Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 56 of 153
Found at i:18273095 original size:20 final size:21
Alignment explanation
Indices: 18273072--18273135 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
18273062 TTTTTTCTAA
* *
18273072 TTTTTAATAAACTTTAA-AAT
1 TTTTTAATAAAATTCAATAAT
*
18273092 TTTTTATTAAAATTCAATAA-
1 TTTTTAATAAAATTCAATAAT
*
18273112 TTTTT-CTAAAATT-AATAAT
1 TTTTTAATAAAATTCAATAAT
18273131 TTTTT
1 TTTTT
18273136 TTATCTTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 5 0.13
19 12 0.32
20 19 0.50
21 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTAATAAAATTCAATAAT
Found at i:18273130 original size:18 final size:19
Alignment explanation
Indices: 18273099--18273134 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
18273089 AATTTTTTAT
18273099 TAAAATTCAATAATTTTTC
1 TAAAATTCAATAATTTTTC
18273118 TAAAATT-AATAATTTTT
1 TAAAATTCAATAATTTTT
18273135 TTTATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAATTCAATAATTTTTC
Found at i:18273135 original size:19 final size:20
Alignment explanation
Indices: 18273085--18273135 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
18273075 TTAATAAACT
*
18273085 TTAA-AATTTTTTATTAAAA
1 TTAATAATTTTTTACTAAAA
18273104 TTCAATAA-TTTTT-CTAAAA
1 TT-AATAATTTTTTACTAAAA
18273123 TTAATAATTTTTT
1 TTAATAATTTTTT
18273136 TTATCTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 7 0.25
21 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATAATTTTTTACTAAAA
Found at i:18273296 original size:87 final size:86
Alignment explanation
Indices: 18273168--18273327 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 86
18273158 AATAGCAGGG
* * * *
18273168 GCTTAATTGCTTTTTTAAAACATTTTTAGGGTCTTTTTGATGCATTTTGAATGTTCAAGTACCCA
1 GCTTAATTGCTTTTTTAAAACAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
18273233 ATCGAGTGAAAAAAAGTATGA
66 ATCGAGTGAAAAAAAGTATGA
* *
18273254 GCTTAATTGCTTTTTTTGAAGA-AGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACT
1 GCTTAATTGC-TTTTTT-AAAACAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACC
*
18273318 CAATTGAGTG
64 CAATCGAGTG
18273328 CAGAAGAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 10 0.15
87 52 0.80
88 3 0.05
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (86 bp):
GCTTAATTGCTTTTTTAAAACAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
ATCGAGTGAAAAAAAGTATGA
Found at i:18282152 original size:18 final size:19
Alignment explanation
Indices: 18282129--18282167 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18282119 TAAAAGTGTG
18282129 ATTATGAT-TATTTTCAAT
1 ATTATGATATATTTTCAAT
* *
18282147 ATTATGTTATATTTTGAAT
1 ATTATGATATATTTTCAAT
18282166 AT
1 AT
18282168 CATTTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTATGATATATTTTCAAT
Found at i:18299341 original size:25 final size:22
Alignment explanation
Indices: 18299297--18299346 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 22
18299287 TATGTTAATT
*
18299297 ATTTTAATAAATATATATTACA
1 ATTTTAATAAATATATATTAAA
18299319 ATTTTAATAAATAATTATAATTAAA
1 ATTTTAATAAAT-A-TAT-ATTAAA
18299344 ATT
1 ATT
18299347 AAAAAATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 1 0.04
24 3 0.12
25 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTTAATAAATATATATTAAA
Found at i:18302580 original size:17 final size:16
Alignment explanation
Indices: 18302560--18302612 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
18302550 TTCCTTAGTC
18302560 TTTCTCTCTTTCTTTCT
1 TTTCTCT-TTTCTTTCT
* *
18302577 TTTCTTTTTTTTTTCT
1 TTTCTCTTTTCTTTCT
18302593 CTTTC-CTTTATCTTTCT
1 -TTTCTCTTT-TCTTTCT
18302610 TTT
1 TTT
18302613 TCCACCTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTCTTTTCTTTCT
Found at i:18308084 original size:24 final size:23
Alignment explanation
Indices: 18308050--18308111 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
18308040 ATCAGGGCTG
18308050 TATAACGGGAAGCTCATAAGAGC
1 TATAACGGGAAGCTCATAAGAGC
*
18308073 TATAATCGGGAAGCTCATGAGAGCC
1 TATAA-CGGGAAGCTCATAAGAG-C
* *
18308098 AATAACGGGTAGCT
1 TATAACGGGAAGCT
18308112 TCGAAAAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (23 bp):
TATAACGGGAAGCTCATAAGAGC
Found at i:18314062 original size:13 final size:13
Alignment explanation
Indices: 18314044--18314070 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18314034 AGTTCTTTAT
18314044 TGCTTTTGAGAAA
1 TGCTTTTGAGAAA
18314057 TGCTTTTGAGAAA
1 TGCTTTTGAGAAA
18314070 T
1 T
18314071 TTGAGTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAA
Found at i:18314646 original size:22 final size:21
Alignment explanation
Indices: 18314621--18314664 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
18314611 AAGCATATGA
*
18314621 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
18314643 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
18314664 A
1 A
18314665 CTTATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:18318384 original size:21 final size:22
Alignment explanation
Indices: 18318360--18318406 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
18318350 TTGGTTATTG
18318360 ATAAAATA-TAAAT-ATTTAAT
1 ATAAAATATTAAATAATTTAAT
*
18318380 A-ATAAATATTATATAATTTAAT
1 ATA-AAATATTAAATAATTTAAT
18318402 ATAAA
1 ATAAA
18318407 TAATTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.05
20 6 0.27
21 4 0.18
22 10 0.45
23 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAATATTAAATAATTTAAT
Found at i:18318407 original size:21 final size:22
Alignment explanation
Indices: 18318373--18318416 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
18318363 AAATATAAAT
18318373 ATTTAATAATAAAT-ATTATATA
1 ATTTAATAATAAATAATT-TATA
18318395 ATTTAAT-ATAAATAATTTATA
1 ATTTAATAATAAATAATTTATA
18318416 A
1 A
18318417 CATATACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATAATAAATAATTTATA
Found at i:18318645 original size:19 final size:20
Alignment explanation
Indices: 18318621--18318664 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
18318611 TATGAAAAAT
*
18318621 AAAAC-TCTTTAAAATTTAA
1 AAAACATCTTTAAAATATAA
*
18318640 AAAACTATTTTTAAAATATAA
1 AAAAC-ATCTTTAAAATATAA
18318661 AAAA
1 AAAA
18318665 ATTCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
21 16 0.76
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAACATCTTTAAAATATAA
Found at i:18322173 original size:28 final size:26
Alignment explanation
Indices: 18322141--18322199 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
18322131 TTTAAATTTA
*
18322141 ATTTTTATTATTTATTTGTACAAAA-AAT
1 ATTTTTATTA-TAATTT-TA-AAAATAAT
*
18322169 ATTTTTTTTATAATTTTAAAAATAAT
1 ATTTTTATTATAATTTTAAAAATAAT
18322195 ATTTT
1 ATTTT
18322200 ACCAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 10 0.36
27 5 0.18
28 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTTTATTATAATTTTAAAAATAAT
Found at i:18329622 original size:18 final size:18
Alignment explanation
Indices: 18329601--18329662 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
18329591 AAATTAAATA
18329601 ATTATTTCAAATATCATT
1 ATTATTTCAAATATCATT
** *
18329619 ATTATTT-TTATAT-GTAT
1 ATTATTTCAAATATCAT-T
*
18329636 AATATTTCAAATATCATT
1 ATTATTTCAAATATCATT
*
18329654 ATTTTTTCA
1 ATTATTTCA
18329663 TCTACATTAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 19 0.59
19 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTTCAAATATCATT
Found at i:18332730 original size:104 final size:104
Alignment explanation
Indices: 18332550--18332745 Score: 313
Period size: 104 Copynumber: 1.9 Consensus size: 104
18332540 TATCGATACA
* * *
18332550 GTATCGATACTTCGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATTGCTTTTAAGATAGGG
1 GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATCGCTTTTAAGAGAGGG
18332615 TATCGATAATTCAAAAAATATCGATACTTGACCAAAAAG
66 TATCGATAATTCAAAAAATATCGATACTTGACCAAAAAG
* * *
18332654 GTATCGATACTTAGTAGGGTTTGTGAAAAATAAAATGC-ATTTTTGGTATCGCTTTTAAGAGGGG
1 GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTA-TTTTGGTATCGCTTTTAAGAGAGG
*
18332718 GTATCGATAATTCAAAAAATATTGATAC
65 GTATCGATAATTCAAAAAATATCGATAC
18332746 CTTTTTGGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 1 0.01
104 83 0.99
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (104 bp):
GTATCGATACTTAGTAGGGTTTGAGAAAAACAAAATGCTATTTTGGTATCGCTTTTAAGAGAGGG
TATCGATAATTCAAAAAATATCGATACTTGACCAAAAAG
Found at i:18335545 original size:63 final size:63
Alignment explanation
Indices: 18335461--18335597 Score: 193
Period size: 63 Copynumber: 2.2 Consensus size: 63
18335451 TATATCCCTA
* * * * * *
18335461 AAGGTGTTGATGTAGGGAATGATTGCGCATGTTGTGGTGCTTGTGTAAAATAAACTAGTGTTG
1 AAGGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
* *
18335524 AATGTGTTGATGTAAGAAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
1 AAGGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
*
18335587 AAGGTTTTGAT
1 AAGGTGTTGAT
18335598 ACGGGGAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.35
Consensus pattern (63 bp):
AAGGTGTTGATGTAAGAAATGATTGCGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
Found at i:18335608 original size:63 final size:63
Alignment explanation
Indices: 18335461--18335619 Score: 174
Period size: 63 Copynumber: 2.5 Consensus size: 63
18335451 TATATCCCTA
** * * * * *
18335461 AAGGTGTTGATGTAGGGAATGATTGCGCATGTTGTGGTGCTTGTGTAAAATAAACTAGTGTTG
1 AAGGTGTTGATACAGGGAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
* ** * *
18335524 AATGTGTTGATGTAAGAAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
1 AAGGTGTTGATACAGGGAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
* * * *
18335587 AAGGTTTTGATACGGGGAATGAGTGTGCGTGCT
1 AAGGTGTTGATACAGGGAATGATTGTGCATGCT
18335620 GTGATCCTTG
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 79 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (63 bp):
AAGGTGTTGATACAGGGAATGATTGTGCATGCTATGGTGCTTGGGTAAAATAAACTAGAGTTG
Found at i:18336594 original size:21 final size:20
Alignment explanation
Indices: 18336556--18336595 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18336546 AGTTATAACG
**
18336556 AATAAAATAAAATCAAAGAT
1 AATAAAATAAAAAAAAAGAT
18336576 AATAAAATTAAAAAAAAAGA
1 AATAAAA-TAAAAAAAAAGA
18336596 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AATAAAATAAAAAAAAAGAT
Found at i:18336626 original size:14 final size:14
Alignment explanation
Indices: 18336607--18336633 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18336597 TTAAAAATAT
18336607 AATTGAGGATTGAA
1 AATTGAGGATTGAA
18336621 AATTGAGGATTGA
1 AATTGAGGATTGA
18336634 GAATATAGAA
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:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
AATTGAGGATTGAA
Found at i:18337948 original size:18 final size:17
Alignment explanation
Indices: 18337938--18337980 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18337928 AAATTTTGTT
18337938 AATTTTTTAAAATTTTAA
1 AATTTTTT-AAATTTTAA
*
18337956 AATTTTTTAAA-GTTATA
1 AATTTTTTAAATTTTA-A
18337973 AATTTTTT
1 AATTTTTT
18337981 TGAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATTTTTTAAATTTTAA
Found at i:18337981 original size:18 final size:18
Alignment explanation
Indices: 18337938--18338006 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
18337928 AAATTTTGTT
*
18337938 AATTTTTTAAAATTTTAA
1 AATTTTTTAAAATTATAA
*
18337956 AATTTTTTAAAGTTATAA
1 AATTTTTTAAAATTATAA
*
18337974 ATTTTTTTGAAAATATATAAA
1 AATTTTTT-AAAAT-TAT-AA
*
18337995 AATTTATTAAAA
1 AATTTTTTAAAA
18338007 ATAATAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
18 23 0.55
19 4 0.10
20 7 0.17
21 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTTTTTAAAATTATAA
Found at i:18338024 original size:20 final size:21
Alignment explanation
Indices: 18337983--18338028 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
18337973 AATTTTTTTG
*
18337983 AAAATATATAAAAATTTATTA
1 AAAATATATAAAAATATATTA
*
18338004 AAAATA-ATAAAAA-ATATTT
1 AAAATATATAAAAATATATTA
18338023 AAAATA
1 AAAATA
18338029 CTTAAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 7 0.30
21 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATATAAAAATATATTA
Found at i:18338134 original size:9 final size:9
Alignment explanation
Indices: 18338122--18338163 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
18338112 TAAAATTGCA
18338122 AAAAATATT
1 AAAAATATT
18338131 AAAAATA-T
1 AAAAATATT
18338139 AAAAACTATT
1 AAAAA-TATT
*
18338149 AAAATTATT
1 AAAAATATT
18338158 ATAAAA
1 A-AAAA
18338164 ATTGCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 6 0.21
9 14 0.50
10 8 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:18338135 original size:47 final size:47
Alignment explanation
Indices: 18338084--18338178 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
18338074 CAAGTTATAA
*
18338084 AAAAACATTAAATA-TATTAAAAATAATAT-AAAATTGCAAAAAATATT
1 AAAAACA-TAAAAACTATTAAAAATAATATAAAAATTGCAAAAAA-ATT
* * *
18338131 AAAAATATAAAAACTATTAAAATTATTATAAAAATTGCAAAAAAATT
1 AAAAACATAAAAACTATTAAAAATAATATAAAAATTGCAAAAAAATT
18338178 A
1 A
18338179 TATAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 5 0.12
47 23 0.55
48 14 0.33
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (47 bp):
AAAAACATAAAAACTATTAAAAATAATATAAAAATTGCAAAAAAATT
Found at i:18338142 original size:18 final size:18
Alignment explanation
Indices: 18338083--18338152 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
18338073 ACAAGTTATA
* *
18338083 AAAAAACATTAAATATAT
1 AAAAAATATTAAAAATAT
* *
18338101 TAAAAATAATATAAAAT-T
1 AAAAAATATTA-AAAATAT
18338119 GCAAAAAATATTAAAAATAT
1 --AAAAAATATTAAAAATAT
*
18338139 AAAAACTATTAAAA
1 AAAAAATATTAAAA
18338153 TTATTATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
18 22 0.54
19 9 0.22
20 10 0.24
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (18 bp):
AAAAAATATTAAAAATAT
Found at i:18341596 original size:21 final size:20
Alignment explanation
Indices: 18341570--18341628 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
18341560 TTTCGTGCTT
18341570 AGTTTCCGTTTAGCTCTCACG
1 AGTTTCCGTTTAGCTCT-ACG
* * **
18341591 AGTTTCTGTTTAACTCATATT
1 AGTTTCCGTTTAGCTC-TACG
*
18341612 AGTTTCCGTTCAGCTCT
1 AGTTTCCGTTTAGCTCT
18341629 TTTAAGCTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (20 bp):
AGTTTCCGTTTAGCTCTACG
Found at i:18341659 original size:42 final size:42
Alignment explanation
Indices: 18341594--18341700 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
18341584 TCTCACGAGT
* * ** * * **
18341594 TTCTGTTTAACTCATATTAGTTTCCGTTCAGCTCTTTTAAGC
1 TTCTGTTTAACCCTTATGGGTTTCCGCTCACCTCTTACAAGC
* *
18341636 TTCTGTTTAACCCTTATGGGTTTCTGCTCACCTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCCGCTCACCTCTTACAAGC
* *
18341678 TTCCGTTCAACCCTTATGGGTTT
1 TTCTGTTTAACCCTTATGGGTTT
18341701 TTGTTTAGCT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCCGCTCACCTCTTACAAGC
Found at i:18341728 original size:42 final size:42
Alignment explanation
Indices: 18341633--18341728 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
18341623 AGCTCTTTTA
* *
18341633 AGCTTCTGTTTAACCCTTATGGGTTTCTGCTCACCTCTTACG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGCTCACCTCTCACG
* * * * * *
18341675 AGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGCTCACCTCTCACG
*
18341717 AGCTTTTGTTCA
1 AGCTTCTGTTCA
18341729 GCTTTCGGGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.43
Consensus pattern (42 bp):
AGCTTCTGTTCAACCCTTATGGGTTTCTGCTCACCTCTCACG
Found at i:18342626 original size:17 final size:17
Alignment explanation
Indices: 18342604--18342637 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18342594 TTTGATCTGG
18342604 AAATGATATGAAATGTT
1 AAATGATATGAAATGTT
18342621 AAATGATATGAAATGTT
1 AAATGATATGAAATGTT
18342638 CGTATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
AAATGATATGAAATGTT
Found at i:18344927 original size:25 final size:23
Alignment explanation
Indices: 18344874--18344920 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18344864 TTTGAAATAT
*
18344874 TAAAAAATAAAAGGATTAAATTC
1 TAAAAAATAAAAGGAGTAAATTC
*
18344897 TTAAAAATAAAAGGGGAGTAAATT
1 TAAAAAATAAAA--GGAGTAAATT
18344921 TCAAAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (23 bp):
TAAAAAATAAAAGGAGTAAATTC
Found at i:18347536 original size:23 final size:24
Alignment explanation
Indices: 18347510--18347574 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
18347500 AAATTTTATT
18347510 TTTATGTATATTTTA-TATTTAA-A
1 TTTAT-TATATTTTATTATTTAATA
18347533 TTTACTTA-ATTTTATTATTTAATA
1 TTTA-TTATATTTTATTATTTAATA
*
18347557 TTTATAAATATTTT-TTAT
1 TTTAT-TATATTTTATTAT
18347575 ATGCATACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 6 0.17
23 14 0.39
24 11 0.31
25 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATTATATTTTATTATTTAATA
Found at i:18360913 original size:14 final size:14
Alignment explanation
Indices: 18360879--18360915 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18360869 GGGTTTAATA
*
18360879 TATATGATTTAAGG
1 TATATGGTTTAAGG
*
18360893 TATATGGTTTAGGG
1 TATATGGTTTAAGG
18360907 TATATGGTT
1 TATATGGTT
18360916 AATTTAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:18360992 original size:14 final size:14
Alignment explanation
Indices: 18360965--18361030 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
18360955 AGGTTTATAA
18360965 ATTATGGAATTAGGG
1 ATTATGG-ATTAGGG
18360980 ATTATGGATTAGGG
1 ATTATGGATTAGGG
* *
18360994 ATTCTGGTTTAAGGG
1 ATTATGGATT-AGGG
18361009 -TT-T-GATTTAGGG
1 ATTATGGA-TTAGGG
*
18361021 TTTATGGATT
1 ATTATGGATT
18361031 TGGTGTCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 20 0.47
15 13 0.30
ACGTcount: A:0.24, C:0.02, G:0.32, T:0.42
Consensus pattern (14 bp):
ATTATGGATTAGGG
Found at i:18361208 original size:21 final size:21
Alignment explanation
Indices: 18361156--18361209 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
18361146 AAGATATATG
18361156 GGTTAGTA-GTTAGGGGTTAAA
1 GGTTAG-AGGTTAGGGGTTAAA
* * *
18361177 GGTTTGGGGTTAGGGGTTAGA
1 GGTTAGAGGTTAGGGGTTAAA
18361198 GGTTAGAGGTTA
1 GGTTAGAGGTTA
18361210 AGAGTTAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (21 bp):
GGTTAGAGGTTAGGGGTTAAA
Found at i:18365168 original size:43 final size:43
Alignment explanation
Indices: 18365099--18365298 Score: 240
Period size: 43 Copynumber: 4.7 Consensus size: 43
18365089 GAGAAGTGTT
* ** *
18365099 GCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGGGGAAAGCGTC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* *
18365141 GCTAAAGGTATTGATCTATAGCGGCGTTTATGGAAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * *
18365184 GCTAAAGGTCTTGAGCTATAGCGGCGTTTGTGGAAAAATCACC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * *
18365227 GCTAAAGGTCTTGATTTATAACGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * * * *
18365270 ACTAAAGGTCATGGTCTATAACAGCGTTT
1 GCTAAAGGTCTTGATCTATAGCGGCGTTT
18365299 ATTTCTAAAA
Statistics
Matches: 136, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 9 0.07
43 127 0.93
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
Found at i:18369827 original size:773 final size:772
Alignment explanation
Indices: 18368528--18370006 Score: 2336
Period size: 773 Copynumber: 1.9 Consensus size: 772
18368518 TTTTAGCCTC
18368528 ATTCTTGGCATAAATGTTACCAATCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
1 ATTCTTGGCATAAATGTTACCAATCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
*
18368593 TTGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTAGTGGTCATATGACCATATCGAG
66 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTAGTGGTCATATGACCATATCGAG
*
18368658 ATCCGTCATCAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCAAAAAAAAGA
131 ATCCGTCATAAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCAAAAAAAAGA
* * *
18368723 GTATTCGTTTTACTGTAGATATCAACCTCAAGCCTGGTTAGCCTTTGTTTGAAACAATGTTGTTC
196 GTATTCGTTTCACTGTAGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAATGTTGTTC
* * *
18368788 CAGTTCGTACGCTATGTATGTATTTCGAAAAGACAAGCTACCTTTTCGAATTAAATTATGGAAGT
261 CAGCTCGTACGCTACGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAAATTATGGAAGT
18368853 ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTATTTGCCCTAG
326 ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTATTTGCCCTAG
* * * * * *
18368918 TCTGCATTCATGTAGTCTCGGTAGAAGTTGGTAGCAGTGTGGTGGATACAGTAAATAGATTTTCA
391 TCTGCATTCATGTAGTCTCAGTAGAAGTTGGCAGCAATATGGCGGATACAGTAAACAGATTTTCA
* *
18368983 TGGAACACCAGAACACCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATATTG
456 TGAAACACCAGAACACCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATA-TA
* * *
18369048 TCTTCTCTAACAACATATG-CCTGCAAGTTCGTCAGGAAGAATTCTGGCGATTTCATATTCTCTA
520 TCTTCTCTAACAACATACGTCCT-CAAGTTCGTCAAGAAGAATTCTGGCGATTTCATATTCTCCA
* *
18369112 ACTCCACAATGGCAAACACTATCGATAGTAAGTTATGGT-TCCCGTATTGTGCAACCACAATAAG
584 ACTCCACAATGGCAAACACTATCGATAGCAAGTTATGGTAT-CCATATTGTGCAACCACAATAAG
*
18369176 AAGGATCTGCGTATATTTTTTGTATAACCAGGTGTCATCAACCTGCACAAGCGGCATGCAGTAGG
648 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCATGCAGTAGG
18369241 GAAATACCTACATGCATAAATCGAATATCCATGACATTTGGTGAAAAATTCTTCTTCCCA
713 GAAATACCTACATGCATAAATCGAATATCCATGACATTTGGTGAAAAATTCTTCTTCCCA
*** * *
18369301 ATTCTTGGCATAAATGTTGTTAGTCTGTAAAATATAGTTGAGAAAATAAATAAAATTAGAAAATG
1 ATTCTTGGCATAAATGTTACCAATCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
* *
18369366 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTTAGGTTGGTGGTCATATGACCATATCGAG
66 TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTAGTGGTCATATGACCATATCGAG
* *
18369431 ATCTGTCATAAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCTAAAAAAAGA
131 ATCCGTCATAAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCAAAAAAAAGA
* *
18369496 GTATTCGTTTCACTGTGGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAGTGTTGTTC
196 GTATTCGTTTCACTGTAGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAATGTTGTTC
* * * *
18369561 CAGCTCGTACGCTGCGTATGTATTTCAAAAAGACATGCTACGTTTTCGAATTAATTTATGGAAGT
261 CAGCTCGTACGCTACGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAAATTATGGAAGT
* *
18369626 ATTAATAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTGT-TTTGCGCTA
326 ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACT-TATTTGCCCTA
* * * *
18369690 TTCTGCATTCTTGTAGTCTCAGTGGAAGTTGGCGGCAATATGGCGGATACAGTAAACAGATTTTC
390 GTCTGCATTCATGTAGTCTCAGTAGAAGTTGGCAGCAATATGGCGGATACAGTAAACAGATTTTC
* * * * * * *
18369755 ATGAAACATCGGATCTCCTAATCGCGGCAATTAGTCTCTTCTACTTATCGAATATGATGCAAATA
455 ATGAAACACCAGAACACCTAATCGCGACAATTAG--TCTTCTACCTATCAAATATGATGCAAATA
*
18369820 -ATCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATGTTCTCC
518 TATCTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATATTCTCC
* * * * * * *
18369884 AACTCTACAATGGCAAACACTATCGGTAGCAAGTTCTGGTATTCATCTTGTGCAACTATAATAAG
583 AACTCCACAATGGCAAACACTATCGATAGCAAGTTATGGTATCCATATTGTGCAACCACAATAAG
* *
18369949 AAGTATCTGCGTATATTTTTCGTATAATCAGGTGTCATCAACCTGCACAAGCGGCATG
648 AAGGATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCATG
18370007 AAAAATTCTT
Statistics
Matches: 641, Mismatches: 60, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
773 609 0.95
774 5 0.01
775 27 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (772 bp):
ATTCTTGGCATAAATGTTACCAATCTGTAAAATATAGTTGAAAAAATAAATAAAATTAGAAAATG
TCGTGTTTGCTTCAAGACAAAGTTAATAACATTTGTCAGGTTAGTGGTCATATGACCATATCGAG
ATCCGTCATAAAAACTTTGAGCTCATTACCATGGCTCCATGGTACCCAACCACTCAAAAAAAAGA
GTATTCGTTTCACTGTAGATATCAACCTCAAGCCTGGTCAGCCTTTGCTTGAAACAATGTTGTTC
CAGCTCGTACGCTACGTATGTATTTCAAAAAGACAAGCTACCTTTTCGAATTAAATTATGGAAGT
ATTAAGAATATTTAAAAATATGTTGAAATCAAAATTTACCCATGCTCACTACTTATTTGCCCTAG
TCTGCATTCATGTAGTCTCAGTAGAAGTTGGCAGCAATATGGCGGATACAGTAAACAGATTTTCA
TGAAACACCAGAACACCTAATCGCGACAATTAGTCTTCTACCTATCAAATATGATGCAAATATAT
CTTCTCTAACAACATACGTCCTCAAGTTCGTCAAGAAGAATTCTGGCGATTTCATATTCTCCAAC
TCCACAATGGCAAACACTATCGATAGCAAGTTATGGTATCCATATTGTGCAACCACAATAAGAAG
GATCTGCGTATATTTTTCGTATAACCAGGTGTCATCAACCTGCACAAGCGGCATGCAGTAGGGAA
ATACCTACATGCATAAATCGAATATCCATGACATTTGGTGAAAAATTCTTCTTCCCA
Found at i:18407610 original size:19 final size:20
Alignment explanation
Indices: 18407588--18407625 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18407578 TTGGAAAAAA
18407588 AAAGAAAAAAGAAA-AAAGC
1 AAAGAAAAAAGAAAGAAAGC
* *
18407607 AAAGGAACAAGAAAGAAAG
1 AAAGAAAAAAGAAAGAAAG
18407626 GTTAGGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAGAAAGAAAGC
Found at i:18408251 original size:19 final size:19
Alignment explanation
Indices: 18408229--18408300 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
18408219 AATAAAACAC
18408229 TAAAAATTTATTTTAAAAA
1 TAAAAATTTATTTTAAAAA
**
18408248 TAAAAAAGTATTTTAAAAAA
1 TAAAAATTTATTTT-AAAAA
* * **
18408268 TTAAAATTAAAATTAAAAA
1 TAAAAATTTATTTTAAAAA
*
18408287 TAAAAATATATTTT
1 TAAAAATTTATTTT
18408301 CTTAATTGAA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 26 0.67
20 13 0.33
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAAAATTTATTTTAAAAA
Found at i:18409127 original size:16 final size:18
Alignment explanation
Indices: 18409088--18409121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18409078 TAAGTTTATA
18409088 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
18409105 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
18409122 AATTTAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:18409455 original size:24 final size:24
Alignment explanation
Indices: 18409423--18409473 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
18409413 AGACCGAATG
*
18409423 TTTTTTTTACTATTTTGTTGCTGT
1 TTTTTTTTACTATTTTGTTGCTAT
* *
18409447 TTTTTTTTATTGTTTTGTTGCTAT
1 TTTTTTTTACTATTTTGTTGCTAT
18409471 TTT
1 TTT
18409474 CTTGTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.06, G:0.12, T:0.75
Consensus pattern (24 bp):
TTTTTTTTACTATTTTGTTGCTAT
Found at i:18410969 original size:29 final size:27
Alignment explanation
Indices: 18410928--18411000 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
18410918 TTTTTTTAGA
* * * *
18410928 AAATTATTAAATTTCTTACAATTTTGT
1 AAATTACTGAATTTCTTAAAACTTTGT
*
18410955 AATACTTACCT-AATTCCTTAAAACTTTGT
1 AA-A-TTA-CTGAATTTCTTAAAACTTTGT
18410984 AAATTACTGAATTTCTT
1 AAATTACTGAATTTCTT
18411001 GCGAAATTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.05
27 12 0.32
28 2 0.05
29 20 0.54
30 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.47
Consensus pattern (27 bp):
AAATTACTGAATTTCTTAAAACTTTGT
Found at i:18423740 original size:22 final size:22
Alignment explanation
Indices: 18423713--18423800 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
18423703 GTATTTTAAT
18423713 AGTAGGCACCGTAGTGCAAAGT-
1 AGTAGGCACCGTAGTGCAAA-TC
* **
18423735 AGTAGGCACCGAAGTGTGAATC
1 AGTAGGCACCGTAGTGCAAATC
*
18423757 AGTAGGCACTGTAGTGCAAATC
1 AGTAGGCACCGTAGTGCAAATC
* *
18423779 AGTATGCACCATAGTGCAAATC
1 AGTAGGCACCGTAGTGCAAATC
18423801 TCGTTCAAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 1 0.02
22 54 0.98
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (22 bp):
AGTAGGCACCGTAGTGCAAATC
Found at i:18424902 original size:20 final size:20
Alignment explanation
Indices: 18424879--18424917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18424869 TTTTATGATA
*
18424879 TTACTAAAATTCTTACAAAT
1 TTACTAAAACTCTTACAAAT
*
18424899 TTACTAAAACTCTTGCAAA
1 TTACTAAAACTCTTACAAA
18424918 ATTGTGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
TTACTAAAACTCTTACAAAT
Found at i:18428291 original size:46 final size:46
Alignment explanation
Indices: 18428238--18428329 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
18428228 ATCCAATTAC
18428238 ACTCAATTCGGTGAAACCCACTAATTATAATAATTACTCAAACATG
1 ACTCAATTCGGTGAAACCCACTAATTATAATAATTACTCAAACATG
18428284 ACTCAATTCGGTGAAACCCACTAATTATAATAATTACTCAAACATG
1 ACTCAATTCGGTGAAACCCACTAATTATAATAATTACTCAAACATG
18428330 CCACAATTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (46 bp):
ACTCAATTCGGTGAAACCCACTAATTATAATAATTACTCAAACATG
Found at i:18434749 original size:11 final size:11
Alignment explanation
Indices: 18434733--18434759 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18434723 AGCCCGGCCC
18434733 ATATTAAATAT
1 ATATTAAATAT
18434744 ATATTAAATAT
1 ATATTAAATAT
18434755 ATATT
1 ATATT
18434760 TGATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:18447350 original size:21 final size:21
Alignment explanation
Indices: 18447225--18447369 Score: 148
Period size: 21 Copynumber: 6.9 Consensus size: 21
18447215 TCTCCTACGT
*
18447225 CATCCCCTGGTTACAG-CCCA
1 CATCTCCTGGTTACAGTCCCA
* **
18447245 TCATCTCCTGGATACAGTCCGT
1 -CATCTCCTGGTTACAGTCCCA
* *
18447267 CATCACCTGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCCA
* *
18447288 CCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGTTACAGTCCCA
*
18447309 CATCTCCTGGGTACAGTCCCA
1 CATCTCCTGGTTACAGTCCCA
* *
18447330 CCTCTCCTGGTTACAGCCCCA
1 CATCTCCTGGTTACAGTCCCA
* **
18447351 CATCACCTACTTACAGTCC
1 CATCTCCTGGTTACAGTCC
18447370 TAGCTCACCA
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
21 100 0.98
22 2 0.02
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.27
Consensus pattern (21 bp):
CATCTCCTGGTTACAGTCCCA
Found at i:18447354 original size:42 final size:42
Alignment explanation
Indices: 18447225--18447369 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
18447215 TCTCCTACGT
* * * **
18447225 CATCCCCTGGTTACAG-CCCATCATCTCCTGGATACAGTCCGT
1 CATCACCTGGTTACAGTCCCA-CCTCTCCTGGTTACAGTCCCA
* *
18447267 CATCACCTGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
* * *
18447309 CATCTCCTGGGTACAGTCCCACCTCTCCTGGTTACAGCCCCA
1 CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
**
18447351 CATCACCTACTTACAGTCC
1 CATCACCTGGTTACAGTCC
18447370 TAGCTCACCA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 84 0.97
43 3 0.03
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.27
Consensus pattern (42 bp):
CATCACCTGGTTACAGTCCCACCTCTCCTGGTTACAGTCCCA
Found at i:18447365 original size:63 final size:63
Alignment explanation
Indices: 18447246--18447390 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 63
18447236 TACAGCCCAT
** * * * * **
18447246 CATCTCCTGGATACAGTCCGTCATCACCTGGTTACAGTCCTACCTCTCCTGGTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* * *
18447309 CATCTCCTGGGTACAGTCCCACCTCTCCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
1 CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
* *
18447372 GC-TCACCAGGATACAGTCC
1 -CATCTCCTGGATACAGTCC
18447391 GACAAGTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
63 66 0.99
64 1 0.01
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (63 bp):
CATCTCCTGGATACAGTCCCACATCACCTGGTTACAGCCCCACATCACCTACTTACAGTCCTA
Found at i:18447464 original size:21 final size:21
Alignment explanation
Indices: 18447434--18447492 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
18447424 ATATTCTCCA
* *
18447434 ACCTCACCAAGTTATAGCCCT
1 ACCTCTCCAAGTTACAGCCCT
18447455 ACCTCTCCAAGTTACAGCCCT
1 ACCTCTCCAAGTTACAGCCCT
*
18447476 ACATCTCCAAGTTACAG
1 ACCTCTCCAAGTTACAG
18447493 TCCCACATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (21 bp):
ACCTCTCCAAGTTACAGCCCT
Found at i:18447500 original size:21 final size:21
Alignment explanation
Indices: 18447440--18447513 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
18447430 TCCAACCTCA
* *
18447440 CCAAGTTATAGCCCTACCTCT
1 CCAAGTTACAGCCCTACATCT
18447461 CCAAGTTACAGCCCTACATCT
1 CCAAGTTACAGCCCTACATCT
*
18447482 CCAAGTTACAGTCCC-ACATCC
1 CCAAGTTACAG-CCCTACATCT
*
18447503 CCCAGTTACAG
1 CCAAGTTACAG
18447514 TCCCACTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 45 0.94
22 3 0.06
ACGTcount: A:0.27, C:0.39, G:0.11, T:0.23
Consensus pattern (21 bp):
CCAAGTTACAGCCCTACATCT
Found at i:18447514 original size:21 final size:21
Alignment explanation
Indices: 18447461--18447519 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
18447451 CCCTACCTCT
*
18447461 CCAAGTTACAG-CCCTACATCT
1 CCAAGTTACAGTCCC-ACATCC
18447482 CCAAGTTACAGTCCCACATCC
1 CCAAGTTACAGTCCCACATCC
*
18447503 CCCAGTTACAGTCCCAC
1 CCAAGTTACAGTCCCAC
18447520 TTCACCTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.27, C:0.42, G:0.10, T:0.20
Consensus pattern (21 bp):
CCAAGTTACAGTCCCACATCC
Found at i:18447533 original size:21 final size:21
Alignment explanation
Indices: 18447488--18447547 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
18447478 ATCTCCAAGT
* * *
18447488 TACAGTCCCACATCCCCCAGT
1 TACAGTCCCACTTCACCCAGC
*
18447509 TACAGTCCCACTTCACCTAGC
1 TACAGTCCCACTTCACCCAGC
*
18447530 TACAGCCCCACTTCACCC
1 TACAGTCCCACTTCACCC
18447548 GTATATAGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.48, G:0.08, T:0.20
Consensus pattern (21 bp):
TACAGTCCCACTTCACCCAGC
Found at i:18447534 original size:42 final size:42
Alignment explanation
Indices: 18447488--18447568 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
18447478 ATCTCCAAGT
* * *
18447488 TACAGTCCCACATCCCCCAGT-TACAGTCCCACTTCACCTAGC
1 TACAGCCCCACATCACCC-GTATACAGCCCCACTTCACCTAGC
* *
18447530 TACAGCCCCACTTCACCCGTATATAGCCCCACTTCACCT
1 TACAGCCCCACATCACCCGTATACAGCCCCACTTCACCT
18447569 GCATATACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.23, C:0.46, G:0.09, T:0.22
Consensus pattern (42 bp):
TACAGCCCCACATCACCCGTATACAGCCCCACTTCACCTAGC
Found at i:18447607 original size:21 final size:21
Alignment explanation
Indices: 18447515--18447716 Score: 158
Period size: 21 Copynumber: 9.6 Consensus size: 21
18447505 CAGTTACAGT
* *
18447515 CCCACTTCACCTAGC-TACAGC
1 CCCACTTCTCCT-GCATATAGC
* * *
18447536 CCCACTTCACCCGTATATAGC
1 CCCACTTCTCCTGCATATAGC
* *
18447557 CCCACTTCACCTGCATATACC
1 CCCACTTCTCCTGCATATAGC
18447578 CCCACTTCTCCTGCATATAGC
1 CCCACTTCTCCTGCATATAGC
*
18447599 CCCACTTCTCCAT-CATACAGC
1 CCCACTTCTCC-TGCATATAGC
* * *
18447620 CCGACATCTCCAT-CATACAGC
1 CCCACTTCTCC-TGCATATAGC
* * * * *
18447641 CCTACATCTCCTTCGTACAGC
1 CCCACTTCTCCTGCATATAGC
* * *
18447662 CCCACATCTCCTTCCTATAGC
1 CCCACTTCTCCTGCATATAGC
* * *
18447683 CCCACATCTCCTTCCTATAGC
1 CCCACTTCTCCTGCATATAGC
18447704 CCCACTTCTCCTG
1 CCCACTTCTCCTG
18447717 GGTACAGTCC
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
20 2 0.01
21 157 0.98
22 1 0.01
ACGTcount: A:0.21, C:0.46, G:0.07, T:0.25
Consensus pattern (21 bp):
CCCACTTCTCCTGCATATAGC
Found at i:18447722 original size:63 final size:63
Alignment explanation
Indices: 18447515--18447723 Score: 188
Period size: 63 Copynumber: 3.3 Consensus size: 63
18447505 CAGTTACAGT
* * * * * * * *
18447515 CCCACTTCACCTAGC-TACAGCCCCACTTCACCCGT-ATATAGCCCCACTTCACCTGCATATACC
1 CCCACTTCTCCT-GCGTACAGCCCCACATC-TCCATCATATAGCCCCACATCTCCTTCATATAGC
* * * * * * *
18447578 CCCACTTCTCCTGCATATAGCCCCACTTCTCCATCATACAGCCCGACATCTCCATCATACAGC
1 CCCACTTCTCCTGCGTACAGCCCCACATCTCCATCATATAGCCCCACATCTCCTTCATATAGC
* * * * * *
18447641 CCTACATCTCCTTCGTACAGCCCCACATCTCCTTCCTATAGCCCCACATCTCCTTCCTATAGC
1 CCCACTTCTCCTGCGTACAGCCCCACATCTCCATCATATAGCCCCACATCTCCTTCATATAGC
*
18447704 CCCACTTCTCCTGGGTACAG
1 CCCACTTCTCCTGCGTACAG
18447724 TCCAACCTCA
Statistics
Matches: 115, Mismatches: 29, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
62 5 0.04
63 110 0.96
ACGTcount: A:0.22, C:0.45, G:0.09, T:0.25
Consensus pattern (63 bp):
CCCACTTCTCCTGCGTACAGCCCCACATCTCCATCATATAGCCCCACATCTCCTTCATATAGC
Found at i:18447745 original size:21 final size:21
Alignment explanation
Indices: 18447719--18447785 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
18447709 TTCTCCTGGG
18447719 TACAGTCCAACCTCACCAAGT
1 TACAGTCCAACCTCACCAAGT
* * *
18447740 TACAGTCCCACATCACCAAGC
1 TACAGTCCAACCTCACCAAGT
* * * *
18447761 TATAGCCCTACCTCTCCAAGT
1 TACAGTCCAACCTCACCAAGT
18447782 TACA
1 TACA
18447786 ACCCGCAGTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.39, G:0.09, T:0.21
Consensus pattern (21 bp):
TACAGTCCAACCTCACCAAGT
Found at i:18452795 original size:27 final size:23
Alignment explanation
Indices: 18452713--18452771 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
18452703 CAACTTGTAT
* **
18452713 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCAATA
18452736 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
18452759 GAGCTTACCGTTT
1 GAGCTTACCGTTT
18452772 ATTCAGCTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAATA
Found at i:18454644 original size:13 final size:13
Alignment explanation
Indices: 18454626--18454650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18454616 AGTTCTTTAT
18454626 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
18454639 TGCTTTTGAGAA
1 TGCTTTTGAGAA
18454651 ATTTGAGTGT
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:18455280 original size:3 final size:3
Alignment explanation
Indices: 18455272--18455319 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
18455262 TGATTCACCG
* * * * *
18455272 TCA TCA TCA CCG TCA TCA TCA CCA TCA TCA TCG TCA TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
18455320 CTTTCTCGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.27, C:0.38, G:0.06, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:18455283 original size:12 final size:12
Alignment explanation
Indices: 18455266--18455303 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
18455256 ATTGTTTGAT
18455266 TCACCGTCATCA
1 TCACCGTCATCA
18455278 TCACCGTCATCA
1 TCACCGTCATCA
*
18455290 TCACCATCATCA
1 TCACCGTCATCA
18455302 TC
1 TC
18455304 GTCATCGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.42, G:0.05, T:0.26
Consensus pattern (12 bp):
TCACCGTCATCA
Found at i:18460447 original size:71 final size:71
Alignment explanation
Indices: 18460359--18460528 Score: 322
Period size: 71 Copynumber: 2.4 Consensus size: 71
18460349 AAAATCATTT
*
18460359 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
1 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
18460424 CCAAAC
66 CCAAAC
18460430 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
1 ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
18460495 CCAAAC
66 CCAAAC
*
18460501 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAATAACTATTGATAAAACTAATTTA
18460529 CAATTGTTTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 97 1.00
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (71 bp):
ATAAATAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAAC
Found at i:18460976 original size:18 final size:18
Alignment explanation
Indices: 18460955--18461034 Score: 142
Period size: 18 Copynumber: 4.4 Consensus size: 18
18460945 CCCATCAATT
*
18460955 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
*
18460973 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
18460991 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
18461009 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
18461027 TGAACATC
1 TGAACATC
18461035 GTTTCTCATA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:18464559 original size:29 final size:29
Alignment explanation
Indices: 18464522--18464578 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
18464512 CTCCAATTTC
*
18464522 ACCAACAGAGGGGAAAGAACGTTTGGGGA
1 ACCAACAGAGGGGAAAAAACGTTTGGGGA
*
18464551 ACCAGCAGAGGGGAAAAAACGTTTGGGG
1 ACCAACAGAGGGGAAAAAACGTTTGGGG
18464579 GAGAAGACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.39, T:0.11
Consensus pattern (29 bp):
ACCAACAGAGGGGAAAAAACGTTTGGGGA
Found at i:18466759 original size:60 final size:60
Alignment explanation
Indices: 18466686--18466805 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
18466676 GTAAAAAATT
18466686 TAGATAACATTCTCGTTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATACATATA
1 TAGATAACATTCTCGTTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATACATATA
18466746 TAGATAACATTCTCGTTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATACATATA
1 TAGATAACATTCTCGTTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATACATATA
18466806 AATTATAACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (60 bp):
TAGATAACATTCTCGTTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATACATATA
Found at i:18468583 original size:13 final size:14
Alignment explanation
Indices: 18468567--18468598 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18468557 TGTTTATACC
18468567 TTTTATTTATT-TA
1 TTTTATTTATTATA
18468580 TTTTA-TTATTATA
1 TTTTATTTATTATA
18468593 TTTTAT
1 TTTTAT
18468599 GATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTATTATA
Found at i:18473904 original size:756 final size:756
Alignment explanation
Indices: 18472453--18473964 Score: 3024
Period size: 756 Copynumber: 2.0 Consensus size: 756
18472443 TAATTTATAA
18472453 CCTTTGGAAATCAGAATTTTAGTACTAGACTTTAATTCCAAACCTTTTGACAATTAGGTCCTACA
1 CCTTTGGAAATCAGAATTTTAGTACTAGACTTTAATTCCAAACCTTTTGACAATTAGGTCCTACA
18472518 AATCAATTTCTGTTGAAATTACCTAATAAAATCATCTCATAAACAAATTAAAGCTTAAATTTCAT
66 AATCAATTTCTGTTGAAATTACCTAATAAAATCATCTCATAAACAAATTAAAGCTTAAATTTCAT
18472583 GCTATTTCATCATAAAATTCCAGCACATATTCATATAAACTTTCAATTTCATTCATAAAATTAAA
131 GCTATTTCATCATAAAATTCCAGCACATATTCATATAAACTTTCAATTTCATTCATAAAATTAAA
18472648 AACTAATGAATTTAGTAATAGGACCTAGTTGTAAAAGTCTTAGAAACACAAAAATTACAAGAAAA
196 AACTAATGAATTTAGTAATAGGACCTAGTTGTAAAAGTCTTAGAAACACAAAAATTACAAGAAAA
18472713 AGGCAAGGATTAACTCACTTGGTGCAAAAATTATGAAAAACCAGCTTGAATAAACCCTTAGGACA
261 AGGCAAGGATTAACTCACTTGGTGCAAAAATTATGAAAAACCAGCTTGAATAAACCCTTAGGACA
18472778 TTTTTTGCTGATGAGAATGAAGAAAATATGAAGAGAATTCTAGAAATTCCAATTTGGTCCTATTT
326 TTTTTTGCTGATGAGAATGAAGAAAATATGAAGAGAATTCTAGAAATTCCAATTTGGTCCTATTT
18472843 TTATGTTAGTAAAATTTGTTATTTTCCCATTTTACCCTTATTTCACCAATTCTCCTGATTTTTCT
391 TTATGTTAGTAAAATTTGTTATTTTCCCATTTTACCCTTATTTCACCAATTCTCCTGATTTTTCT
18472908 TTGCTTATGCCGCCCAAAATATCTCCTTTTGGGATTATTTGCAATTTATGTCCCTCCTCATTTAA
456 TTGCTTATGCCGCCCAAAATATCTCCTTTTGGGATTATTTGCAATTTATGTCCCTCCTCATTTAA
18472973 AAATTGAGCTATTTAATCCTTCTAGTAACATTTACATCTTTTTCAATTTAGTCATTTTCACTTAA
521 AAATTGAGCTATTTAATCCTTCTAGTAACATTTACATCTTTTTCAATTTAGTCATTTTCACTTAA
18473038 TTGACTACCCAAACATTAAAATTTTCTAACGAAATTTTAATAAAATATTACTAAAATTTCATAAA
586 TTGACTACCCAAACATTAAAATTTTCTAACGAAATTTTAATAAAATATTACTAAAATTTCATAAA
18473103 TATTTATAAAAATATTTTTGACTCGGTTTTACGAGATCGAGGTCTCGATACCTTGTTTTTACCCA
651 TATTTATAAAAATATTTTTGACTCGGTTTTACGAGATCGAGGTCTCGATACCTTGTTTTTACCCA
18473168 ATTTCTTCAATAATTTCTTTTTCTAACTAACCACTAAATCG
716 ATTTCTTCAATAATTTCTTTTTCTAACTAACCACTAAATCG
18473209 CCTTTGGAAATCAGAATTTTAGTACTAGACTTTAATTCCAAACCTTTTGACAATTAGGTCCTACA
1 CCTTTGGAAATCAGAATTTTAGTACTAGACTTTAATTCCAAACCTTTTGACAATTAGGTCCTACA
18473274 AATCAATTTCTGTTGAAATTACCTAATAAAATCATCTCATAAACAAATTAAAGCTTAAATTTCAT
66 AATCAATTTCTGTTGAAATTACCTAATAAAATCATCTCATAAACAAATTAAAGCTTAAATTTCAT
18473339 GCTATTTCATCATAAAATTCCAGCACATATTCATATAAACTTTCAATTTCATTCATAAAATTAAA
131 GCTATTTCATCATAAAATTCCAGCACATATTCATATAAACTTTCAATTTCATTCATAAAATTAAA
18473404 AACTAATGAATTTAGTAATAGGACCTAGTTGTAAAAGTCTTAGAAACACAAAAATTACAAGAAAA
196 AACTAATGAATTTAGTAATAGGACCTAGTTGTAAAAGTCTTAGAAACACAAAAATTACAAGAAAA
18473469 AGGCAAGGATTAACTCACTTGGTGCAAAAATTATGAAAAACCAGCTTGAATAAACCCTTAGGACA
261 AGGCAAGGATTAACTCACTTGGTGCAAAAATTATGAAAAACCAGCTTGAATAAACCCTTAGGACA
18473534 TTTTTTGCTGATGAGAATGAAGAAAATATGAAGAGAATTCTAGAAATTCCAATTTGGTCCTATTT
326 TTTTTTGCTGATGAGAATGAAGAAAATATGAAGAGAATTCTAGAAATTCCAATTTGGTCCTATTT
18473599 TTATGTTAGTAAAATTTGTTATTTTCCCATTTTACCCTTATTTCACCAATTCTCCTGATTTTTCT
391 TTATGTTAGTAAAATTTGTTATTTTCCCATTTTACCCTTATTTCACCAATTCTCCTGATTTTTCT
18473664 TTGCTTATGCCGCCCAAAATATCTCCTTTTGGGATTATTTGCAATTTATGTCCCTCCTCATTTAA
456 TTGCTTATGCCGCCCAAAATATCTCCTTTTGGGATTATTTGCAATTTATGTCCCTCCTCATTTAA
18473729 AAATTGAGCTATTTAATCCTTCTAGTAACATTTACATCTTTTTCAATTTAGTCATTTTCACTTAA
521 AAATTGAGCTATTTAATCCTTCTAGTAACATTTACATCTTTTTCAATTTAGTCATTTTCACTTAA
18473794 TTGACTACCCAAACATTAAAATTTTCTAACGAAATTTTAATAAAATATTACTAAAATTTCATAAA
586 TTGACTACCCAAACATTAAAATTTTCTAACGAAATTTTAATAAAATATTACTAAAATTTCATAAA
18473859 TATTTATAAAAATATTTTTGACTCGGTTTTACGAGATCGAGGTCTCGATACCTTGTTTTTACCCA
651 TATTTATAAAAATATTTTTGACTCGGTTTTACGAGATCGAGGTCTCGATACCTTGTTTTTACCCA
18473924 ATTTCTTCAATAATTTCTTTTTCTAACTAACCACTAAATCG
716 ATTTCTTCAATAATTTCTTTTTCTAACTAACCACTAAATCG
18473965 GTAAAATTCT
Statistics
Matches: 756, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
756 756 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (756 bp):
CCTTTGGAAATCAGAATTTTAGTACTAGACTTTAATTCCAAACCTTTTGACAATTAGGTCCTACA
AATCAATTTCTGTTGAAATTACCTAATAAAATCATCTCATAAACAAATTAAAGCTTAAATTTCAT
GCTATTTCATCATAAAATTCCAGCACATATTCATATAAACTTTCAATTTCATTCATAAAATTAAA
AACTAATGAATTTAGTAATAGGACCTAGTTGTAAAAGTCTTAGAAACACAAAAATTACAAGAAAA
AGGCAAGGATTAACTCACTTGGTGCAAAAATTATGAAAAACCAGCTTGAATAAACCCTTAGGACA
TTTTTTGCTGATGAGAATGAAGAAAATATGAAGAGAATTCTAGAAATTCCAATTTGGTCCTATTT
TTATGTTAGTAAAATTTGTTATTTTCCCATTTTACCCTTATTTCACCAATTCTCCTGATTTTTCT
TTGCTTATGCCGCCCAAAATATCTCCTTTTGGGATTATTTGCAATTTATGTCCCTCCTCATTTAA
AAATTGAGCTATTTAATCCTTCTAGTAACATTTACATCTTTTTCAATTTAGTCATTTTCACTTAA
TTGACTACCCAAACATTAAAATTTTCTAACGAAATTTTAATAAAATATTACTAAAATTTCATAAA
TATTTATAAAAATATTTTTGACTCGGTTTTACGAGATCGAGGTCTCGATACCTTGTTTTTACCCA
ATTTCTTCAATAATTTCTTTTTCTAACTAACCACTAAATCG
Found at i:18475876 original size:17 final size:17
Alignment explanation
Indices: 18475854--18475901 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
18475844 AAGTTCTTTT
18475854 TAAATCATAAAATTCAC
1 TAAATCATAAAATTCAC
*
18475871 TAAATCATAGAATTCAC
1 TAAATCATAAAATTCAC
*
18475888 TAATTCA-AAAATTC
1 TAAATCATAAAATTC
18475902 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAATCATAAAATTCAC
Found at i:18476544 original size:19 final size:19
Alignment explanation
Indices: 18476521--18476573 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
18476511 AAATTACAAA
*
18476521 AAAAATTAAAAATAATTTT
1 AAAAATTAAAAATAAGTTT
*
18476540 CAAAAATTTAAAATAAAGTTT
1 -AAAAATTAAAAAT-AAGTTT
*
18476561 -AAAATTCAAAATA
1 AAAAATTAAAAATA
18476574 TTTAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 12 0.41
21 5 0.17
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTAAAAATAAGTTT
Found at i:18476564 original size:20 final size:21
Alignment explanation
Indices: 18476521--18476573 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 21
18476511 AAATTACAAA
*
18476521 AAAAATTAAAAAT-AATTTTC
1 AAAAATTAAAAATAAAGTTTC
*
18476541 AAAAATTTAAAATAAAGTTT-
1 AAAAATTAAAAATAAAGTTTC
*
18476561 -AAAATTCAAAATA
1 AAAAATTAAAAATA
18476574 TTTAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 12 0.41
21 5 0.17
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAATTAAAAATAAAGTTTC
Found at i:18476568 original size:27 final size:27
Alignment explanation
Indices: 18476538--18476593 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
18476528 AAAAATAATT
*
18476538 TTCAAAA-ATTTA-AAATAAAGTTTAAAA
1 TTCAAAATATTTAGAAA-AAA-TTCAAAA
18476565 TTCAAAATATTTAGAAAAAATTCAAAA
1 TTCAAAATATTTAGAAAAAATTCAAAA
18476592 TT
1 TT
18476594 TATATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 15 0.58
28 8 0.31
29 3 0.12
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
TTCAAAATATTTAGAAAAAATTCAAAA
Found at i:18476627 original size:10 final size:10
Alignment explanation
Indices: 18476602--18476649 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 10
18476592 TTTATATTTT
18476602 TAAAAAATT-
1 TAAAAAATTA
*
18476611 TATAAAATTA
1 TAAAAAATTA
18476621 TAAAAAATTA
1 TAAAAAATTA
18476631 TAAAAAAATATA
1 T-AAAAAAT-TA
18476643 TAAAAAA
1 TAAAAAA
18476650 GTTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 13 0.38
12 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:18476644 original size:12 final size:11
Alignment explanation
Indices: 18476614--18476649 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
18476604 AAAAATTTAT
18476614 AAAATTAT-AA
1 AAAATTATAAA
18476624 AAAATTATAAA
1 AAAATTATAAA
18476635 AAAATATATAAA
1 AAAAT-TATAAA
18476647 AAA
1 AAA
18476650 GTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.33
11 7 0.29
12 9 0.38
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:18476656 original size:20 final size:19
Alignment explanation
Indices: 18476602--18476656 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
18476592 TTTATATTTT
*
18476602 TAAAAAATTTATAAAATTA
1 TAAAAAATTTAAAAAATTA
18476621 TAAAAAATTATAAAAAAATATA
1 TAAAAAATT-T-AAAAAAT-TA
*
18476643 TAAAAAAGTTAAAA
1 TAAAAAATTTAAAA
18476657 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 7 0.23
22 10 0.32
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATTTAAAAAATTA
Found at i:18481439 original size:22 final size:27
Alignment explanation
Indices: 18481387--18481441 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 27
18481377 ATCCTAATTC
18481387 TAAAAAAGTTCAAAGAAATATATAAAA
1 TAAAAAAGTTCAAAGAAATATATAAAA
18481414 TAAAAAA-TTCAAA-AAAT-T-T-AAA
1 TAAAAAAGTTCAAAGAAATATATAAAA
18481436 TAAAAA
1 TAAAAA
18481442 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.32
23 1 0.04
24 1 0.04
25 4 0.14
26 6 0.21
27 7 0.25
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (27 bp):
TAAAAAAGTTCAAAGAAATATATAAAA
Found at i:18481448 original size:29 final size:29
Alignment explanation
Indices: 18481408--18481476 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
18481398 AAAGAAATAT
18481408 ATAAAAT-AAAAAATTCA-AAAAAT-TTAA
1 ATAAAATAAAAAAATT-ATAAAAATATTAA
**
18481435 ATAAAAATAAAAAAATTATATTAATATTAA
1 AT-AAAATAAAAAAATTATAAAAATATTAA
18481465 ATAAAATAAAAA
1 ATAAAATAAAAA
18481477 TCCTCCATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
28 6 0.17
29 22 0.61
30 6 0.17
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAAAATAAAAAAATTATAAAAATATTAA
Found at i:18482134 original size:19 final size:19
Alignment explanation
Indices: 18482106--18482148 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
18482096 ACATAACTCG
*
18482106 GCAACTGTAGAAGTTTTTT
1 GCAACCGTAGAAGTTTTTT
18482125 GCAACCGTAGAAGTTTTTT
1 GCAACCGTAGAAGTTTTTT
18482144 GCAAC
1 GCAAC
18482149 TTCGTGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (19 bp):
GCAACCGTAGAAGTTTTTT
Found at i:18483493 original size:63 final size:63
Alignment explanation
Indices: 18483320--18483531 Score: 223
Period size: 63 Copynumber: 3.4 Consensus size: 63
18483310 GCCGTGTGGT
* * * * * *
18483320 AGGCCGTGTAACTCACTGTTTTGGAGTTAGAGGCACACGGGCTAGAGATACGGGCATA--TGTCC
1 AGGCCGTGTAACTCACTGTTTTGGAATTAGAGGCACACGAGCAAAAGACAC-AG-ATACGTGTCC
*
18483383 AGGCCGTGTAACTCACTGTTTTGGAATTAGAGGCACACGAGCAAAAGACACAGATGCGTGTCC
1 AGGCCGTGTAACTCACTGTTTTGGAATTAGAGGCACACGAGCAAAAGACACAGATACGTGTCC
* * * * ** *
18483446 AGGCCATGTAACTCACTGTTTTGGAATTAG-GGACACATGGGCCAAAGACATGGATATGTGTCC
1 AGGCCGTGTAACTCACTGTTTTGGAATTAGAGG-CACACGAGCAAAAGACACAGATACGTGTCC
* * *
18483509 AGACTGTGTAACTCACTATTTTG
1 AGGCCGTGTAACTCACTGTTTTG
18483532 AGGCACACGG
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
61 2 0.02
62 3 0.02
63 122 0.96
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (63 bp):
AGGCCGTGTAACTCACTGTTTTGGAATTAGAGGCACACGAGCAAAAGACACAGATACGTGTCC
Found at i:18485913 original size:21 final size:22
Alignment explanation
Indices: 18485874--18485915 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18485864 ATAAAATAGT
* *
18485874 TTTTCTTTGTAAAACTCCAAGG
1 TTTTCTTTATAAAAATCCAAGG
18485896 TTTTC-TTATAAAAATCCAAG
1 TTTTCTTTATAAAAATCCAAG
18485916 TAATTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTTCTTTATAAAAATCCAAGG
Found at i:18487902 original size:27 final size:29
Alignment explanation
Indices: 18487849--18487907 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
18487839 CATTCTCGTC
*
18487849 TTTAAGACAATCCTTGACGGACATT-CCT
1 TTTAAGACAATCCTTGACGAACATTCCCT
* * *
18487877 TTTAAGATAGTCCTTGGCGAAC-TTCCCT
1 TTTAAGACAATCCTTGACGAACATTCCCT
18487905 TTT
1 TTT
18487908 TTGGCGATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
TTTAAGACAATCCTTGACGAACATTCCCT
Found at i:18488825 original size:4 final size:4
Alignment explanation
Indices: 18488812--18488857 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
18488802 ATTAATAGAA
*
18488812 AAAG -AAG AAAG AAAAG AAAG AAA- AAAA AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
18488858 AGAAGGAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.74
5 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18488850 original size:23 final size:24
Alignment explanation
Indices: 18488810--18488858 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
18488800 AAATTAATAG
*
18488810 AAAAAGAAGAAAGAAAAGAAAGAA
1 AAAAAAAAGAAAGAAAAGAAAGAA
18488834 AAAAAAAAGAAAG-AAAGAAAGAA
1 AAAAAAAAGAAAGAAAAGAAAGAA
18488857 AA
1 AA
18488859 GAAGGAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAAAAAAGAAAGAAAAGAAAGAA
Found at i:18492673 original size:26 final size:26
Alignment explanation
Indices: 18492644--18492694 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
18492634 CTCGTTATAT
*
18492644 GGCTTTTTGTGAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
18492670 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTTGTGAGCTTCCCGATTAA
18492695 TGGCCCTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:18492804 original size:24 final size:24
Alignment explanation
Indices: 18492777--18492838 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
18492767 TGGCTTTTCA
*
18492777 GAGCTACCTATTATTGGCTCGCAT
1 GAGCTTCCTATTATTGGCTCGCAT
**
18492801 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCT-ATTATTGGCTCGCAT
*
18492825 GAGCTTCCTGTTAT
1 GAGCTTCCTATTAT
18492839 ACAGCCCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 25 0.78
25 4 0.12
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
GAGCTTCCTATTATTGGCTCGCAT
Found at i:18493447 original size:11 final size:11
Alignment explanation
Indices: 18493433--18493460 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18493423 TTTAATGAGA
18493433 TATTATTTTTT
1 TATTATTTTTT
18493444 TATTATTTTTT
1 TATTATTTTTT
18493455 TATTAT
1 TATTAT
18493461 ATTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTATTTTTT
Found at i:18495521 original size:38 final size:38
Alignment explanation
Indices: 18495419--18495555 Score: 127
Period size: 38 Copynumber: 3.6 Consensus size: 38
18495409 GACCTCAAGT
* * *
18495419 CGATGAGACACTGGGTGTCACTATTTTACTTTGGA-TAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTAC-TTCGACTAG-TC
* * *
18495460 CGATGAGATACTGGGTATC-ACTTTACTTCGACTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGACTAGTC
*
18495497 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-ACTAGTC
* *
18495535 TGATGAGGCACTGGGTGTCAA
1 CGATGAGACACTGGGTGTCAA
18495556 TCTGGTGTGT
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 21 0.26
38 39 0.48
39 4 0.05
41 17 0.21
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGACTAGTC
Found at i:18499985 original size:40 final size:41
Alignment explanation
Indices: 18499941--18500030 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 41
18499931 TATGCATGCT
18499941 TACTT-TAAATGTAAATGATTGGTAAGTTAACTTCCCCTTA
1 TACTTATAAATGTAAATGATTGGTAAGTTAACTTCCCCTTA
*
18499981 TACTTTAAAGGTAAATGTAAATGATTGGTAAGTTAACTTCCCGTTA
1 TAC-TT--A--TAAATGTAAATGATTGGTAAGTTAACTTCCCCTTA
18500027 TACT
1 TACT
18500031 AAGCATAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
40 3 0.07
41 2 0.05
45 1 0.02
46 37 0.86
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (41 bp):
TACTTATAAATGTAAATGATTGGTAAGTTAACTTCCCCTTA
Found at i:18502881 original size:19 final size:20
Alignment explanation
Indices: 18502854--18502894 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18502844 AATATTATTA
*
18502854 AAAAATAT-ATAAAAATTGT
1 AAAAATATAAAAAAAATTGT
*
18502873 AAAATTATAAAAAAAATTGT
1 AAAAATATAAAAAAAATTGT
18502893 AA
1 AA
18502895 TTTAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAAAAAATTGT
Found at i:18502896 original size:18 final size:18
Alignment explanation
Indices: 18502864--18502903 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
18502854 AAAAATATAT
18502864 AAAAATTGTAAAATTATAAA
1 AAAAATTGT-AAATT-TAAA
18502884 AAAAATTGT-AATTTAAA
1 AAAAATTGTAAATTTAAA
18502901 AAA
1 AAA
18502904 GTTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
20 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAAATTGTAAATTTAAA
Found at i:18503667 original size:20 final size:18
Alignment explanation
Indices: 18503637--18503693 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
18503627 TATAATTTTA
*
18503637 AATTTTAAAAAGTTAAAAT
1 AATTATAAAAA-TTAAAAT
18503656 AATATATAAAAATTGAAAAT
1 AAT-TATAAAAATT-AAAAT
**
18503676 TGTTATAAAAATTTAAAA
1 AATTATAAAAA-TTAAAA
18503694 AAGATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
AATTATAAAAATTAAAAT
Found at i:18503789 original size:21 final size:21
Alignment explanation
Indices: 18503765--18503804 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18503755 AATGATATAT
**
18503765 TTTTGAATTTTTAAAAAATTA
1 TTTTGAAACTTTAAAAAATTA
*
18503786 TTTTTAAACTTTAAAAAAT
1 TTTTGAAACTTTAAAAAAT
18503805 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTGAAACTTTAAAAAATTA
Found at i:18509635 original size:19 final size:19
Alignment explanation
Indices: 18509585--18509638 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
18509575 AGTATTAGAC
* *
18509585 TTAATACTAGGATTAACCT
1 TTAAAACTAGAATTAACCT
* * * *
18509604 ATAAAATTGGAATTAGCCT
1 TTAAAACTAGAATTAACCT
18509623 TTAAAACTAGAATTAA
1 TTAAAACTAGAATTAA
18509639 AACTAGCTTG
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (19 bp):
TTAAAACTAGAATTAACCT
Found at i:18514124 original size:6 final size:6
Alignment explanation
Indices: 18514115--18514149 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18514105 TACTCCACTA
*
18514115 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT ACTCC
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCC
18514150 ATTAGCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.51, G:0.14, T:0.31
Consensus pattern (6 bp):
GCTCCT
Found at i:18516142 original size:49 final size:50
Alignment explanation
Indices: 18516079--18516257 Score: 231
Period size: 50 Copynumber: 3.6 Consensus size: 50
18516069 TCATTCGATA
*
18516079 CACGTAGTATCCTTCACATAGTACTACACACGTGATC-AGTTTTACAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAATT
* * *
18516128 CACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGTTTTACGACT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAATT
* *
18516178 CACGTAGTAGCCTTCAC-TCAGTACTACACACGTGCTCAAGCTTCTT--AGTT
1 CACGTAGTAGCCTTCACAT-AGTACTACACACGTGATCAAG-TT-TTACAATT
* *
18516228 CACATAGTAGCCTTCACTTAGTACTACACA
1 CACGTAGTAGCCTTCACATAGTACTACACA
18516258 TATAACCGTA
Statistics
Matches: 115, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
49 36 0.31
50 74 0.64
51 3 0.03
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAATT
Found at i:18516191 original size:50 final size:50
Alignment explanation
Indices: 18516074--18516414 Score: 259
Period size: 51 Copynumber: 6.8 Consensus size: 50
18516064 TTTTATCATT
* *
18516074 CGATACACGTAGTATCCTTCACATAGTACTACACACGTGATC-AGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* *
18516123 CAATTCACGTAGTAGCCTTCACATAGTACTACACACGTGAACAAGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* *
18516173 CGACTCACGTAGTAGCCTTCAC-TCAGTACTACACACGTGCTCAAGCTTCTTA
1 CGATTCACGTAGTAGCCTTCACAT-AGTACTACACACGTGATCAAG-TT-TTA
* * ** * * *
18516225 -G-TTCACATAGTAGCCTTCACTTAGTACTACACATATAACCGTAG-TTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTA
** * * * * *
18516273 CCGAGACACGTGGTAGCATTCACACAGTACTAGACACGTGCTCAAAGCTTCTT-
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TT-TTA
* * * * * * *
18516326 -GGTGCACATAGTAGCCTTCACTTAGTACCACACATGTGA-CCA-TTACTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTT--TTA
* *
18516375 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
18516415 TTCATCGATA
Statistics
Matches: 225, Mismatches: 51, Indels: 30
0.74 0.17 0.10
Matches are distributed among these distances:
47 2 0.01
48 6 0.03
49 41 0.18
50 78 0.35
51 92 0.41
52 3 0.01
53 1 0.00
54 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
Found at i:18516384 original size:102 final size:99
Alignment explanation
Indices: 18516074--18516414 Score: 361
Period size: 102 Copynumber: 3.4 Consensus size: 99
18516064 TTTTATCATT
* * * * * *
18516074 CGATACACGTAGTATCCTTCACATAGTACTACACACGTGATC-AG-TT-TTACAATTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTT--AGTGCACATAGT
* * *
18516136 AGCCTTCACATAGTACTACACACGTGAACAAGTT-TTA
64 AGCCTTCACTTAGTACTACACATGTG-ACCA-TTATTA
* *
18516173 CGACT-CACGTAGTAGCCTTCACTCAGTACTACACACGTGCTCAAGCTTCTTAGTTCACATAGTA
1 CGA-TACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTA
* * *
18516237 GCCTTCACTTAGTACTACACATATAACC-GTAGTTTA
65 GCCTTCACTTAGTACTACACATGTGACCATTA--TTA
* * * * *
18516273 CCGAGACACGTGGTAGCATTCACACAGTACTAGACACGTGCTCAAAGCTTCTTGGTGCACATAGT
1 -CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTC-AAGCTTCTTAGTGCACATAGT
*
18516338 AGCCTTCACTTAGTACCACACATGTGACCATTACTTA
64 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTA
18516375 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
18516415 TTCATCGATA
Statistics
Matches: 202, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
97 1 0.00
99 38 0.19
100 38 0.19
101 38 0.19
102 85 0.42
103 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (99 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAGCTTCTTAGTGCACATAGTAG
CCTTCACTTAGTACTACACATGTGACCATTATTA
Found at i:18518500 original size:47 final size:49
Alignment explanation
Indices: 18518421--18518513 Score: 120
Period size: 47 Copynumber: 1.9 Consensus size: 49
18518411 GAGATGGTAA
*
18518421 AGAAAATGAAAGAGAGAGACATGAATGAAAAATGCTT-AAGACGATGCAG
1 AGAAAATGAAAGAGAAAGACATGAATGAAAAATG-TTGAAGACGATGCAG
* * *
18518470 AGAAAATGAAAGAGAAAG-TA-GCATGGAAAATGTTGAAGACGATG
1 AGAAAATGAAAGAGAAAGACATGAATGAAAAATGTTGAAGACGATG
18518514 ATGAAGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 2 0.05
47 19 0.49
48 1 0.03
49 17 0.44
ACGTcount: A:0.51, C:0.06, G:0.28, T:0.15
Consensus pattern (49 bp):
AGAAAATGAAAGAGAAAGACATGAATGAAAAATGTTGAAGACGATGCAG
Found at i:18528786 original size:4 final size:4
Alignment explanation
Indices: 18528777--18528807 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
18528767 TCTAGTTGTT
18528777 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18528808 TTTGGTGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18532219 original size:174 final size:175
Alignment explanation
Indices: 18531871--18532207 Score: 459
Period size: 174 Copynumber: 1.9 Consensus size: 175
18531861 AGCATAAACC
* *
18531871 AAAAAGAAAATAAGGAATTCATCACAATCCCAGGTAAGTTGCAGTGCAGGTAATTAGAAGTGAAA
1 AAAAAGAAAATAAGGAATTCATCACAATCCCAAGTAAGTTGCACTGCAGGTAATTAGAAGTGAAA
* * *
18531936 AAGAAAGGTACACTAACTTTAAGAATGCCTTCCTCTGAATATCTATTGCCAGTTTCTTGACATAG
66 AAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
* **
18532001 GATCTCTTGGTTACTAACTAAGTTCGTTATTATAGCTTAAACTAT
131 GATCTCTTAGTTACTAACTAAGTTCACTATTATAGCTTAAACTAT
* * *
18532046 AAAAA-AAAA-AATGGACTTCATTACAATCTCAAGTAAGTTGCACTGCAGGTAATTAGAAGTGAA
1 AAAAAGAAAATAA-GGAATTCATCACAATCCCAAGTAAGTTGCACTGCAGGTAATTAGAAGTGAA
* ** *
18532109 ATAGAAAGGCATTCTAACTTTAAGAATGCCTCCCTCTGAGTATCCATTGCCAGTTTCTTGACATG
65 AAAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACAT-
*
18532174 AGTG-T-TCTTATTTAC-AACCTAAGTTCACTATTAT
129 AG-GATCTCTTAGTTACTAA-CTAAGTTCACTATTAT
18532208 TATTTAAACT
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
173 4 0.03
174 129 0.91
175 8 0.06
176 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (175 bp):
AAAAAGAAAATAAGGAATTCATCACAATCCCAAGTAAGTTGCACTGCAGGTAATTAGAAGTGAAA
AAGAAAGGCACACTAACTTTAAGAATGCCTCCCTCTGAATATCCATTGCCAGTTTCTTGACATAG
GATCTCTTAGTTACTAACTAAGTTCACTATTATAGCTTAAACTAT
Found at i:18533870 original size:16 final size:16
Alignment explanation
Indices: 18533837--18533870 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18533827 TACAATTGTT
* *
18533837 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
18533853 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
18533869 AA
1 AA
18533871 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:18536697 original size:21 final size:21
Alignment explanation
Indices: 18536671--18536711 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18536661 AGACGAGCAA
* *
18536671 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
18536692 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
18536712 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:18538650 original size:16 final size:16
Alignment explanation
Indices: 18538617--18538650 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18538607 GGAGATTGTT
* *
18538617 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
18538633 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
18538649 AA
1 AA
18538651 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:18544462 original size:25 final size:25
Alignment explanation
Indices: 18544412--18544470 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
18544402 ATAAATAATC
** *
18544412 TATTTATATAGTTTTTTTTCAAATA
1 TATTTATATAGTTTAATCTCAAATA
18544437 TATTTATATAGTTTAATCT--AATA
1 TATTTATATAGTTTAATCTCAAATA
18544460 TA-TTATA-AGTT
1 TATTTATATAGTT
18544471 AATTAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 5 0.16
23 6 0.19
25 16 0.52
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (25 bp):
TATTTATATAGTTTAATCTCAAATA
Found at i:18544472 original size:20 final size:21
Alignment explanation
Indices: 18544433--18544487 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
18544423 TTTTTTTTCA
18544433 AATATATTTATATAGTTTAATCT
1 AATATA-TTATATAGTTTAAT-T
18544456 AATATATTATA-AG-TTAATT
1 AATATATTATATAGTTTAATT
*
18544475 AATTATATAATAT
1 AA-TATATTATAT
18544488 TTATGAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 3 0.10
20 13 0.45
21 2 0.07
22 5 0.17
23 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
AATATATTATATAGTTTAATT
Found at i:18545883 original size:19 final size:20
Alignment explanation
Indices: 18545859--18545903 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
18545849 AAATACAAGT
18545859 GTATCGGTACCCT-TGTAAA
1 GTATCGGTACCCTATGTAAA
18545878 GTATCGGTACCCTGATGTAAA
1 GTATCGGTACCCT-ATGTAAA
18545899 GTATC
1 GTATC
18545904 AATACTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.54
21 11 0.46
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATCGGTACCCTATGTAAA
Found at i:18551277 original size:45 final size:45
Alignment explanation
Indices: 18551228--18551383 Score: 199
Period size: 45 Copynumber: 3.5 Consensus size: 45
18551218 ACCAGAAACG
* *
18551228 AGTAAGATCATAGTTGAAAGACGTTATGACATCACGATTCTATCA
1 AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * * *
18551273 AGTAA-AACTATGGCTAAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGATC-ATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
* * *
18551318 AGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCA
1 AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
18551363 AGTAAGATCATCA-CTGAAAGA
1 AGTAAGATCAT-AGCTGAAAGA
18551384 TACTATGGCA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
44 2 0.02
45 90 0.95
46 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (45 bp):
AGTAAGATCATAGCTGAAAGACGTTATGGCATCACGATTCTATCA
Found at i:18551383 original size:90 final size:90
Alignment explanation
Indices: 18551223--18551444 Score: 239
Period size: 90 Copynumber: 2.5 Consensus size: 90
18551213 ACCATACCAG
* * * **
18551223 AAACGAGTAAGATCATAGTTGAAAGACGTTATGACATCACGATTCTATCAAGTAAAACTATGGCT
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACGATTCTATCAAGTAAAACTATCACT
** *
18551288 AAAAGACGTTATGGCATCACGATTC
66 AAAAGACACTATGGCATCACGAATC
* * * * * *
18551313 TATCGAGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCAAGTAAGA-TCATCAC
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACGATTCTATCAAGTAAAACT-ATCAC
* * *
18551377 TGAAAGATACTATGGCATCATGAATC
65 TAAAAGACACTATGGCATCACGAATC
* * * *
18551403 AAACCAATAAGACCATAGTTGAAAGACACTATGGCAACACGA
1 AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACGA
18551445 AGAAAAATGA
Statistics
Matches: 107, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
89 1 0.01
90 106 0.99
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (90 bp):
AAACGAGTAAGACCATAGTTGAAAGACATTATGGCATCACGATTCTATCAAGTAAAACTATCACT
AAAAGACACTATGGCATCACGAATC
Found at i:18551391 original size:45 final size:45
Alignment explanation
Indices: 18551228--18551444 Score: 192
Period size: 45 Copynumber: 4.8 Consensus size: 45
18551218 ACCAGAAACG
* * *
18551228 AGTAAGATCATAGTTGAAAGACGT-TATGACATCACGATTCTATCA
1 AGTAAGACCATAGCTGAAAGAC-TCTATGGCATCACGATTCTATCA
* * * * *
18551273 AGTAAAACTATGGCTAAAAGACGT-TATGGCATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGAC-TCTATGGCATCACGATTCTATCA
* *
18551318 AGTAAGACCATAGCTGAAAGACTTTATGGCATCACGATTTTATCA
1 AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGATTCTATCA
* * * * *
18551363 AGTAAGATCATCA-CTGAAAGA-TACTATGGCATCATGAATCAAACCA
1 AGTAAGACCAT-AGCTGAAAGACT-CTATGGCATCACGATTC-TATCA
* * *
18551409 A-TAAGACCATAGTTGAAAGACACTATGGCAACACGA
1 AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGA
18551445 AGAAAAATGA
Statistics
Matches: 140, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
44 3 0.02
45 132 0.94
46 5 0.04
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACTCTATGGCATCACGATTCTATCA
Found at i:18552584 original size:17 final size:18
Alignment explanation
Indices: 18552552--18552586 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18552542 CCATGATGTT
18552552 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGGCCCACA
18552570 CGCCCGTGT-GGCCCACA
1 CGCCCGTGTGGGCCCACA
18552587 TGACCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTGGGCCCACA
Found at i:18558684 original size:13 final size:13
Alignment explanation
Indices: 18558666--18558699 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18558656 AATCTAAATT
18558666 AACACAAACAATA
1 AACACAAACAATA
*
18558679 AACACAAGCAATA
1 AACACAAACAATA
*
18558692 ATCACAAA
1 AACACAAA
18558700 AGACAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.24, G:0.03, T:0.09
Consensus pattern (13 bp):
AACACAAACAATA
Found at i:18559365 original size:21 final size:21
Alignment explanation
Indices: 18559332--18559400 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
18559322 ATTTCTATTG
18559332 AAATT-TAT-TTTAAATATAT
1 AAATTATATATTTAAATATAT
* *
18559351 AAATTATATATTTAAATTTGT
1 AAATTATATATTTAAATATAT
* *
18559372 -AATTATAATATTTTAATATTT
1 AAATTAT-ATATTTAAATATAT
*
18559393 AAAATATA
1 AAATTATA
18559401 GTTTATAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 5 0.12
20 9 0.22
21 21 0.52
22 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
AAATTATATATTTAAATATAT
Found at i:18559378 original size:29 final size:28
Alignment explanation
Indices: 18559338--18559395 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
18559328 ATTGAAATTT
18559338 ATTTTAAATATATAAATTAT-ATATTTAA
1 ATTTTAAATATA-AAATTATAATATTTAA
* * *
18559366 ATTTGTAATTATAATATTTTAATATTTAA
1 ATTT-TAAATATAAAATTATAATATTTAA
18559395 A
1 A
18559396 ATATAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTAAATATAAAATTATAATATTTAA
Found at i:18564879 original size:21 final size:22
Alignment explanation
Indices: 18564853--18564899 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
18564843 CATAAAAATC
18564853 ATAATATATAA-TATTATAAAA
1 ATAATATATAACTATTATAAAA
*
18564874 ATAATATATAACTTATTATAATA
1 ATAATATATAAC-TATTATAAAA
18564897 ATA
1 ATA
18564900 TGCTATGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
23 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATATATAACTATTATAAAA
Found at i:18565800 original size:83 final size:84
Alignment explanation
Indices: 18565659--18565836 Score: 227
Period size: 83 Copynumber: 2.1 Consensus size: 84
18565649 ATAATTCTAG
* * * *
18565659 GTAAAACTATAAAATCTAAAAAATAGGGGTAAAACTATAAAATTTGGAAAATAAGGGCAAAACTG
1 GTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAATAAGGGCAAAACTG
* *
18565724 TAAGATCTAG-AAAATATGA
66 TAAAATCT-GCAAAATAGGA
* * *
18565743 GTAAAATTGTAAAATCTGAAAAA-AGGGGTAAAATTATAAAATCTAGAAAA-AAGGGGCAAAATT
1 GTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAATAA-GGGCAAAACT
*
18565806 GTAAAATCTGCAAAATAGGG
65 GTAAAATCTGCAAAATAGGA
18565826 GTAAAATTGTA
1 GTAAAATTGTA
18565837 CAATAAAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
82 3 0.04
83 59 0.72
84 20 0.24
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (84 bp):
GTAAAATTGTAAAATCTAAAAAATAGGGGTAAAACTATAAAATCTAGAAAATAAGGGCAAAACTG
TAAAATCTGCAAAATAGGA
Found at i:18565832 original size:28 final size:27
Alignment explanation
Indices: 18565658--18565836 Score: 169
Period size: 28 Copynumber: 6.4 Consensus size: 27
18565648 TATAATTCTA
* * *
18565658 GGTAAAACTATAAAATCTAAAAAATAGG
1 GGTAAAATTGTAAAATCT-GAAAATAGG
* * * *
18565686 GGTAAAACTATAAAATTTGGAAAATAAG
1 GGTAAAATTGTAAAATCT-GAAAATAGG
* * * *
18565714 GGCAAAACTGTAAGATCTAGAAAATATG
1 GGTAAAATTGTAAAATCT-GAAAATAGG
* *
18565742 AGTAAAATTGTAAAATCTGAAAAAAGG
1 GGTAAAATTGTAAAATCTGAAAATAGG
* *
18565769 GGTAAAATTATAAAATCTAGAAAAAAGG
1 GGTAAAATTGTAAAATCT-GAAAATAGG
*
18565797 GGCAAAATTGTAAAATCTGCAAAATAGG
1 GGTAAAATTGTAAAATCTG-AAAATAGG
18565825 GGTAAAATTGTA
1 GGTAAAATTGTA
18565837 CAATAAAAAA
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 24 0.19
28 103 0.81
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (27 bp):
GGTAAAATTGTAAAATCTGAAAATAGG
Found at i:18567893 original size:17 final size:17
Alignment explanation
Indices: 18567871--18567915 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
18567861 ATTATCTTAA
18567871 ATTATGAATGTGTGTGT
1 ATTATGAATGTGTGTGT
*
18567888 ATTATG-ATGTGTGTTT
1 ATTATGAATGTGTGTGT
18567904 A-TATGACATGTG
1 ATTATGA-ATGTG
18567916 ACCATTATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (17 bp):
ATTATGAATGTGTGTGT
Found at i:18570100 original size:33 final size:33
Alignment explanation
Indices: 18570063--18570128 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
18570053 TCAAAATAAA
*
18570063 ATAGGATAATTGCACTTAAGTCTCTATACTTTT
1 ATAGGATAATTGCACTTAAGTCTCTATAATTTT
18570096 ATAGGATAATTGCACTTAAGTCTCTATAATTTT
1 ATAGGATAATTGCACTTAAGTCTCTATAATTTT
18570129 CTAACTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (33 bp):
ATAGGATAATTGCACTTAAGTCTCTATAATTTT
Found at i:18573855 original size:13 final size:13
Alignment explanation
Indices: 18573824--18573889 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
18573814 TTTAAACCAA
*
18573824 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
18573837 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
18573850 ACTTTTC-CACGTC
1 ACTTTTCAAAAG-C
*
18573863 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
18573876 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
18573889 A
1 A
18573890 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.93
14 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:18580815 original size:6 final size:6
Alignment explanation
Indices: 18580804--18580830 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18580794 ATGTGCCGAC
18580804 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
18580831 CGATTCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:18580881 original size:45 final size:45
Alignment explanation
Indices: 18580810--18581054 Score: 332
Period size: 45 Copynumber: 5.5 Consensus size: 45
18580800 CGACTACTGT
*
18580810 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
* * **
18580855 TACTGTTACCATTACTATTATTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCGATTCAG-CACTTTGTGTGTCGAA
* * *
18580900 TACTATTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
* *
18580945 TACTGTTATCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
** * *
18580990 TACTGTTACCG-TACTGTTACAAATTTAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
*
18581034 TACTGTTACTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
18581055 TGCTATCGTT
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
44 39 0.22
45 136 0.77
46 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Done.