACGATTTATTCACTTAACTTGATCCGTAGAGATCCCTAAGTTAAGTTATTATCCCTATTCA
*
49072075 AGACGATTTATTCACTTAACTTGATCCTTAGAGATCCCTAAGTTAAGTTATTATCCCTATTCA
1 AGACGATTTATTCACTTAACTTGATCCGTAGAGATCCCTAAGTTAAGTTATTATCCCTATTCA
49072138 AGAC
1 AGAC
49072142 TAATAACGTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (63 bp):
AGACGATTTATTCACTTAACTTGATCCGTAGAGATCCCTAAGTTAAGTTATTATCCCTATTCA
Found at i:49080424 original size:5 final size:6
Alignment explanation
Indices: 49080413--49080438 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49080403 TAATATTTAA
49080413 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
49080439 ATAAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:49080521 original size:19 final size:19
Alignment explanation
Indices: 49080471--49080518 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
49080461 TTACAATACC
49080471 ATTAA-TTAATTTAAATAT
1 ATTAATTTAATTTAAATAT
* *
49080489 TTTATTTTAA-TTAAA-AT
1 ATTAATTTAATTTAAATAT
49080506 ATTAATTTAATTT
1 ATTAATTTAATTT
49080519 TAAGAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 10 0.42
18 10 0.42
19 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTAATTTAATTTAAATAT
Found at i:49087358 original size:19 final size:19
Alignment explanation
Indices: 49087334--49087407 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
49087324 ATAATCTTCA
49087334 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49087353 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49087372 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49087390 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
49087408 AGATATGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:49087381 original size:37 final size:38
Alignment explanation
Indices: 49087334--49087414 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
49087324 ATAATCTTCA
49087334 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
49087372 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
49087408 A-GATATG
1 ATGATATG
49087415 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:49087433 original size:22 final size:22
Alignment explanation
Indices: 49087334--49087430 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 22
49087324 ATAATCTTCA
49087334 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49087353 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49087372 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49087390 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
49087412 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
49087431 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
18 18 0.25
19 33 0.46
22 8 0.11
23 12 0.17
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:49096505 original size:220 final size:220
Alignment explanation
Indices: 49096100--49096687 Score: 879
Period size: 220 Copynumber: 2.7 Consensus size: 220
49096090 GCTAAAGCAG
* * * * ** * ** *
49096100 AGCAGATTTGACCTTCAGGTATTTACGCTGAAGTGGATCCAAGATGATTTAACATCTCTGTATTG
1 AGCAGATGTGGCCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTG
* * * *
49096165 TCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTTGACGGAGAGCAGATCTAAGACA
66 TCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACA
* * *
49096230 TAGCAGAACTAACCTTCAGATGTTTTCACATCTAAGTAGATCCAAGATTATTTGGCATCCTTGCA
131 TAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCA
49096295 TTGACAAGGAACAGATCGAAGACAT
196 TTGACAAGGAACAGATCGAAGACAT
* * * *
49096320 AGCATATGTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTATACTG
1 AGCAGATGTGGCCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTG
*
49096385 TCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGACA
66 TCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACA
** * * *
49096450 TAAAAGATCTAACCTTCGGATTTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCG
131 TAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCA
*
49096515 TTGACAAGGAGCAGATCGAAGACAT
196 TTGACAAGGAACAGATCGAAGACAT
*
49096540 AGCAGATTTGGCCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTG
1 AGCAGATGTGGCCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTG
* * *
49096605 TCATAGAATAAATTGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACA
66 TCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACA
*
49096670 TAGCAGATCTGACCTTCA
131 TAGCAGATCTAACCTTCA
49096688 TTGAAGCAGA
Statistics
Matches: 327, Mismatches: 41, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
220 327 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (220 bp):
AGCAGATGTGGCCTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTG
TCAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACA
TAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCA
TTGACAAGGAACAGATCGAAGACAT
Found at i:49096739 original size:78 final size:78
Alignment explanation
Indices: 49096628--49097237 Score: 819
Period size: 78 Copynumber: 7.6 Consensus size: 78
49096618 TGAAGAAATA
** * *
49096628 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
49096693 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
49096706 GATTTGGTATCTCTGTATTAGACAGTGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
49096771 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * **
49096784 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGACATAGCAGAGATGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
49096849 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
49096862 GATTTGGCATCTCTGCATTAGACGGGGAGCATATCGAAGACATAACAAAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
49096926 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
49096940 TATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA-----
49097005 TTACATCGAAGCAGATCCAAGAT
61 -T---T-GAAGCAGATCCAAGAT
* *
49097028 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
49097093 TGAAGCAGATCCAAGAT
62 TGAAGCAGATCCAAGAT
* * * *
49097110 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGATATAACAGAT-TGGACCTTCATTAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
49097174 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
49097188 GATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCGAAGACATAGCAGAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGAT
49097238 TTGGCTTTCA
Statistics
Matches: 474, Mismatches: 41, Indels: 34
0.86 0.07 0.06
Matches are distributed among these distances:
77 2 0.00
78 380 0.80
79 1 0.00
82 16 0.03
83 1 0.00
84 1 0.00
86 1 0.00
87 1 0.00
88 16 0.03
92 55 0.12
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:49097222 original size:248 final size:241
Alignment explanation
Indices: 49096628--49097291 Score: 889
Period size: 248 Copynumber: 2.7 Consensus size: 241
49096618 TGAAGAAATA
** * * *
49096628 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
* * *
49096692 AGCAGATCCAAGATGATTTGGTATCTCTGTATTAGACA-GTGAGCAGATCAAAGACACAGCAGAT
65 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA-AGGGGAGCAGATCAAAGACATAGCAGAT
49096756 CTGACCTTCA-----T--TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
129 CTGACCTTCAGTGTTTACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
* *
49096814 AGATCAAAGACATAGCAGAGATGACCTTCATTGAAGCAGATCCAAGAT
194 AGATCAAAGACACAACAGAGATGACCTTCATTGAAGCAGATCCAAGAT
* * *
49096862 GATTTGGCATCTCTGCATTAGACGGGGAGCATATCGAAGACATAACAAATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
* * *
49096927 GCAGATCCAAGATTATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCAAAGACATAGCAGATCT
49096992 GACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGG
131 GACCTTCA-GTGTTTAC-T-GAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGG
* * **
49097057 GGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGAT
189 AGAGCAGATCAAAGACACAACAGAGATGACCTTCATTGAAGCAGATCCAAGAT
* * *
49097110 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATCGAAGATATAACAGATTGGACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
* *
49097175 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCGAAGACATAGCAGATTT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCAAAGACATAGCAGATCT
* * * *
49097240 GGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTT-GCATCTCTGTA
131 GACCTTCA-GTGTTTA--CTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
49097292 CTGTCAGAAA
Statistics
Matches: 376, Mismatches: 36, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
233 1 0.00
234 121 0.32
240 1 0.00
243 12 0.03
244 21 0.06
248 218 0.58
249 1 0.00
250 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (241 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCAAAGACATAGCAGATCT
GACCTTCAGTGTTTACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAG
ATCAAAGACACAACAGAGATGACCTTCATTGAAGCAGATCCAAGAT
Found at i:49097660 original size:78 final size:78
Alignment explanation
Indices: 49097531--49097761 Score: 419
Period size: 78 Copynumber: 3.0 Consensus size: 78
49097521 CTCTAAGATT
49097531 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGATT
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGATT
49097596 GGACCTTCATTGA
66 GGACCTTCATTGA
49097609 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGATT
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGATT
49097674 GGACCTTCATTGA
66 GGACCTTCATTGA
* * *
49097687 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATC
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGAT-
49097752 T-GACCTTCAT
65 TGGACCTTCAT
49097762 ATGTTTACAT
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
78 148 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAACAGATT
GGACCTTCATTGA
Found at i:49097822 original size:45 final size:45
Alignment explanation
Indices: 49097701--49097974 Score: 268
Period size: 45 Copynumber: 6.1 Consensus size: 45
49097691 GATCCAAGAT
* *
49097701 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
49097748 GATCTGACCTTCATATGT-TTACATC--GAAGCAGATCCAAGATGACA
1 GATTTG-GCATC-TCTGTATTAGA-CGGGGAGCAGATCGAAGATAACA
* * *
49097793 GATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
49097838 GATTTGGCATATCTGTATTAGACGGGGAGTAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
49097882 GATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
49097927 GATTTGGCGTCTCTATATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
49097972 GAT
1 GAT
49097975 ATCGCCTTCT
Statistics
Matches: 184, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 5 0.03
44 45 0.24
45 106 0.58
47 16 0.09
48 7 0.04
49 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:49097946 original size:89 final size:90
Alignment explanation
Indices: 49097775--49097974 Score: 269
Period size: 89 Copynumber: 2.2 Consensus size: 90
49097765 TTTACATCGA
* * *
49097775 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTAGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAG
*
49097839 ATTTGGCATATCTGTATTAGACGGGG
65 ATTTGGCATATCTATATTAGACGGGG
* ** * * *
49097865 AGTAGATTGAAGA-AGCAGATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTAGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGA
* *
49097929 TTTGGCGTCTCTATATTAGACGGGG
66 TTTGGCATATCTATATTAGACGGGG
49097954 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
49097975 ATCGCCTTCT
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 76 0.81
90 18 0.19
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTAGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGA
TTTGGCATATCTATATTAGACGGGG
Found at i:49097946 original size:134 final size:136
Alignment explanation
Indices: 49097701--49097957 Score: 326
Period size: 134 Copynumber: 1.9 Consensus size: 136
49097691 GATCCAAGAT
* *
49097701 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATATGT
1 GATTTGGCATATCTGTATTAGACGGGGAGTAGATCGAAGA-ATAGCAGATCTGACCGTCATATGT
* *
49097766 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGGA
65 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCAAATCGGA
49097831 GATAACA
130 GATAACA
* * * *
49097838 GATTTGGCATATCTGTATTAGACGGGGAGTAGATTGAAG-A-AGCAGAT-TTAGCGTC-TCTGTA
1 GATTTGGCATATCTGTATTAGACGGGGAGTAGATCGAAGAATAGCAGATCTGACCGTCATATGT-
* * * * *
49097899 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTAGACGGGGAGCA
65 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCA
49097958 GATCAAAGAT
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
132 5 0.05
133 9 0.09
134 52 0.50
135 1 0.01
137 37 0.36
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (136 bp):
GATTTGGCATATCTGTATTAGACGGGGAGTAGATCGAAGAATAGCAGATCTGACCGTCATATGTT
TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTATATTAGACGGGAAGCAAATCGGAG
ATAACA
Found at i:49098347 original size:19 final size:19
Alignment explanation
Indices: 49098323--49098396 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
49098313 ATAATCTTCA
49098323 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49098342 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49098361 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
49098379 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
49098397 AGATATGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:49098370 original size:37 final size:38
Alignment explanation
Indices: 49098323--49098403 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
49098313 ATAATCTTCA
49098323 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
49098361 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
49098397 A-GATATG
1 ATGATATG
49098404 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:49098422 original size:22 final size:22
Alignment explanation
Indices: 49098323--49098419 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 22
49098313 ATAATCTTCA
49098323 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49098342 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49098361 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
49098379 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
49098401 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
49098420 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
18 18 0.25
19 33 0.46
22 8 0.11
23 12 0.17
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:49098709 original size:17 final size:17
Alignment explanation
Indices: 49098685--49098720 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
49098675 TATTTCCCTG
*
49098685 ATTTTTTTTATATATTTT
1 ATTTTTTTAATA-ATTTT
49098703 ATTTTTTTAATAATTTT
1 ATTTTTTTAATAATTTT
49098720 A
1 A
49098721 GAATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTTTAATAATTTT
Found at i:49099757 original size:14 final size:15
Alignment explanation
Indices: 49099734--49099775 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
49099724 CAGTTAATTA
49099734 TAAC-TATAATTAAT
1 TAACTTATAATTAAT
49099748 T-ACTTATAATTAAT
1 TAACTTATAATTAAT
*
49099762 TAACTTTTAATTAA
1 TAACTTATAATTAA
49099776 AGTATATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 12 0.48
15 11 0.44
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TAACTTATAATTAAT
Found at i:49099943 original size:20 final size:20
Alignment explanation
Indices: 49099920--49099961 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49099910 TTTTCTTATA
49099920 ATTTTTATGTTTTTGAGGTC
1 ATTTTTATGTTTTTGAGGTC
49099940 ATTTTTATGTTTTTGAGGTC
1 ATTTTTATGTTTTTGAGGTC
49099960 AT
1 AT
49099962 AAGAGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (20 bp):
ATTTTTATGTTTTTGAGGTC
Found at i:49106159 original size:15 final size:15
Alignment explanation
Indices: 49106124--49106174 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
49106114 AAACTTTAAT
* *
49106124 TATTATTTAAGATAAA
1 TATTATTTTA-ATATA
49106140 TATTATTTTAATATA
1 TATTATTTTAATATA
*
49106155 TATTATATTAATATA
1 TATTATTTTAATATA
49106170 -ATTAT
1 TATTAT
49106175 GATTTTGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 5 0.16
15 18 0.56
16 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TATTATTTTAATATA
Found at i:49107515 original size:51 final size:51
Alignment explanation
Indices: 49107439--49107543 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
49107429 GACGGTTTAA
49107439 CAACCAAAGAGGAGATCCTTAAGGTAGCTCAACATTCAGACAATCAATCTC
1 CAACCAAAGAGGAGATCCTTAAGGTAGCTCAACATTCAGACAATCAATCTC
*
49107490 CAACCAAAGAGGGGATCCTTAAGGTAGCTCAACATTCAGACAATCAATCTC
1 CAACCAAAGAGGAGATCCTTAAGGTAGCTCAACATTCAGACAATCAATCTC
49107541 CAA
1 CAA
49107544 AAGATAGTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (51 bp):
CAACCAAAGAGGAGATCCTTAAGGTAGCTCAACATTCAGACAATCAATCTC
Found at i:49108487 original size:15 final size:15
Alignment explanation
Indices: 49108467--49108498 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49108457 CATTTCACTA
*
49108467 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
49108482 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
49108497 TT
1 TT
49108499 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:49109649 original size:20 final size:19
Alignment explanation
Indices: 49109615--49109666 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 19
49109605 GAAAACTTAA
49109615 TTTGG-AAAATCTAATTGATT
1 TTTGGAAAAAT-TAATT-ATT
49109635 TTTGGAAAAATT-A--ATT
1 TTTGGAAAAATTAATTATT
49109651 TTTGGAAAAATTAATT
1 TTTGGAAAAATTAATT
49109667 TTGATCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 15 0.54
17 1 0.04
19 1 0.04
20 6 0.21
21 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (19 bp):
TTTGGAAAAATTAATTATT
Found at i:49109669 original size:15 final size:16
Alignment explanation
Indices: 49109627--49109668 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
49109617 TGGAAAATCT
*
49109627 AATTGATTTTTGGAAA
1 AATTAATTTTTGGAAA
49109643 AATTAATTTTTGGAAA
1 AATTAATTTTTGGAAA
49109659 AATTAATTTT
1 AATTAATTTT
49109669 GATCAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (16 bp):
AATTAATTTTTGGAAA
Found at i:49120116 original size:452 final size:452
Alignment explanation
Indices: 49119272--49120801 Score: 3033
Period size: 452 Copynumber: 3.4 Consensus size: 452
49119262 CCTTGTCCTA
*
49119272 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATAGGCTGATCAGATTTTTAACAGAA
1 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
*
49119337 TAAAAACAATAAACACCAACAAGATGTTTGATTTTGACATGTATAATAGAGAAGGAATTTGTTTC
66 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
49119402 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
131 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
49119467 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
196 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
*
49119532 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAATAGATCA
261 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
49119597 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
326 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
49119662 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
391 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
49119724 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
1 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
49119789 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
66 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
49119854 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
131 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
49119919 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
196 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
49119984 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
261 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
49120049 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
326 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
49120114 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
391 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
49120176 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
1 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
49120241 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
66 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
49120306 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
131 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
49120371 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
196 TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
49120436 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
261 CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
49120501 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
326 AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
49120566 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
391 CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
49120628 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
1 ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
49120693 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
66 TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
49120758 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACT
131 TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACT
49120802 NCCAAAAAAA
Statistics
Matches: 1075, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
452 1075 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (452 bp):
ACACAAATAAACTACTGTGATAATGTTGGATTCTTTTTAATTGGCTGATCAGATTTTTAACAGAA
TAAAAACAATAAACACCAACAAGATGTTTGAGTTTGACATGTATAATAGAGAAGGAATTTGTTTC
TTTTGTTCTCCTTTGATCATCTACATGTTCATGCCATTGACACTTGGGCTTGCAAGGTGGTGATT
TTACTTAATTTGGCAGAGATTAGCCTCTAAATGAAAACTGGCATTGAAATGATTAAATAACACTG
CTAATTCATCCAAAACACAATCATTTTTCTCAAAATATATATTTTATGGAACAAACAACAGATCA
AAGTCCCATGACCAGGTGGGGTTGCAGTTGTAGTCGGAACAAGATTTTACTAAAATGTTTGAGAA
CAAAGTTACACAGTAAAATTGACAAGATAACAAGAATATCTCCTCTCAGCTGGAATTGTCAT
Found at i:49123069 original size:6 final size:6
Alignment explanation
Indices: 49123058--49123096 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
49123048 TACTGTTTAT
*
49123058 CAAGGG CAAGGG CAAGGG CAAGGG CAAGGT CAAGGG CAA
1 CAAGGG CAAGGG CAAGGG CAAGGG CAAGGG CAAGGG CAA
49123097 AAGTTTCGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.03
Consensus pattern (6 bp):
CAAGGG
Found at i:49134307 original size:20 final size:20
Alignment explanation
Indices: 49134284--49134335 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
49134274 AAATCCAAAT
*
49134284 TAAAATATTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
49134304 TAAAATCCTGAATTTCAGGA
1 TAAAATACTGAAATTCAGGA
49134324 TAAGAATACTGA
1 TAA-AATACTGA
49134336 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:49135120 original size:33 final size:32
Alignment explanation
Indices: 49135083--49135144 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
49135073 ATTTTACACA
*
49135083 TTTAATTGTT-TAATTAGATTTTAAAATAATTTT
1 TTTAATTATTGTAATTA-A-TTTAAAATAATTTT
*
49135116 TTTAATTATTGTAATTAATTTAAAGTAAT
1 TTTAATTATTGTAATTAATTTAAAATAAT
49135145 AATTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 10 0.38
33 10 0.38
34 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTAATTATTGTAATTAATTTAAAATAATTTT
Found at i:49135677 original size:92 final size:93
Alignment explanation
Indices: 49135559--49135776 Score: 314
Period size: 92 Copynumber: 2.4 Consensus size: 93
49135549 CGATGTTAAC
* * * * *
49135559 ACCAAGTACCACAATAAAGCATATATTGATAGTTCAAATACCATATTGGATATTTTCAAAGTGCA
1 ACCAAGTACCATAATAAAACACATATTGATAGTTCAAATACCATATTGAACATTTTCAAAGTGCA
* *
49135624 AATATTATATTTGACATTTTATGAAAG-
66 AATATCACATTTGACATTTTATGAAAGT
49135651 ACCAAGTACCATAATAAAACACATATTGATAGTTCAAATACCATATTGAACATTTTCAAAGTGCA
1 ACCAAGTACCATAATAAAACACATATTGATAGTTCAAATACCATATTGAACATTTTCAAAGTGCA
** *
49135716 GGTATCACATTTGACATTTTATGAATGT
66 AATATCACATTTGACATTTTATGAAAGT
* *
49135744 A-CAGGTACCATAATAAAACACATTTTGATAGTT
1 ACCAAGTACCATAATAAAACACATATTGATAGTT
49135777 TAGATATCAA
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 112 0.99
93 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (93 bp):
ACCAAGTACCATAATAAAACACATATTGATAGTTCAAATACCATATTGAACATTTTCAAAGTGCA
AATATCACATTTGACATTTTATGAAAGT
Found at i:49136556 original size:26 final size:26
Alignment explanation
Indices: 49136527--49136634 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49136517 TGATACAAAT
49136527 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49136553 TGATAATGGGTTAGGTAAATGTTTCG
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49136579 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49136605 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49136631 TGAT
1 TGAT
49136635 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49139650 original size:17 final size:18
Alignment explanation
Indices: 49139607--49139656 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
49139597 TCTATTCACA
*
49139607 AAATAAATATTATTAATTT
1 AAATAAAT-TTATCAATTT
49139626 AAAT-AATTTATCAA-TT
1 AAATAAATTTATCAATTT
*
49139642 AAATAAATTTCTCAA
1 AAATAAATTTATCAA
49139657 CCAAATCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.21
17 15 0.54
18 3 0.11
19 4 0.14
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAAATTTATCAATTT
Found at i:49142824 original size:27 final size:27
Alignment explanation
Indices: 49142794--49142934 Score: 93
Period size: 27 Copynumber: 5.0 Consensus size: 27
49142784 TGTCTCATAC
49142794 CCATTGTTGTTGTAGTTGTCATTGTAG
1 CCATTGTTGTTGTAGTTGTCATTGTAG
* ** **
49142821 CCATTGGTGTTGTAGTTCCCGCTGTAG
1 CCATTGTTGTTGTAGTTGTCATTGTAG
* ** *
49142848 CCATTGTTGTTGTCGCTGCTGAGAGTGTAG
1 CCATTGTTGTTGTAG-T--TGTCATTGTAG
* * **
49142878 CCATTGTTGTTGTACTTACTTGTGGTGTAG
1 CCATTGTTGTTGTAGTT-GTCAT--TGTAG
* *
49142908 CCATTGTTGTTGTTGTTGTAATTGTAG
1 CCATTGTTGTTGTAGTTGTCATTGTAG
49142935 TTGTTTTTCT
Statistics
Matches: 84, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
27 41 0.49
28 1 0.01
29 3 0.04
30 39 0.46
ACGTcount: A:0.13, C:0.14, G:0.28, T:0.44
Consensus pattern (27 bp):
CCATTGTTGTTGTAGTTGTCATTGTAG
Found at i:49142879 original size:30 final size:30
Alignment explanation
Indices: 49142843--49142920 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
49142833 TAGTTCCCGC
*
49142843 TGTAGCCATTGTTGTTGT-CGCTGC-TGAGAG
1 TGTAGCCATTGTTGTTGTAC-CTACTTGAG-G
* *
49142873 TGTAGCCATTGTTGTTGTACTTACTTGTGG
1 TGTAGCCATTGTTGTTGTACCTACTTGAGG
49142903 TGTAGCCATTGTTGTTGT
1 TGTAGCCATTGTTGTTGT
49142921 TGTTGTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 39 0.91
31 4 0.09
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.44
Consensus pattern (30 bp):
TGTAGCCATTGTTGTTGTACCTACTTGAGG
Found at i:49142934 original size:57 final size:54
Alignment explanation
Indices: 49142794--49142934 Score: 138
Period size: 57 Copynumber: 2.5 Consensus size: 54
49142784 TGTCTCATAC
* *
49142794 CCATTGTTGTTGTAGTTGTCATTGTAGCCATTGGTGTTGTAGTTCCCGCTGTAG
1 CCATTGTTGTTGTAGTTGTAATTGTAGCCATTGGTGTTGTACTTCCCGCTGTAG
* * * * ** *
49142848 CCATTGTTGTTGTCGCTGCTGAGAGTGTAGCCATTGTTGTTGTACTTACTTGTGGTGTAG
1 CCATTGTTGTTGTAGTTG-T-A-ATTGTAGCCATTGGTGTTGTACTT-C--CCGCTGTAG
*
49142908 CCATTGTTGTTGTTGTTGTAATTGTAG
1 CCATTGTTGTTGTAGTTGTAATTGTAG
49142935 TTGTTTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
54 16 0.23
55 1 0.01
57 27 0.39
58 2 0.03
59 1 0.01
60 22 0.32
ACGTcount: A:0.13, C:0.14, G:0.28, T:0.44
Consensus pattern (54 bp):
CCATTGTTGTTGTAGTTGTAATTGTAGCCATTGGTGTTGTACTTCCCGCTGTAG
Found at i:49148012 original size:25 final size:25
Alignment explanation
Indices: 49147982--49148052 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 25
49147972 TATAAATAGT
*
49147982 AAGCTCTTCGGAGCTGAATAACGGA
1 AAGCTCTTCCGAGCTGAATAACGGA
*
49148007 CAGCTCACTCTTCCGAGCTGAATAACGGA
1 AAG----CTCTTCCGAGCTGAATAACGGA
* *
49148036 AAGCTCATGCGAGCTGA
1 AAGCTCTTCCGAGCTGA
49148053 GTATCGGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
25 14 0.38
29 23 0.62
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGCTCTTCCGAGCTGAATAACGGA
Found at i:49148018 original size:29 final size:29
Alignment explanation
Indices: 49147985--49148042 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
49147975 AAATAGTAAG
* *
49147985 CTCTTCGGAGCTGAATAACGGACAGCTCA
1 CTCTTCCGAGCTGAATAACGGAAAGCTCA
49148014 CTCTTCCGAGCTGAATAACGGAAAGCTCA
1 CTCTTCCGAGCTGAATAACGGAAAGCTCA
49148043 TGCGAGCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (29 bp):
CTCTTCCGAGCTGAATAACGGAAAGCTCA
Found at i:49148840 original size:12 final size:12
Alignment explanation
Indices: 49148820--49148852 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
49148810 TTAGATGTAA
*
49148820 AGGAACAAAGCC
1 AGGACCAAAGCC
49148832 AGGACCAAAGCC
1 AGGACCAAAGCC
49148844 AGGACCAAA
1 AGGACCAAA
49148853 ACCCCATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.27, G:0.24, T:0.00
Consensus pattern (12 bp):
AGGACCAAAGCC
Found at i:49156017 original size:135 final size:133
Alignment explanation
Indices: 49155707--49156017 Score: 340
Period size: 138 Copynumber: 2.3 Consensus size: 133
49155697 CTCTCTTATT
* * *
49155707 CACATTTGTATTTTTCATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTATTCTTTTAGCAT
1 CACATTTATATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTATTCTTTTAACAT
* * * * * * * *
49155772 ATTAGTTCTTTGGTTTGATGGTTAGATAGTTGCAATTACATCATTGAGTTTTGAGTTCGATTAAT
66 ATTAGTCCTTTCGTTAGATGGTTAGATAGTTGCAATTACATCATTAAGTCTCGAGTCCAATTAAT
*
49155837 CTC
131 CTA
* * * *
49155840 CTAC-TTGTATTTATATTTTT-TTTCATGTTGTTTGAAGCTTTTTATA-TTTTAATTAATATTTT
1 C-ACATT-TA--TAT-TTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATT-AT-TCTT
* *
49155902 TTAACATATTAGTCCTTTTCGTTAGATGGTTAGATAGTTGTAATTACATTATTAAGTCTCGAGTC
59 TTAACATATTAGTCC-TTTCGTTAGATGGTTAGATAGTTGCAATTACATCATTAAGTCTCGAGTC
**
49155967 CAATTCTTCTA
123 CAATTAATCTA
*
49155978 CACATTTATATTTTTTATTTCATGTTGCTTCAAGTTTTTT
1 CACATTTATATTTTTTATTTCATGTTGCTTCAAGCTTTTT
49156018 TTTTAACATA
Statistics
Matches: 145, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
133 3 0.02
134 8 0.06
135 31 0.21
136 28 0.19
137 24 0.17
138 51 0.35
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (133 bp):
CACATTTATATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTATTCTTTTAACAT
ATTAGTCCTTTCGTTAGATGGTTAGATAGTTGCAATTACATCATTAAGTCTCGAGTCCAATTAAT
CTA
Found at i:49158242 original size:46 final size:46
Alignment explanation
Indices: 49158190--49158458 Score: 299
Period size: 46 Copynumber: 5.6 Consensus size: 46
49158180 TTTGAGTACT
* **
49158190 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
49158236 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
49158288 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
49158334 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
**
49158386 TCTGATCAAGA-GACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAA-ATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
49158432 TCTGATCAAGA-GACAAAGTGATAAGTG
1 TCTGATCAA-ATGACAAAGTGATAAGTG
49158459 GCTACACTTA
Statistics
Matches: 197, Mismatches: 13, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
46 113 0.57
52 84 0.43
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:49158311 original size:98 final size:98
Alignment explanation
Indices: 49158190--49158458 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
49158180 TTTGAGTACT
* *
49158190 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
49158255 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
49158288 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
49158353 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
49158386 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
49158451 GATAAGTG
65 GAAAAGTG
49158459 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:49158466 original size:37 final size:37
Alignment explanation
Indices: 49158422--49158530 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
49158412 GATAGCTTTA
49158422 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
49158459 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
49158496 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
49158531 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:49177808 original size:22 final size:22
Alignment explanation
Indices: 49177783--49177828 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
49177773 TTATAACCAC
*
49177783 TTGCATTCTTCTTC-TTTTTCAT
1 TTGCA-TCCTCTTCATTTTTCAT
*
49177805 TTGCATCCTCTTCATTTTTTAT
1 TTGCATCCTCTTCATTTTTCAT
49177827 TT
1 TT
49177829 TTATTTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (22 bp):
TTGCATCCTCTTCATTTTTCAT
Found at i:49184359 original size:79 final size:79
Alignment explanation
Indices: 49184276--49184434 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
49184266 CGAATCAATT
49184276 ACAAAAAAAAAAAAAAAACTGAAAAAATTAAACCACAATATTCCCCCCTAATTACGAGTCGTCTC
1 ACAAAAAAAAAAAAAAAACTGAAAAAATTAAACCACAATATTCCCCCCTAATTACGAGTCGTCTC
49184341 GATCTGAAAATTTC
66 GATCTGAAAATTTC
* *
49184355 ACAAAAAAAAAAAAAAAACTGCAAAAATTAAACCACAATATTCCTCCCTAATTACGAGTCGTCTC
1 ACAAAAAAAAAAAAAAAACTGAAAAAATTAAACCACAATATTCCCCCCTAATTACGAGTCGTCTC
49184420 GATCTGAAAATTTC
66 GATCTGAAAATTTC
49184434 A
1 A
49184435 AAACTTTGAC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.22
Consensus pattern (79 bp):
ACAAAAAAAAAAAAAAAACTGAAAAAATTAAACCACAATATTCCCCCCTAATTACGAGTCGTCTC
GATCTGAAAATTTC
Found at i:49185260 original size:16 final size:16
Alignment explanation
Indices: 49185239--49185286 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
49185229 GCCCAATAAC
49185239 CTAAACTACCAGCCCA
1 CTAAACTACCAGCCCA
49185255 CTAAACTACCAGCCCA
1 CTAAACTACCAGCCCA
*
49185271 CTAAACTAACAGCCCA
1 CTAAACTACCAGCCCA
49185287 TTACACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.42, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTACCAGCCCA
Found at i:49185972 original size:14 final size:16
Alignment explanation
Indices: 49185945--49185976 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49185935 TCTCTCTCCC
49185945 TTCTACCCTCTCTCTT
1 TTCTACCCTCTCTCTT
49185961 TTCT-CCCT-TCTCTT
1 TTCTACCCTCTCTCTT
49185975 TT
1 TT
49185977 TTTTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCTACCCTCTCTCTT
Found at i:49186421 original size:3 final size:3
Alignment explanation
Indices: 49186415--49186452 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
49186405 ATTTTTTTAC
*
49186415 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATGT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
49186453 GTTTACGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49194138 original size:49 final size:49
Alignment explanation
Indices: 49194074--49194181 Score: 184
Period size: 49 Copynumber: 2.2 Consensus size: 49
49194064 AATGTTATAC
49194074 ATATATTTTTTGAATCTTTTAATTTTTTTTAAATGTTATACATTTTTAT
1 ATATATTTTTTGAATCTTTTAATTTTTTTTAAATGTTATACATTTTTAT
*
49194123 ATATTTTTTTTGAATCTTTTAATTTTTTTTAAATGTTATACATTTTT-T
1 ATATATTTTTTGAATCTTTTAATTTTTTTTAAATGTTATACATTTTTAT
49194171 GATA-ATTTTTT
1 -ATATATTTTTT
49194182 CAGAATCAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
48 7 0.12
49 49 0.88
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.65
Consensus pattern (49 bp):
ATATATTTTTTGAATCTTTTAATTTTTTTTAAATGTTATACATTTTTAT
Found at i:49194757 original size:15 final size:14
Alignment explanation
Indices: 49194722--49194779 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
49194712 AAATTTGAAA
*
49194722 TTTAA-TTTTATAT
1 TTTAATTTTTAAAT
*
49194735 TTTTATTTTTAAAGT
1 TTTAATTTTTAAA-T
49194750 TTTAATTTTGTAAAT
1 TTTAATTTT-TAAAT
**
49194765 TTTAAAATTTAAAT
1 TTTAATTTTTAAAT
49194779 T
1 T
49194780 CAATTGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.11
14 12 0.32
15 17 0.46
16 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTAATTTTTAAAT
Found at i:49201839 original size:9 final size:9
Alignment explanation
Indices: 49201825--49201850 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49201815 AAAATAAATT
49201825 ATTAAAAAA
1 ATTAAAAAA
49201834 ATTAAAAAA
1 ATTAAAAAA
49201843 ATTAAAAA
1 ATTAAAAA
49201851 TTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:49203472 original size:26 final size:26
Alignment explanation
Indices: 49203436--49203487 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
49203426 GTTAATGGAG
*
49203436 TTAGGGTTTAAAGAATATTGTATATA
1 TTAGGGTTTAAAGAATATTGCATATA
*
49203462 TTAGGGTTTAAAGAGTATTGCATATA
1 TTAGGGTTTAAAGAATATTGCATATA
49203488 AATTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (26 bp):
TTAGGGTTTAAAGAATATTGCATATA
Done.