Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 153 of 344
Found at i:51047898 original size:31 final size:31
Alignment explanation
Indices: 51047852--51047915 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
51047842 CATTTACAGT
*
51047852 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCATCGACCCAGTAATATGAAATATGA
* **
51047883 AAAGGCATCGGCCCAGTGTTATGAAATATGA
1 AAAGGCATCGACCCAGTAATATGAAATATGA
51047914 AA
1 AA
51047916 TGTGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCATCGACCCAGTAATATGAAATATGA
Found at i:51053026 original size:40 final size:40
Alignment explanation
Indices: 51052925--51053121 Score: 227
Period size: 40 Copynumber: 4.9 Consensus size: 40
51052915 TATTCGAATG
* * *
51052925 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* *
51052966 ATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCAGG-CTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
51053006 ATATCCAGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
51053046 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
*
51053086 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTG
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTG
51053122 GTTAAATCCG
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 9 0.07
40 96 0.72
41 28 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:51053072 original size:80 final size:81
Alignment explanation
Indices: 51052925--51053116 Score: 255
Period size: 80 Copynumber: 2.4 Consensus size: 81
51052915 TATTCGAATG
* * *
51052925 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
* * *
51052990 ATTTGTGCGAGTTACT
66 ATTTATGCGAGTGACC
* * *
51053006 ATATCCAGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAGG
*
51053069 CATTTATGCTAGTGACC
65 CATTTATGCGAGTGACC
*
51053086 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
1 ATATCCAGGCTAAGACCCGAAGGCATTTGTGC
51053117 GAGTGGTTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 7 0.07
80 61 0.63
81 29 0.30
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (81 bp):
ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGACC
Found at i:51060615 original size:53 final size:53
Alignment explanation
Indices: 51060416--51060638 Score: 162
Period size: 53 Copynumber: 4.2 Consensus size: 53
51060406 ATTAAGGTTT
* * * * * * *
51060416 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTACGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAG-TTCAAAAGGC
* * * * * * *
51060470 AAAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAA-GC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGAT-AAGTTC-A-AAAGGC
* * * ** * *
51060525 AAAGATCCCCTGTAAGACCATGCCAAGGTAAGGCAATGATGAGTTCAAAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAAAAGGC
* * * * *
51060578 AAGGATACCATGTAAGACCATGTCAAGACCTGGCAATGGTAAGTTAAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAAAAGGC
51060631 AAGG-TACC
1 AAGGATACC
51060639 TGTGTATCCC
Statistics
Matches: 129, Mismatches: 36, Indels: 10
0.74 0.21 0.06
Matches are distributed among these distances:
52 7 0.05
53 48 0.37
54 37 0.29
55 35 0.27
56 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAAAAGGC
Found at i:51064232 original size:24 final size:24
Alignment explanation
Indices: 51064196--51064242 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51064186 AGCCAAATTC
*
51064196 TAGGAAGATATTATGAAGAGATTT
1 TAGGAAGATATTAAGAAGAGATTT
*
51064220 TAGGAGAGA-ATTAAGGAGAGATT
1 TAGGA-AGATATTAAGAAGAGATT
51064243 GAGGTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (24 bp):
TAGGAAGATATTAAGAAGAGATTT
Found at i:51068490 original size:15 final size:15
Alignment explanation
Indices: 51068470--51068499 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51068460 GGGGGGTGGG
51068470 TTTATTATGATTGGA
1 TTTATTATGATTGGA
51068485 TTTATTATGATTGGA
1 TTTATTATGATTGGA
51068500 GGAAGTGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TTTATTATGATTGGA
Found at i:51070881 original size:85 final size:85
Alignment explanation
Indices: 51070738--51070918 Score: 308
Period size: 85 Copynumber: 2.1 Consensus size: 85
51070728 GCAACTTTTT
* *
51070738 TTTGAACCTTTTGAGCCTTTCAAGCCAACCTCGGTGAAATTTTATCCCTTGAAACCCAACTTTGA
1 TTTGAACCCTTTGAGCCTTTCAAGCCAACCTCGATGAAATTTTATCCCTTGAAACCCAACTTTGA
*
51070803 GACTATATGGCCTAATTTCA
66 GACTATATAGCCTAATTTCA
* *
51070823 TTTGAACCCTTTGAGTCTTTCAAGCCAACCTTGATGAAATTTTATCCCTTGAAACCCAACTTTGA
1 TTTGAACCCTTTGAGCCTTTCAAGCCAACCTCGATGAAATTTTATCCCTTGAAACCCAACTTTGA
*
51070888 GACTATATAGCCTAATTTTA
66 GACTATATAGCCTAATTTCA
51070908 TTTGAACCCTT
1 TTTGAACCCTT
51070919 GCAATATTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (85 bp):
TTTGAACCCTTTGAGCCTTTCAAGCCAACCTCGATGAAATTTTATCCCTTGAAACCCAACTTTGA
GACTATATAGCCTAATTTCA
Found at i:51079463 original size:22 final size:22
Alignment explanation
Indices: 51079435--51079556 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
51079425 TTCCACATCC
51079435 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
51079457 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
51079481 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
51079504 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
51079528 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
51079551 ATCACA
1 ATCACA
51079557 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:51079470 original size:47 final size:47
Alignment explanation
Indices: 51079407--51079813 Score: 620
Period size: 47 Copynumber: 8.6 Consensus size: 47
51079397 CCCTTCGGGA
* * *
51079407 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
51079454 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
51079501 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
51079548 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
51079595 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
51079644 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
51079691 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
51079740 CTTATCACATATATACACTTTCATATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
51079787 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
51079814 TATTCAAATA
Statistics
Matches: 336, Mismatches: 18, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 245 0.73
49 89 0.26
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:51079640 original size:96 final size:96
Alignment explanation
Indices: 51079407--51079813 Score: 623
Period size: 96 Copynumber: 4.3 Consensus size: 96
51079397 CCCTTCGGGA
* *
51079407 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
51079470 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
51079501 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
* *
51079563 CA-TGTTCACATTCATCACATTGGCCATTCGAC
65 CACT-TTCACATTCATCACATTGGCCATTAGGC
51079595 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
51079660 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
51079691 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
51079756 ACTTTCATATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
51079787 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
51079814 TATTCAAATA
Statistics
Matches: 287, Mismatches: 18, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
93 3 0.01
94 106 0.37
96 176 0.61
97 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:51079667 original size:143 final size:142
Alignment explanation
Indices: 51079421--51079813 Score: 603
Period size: 143 Copynumber: 2.8 Consensus size: 142
51079411 TCACATTTAT
* *
51079421 ACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
* * * *
51079486 CATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
66 CATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCT
51079550 TATCAC-ACATAC
130 TATCACAACATAC
*
51079562 ACA-TGTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATATACACTTTCACATTCA
1 ACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCA
51079626 TCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63 TCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51079691 CTTATCACATATATAT
128 CTTATCACA-ACATAC
* * *
51079707 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCATATTCATCA
1 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
*
51079772 CATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66 CATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
51079814 TATTCAAATA
Statistics
Matches: 231, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
140 1 0.00
141 36 0.16
143 152 0.66
144 1 0.00
145 40 0.17
146 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (142 bp):
ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
CATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACAACATAC
Found at i:51082095 original size:30 final size:30
Alignment explanation
Indices: 51082039--51082096 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
51082029 CATGGCCAGG
* * *
51082039 ACACACGGGCTTGTGGTCTACTCGTGTGTC
1 ACACACGGGCATGTGATCTACCCGTGTGTC
51082069 ACACACGGGCATGTGAATC-ACCCGTGTG
1 ACACACGGGCATGTG-ATCTACCCGTGTG
51082097 GAAGTACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACACGGGCATGTGATCTACCCGTGTGTC
Found at i:51087058 original size:5 final size:5
Alignment explanation
Indices: 51087048--51087145 Score: 56
Period size: 5 Copynumber: 18.2 Consensus size: 5
51087038 TATGTCTTTC
* * * *
51087048 AAAAT AAAAT AATAAT AAATTT GAGAT GAAAAT AAAAAT CAAAAG AAAACT
1 AAAAT AAAAT AA-AAT AAA-AT AAAAT -AAAAT -AAAAT -AAAAT AAAA-T
*
51087099 AAAAAT AAAAT -AAAG AAAAT AAAAAT AAGAAT -AAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT
51087145 A
1 A
51087146 GGAGGATTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
4 6 0.08
5 34 0.47
6 28 0.39
7 4 0.06
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:51087103 original size:7 final size:6
Alignment explanation
Indices: 51087076--51087133 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
51087066 ATTTGAGATG
* * * *
51087076 AAAATA AAAATC AAAAGA AAACTA AAAATA AAATAAA GAAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA -AAAATA AAAATA
*
51087126 AGAATA AA
1 AAAATA AA
51087134 TAAAATAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
6 33 0.82
7 4 0.10
8 3 0.08
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:51087103 original size:18 final size:16
Alignment explanation
Indices: 51087075--51087143 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 16
51087065 AATTTGAGAT
51087075 GAAAATAAAAATCAAAA
1 GAAAATAAAAAT-AAAA
51087092 GAAAACTAAAAATAAAATAAA
1 GAAAA-TAAAAAT---A-AAA
51087113 GAAAATAAAAATAAGAA
1 GAAAATAAAAATAA-AA
*
51087130 -TAAAT-AAAATAAAA
1 GAAAATAAAAATAAAA
51087144 TAGGAGGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.04
15 7 0.16
16 5 0.11
17 8 0.18
18 7 0.16
20 8 0.18
21 8 0.18
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (16 bp):
GAAAATAAAAATAAAA
Found at i:51087115 original size:21 final size:21
Alignment explanation
Indices: 51087089--51087143 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
51087079 ATAAAAATCA
51087089 AAAGAAAACTAAAAATAA-AAT
1 AAAGAAAA-TAAAAATAAGAAT
51087110 AAAGAAAATAAAAATAAGAAT
1 AAAGAAAATAAAAATAAGAAT
*
51087131 AAATAAAATAAAA
1 AAAGAAAATAAAA
51087144 TAGGAGGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAGAAAATAAAAATAAGAAT
Found at i:51087131 original size:26 final size:25
Alignment explanation
Indices: 51087088--51087137 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
51087078 AATAAAAATC
*
51087088 AAAAGAAAACTAAAAATAAAATAAAG
1 AAAAGAAAAATAAAAAT-AAATAAAG
* *
51087114 AAAATAAAAATAAGAATAAATAAA
1 AAAAGAAAAATAAAAATAAATAAA
51087138 ATAAAATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (25 bp):
AAAAGAAAAATAAAAATAAATAAAG
Found at i:51091735 original size:29 final size:29
Alignment explanation
Indices: 51091700--51091773 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
51091690 GTTGTGAGAT
* *
51091700 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
51091729 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
51091758 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
51091774 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:51097662 original size:29 final size:29
Alignment explanation
Indices: 51097627--51097700 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
51097617 GTTGTGAGAT
* *
51097627 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
51097656 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
51097685 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
51097701 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:51104961 original size:6 final size:6
Alignment explanation
Indices: 51104929--51105010 Score: 80
Period size: 6 Copynumber: 14.0 Consensus size: 6
51104919 TATGTCTTTC
* * * * * *
51104929 AAAAT- AAAATA ATAAT- AAAATT GAAATG AAAATA AAAATC AAAAGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
51104975 AAAATA AAAATA AAAAT- AAAATAA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
51105011 TGAATAAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
5 14 0.22
6 44 0.70
7 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:51104967 original size:12 final size:11
Alignment explanation
Indices: 51104929--51105030 Score: 91
Period size: 12 Copynumber: 9.0 Consensus size: 11
51104919 TATGTCTTTC
51104929 AAAATAAAATA
1 AAAATAAAATA
* *
51104940 ATAATAAAATT
1 AAAATAAAATA
*
51104951 GAAATGAAAATA
1 AAAAT-AAAATA
*
51104963 AAAATCAAAAGA
1 AAAAT-AAAATA
51104975 AAAATAAAAATA
1 AAAAT-AAAATA
51104987 AAAATAAAATAA
1 AAAATAAAAT-A
51104999 AAAATAAAAATA
1 AAAAT-AAAATA
**
51105011 TGAAT-AAAT-
1 AAAATAAAATA
51105020 AAAATAAAATA
1 AAAATAAAATA
51105031 GGATGATTCA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
9 3 0.04
10 8 0.11
11 17 0.24
12 39 0.54
13 5 0.07
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:51104978 original size:18 final size:17
Alignment explanation
Indices: 51104929--51105030 Score: 81
Period size: 18 Copynumber: 6.0 Consensus size: 17
51104919 TATGTCTTTC
51104929 AAAAT-AAAATAATAAT-
1 AAAATAAAAATAA-AATA
**
51104945 AAAATTGAAATGAAAATA
1 AAAATAAAAAT-AAAATA
51104963 AAAATCAAAAGA-AAAATA
1 AAAAT-AAAA-ATAAAATA
51104981 AAAATAAAAATAAAATAA
1 AAAATAAAAATAAAAT-A
*
51104999 AAAATAAAAATATGAAT-
1 AAAATAAAAATA-AAATA
51105016 -AAAT-AAAATAAAATA
1 AAAATAAAAATAAAATA
51105031 GGATGATTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.04
15 6 0.08
16 10 0.14
17 16 0.22
18 31 0.43
19 5 0.07
20 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:51108916 original size:37 final size:37
Alignment explanation
Indices: 51108866--51108944 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
51108856 TTATTATGAA
* *
51108866 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
51108903 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
51108940 GTCTT
1 GTCTT
51108945 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:51109140 original size:47 final size:47
Alignment explanation
Indices: 51109062--51109505 Score: 726
Period size: 47 Copynumber: 9.4 Consensus size: 47
51109052 CCCTTCGGGA
* * * * * * *
51109062 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51109109 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109156 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109203 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109250 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51109297 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51109346 CTTATCACATATATACACTTTCACACTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109393 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109440 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51109487 CTTATCACATATATACACT
1 CTTATCACATATATACACT
51109506 GTCTTGGCTG
Statistics
Matches: 373, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 327 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51109383 original size:190 final size:190
Alignment explanation
Indices: 51109062--51109501 Score: 758
Period size: 190 Copynumber: 2.3 Consensus size: 190
51109052 CCCTTCGGGA
* * * * * * * * *
51109062 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
51109125 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACACTCATCACA
51109190 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109250 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
51109315 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACACTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACACTCATCACA
51109380 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51109440 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
51109502 CACTGTCTTG
Statistics
Matches: 237, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 45 0.19
190 192 0.81
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACACTCATCACA
TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51117337 original size:17 final size:19
Alignment explanation
Indices: 51117295--51117338 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
51117285 ATGAAATTTT
*
51117295 AATTAGTATTATAAGATAA
1 AATTATTATTATAAGATAA
*
51117314 AATTATTATTATTAGA-AA
1 AATTATTATTATAAGATAA
51117332 AA-TATTA
1 AATTATTA
51117339 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATAAGATAA
Found at i:51117448 original size:15 final size:15
Alignment explanation
Indices: 51117430--51117458 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51117420 ATATTTATAA
51117430 AATTATTATTATTAT
1 AATTATTATTATTAT
51117445 AATTATTATTATTA
1 AATTATTATTATTA
51117459 GAAGGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:51127797 original size:108 final size:110
Alignment explanation
Indices: 51127677--51127883 Score: 301
Period size: 113 Copynumber: 1.9 Consensus size: 110
51127667 GTCTTTCCTT
* * * * *
51127677 GTGTGCTCAATTTTGAGCATTCTATTTTGC-ATTTAGGTGCAGGGGGCACACGGTCAGATCACAC
1 GTGTGCTCAATTTTGAGCATTCTATTTTGCAATTTAGGTGCAGGGGACACACAGCCAGAACACAA
*
51127741 GCCCAT-GGGCTGACCGTGTGTCACACACGCCTGTGTCTCTGCCC
66 GCCCATGGGGCTAACCGTGTGTCACACACGCCTGTGTCTCTGCCC
*
51127785 GTGTGCTCAATTTTGAGCATTCTGTTTTGCAAAAAATTTAGGTGCAGGGGACACACAGCCAGAAC
1 GTGTGCTCAATTTTGAGCATTCTATTTTGC----AATTTAGGTGCAGGGGACACACAGCCAGAAC
51127850 ACAAGCCCATGGGGCTAACCGTGTGTCACACACG
62 ACAAGCCCATGGGGCTAACCGTGTGTCACACACG
51127884 GCCTAGAAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
108 29 0.34
113 35 0.41
114 22 0.26
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (110 bp):
GTGTGCTCAATTTTGAGCATTCTATTTTGCAATTTAGGTGCAGGGGACACACAGCCAGAACACAA
GCCCATGGGGCTAACCGTGTGTCACACACGCCTGTGTCTCTGCCC
Found at i:51129058 original size:68 final size:68
Alignment explanation
Indices: 51128949--51129084 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
51128939 CTCACATCTC
* *
51128949 ATAAATCACAATTTGTGTGAATAAAACATACTATATTATAACTCAATTTGGCCCGAAATCCAATT
1 ATAAATCACAATTTGTGTGAATAAAACATACTATATCATAACTCAATTTGGCCCGAAAGCCAATT
51129014 ACA
66 ACA
* * *
51129017 ATAAATCACAATTTGTGTGAATAAAATATGCTATATCATAACTCAATTTGGCCTGAAAGCCAATT
1 ATAAATCACAATTTGTGTGAATAAAACATACTATATCATAACTCAATTTGGCCCGAAAGCCAATT
51129082 ACA
66 ACA
51129085 TGATCACCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (68 bp):
ATAAATCACAATTTGTGTGAATAAAACATACTATATCATAACTCAATTTGGCCCGAAAGCCAATT
ACA
Found at i:51129200 original size:23 final size:23
Alignment explanation
Indices: 51129170--51129219 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
51129160 CATTCTCGTG
51129170 GAAACCATGAACTCAAATTTCAT
1 GAAACCATGAACTCAAATTTCAT
51129193 GAAACCATGAACTCAAATTTCAT
1 GAAACCATGAACTCAAATTTCAT
51129216 GAAA
1 GAAA
51129220 TCACTGCGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (23 bp):
GAAACCATGAACTCAAATTTCAT
Found at i:51132505 original size:19 final size:20
Alignment explanation
Indices: 51132481--51132518 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
51132471 GGTACCACCA
51132481 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
51132500 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
51132519 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:51134269 original size:27 final size:27
Alignment explanation
Indices: 51134238--51134414 Score: 185
Period size: 27 Copynumber: 6.5 Consensus size: 27
51134228 TAAATTGTAC
51134238 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
51134265 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51134291 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
51134319 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
51134347 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
51134374 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51134401 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
51134415 AGACTCAATA
Statistics
Matches: 124, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51134406 original size:82 final size:81
Alignment explanation
Indices: 51134235--51134414 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 81
51134225 GATTAAATTG
* *
51134235 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
51134300 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
51134316 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* * **
51134380 AAGTGTGTGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
51134398 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
51134415 AGACTCAATA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51136081 original size:93 final size:93
Alignment explanation
Indices: 51135972--51136142 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
51135962 GCCCCTAAGT
*
51135972 GAACTCGAACTCAACTCAACGAGCTCGGGC-GTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCGGACAGTTC-CATCCATAAATGAACTCGGACTCAACTCA
51136036 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
51136065 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAATGAACTCGGACTCAACTCAA
51136130 CGAGTTCGGATGC
66 CGAGTTCGGATGC
51136143 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51136139 original size:46 final size:46
Alignment explanation
Indices: 51135967--51136139 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
51135957 AACCCGCCCC
* * *
51135967 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGC-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTC-CATCCA
* *
51136013 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCCATCCA
* * *
51136061 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCCATCCA
51136106 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51136140 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCCATCCA
Found at i:51136596 original size:30 final size:30
Alignment explanation
Indices: 51136562--51136621 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51136552 ATTTAATACG
51136562 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
51136592 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
51136622 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:51143500 original size:34 final size:34
Alignment explanation
Indices: 51143462--51143536 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
51143452 TCATTCAACT
51143462 TTTCATTTCCAAAATAACACTATCTCAATTATGC
1 TTTCATTTCCAAAATAACACTATCTCAATTATGC
51143496 TTTCATTTCCAAAATAACACTATCTCAATTATGC
1 TTTCATTTCCAAAATAACACTATCTCAATTATGC
*
51143530 TTACATT
1 TTTCATT
51143537 CAAACATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (34 bp):
TTTCATTTCCAAAATAACACTATCTCAATTATGC
Found at i:51143754 original size:35 final size:35
Alignment explanation
Indices: 51143689--51143868 Score: 207
Period size: 35 Copynumber: 5.1 Consensus size: 35
51143679 TACTTACTTG
* * *
51143689 TATGGCCAAATACACATAGTTCATTATATCATCACA
1 TATGGCCGAATATACA-AGTTCAATATATCATCACA
* *
51143725 TATGGCCGAATATACAAGTACAATATATCATCATA
1 TATGGCCGAATATACAAGTTCAATATATCATCACA
* * *
51143760 TATGACCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCGAATATACAAGTTCAATATATCATCACA
*** * * *
51143795 TGCAGTCGAATATTCAAGTTCAATATAACATCACA
1 TATGGCCGAATATACAAGTTCAATATATCATCACA
* *
51143830 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCGAATATACAAGTTCAATATATCATCACA
51143865 TATG
1 TATG
51143869 TACATATCTA
Statistics
Matches: 120, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
35 106 0.88
36 14 0.12
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (35 bp):
TATGGCCGAATATACAAGTTCAATATATCATCACA
Found at i:51146414 original size:12 final size:12
Alignment explanation
Indices: 51146377--51146415 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51146367 TACACGCCCA
*
51146377 TGTGCCAAGCCG
1 TGTGCCAGGCCG
51146389 TGTGCCAGGCCG
1 TGTGCCAGGCCG
* *
51146401 TGTGCTAGGTCG
1 TGTGCCAGGCCG
51146413 TGT
1 TGT
51146416 AACAACCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.10, C:0.26, G:0.38, T:0.26
Consensus pattern (12 bp):
TGTGCCAGGCCG
Found at i:51160733 original size:14 final size:14
Alignment explanation
Indices: 51160716--51160742 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51160706 ATTTTTATGG
51160716 AATGATTTCGTGAA
1 AATGATTTCGTGAA
51160730 AATGATTTCGTGA
1 AATGATTTCGTGA
51160743 CAATTTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (14 bp):
AATGATTTCGTGAA
Found at i:51161877 original size:42 final size:41
Alignment explanation
Indices: 51161818--51161968 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 41
51161808 GAGACTATGC
* *
51161818 GTAAGACCATATCTGGGATATGGCATCAATATGGGACTTCGA
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCGA
* * *
51161860 GTAAGACCATAACTGGGATATGGCATCGATGTGAGATTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCGA
*
51161902 GTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATTAC-A
1 GTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGATT-CGA
51161944 TGTAAGACCATATCTGGGATATGGC
1 -GTAAGACCATATCTGGGATATGGC
51161969 GTTGGTATGG
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
42 60 0.65
43 33 0.35
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (41 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCGA
Found at i:51163131 original size:20 final size:20
Alignment explanation
Indices: 51163106--51163159 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
51163096 CATGGTCTGC
*
51163106 CCACACAGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
51163126 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
51163146 CCACACGGGCGTGT
1 CCACACGGGCGTGT
51163160 GGCTCTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.39, G:0.28, T:0.11
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:51164679 original size:23 final size:23
Alignment explanation
Indices: 51164617--51164703 Score: 68
Period size: 25 Copynumber: 3.6 Consensus size: 23
51164607 GAAGAGTTAT
* *
51164617 TATCAGGGAGCTCATGATAGCCA
1 TATCAGGAAGCTCAAGATAGCCA
*
51164640 TATAACAGGAAGTTCAAGCA-AGCCA
1 TAT--CAGGAAGCTCAAG-ATAGCCA
* *
51164665 TATCAGGAAGCTCAAAAGGAGCCTA
1 TATCAGGAAGCTCAAGA-TAGCC-A
*
51164690 TACCAGGAAGCTCA
1 TATCAGGAAGCTCA
51164704 GAAAGAGCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 14 0.27
24 4 0.08
25 32 0.62
26 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (23 bp):
TATCAGGAAGCTCAAGATAGCCA
Found at i:51164697 original size:25 final size:25
Alignment explanation
Indices: 51164660--51164708 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
51164650 AGTTCAAGCA
*
51164660 AGCCATATCAGGAAGCTCA-AAAGG
1 AGCCATACCAGGAAGCTCAGAAAGG
51164684 AGCCTATACCAGGAAGCTCAGAAAG
1 AGCC-ATACCAGGAAGCTCAGAAAG
51164709 AGCTACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.12
Consensus pattern (25 bp):
AGCCATACCAGGAAGCTCAGAAAGG
Found at i:51165433 original size:153 final size:154
Alignment explanation
Indices: 51165160--51165436 Score: 353
Period size: 153 Copynumber: 1.8 Consensus size: 154
51165150 TCGAGTATTA
* * *
51165160 GCGGCATTTTTTAAAATGCACCGCTAAAAAACTAAGCCGAAAGACGACGTTTACATTGAGCTTCA
1 GCGGCATTTTTTAAAATACACCGCTAAAAAACTAAACAGAAAGACGACGTTTACATTGAGCTTCA
* * * *
51165225 GTGGCATCTGCGGCGCTTTATTAGAAATGCCGCAATAGATCGTGAACTAGTGGCGTTTCTAGTAA
66 GTGGCATCTGCAGCGCTTTATTAAAAACGCCGCAATAGATCGTGAACTAGCGGCGTTTCTAGTAA
51165290 AGCGCCGCTAAAGATCGACCTATG
131 AGCGCCGCTAAAGATCGACCTATG
* * * * ***
51165314 GCGGCATTTTTTAAAA-ACATCGCTAAAAAATTAAACAGAATGACGTCGTTTTGTTTGAGCTTCA
1 GCGGCATTTTTTAAAATACACCGCTAAAAAACTAAACAGAAAGACGACGTTTACATTGAGCTTCA
* * * *
51165378 GTGGCAT-TAGCAGCGCTTTTTTAAAAACGTCGCAATAGATCGAT-CATTAGCGGCGTTTC
66 GTGGCATCT-GCAGCGCTTTATTAAAAACGCCGCAATAGATCG-TGAACTAGCGGCGTTTC
51165437 CCTAGGTCTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
152 1 0.01
153 85 0.83
154 17 0.17
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (154 bp):
GCGGCATTTTTTAAAATACACCGCTAAAAAACTAAACAGAAAGACGACGTTTACATTGAGCTTCA
GTGGCATCTGCAGCGCTTTATTAAAAACGCCGCAATAGATCGTGAACTAGCGGCGTTTCTAGTAA
AGCGCCGCTAAAGATCGACCTATG
Found at i:51166340 original size:21 final size:21
Alignment explanation
Indices: 51166290--51166342 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
51166280 TATAAAACTT
* **
51166290 AAAACTATTAACCCTAAATCTT
1 AAAAC-ATAAACCCTAAATCCA
*
51166312 AAACCATAAACCCTAAATCCA
1 AAAACATAAACCCTAAATCCA
51166333 AAAACATAAA
1 AAAACATAAA
51166343 ACCTTAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAACATAAACCCTAAATCCA
Found at i:51169228 original size:27 final size:27
Alignment explanation
Indices: 51169209--51169445 Score: 287
Period size: 27 Copynumber: 8.8 Consensus size: 27
51169199 ATTACCAAAG
* *
51169209 TACCATCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
51169236 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
51169263 TACCCTTGATTTACA-AATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
51169289 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
51169316 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
51169343 TACCATCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
51169370 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
51169397 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
51169424 TAACCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
51169446 TACAATATCC
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 23 0.12
27 169 0.88
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:51169471 original size:81 final size:81
Alignment explanation
Indices: 51169196--51169473 Score: 220
Period size: 81 Copynumber: 3.4 Consensus size: 81
51169186 CTCGACTTGT
* * * ** * * * **
51169196 AAAATTACCA-AAGTACCATCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTA
1 AAAATTACCACAA-TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCG
* **
51169260 TTTTACCCTTGATTTAC
65 TTTTACCATCAATTTAC
***** * * *
51169277 -AAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCACAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGT
* *
51169341 TTTACCATCGATTTAT
66 TTTACCATCAATTTAC
* *** * *
51169357 AGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCACAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGT
51169422 TTTAACC-TCAATTTAC
66 TTT-ACCATCAATTTAC
* * * *
51169438 AAAATTACTACAATATCCTTGGTTTACAAAATTACC
1 AAAATTACCACAATACCCTCGATTTACAAAATTACC
51169474 AAAATACCCT
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 65 0.40
81 96 0.59
82 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACCACAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGT
TTTACCATCAATTTAC
Found at i:51169538 original size:27 final size:27
Alignment explanation
Indices: 51169465--51169561 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
51169455 CTTGGTTTAC
* * *
51169465 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTAGCT-TGT
51169492 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTAGCTTGT
* *
51169519 AAGATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTAGCTTGT
* * *
51169546 GAAATTATCGAAATAC
1 AAAATTACCAAAATAC
51169562 TCTCGATTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 54 0.90
28 6 0.10
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGCTTGT
Found at i:51169618 original size:27 final size:27
Alignment explanation
Indices: 51169580--51169797 Score: 265
Period size: 27 Copynumber: 8.0 Consensus size: 27
51169570 TGTAAAATAT
51169580 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
51169607 CGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
51169634 TGAAATAACCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
51169661 CGAAATACTCCTATAGGGTAAAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
51169688 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
51169715 CGAAATACCCTTATAGGGTAAAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
51169742 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
51169769 TGAGATACCCTTGTGGGGTAACAATTAC
1 CGAAATACCCCTGTAGGGT-AGAATTAC
51169797 C
1 C
51169798 ATTTTGCCCC
Statistics
Matches: 160, Mismatches: 30, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
27 153 0.96
28 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:51169779 original size:54 final size:54
Alignment explanation
Indices: 51169573--51169789 Score: 292
Period size: 54 Copynumber: 4.0 Consensus size: 54
51169563 CTCGATTTGT
* * *
51169573 AAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA
1 AAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA
* * * *
51169627 GAAATACTGAAATAACCCTGTAGGGTAGAATTATCGAAATACTCC-TATAGGGTA
1 AAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC-CCTTATAGGGTA
* *
51169681 AAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA
1 AAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA
* * * * *
51169735 AAAATACCAAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGGGTA
1 AAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA
51169789 A
1 A
51169790 CAATTACCAT
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 138 0.97
55 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (54 bp):
AAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTA
Found at i:51170033 original size:25 final size:25
Alignment explanation
Indices: 51170000--51170094 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
51169990 AGGAAGTGCT
*
51170000 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
51170025 AAAAGGGCTTTGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACC-A
* *
51170051 AAAA-GGCTTTGCCGCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
51170075 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
51170095 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
24 5 0.08
25 54 0.84
26 5 0.08
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:51170107 original size:24 final size:24
Alignment explanation
Indices: 51170000--51170107 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
51169990 AGGAAGTGCT
* * *
51170000 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAGTTTATC
*
51170024 AAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAA-GGCTTTGCCCCAGTTTATC
*
51170049 GAAAAAGGCTTTGCCGCAGTTTATC
1 -AAAAAGGCTTTGCCCCAGTTTATC
*
51170074 AAAAAGGGCTTTGCCCCAG-TTATT
1 AAAAA-GGCTTTGCCCCAGTTTATC
51170098 AAAAGAGGCT
1 AAAA-AGGCT
51170108 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
24 21 0.28
25 48 0.65
26 5 0.07
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTTATC
Found at i:51170119 original size:50 final size:51
Alignment explanation
Indices: 51169998--51170119 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 51
51169988 GGAGGAAGTG
51169998 CTAAAAG-GGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* * * *
51170048 CGAAAA-AGGCTTTGCCGCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* *
51170096 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAGAGGCTATGCC-CCAGTT
51170120 ATATGATAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 4 0.07
49 11 0.18
50 45 0.75
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (51 bp):
CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:51170351 original size:30 final size:30
Alignment explanation
Indices: 51170315--51170387 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
51170305 CGCTTACAAT
51170315 AAAGGCTTCGGCAAGTGATATGATTTATGA
1 AAAGGCTTCGGCAAGTGATATGATTTATGA
* * *
51170345 AAAGGCTTCGACCCAGTGATGTGATTTATGA
1 AAAGGCTTCG-GCAAGTGATATGATTTATGA
51170376 AAAGGCTTCGGC
1 AAAGGCTTCGGC
51170388 CTAGTATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCGGCAAGTGATATGATTTATGA
Found at i:51173884 original size:40 final size:40
Alignment explanation
Indices: 51173825--51174039 Score: 260
Period size: 40 Copynumber: 5.4 Consensus size: 40
51173815 AAACCAAGTA
* * * *
51173825 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* ** *
51173864 CCTTCGAGACTTAGCCCGGATATAGTAGTTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51173904 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
51173944 CCTTCGGGACTTAGCCTGGA-ATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* *
51173984 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
51174024 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
51174040 TGGTTATCAT
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 14 0.09
40 141 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51176008 original size:81 final size:81
Alignment explanation
Indices: 51175908--51176145 Score: 307
Period size: 81 Copynumber: 2.9 Consensus size: 81
51175898 TACAGAAATG
* * *** *
51175908 CCCTCGACTTGTAAAATTACCAAAGTACCATCGATTTATAGAATTACTGTTTTACCCTTGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCATCGATTTATAGAATTACTGTTTTACCCTCGATTTA
*
51175973 CAAAATTACTGTTTTA
66 CAAAATTACTATTTTA
* * *
51175989 CCCTCGATTTATAGAATTACCATTTTACCATCGATTTATAGAATTACCGTTTTACCATCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCATCGATTTATAGAATTACTGTTTTACCCTCGATTTA
* *
51176054 TAAAATTACCATTTTA
66 CAAAATTACTATTTTA
* * * * *
51176070 CCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACA-ATATTACTGTTTTAACCTCGATTT
1 CCCTCGATTTATAAAATTACCATTTTACCATCGATTTATAGA-ATTACTGTTTTACCCTCGATTT
51176134 ACAAAATTACTA
65 ACAAAATTACTA
51176146 CAATATCCTT
Statistics
Matches: 134, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.01
81 133 0.99
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATTTTACCATCGATTTATAGAATTACTGTTTTACCCTCGATTTA
CAAAATTACTATTTTA
Found at i:51176144 original size:27 final size:27
Alignment explanation
Indices: 51175933--51176143 Score: 260
Period size: 27 Copynumber: 7.8 Consensus size: 27
51175923 ATTACCAAAG
* * *
51175933 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
51175960 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
51175987 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
51176014 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
51176041 TACCATCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
51176068 TACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
51176095 TACCCTCGATTTACAATATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
51176122 TAACCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTAC
51176144 TACAATATCC
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:51176243 original size:27 final size:26
Alignment explanation
Indices: 51176164--51176290 Score: 105
Period size: 27 Copynumber: 4.8 Consensus size: 26
51176154 TTGGTTTACA
**
51176164 AAATTACCAAAATA-CCCTCGATCAGT
1 AAATTACCAAAATACCCCT-GATTTGT
**
51176190 AAAATTACCAAAATACCCCTGGCTTGT
1 -AAATTACCAAAATACCCCTGATTTGT
51176217 AAGATTACCAAAATACCCCTGATTTGT
1 AA-ATTACCAAAATACCCCTGATTTGT
* * *
51176244 GAAATTATCGAAATA-CTCTCGATTTGT
1 -AAATTACCAAAATACCCCT-GATTTGT
* * *
51176271 AAAATATCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
51176291 TAGGGTAGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
26 19 0.23
27 59 0.70
28 6 0.07
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTTGT
Found at i:51176392 original size:81 final size:81
Alignment explanation
Indices: 51176269--51176469 Score: 271
Period size: 81 Copynumber: 2.5 Consensus size: 81
51176259 CTCTCGATTT
* * *
51176269 GTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCC-TGTAGGGTAGAATTAC
1 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTACCAAAAT-ACCCTTGTAGGGTAAAAATAC
*
51176332 CGAAATACTCCTATAGG
65 CGAAATACCCCTATAGG
*
51176349 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAAATACC
1 GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAAAAATACC
*
51176414 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
* * * * *
51176430 GTAGAATTATCGAGATACCCTTGTGGGGTAAAAATTACCA
1 GTAAAATTATCGAAATACCCCTGTAGGGT-AGAATTACCA
51176470 TTTTGCCCCT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 10 0.09
81 88 0.83
82 8 0.08
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAAAAATACC
GAAATACCCCTATAGG
Found at i:51176447 original size:27 final size:27
Alignment explanation
Indices: 51176278--51176468 Score: 238
Period size: 27 Copynumber: 7.0 Consensus size: 27
51176268 TGTAAAATAT
51176278 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
51176305 TAAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
51176332 CGAAATACTCCTATAGGGTAAAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
51176359 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
51176386 CGAAATACCCTTGTAGGGTAAAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
51176413 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
51176440 CGAGATACCCTTGTGGGGTAAAAATTAC
1 CGAAATACCCCTGTAGGGT-AGAATTAC
51176468 C
1 C
51176469 ATTTTGCCCC
Statistics
Matches: 137, Mismatches: 26, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
27 130 0.95
28 7 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:51176704 original size:25 final size:25
Alignment explanation
Indices: 51176671--51176765 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
51176661 AGGAAGTGCT
*
51176671 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
51176696 AAAAGGGCTTTGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACC-A
* *
51176722 AAAA-GGCTTTGCCGCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
51176746 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
51176766 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
24 5 0.08
25 54 0.84
26 5 0.08
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:51176778 original size:24 final size:24
Alignment explanation
Indices: 51176671--51176778 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
51176661 AGGAAGTGCT
* * *
51176671 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAGTTTATC
*
51176695 AAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAA-GGCTTTGCCCCAGTTTATC
*
51176720 GAAAAAGGCTTTGCCGCAGTTTATC
1 -AAAAAGGCTTTGCCCCAGTTTATC
*
51176745 AAAAAGGGCTTTGCCCCAG-TTATT
1 AAAAA-GGCTTTGCCCCAGTTTATC
51176769 AAAAGAGGCT
1 AAAA-AGGCT
51176779 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
24 21 0.28
25 48 0.65
26 5 0.07
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTTATC
Found at i:51176790 original size:50 final size:51
Alignment explanation
Indices: 51176669--51176790 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 51
51176659 GGAGGAAGTG
51176669 CTAAAAG-GGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* * * *
51176719 CGAAAA-AGGCTTTGCCGCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* *
51176767 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAGAGGCTATGCC-CCAGTT
51176791 ATATGATAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 4 0.07
49 11 0.18
50 45 0.75
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (51 bp):
CTAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:51177035 original size:31 final size:31
Alignment explanation
Indices: 51176986--51177068 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
51176976 CGCTTACAGT
51176986 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
51177016 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
51177047 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
51177069 TTGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:51178938 original size:24 final size:24
Alignment explanation
Indices: 51178911--51178957 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
51178901 AATATTATTG
* *
51178911 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCATTTTATCAC
51178935 AAATATTATCGTCCATTTTATCA
1 AAATATTATCGTCCATTTTATCA
51178958 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCGTCCATTTTATCAC
Found at i:51179207 original size:25 final size:25
Alignment explanation
Indices: 51179179--51179258 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
51179169 TATTTTAATT
51179179 AATATAATTTGGATTAATTTATTTA
1 AATATAATTTGGATTAATTTATTTA
* * *
51179204 AATATTATTT-AATTAATATAATATT-
1 AATATAATTTGGATTAAT-TTAT-TTA
*
51179229 AATATAATTTGGATTAATTTATCTA
1 AATATAATTTGGATTAATTTATTTA
51179254 AATAT
1 AATAT
51179259 TATTAAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 7 0.16
25 29 0.66
26 8 0.18
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (25 bp):
AATATAATTTGGATTAATTTATTTA
Found at i:51179228 original size:19 final size:19
Alignment explanation
Indices: 51179172--51179229 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
51179162 TCAATCTTAT
51179172 TTTAATTAATATAAT-TTGGA
1 TTTAATTAATATAATATT--A
* *
51179192 -TTAATTTATTTAAATATTA
1 TTTAATTAATAT-AATATTA
51179211 TTTAATTAATATAATATTA
1 TTTAATTAATATAATATTA
51179230 ATATAATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 17 0.55
20 12 0.39
21 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTAATTAATATAATATTA
Found at i:51179232 original size:50 final size:50
Alignment explanation
Indices: 51179176--51179271 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
51179166 TCTTATTTTA
* *
51179176 ATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAAT
1 ATTAATATAATTTGGATTAATTTATCTAAATATTATTAAATTAATATAAT
51179226 ATTAATATAATTTGGATTAATTTATCTAAATATTATTAAATTAATA
1 ATTAATATAATTTGGATTAATTTATCTAAATATTATTAAATTAATA
51179272 AAATTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (50 bp):
ATTAATATAATTTGGATTAATTTATCTAAATATTATTAAATTAATATAAT
Found at i:51179286 original size:29 final size:29
Alignment explanation
Indices: 51179243--51179308 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
51179233 TAATTTGGAT
* * *
51179243 TAATTTATCTAAATATTATTAAATTAATAA
1 TAATTTTTATAAATATAATTAAATTAA-AA
*
51179273 -AATTTTTATAAATATAATTTAATTAAAA
1 TAATTTTTATAAATATAATTAAATTAAAA
51179301 TAATTTTT
1 TAATTTTT
51179309 TCCATGTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TAATTTTTATAAATATAATTAAATTAAAA
Found at i:51179594 original size:9 final size:9
Alignment explanation
Indices: 51179577--51179607 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51179567 TATATACTTG
*
51179577 AACTTACAT
1 AACTCACAT
51179586 AACTCACAT
1 AACTCACAT
51179595 AACTCACAT
1 AACTCACAT
51179604 AACT
1 AACT
51179608 AATAGAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (9 bp):
AACTCACAT
Found at i:51179625 original size:9 final size:9
Alignment explanation
Indices: 51179577--51179679 Score: 50
Period size: 9 Copynumber: 11.7 Consensus size: 9
51179567 TATATACTTG
51179577 AACTTACAT
1 AACTTACAT
*
51179586 AACTCACAT
1 AACTTACAT
*
51179595 AACTCACAT
1 AACTTACAT
* * *
51179604 AACTAATAG
1 AACTTACAT
*
51179613 AACTTATAT
1 AACTTACAT
**
51179622 AACTTTTAT
1 AACTTACAT
*
51179631 AACTTGCAT
1 AACTTACAT
51179640 AA--TACAT
1 AACTTACAT
* *
51179647 AA-ATAGAT
1 AACTTACAT
* *
51179655 ATCATATCAT
1 AACTTA-CAT
*
51179665 AACTTATAT
1 AACTTACAT
51179674 AACTTA
1 AACTTA
51179680 ATTATACTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
7 6 0.08
8 5 0.07
9 58 0.77
10 6 0.08
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:51184689 original size:13 final size:14
Alignment explanation
Indices: 51184673--51184701 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51184663 TTATAAATAT
51184673 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
51184686 TTATAATGGTTTAA
1 TTATAATGGTTTAA
51184700 TT
1 TT
51184702 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:51185440 original size:33 final size:31
Alignment explanation
Indices: 51185398--51185483 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
51185388 TTAGATTTAA
* * *
51185398 TGTTTTTGGTTATATTTTTTATGCTACATTTGT
1 TGTTTTTGGTTAGA--TTTCATGCTACATTTGC
* *
51185431 TGTTTTTGGTTGGATTTCATGCTATATTTGC
1 TGTTTTTGGTTAGATTTCATGCTACATTTGC
* *
51185462 TGTTTTTGGTTGGATTTAATGC
1 TGTTTTTGGTTAGATTTCATGC
51185484 AGGAAGGGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 35 0.74
33 12 0.26
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.58
Consensus pattern (31 bp):
TGTTTTTGGTTAGATTTCATGCTACATTTGC
Found at i:51185460 original size:31 final size:31
Alignment explanation
Indices: 51185418--51185483 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
51185408 TATATTTTTT
* *
51185418 ATGCTACATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
*
51185449 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
51185480 ATGC
1 ATGC
51185484 AGGAAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.15, C:0.09, G:0.23, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTGGATTTA
Found at i:51185602 original size:43 final size:43
Alignment explanation
Indices: 51185554--51185759 Score: 196
Period size: 43 Copynumber: 4.6 Consensus size: 43
51185544 GTGAAAAAAA
* *
51185554 CACTTTTCCCATAAACGCCGCTAAAATCCATGACCTTTAGCGG
1 CACTTTTCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGG
* * * * *
51185597 CACTTTTGCGCTTTTCCACAAATGACGCTAAAAGACTTGACCTTTAGCGA
1 CACTTTT---C----CCACAAACGCCGCTAAAAGCCATGACCTTTAGCGG
* * *
51185647 CACTTTTACCACAAACGCTGCTAAAAGCCTTGACCTTTAGCGG
1 CACTTTTCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGG
** *
51185690 TGCTTTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGG
1 CACTTTTCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGG
** * *
51185733 TGCTTTTCCCACAAACTCCACTAAAAG
1 CACTTTTCCCACAAACGCCGCTAAAAG
51185760 TCTTGATTTT
Statistics
Matches: 135, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
43 99 0.73
46 1 0.01
50 35 0.26
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (43 bp):
CACTTTTCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGG
Found at i:51197453 original size:11 final size:12
Alignment explanation
Indices: 51197426--51197502 Score: 97
Period size: 12 Copynumber: 6.6 Consensus size: 12
51197416 CAAGTAAGTA
51197426 AAAAAAAGTTTC
1 AAAAAAAGTTTC
*
51197438 GAAAAAAAGTTTA
1 -AAAAAAAGTTTC
51197451 AAAAAAAGTTTC
1 AAAAAAAGTTTC
*
51197463 GAAAAAAG-TTC
1 AAAAAAAGTTTC
*
51197474 AAAAAAAGTTTG
1 AAAAAAAGTTTC
51197486 AAAAAAA--TTC
1 AAAAAAAGTTTC
51197496 AAAAAAA
1 AAAAAAA
51197503 AATTCAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
10 9 0.16
11 10 0.18
12 27 0.47
13 11 0.19
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (12 bp):
AAAAAAAGTTTC
Found at i:51197503 original size:11 final size:11
Alignment explanation
Indices: 51197425--51197509 Score: 53
Period size: 11 Copynumber: 7.2 Consensus size: 11
51197415 CCAAGTAAGT
51197425 AAAAAAAAGTTTC
1 AAAAAAAA--TTC
* *
51197438 GAAAAAAAGTTT
1 -AAAAAAAATTC
51197450 AAAAAAAAGTTTC
1 AAAAAAAA--TTC
* *
51197463 GAAAAAAGTTC
1 AAAAAAAATTC
* *
51197474 AAAAAAAGTTT
1 AAAAAAAATTC
*
51197485 GAAAAAAATTC
1 AAAAAAAATTC
51197496 AAAAAAAAATTC
1 -AAAAAAAATTC
51197508 AA
1 AA
51197510 GAAAGTTCGG
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
11 29 0.52
12 12 0.21
13 8 0.14
14 7 0.12
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:51198574 original size:12 final size:12
Alignment explanation
Indices: 51198554--51198607 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
51198544 GAAAAAGAAC
51198554 AAAAAGAGAGTG
1 AAAAAGAGAGTG
* *
51198566 AAAATGAGATTG
1 AAAAAGAGAGTG
* *
51198578 AAAAAGA-AATC
1 AAAAAGAGAGTG
*
51198589 AAAAAGAGAATG
1 AAAAAGAGAGTG
51198601 AAAAAGA
1 AAAAAGA
51198608 TTTTGAGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (12 bp):
AAAAAGAGAGTG
Found at i:51198594 original size:11 final size:12
Alignment explanation
Indices: 51198545--51198607 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
51198535 GATGAAAAAG
51198545 AAAA-AGAA-CA
1 AAAAGAGAATCA
* *
51198555 AAAAGAGAGTGA
1 AAAAGAGAATCA
* * *
51198567 AAATGAGATTGA
1 AAAAGAGAATCA
51198579 AAAAGA-AATCA
1 AAAAGAGAATCA
*
51198590 AAAAGAGAATGA
1 AAAAGAGAATCA
51198602 AAAAGA
1 AAAAGA
51198608 TTTTGAGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 4 0.10
11 12 0.29
12 26 0.62
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (12 bp):
AAAAGAGAATCA
Found at i:51198609 original size:33 final size:32
Alignment explanation
Indices: 51198544--51198609 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 32
51198534 CGATGAAAAA
*
51198544 GAAAAAGAACAAAAAGAGAGTGAAAATGAGATT
1 GAAAAAGAACAAAAAGAGAATGAAAA-GAGATT
51198577 GAAAAAGAAATCAAAAAGAGAATGAAAA-AGATT
1 GAAAAAG-AA-CAAAAAGAGAATGAAAAGAGATT
51198610 TTGAGAGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 12 0.40
34 2 0.07
35 16 0.53
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.12
Consensus pattern (32 bp):
GAAAAAGAACAAAAAGAGAATGAAAAGAGATT
Found at i:51198673 original size:22 final size:24
Alignment explanation
Indices: 51198648--51198696 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
51198638 AAAACGAGTG
*
51198648 GAAAAAAGAGAT-TA-AGGAAAAA
1 GAAAAAAGAGATCTAGAGAAAAAA
**
51198670 GAAACGAGAGATCTAGAGAAAAAA
1 GAAAAAAGAGATCTAGAGAAAAAA
51198694 GAA
1 GAA
51198697 TCAAGTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.63, C:0.04, G:0.24, T:0.08
Consensus pattern (24 bp):
GAAAAAAGAGATCTAGAGAAAAAA
Found at i:51207035 original size:9 final size:10
Alignment explanation
Indices: 51207015--51207043 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
51207005 ATATCGTGTT
51207015 TGAATAGAAA
1 TGAATAGAAA
51207025 TGAAT-GAAA
1 TGAATAGAAA
51207034 TGAATAGAAA
1 TGAATAGAAA
51207044 AATGGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:51210688 original size:46 final size:45
Alignment explanation
Indices: 51210638--51210809 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
51210628 ATCTCATAGT
*
51210638 CGATGCATGCCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCGAGGC
* * * * *
51210684 CGATGCATGTCTCAGACATGTCTTACGCTAGCGCTCGTCTCAATG-
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTCGTCTCGAGGC
* * * * *
51210729 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCGT-CTCGAGGC
51210777 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
51210810 CACACAAGTG
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 5 0.05
46 62 0.61
47 29 0.28
48 6 0.06
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCGTCTCGAGGC
Found at i:51210966 original size:27 final size:26
Alignment explanation
Indices: 51210921--51210980 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
51210911 CACAATCAAG
*
51210921 CAATTCATGCTATATTAATTTTAATA
1 CAATTCATGCTATAATAATTTTAATA
*
51210947 CAATTCATTGCTATAATAATTTTGATA
1 CAATTCA-TGCTATAATAATTTTAATA
51210974 CAATTCA
1 CAATTCA
51210981 ATCACATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (26 bp):
CAATTCATGCTATAATAATTTTAATA
Found at i:51213390 original size:19 final size:19
Alignment explanation
Indices: 51213366--51213403 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
51213356 CACAAACTCT
51213366 ATCTTTGAACATCAAACAC
1 ATCTTTGAACATCAAACAC
51213385 ATCTTTGAACATCAAACAC
1 ATCTTTGAACATCAAACAC
51213404 CCATCGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
ATCTTTGAACATCAAACAC
Found at i:51218501 original size:46 final size:45
Alignment explanation
Indices: 51218445--51218613 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 45
51218435 ACATCTCGTA
* * *
51218445 CCGATACATGTCCCAAACATGTCTAACACTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTAACACTGGCTT-CGTCTCAAGG
*
51218491 CCGATGCATGTCCCAGA-ATGT-TGAACACTAGCGC-TCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCT-AACACT-G-GCTTCGTCTCAAGG
*
51218536 CCGATGCGATGTCCCAGACATGGTCTTACACTGGC-TC-TCAT-AATGTGG
1 CCGATGC-ATGTCCCAGACAT-GTCTAACACTGGCTTCGTC-TCAA---GG
* *
51218584 CTGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTAACACT
51218614 AGCTCACACA
Statistics
Matches: 105, Mismatches: 7, Indels: 22
0.78 0.05 0.16
Matches are distributed among these distances:
44 1 0.01
45 29 0.28
46 42 0.40
47 18 0.17
48 14 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTAACACTGGCTTCGTCTCAAGG
Found at i:51219170 original size:19 final size:19
Alignment explanation
Indices: 51219146--51219245 Score: 141
Period size: 19 Copynumber: 5.3 Consensus size: 19
51219136 AATCTTTAAG
51219146 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
51219165 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51219184 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
51219201 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAT
*
51219220 GATATGCAATATTGAAGATAT
1 GATATGCAATCTT--AGATAT
51219241 GATAT
1 GATAT
51219246 TGTAATATTG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
17 16 0.22
19 46 0.64
21 10 0.14
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51219175 original size:36 final size:35
Alignment explanation
Indices: 51219135--51219251 Score: 112
Period size: 36 Copynumber: 3.1 Consensus size: 35
51219125 TATGGAAATA
51219135 TAATCTTTAAGGATATGCAATCTTAGATATGATATG
1 TAATCTTTAA-GATATGCAATCTTAGATATGATATG
51219171 TAATC-TT-AGATATGATACAATCTTAGATATGATATG
1 TAATCTTTAAGATATG---CAATCTTAGATATGATATG
* *
51219207 CAATCTTTGATATGATATGCAATATTGAAGATATGATATTG
1 TAATCTTT-A-A-GATATGCAATCTT--AGATATGATA-TG
51219248 TAAT
1 TAAT
51219252 ATTGGAGATT
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
33 6 0.09
34 1 0.01
35 2 0.03
36 28 0.42
37 2 0.03
38 6 0.09
40 11 0.16
41 11 0.16
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (35 bp):
TAATCTTTAAGATATGCAATCTTAGATATGATATG
Found at i:51219255 original size:22 final size:21
Alignment explanation
Indices: 51219146--51219260 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 21
51219136 AATCTTTAAG
*
51219146 GATATGCAATCTT--AGATAT
1 GATATGCAATATTGAAGATAT
* *
51219165 GATATGTAATCTT--AGATAT
1 GATATGCAATATTGAAGATAT
*
51219184 GATA--CAATCTT--AGATAT
1 GATATGCAATATTGAAGATAT
* *
51219201 GATATGCAATCTT--TGATAT
1 GATATGCAATATTGAAGATAT
51219220 GATATGCAATATTGAAGATAT
1 GATATGCAATATTGAAGATAT
* *
51219241 GATATTGTAATATTGGAGAT
1 GATA-TGCAATATTGAAGAT
51219261 TTAATTTGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.19
19 46 0.55
21 9 0.11
22 13 0.15
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.38
Consensus pattern (21 bp):
GATATGCAATATTGAAGATAT
Found at i:51226013 original size:13 final size:12
Alignment explanation
Indices: 51225991--51226032 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
51225981 CTTCTATTTC
51225991 AAAAAA-AAAAGG
1 AAAAAAGAAAA-G
51226003 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
51226015 AAAAAGAGAAAAT
1 AAAAA-AGAAAAG
51226028 AAAAA
1 AAAAA
51226033 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:51226032 original size:19 final size:17
Alignment explanation
Indices: 51225991--51226038 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 17
51225981 CTTCTATTTC
51225991 AAAAAAAAAAGGAAAAA
1 AAAAAAAAAAGGAAAAA
51226008 AGAAAAGAAAAAGAGAAAATA
1 A-AAAA-AAAAAG-GAAAA-A
51226029 AAAATAAAAA
1 AAAA-AAAAA
51226039 TAAAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 6 0.23
20 12 0.46
21 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAGGAAAAA
Found at i:51229472 original size:47 final size:47
Alignment explanation
Indices: 51229421--51229790 Score: 546
Period size: 47 Copynumber: 7.7 Consensus size: 47
51229411 TTAGGATTCT
* *
51229421 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
51229468 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-G
*
51229515 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
51229564 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
51229613 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
51229662 ATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
51229709 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
51229756 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
51229791 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 4 0.01
47 157 0.52
49 139 0.46
50 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:51229551 original size:96 final size:96
Alignment explanation
Indices: 51229442--51229790 Score: 560
Period size: 96 Copynumber: 3.6 Consensus size: 96
51229432 GTGAACATGC
51229442 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
51229507 AAT-GCCTGATGTGATGAATGTGAAAGTGTAT
66 AATGGCC-GATGTGATGAATGTGAAAGTGTAT
*
51229538 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
51229603 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
51229636 ATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
51229701 AATGGCCGATGTGATGAATGTGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * * *
51229730 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
51229791 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
94 53 0.22
96 92 0.39
98 90 0.38
99 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:51229565 original size:49 final size:49
Alignment explanation
Indices: 51229442--51229790 Score: 545
Period size: 49 Copynumber: 7.3 Consensus size: 49
51229432 GTGAACATGC
51229442 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51229489 ATATATGTGATAAGGCCTAAT-GCCTGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCC-GATGTGATGAATGTGAAAGTGTAT
*
51229538 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51229587 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
51229636 ATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51229683 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
51229730 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51229779 A-A-ATGTGATAAG
1 ATATATGTGATAAG
51229791 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
46 3 0.01
47 136 0.48
48 1 0.00
49 141 0.50
50 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:51229965 original size:37 final size:37
Alignment explanation
Indices: 51229909--51229987 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51229899 CCGAGCTCTA
* * *
51229909 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
51229946 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51229983 AAGAC
1 AAGAC
51229988 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51231405 original size:40 final size:40
Alignment explanation
Indices: 51231202--51231391 Score: 272
Period size: 40 Copynumber: 4.8 Consensus size: 40
51231192 GAGAATTGAG
51231202 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
51231242 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
51231282 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * **
51231322 AGAGATATATTCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
51231362 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
51231392 TAATCATGCT
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:51231714 original size:44 final size:45
Alignment explanation
Indices: 51231665--51232020 Score: 270
Period size: 44 Copynumber: 8.0 Consensus size: 45
51231655 GATTTCAGCA
* *
51231665 TGGCATCCCTGTGTTTATAGGGAATAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
* *
51231709 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGTAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * * * ***
51231753 TGACA-CTCCTATGCTTACAGCGAAGC-AGATCGAAGATTTTAGCA--
1 TGGCATC-CCTGTGTTTATAGGGAA-CAAGATCGAAGATAGCAG-ATT
* * ***
51231797 TGGCATCCCTGTGTCTATAGGGAACAAG-TTGAAGATAATTGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
* *
51231841 TGGCATCCCTGTGTTTATAGGGAAC-AGATCAAAGATAGCAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * * * * *** **
51231885 TGACAGT-CCTGTGCTTACA-GCAAAACAGATCAAAGATTTTA-ACA
1 TGGCA-TCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGCAGATT
*
51231929 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
*
51231973 TGTCATCCCTGTGTTTATAGGGAACAA-ATCGAAGACATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAG--ATAGCAGATT
51232019 TG
1 TG
51232021 ACTTTCGGAT
Statistics
Matches: 242, Mismatches: 52, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.00
43 26 0.11
44 169 0.70
45 33 0.14
46 13 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATT
Found at i:51231841 original size:132 final size:132
Alignment explanation
Indices: 51231603--51232022 Score: 633
Period size: 132 Copynumber: 3.2 Consensus size: 132
51231593 GTGAATGAAT
* * * * *
51231603 GATCGAAGATAGCAAATCTGATACTCCCATGCTTACAGCGAAGTAGATCGAAGATTTCAGCATGG
1 GATCGAAGATAGCAGATCTGACACTCCTATGCTTACAGCGAAGCAGATCGAAGATTTTAGCATGG
*
51231668 CATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
66 CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
51231733 CA
131 CA
*
51231735 GATCGAAGATAGTAGATCTGACACTCCTATGCTTACAGCGAAGCAGATCGAAGATTTTAGCATGG
1 GATCGAAGATAGCAGATCTGACACTCCTATGCTTACAGCGAAGCAGATCGAAGATTTTAGCATGG
* ***
51231800 CATCCCTGTGTCTATAGGGAACAAGTTGAAGATAATTGATTTGGCATCCCTGTGTTTATAGGGAA
66 CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
51231865 CA
131 CA
* * * * * * *
51231867 GATCAAAGATAGCAGATCTGACAGTCCTGTGCTTACAGCAAAACAGATCAAAGATTTTAACATGG
1 GATCGAAGATAGCAGATCTGACACTCCTATGCTTACAGCGAAGCAGATCGAAGATTTTAGCATGG
*
51231932 CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGTCATCCCTGTGTTTATAGGGAA
66 CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
51231997 CA
131 CA
* *
51231999 AATCGAAGACATAGCAGATTTGAC
1 GATCGAAG--ATAGCAGATCTGAC
51232023 TTTCGGATGT
Statistics
Matches: 259, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
132 246 0.95
134 13 0.05
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
GATCGAAGATAGCAGATCTGACACTCCTATGCTTACAGCGAAGCAGATCGAAGATTTTAGCATGG
CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
CA
Found at i:51232273 original size:175 final size:175
Alignment explanation
Indices: 51231969--51232376 Score: 681
Period size: 175 Copynumber: 2.3 Consensus size: 175
51231959 GAAGATAGCA
* * * *
51231969 GATTTGTCATCCCTGTGTTTATAGGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
*
51232034 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAAAGCAGATACAT
*
51232099 AGCAGATCTAACCTTCAGATGATTTTACTGAAGCAGATCTAAGAT
131 AGCAGATCTAACCTTCAGATGATTTTACTGAAGCAGATCCAAGAT
*
51232144 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
51232209 CTTACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAAAGCAGATACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAAAGCAGATACAT
* *
51232274 AGTAGATCTAACCTTTAGATGATTTTACTGAAGCAGATCCAAGAT
131 AGCAGATCTAACCTTCAGATGATTTTACTGAAGCAGATCCAAGAT
* * * *
51232319 GATTTGGCATCCTTATGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
51232377 ACGTGTTTAC
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 217 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (175 bp):
GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACAGAAAGCAGATACAT
AGCAGATCTAACCTTCAGATGATTTTACTGAAGCAGATCCAAGAT
Found at i:51232713 original size:8 final size:8
Alignment explanation
Indices: 51232700--51232727 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
51232690 AAATAAGTTC
51232700 AAAAAAAT
1 AAAAAAAT
51232708 AAAAAAAT
1 AAAAAAAT
51232716 AAAAAAAT
1 AAAAAAAT
51232724 AAAA
1 AAAA
51232728 CAAAGTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:51232869 original size:14 final size:15
Alignment explanation
Indices: 51232850--51232906 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
51232840 AATCTTTAAG
51232850 GATATG-CAATCTTA
1 GATATGACAATCTTA
51232864 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
51232881 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
51232900 GATATGA
1 GATATGA
51232907 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:51232923 original size:19 final size:19
Alignment explanation
Indices: 51232850--51232917 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
51232840 AATCTTTAAG
51232850 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51232869 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51232886 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51232905 GATATGCAATCTT
1 GATATGCAATCTT
51232918 GAATATATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51235579 original size:22 final size:22
Alignment explanation
Indices: 51235540--51235582 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51235530 ATCACTCTTC
* *
51235540 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
51235562 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
51235583 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:51236862 original size:27 final size:27
Alignment explanation
Indices: 51236822--51236933 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
51236812 AGGAAGCGTC
* *
51236822 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
51236849 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
51236876 CTGGTGGCTCTGGCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
51236904 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
51236930 CTGG
1 CTGG
51236934 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:51238361 original size:16 final size:18
Alignment explanation
Indices: 51238340--51238372 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
51238330 CATACAAGCT
51238340 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
51238356 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
51238373 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:51239055 original size:88 final size:87
Alignment explanation
Indices: 51238908--51239119 Score: 302
Period size: 88 Copynumber: 2.4 Consensus size: 87
51238898 AATCACCAGT
* *
51238908 ATTTCGCCTGCTAGGCTCAAAGCCCAATA-TCATTTCACCGGCATTATAGCCTGCTAGGCTTGAA
1 ATTTCGCCTGCTAGGCTCAAAGCCCAATAGT-ATCTCACCGGCATTATAGCCTGCTAGGC-TCAA
*
51238972 A-GCCTGAATAGTATCTCACCGGC
64 AGGCCCGAATAGTATCTCACCGGC
* *
51238995 ATTTCGCCTGCTAGGGTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAA
1 ATTTCGCCTGCTAGGCTCAAAGCCC-AATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAA
51239060 GGCCCGAATAGTATCTCACCGGC
65 GGCCCGAATAGTATCTCACCGGC
*
51239083 ATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 ATT-TCGCCTGCTAGGCTCAAA-GCCC-AATAGTATC
51239120 GTGCGATATT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
87 27 0.24
88 55 0.50
89 16 0.14
90 13 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (87 bp):
ATTTCGCCTGCTAGGCTCAAAGCCCAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAG
GCCCGAATAGTATCTCACCGGC
Found at i:51239080 original size:45 final size:44
Alignment explanation
Indices: 51238913--51239119 Score: 294
Period size: 45 Copynumber: 4.7 Consensus size: 44
51238903 CCAGTATTTC
*
51238913 GCCTGCTAGGCTCAAAGCCC-AATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
51238956 GCCTGCTAGGCTTGAAAGCCTGAATAGTATCTCACCGGCATT-TC
1 GCCTGCTAGGC-TCAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
51239000 GCCTGCTAGGGTCGAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
51239044 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATA
*
51239089 GCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATC
51239120 GTGCGATATT
Statistics
Matches: 147, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
43 38 0.26
44 33 0.22
45 75 0.51
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:51239977 original size:47 final size:47
Alignment explanation
Indices: 51239922--51240062 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 47
51239912 AAAATTTTCT
*
51239922 TTAACTAAGTAACTTATCCGAAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGAAAATTTAACAAGC
* *
51239969 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGAAAATTTAACAAGC
* * * *
51240016 TTAACTAAGTAACTTATCCGGAAATATTAAAAG-CAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGAAAATTTAACAAGC
51240062 T
1 T
51240063 CTAAATTCAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 13 0.15
47 75 0.85
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGAAAATAATAAGAGAAAATTTAACAAGC
Found at i:51246651 original size:43 final size:45
Alignment explanation
Indices: 51246585--51246803 Score: 231
Period size: 45 Copynumber: 5.0 Consensus size: 45
51246575 CCGAATTCAT
* * * *
51246585 TCACTGGCATT-TCGCCTGCTAGGCTCGAAGAC-AG-ATA-TCATT
1 TCACAGGCATTATAGCCTGCTAGGCTCGAAGACTCGAATAGT-ATC
*
51246627 TCACAGGCATTATAGCCTGCTAGGCTCGAAAACTCGAATAGTATC
1 TCACAGGCATTATAGCCTGCTAGGCTCGAAGACTCGAATAGTATC
* *
51246672 TCACCA-GCATT-TCGCCTGCTAGGCTCGAAG-CTTGAATAGTATC
1 TCA-CAGGCATTATAGCCTGCTAGGCTCGAAGACTCGAATAGTATC
* * *
51246715 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
1 TCACAGGCATTATAGCCTGCTAGGCTCGAAGACTCGAATAGTATC
* *
51246760 TCACTA-GCATTATAGCCTGCTAGGCTC-AGAGGCCCGAATAGTAT
1 TCAC-AGGCATTATAGCCTGCTAGGCTCGA-AGACTCGAATAGTAT
51246804 TGTGCGATAT
Statistics
Matches: 153, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
42 11 0.07
43 39 0.25
44 36 0.24
45 64 0.42
46 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (45 bp):
TCACAGGCATTATAGCCTGCTAGGCTCGAAGACTCGAATAGTATC
Found at i:51246751 original size:88 final size:87
Alignment explanation
Indices: 51246591--51246786 Score: 272
Period size: 88 Copynumber: 2.2 Consensus size: 87
51246581 TCATTCACTG
*
51246591 GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATTTCACAGGCATTATAGCCTGCTAGGCTCGA
1 GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATCTCACAGGCATTATAGCCTGCTAGGCTCGA
51246656 AAACTCGAATAGTATCTCACCA
66 AAACTCGAATAGTATCTCACCA
* *
51246678 GCATTTCGCCTGCTAGGCTCGAAG-CTTGAATAGT-ATCTCACTGGCATTATAGCCTGCTAGGCT
1 GCATTTCGCCTGCTAGGCTCGAAGAC-AG-ATA-TCATCTCACAGGCATTATAGCCTGCTAGGCT
* *
51246741 C-AAAGGCTCGAATAGTATCTCACTA
63 CGAAA-ACTCGAATAGTATCTCACCA
*
51246766 GCATTATAGCCTGCTAGGCTC
1 GCATT-TCGCCTGCTAGGCTC
51246787 AGAGGCCCGA
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
86 1 0.01
87 28 0.29
88 54 0.55
89 15 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (87 bp):
GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATCTCACAGGCATTATAGCCTGCTAGGCTCGA
AAACTCGAATAGTATCTCACCA
Found at i:51246762 original size:45 final size:44
Alignment explanation
Indices: 51246633--51246803 Score: 236
Period size: 45 Copynumber: 3.8 Consensus size: 44
51246623 CATTTCACAG
* *
51246633 GCATTATAGCCTGCTAGGCTCGAAAACTCGAATAGTATCTCACCA
1 GCATTATAGCCTGCTAGGCTC-AAAGCTCGAATAGTATCTCACTA
* * * *
51246678 GCATT-TCGCCTGCTAGGCTCGAAGCTTGAATAGTATCTCACTG
1 GCATTATAGCCTGCTAGGCTCAAAGCTCGAATAGTATCTCACTA
51246721 GCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATCTCACTA
1 GCATTATAGCCTGCTAGGCTCAAA-GCTCGAATAGTATCTCACTA
* *
51246766 GCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTAT
1 GCATTATAGCCTGCTAGGCTCA-AAGCTCGAATAGTAT
51246804 TGTGCGATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
43 23 0.21
44 30 0.27
45 57 0.51
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (44 bp):
GCATTATAGCCTGCTAGGCTCAAAGCTCGAATAGTATCTCACTA
Found at i:51247664 original size:47 final size:47
Alignment explanation
Indices: 51247610--51247738 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
51247600 TTTCTTTAAC
* *
51247610 TAACTTATCCGAAAATAATAAGGGCAAATTTAACAACCTTAACTAAG
1 TAACTTATCCGAAAATATTAAGAGCAAATTTAACAACCTTAACTAAG
* *
51247657 TAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGCTTAACTAAG
1 TAACTTATCCGAAAATATTAAGAGCAAATTTAACAACCTTAACTAAG
*
51247704 TAACTTATTC-AGAAATATTAAGAGC-AATTTAACAA
1 TAACTTATCCGA-AAATATTAAGAGCAAATTTAACAA
51247739 GCTTTAAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 10 0.13
47 65 0.87
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (47 bp):
TAACTTATCCGAAAATATTAAGAGCAAATTTAACAACCTTAACTAAG
Found at i:51252266 original size:46 final size:46
Alignment explanation
Indices: 51252199--51252373 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
51252189 TGGAACCCGC
* *
51252199 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
51252245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
51252295 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
51252338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
51252374 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:51252319 original size:93 final size:93
Alignment explanation
Indices: 51252206--51252377 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
51252196 CGCCCATAAG
* * * *
51252206 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51252271 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
51252299 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
51252364 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51252378 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:51252393 original size:46 final size:46
Alignment explanation
Indices: 51252248--51252386 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
51252238 TTCGCATCCA
51252248 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
51252296 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCTCAACCATC
51252341 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
51252387 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 3 0.04
46 26 0.36
47 28 0.38
48 3 0.04
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:51254733 original size:21 final size:20
Alignment explanation
Indices: 51254705--51254743 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51254695 TATTAAAAGG
* *
51254705 TTAATATGGTAAATTAGTTA
1 TTAATATGATAAAATAGTTA
51254725 TTAATTATGATAAAATAGT
1 TTAA-TATGATAAAATAGT
51254744 AAAACAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TTAATATGATAAAATAGTTA
Found at i:51258403 original size:27 final size:27
Alignment explanation
Indices: 51258355--51258416 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
51258345 GCAAACAGTT
* * *
51258355 ATTTTACTCTACAGGGGCATTTCAATA
1 ATTTTACACTACAAGCGCATTTCAATA
* * *
51258382 ATTTTACACTACAAGCGTATTTCAGTC
1 ATTTTACACTACAAGCGCATTTCAATA
51258409 ATTTTACA
1 ATTTTACA
51258417 AACCGGGGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGCGCATTTCAATA
Found at i:51270069 original size:36 final size:36
Alignment explanation
Indices: 51270028--51270141 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
51270018 ATAAATGTAT
* * *
51270028 ATATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* *
51270064 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* *
51270100 ATATATA-A-ACACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
51270134 ATATATAT
1 ATATATAT
51270142 TTATGTACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
34 29 0.43
35 1 0.01
36 38 0.56
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:51270104 original size:34 final size:34
Alignment explanation
Indices: 51270030--51270142 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
51270020 AAATGTATAT
* * *
51270030 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
51270064 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCCATAC
** *
51270100 ATATATAAACACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
51270134 ATATATATT
1 ATATATATT
51270143 TATGTACTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 36 0.55
36 29 0.45
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Done.