Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 14 of 15
Found at i:1992986 original size:97 final size:97
Alignment explanation
Indices: 1992876--1993091 Score: 319
Period size: 97 Copynumber: 2.2 Consensus size: 97
1992866 ACCCTATTCT
* * *
1992876 TCCGAGGGAATACTTCAATCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAAT
1 TCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAAT
*
1992941 TGTAACCATC-GAGGATACT-TCAACCCCATTTC
66 TGTAACCATCGGA-GACACTCT-AACCCCATTTC
* * *
1992973 TCCGAGGGGATACTCCAACCCCGCTTTTAAACGCATTAAAGTTTAAATCTTATTTTCACTTAAAT
1 TCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAAT
* *
1993038 TGTCATCATCGGAGACACTCTAACCCCATTTC
66 TGTAACCATCGGAGACACTCTAACCCCATTTC
1993070 TCCGAGGGGATACTCCAACCCC
1 TCCGAGGGGATACTCCAACCCC
1993092 ATTTTCAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
97 105 0.97
98 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (97 bp):
TCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAAT
TGTAACCATCGGAGACACTCTAACCCCATTTC
Found at i:1999837 original size:13 final size:13
Alignment explanation
Indices: 1999819--1999844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1999809 AATTTTTTTG
1999819 TGTATCGATACAT
1 TGTATCGATACAT
1999832 TGTATCGATACAT
1 TGTATCGATACAT
1999845 ACTTGGTGTA
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:2002407 original size:13 final size:13
Alignment explanation
Indices: 2002389--2002427 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2002379 ATAATCACCC
2002389 TGTATCGATACAA
1 TGTATCGATACAA
2002402 TGTATCGATACAA
1 TGTATCGATACAA
2002415 TGTATCGATACAA
1 TGTATCGATACAA
2002428 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2004527 original size:15 final size:15
Alignment explanation
Indices: 2004507--2004537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2004497 ATTTCGTTTG
*
2004507 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2004522 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2004537 G
1 G
2004538 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:2006368 original size:21 final size:21
Alignment explanation
Indices: 2006339--2006383 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2006329 AAGTTTTCAT
*
2006339 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2006359 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2006381 TTT
1 TTT
2006384 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2008622 original size:13 final size:13
Alignment explanation
Indices: 2008604--2008629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2008594 AATTTTTTTG
2008604 TGTATCGATACAT
1 TGTATCGATACAT
2008617 TGTATCGATACAT
1 TGTATCGATACAT
2008630 ACTTGGTGTA
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:2011579 original size:18 final size:18
Alignment explanation
Indices: 2011559--2011617 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
2011549 ATTTTCTAAG
*
2011559 AATCTTAAATTTTTTAGG
1 AATCTTAAATTTTTTAGA
** * *
2011577 AATCACAGATTTTTTAAA
1 AATCTTAAATTTTTTAGA
2011595 AATCATTAAATTTTTTAGA
1 AATC-TTAAATTTTTTAGA
2011614 AATC
1 AATC
2011618 ACAATTTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (18 bp):
AATCTTAAATTTTTTAGA
Found at i:2011607 original size:19 final size:19
Alignment explanation
Indices: 2011549--2011618 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 19
2011539 TAAATTATAT
* *
2011549 ATTTTCTAAGAATC-TTAA
1 ATTTTTTAAAAATCATTAA
** * *
2011567 ATTTTTTAGGAATCA-CAG
1 ATTTTTTAAAAATCATTAA
2011585 ATTTTTTAAAAATCATTAA
1 ATTTTTTAAAAATCATTAA
*
2011604 ATTTTTTAGAAATCA
1 ATTTTTTAAAAATCA
2011619 CAATTTTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 26 0.63
19 15 0.37
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTTTTTAAAAATCATTAA
Found at i:2011626 original size:18 final size:17
Alignment explanation
Indices: 2011566--2011627 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 17
2011556 AAGAATCTTA
*
2011566 AATTTTTTAGGAATCAC
1 AATTTTTTAGAAATCAC
* *
2011583 AGATTTTTTAAAAATCATTA
1 A-ATTTTTTAGAAATCA--C
2011603 AATTTTTTAGAAATCAC
1 AATTTTTTAGAAATCAC
2011620 AATTTTTT
1 AATTTTTT
2011628 CTAAAACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.24
18 13 0.35
19 14 0.38
20 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (17 bp):
AATTTTTTAGAAATCAC
Found at i:2011626 original size:36 final size:36
Alignment explanation
Indices: 2011549--2011627 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 36
2011539 TAAATTATAT
* * *
2011549 ATTTTCTAAGAATCTTAAATTTTTTAGGAATCACAG
1 ATTTTTTAAAAATCTTAAATTTTTTAGAAATCACAG
2011585 ATTTTTTAAAAATCATTAAATTTTTTAGAAATCACA-
1 ATTTTTTAAAAATC-TTAAATTTTTTAGAAATCACAG
2011621 ATTTTTT
1 ATTTTTT
2011628 CTAAAACTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
36 19 0.49
37 20 0.51
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (36 bp):
ATTTTTTAAAAATCTTAAATTTTTTAGAAATCACAG
Found at i:2013191 original size:14 final size:14
Alignment explanation
Indices: 2013172--2013201 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2013162 CTTCAGAACA
2013172 AACTTGGGGAGGTC
1 AACTTGGGGAGGTC
2013186 AACTTGGGGAGGTC
1 AACTTGGGGAGGTC
2013200 AA
1 AA
2013202 GGATGCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AACTTGGGGAGGTC
Found at i:2016014 original size:12 final size:13
Alignment explanation
Indices: 2015992--2016018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2015982 AATTAAGAGG
2015992 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
2016005 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
2016018 A
1 A
2016019 GATATTCAGT
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:2021809 original size:13 final size:13
Alignment explanation
Indices: 2021791--2021824 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2021781 AGTAATAGTA
*
2021791 AAATAATTTAATT
1 AAATAATTTAAAT
2021804 AAATAATTTAAAT
1 AAATAATTTAAAT
*
2021817 AATTAATT
1 AAATAATT
2021825 GATTATATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATAATTTAAAT
Found at i:2023984 original size:19 final size:19
Alignment explanation
Indices: 2023962--2024007 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2023952 TATTATGATC
2023962 GAAAAAAAAGAATCCAAGT
1 GAAAAAAAAGAATCCAAGT
2023981 GAAAAAAAAGAATCCAAGT
1 GAAAAAAAAGAATCCAAGT
2024000 -AAAAAAAA
1 GAAAAAAAA
2024008 AAAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.70, C:0.09, G:0.13, T:0.09
Consensus pattern (19 bp):
GAAAAAAAAGAATCCAAGT
Found at i:2024422 original size:20 final size:19
Alignment explanation
Indices: 2024385--2024427 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2024375 TTTTTTAAAT
* *
2024385 ATAATTTAATTTAATTTTGA
1 ATAATTAAATATAATTTT-A
*
2024405 ATAATTAAATATATTTTTA
1 ATAATTAAATATAATTTTA
2024424 ATAA
1 ATAA
2024428 GTTTTTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATAATTAAATATAATTTTA
Found at i:2025796 original size:20 final size:20
Alignment explanation
Indices: 2025767--2025818 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2025757 TACAAGCCAA
2025767 TGTATCGATACATTTTTTGG
1 TGTATCGATACATTTTTTGG
*
2025787 TGTATTGATACATTTTTTGG
1 TGTATCGATACATTTTTTGG
2025807 TGTATCGATACA
1 TGTATCGATACA
2025819 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTTTTTGG
Found at i:2025825 original size:13 final size:13
Alignment explanation
Indices: 2025807--2025831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2025797 CATTTTTTGG
2025807 TGTATCGATACAA
1 TGTATCGATACAA
2025820 TGTATCGATACA
1 TGTATCGATACA
2025832 TACTGTGTGC
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:2025929 original size:20 final size:21
Alignment explanation
Indices: 2025883--2025935 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2025873 GTCAATGACT
** *
2025883 TGTATCGATACATTCTTTTCG
1 TGTATCGATACATTCTGGTCA
2025904 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
2025924 TGTATCGATACA
1 TGTATCGATACA
2025936 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:2025941 original size:13 final size:13
Alignment explanation
Indices: 2025923--2025947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2025913 ACATTTGGTC
2025923 ATGTATCGATACA
1 ATGTATCGATACA
2025936 ATGTATCGATAC
1 ATGTATCGATAC
2025948 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:2028251 original size:20 final size:21
Alignment explanation
Indices: 2028222--2028262 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2028212 TGTTTTTGAT
2028222 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
2028241 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
2028263 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:2034611 original size:13 final size:13
Alignment explanation
Indices: 2034593--2034617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2034583 CATTTTTTGG
2034593 TGTATCGATACAA
1 TGTATCGATACAA
2034606 TGTATCGATACA
1 TGTATCGATACA
2034618 TATTGTGTGT
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:2034633 original size:32 final size:33
Alignment explanation
Indices: 2034570--2034637 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2034560 CGTTACAAGC
* *
2034570 CAATGTATCGATACATTTTTTGGTGTATCGATA
1 CAATGTATCGATACATATTGTGGTGTATCGATA
2034603 CAATGTATCGATACATATTGT-GTGTATCGATA
1 CAATGTATCGATACATATTGTGGTGTATCGATA
2034635 CAA
1 CAA
2034638 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATATTGTGGTGTATCGATA
Found at i:2036881 original size:48 final size:49
Alignment explanation
Indices: 2036804--2036901 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
2036794 AATATCTTAT
2036804 AGACAAAAGTTGAGAACAATAAAGGAAACCTAAATTGAAATAAAAGACA
1 AGACAAAAGTTGAGAACAATAAAGGAAACCTAAATTGAAATAAAAGACA
2036853 AGACAAAAGTTGAG-ACAATAAAGGAAACCTAAATTGAAATAAAAGACA
1 AGACAAAAGTTGAGAACAATAAAGGAAACCTAAATTGAAATAAAAGACA
2036901 A
1 A
2036902 CCCACACTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (49 bp):
AGACAAAAGTTGAGAACAATAAAGGAAACCTAAATTGAAATAAAAGACA
Found at i:2038497 original size:135 final size:135
Alignment explanation
Indices: 2038316--2038561 Score: 325
Period size: 136 Copynumber: 1.8 Consensus size: 135
2038306 CTACCATGGT
* * * * * * *
2038316 AAAAAATGCAATAGAGGAATAACCAACTGAAACTTCATGCCTTCATCATAAAAGCATCAAACATG
1 AAAAAATACAAGAAAGGAATAACAAACTCAAACTTCAAGCCATCATCATAAAAGCATCAAACATG
** * *
2038381 TGCT-AACATTAGCAT-GATATGAAATGATACAAGAAAATGCATGAAATCATGGTAAATCATCTC
66 TAATGAACATTAACATAG-CATGAAATGATACAAGAAAATGCATGAAATCATGGTAAATCATCTC
2038444 TTGGCA
130 TTGGCA
* * *
2038450 AAAAAATACAAGAAAGGAATAACAAACTCAAGACTTCAAGCCATCATCATCAAATCCTCAAACAT
1 AAAAAATACAAGAAAGGAATAACAAACTCAA-ACTTCAAGCCATCATCATAAAAGCATCAAACAT
*
2038515 GTAATGAACATTAACATAGCATGAAATGATATAAGAAAATGCATGAA
65 GTAATGAACATTAACATAGCATGAAATGATACAAGAAAATGCATGAA
2038562 CAAAAAATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
134 26 0.28
135 31 0.33
136 36 0.38
137 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (135 bp):
AAAAAATACAAGAAAGGAATAACAAACTCAAACTTCAAGCCATCATCATAAAAGCATCAAACATG
TAATGAACATTAACATAGCATGAAATGATACAAGAAAATGCATGAAATCATGGTAAATCATCTCT
TGGCA
Found at i:2040151 original size:19 final size:20
Alignment explanation
Indices: 2040106--2040157 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2040096 TTACAAGCTA
*
2040106 ATGTATCGATACATTTTATG
1 ATGTATCGATACATCTTATG
2040126 ATGTATCGATACATACTT-TG
1 ATGTATCGATACAT-CTTATG
2040146 -TGTATCGATACA
1 ATGTATCGATACA
2040158 AGTTTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 16 0.53
21 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTATG
Found at i:2040237 original size:20 final size:21
Alignment explanation
Indices: 2040190--2040242 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2040180 ACCAATGACT
**
2040190 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
2040211 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
2040231 TGTATCGATACA
1 TGTATCGATACA
2040243 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:2040248 original size:13 final size:13
Alignment explanation
Indices: 2040230--2040258 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2040220 ACATTTGGTC
2040230 ATGTATCGATACA
1 ATGTATCGATACA
2040243 ATGTATCGATACA
1 ATGTATCGATACA
2040256 ATG
1 ATG
2040259 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2040287 original size:20 final size:20
Alignment explanation
Indices: 2040244--2040292 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2040234 ATCGATACAA
*
2040244 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
2040264 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
2040284 TGTATCGAT
1 TGTATCGAT
2040293 GCTTTTCAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:2040896 original size:50 final size:50
Alignment explanation
Indices: 2040827--2040941 Score: 221
Period size: 50 Copynumber: 2.3 Consensus size: 50
2040817 TAATCAAACA
2040827 TTTCTCCCCCTTAATAAAATAATTTAACACTTTCGCACATTAACCATTTC
1 TTTCTCCCCCTTAATAAAATAATTTAACACTTTCGCACATTAACCATTTC
*
2040877 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTC
1 TTTCTCCCCCTTAATAAAATAATTTAACACTTTCGCACATTAACCATTTC
2040927 TTTCTCCCCCTTAAT
1 TTTCTCCCCCTTAAT
2040942 CATAAAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.29, C:0.30, G:0.03, T:0.39
Consensus pattern (50 bp):
TTTCTCCCCCTTAATAAAATAATTTAACACTTTCGCACATTAACCATTTC
Found at i:2047356 original size:9 final size:9
Alignment explanation
Indices: 2047332--2047367 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
2047322 TCTGAGTCAC
*
2047332 CATCATCAT
1 CATCATCTT
*
2047341 CAACATCTT
1 CATCATCTT
2047350 CATCATCTT
1 CATCATCTT
2047359 CATCATCTT
1 CATCATCTT
2047368 TGATGGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:2048981 original size:13 final size:13
Alignment explanation
Indices: 2048963--2048988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2048953 ACATTTTATG
2048963 ATGTATCGATACA
1 ATGTATCGATACA
2048976 ATGTATCGATACA
1 ATGTATCGATACA
2048989 TACTTTGTGT
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:2049005 original size:32 final size:33
Alignment explanation
Indices: 2048941--2049008 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2048931 CGTTACAAGC
*
2048941 CAATGCATCGATACATTTTATGATGTATCGATA
1 CAATGCATCGATACATCTTATGATGTATCGATA
*
2048974 CAATGTATCGATACATACTT-TG-TGTATCGATA
1 CAATGCATCGATACAT-CTTATGATGTATCGATA
2049006 CAA
1 CAA
2049009 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 17 0.53
34 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (33 bp):
CAATGCATCGATACATCTTATGATGTATCGATA
Found at i:2049087 original size:20 final size:21
Alignment explanation
Indices: 2049040--2049092 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2049030 GCCAATGACT
**
2049040 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
2049061 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
2049081 TGTATCGATACA
1 TGTATCGATACA
2049093 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:2049098 original size:13 final size:13
Alignment explanation
Indices: 2049080--2049108 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2049070 ACATTTGGTC
2049080 ATGTATCGATACA
1 ATGTATCGATACA
2049093 ATGTATCGATACA
1 ATGTATCGATACA
2049106 ATG
1 ATG
2049109 CAATCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2061355 original size:51 final size:45
Alignment explanation
Indices: 2061299--2061421 Score: 160
Period size: 43 Copynumber: 2.6 Consensus size: 45
2061289 CAGTGCCTGA
2061299 TTAAGGCTCTAAGAAATATTTTGTCTTTAACAAGTGTCTCAGTGAAGGGAT
1 TTAAGGCTCTAAGAAATATTTTGTCTTTAACAAGTGTCTC-----A-GGAT
2061350 TTAAGGCTCTAAGAAATA--TTGTCTTTAACAAGTGTCTCAGGAT
1 TTAAGGCTCTAAGAAATATTTTGTCTTTAACAAGTGTCTCAGGAT
* *
2061393 TTAAGGCTCTAAGAAATTTTTTATCTTTA
1 TTAAGGCTCTAAGAAATATTTTGTCTTTA
2061422 GCATGTGTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
43 21 0.31
44 1 0.01
45 8 0.12
49 20 0.29
51 18 0.26
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (45 bp):
TTAAGGCTCTAAGAAATATTTTGTCTTTAACAAGTGTCTCAGGAT
Found at i:2065270 original size:130 final size:129
Alignment explanation
Indices: 2065060--2065295 Score: 298
Period size: 130 Copynumber: 1.8 Consensus size: 129
2065050 AGCACCAGTT
* * *
2065060 TTTCACAATCGGGGATACTCCAATCCCATTATTTTCGAGAGAATACTCTAACCCCAGTTTTATTT
1 TTTCACAATCGAGGATACTCCAACCCCATTATTTTCGAGAGAATACTCCAACCCCAGTTTTATTT
* * *
2065125 TCAAAACACTGATTTTTCA-CAATCGATGATACTCCAACCTTGATTTTATTTTCAAAATATCGAT
66 CCAAAACAC-AAATTTTCACCAATCGA-GATACTCCAACCTTGATTTTATTTTCAAAATATCGAT
2065189 C
129 C
* * * **
2065190 TTTCATAATCGAGGATACTCCGACCCCGTTATTTTCGA-AGAGATACTCCAACCTGA-TTTTATT
1 TTTCACAATCGAGGATACTCCAACCCCATTATTTTCGAGAGA-ATACTCCAACCCCAGTTTTATT
* *
2065253 TCCAAAACATCAAATTTTCACCATTGGAGATACTCCAACCTTG
65 TCCAAAACA-CAAATTTTCACCAATCGAGATACTCCAACCTTG
2065296 TTATTTCTGA
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
129 40 0.44
130 50 0.56
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (129 bp):
TTTCACAATCGAGGATACTCCAACCCCATTATTTTCGAGAGAATACTCCAACCCCAGTTTTATTT
CCAAAACACAAATTTTCACCAATCGAGATACTCCAACCTTGATTTTATTTTCAAAATATCGATC
Found at i:2065299 original size:78 final size:79
Alignment explanation
Indices: 2065152--2065301 Score: 180
Period size: 78 Copynumber: 1.9 Consensus size: 79
2065142 CACAATCGAT
* * * * *
2065152 GATACTCCAACCTTGATTTTATTTTCAAAATATCGATCTTTCATAATCGAGGATACTCCGACCCC
1 GATACTCCAACCTTGATTTTATTTCCAAAACATCAATCTTTCACAATCGAGGATACTCCAACCCC
2065217 GTTATTTTCGAAGA
66 GTTATTTTCGAAGA
* *
2065231 GATACTCCAACC-TGATTTTATTTCCAAAACATCAAAT-TTTCACCATTG-GAGATACTCCAACC
1 GATACTCCAACCTTGATTTTATTTCCAAAACATC-AATCTTTCACAATCGAG-GATACTCCAACC
**
2065293 TTGTTATTT
64 CCGTTATTT
2065302 CTGAGGGGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.02
78 45 0.75
79 14 0.23
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (79 bp):
GATACTCCAACCTTGATTTTATTTCCAAAACATCAATCTTTCACAATCGAGGATACTCCAACCCC
GTTATTTTCGAAGA
Found at i:2067065 original size:15 final size:16
Alignment explanation
Indices: 2067042--2067073 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2067032 CCTAAGTATT
2067042 AAACTTAATTAACCTA
1 AAACTTAATTAACCTA
2067058 AAAC-TAATTAACCTA
1 AAACTTAATTAACCTA
2067073 A
1 A
2067074 GTACTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
AAACTTAATTAACCTA
Found at i:2068467 original size:78 final size:77
Alignment explanation
Indices: 2068308--2068481 Score: 179
Period size: 78 Copynumber: 2.2 Consensus size: 77
2068298 ATTTCCTCAT
* * * *
2068308 AAATAACAGGGTTAGAGTATCCCCAATGGTGAAAATTAGTGTTTTAAAAATAAAATTGAGATTGA
1 AAATAACAGGGTTAGAGTACCCCCAATGGTAAAAAATAGTGTTTTAAAAATAAAATCGAGATTGA
***
2068373 AGATCCCCTCGG
66 AGATCCCCTAAA
* * * * *
2068385 AAATAACAGGTTTAGATTACCCCCGATGGTAAAAAAATGGTGTTTTAGAAATAAAATCGAG-TTG
1 AAATAACAGGGTTAGAGTACCCCCAATGGT-AAAAAATAGTGTTTTAAAAATAAAATCGAGATT-
* *
2068449 GAATATCCTCTAAA
64 GAAGATCCCCTAAA
* *
2068463 AAATAACGGGGTTGGAGTA
1 AAATAACAGGGTTAGAGTA
2068482 TCCCATCAGA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
77 28 0.36
78 49 0.64
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (77 bp):
AAATAACAGGGTTAGAGTACCCCCAATGGTAAAAAATAGTGTTTTAAAAATAAAATCGAGATTGA
AGATCCCCTAAA
Found at i:2068478 original size:28 final size:28
Alignment explanation
Indices: 2068445--2068513 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2068435 ATAAAATCGA
* *
2068445 GTTGGAATATCCTC-TAAAAAATAACGGG
1 GTTGGAGTATCC-CATAAAAAATAACGAG
* *
2068473 GTTGGAGTATCCCATCAGAAATAACGAG
1 GTTGGAGTATCCCATAAAAAATAACGAG
2068501 GTTGGAGTATCCC
1 GTTGGAGTATCCC
2068514 CGATGGTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (28 bp):
GTTGGAGTATCCCATAAAAAATAACGAG
Found at i:2068604 original size:80 final size:79
Alignment explanation
Indices: 2068470--2068662 Score: 282
Period size: 80 Copynumber: 2.4 Consensus size: 79
2068460 AAAAAATAAC
2068470 GGGGTTGGAGTATCCCATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGCT
1 GGGGTTGGAGTATCCCATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGCT
2068535 TTAGAAAATAAAACCA
66 TTA-AAAATAAAA-CA
* * * *
2068551 -GGGTTGGAGTATCCTC-TTAGAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAATGT
1 GGGGTTGGAGTATCC-CATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGC
2068614 TTTAAAAATAAAACA
65 TTTAAAAATAAAACA
* * *
2068629 GGGGTTGGAGTATCCCCTCAAAAATAACAAGGTT
1 GGGGTTGGAGTATCCCATCAGAAATAACGAGGTT
2068663 AGTGTAGACA
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 36 0.36
80 61 0.60
81 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGCT
TTAAAAATAAAACA
Found at i:2068935 original size:33 final size:33
Alignment explanation
Indices: 2068898--2068964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2068888 TTCAACGATT
2068898 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2068931 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2068964 T
1 T
2068965 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2068936 original size:13 final size:13
Alignment explanation
Indices: 2068918--2068942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2068908 CATAAAATGT
2068918 TGTATCGATACAA
1 TGTATCGATACAA
2068931 TGTATCGATACA
1 TGTATCGATACA
2068943 TATTTTTTTG
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:2069025 original size:13 final size:13
Alignment explanation
Indices: 2069007--2069031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2068997 ATTACTCACA
2069007 TGTATCGATACAT
1 TGTATCGATACAT
2069020 TGTATCGATACA
1 TGTATCGATACA
2069032 CTGATCTTTG
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:2069096 original size:52 final size:52
Alignment explanation
Indices: 2069040--2069164 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2069030 CACTGATCTT
* * *
2069040 TGTATCGATACATGCAGGCAAATTTGCCGAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
2069092 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
2069144 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2069165 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2072388 original size:78 final size:79
Alignment explanation
Indices: 2072261--2072447 Score: 220
Period size: 78 Copynumber: 2.4 Consensus size: 79
2072251 ATATCCATGT
* * * * * *
2072261 TGGTGGAAAATCAGTGTTTTAGAGATAAAACTAGGGTTGAGATATCCCCTCAGAAAT-A-ATGGG
1 TGGTGAAAAATCAGTGTTTTAGAAATAAAACCAGGATTGAGATAGCCCCTCAAAAATGACAT-GG
* *
2072324 TTGGAGTATCCCCGA
65 TTAGAGTATCCCCAA
*
2072339 TGGTGAAAAATCAGTGTTTTAAAAATAAAACCAGGATTG-GAGTAGCCCCTCAAAAATGACATGG
1 TGGTGAAAAATCAGTGTTTTAGAAATAAAACCAGGATTGAGA-TAGCCCCTCAAAAATGACATGG
2072403 TTAGAGTATCCCCAA
65 TTAGAGTATCCCCAA
* *
2072418 TGGTAGAAAATTGA-TGTTTTAGAAATAAAA
1 TGGT-GAAAAATCAGTGTTTTAGAAATAAAA
2072448 TCATCAGTGA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
77 2 0.02
78 47 0.51
79 35 0.38
80 9 0.10
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (79 bp):
TGGTGAAAAATCAGTGTTTTAGAAATAAAACCAGGATTGAGATAGCCCCTCAAAAATGACATGGT
TAGAGTATCCCCAA
Found at i:2073232 original size:19 final size:19
Alignment explanation
Indices: 2073204--2073253 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2073194 ATCGATACAA
*
2073204 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
2073223 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
2073242 TGTATCGATACA
1 TGTATCGATACA
2073254 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2073343 original size:20 final size:20
Alignment explanation
Indices: 2073318--2073383 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
2073308 TATCAATACA
2073318 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
2073338 TTGTATCGAT--AC--A---
1 TTGTATCGATACACTGATCT
*
2073351 TTGTATTGATACACTGATCT
1 TTGTATCGATACACTGATCT
2073371 TTGTATCGATACA
1 TTGTATCGATACA
2073384 TGCAGGCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.24
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 22 0.59
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:2073350 original size:33 final size:33
Alignment explanation
Indices: 2073306--2073384 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
2073296 ATTACTCAAA
*
2073306 TGTATCAATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
*
2073339 TGTATCGATACATTGTATTGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
2073372 TGTATCGATACAT
1 TGTATCGATACAT
2073385 GCAGGCAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:2073417 original size:52 final size:52
Alignment explanation
Indices: 2073372--2073487 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 52
2073362 CACTGATCTT
*
2073372 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
2073424 TGTATCGATACATACATGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
2073476 TGTTTTGATACA
1 TGTATCGATACA
2073488 CTATGAAGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2075595 original size:62 final size:59
Alignment explanation
Indices: 2075516--2075694 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 59
2075506 CTTCAAATAC
* * *
2075516 CTTCTTAAAGTCCACGACTCAGTGGCAATCCCTTCTTAAAGTCTACGACTCAGTGGTAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCCTTTCTTAAAGTCCACGACTCAGTGG-AAT-T
* * * * *
2075578 CTTCTCAAAGCCCACGACTCAGTGGCAT-TTTATCTCAAAGTCCACGACTGAGTGGCATT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCCTT-TCTTAAAGTCCACGACTCAGTGGAATT
* *
2075637 TTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTTAGTGG
1 CT-TCTCAAAGTCCACGACTCAGTGGCATCC-TTTCTT-AAAGTCCACGACTCAGTGG
2075695 CATCCTTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.02
60 28 0.28
61 25 0.25
62 44 0.44
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (59 bp):
CTTCTCAAAGTCCACGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTCAGTGGAATT
Found at i:2075683 original size:32 final size:32
Alignment explanation
Indices: 2075517--2075750 Score: 204
Period size: 30 Copynumber: 7.5 Consensus size: 32
2075507 TTCAAATACC
*
2075517 TTCTT-AAAGTCCACGACTCAGTGGCAATCC-C
1 TTCTTCAAAGTCCACGACTCAGTGGC-ATCCTT
* * *
2075548 TTCTT-AAAGTCTACGACTCAGTGGTAAT-CTC
1 TTCTTCAAAGTCCACGACTCAGTGG-CATCCTT
*
2075579 TTC-TCAAAGCCCACGACTCAGTGGCAT--TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
*
2075608 TATC-TCAAAGTCCACGACTGAGTGGCAT--TT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCCTT
2075638 TGTC-TCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCCTT
*
2075670 TTCTTCAAAGTCCACGACTTAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
* * * * *
2075702 TTCATT-TAAGCCCACAACTCCGTGGCACTCTTT
1 TTC-TTCAAAGTCCACGACTCAGTGGCA-TCCTT
*
2075735 TTCCTTCTAAGTCCAC
1 TT-CTTCAAAGTCCAC
2075751 AACTTCGTGG
Statistics
Matches: 174, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.01
30 56 0.32
31 48 0.28
32 49 0.28
33 10 0.06
34 9 0.05
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (32 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
Found at i:2075760 original size:34 final size:34
Alignment explanation
Indices: 2075645--2075932 Score: 268
Period size: 34 Copynumber: 8.6 Consensus size: 34
2075635 TTTTGTCTCA
* * * *
2075645 AAGTCCACGACTCAGTGGCA-TCCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* ** * *
2075677 AAGTCCACGACTTAGTGGCA-TCCTTTTCATT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
2075709 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * *
2075743 AAGTCCACAACTTCGTGGCACT-TTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
2075776 AAAGCCCACAACTCCGTGGCACTCCTTTTTCATT-T
1 -AAGTCCACAACTCCGTGGCACT-CTTTTTCCTTCT
* *
2075811 AAGCCCACAACTCCGCGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * *
2075845 AAGTCCACAACTACGTGGCACT-TTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTC-CTTCT
* * * *
2075879 AAGTCTACAACTCTGTGGCA-TCCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
2075912 AAGTCCACAACCCCGTGGCAC
1 AAGTCCACAACTCCGTGGCAC
2075933 CCCCTTCTAA
Statistics
Matches: 213, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
32 42 0.20
33 55 0.26
34 107 0.50
35 1 0.00
36 8 0.04
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:2075822 original size:102 final size:101
Alignment explanation
Indices: 2075673--2075932 Score: 378
Period size: 102 Copynumber: 2.6 Consensus size: 101
2075663 CATCCTTTTC
* * **
2075673 TTCAAAGTCCACGACTTAGTGGCATCC-TTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
2075737 CCTTCTAAGTCCACAACTTCGTGGCACTTTTTTCTT
66 CCTTCTAAGTCCACAACTACGTGGCACTTTTTTCTT
* *
2075773 TTTAAAGCCCACAACTCCGTGGCACTCCTTTTTCATTTAAGCCCACAACTCCGCGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCA-TCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTT
2075838 TCCTTCTAAGTCCACAACTACGTGGCACTTTTTTCTT
65 TCCTTCTAAGTCCACAACTACGTGGCACTTTTTTCTT
* * * * * * *
2075875 TTCAAAGTCTACAACTCTGTGGCATCCTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
1 TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCAC
2075933 CCCCTTCTAA
Statistics
Matches: 142, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
100 19 0.13
101 32 0.23
102 91 0.64
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (101 bp):
TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTT
CCTTCTAAGTCCACAACTACGTGGCACTTTTTTCTT
Found at i:2075975 original size:33 final size:33
Alignment explanation
Indices: 2075938--2076037 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
2075928 GGCACCCCCT
*
2075938 TCTAAAGCCCACACAAGTCGGAGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
2075971 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* *
2076004 TCTAAAGTCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
2076037 T
1 T
2076038 AAGCCCAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:2076146 original size:43 final size:45
Alignment explanation
Indices: 2076037--2076550 Score: 443
Period size: 43 Copynumber: 10.9 Consensus size: 45
2076027 GCAACCCTTC
* *
2076037 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* *
2076086 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC-C-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* *
2076129 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* * *
2076178 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA--TTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* * *
2076221 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTAATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-------TCTT
* **
2076273 TAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTT
*
2076322 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-C-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* * * *
2076365 TAAGTCCAATATCGCTAGCCGTGAATCAGTACATCGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTT
**
2076414 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGC-CTTTTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG--GCAC-----C-TCTT
*
2076466 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* * **
2076509 TATGTCCAATATCGCTGGCGTTGAATCAGCGTATTGGCACCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
2076551 TCGTCATCTT
Statistics
Matches: 386, Mismatches: 50, Indels: 62
0.78 0.10 0.12
Matches are distributed among these distances:
43 148 0.38
44 3 0.01
45 1 0.00
46 1 0.00
48 2 0.01
49 148 0.38
50 2 0.01
51 2 0.01
52 79 0.20
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (45 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
Found at i:2076203 original size:92 final size:93
Alignment explanation
Indices: 2076037--2076600 Score: 597
Period size: 92 Copynumber: 6.0 Consensus size: 93
2076027 GCAACCCTTC
*
2076037 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
*
2076101 TGGCCTTGAATCAGCACATTAGCACCCT
66 TGGCCTTGAATCAGCACATTGGCACCCT
* *
2076129 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATGTCGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
***
2076193 TGGCCTTGAATCAGCACATTGGCATTTT
66 TGGCCTTGAATCAGCACATTGGCACCCT
* * * * *
2076221 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTAATCTTTAAGCCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCCAATGTC
**
2076286 GCTGGCCTTGAATTGGCACATTGGCACCTTTATCTT
64 GCTGGCCTTGAATCAGCACATTGGCACC-----C-T
* * *
2076322 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---C--C-TTAAGTCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
* * * *
2076380 TAGCCGTGAATCAGTACATCGGCACCTTCATCTT
66 TGGCCTTGAATCAGCACATTGGCA-C--C--C-T
* * *
2076414 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TTTCATCTTTAAGTCCAATGTC
* *
2076479 GCTGGCCTTGAATCAGCACATTGGCATCTT
64 GCTGGCCTTGAATCAGCACATTGGCACCCT
* * * **
2076509 TATGTCCAATATCGCTGGCGTTGAATCAGCGTATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--TCATCTTT-AAGTCCAATGT
* *
2076574 TGTTGGCCTTGAATCAGCACATTGGCA
63 CGCTGGCCTTGAATCAGCACATTGGCA
2076601 TTCTTCTCAT
Statistics
Matches: 396, Mismatches: 52, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
92 195 0.49
93 7 0.02
94 1 0.00
95 84 0.21
96 34 0.09
98 2 0.01
100 2 0.01
101 71 0.18
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (93 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACCCT
Found at i:2076310 original size:144 final size:144
Alignment explanation
Indices: 2076128--2076654 Score: 628
Period size: 144 Copynumber: 3.6 Consensus size: 144
2076118 ATTAGCACCC
* * * *
2076128 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
* *
2076193 TGGCCTTGAATCAGCACATTGGCATTTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGG
66 TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
* *
2076258 CGCCTTTGTAATCT
131 CACCTTTGTCATCT
**
2076272 TTAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
* * * * * * *
2076337 TGGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGTACATCGG
66 TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
2076402 CACC--T-TCATCT
131 CACCTTTGTCATCT
* ** * *
2076413 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTAAGTCCAATGT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--TTT-ATCTTTAAGTCCAATGT
* * *
2076478 CGCTGGCCTTGAATCAGCACATTGGCATCTTTATGTCCAATATCGCTGGCGTTGAATCAGCGTAT
63 CGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
*
2076543 TGGCACCTTCGTCATCT
128 TGGCACCTTTGTCATCT
* * * * * * *
2076560 TTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TT-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-T-ATCTTTAAGTCCAATG
* ** * *
2076625 TTGCTAACCGTGAATCAGCACATTGACATC
62 TCGCTGGCCTTGAATCAGCACATTGGCATC
2076655 CTTTTTCTTT
Statistics
Matches: 322, Mismatches: 52, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
141 40 0.12
142 1 0.00
143 3 0.01
144 197 0.61
147 10 0.03
148 70 0.22
149 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (144 bp):
TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
CACCTTTGTCATCT
Found at i:2076510 original size:236 final size:231
Alignment explanation
Indices: 2076037--2076600 Score: 695
Period size: 236 Copynumber: 2.4 Consensus size: 231
2076027 GCAACCCTTC
2076037 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
* * * * * *
2076102 GGCCTTGAATCAGCACATTAGCACCCTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATCGGC
* * * * *
2076167 ACCTTTATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTTTTAAGTCTAATA
131 ACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATA
*
2076232 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTAATCTT
196 TCGCTGGCCTTGAATCAGCACATTGGCGCC----T-ATCTT
** *
2076273 TAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
2076338 GGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGTACATCGGC
66 GGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATCGGC
**
2076403 ACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTA
131 ACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG--G-------CATCTTTA
*
2076468 AGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-C-ATCTT
187 AGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTATCTT
* * * * **
2076509 TATGTCCAATATCGCTGGCGTTGAATCAGCGTATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGT
* *
2076574 TGTTGGCCTTGAATCAGCACATTGGCA
62 CGCTGGCCTTGAATCAGCACATTGGCA
2076601 TTCTTCTCAT
Statistics
Matches: 285, Mismatches: 30, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
236 203 0.71
238 2 0.01
239 6 0.02
240 34 0.12
242 1 0.00
243 1 0.00
244 1 0.00
245 37 0.13
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (231 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATCGGC
ACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATA
TCGCTGGCCTTGAATCAGCACATTGGCGCCTATCTT
Found at i:2076527 original size:95 final size:96
Alignment explanation
Indices: 2076408--2076601 Score: 273
Period size: 95 Copynumber: 2.0 Consensus size: 96
2076398 TCGGCACCTT
* * ** **
2076408 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTT-AAGTC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
2076472 CAATGTCGCTGGCCTTGAATCAGCACATTGG
66 CAATGTCGCTGGCCTTGAATCAGCACATTGG
* * * *
2076503 CATCTTTATGTCCAATATCGCTGGCGTTGAATCAGCGTATTGGCACCTTCGTCATCTTTAAAACC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
* *
2076568 CAATGTTGTTGGCCTTGAATCAGCACATTGG
66 CAATGTCGCTGGCCTTGAATCAGCACATTGG
2076599 CAT
1 CAT
2076602 TCTTCTCATC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 51 0.59
96 35 0.41
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (96 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
CAATGTCGCTGGCCTTGAATCAGCACATTGG
Found at i:2085099 original size:31 final size:31
Alignment explanation
Indices: 2085063--2085140 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
2085053 TCTTCAAATA
*
2085063 CCTTCTTAAAGTCTACGACTCAATGGCAATC
1 CCTTCTTAAAGTCCACGACTCAATGGCAATC
* *
2085094 CCTTCTTAAAGTCCACGACTTAGTGGCAATC
1 CCTTCTTAAAGTCCACGACTCAATGGCAATC
* * *
2085125 TCTTCTCAAAGCCCAC
1 CCTTCTTAAAGTCCAC
2085141 AACTTAGTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (31 bp):
CCTTCTTAAAGTCCACGACTCAATGGCAATC
Found at i:2085173 original size:30 final size:30
Alignment explanation
Indices: 2085096--2085252 Score: 165
Period size: 30 Copynumber: 5.1 Consensus size: 30
2085086 TGGCAATCCC
* *
2085096 TTCTTAAAGTCCACGACTTAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTTAGTGGC-ATCTT
* * *
2085127 TTCTCAAAGCCCACAACTTAGTGTCAT-TT
1 TTCTCAAAGTCCACGACTTAGTGGCATCTT
* * *
2085156 TGTCTAAAAGTCCACAACTCAGTGGCAT-TT
1 T-TCTCAAAGTCCACGACTTAGTGGCATCTT
*
2085186 TGTCTCAAAGTCCACGACTCAGTGGCATCATT
1 T-TCTCAAAGTCCACGACTTAGTGGCATC-TT
2085218 TTCTTCAAAGTCCACGACTTAGTGGCATCCTT
1 TTC-TCAAAGTCCACGACTTAGTGGCAT-CTT
2085250 TTC
1 TTC
2085253 ATTTAAGCCC
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.02
30 52 0.48
31 23 0.21
32 31 0.28
33 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTTAGTGGCATCTT
Found at i:2085231 original size:32 final size:31
Alignment explanation
Indices: 2085065--2085454 Score: 161
Period size: 34 Copynumber: 12.1 Consensus size: 31
2085055 TTCAAATACC
* * **
2085065 TTCTT-AAAGTCTACGACTCAATGGCAATCCC
1 TTCTTCAAAGTCCACGACTCAGTGGC-ATCTT
* *
2085096 TTCTT-AAAGTCCACGACTTAGTGGCAATCTC
1 TTCTTCAAAGTCCACGACTCAGTGGC-ATCTT
* * * *
2085127 TTC-TCAAAGCCCACAACTTAGTGTCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* *
2085156 TGTC-TAAAAGTCCACAACTCAGTGGCAT-TT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCTT
2085186 TGTC-TCAAAGTCCACGACTCAGTGGCATCATT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATC-TT
*
2085218 TTCTTCAAAGTCCACGACTTAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCAT-CTT
* * * *
2085250 TTCATT-TAAGCCCACAACTCCGTGGCACTCTTT
1 TTC-TTCAAAGTCCACGACTCAGTGGCA-TC-TT
* * * *
2085283 TTCTTTCTAAGTCCACAACTTC-TTGGCACTTTT
1 TTC-TTCAAAGTCCACGAC-TCAGTGGCA-TCTT
* * * *
2085316 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCCTTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCA-T-C-TT
* * * *
2085352 TTCATT-TAAGCCCACAACTCCGTGGCACTCTTT
1 TTC-TTCAAAGTCCACGACTCAGTGGCA-TC-TT
* * * *
2085385 TTCCTTCTAAGTCCACAACTCTGTGGCAACTTT
1 TT-CTTCAAAGTCCACGACTCAGTGGCATC-TT
* * *
2085418 TTCTTTTCAAAGTCAACAACTCTGTGGCATCCTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCAT-CTT
2085452 TTC
1 TTC
2085455 CTTTTAAGTC
Statistics
Matches: 302, Mismatches: 37, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.01
30 53 0.18
31 49 0.16
32 49 0.16
33 32 0.11
34 107 0.35
35 5 0.02
36 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:2085310 original size:34 final size:33
Alignment explanation
Indices: 2085163--2085479 Score: 217
Period size: 34 Copynumber: 9.6 Consensus size: 33
2085153 TTTTGTCTAA
* *
2085163 AAGTCCACAAC-TCAGTGGCAT-TTTGTC--TCA
1 AAGTCCACAACTTC-GTGGCATCTTTTTCTTTCT
* * *
2085193 AAGTCCACGAC-TCAGTGGCATCATTTTC-TTCA
1 AAGTCCACAACTTC-GTGGCATCTTTTTCTTTCT
* * * *
2085225 AAGTCCACGACTTAGTGGCATCCTTTTCATT-T
1 AAGTCCACAACTTCGTGGCATCTTTTTCTTTCT
* *
2085257 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTCT
1 AAGTCCACAACTTCGTGGCA-TCTTTTTCTTTCT
* *
2085291 AAGTCCACAACTTCTTGGCA-CTTTTTTCTTTTT
1 AAGTCCACAACTTCGTGGCATC-TTTTTCTTTCT
* * *
2085324 AAAGCCCACAACTCCGTGGCACTCCTTTTTCATT-T
1 -AAGTCCACAACTTCGTGGCA-T-CTTTTTCTTTCT
* * *
2085359 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTTCGTGGCA-TCTTTTTCTTTCT
* *
2085393 AAGTCCACAAC-TCTGTGGCAACTTTTTCTTTTCA
1 AAGTCCACAACTTC-GTGGCATCTTTTTC-TTTCT
* *
2085427 AAGTCAACAAC-TCTGTGGCATCCTTTTCCTTT-T
1 AAGTCCACAACTTC-GTGGCAT-CTTTTTCTTTCT
**
2085460 AAGTCCACAACCCCGTGGCA
1 AAGTCCACAACTTCGTGGCA
2085480 ACCCCTTCTA
Statistics
Matches: 239, Mismatches: 32, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
30 20 0.08
31 4 0.02
32 44 0.18
33 55 0.23
34 100 0.42
35 7 0.03
36 8 0.03
37 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTTCGTGGCATCTTTTTCTTTCT
Found at i:2085342 original size:68 final size:68
Alignment explanation
Indices: 2085197--2085479 Score: 260
Period size: 68 Copynumber: 4.2 Consensus size: 68
2085187 GTCTCAAAGT
* * * * * ** * *
2085197 CCACGACTCAGTGGCA-TCATTTTC-TTCAAAGTCCACGACTTAGTGGCA-TCCTTTT-CATTTA
1 CCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTTCTTGGCACTCTTTTTCCTTTTA
2085258 AGC
66 AGC
*
2085261 CCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTTCTTGGCACT-TTTTTCTTTTTA
1 CCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTTCTTGGCACTCTTTTTCCTTTT-
2085325 AAGC
65 AAGC
* * * * *
2085329 CCACAACTCCGTGGCACTCCTTTTTCATT-TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 CCACAACTCCGTGGCACT-CTTTTTCTTTCTAAGTCCACAACTTCTTGGCACTCTTTTTCCTTTT
*
2085393 AAGT
65 AAGC
* * * * *
2085397 CCACAACTCTGTGGCA-ACTTTTTCTTTTCAAAGTCAACAAC-TCTGTGGCA-TCCTTTTCCTTT
1 CCACAACTCCGTGGCACTCTTTTTC-TTTCTAAGTCCACAACTTCT-TGGCACTCTTTTTCCTTT
*
2085459 TAAGT
64 TAAGC
*
2085464 CCACAACCCCGTGGCA
1 CCACAACTCCGTGGCA
2085480 ACCCCTTCTA
Statistics
Matches: 180, Mismatches: 29, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
64 14 0.08
65 7 0.04
66 31 0.17
67 36 0.20
68 74 0.41
69 18 0.10
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (68 bp):
CCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACTTCTTGGCACTCTTTTTCCTTTTA
AGC
Found at i:2085369 original size:102 final size:101
Alignment explanation
Indices: 2085239--2085479 Score: 353
Period size: 102 Copynumber: 2.4 Consensus size: 101
2085229 CCACGACTTA
*
2085239 GTGGCATCC-TTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCTTTCTAAGTCCACAACT
1 GTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAAC-
* *
2085303 TCT-TGGC-ACTTTTTTCTTTTTAAAGCCCACAACTCC
65 TCTGTGGCAAC-TTTTTCTTTTCAAAGCCAACAACTCC
2085339 GTGGCACTCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAAC
1 GTGGCA-TCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAAC
* *
2085404 TCTGTGGCAACTTTTTCTTTTCAAAGTCAACAACTCT
65 TCTGTGGCAACTTTTTCTTTTCAAAGCCAACAACTCC
* * * *
2085441 GTGGCATCCTTTTCCTTTTAAGTCCACAACCCCGTGGCA
1 GTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCA
2085480 ACCCCTTCTA
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
100 6 0.05
101 35 0.27
102 85 0.66
103 2 0.02
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.36
Consensus pattern (101 bp):
GTGGCATCCTTTTTCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACT
CTGTGGCAACTTTTTCTTTTCAAAGCCAACAACTCC
Found at i:2085531 original size:33 final size:33
Alignment explanation
Indices: 2085486--2085552 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
2085476 GGCAACCCCT
2085486 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* *
2085519 TCTAAAGTCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
2085552 T
1 T
2085553 AAGCCCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:2085620 original size:49 final size:49
Alignment explanation
Indices: 2085552--2086597 Score: 1057
Period size: 49 Copynumber: 21.8 Consensus size: 49
2085542 GCAACCCTTC
*
2085552 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * *
2085601 TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC------CCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * *
2085644 TAAGTCCAGTATCGCTAGCCTCGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * *
2085693 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGG--C----ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * *
2085736 TAAGTCCAATATCGCTGGTCTTGAATTAGCATATTGGCGCCTTTGTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTT-T-ATCTT
* *
2085788 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * * *
2085837 TAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCAC------CCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * *
2085880 TAAGTCCAGTATCACTGGCCTTGAATCAGCATATTGGCGCCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * *
2085929 TAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* *
2085978 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG--C----ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* *
2086021 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTT-T-ATCTT
** *
2086073 TAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * * * *
2086122 TAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCAC------CCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* *
2086165 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * *
2086214 TAAGTCCTATGTCGCTGGCCTTGAATCAGCATATTGGCCCTTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* *
2086263 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG--C----ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
* * *
2086306 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTT-T-ATCTT
* * *
2086358 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
*
2086407 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTT-T-ATCTT
* * * ** * *
2086459 CAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAACACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
*
2086508 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTT--TTATCTT
** * * * *
2086560 TAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
2086598 TATTCTTCTC
Statistics
Matches: 830, Mismatches: 115, Indels: 100
0.79 0.11 0.10
Matches are distributed among these distances:
43 222 0.27
46 3 0.00
47 3 0.00
49 387 0.47
50 8 0.01
51 13 0.02
52 164 0.20
53 30 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
Found at i:2085718 original size:92 final size:94
Alignment explanation
Indices: 2085552--2086597 Score: 1108
Period size: 92 Copynumber: 10.9 Consensus size: 94
2085542 GCAACCCTTC
* * *
2085552 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTCGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
2085617 GGCCTTGAATCAGCACATTGGCACC-C-T
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* * * *
2085644 TAAGTCCAGTATCGCTAGCCTCGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
2085709 GGCCTTGAATCAGCACATTGGCA--TCTT
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* * * * * *
2085736 TAAGTCCAATATCGCTGGTCTTGAATTAGCATATTGGCGCCTTTGTCATTTTTAAGCCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
*
2085801 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* * * * * * *
2085837 TAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACC-----C-TTAAGTCCAGTATCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
* *
2085896 GGCCTTGAATCAGCATATTGGCGCCTTTATCTT
66 GGCCTTGAATCAGCACATTGGCACC----TCTT
* * *
2085929 TAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
2085994 GGCCTTGAATCAGCACATTGGCA--TCTT
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* * ** *
2086021 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAACCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
*
2086086 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* * * * * *
2086122 TAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACC-----C-TTAAGTCCAGTATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
2086181 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCACATTGGCACC----TCTT
* *
2086214 TAAGTCCTATGTCGCTGGCCTTGAATCAGCATATTGGC-CCTTTTATCTTTAAGTCCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTTATCTTTAAGTCCAATGTCGC
2086278 TGGCCTTGAATCAGCACATTGGCA--TCTT
65 TGGCCTTGAATCAGCACATTGGCACCTCTT
* * *
2086306 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
2086371 GCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCAC---C-TCTT
* *
2086407 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTTCAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
**
2086472 GCTGGCCTTGAATCAGCACATTAACACCTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTT
**
2086508 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGT
* *
2086573 TGTTGGCCTTGAATCAGCACATTGG
62 CGCTGGCCTTGAATCAGCACATTGG
2086598 TATTCTTCTC
Statistics
Matches: 827, Mismatches: 82, Indels: 80
0.84 0.08 0.08
Matches are distributed among these distances:
91 3 0.00
92 360 0.44
93 10 0.01
94 3 0.00
95 123 0.15
97 2 0.00
98 72 0.09
100 2 0.00
101 221 0.27
102 31 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (94 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTCTT
Found at i:2085829 original size:144 final size:142
Alignment explanation
Indices: 2085552--2086597 Score: 1306
Period size: 144 Copynumber: 7.3 Consensus size: 142
2085542 GCAACCCTTC
* * * * *
2085552 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTCGTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG--C----ATCTTTAAGTCCAATATCGCT
* * * * *
2085617 GGCCTTGAATCAGCACATTGGC-AC---C--C-TTAAGTCCAGTATCGCTAGCCTCGAATCAGCA
60 GGCCTTGAATCAGCATATTGGCGCCTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
2085675 TATTGGCACCTTTATCTT
125 TATTGGCACCTTTATCTT
* *
2085693 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGTCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
2085758 GAATTAGCATATTGGCGCCTTTGTCATTTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATT
66 GAATCAGCATATTGGCGCC-TT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
2085823 GGCACCTTTATCTT
129 GGCACCTTTATCTT
* * * * * *
2085837 TAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAGTATCACTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
2085902 GAATCAGCATATTGGCGCCTTT-ATCTTTAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGG
66 GAATCAGCATATTGGCGCCTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
2085966 CACCTTTATCTT
131 CACCTTTATCTT
2085978 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* **
2086043 AAATCAGCATATTGGCGCCTTTGTCATCTTTAAACCCAATATCGCTGGCCTTGAATCAGCATATT
66 GAATCAGCATATTGGCGCC-TT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
2086108 GGCACCTTTATCTT
129 GGCACCTTTATCTT
* * * * *
2086122 TAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACCCTTAAGTCCAGTATCGCTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
2086187 GAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCTATGTCGCTGGCCTTGAATCAGCATATTGG
66 GAATCAGCATATTGGCGCCTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
2086251 C-CCTTTTATCTT
131 CACC-TTTATCTT
*
2086263 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGTTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
2086328 GAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
66 GAATCAGCATATTGGCGCC-TT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
2086393 GGCA-CTTTCATCTT
129 GGCACCTTT-ATCTT
* * * *
2086407 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTTGTCATCTTCAAGTCCAATGTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------TC-T-TT-AAGTCCAATATC
* ** *
2086472 GCTGGCCTTGAATCAGCACATTAACACC-TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
57 GCTGGCCTTGAATCAGCATATTGGCGCCTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
2086536 GCATATTGGCACCTTCGTCATCTT
122 GCATATTGGCACCTT--T-ATCTT
** * *
2086560 TAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
2086598 TATTCTTCTC
Statistics
Matches: 793, Mismatches: 81, Indels: 49
0.86 0.09 0.05
Matches are distributed among these distances:
135 38 0.05
136 1 0.00
139 1 0.00
140 2 0.00
141 283 0.36
142 6 0.01
143 9 0.01
144 330 0.42
150 46 0.06
151 5 0.01
152 2 0.00
153 41 0.05
154 29 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (142 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCGCCTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
CACCTTTATCTT
Found at i:2085969 original size:285 final size:285
Alignment explanation
Indices: 2085600--2086597 Score: 1420
Period size: 285 Copynumber: 3.5 Consensus size: 285
2085590 ACTTTTATCT
* * * * * * *
2085600 TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC-----C-TTAAGTCCAGTATCGC
1 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTCGC
* * *
2085659 TAGCCTCGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCA
66 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
* * *
2085724 CATTGGCATCTTTAAGTCCAATATCGCTGGTCTTGAATTAGCATATTGGCGCCTTTGTCATTTTT
131 CATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
*
2085789 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGCTA
196 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGCTG
2085854 GCCTTGAATCAGCACATTGGCACCC
261 GCCTTGAATCAGCACATTGGCACCC
* * *
2085879 TTAAGTCCAGTATCACTGGCCTTGAATCAGCATATTGGCGCCTTTATCTTTAAGTCTAATGTTGC
1 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTCGC
2085944 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
66 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
*
2086009 CATTGGCATCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTT
131 CATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
*
2086074 AAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGCTG
196 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGCTG
*
2086139 GCCTTGAATCAACACATTGGCACCC
261 GCCTTGAATCAGCACATTGGCACCC
2086164 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCT-ATGTCG
1 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT-CTAATGTCG
2086228 CTGGCCTTGAATCAGCATATTGGC-CCTTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
65 CTGGCCTTGAATCAGCATATTGGCACC-TTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
* *
2086292 CACATTGGCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCT
129 CACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* * * * *
2086357 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCATCTTTAAGTCCAATATCG
194 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATGTTG
* *
2086421 CTGGCCTTGAATCGGCATATTGGCACCTTTGTCATC
258 CTGGCCTTGAATCAGCACATTGGCA-C-----C--C
* * * ** * * *
2086457 TTCAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAACACCTTCATCTTTAAGTCCAATATCG
1 TT-AAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTCG
** * *
2086522 CTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATGTTGTTGGCCTTGAAT
65 CTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGTCGCTGGCCTTGAAT
2086587 CAGCACATTGG
126 CAGCACATTGG
2086598 TATTCTTCTC
Statistics
Matches: 648, Mismatches: 47, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
279 36 0.06
284 7 0.01
285 478 0.74
286 3 0.00
291 1 0.00
293 4 0.01
294 78 0.12
295 2 0.00
296 1 0.00
297 6 0.01
298 32 0.05
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (285 bp):
TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTCGC
TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
CATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGCTG
GCCTTGAATCAGCACATTGGCACCC
Found at i:2090159 original size:19 final size:19
Alignment explanation
Indices: 2090135--2090231 Score: 92
Period size: 13 Copynumber: 5.6 Consensus size: 19
2090125 TAGCCAAACT
2090135 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
2090154 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
2090167 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
2090186 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
2090199 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
2090220 TGTATCGATACA
1 TGTATCGATACA
2090232 TTGGCTTGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 20 0.31
14 2 0.03
15 4 0.06
17 4 0.06
18 1 0.02
19 19 0.30
20 1 0.02
21 13 0.20
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:2090176 original size:32 final size:32
Alignment explanation
Indices: 2090135--2090231 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
2090125 TAGCCAAACT
2090135 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAATATGTATCGATACAA
2090167 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAATATGTATCGATACAA
2090199 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC--AAAATATGTATCGATACA
2090232 TTGGCTTGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 45 0.71
34 18 0.29
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAATATGTATCGATACAA
Found at i:2092474 original size:21 final size:21
Alignment explanation
Indices: 2092441--2092490 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2092431 TTGCAAGTTG
*
2092441 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2092463 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2092484 AAATAAA
1 AAATAAA
2092491 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2096593 original size:20 final size:20
Alignment explanation
Indices: 2096550--2096595 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2096540 AAATCTTTTG
2096550 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2096571 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2096591 CAAAA
1 CAAAA
2096596 CCAGCATCAA
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:2098913 original size:20 final size:19
Alignment explanation
Indices: 2098859--2098914 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2098849 AAAACCCTTA
*
2098859 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
2098879 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2098899 AATGTATCGATACATG
1 AAAGTATCGATACATG
2098915 AAAAAGATGT
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:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2102117 original size:13 final size:13
Alignment explanation
Indices: 2102099--2102125 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2102089 ATTTTAGACA
2102099 TGTATCGATACAT
1 TGTATCGATACAT
2102112 TGTATCGATACAT
1 TGTATCGATACAT
2102125 T
1 T
2102126 TATGGTTTAT
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2102640 original size:22 final size:21
Alignment explanation
Indices: 2102595--2102633 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2102585 TTAAAATATT
2102595 TTTATTAAATAAATAAATAAA
1 TTTATTAAATAAATAAATAAA
*
2102616 TTTATTTAAT-AATAAATA
1 TTTATTAAATAAATAAATA
2102634 GAAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTATTAAATAAATAAATAAA
Found at i:2109622 original size:42 final size:42
Alignment explanation
Indices: 2109563--2109646 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2109553 GATGGGAACC
2109563 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAGGGT
1 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAGGGT
2109605 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAGGGT
1 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAGGGT
2109647 AATAACAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (42 bp):
TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAGGGT
Found at i:2110532 original size:2 final size:2
Alignment explanation
Indices: 2110525--2110561 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2110515 ATTTACTTAC
2110525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2110562 CACAATAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2111606 original size:49 final size:49
Alignment explanation
Indices: 2111531--2111630 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
2111521 TGGTCCAATC
* *
2111531 CCAACCCAATTCCCATCGAGTAAAAGTACTGAAATCCATTGAAATTGAT
1 CCAACCCAATCCCCATCGAGTAAAAGTACTGAAATCCATTAAAATTGAT
* * * * *
2111580 CCAACCCAATCCCCATTGATTGAAAGTACTGATATTCATTAAAATTGAT
1 CCAACCCAATCCCCATCGAGTAAAAGTACTGAAATCCATTAAAATTGAT
2111629 CC
1 CC
2111631 GTCCCTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (49 bp):
CCAACCCAATCCCCATCGAGTAAAAGTACTGAAATCCATTAAAATTGAT
Found at i:2113461 original size:24 final size:25
Alignment explanation
Indices: 2113429--2113475 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2113419 AAAAATATTA
*
2113429 TTTTTTATTTA-AGAGAAATTATCT
1 TTTTTTATTGACAGAGAAATTATCT
*
2113453 TTTTTTATTGACAGTGAAATTAT
1 TTTTTTATTGACAGAGAAATTAT
2113476 TAAATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (25 bp):
TTTTTTATTGACAGAGAAATTATCT
Found at i:2113876 original size:2 final size:2
Alignment explanation
Indices: 2113861--2113969 Score: 74
Period size: 2 Copynumber: 58.0 Consensus size: 2
2113851 GTAAATTTTT
*
2113861 TA TA T- TA TA T- TA TA TA TA TA T- TA TG T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
2113898 TA TA TA AA TA TA TA TA AA CA TC TA TA TA TA TA TA TA GTC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
2113941 TA TA -A TA TA -A TA CA TGA -A TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
2113970 ACATATAATA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
1 9 0.11
2 73 0.87
3 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2113889 original size:21 final size:23
Alignment explanation
Indices: 2113866--2113949 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
2113856 TTTTTTATAT
*
2113866 TATATTATATATATATTATGTTA
1 TATATTATATATATATTATATTA
*
2113889 TATATTATATATATAAATATATATA
1 TATATTATATATAT-ATTATAT-TA
* *
2113914 AACATCTATATATATA-TATAGTCTA
1 TATAT-TATATATATATTATA-T-TA
*
2113939 TATATAATATA
1 TATATTATATA
2113950 ATACATGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
23 14 0.29
24 14 0.29
25 12 0.24
26 9 0.18
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TATATTATATATATATTATATTA
Found at i:2117608 original size:89 final size:89
Alignment explanation
Indices: 2117454--2118491 Score: 1200
Period size: 89 Copynumber: 11.6 Consensus size: 89
2117444 TGTTGTATTG
* * * * *
2117454 TTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATTTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
*
2117519 GGGTTTCAAGAAATTTATTGGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* * * *
2117543 TTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCGTATGCATCTGTCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* *
2117608 GGATTTCAAGAAATTTATTAGGTA
66 GGGTTTCAAGAAATTTATTAGGCA
* * * * * * *
2117632 TTAGTCAAATATTTTTTGCCGTGTCAAAAGGAATTTGATACCTGCATACATCTATTACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
*
2117697 GGGTTTCAAGAAATTTATTCGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* * * * *
2117721 TTAGTAAAATATTTTCTGTCGTGTCAAAAAGAATCTGATGCCCGCATGTATCTGCCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
*
2117786 GGGTTTTAAGAAATTTATTAGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* * * * ** * *
2117810 TTAGTGAAATATTTTCTTTTGTGTTAGGAGGAATCTGATACCTGCATGCATTTGTCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* *
2117875 AGGTTTTAAGAAATTTATTAGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* * * * * *
2117899 TTAGTTAAATATTTTTTGTCGTGTCAAAAGGAATCTGATATCAGCATGCATCTATCACATATTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* * *
2117964 AGGTTCCAAAAAATTTATTAGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* ** * * *
2117988 TTAGTCAAATATTTTCTATCGTGTCAAAAGGAATCTGATACCCATATGCATCTATCAATATTTTT
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTC-ACA-TCTT
*
2118053 TC-GGTTTCAAGAAATTTATTAGGTA
64 TCGGGTTTCAAGAAATTTATTAGGCA
* * * * *
2118078 TTAGTCAAATATTTTCTGTTGTGTCAGAAGGAATCTGATACCTGCATGCATCTGTCACGTATTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* *
2118143 GGGTTCCAAAAAATTTATTAGGCA
66 GGGTTTCAAGAAATTTATTAGGCA
* * ** * *
2118167 TTAATCAAATATTTTCTATCGTGTCAAAAGGAATCTGATACCCATATGCATCTATCAATATCTTT
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTC-ACATCTTT
** * *
2118232 CCAGTTCCAAGAAATTTATTAGGTA
65 CGGGTTTCAAGAAATTTATTAGGCA
* * * ** * *
2118257 TTAGTCAAATATTTTCTGTTGTGTCAGAAGGAATCTGACACTTGCATGCATCTGTCACGTATTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* * *
2118322 GGGTTCCAAAAAATTTATTAGACA
66 GGGTTTCAAGAAATTTATTAGGCA
* ** * *
2118346 TTAATCAAATATTTTCTGTTATGTCAGAAA-GAATCTGATACCCGTATGCATCTATCACATCTTT
1 TTAGTCAAATATTTTCTGTCGTGTCA-AAAGGAATCTGATACCCGCATGCATCTGTCACATCTTT
*
2118410 CGAG-TTCTAAGAAATTTATTAGGCA
65 CGGGTTTC-AAGAAATTTATTAGGCA
* * * * *
2118435 TTAGTTAAATATTTTCTGTCGTGTCAAAAAGAATCTGATACTCGCATGAATTTGTCA
1 TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCA
2118492 GCCTAATATT
Statistics
Matches: 801, Mismatches: 141, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
88 10 0.01
89 641 0.80
90 145 0.18
91 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (89 bp):
TTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATACCCGCATGCATCTGTCACATCTTTC
GGGTTTCAAGAAATTTATTAGGCA
Found at i:2118605 original size:2 final size:2
Alignment explanation
Indices: 2118596--2118681 Score: 75
Period size: 2 Copynumber: 47.5 Consensus size: 2
2118586 AATAATTAAA
2118596 AT AT -T AT AT AT -T AT AT AT -T AT -T AT AT -T AT AT -T AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* *
2118633 AT AT -T AT AT AT AT AT AT AT AT TT AT GT -T A- AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2118671 AT AT AT AT AT A
1 AT AT AT AT AT A
2118682 GCATACAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
1 10 0.14
2 58 0.83
3 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
AT
Found at i:2118638 original size:23 final size:25
Alignment explanation
Indices: 2118600--2118681 Score: 104
Period size: 23 Copynumber: 3.5 Consensus size: 25
2118590 ATTAAAATAT
2118600 TATATATTATATATTAT-TATATTA
1 TATATATTATATATTATATATATTA
*
2118624 TAT-TATGATATATTATATATA-TA
1 TATATATTATATATTATATATATTA
*
2118647 TATATATT-TATGTTA-ATATATTA
1 TATATATTATATATTATATATATTA
2118670 TATATA-TATATA
1 TATATATTATATA
2118682 GCATACAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
22 6 0.12
23 34 0.68
24 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TATATATTATATATTATATATATTA
Found at i:2118763 original size:8 final size:9
Alignment explanation
Indices: 2118750--2118810 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 9
2118740 GCGAGTTTTC
2118750 TTTTTT-AT
1 TTTTTTAAT
2118758 TTTTTTAATT
1 TTTTTTAA-T
2118768 TTTTTTAAT
1 TTTTTTAAT
* *
2118777 TTATATAAAT
1 TT-TTTTAAT
2118787 TTTTTTAAT
1 TTTTTTAAT
2118796 TTTGTTTAAAT
1 TTT-TTT-AAT
2118807 TTTT
1 TTTT
2118811 AACGTATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.14
9 12 0.27
10 20 0.45
11 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:2118778 original size:19 final size:19
Alignment explanation
Indices: 2118750--2118810 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2118740 GCGAGTTTTC
2118750 TTTTTT-ATTTTTTTAATT
1 TTTTTTAATTTTTTTAATT
* * *
2118768 TTTTTTAATTTATATAAAT
1 TTTTTTAATTTTTTTAATT
2118787 TTTTTTAATTTTGTTTAAATT
1 TTTTTTAATTTT-TTT-AATT
2118808 TTT
1 TTT
2118811 AACGTATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 6 0.18
19 20 0.59
20 2 0.06
21 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTAATTTTTTTAATT
Found at i:2126494 original size:22 final size:22
Alignment explanation
Indices: 2126460--2126504 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2126450 AGTTAAGTTC
2126460 AAATGTTTTTCAAGCAATAAATA
1 AAATGTTTTTCAAGCAA-AAATA
*
2126483 AAATG-TTTTCAAGTAAAAATA
1 AAATGTTTTTCAAGCAAAAATA
2126504 A
1 A
2126505 TTCAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (22 bp):
AAATGTTTTTCAAGCAAAAATA
Found at i:2126786 original size:20 final size:20
Alignment explanation
Indices: 2126757--2126806 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
2126747 ATTAAGCCCA
*
2126757 TGTATTGATACATTATGAAT
1 TGTATCGATACATTATGAAT
2126777 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
2126797 TGTATCGATA
1 TGTATCGATA
2126807 TATAGGAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:2126950 original size:10 final size:10
Alignment explanation
Indices: 2126932--2126973 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
2126922 ACAGTTGAAG
2126932 AACAACAAGA
1 AACAACAAGA
*
2126942 AAGAACAAGA
1 AACAACAAGA
*
2126952 ACCAACAAGA
1 AACAACAAGA
*
2126962 AACATCAAGA
1 AACAACAAGA
2126972 AA
1 AA
2126974 TCCAAGCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.67, C:0.19, G:0.12, T:0.02
Consensus pattern (10 bp):
AACAACAAGA
Found at i:2128354 original size:3 final size:3
Alignment explanation
Indices: 2128335--2128371 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2128325 TCAACAATCA
* *
2128335 ATG ATG GTG AAG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2128372 AGTTGATTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:2134651 original size:62 final size:62
Alignment explanation
Indices: 2134551--2134676 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
2134541 CTTGTACTGT
2134551 TTATGCTTGTACTTGAACTTCTTTGATGAATGAAGTTATGTTTGCTTTCATGAATGTTTGCC
1 TTATGCTTGTACTTGAACTTCTTTGATGAATGAAGTTATGTTTGCTTTCATGAATGTTTGCC
*
2134613 TTATGCTTGTACTTGAACTTCTTTGATGAATGAGGTTATGTTTGCTTTCATGAATGTTTGCC
1 TTATGCTTGTACTTGAACTTCTTTGATGAATGAAGTTATGTTTGCTTTCATGAATGTTTGCC
2134675 TT
1 TT
2134677 CTTATTTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (62 bp):
TTATGCTTGTACTTGAACTTCTTTGATGAATGAAGTTATGTTTGCTTTCATGAATGTTTGCC
Found at i:2134844 original size:42 final size:43
Alignment explanation
Indices: 2134768--2134848 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
2134758 CAGTTTTGCT
* * *
2134768 ATAACAAAAAGAGGGAGAAGTATTTTGCAAATAAATTTGGGGG
1 ATAACAAAAAAAGGGAAAAGTAATTTGCAAATAAATTTGGGGG
2134811 ATAA-AAAAAAAGGAGAAAAGTAATTTGC-AATAAATTTG
1 ATAACAAAAAAAGG-GAAAAGTAATTTGCAAATAAATTTG
2134849 TTTTAGAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 18 0.53
43 16 0.47
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.23
Consensus pattern (43 bp):
ATAACAAAAAAAGGGAAAAGTAATTTGCAAATAAATTTGGGGG
Found at i:2135012 original size:80 final size:80
Alignment explanation
Indices: 2134908--2135058 Score: 257
Period size: 80 Copynumber: 1.9 Consensus size: 80
2134898 GTGTTATAAA
* * *
2134908 GAGTGTTATGAAAAGGGGGATAATTTGTTAAGGAAGAGTATTAAATATTTTGTTACGAGGGAGAA
1 GAGTGTTATAAAAAGGGAGATAATTTGTTAAGGAAGAGTATTAAATATTTTGTTAAGAGGGAGAA
2134973 AATTTTGGTAAGTAT
66 AATTTTGGTAAGTAT
* *
2134988 GAGTTTTATAAAAAGGGAGATAATTTGTTAAGGAAGAGTATTAAATATTTTGTTAAGGGGGAGAA
1 GAGTGTTATAAAAAGGGAGATAATTTGTTAAGGAAGAGTATTAAATATTTTGTTAAGAGGGAGAA
2135053 AATTTT
66 AATTTT
2135059 TTAAGGGGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.38, C:0.01, G:0.27, T:0.34
Consensus pattern (80 bp):
GAGTGTTATAAAAAGGGAGATAATTTGTTAAGGAAGAGTATTAAATATTTTGTTAAGAGGGAGAA
AATTTTGGTAAGTAT
Found at i:2135765 original size:19 final size:20
Alignment explanation
Indices: 2135721--2135774 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
2135711 ATACCCAGAT
2135721 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
2135741 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
2135760 GTATCGATACATATT
1 GTATCGATACATATT
2135775 AAATTGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:2138807 original size:2 final size:2
Alignment explanation
Indices: 2138800--2138824 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2138790 GAGTTTTCTG
2138800 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 T
2138825 CTATTTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2138944 original size:29 final size:28
Alignment explanation
Indices: 2138912--2138969 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2138902 ATCTCCAAAA
* *
2138912 TTTTGTTTATGATTATTAATTTTAATTTT
1 TTTTATTTATAATTATTAATTTT-ATTTT
* *
2138941 TTTTATTTTTAATTTTTAATTTTATTTT
1 TTTTATTTATAATTATTAATTTTATTTT
2138969 T
1 T
2138970 ATTAGTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTTATTTATAATTATTAATTTTATTTT
Found at i:2140494 original size:13 final size:13
Alignment explanation
Indices: 2140476--2140530 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
2140466 ACAAAAATAT
2140476 TGTATCGATATAA
1 TGTATCGATATAA
2140489 TGTATCGATACATAA
1 TGTATCGAT--ATAA
2140504 GTGTTGTATCGATATAA
1 ----TGTATCGATATAA
2140521 TGTATCGATA
1 TGTATCGATA
2140531 CATAAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
15 4 0.11
17 4 0.11
19 9 0.25
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:2140499 original size:32 final size:32
Alignment explanation
Indices: 2140461--2140541 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
2140451 ACGATTTGTG
*
2140461 TCGATACAAAAATATTGTATCGATATAATGTA
1 TCGATACATAAATATTGTATCGATATAATGTA
* *
2140493 TCGATACATAAGTGTTGTATCGATATAATGTA
1 TCGATACATAAATATTGTATCGATATAATGTA
2140525 TCGATACATAAATATTG
1 TCGATACATAAATATTG
2140542 GATAATGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (32 bp):
TCGATACATAAATATTGTATCGATATAATGTA
Found at i:2143919 original size:52 final size:51
Alignment explanation
Indices: 2143838--2143957 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 51
2143828 TGAAGAGTTA
*
2143838 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGC
2143890 CTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGC
1 CTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTGC
2143941 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2143958 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 21 0.32
52 40 0.61
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGC
Found at i:2143970 original size:51 final size:50
Alignment explanation
Indices: 2143838--2143977 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 50
2143828 TGAAGAGTTA
*
2143838 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGC
2143890 CTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-TTGC
1 CTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAATTTGC
2143941 CTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
2143978 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.41
52 39 0.48
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (50 bp):
CTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2143984 original size:13 final size:13
Alignment explanation
Indices: 2143966--2143990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2143956 CAAAGATCAG
2143966 TGTATCGATACAA
1 TGTATCGATACAA
2143979 TGTATCGATACA
1 TGTATCGATACA
2143991 TTTGAGTAAT
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:2144071 original size:13 final size:13
Alignment explanation
Indices: 2144053--2144077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2144043 CAAAAAAATA
2144053 TGTATCGATACAT
1 TGTATCGATACAT
2144066 TGTATCGATACA
1 TGTATCGATACA
2144078 GCATTTTATG
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:2154024 original size:3 final size:3
Alignment explanation
Indices: 2154016--2154056 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2154006 AACATCAATA
2154016 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2154057 AAACTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2154030 original size:146 final size:141
Alignment explanation
Indices: 2153725--2154032 Score: 526
Period size: 146 Copynumber: 2.1 Consensus size: 141
2153715 TAATAATAAT
2153725 AATAATTATTATTATTATTATAAACTAAAAACCTACAACAGCAAACAAATCACATGTCAACAGCA
1 AATAATTATTATTATTATTATAAACTAAAAACCTACAACAGCAAACAAATCACATGTCAACAGCA
2153790 AACATTAATAATAATTTACAATATATATACACCAATAGAAAATAACTTTAACAATCTTATTACAA
66 AACATTAATAATAATTTACAATATATATACACCAATAGAAAATAACTTTAACAATCTTATTACAA
*
2153855 TTTTGAACATT
131 TTTTGAACATC
* *
2153866 AATAATAATTATTCTTATTATAAACTAAAAAACCTACAACAGCAAACAAATCACATGTCAACAGC
1 AATAATTATTATTATTATTATAAACT-AAAAACCTACAACAGCAAACAAATCACATGTCAACAGC
*
2153931 AAACATTAATAATAATTTACAATATATATATATACACCAATAGAAAATAACTTTAATAATCTTAT
65 AAACATTAATAATAATTTAC---A-ATATATATACACCAATAGAAAATAACTTTAACAATCTTAT
*
2153996 TATAATTTTGAACATC
126 TACAATTTTGAACATC
2154012 AATAATTATTATTATTATTAT
1 AATAATTATTATTATTATTAT
2154033 TATTATTATT
Statistics
Matches: 155, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
141 24 0.15
142 58 0.37
145 1 0.01
146 72 0.46
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (141 bp):
AATAATTATTATTATTATTATAAACTAAAAACCTACAACAGCAAACAAATCACATGTCAACAGCA
AACATTAATAATAATTTACAATATATATACACCAATAGAAAATAACTTTAACAATCTTATTACAA
TTTTGAACATC
Found at i:2154431 original size:7 final size:7
Alignment explanation
Indices: 2154415--2154445 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2154405 TTTTCTCTTG
2154415 AAAA-AA
1 AAAAGAA
2154421 AAAAGAA
1 AAAAGAA
2154428 AAAAGAA
1 AAAAGAA
2154435 AAAAGAA
1 AAAAGAA
2154442 AAAA
1 AAAA
2154446 AAGGGACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:2161057 original size:40 final size:40
Alignment explanation
Indices: 2161012--2161136 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
2161002 AAAATTGCCA
*
2161012 CTAAATTTAAGTAATTAGCAGCGTTTACAGAAAAATGTCG
1 CTAAATTTAAGTAATTAGCAGCGTTTACAGAAAAACGTCG
* *
2161052 CTAAATTTAAGTAATTAACAGCGTTTATAGAAAAACGTC-
1 CTAAATTTAAGTAATTAGCAGCGTTTACAGAAAAACGTCG
* * * * * *
2161091 ATTATTTTAAGTAATTAGCGGCGCTTTCCCTGAAAAACGTCG
1 CTAAATTTAAGTAATTAGCAGCG-TTT-ACAGAAAAACGTCG
2161133 CTAA
1 CTAA
2161137 TTATTTTTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 18 0.26
40 39 0.57
41 10 0.14
42 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (40 bp):
CTAAATTTAAGTAATTAGCAGCGTTTACAGAAAAACGTCG
Found at i:2162660 original size:20 final size:20
Alignment explanation
Indices: 2162617--2162667 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2162607 CAATTCAGTG
* *
2162617 TGTATCAATACTAAG-AACA
1 TGTATCAATACAAAGCAATA
*
2162636 TGTATCGATACAAAGCAATA
1 TGTATCAATACAAAGCAATA
2162656 TGTATCAATACA
1 TGTATCAATACA
2162668 TCTAGGTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCAATACAAAGCAATA
Found at i:2171041 original size:20 final size:20
Alignment explanation
Indices: 2171016--2171071 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2171006 ACTGCCAAGG
2171016 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
* * *
2171036 AAATGTATCTATGCATTTAT
1 AAATGTATCGATACATTAAT
* *
2171056 CACTGTATCGATACAT
1 AAATGTATCGATACAT
2171072 GCAGGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:2186776 original size:8 final size:8
Alignment explanation
Indices: 2186763--2186805 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
2186753 TCATCTACAA
2186763 AAAAAAAT
1 AAAAAAAT
2186771 AAAAAAAAAT
1 --AAAAAAAT
*
2186781 GAAAAAAT
1 AAAAAAAT
*
2186789 AAAAAAAC
1 AAAAAAAT
2186797 AAAAAAAT
1 AAAAAAAT
2186805 A
1 A
2186806 GGGAAGAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 21 0.72
10 8 0.28
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:2186792 original size:16 final size:16
Alignment explanation
Indices: 2186763--2186805 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
2186753 TCATCTACAA
*
2186763 AAAAAAATAAAAAAAA
1 AAAAAAATAAAAAAAC
2186779 ATGAAAAAATAAAAAAAC
1 A--AAAAAATAAAAAAAC
2186797 AAAAAAATA
1 AAAAAAATA
2186806 GGGAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAAAAAC
Found at i:2187503 original size:14 final size:14
Alignment explanation
Indices: 2187484--2187513 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2187474 AGTCTCCAGA
2187484 TTGTTGATAATGCC
1 TTGTTGATAATGCC
2187498 TTGTTGATAATGCC
1 TTGTTGATAATGCC
2187512 TT
1 TT
2187514 TCAGTATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (14 bp):
TTGTTGATAATGCC
Found at i:2188190 original size:32 final size:32
Alignment explanation
Indices: 2188149--2188435 Score: 411
Period size: 32 Copynumber: 9.0 Consensus size: 32
2188139 AACACGAATC
2188149 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
2188181 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
2188213 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
*
2188245 CCTTCTTTAAAGCCCATACAAGTTGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
* **
2188277 CCATT-TCTAAAGCCCACACAAGTTAATGGCAA
1 CC-TTCTTTAAAGCCCACACAAGTTGGTGGCAA
* * *
2188309 CCCTT-TCTAAAGCCCATAGAAGTTGGTGGCAA
1 -CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
2188341 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
** * *
2188373 TTTTCTTTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
2188405 CC--CTTTCAAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTTT--AAAGCCCACACAAGTTGGTGGCA
2188436 TTTCCTTCTA
Statistics
Matches: 230, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
30 4 0.02
31 4 0.02
32 218 0.95
33 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
CCTTCTTTAAAGCCCACACAAGTTGGTGGCAA
Found at i:2188511 original size:49 final size:49
Alignment explanation
Indices: 2188444--2188778 Score: 271
Period size: 49 Copynumber: 6.7 Consensus size: 49
2188434 CATTTCCTTC
* * * *
2188444 TAAGCCCAATGTCACTGGCCTTGAATCGGCACATTGGCA-CTTCCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTT-CATCTT
* * * *
2188493 TAAGTCCAATGTCGCTGGCCTTGAATTAGTACATTGGCACCATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
** * ** * *
2188542 TAAGTCCAATGTCATTGGCCTTAAATTGGTACATTGGCA-CTTTCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTT
* * *
2188591 TAAGTCCAATGTTGCTGGCCTTG-ATCAGCACATTGGCACCATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * ** * * * * *
2188639 TAAGTCCGATATTACTGGCCTTGAATTAACATATTGGCATCTTTAACATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT
* *
2188689 CCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATCGGCATTCTTCTCATCTT
1 --TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TC-T-TCATCTT
* * * * *
2188743 CAAGTCTAATGTTGCTAGCCGTGAATCAGCACATTG
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
2188779 ACATTTTTTG
Statistics
Matches: 226, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
48 39 0.17
49 116 0.51
50 4 0.02
52 59 0.26
53 2 0.01
54 3 0.01
55 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:2188911 original size:61 final size:61
Alignment explanation
Indices: 2188800--2188919 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
2188790 ATCTTTAACC
* *
2188800 CCAATATCGTCGACCTTGAATCAGCATATTGGCACCTTTTTCATCCTTATCATCTTCAAAT
1 CCAACATCGTCGACCTTGAATCAGCATATTGGCACCTTCTTCATCCTTATCATCTTCAAAT
* * * * * *
2188861 CCAACATCGTTGACCTTGAATCAGCATTTTGGTATTCTTCTT-ATCTTTATCGTCTTCAA
1 CCAACATCGTCGACCTTGAATCAGCATATTGGCA-CCTTCTTCATCCTTATCATCTTCAA
2188920 GTCTAGTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 45 0.90
62 5 0.10
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (61 bp):
CCAACATCGTCGACCTTGAATCAGCATATTGGCACCTTCTTCATCCTTATCATCTTCAAAT
Found at i:2189636 original size:21 final size:20
Alignment explanation
Indices: 2189591--2189664 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
2189581 ACATAAGTTT
*
2189591 TGTATCGATACATGATTCAA
1 TGTATCGATACATTATTCAA
**
2189611 TGTATCGATACATTACCCAGA
1 TGTATCGATACATTATTCA-A
2189632 TGTATCGATACATTATTCAA
1 TGTATCGATACATTATTCAA
2189652 TGTATCGATACAT
1 TGTATCGATACAT
2189665 GTAGGAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 30 0.62
21 18 0.38
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTATTCAA
Found at i:2191302 original size:60 final size:60
Alignment explanation
Indices: 2191209--2191330 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
2191199 TATTTTGTTT
* * * *
2191209 ACCCCAGGACCAGTCCGAACGAGGGAGTTACAAGTTTTTGAACCCAAGTTGCCTAGAACC
1 ACCCCAGGACCAGTCCGAACAAGGGAGTTACAAGTTTTTGAACCCAAGCTACCCAGAACC
*
2191269 ACCCCAGGACCAGTCCGAATAAGGGAGTTACAAGTTTTTGAACCCAAGCTACCCAGAACC
1 ACCCCAGGACCAGTCCGAACAAGGGAGTTACAAGTTTTTGAACCCAAGCTACCCAGAACC
2191329 AC
1 AC
2191331 TAAAATCAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (60 bp):
ACCCCAGGACCAGTCCGAACAAGGGAGTTACAAGTTTTTGAACCCAAGCTACCCAGAACC
Found at i:2193643 original size:27 final size:27
Alignment explanation
Indices: 2193613--2193675 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
2193603 TATTGAGAAC
* *
2193613 ACTCTAACCACATT-TCTCTAAGAGGAT
1 ACTCCAACCACATTCT-TCCAAGAGGAT
* *
2193640 ACTCCAACCGCATTCTTCCAAGGGGAT
1 ACTCCAACCACATTCTTCCAAGAGGAT
2193667 ACTCCAACC
1 ACTCCAACC
2193676 CCGTTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (27 bp):
ACTCCAACCACATTCTTCCAAGAGGAT
Done.