Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 22 of 23
Found at i:3526551 original size:133 final size:133
Alignment explanation
Indices: 3526313--3526579 Score: 401
Period size: 133 Copynumber: 2.0 Consensus size: 133
3526303 GATACTTTCA
* * ** * * *
3526313 TGTCGAATGTATACTCTAAAGGTATTTTCATAATTTTATTAAAATTGAGTCTTAGGTTGTCATCG
1 TGTCGAAGGTATACCCTAAAGGTATTTTCATAATTTTATTAAAATCAAGTCCTAGGCTGTCATCA
*
3526378 GGATGCTTTTATTGCAAAGGTATGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGT
66 GGATGCTTTTATGGCAAAGGTATGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGT
3526443 CCT
131 CCT
* ** *
3526446 TGTCGAAGGTATACCCTAAGGGTATTTTTGTAATTTTTTTAAAAATCAAGTCCTAGGCTGTCATC
1 TGTCGAAGGTATACCCTAAAGGTATTTTCATAATTTTATT-AAAATCAAGTCCTAGGCTGTCATC
*
3526511 AGGATGCTTTTATGGCAAA-GTATGCATTTATGATAGGTTCATCCCATTTATGATCATTTTTAAG
65 AGGATGCTTTTATGGCAAAGGTATGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAG
3526575 TCCT
130 TCCT
3526579 T
1 T
3526580 TAGGGTTACC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
133 83 0.69
134 37 0.31
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (133 bp):
TGTCGAAGGTATACCCTAAAGGTATTTTCATAATTTTATTAAAATCAAGTCCTAGGCTGTCATCA
GGATGCTTTTATGGCAAAGGTATGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGT
CCT
Found at i:3526734 original size:156 final size:155
Alignment explanation
Indices: 3526450--3526794 Score: 434
Period size: 156 Copynumber: 2.2 Consensus size: 155
3526440 AGTCCTTGTC
* *
3526450 GAAGGTATACCCTA-AGGGTATTTTTGTAATTTTTTTAAAAATCAAGTCCTAGGCTGTCATCAGG
1 GAAGGTATACTCTAGA-GGTATTTTTGTAATTTTCTTAAAAA-CAAGTCCTAGGCTGTCATCAGG
* *
3526514 ATGCTTTTATGGCAAAGTATGCATTTATGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCT
64 ATGCTTTTATGCCAAAGTATGCATTTAAGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCT
* *
3526579 TTAGGGTTACCGA-GATATTTTAATGTT
129 TTAAGGTTA-CGAGGATATTTTAATATT
* * *
3526606 GAAGGTATACTCTAGAGGTATTTTTGTAATTTTCTT-AGAACAAAGTCCTAGGTTGTCTTC-GAG
1 GAAGGTATACTCTAGAGGTATTTTTGTAATTTTCTTAAAAAC-AAGTCCTAGGCTGTCATCAG-G
*
3526669 ATGCTTTTATGCCAAAGGTGTGCATTTAAGATAGGTTCAAT-CCATTTATGATCATTTTTAAGTC
64 ATGCTTTTATGCCAAA-GTATGCATTTAAGATAGGTTC-ATCCCATTTATGATCATTTTTAAGTC
* *
3526733 CTTTAAGGTTACTAGGATATTTTCATATT
127 CTTTAAGGTTACGAGGATATTTTAATATT
* *
3526762 GAAAGTATA-TCTTAG-GAGTATTTTAGTAATTTT
1 GAAGGTATACTC-TAGAG-GTATTTTTGTAATTTT
3526795 TCTCATAAGA
Statistics
Matches: 167, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
154 2 0.01
155 40 0.24
156 122 0.73
157 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (155 bp):
GAAGGTATACTCTAGAGGTATTTTTGTAATTTTCTTAAAAACAAGTCCTAGGCTGTCATCAGGAT
GCTTTTATGCCAAAGTATGCATTTAAGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCTTT
AAGGTTACGAGGATATTTTAATATT
Found at i:3526920 original size:135 final size:135
Alignment explanation
Indices: 3526735--3527063 Score: 364
Period size: 134 Copynumber: 2.4 Consensus size: 135
3526725 TTTAAGTCCT
* * * * *
3526735 TTAAGGTTACTAGGATATTTTCATATTGAAAGTATA-TCTTAGGAGTATTTTAGTAATTTTTCTC
1 TTAAGGTTACTAGGATACTTTCATATCGAAGGTATACCCTAAGG-GTATTTTAGTAATTTTTCTC
**
3526799 ATA-AGAATGCTTGAATGCCAAAGGTGAATTTTTAGTTTTTG-TGCAACCTTCCTAGATTACTTT
65 ATAGAG-ATGCTTGAATGCCAAAGGTGAATTTTTAG-GATTGATGCAACCTTCCTAGATTACTTT
*
3526862 AAGTTACA
128 AAGGTACA
* *
3526870 TTAAGGTTACT-GAAATACTTTCATATCGAAGGTATACCCTAAGGGTATTTTAATAA-TTTTCTC
1 TTAAGGTTACTAG-GATACTTTCATATCGAAGGTATACCCTAAGGGTATTTTAGTAATTTTTCTC
* ** * *
3526933 ATCGAGATGCTTTTATGCCAAAGGTGAATTTTTAGGATTGATGTAGCCTTCCTAGATTACTTTAA
65 ATAGAGATGCTTGAATGCCAAAGGTGAATTTTTAGGATTGATGCAACCTTCCTAGATTACTTTAA
*
3526998 GGTCCA
130 GGTACA
* ** * * * *
3527004 TT-CGGATTGTTAGGATACTTTCACATCGAAGGTATACCATAGGGGTATTTTGGTAATTTT
1 TTAAGG-TTACTAGGATACTTTCATATCGAAGGTATACCCTAAGGGTATTTTAGTAATTTT
3527064 GAATTAAAAC
Statistics
Matches: 162, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
133 5 0.03
134 105 0.65
135 47 0.29
136 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (135 bp):
TTAAGGTTACTAGGATACTTTCATATCGAAGGTATACCCTAAGGGTATTTTAGTAATTTTTCTCA
TAGAGATGCTTGAATGCCAAAGGTGAATTTTTAGGATTGATGCAACCTTCCTAGATTACTTTAAG
GTACA
Found at i:3529915 original size:36 final size:36
Alignment explanation
Indices: 3529868--3529940 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
3529858 AGAAAGGACG
*
3529868 AACGAGGTACCTTATCCTTATTCATCATGGATTTAT
1 AACGAGGTACCTTATCCTTATTCATCATAGATTTAT
3529904 AACGAGGTACCTTATCCTTATTCATCATAGATTTAT
1 AACGAGGTACCTTATCCTTATTCATCATAGATTTAT
3529940 A
1 A
3529941 TCGAAATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (36 bp):
AACGAGGTACCTTATCCTTATTCATCATAGATTTAT
Found at i:3539055 original size:20 final size:20
Alignment explanation
Indices: 3539030--3539084 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
3539020 TTACAAGCCA
3539030 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
3539050 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
3539070 ATGTATCGATACATT
1 ATGTATCGATACATT
3539085 GTATCGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGG
Found at i:3539089 original size:13 final size:13
Alignment explanation
Indices: 3539071--3539096 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3539061 CATTTTGGGA
3539071 TGTATCGATACAT
1 TGTATCGATACAT
3539084 TGTATCGATACAT
1 TGTATCGATACAT
3539097 ATTGTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3539093 original size:33 final size:32
Alignment explanation
Indices: 3539051--3539114 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3539041 CATTTTGGGA
*
3539051 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
3539084 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
3539115 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:3539203 original size:20 final size:21
Alignment explanation
Indices: 3539156--3539208 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3539146 GCCAATCACT
*
3539156 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
3539177 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
3539197 TGTATCGATACA
1 TGTATCGATACA
3539209 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:3541218 original size:20 final size:22
Alignment explanation
Indices: 3541183--3541225 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
3541173 GCTGCTAGTG
3541183 TAGGGGCTGCCCGGTCGCGACC
1 TAGGGGCTGCCCGGTCGCGACC
3541205 TAGGGG-TG-CCGGTCGCGACC
1 TAGGGGCTGCCCGGTCGCGACC
3541225 T
1 T
3541226 GATGAGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.09, C:0.33, G:0.42, T:0.16
Consensus pattern (22 bp):
TAGGGGCTGCCCGGTCGCGACC
Found at i:3541686 original size:13 final size:13
Alignment explanation
Indices: 3541668--3541706 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3541658 TATAAACCCT
3541668 TTGTATCGATACA
1 TTGTATCGATACA
3541681 TTGTATCGATACA
1 TTGTATCGATACA
*
3541694 ATGTATCGATACA
1 TTGTATCGATACA
3541707 GAGAATGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3543542 original size:13 final size:13
Alignment explanation
Indices: 3543524--3543549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3543514 TACACAAAGT
3543524 ATGTATCGATACA
1 ATGTATCGATACA
3543537 ATGTATCGATACA
1 ATGTATCGATACA
3543550 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3543547 original size:32 final size:33
Alignment explanation
Indices: 3543506--3543570 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
3543496 TAGCCAAACT
*
3543506 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
3543538 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
3543571 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:3545753 original size:19 final size:21
Alignment explanation
Indices: 3545726--3545764 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3545716 TAATGCCCTT
3545726 AAAGAAAAAGAAAT-ATTTGA
1 AAAGAAAAAGAAATGATTTGA
*
3545746 AAAG-AAAATAAATGATTTG
1 AAAGAAAAAGAAATGATTTG
3545765 CAAGTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (21 bp):
AAAGAAAAAGAAATGATTTGA
Found at i:3547639 original size:15 final size:15
Alignment explanation
Indices: 3547619--3547649 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3547609 TAAAAATGTC
*
3547619 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3547634 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3547649 C
1 C
3547650 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3549897 original size:20 final size:20
Alignment explanation
Indices: 3549854--3549899 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3549844 AAATCTTTTG
3549854 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3549875 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3549895 CAAAA
1 CAAAA
3549900 CCATCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3552301 original size:13 final size:13
Alignment explanation
Indices: 3552283--3552308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3552273 TACACAAAGT
3552283 ATGTATCGATACA
1 ATGTATCGATACA
3552296 ATGTATCGATACA
1 ATGTATCGATACA
3552309 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3552306 original size:32 final size:33
Alignment explanation
Indices: 3552265--3552329 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
3552255 TAGCCAAACT
*
3552265 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
3552297 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
3552330 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:3557810 original size:13 final size:13
Alignment explanation
Indices: 3557792--3557817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3557782 CATTTTGGGA
3557792 TGTATCGATACAT
1 TGTATCGATACAT
3557805 TGTATCGATACAT
1 TGTATCGATACAT
3557818 ATTATGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3557814 original size:33 final size:32
Alignment explanation
Indices: 3557772--3557835 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
3557762 TACAAGCCAA
* *
3557772 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTAGG-TGTATCGATACAT
*
3557805 TGTATCGATACATATTATGTGTATCGATACA
1 TGTATCGATACATATTAGGTGTATCGATACA
3557836 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTAGGTGTATCGATACAT
Found at i:3557895 original size:13 final size:13
Alignment explanation
Indices: 3557877--3557902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3557867 GCCAATCACC
3557877 TGTATCGATACAT
1 TGTATCGATACAT
3557890 TGTATCGATACAT
1 TGTATCGATACAT
3557903 ATTGTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3559258 original size:17 final size:17
Alignment explanation
Indices: 3559236--3559269 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3559226 ATAAATATCC
3559236 TTAAAATGT-ATTAAAAA
1 TTAAAAT-TAATTAAAAA
3559253 TTAAAATTAATTAAAAA
1 TTAAAATTAATTAAAAA
3559270 ATGGCATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAATTAATTAAAAA
Found at i:3559659 original size:34 final size:33
Alignment explanation
Indices: 3559621--3559684 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
3559611 TCATAATTTT
3559621 ATAAAT-TAA-ATATAAAATATAATAATTAAATTAA
1 ATAAATATAAGATATAAAA-A-AATAA-TAAATTAA
3559655 ATAAATATAAGATATAAAAAAATAATAAAT
1 ATAAATATAAGATATAAAAAAATAATAAAT
3559685 GTGTGAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 4 0.14
36 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (33 bp):
ATAAATATAAGATATAAAAAAATAATAAATTAA
Found at i:3559846 original size:16 final size:17
Alignment explanation
Indices: 3559812--3559843 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3559802 TAATTATTTT
3559812 TAAATTTTAACATTTAA
1 TAAATTTTAACATTTAA
3559829 TAAA-TTTAA-ATTTAA
1 TAAATTTTAACATTTAA
3559844 ATATTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTTTAACATTTAA
Found at i:3560292 original size:29 final size:28
Alignment explanation
Indices: 3560260--3560328 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
3560250 TTAGACATTA
3560260 TTAATATATTTAATATAATTTTATAATTT
1 TTAATATATTTAATAT-ATTTTATAATTT
* * * *
3560289 TTAAAATTTTTGATATATTTTATTATTT
1 TTAATATATTTAATATATTTTATAATTT
*
3560317 TTATTATATTTA
1 TTAATATATTTA
3560329 TATTTAAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTAATATATTTAATATATTTTATAATTT
Found at i:3560317 original size:18 final size:20
Alignment explanation
Indices: 3560296--3560332 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
3560286 TTTTTAAAAT
3560296 TTTTGA-TATATTT-TATTA
1 TTTTGATTATATTTATATTA
*
3560314 TTTTTATTATATTTATATT
1 TTTTGATTATATTTATATT
3560333 TAAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTGATTATATTTATATTA
Found at i:3561152 original size:24 final size:25
Alignment explanation
Indices: 3561110--3561158 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
3561100 TATAAATATG
* *
3561110 TTAAAATTATTATTTTAATTTAATT
1 TTAAAATAATTATTTTAATTAAATT
3561135 TTAAAATAATT-TTTTAATTAAATT
1 TTAAAATAATTATTTTAATTAAATT
3561159 GATATCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAAAATAATTATTTTAATTAAATT
Found at i:3562410 original size:16 final size:17
Alignment explanation
Indices: 3562385--3562418 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3562375 AAGTACCTAT
*
3562385 AAATATAAA-TTTAAAA
1 AAATAAAAATTTTAAAA
3562401 AAATAAAAATTTTAAAA
1 AAATAAAAATTTTAAAA
3562418 A
1 A
3562419 TTTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTTTAAAA
Found at i:3562472 original size:11 final size:11
Alignment explanation
Indices: 3562458--3562492 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
3562448 TTATTATTAA
3562458 TATATTTATAT
1 TATATTTATAT
3562469 TATATTCATATAT
1 TATATT--TATAT
3562482 TATATTTATAT
1 TATATTTATAT
3562493 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:3562479 original size:19 final size:19
Alignment explanation
Indices: 3562452--3562492 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3562442 TACATCTTAT
3562452 TATTAATATATT-TATATTA
1 TATTAATATATTATAT-TTA
*
3562471 TATTCATATATTATATTTA
1 TATTAATATATTATATTTA
3562490 TAT
1 TAT
3562493 ATTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTAATATATTATATTTA
Found at i:3562480 original size:13 final size:13
Alignment explanation
Indices: 3562464--3562496 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3562454 TTAATATATT
3562464 TATATTATATTCA
1 TATATTATATTCA
*
3562477 TATATTATATTTA
1 TATATTATATTCA
3562490 TATATTA
1 TATATTA
3562497 AAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTATATTCA
Found at i:3562956 original size:22 final size:21
Alignment explanation
Indices: 3562926--3562969 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3562916 AAACAGAAAA
* *
3562926 AAAAAATTCCTTTTTTGTTTTT
1 AAAAAATTCATTTTAT-TTTTT
*
3562948 AAAATATTCATTTTATTTTTT
1 AAAAAATTCATTTTATTTTTT
3562969 A
1 A
3562970 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
AAAAAATTCATTTTATTTTTT
Found at i:3571374 original size:2 final size:2
Alignment explanation
Indices: 3571367--3571406 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3571357 CCCTAGTCAC
3571367 GT GT GT GT G- GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
3571407 CGTGCGGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.00, G:0.53, T:0.47
Consensus pattern (2 bp):
GT
Found at i:3572342 original size:3 final size:3
Alignment explanation
Indices: 3572334--3572360 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3572324 TTTTGATTTG
3572334 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3572361 TTGGATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3572382 original size:23 final size:22
Alignment explanation
Indices: 3572348--3572390 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
3572338 TTATTATTAT
*
3572348 TATTATTATTATTTTGGATTTGG
1 TATTATTATTATGTT-GATTTGG
3572371 TATTA-TATTTATGTTGATTT
1 TATTATTA-TTATGTTGATTT
3572391 CCATTGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (22 bp):
TATTATTATTATGTTGATTTGG
Found at i:3573692 original size:13 final size:13
Alignment explanation
Indices: 3573674--3573699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3573664 ATATTTTTTG
3573674 TGTATCGATACAT
1 TGTATCGATACAT
3573687 TGTATCGATACAT
1 TGTATCGATACAT
3573700 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3573710 original size:32 final size:33
Alignment explanation
Indices: 3573653--3573717 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
3573643 TACAAGCCAA
3573653 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
3573687 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
3573718 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:3573711 original size:19 final size:19
Alignment explanation
Indices: 3573653--3573717 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
3573643 TACAAGCCAA
3573653 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
3573674 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3573687 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3573706 TGTATCGATACA
1 TGTATCGATACA
3573718 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3576266 original size:13 final size:13
Alignment explanation
Indices: 3576248--3576285 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3576238 ATAATCCCCC
3576248 TGTATCGATACAG
1 TGTATCGATACAG
*
3576261 TGTATCGATACAT
1 TGTATCGATACAG
*
3576274 TATATCGATACA
1 TGTATCGATACA
3576286 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3578379 original size:15 final size:15
Alignment explanation
Indices: 3578359--3578389 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3578349 ATTTCGTTTG
*
3578359 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3578374 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3578389 G
1 G
3578390 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3582474 original size:13 final size:13
Alignment explanation
Indices: 3582456--3582513 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
3582446 ATATTTTTTG
3582456 TGTATCGATACAT
1 TGTATCGATACAT
3582469 TGTATCGATACATATTTT
1 TGTATCGATAC--A---T
3582487 GTGTATCGATACAT
1 -TGTATCGATACAT
3582501 TGTATCGATACAT
1 TGTATCGATACAT
3582514 ATTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3582492 original size:32 final size:32
Alignment explanation
Indices: 3582435--3582531 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
3582425 TACAAGCCAA
3582435 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA--TTTTGTGTATCGATACAT
3582469 TGTATCGATACATATTTTGTGTATCGATACAT
1 TGTATCGATACATATTTTGTGTATCGATACAT
3582501 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCGATACATATTTTGTGTATCGATACA
3582532 AGTTTGGCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 49 0.78
34 14 0.22
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATATTTTGTGTATCGATACAT
Found at i:3582493 original size:19 final size:19
Alignment explanation
Indices: 3582435--3582531 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
3582425 TACAAGCCAA
3582435 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
3582456 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3582469 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3582488 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3582501 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3582520 TGTATCGATACA
1 TGTATCGATACA
3582532 AGTTTGGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
15 2 0.03
17 1 0.02
18 2 0.03
19 24 0.38
21 11 0.17
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3584022 original size:19 final size:19
Alignment explanation
Indices: 3583974--3584022 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
3583964 ACTGCCAGTT
3583974 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
* *
3583993 TGTAAGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
3584012 ATCATGTATCG
1 -TCATGTATCG
3584023 GTATAATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:3586566 original size:13 final size:13
Alignment explanation
Indices: 3586548--3586586 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3586538 TAGTAACCCA
3586548 TGTATCGATACAT
1 TGTATCGATACAT
*
3586561 TGTATCGATACAA
1 TGTATCGATACAT
3586574 TGTATCGATACAT
1 TGTATCGATACAT
3586587 CTGGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3586630 original size:20 final size:21
Alignment explanation
Indices: 3586595--3586634 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3586585 ATCTGGGTTT
3586595 TTTCAGATGCATCGATACATC
1 TTTCAGATGCATCGATACATC
*
3586616 TTTCA-ATGTATCGATACAT
1 TTTCAGATGCATCGATACAT
3586635 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (21 bp):
TTTCAGATGCATCGATACATC
Found at i:3588894 original size:17 final size:17
Alignment explanation
Indices: 3588872--3588906 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3588862 ACCAAGAAAA
3588872 ATTCCCTCATCACTTTT
1 ATTCCCTCATCACTTTT
3588889 ATTCCCTCATCACTTTT
1 ATTCCCTCATCACTTTT
3588906 A
1 A
3588907 GCATCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTCCCTCATCACTTTT
Found at i:3591075 original size:20 final size:20
Alignment explanation
Indices: 3591050--3591087 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3591040 TCCCGTGTGA
3591050 ATGTATCGATACAAATTTTG
1 ATGTATCGATACAAATTTTG
*
3591070 ATGTATCGATACATATTT
1 ATGTATCGATACAAATTT
3591088 GAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACAAATTTTG
Found at i:3591160 original size:13 final size:13
Alignment explanation
Indices: 3591142--3591167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3591132 CAATTTTTTG
3591142 TGTATCGATACAT
1 TGTATCGATACAT
3591155 TGTATCGATACAT
1 TGTATCGATACAT
3591168 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3591178 original size:32 final size:33
Alignment explanation
Indices: 3591122--3591185 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
3591112 TACAAGCCAA
*
3591122 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
3591155 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
3591186 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:3591179 original size:19 final size:19
Alignment explanation
Indices: 3591122--3591185 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
3591112 TACAAGCCAA
*
3591122 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
3591142 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3591155 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3591174 TGTATCGATACA
1 TGTATCGATACA
3591186 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3593014 original size:13 final size:13
Alignment explanation
Indices: 3592996--3593033 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3592986 ATAATCCCCC
3592996 TGTATCGATACAG
1 TGTATCGATACAG
*
3593009 TGTATCGATACAT
1 TGTATCGATACAG
3593022 TGTATCGATACA
1 TGTATCGATACA
3593034 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3599173 original size:13 final size:13
Alignment explanation
Indices: 3599155--3599180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3599145 CAATTTTTTG
3599155 TGTATCGATACAT
1 TGTATCGATACAT
3599168 TGTATCGATACAT
1 TGTATCGATACAT
3599181 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3599191 original size:32 final size:33
Alignment explanation
Indices: 3599135--3599198 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
3599125 TACAAGCCAA
*
3599135 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
3599168 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
3599199 AGTTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:3599192 original size:19 final size:19
Alignment explanation
Indices: 3599135--3599198 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
3599125 TACAAGCCAA
*
3599135 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
3599155 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
3599168 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3599187 TGTATCGATACA
1 TGTATCGATACA
3599199 AGTTTGGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3599303 original size:20 final size:20
Alignment explanation
Indices: 3599250--3599305 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3599240 ACATCTTTTT
*
3599250 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
3599270 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
3599289 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
3599306 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:3601969 original size:13 final size:13
Alignment explanation
Indices: 3601951--3601975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3601941 TAATTCTTCA
3601951 TGTATCGATACAT
1 TGTATCGATACAT
3601964 TGTATCGATACA
1 TGTATCGATACA
3601976 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3602072 original size:19 final size:19
Alignment explanation
Indices: 3602024--3602079 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
3602014 ACTGCCAGTT
**
3602024 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATAA
* *
3602043 TGTAAGTATCGATACAATAA
1 T-CATGTATCGATACAATAA
3602063 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
3602080 GTATCGATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATAA
Found at i:3602083 original size:13 final size:13
Alignment explanation
Indices: 3602065--3602091 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3602055 TACAATAATC
3602065 ATGTATCGATACA
1 ATGTATCGATACA
3602078 ATGTATCGATACA
1 ATGTATCGATACA
3602091 A
1 A
3602092 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3602108 original size:33 final size:32
Alignment explanation
Indices: 3602048--3602110 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
3602038 AATTGTGTAA
* *
3602048 GTATCGATACAATAATCATGTATCGATACAAT
1 GTATCGATACAATAATAATGTAGCGATACAAT
3602080 GTATCGATACAA-AGCATAATGTAGCGATACA
1 GTATCGATACAATA--ATAATGTAGCGATACA
3602111 TCTGGATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 12 0.44
33 14 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
GTATCGATACAATAATAATGTAGCGATACAAT
Found at i:3610116 original size:33 final size:33
Alignment explanation
Indices: 3610074--3610138 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3610064 TTTGAGATAA
*
3610074 TGTATCGATATAAT-TGTTCATGTATCAATACAT
1 TGTATCGATACAATGTG-TCATGTATCAATACAT
3610107 TGTATCGATACAATGTGTCATGTATCAATACA
1 TGTATCGATACAATGTGTCATGTATCAATACA
3610139 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTGTCATGTATCAATACAT
Found at i:3617715 original size:23 final size:23
Alignment explanation
Indices: 3617689--3617735 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3617679 GCTTTGACTC
*
3617689 GGATGCCAGCTAATGTGGACTTT
1 GGATGCCAGCTAACGTGGACTTT
* *
3617712 GGATGCTAGCTAACGTGGGCTTT
1 GGATGCCAGCTAACGTGGACTTT
3617735 G
1 G
3617736 ACTCATGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (23 bp):
GGATGCCAGCTAACGTGGACTTT
Found at i:3617887 original size:28 final size:28
Alignment explanation
Indices: 3617855--3617930 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
3617845 TTGAATAGAG
3617855 TGCCAGCTAATGTGGGCTTTAACTTGGA
1 TGCCAGCTAATGTGGGCTTTAACTTGGA
* *
3617883 TGCCAGCTAATATGGGCTTCAACTTGGA
1 TGCCAGCTAATGTGGGCTTTAACTTGGA
*
3617911 TGCCAGTTAATGTGGGCTTT
1 TGCCAGCTAATGTGGGCTTT
3617931 GATTTATGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (28 bp):
TGCCAGCTAATGTGGGCTTTAACTTGGA
Found at i:3620727 original size:16 final size:16
Alignment explanation
Indices: 3620696--3620737 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3620686 ACCTAAGTGT
*
3620696 TAAACCCG-ATTGACC
1 TAAACCCGAAATGACC
*
3620711 TAAATCCGAAATGACC
1 TAAACCCGAAATGACC
*
3620727 TGAACCCGAAA
1 TAAACCCGAAA
3620738 CAATCCGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (16 bp):
TAAACCCGAAATGACC
Found at i:3620794 original size:32 final size:33
Alignment explanation
Indices: 3620739--3620803 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
3620729 AACCCGAAAC
* * *
3620739 AATCCGAACCTAAAATGATCCAAATTC-AAAAT
1 AATCCGAACATAAAATGACCCAAACTCGAAAAT
* *
3620771 AATCCGAATATAAATTGACCCAAACTCGAAAAT
1 AATCCGAACATAAAATGACCCAAACTCGAAAAT
3620804 GACTTAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (33 bp):
AATCCGAACATAAAATGACCCAAACTCGAAAAT
Found at i:3623746 original size:52 final size:52
Alignment explanation
Indices: 3623666--3623784 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
3623656 CTAGAAGGAA
* *
3623666 AATGTATCGATACATTCTGGGTTTTTGACCTAAATATATTGATACATTATTC
1 AATGTATCGATACATTCTGGGTTTTTGACCCAAATATATCGATACATTATTC
* * *
3623718 ATTGTATCGATACATTCTGGGTTTTTGACCCAAATTTATCGATACATTCTTC
1 AATGTATCGATACATTCTGGGTTTTTGACCCAAATATATCGATACATTATTC
*
3623770 AATGTATCAATACAT
1 AATGTATCGATACAT
3623785 GCATACTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (52 bp):
AATGTATCGATACATTCTGGGTTTTTGACCCAAATATATCGATACATTATTC
Found at i:3626576 original size:21 final size:21
Alignment explanation
Indices: 3626550--3626607 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
3626540 AAAAATTATC
3626550 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
3626571 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
3626592 CAAATGTATCGATACA
1 CAAATGTATCGATACA
3626608 GGGTCCCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:3626667 original size:19 final size:19
Alignment explanation
Indices: 3626643--3626710 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3626633 AATTCAACAA
3626643 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3626662 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3626677 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3626694 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3626711 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3626682 original size:13 final size:13
Alignment explanation
Indices: 3626664--3626688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3626654 ACATAAGTTT
3626664 TGTATCGATACAA
1 TGTATCGATACAA
3626677 TGTATCGATACA
1 TGTATCGATACA
3626689 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3626686 original size:32 final size:32
Alignment explanation
Indices: 3626645--3626707 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3626635 TTCAACAATT
*
3626645 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3626677 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3626708 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3626768 original size:13 final size:13
Alignment explanation
Indices: 3626750--3626775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3626740 CATTTTTCTG
3626750 TGTATCGATACAT
1 TGTATCGATACAT
3626763 TGTATCGATACAT
1 TGTATCGATACAT
3626776 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3626772 original size:33 final size:33
Alignment explanation
Indices: 3626730--3626796 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3626720 GCCAAGGAAA
***
3626730 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3626763 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3626796 T
1 T
3626797 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3629196 original size:51 final size:52
Alignment explanation
Indices: 3629138--3629418 Score: 268
Period size: 52 Copynumber: 5.4 Consensus size: 52
3629128 TCAATTCTCC
* * *
3629138 ACAATCGGGGATATTTCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCT
* * *
3629189 ATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTC-
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACTAATTT-TTCT
* ** * *
3629243 ACAATCGGGGATACTCCAAC-CCCAGTTTTATCGCTAAAACACTAATTTTTCC
1 ACAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACACTAATTTTTCT
* * * *
3629295 ACAATCAGGGATACTCCAA-TCCCGGTTTTATTTTCAAAAC-GTCAATTTTTCT
1 ACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACT-AATTTTTCT
** * * *
3629347 TTAATCGGGGATACGCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-T
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACTAATTTTTCT
*
3629399 ACAATCGAGGATACTCCAAC
1 ACAATCGGGGATACTCCAAC
3629419 CTTGTTATTT
Statistics
Matches: 183, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
51 34 0.19
52 93 0.51
53 26 0.14
54 27 0.15
55 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (52 bp):
ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCT
Found at i:3629403 original size:104 final size:103
Alignment explanation
Indices: 3629132--3629418 Score: 276
Period size: 105 Copynumber: 2.7 Consensus size: 103
3629122 AGTTTCTCAA
* * * * * *
3629132 TTCTCCACAATCGGGGATATTTCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTTACAATC-G
*
3629197 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
65 GGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* ** * *
3629237 TTCTTCACAATCGGGGATACTCCAAC-CCCAGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 TTCTTCACAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACACTAATTTTT-TACAATC
* * **
3629301 AGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGTCAAT
64 -GGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAAT
** * * *
3629341 TT-TTCTTTAATCGGGGATACGCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTTACAATC
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACTAATTTTTTACAATC
3629405 GAGGATACTCCAAC
64 G-GGATACTCCAAC
3629419 CTTGTTATTT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
103 4 0.03
104 55 0.37
105 60 0.41
106 28 0.19
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (103 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTTACAATCGG
GATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:3629453 original size:28 final size:28
Alignment explanation
Indices: 3629402--3629478 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
3629392 ATTTTTTACA
* ** *
3629402 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
3629430 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
3629458 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
3629479 ATTTTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:3641765 original size:1 final size:1
Alignment explanation
Indices: 3641761--3641826 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
3641751 ATTCTTTTTC
* * * * * * * * *
3641761 AAAAAAAAAAACACAAAAAAAAACAACAAAAAAAAAACAAAACAAACAAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3641826 A
1 A
3641827 TCTGCTTAAG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3641779 original size:14 final size:15
Alignment explanation
Indices: 3641760--3641825 Score: 86
Period size: 14 Copynumber: 4.7 Consensus size: 15
3641750 CATTCTTTTT
3641760 CAAAAAAAAA-AACA
1 CAAAAAAAAACAACA
3641774 CAAAAAAAAACAACA
1 CAAAAAAAAACAACA
*
3641789 -AAAAAAAAACAAAA
1 CAAAAAAAAACAACA
*
3641803 C-AAACAAAACAA-A
1 CAAAAAAAAACAACA
3641816 CAAAAAAAAA
1 CAAAAAAAAA
3641826 ATCTGCTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 2 0.04
14 40 0.87
15 4 0.09
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACAACA
Found at i:3641780 original size:9 final size:8
Alignment explanation
Indices: 3641761--3641823 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 8
3641751 ATTCTTTTTC
3641761 AAAAAA-A
1 AAAAAACA
*
3641768 AAAACACA
1 AAAAAACA
3641776 AAAAAA-A
1 AAAAAACA
3641783 ACAACAAA-A
1 A-AA-AAACA
3641792 AAAAAACA
1 AAAAAACA
3641800 AAACAAACA
1 AAA-AAACA
3641809 AAACAAACA
1 AAA-AAACA
3641818 AAAAAA
1 AAAAAA
3641824 AAATCTGCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
7 10 0.20
8 17 0.35
9 22 0.45
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:3641794 original size:29 final size:29
Alignment explanation
Indices: 3641761--3641826 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
3641751 ATTCTTTTTC
*
3641761 AAAAAAAAA-AACACAAAAAAAA-ACAACA
1 AAAAAAAAACAAAACAAAAAAAACA-AACA
*
3641789 AAAAAAAAACAAAACAAACAAAACAAACA
1 AAAAAAAAACAAAACAAAAAAAACAAACA
3641818 AAAAAAAAA
1 AAAAAAAAA
3641827 TCTGCTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 9 0.26
29 24 0.71
30 1 0.03
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAAAAAACAAAACAAAAAAAACAAACA
Found at i:3642993 original size:59 final size:59
Alignment explanation
Indices: 3642815--3643834 Score: 1425
Period size: 59 Copynumber: 17.5 Consensus size: 59
3642805 AGCAGGACAC
* * **
3642815 CTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCGGGACGCCTT-TT
* **
3642876 CTTTTAAAGCCCACACAAGTTGATGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
*
3642936 CTTTTAAAGCCCATACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
3642995 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
3643054 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643113 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643172 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGAGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
3643231 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643290 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643349 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAACGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643408 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
3643467 CTTTTAAAGCCCACACAAGTTGGTGGAACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * * * * *
3643526 CTTTTAAAGCCCACCCGAGTTGGTGACACCTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
3643585 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-CC----
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * ** * * *
3643641 CTTTCGAAGCCCACACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACACC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* ** * *
3643700 C----AAATCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
* *
3643753 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
3643810 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
3643835 TTTTTACTCC
Statistics
Matches: 889, Mismatches: 56, Indels: 34
0.91 0.06 0.03
Matches are distributed among these distances:
53 2 0.00
54 4 0.00
55 151 0.17
56 8 0.01
57 2 0.00
59 598 0.67
60 51 0.06
61 71 0.08
62 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
Found at i:3644613 original size:19 final size:19
Alignment explanation
Indices: 3644589--3644656 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3644579 AATTCAACAA
3644589 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3644608 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3644623 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3644640 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3644657 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3644628 original size:13 final size:13
Alignment explanation
Indices: 3644610--3644634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3644600 ACATAAGTTT
3644610 TGTATCGATACAA
1 TGTATCGATACAA
3644623 TGTATCGATACA
1 TGTATCGATACA
3644635 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3644632 original size:32 final size:32
Alignment explanation
Indices: 3644591--3644653 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3644581 TTCAACAATT
*
3644591 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3644623 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3644654 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3644714 original size:13 final size:13
Alignment explanation
Indices: 3644696--3644721 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3644686 CATTTTTCTG
3644696 TGTATCGATACAT
1 TGTATCGATACAT
3644709 TGTATCGATACAT
1 TGTATCGATACAT
3644722 AGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3644718 original size:33 final size:33
Alignment explanation
Indices: 3644676--3644741 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3644666 GCCAAGGAAA
***
3644676 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATAGATCTGTGTATCGATACAT
*
3644709 TGTATCGATACATAGATCTTTGTATCGATACAT
1 TGTATCGATACATAGATCTGTGTATCGATACAT
3644742 GGATCTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAGATCTGTGTATCGATACAT
Found at i:3644733 original size:20 final size:20
Alignment explanation
Indices: 3644708--3644761 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3644698 TATCGATACA
3644708 TTGTATCGATACATAGATCT
1 TTGTATCGATACATAGATCT
*
3644728 TTGTATCGATACATGGATCT
1 TTGTATCGATACATAGATCT
3644748 TTGTATCGATACAT
1 TTGTATCGATACAT
3644762 TTGGAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATAGATCT
Found at i:3647160 original size:51 final size:53
Alignment explanation
Indices: 3647096--3647226 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
3647086 AGTTTCTCAA
* * * *
3647096 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
3647147 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
3647201 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
3647227 CCCGTTAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:3647325 original size:52 final size:52
Alignment explanation
Indices: 3647237--3647410 Score: 160
Period size: 52 Copynumber: 3.3 Consensus size: 52
3647227 CCCGTTAATC
* * *
3647237 ATCGAGGATACTCCAACCCCTGTTTTA--TCGCTAAAACACTAATTTTTCCACA
1 ATCGAGGATACTCCAA-CCCGGTTTTATTTC-CAAAAACACCAATTTTTCCACA
* * * **
3647289 ATCGGGGATACTCCAATCCCGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTA
1 ATCGAGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTTTCC-ACA
* * * *
3647341 ATCGGGGATACGCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACA
1 ATCGAGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTTTCCACA
3647393 ATCGAGGATACTCCAACC
1 ATCGAGGATACTCCAACC
3647411 TTGTTATTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 8 0.08
52 76 0.77
53 10 0.10
54 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
ATCGAGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCACA
Found at i:3647432 original size:184 final size:184
Alignment explanation
Indices: 3647099--3647440 Score: 519
Period size: 184 Copynumber: 1.9 Consensus size: 184
3647089 TTCTCAATTC
* *
3647099 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
3647164 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACGCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
3647229 CGTTAATCATCGAGGATACTCCAACCCCTGTTTTATCGCTAAAACACTAATTTT
131 CGTTAATCATCGAGGATACTCCAACCCCTGTTTTATCGCTAAAACACTAATTTT
* * *
3647283 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
3647347 GATACGCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACGCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
** * *
3647410 CTTGTTATTTCATCGGGGATACTCCAACCCC
129 CCCGTTA-ATCATCGAGGATACTCCAACCCC
3647441 GTTACTTCCG
Statistics
Matches: 142, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
183 28 0.20
184 80 0.56
185 34 0.24
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (184 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACGCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGAGGATACTCCAACCCCTGTTTTATCGCTAAAACACTAATTTT
Found at i:3647444 original size:28 final size:28
Alignment explanation
Indices: 3647393--3647464 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
3647383 ATTTTTCACA
* ** *
3647393 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
3647421 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
3647449 CGAGGGGATACTCCAA
1 ATCGGGGATACTCCAA
3647465 TCCCAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:3648625 original size:13 final size:13
Alignment explanation
Indices: 3648607--3648632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3648597 TACACAAAGT
3648607 ATGTATCAATACA
1 ATGTATCAATACA
3648620 ATGTATCAATACA
1 ATGTATCAATACA
3648633 CCAAAAAATG
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:3648652 original size:33 final size:32
Alignment explanation
Indices: 3648589--3648652 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
3648579 TAGCCAAACT
* **
3648589 TGTATCGATACACAAAGTATGTATCAATACAA
1 TGTATCAATACACAAAAAATGTATCAATACAA
*
3648621 TGTATCAATACACCAAAAAATGTATCGATACA
1 TGTATCAATACA-CAAAAAATGTATCAATACA
3648653 TTAGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (32 bp):
TGTATCAATACACAAAAAATGTATCAATACAA
Found at i:3649870 original size:31 final size:31
Alignment explanation
Indices: 3649827--3649891 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
3649817 CAAACGAGTA
*
3649827 CAACTGTGTCTCACTTTGCGATAATGCCAAG
1 CAACCGTGTCTCACTTTGCGATAATGCCAAG
3649858 CAACCGTGTCTCACTTTGCGATAATGCCAAG
1 CAACCGTGTCTCACTTTGCGATAATGCCAAG
3649889 CAA
1 CAA
3649892 ATTTGGGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
CAACCGTGTCTCACTTTGCGATAATGCCAAG
Found at i:3654868 original size:13 final size:13
Alignment explanation
Indices: 3654850--3654888 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3654840 ATATTATTCT
3654850 TTGTATCGATACA
1 TTGTATCGATACA
*
3654863 TTGTATCAATACA
1 TTGTATCGATACA
*
3654876 CTGTATCGATACA
1 TTGTATCGATACA
3654889 GGGAGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3654885 original size:46 final size:46
Alignment explanation
Indices: 3654783--3654888 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
3654773 AATTTTCCAA
*
3654783 AATGTATCGATACATGTTTCTGTGTATCGATACATTTGGAAAATTC
1 AATGTATCGATACATGTTTCTGTGTATCGATACATTTGGAAAATAC
* * * * *
3654829 AATGTTTCGATATAT-TATTCTTTGTATCGATACA-TTGTATCAATAC
1 AATGTATCGATACATGT-TTCTGTGTATCGATACATTTGGA-AAATAC
*
3654875 ACTGTATCGATACA
1 AATGTATCGATACA
3654889 GGGAGATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
45 5 0.10
46 44 0.90
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (46 bp):
AATGTATCGATACATGTTTCTGTGTATCGATACATTTGGAAAATAC
Found at i:3655034 original size:21 final size:20
Alignment explanation
Indices: 3655010--3655056 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
3655000 AAATCTTTTG
*
3655010 CAAAATAC-TTGTTTTTCACTT
1 CAAAATACATCGTTTTTCA--T
*
3655031 CAAATTACATCGTTTTTCAT
1 CAAAATACATCGTTTTTCAT
3655051 CAAAAT
1 CAAAAT
3655057 CAGTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACATCGTTTTTCAT
Found at i:3656780 original size:22 final size:22
Alignment explanation
Indices: 3656734--3656774 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
3656724 AAATTTGTTA
3656734 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
3656756 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
3656775 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:3657346 original size:20 final size:19
Alignment explanation
Indices: 3657291--3657346 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
3657281 AAAACCCTTA
*
3657291 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
3657311 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
3657331 AATGTATCGATACATG
1 AAAGTATCGATACATG
3657347 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:3657434 original size:13 final size:13
Alignment explanation
Indices: 3657416--3657441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3657406 TACACAAAGT
3657416 ATGTATCGATACA
1 ATGTATCGATACA
3657429 ATGTATCGATACA
1 ATGTATCGATACA
3657442 CCAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3657439 original size:32 final size:32
Alignment explanation
Indices: 3657398--3657460 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
3657388 TAGCCAAACT
*
3657398 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAA-AATGTATCGATACAA
3657430 TGTATCGATACACCAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAATGTATCGATACA
3657461 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:3658359 original size:50 final size:51
Alignment explanation
Indices: 3658296--3658414 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 51
3658286 TCATTTCTGA
* * * * *
3658296 GGGG-TACTCCAACCCCATTTTTCTTTCCAAAATCTCGATTTTTCACTATC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACCATC
* *
3658346 GGGGATACT-CAACCTCGTTTTTATTTCCAAAATATCAAATTTTCACCATC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACCATC
* * *
3658396 AGTGATACTCCTACCCCAT
1 GGGGATACTCCAACCCCAT
3658415 CATTTCTGAA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
50 45 0.82
51 10 0.18
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACCATC
Found at i:3659833 original size:20 final size:20
Alignment explanation
Indices: 3659807--3659861 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
3659797 TTGCCAATTT
3659807 CATGTATCGATACAATTA-AG
1 CATGTATCGATACAA-TAGAG
*
3659827 TATGTATCGATACAA-AGAG
1 CATGTATCGATACAATAGAG
3659846 CATGTATCGATACAAT
1 CATGTATCGATACAAT
3659862 CTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 14 0.45
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATAGAG
Found at i:3659872 original size:32 final size:33
Alignment explanation
Indices: 3659831--3659892 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
3659821 ATTAAGTATG
*
3659831 TATCGATACAAAG-AGCATGTATCGATACAATC
1 TATCGATACAAAGCAGAATGTATCGATACAATC
*
3659863 TATCGATACAAAGCATAATGTATCGATACA
1 TATCGATACAAAGCAGAATGTATCGATACA
3659893 TCTGGATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (33 bp):
TATCGATACAAAGCAGAATGTATCGATACAATC
Found at i:3671231 original size:156 final size:156
Alignment explanation
Indices: 3670866--3671247 Score: 462
Period size: 159 Copynumber: 2.4 Consensus size: 156
3670856 GTCCAGTGAT
* *
3670866 CCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCGAAATACCCACCTTCGGCATAA
1 CCTAAAGGACTTAAAAAG-ATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
* * * * * * * ** *
3670931 AAGTGGATCCGATGACAACCTAGGACTCATTTCTAATAAAATTTTAAAAAATGTCCTTAGGTCTG
65 AAGTAGACCCGATGACAACCTAAGACTCAGTTATAAAAAAATTTGAAAAAATCCCCTAAGG--TG
*
3670996 ATACCTTCAACTTAGAAGTGCCTGATACC
128 ATACCTTCAACTTACAAGTGCCTGATACC
* * *
3671025 CCTAAAGGACTTAAAAAAGATCATAGATGGGATGAACCTATCCTAGATACCTACCTTTGGCATAA
1 CCTAAAGGACTT-AAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
* *
3671090 AAGTAGACCCGATGACAACCTAAGACTCGGTTATAAAAAAATTATGAAAATA-CCCCTAAGG-GA
65 AAGTAGACCCGATGACAACCTAAGACTCAGTTATAAAAAAATT-TGAAAAAATCCCCTAAGGTGA
* * * *
3671153 TATCTTCGACTTACAAGTGCTTGGTACC
129 TACCTTCAACTTACAAGTGCCTGATACC
* * * *
3671181 CCTAAAAGACCTAAAAATGATTATAAATGGGATGAACCTATCCTAAATACCCACATTTGGCATAA
1 CCTAAAGGACTTAAAAA-GATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
3671246 AA
65 AA
3671248 ATGGACCTGA
Statistics
Matches: 191, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
155 5 0.03
156 79 0.41
159 95 0.50
160 12 0.06
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (156 bp):
CCTAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAA
AGTAGACCCGATGACAACCTAAGACTCAGTTATAAAAAAATTTGAAAAAATCCCCTAAGGTGATA
CCTTCAACTTACAAGTGCCTGATACC
Found at i:3671273 original size:156 final size:154
Alignment explanation
Indices: 3670866--3671319 Score: 480
Period size: 156 Copynumber: 2.9 Consensus size: 154
3670856 GTCCAGTGAT
* *
3670866 CCTAAAGGACTTAAAAAGAATTATAGATGGGATGAACCTATCCGAAATACCCACCTTCGGCATAA
1 CCTAAAGGACTTAAAAAG-ATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
* * * * ** *
3670931 AAGTGGATCCGATGACAACCTAGGACTCATTTCTAATAAAATT-TTAAAAAATGTCCTTAGGTCT
65 AAGTGGA-CCGATGACAACCTAGGACTCAATT-TAAAAAAATTATGAAAATA-CCCCTAAGG--T
*
3670995 GATACCTTCAACTTAGAAGTGCCTGATACC
125 GATACCTTCAACTTACAAGTGCCTGATACC
* * *
3671025 CCTAAAGGACTTAAAAAAGATCATAGATGGGATGAACCTATCCTAGATACCTACCTTTGGCATAA
1 CCTAAAGGACTT-AAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
* * **
3671090 AAGTAGACCCGATGACAACCTAAGACTCGGTTATAAAAAAATTATGAAAATACCCCTAAGG-GAT
65 AAGTGGA-CCGATGACAACCTAGGACTCAATT-TAAAAAAATTATGAAAATACCCCTAAGGTGAT
* * * *
3671154 ATCTTCGACTTACAAGTGCTTGGTACC
128 ACCTTCAACTTACAAGTGCCTGATACC
* * * *
3671181 CCTAAAAGACCTAAAAATGATTATAAATGGGATGAACCTATCCTAAATACCCACATTTGGCATAA
1 CCTAAAGGACTTAAAAA-GATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAA
* * * * ** * *
3671246 AAATGGACCTGATGATAGCTTAGGACTCAATTTAAAAAAAAAAATGAAAATGCCCCTAAGTTTGA
65 AAGTGGACC-GATGACAACCTAGGACTCAATTT-AAAAAAATTATGAAAATACCCCTAAG-GTGA
3671311 TACCTTCAA
127 TACCTTCAA
3671320 TATGAAAATA
Statistics
Matches: 245, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
155 8 0.03
156 121 0.49
158 9 0.04
159 95 0.39
160 12 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (154 bp):
CCTAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAA
AGTGGACCGATGACAACCTAGGACTCAATTTAAAAAAATTATGAAAATACCCCTAAGGTGATACC
TTCAACTTACAAGTGCCTGATACC
Found at i:3673389 original size:153 final size:153
Alignment explanation
Indices: 3673078--3673404 Score: 374
Period size: 153 Copynumber: 2.1 Consensus size: 153
3673068 CGAAAATTTT
* * *
3673078 CCTAAGGAATACCTTCGACATAAAAGTACTCGATACCCCTAAAAGACTTAAAAATAATTTTAAAA
1 CCTAAGGGATACCTTCGACATAAAAATACTCAATACCCCTAAAAGACTTAAAAATAATTTTAAAA
*
3673143 GGATGAACATATCCAAACTACCCACCTTTGGCATGTAAGCGACCCCATGACAACATAAAACTCAG
66 GGATGAACATATCCAAACTACCCACCTTTGGCATGAAAGCGACCCCATGACAACATAAAACTCAG
*** *
3673208 TTCTGGGAAATTACAAAAATACC
131 TTCTAAAAAAATACAAAAATACC
**
3673231 CCTAAGGGATACCTTCGATGTAAAAATAC-CAATA-CCCTAAAAGACTTAAAAA-AGATTTTAAA
1 CCTAAGGGATACCTTCGACATAAAAATACTCAATACCCCTAAAAGACTTAAAAATA-ATTTTAAA
* * * ** * **
3673293 AGGGATGAACCTATCCTAAA-TACCCACCTTTGGTATGAAAGCGAACTCGGTGACAACCTAGGAC
65 A-GGATGAACATATCC-AAACTACCCACCTTTGGCATGAAAGCG-ACCCCATGACAACATAAAAC
* * * *
3673357 TCGGTTTTAAAAAAATATAAAAATGCC
127 TCAGTTCTAAAAAAATACAAAAATACC
* *
3673384 CCTAAGAGATACTTTCGACAT
1 CCTAAGGGATACCTTCGACAT
3673405 GAAAGTACCC
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
150 1 0.01
151 27 0.19
152 38 0.26
153 78 0.54
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (153 bp):
CCTAAGGGATACCTTCGACATAAAAATACTCAATACCCCTAAAAGACTTAAAAATAATTTTAAAA
GGATGAACATATCCAAACTACCCACCTTTGGCATGAAAGCGACCCCATGACAACATAAAACTCAG
TTCTAAAAAAATACAAAAATACC
Found at i:3673690 original size:16 final size:17
Alignment explanation
Indices: 3673653--3673696 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
3673643 CATTGATAAG
3673653 AATATTT-ATTTATTTT
1 AATATTTAATTTATTTT
**
3673669 TTTATTTAATTTA-TTT
1 AATATTTAATTTATTTT
3673685 AATATTTAATTT
1 AATATTTAATTT
3673697 TGCTTTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATATTTAATTTATTTT
Found at i:3673696 original size:21 final size:21
Alignment explanation
Indices: 3673656--3673696 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3673646 TGATAAGAAT
* * *
3673656 ATTTATTTATTTTTTTATTTA
1 ATTTATTTAATATTTAATTTA
3673677 ATTTATTTAATATTTAATTT
1 ATTTATTTAATATTTAATTT
3673697 TGCTTTTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTTAATATTTAATTTA
Found at i:3677811 original size:78 final size:78
Alignment explanation
Indices: 3677724--3678241 Score: 482
Period size: 79 Copynumber: 6.6 Consensus size: 78
3677714 AGGTATCTCG
** ** * * **
3677724 AGATGAAAAATTTAGCATTTTGGAAATATGAGTGGGGTTAGAGTATCCCCTTGGAATTGATGAGG
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
3677789 TTGGAGTATCCCA
66 TTGGAGTATCCCA
* * * * * * * * * *
3677802 AGATGAAAAATTTAATATTTTGAAAAT-AAAACGAGGTTGGAATATCTCCTTAAAAATAACGAGG
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
*
3677866 TTAGAGTATCCCCA
66 TTGGAGTAT-CCCA
* * * * ** * * *
3677880 AGA-AAAAAAATTAATATTTTAGAAACAAAAGCGAGGTTGGAGTATCCCCTCAGAATTAATGAGC
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
*
3677944 TTGGAGTATCCTCG
66 TTGGAGTATCC-CA
** * * * * * *
3677958 AGATGAAAAATTTAATATTTTAAAAATAAAATTAGGGTTAGAGTATCCCCTCGGAATTGACGGGG
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
** *
3678023 TTAAAGTATCCTCG
66 TTGGAGTATCC-CA
* **** *
3678037 AGATGAAAATTTTAATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCAGAATTGATGGGG
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
*
3678102 TTAGAGTATCTCCA
66 TTGGAGTATC-CCA
* * *
3678116 AGATGAAAATTTTAATATTTTGAAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGGGG
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
* *
3678181 CTGGAATATCCCGA
66 TTGGAGTATCCC-A
* * *
3678195 AGATGAAAAATTCAATATTTTGGAAATAAAAATAGGGTTAGAGTATC
1 AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
3678242 TCTTAGGAAA
Statistics
Matches: 362, Mismatches: 72, Indels: 11
0.81 0.16 0.02
Matches are distributed among these distances:
77 52 0.14
78 74 0.20
79 235 0.65
80 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (78 bp):
AGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAATTGATGAGG
TTGGAGTATCCCA
Found at i:3678109 original size:158 final size:158
Alignment explanation
Indices: 3677684--3678225 Score: 564
Period size: 158 Copynumber: 3.5 Consensus size: 158
3677674 AAAGAAACAA
* * * **
3677684 GGTTAGCGTATCCCCTCCGAA-T-ACGGGGTT-AGGTAT-CTCGAGATGAAAAATTTAGCATTTT
1 GGTTAGAGTATCCCCTCAGAATTGACGGGGTTAAAGTATCCTCGAGATGAAAAATTTAATATTTT
** * * * **
3677745 GGAAATATGAGTGGGGTTAGAGTATCCCCTTGGAATTGATGAGGTTGGAGTATCC-CAAGATGAA
66 GGAAATAAAAGCGAGGTTGGAGTATCCCCTCAGAATTGATGAGGTTGGAGTATCCTCAAGATGAA
**
3677809 AAATTTAATATTTTGAAAATAAAACGA-
131 AAATTTAATATTTTGAAAATAAAAATAG
* * * * * * * * * * * * *
3677836 GGTTGGAATATCTCCTTAAAAATAACGAGGTTAGAGTATCCCCAAGA-AAAAAAATTAATATTTT
1 GGTTAGAGTATCCCCTCAGAATTGACGGGGTTAAAGTATCCTCGAGATGAAAAATTTAATATTTT
* * * * *
3677900 AGAAACAAAAGCGAGGTTGGAGTATCCCCTCAGAATTAATGAGCTTGGAGTATCCTCGAGATGAA
66 GGAAATAAAAGCGAGGTTGGAGTATCCCCTCAGAATTGATGAGGTTGGAGTATCCTCAAGATGAA
* *
3677965 AAATTTAATATTTTAAAAATAAAATTAG
131 AAATTTAATATTTTGAAAATAAAAATAG
* *
3677993 GGTTAGAGTATCCCCTCGGAATTGACGGGGTTAAAGTATCCTCGAGATGAAAATTTTAATATTTT
1 GGTTAGAGTATCCCCTCAGAATTGACGGGGTTAAAGTATCCTCGAGATGAAAAATTTAATATTTT
* * * *
3678058 GGAAATAAAACCAAGGTTGGAGTATCCCCTCAGAATTGATGGGGTTAGAGTAT-CTCCAAGATGA
66 GGAAATAAAAGCGAGGTTGGAGTATCCCCTCAGAATTGATGAGGTTGGAGTATCCT-CAAGATGA
* *
3678122 AAATTTTAATATTTTGAAAATAAAAATGG
130 AAAATTTAATATTTTGAAAATAAAAATAG
* * ** *
3678151 GGTTGGAGTATCCCCTCAGAATTGATGGGGCTGGAA-TATCC-CGAAGATGAAAAATTCAATATT
1 GGTTAGAGTATCCCCTCAGAATTGACGGGG-TTAAAGTATCCTCG-AGATGAAAAATTTAATATT
3678214 TTGGAAATAAAA
64 TTGGAAATAAAA
3678226 ATAGGGTTAG
Statistics
Matches: 314, Mismatches: 66, Indels: 14
0.80 0.17 0.04
Matches are distributed among these distances:
152 14 0.04
153 1 0.00
154 7 0.02
155 61 0.19
156 37 0.12
157 39 0.12
158 152 0.48
159 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (158 bp):
GGTTAGAGTATCCCCTCAGAATTGACGGGGTTAAAGTATCCTCGAGATGAAAAATTTAATATTTT
GGAAATAAAAGCGAGGTTGGAGTATCCCCTCAGAATTGATGAGGTTGGAGTATCCTCAAGATGAA
AAATTTAATATTTTGAAAATAAAAATAG
Found at i:3678270 original size:79 final size:79
Alignment explanation
Indices: 3677716--3678306 Score: 473
Period size: 79 Copynumber: 7.5 Consensus size: 79
3677706 ACGGGGTTAG
* ** ** * * * *
3677716 GTATCTCG-AGATGAAAAATTTAGCATTTTGGAAATATGAGTGGGGTTAGAGTATCCCCTTGGAA
1 GTATCCCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGAA
3677780 TTGATGAGGTTGGA
66 TTGATGAGGTTGGA
* ** * * *
3677794 GTATCCC-AAGATGAAAAATTTAATATTTTGAAAATAAAACGA-GGTTGGAATATCTCCTTAAAA
1 GTATCCCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGAA
* * * *
3677857 ATAACGAGGTTAGA
66 TTGATGAGGTTGGA
* * * * * ** *
3677871 GTATCCCCAAGA-AAAAAAATTAATATTTTAGAAA-CAAAAGCGAGGTTGGAGTATCCCCTCAGA
1 GTATCCCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAG-GGTTGGAGTATCCCCTTAGA
* *
3677934 ATTAATGAGCTTGGA
65 ATTGATGAGGTTGGA
** * * **
3677949 GTATCCTCG-AGATGAAAAATTTAATATTTTAAAAATAAAATTAGGGTTAGAGTATCCCCTCGGA
1 GTATCC-CGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGA
* * **
3678013 ATTGACGGGGTTAAA
65 ATTGATGAGGTTGGA
* ** * *
3678028 GTATCCTCG-AGATGAAAATTTTAATATTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCAGA
1 GTATCC-CGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGA
* *
3678092 ATTGATGGGGTTAGA
65 ATTGATGAGGTTGGA
* * * *
3678107 GTATCTCC-AAGATGAAAATTTTAATATTTTGAAAATAAAAATGGGGTTGGAGTATCCCCTCAGA
1 GTATC-CCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGA
* *
3678171 ATTGATGGGGCTGGA
65 ATTGATGAGGTTGGA
* * * *
3678186 ATATCCCGAAGATGAAAAATTCAATATTTTGGAAATAAAAATAGGGTTAGAGTAT-CTCTTAGGA
1 GTATCCCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTA-GA
* * * *
3678250 AATAACGAGATTGGA
65 ATTGATGAGGTTGGA
** ** *
3678265 GTATCCCCCAGATGAAAAA-TCGATATTTTTGGAAAGAAAAAT
1 GTATCCCGAAGATGAAAAATTTAATA-TTTTGGAAATAAAAAT
3678307 TTAGAAATTT
Statistics
Matches: 416, Mismatches: 85, Indels: 23
0.79 0.16 0.04
Matches are distributed among these distances:
76 4 0.01
77 51 0.12
78 83 0.20
79 273 0.66
80 5 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (79 bp):
GTATCCCGAAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTTAGAA
TTGATGAGGTTGGA
Found at i:3678966 original size:20 final size:19
Alignment explanation
Indices: 3678943--3678983 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3678933 AATATCGAAA
3678943 AATTTTGAAAAAATATTTTT
1 AATTTTGAAAAAA-ATTTTT
* *
3678963 AATTTTTAAAATAATTTTT
1 AATTTTGAAAAAAATTTTT
3678982 AA
1 AA
3678984 ACTCATCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTGAAAAAAATTTTT
Found at i:3682238 original size:163 final size:164
Alignment explanation
Indices: 3681974--3682342 Score: 421
Period size: 163 Copynumber: 2.2 Consensus size: 164
3681964 TTTCAAAGAA
3681974 AAAAATGAAAAACTT-ATGAAAATAAAAGAATTTTTCAAAAATAATTTACTATGAATAAAATAAT
1 AAAAATGAAAAA-TTCATG-AAATAAAAGAATTTTTCAAAAATAATTTACTATGAATAAAATAAT
* **
3682038 GATATTTGATGAATTATAAAAATTATAAATCAAGAAAAATCCTCCT-GAAAACATTTACGGAGTA
64 GATATTTGATAAATTATAAAAATTATAAATCAAGAAAAAT-CTCCTCGAAAACATTTACAAAGTA
* *
3682102 AAAAATT-TCGTATTTCATAAACAGGAAAATTTTGA-G
128 AAAAATTCT-GTATTTCAGAAACAGGAAAATTTTAAGG
* * * * * *
3682138 AAAAATGAAAATTTCATGAAATAAAATAATTTTTTCAAAACTGATTT-C-ATGTAAATTAAATGA
1 AAAAATGAAAAATTCATGAAATAAAAGAA-TTTTTCAAAAATAATTTACTATG--AATAAAATAA
3682201 TGATATTTGATAAATT-TAAAAATTATAAA-CTAAGAAAAATCTCCTCGAAAACATTTACAAAGT
63 TGATATTTGATAAATTATAAAAATTATAAATC-AAGAAAAATCTCCTCGAAAACATTTACAAAGT
* * * *
3682264 AGAAAATTCTGTATTTCAGAAATAGTAGAATTTTAAGG
127 AAAAAATTCTGTATTTCAGAAACAGGAAAATTTTAAGG
* * * *
3682302 AAAAACTGAAAAACTCGTGAAATAAAAAGAAATTCTCAAAA
1 AAAAA-TGAAAAATTCATGAAAT-AAAAGAATTTTTCAAAA
3682343 CTTATTAAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
162 9 0.05
163 78 0.45
164 59 0.34
165 22 0.13
166 6 0.03
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.30
Consensus pattern (164 bp):
AAAAATGAAAAATTCATGAAATAAAAGAATTTTTCAAAAATAATTTACTATGAATAAAATAATGA
TATTTGATAAATTATAAAAATTATAAATCAAGAAAAATCTCCTCGAAAACATTTACAAAGTAAAA
AATTCTGTATTTCAGAAACAGGAAAATTTTAAGG
Found at i:3682646 original size:165 final size:162
Alignment explanation
Indices: 3681947--3682646 Score: 447
Period size: 165 Copynumber: 4.2 Consensus size: 162
3681937 AAACTCAGTT
** * * *
3681947 TTTCGAAAATAAGAGAA-TTTCAAAGAAAAAAATGAAAAACTTATGAAAATAAAAGAA-TTTTTC
1 TTTCGAAAACGAG-GAATTTTCAAA-AGAAAAATGAAAAACTCATG-AAATAAAATAATTTTTTC
* * * * * * * * *
3682010 AAAAATAATTTACTAT-G-AATAAAATAATGATATTTGATGAATTATAAAAATTATAAATCAAGA
63 AAAACTGATTTA--ATGGTAATTAAGTGATAATATTTGATAAATT-TAAAAATTTTAAACCAA-A
* * *
3682073 AAAATCCTCCTGAAAACATTTACGGAGTAA-AAAA-TTTCGTA
124 AAAAT-CTCCCGAAAA-AATTACGAAG-AAGAAAACTTT-GTA
* **
3682114 TTTC-ATAAAC-AGGAAAATTTT---GAGAAAAATGAAAATTTCATGAAATAAAATAATTTTTTC
1 TTTCGA-AAACGAGG--AATTTTCAAAAGAAAAATGAAAAACTCATGAAATAAAATAATTTTTTC
* * * * *
3682174 AAAACTGATTTCAT-GTAAATTAAATGATGATATTTGATAAATTTAAAAATTATAAACTAAGAAA
63 AAAACTGATTTAATGGT-AATTAAGTGATAATATTTGATAAATTTAAAAATTTTAAACCAA-AAA
* * *
3682238 AATCTCCTCGAAAACATTTACAAAGTAGAAAA-TTCTGTA
126 AATCTCC-CGAAAA-AATTACGAAGAAGAAAACTT-TGTA
* * ** *
3682277 TTTCAGAAATA-GTA-GAATTTT--AAGGAAAAACTGAAAAACTCGTGAAATAAAA-AGAAATTC
1 TTTC-GAAA-ACG-AGGAATTTTCAAAAGAAAAA-TGAAAAACTCATGAAATAAAATA-ATTTTT
* * * * * *
3682337 TCAAAACTTATTAAATGGTGATTAAGTAATAATATTTGATGAATTTTAAAAATCTTAAACCAAAG
61 TCAAAACTGATTTAATGGTAATTAAGTGATAATATTTGAT-AAATTTAAAAATTTTAAACCAAA-
* * * * * *
3682402 AAAATCCTCCC-AAAAACATTATGGAGAATAAAGCTCTATA
124 AAAAT-CTCCCGAAAAA-ATTACGAAGAAGAAAACTTTGTA
* * * **
3682442 TTTCGAAAACAGAAGGAA-TTCCAAAAG-AAAATCAAAAACTCATGGAATAAAATAATTTTTTTG
1 TTTCGAAAAC-G-AGGAATTTTCAAAAGAAAAATGAAAAACTCATGAAATAAAATAATTTTTTCA
* * *
3682505 AAACTGATTTGATGGTAACTAAGTGATAATATTTTATAAATATT-AAAATTTTAAACCAATAAAA
64 AAACTGATTTAATGGTAATTAAGTGATAATATTTGATAAAT-TTAAAAATTTTAAACCAA-AAAA
3682569 ATCTTCCCGAAAAAATATACGAAGAAGAAAACTTTGTA
127 ATC-TCCCGAAAAAAT-TACGAAGAAGAAAACTTTGTA
3682607 TTTCGAAAACG-GGAAGTTTTCAAAAGAAAAATGAAAAACT
1 TTTCGAAAACGAGGAA-TTTTCAAAAGAAAAATGAAAAACT
3682647 GAGGAAACAA
Statistics
Matches: 420, Mismatches: 75, Indels: 78
0.73 0.13 0.14
Matches are distributed among these distances:
162 12 0.03
163 67 0.16
164 106 0.25
165 177 0.42
166 39 0.09
167 16 0.04
168 3 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (162 bp):
TTTCGAAAACGAGGAATTTTCAAAAGAAAAATGAAAAACTCATGAAATAAAATAATTTTTTCAAA
ACTGATTTAATGGTAATTAAGTGATAATATTTGATAAATTTAAAAATTTTAAACCAAAAAAATCT
CCCGAAAAAATTACGAAGAAGAAAACTTTGTA
Found at i:3692438 original size:20 final size:20
Alignment explanation
Indices: 3692413--3692464 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3692403 TACAAGCCAA
**
3692413 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
3692433 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
3692452 TGTATCGATACAA
1 TGTATCGATACAA
3692465 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:3693522 original size:2 final size:2
Alignment explanation
Indices: 3693515--3693541 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3693505 GAACTTTCAT
3693515 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3693542 CTAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3695233 original size:58 final size:58
Alignment explanation
Indices: 3695140--3695306 Score: 167
Period size: 58 Copynumber: 2.9 Consensus size: 58
3695130 TTCCATGACT
* * * * *
3695140 TAAGGACTTTTATGTCATTTCATGAATTTTAATGTCATTTAGGTCATTTTTCGTAATC
1 TAAGGAATTTAATGTAATTTTATGAATTTTAATGTCATTTAGGTCATTTTTCATAATC
* *
3695198 TAAGGAATTTAATGTAATTTTATGAAATTTT-ATGTCATTTAGTTTATTTTTCATAATC
1 TAAGGAATTTAATGTAATTTTATG-AATTTTAATGTCATTTAGGTCATTTTTCATAATC
* ** * * * * *
3695256 T-AGGGACGTAGATGCAATTTTGTGATTTTTGATGTCACTTAGGTCATTTTT
1 TAAGGAATTTA-ATGTAATTTTATGAATTTTAATGTCATTTAGGTCATTTTT
3695307 TATGATTTAG
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
57 11 0.12
58 73 0.81
59 6 0.07
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.49
Consensus pattern (58 bp):
TAAGGAATTTAATGTAATTTTATGAATTTTAATGTCATTTAGGTCATTTTTCATAATC
Found at i:3695376 original size:117 final size:115
Alignment explanation
Indices: 3695232--3695488 Score: 277
Period size: 117 Copynumber: 2.2 Consensus size: 115
3695222 AAATTTTATG
* * * * * *
3695232 TCATTTAGTTTATTTTTCATAATCTAGGGACGTAGATGCAATTTTGTGATTT-TTGATGTCACTT
1 TCATTTAGGTCATTTTTTATAATCTAGGGACGTAGATGCAAATTTAT-ATTTATTGAGGTCACTT
* * * * *
3695296 AGGTCATTTTTTATGAT-TTAGGGACTTTTTTTGCATATTTATGTGTGTTAGGA
65 AGGTCA-TCTTTAGGATCTT-GGGAC-TTTTATGCAAATTTATGTATGTTAGGA
* * * ** * *
3695349 TCATTTAGGTCATTTTTTATGATCTAGGTACTTTTATGTAAATTTATATTTATTGAGGTCATTTA
1 TCATTTAGGTCATTTTTTATAATCTAGGGACGTAGATGCAAATTTATATTTATTGAGGTCACTTA
* *
3695414 GGTCATCTTTAGGATCTTGGGACTTTTATGCAAATTTATGTATGTTGGGG
66 GGTCATCTTTAGGATCTTGGGACTTTTATGCAAATTTATGTATGTTAGGA
3695464 TCATTTAGGTCA-TTTTTATAATCTA
1 TCATTTAGGTCATTTTTTATAATCTA
3695489 AAGACTTTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
114 12 0.10
115 34 0.29
116 17 0.15
117 54 0.46
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (115 bp):
TCATTTAGGTCATTTTTTATAATCTAGGGACGTAGATGCAAATTTATATTTATTGAGGTCACTTA
GGTCATCTTTAGGATCTTGGGACTTTTATGCAAATTTATGTATGTTAGGA
Found at i:3695449 original size:57 final size:58
Alignment explanation
Indices: 3695231--3695565 Score: 277
Period size: 57 Copynumber: 5.8 Consensus size: 58
3695221 GAAATTTTAT
* * * * * ** * * *
3695231 GTCATTTAGTTTATTTTTCATAATCTAGGGACGTAGATGCAATTTTGTGATTT-TTGAT
1 GTCATTTAGGTCATTTTTTATGATCTAGGGACTTTTATGCAAATTTAT-ATTTGTTGAG
* * * * * *
3695289 GTCACTTAGGTCATTTTTTATGATTTAGGGACTTTTTTTGCATATTTATGTGTGTT-AG
1 GTCATTTAGGTCATTTTTTATGATCTAGGGAC-TTTTATGCAAATTTATATTTGTTGAG
* * *
3695347 GATCATTTAGGTCATTTTTTATGATCTAGGTACTTTTATGTAAATTTATATTTATTGAG
1 G-TCATTTAGGTCATTTTTTATGATCTAGGGACTTTTATGCAAATTTATATTTGTTGAG
* * * * * *
3695406 GTCATTTAGGTCA-TCTTTAGGATCTTGGGACTTTTATGCAAATTTATGTATGTTGGG
1 GTCATTTAGGTCATTTTTTATGATCTAGGGACTTTTATGCAAATTTATATTTGTTGAG
* ** *
3695463 GTCATTTAGGTCA-TTTTTATAATCTAAAGACTTTTATGCAAATTTAT-TTATGTTGGG
1 GTCATTTAGGTCATTTTTTATGATCTAGGGACTTTTATGCAAATTTATATT-TGTTGAG
* * * * *
3695520 GTCATTTAAGTTATTTTCTATGATCTAGAGA-TTTTCATGAAAATTT
1 GTCATTTAGGTCATTTTTTATGATCTAGGGACTTTT-ATGCAAATTT
3695566 CTTGTATTTT
Statistics
Matches: 223, Mismatches: 47, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
56 1 0.00
57 98 0.44
58 82 0.37
59 42 0.19
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (58 bp):
GTCATTTAGGTCATTTTTTATGATCTAGGGACTTTTATGCAAATTTATATTTGTTGAG
Found at i:3697120 original size:20 final size:20
Alignment explanation
Indices: 3697092--3697136 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
3697082 ACTGCCAAGG
* *
3697092 AAATATATCGATACATTTGT
1 AAATGTATCGATACATTAGT
3697112 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATTAGT
3697132 AAATG
1 AAATG
3697137 CATACTGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTAGT
Found at i:3697187 original size:32 final size:32
Alignment explanation
Indices: 3697146--3697440 Score: 253
Period size: 32 Copynumber: 9.2 Consensus size: 32
3697136 GCATACTGCC
* * *
3697146 AAGCCCACACAAGTCGATGGAAAGCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
* * *
3697178 AAGCCCACACAAGCCGGTAGCAACC-CCTCTAA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCT-A
* * *
3697210 AAGACCACACAAG-CTGGTGGTAACC-CCTCTAA
1 AAGCCCACACAAGTC-GGTGGCAACCTTCTCT-A
* * *
3697242 AAGCCCACACAAGCCGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
* * *
3697275 AAGCCCATACAAGTCGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
* *
3697308 AAGCCCACACAAGTTGGTGGCAACCTCCTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
* *
3697341 AAGCCCACACAAG-CTAGTGGCAATCTT-TCTA
1 AAGCCCACACAAGTC-GGTGGCAACCTTCTCTA
* * **
3697372 AAGGCCACACAAGTTGGTGATAACCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
* *
3697404 AAGCCCACACACGTCGGTGGCAACCCT-TCT-
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
3697434 AAGCCCA
1 AAGCCCA
3697441 ATGTCGTTGG
Statistics
Matches: 217, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
30 7 0.03
31 32 0.15
32 95 0.44
33 81 0.37
34 2 0.01
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.19
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
Done.