Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 56
Found at i:5801704 original size:17 final size:16
Alignment explanation
Indices: 5801671--5801704 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5801661 TTTTGTTGCA
*
5801671 TTTTATTTCAGTCTTT
1 TTTTATTTCAGTATTT
5801687 TTTTATTTCCAGTATTT
1 TTTTATTT-CAGTATTT
5801704 T
1 T
5801705 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTTATTTCAGTATTT
Found at i:5804883 original size:42 final size:43
Alignment explanation
Indices: 5804796--5804967 Score: 251
Period size: 42 Copynumber: 4.0 Consensus size: 43
5804786 ATAAGAAACT
*
5804796 AAGCTTGAGGGACCAACTTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACATGATATGTAGGGGTTCCTTGATGAC
* *
5804839 AAGCTTGAGGAACCAACATGATATGTA-GGGTTCTTTGATGAC
1 AAGCTTGAGGGACCAACATGATATGTAGGGGTTCCTTGATGAC
* *
5804881 AAGCTTGAGGGACCAACGA-GATATGTAAGGGTTCCTTAATGAC
1 AAGCTTGAGGGACCAAC-ATGATATGTAGGGGTTCCTTGATGAC
* *
5804924 AAGCTTGAGGGACCAAC-TGATATATAGGGGATCCTTGATGAC
1 AAGCTTGAGGGACCAACATGATATGTAGGGGTTCCTTGATGAC
5804966 AA
1 AA
5804968 CTAAGAAACC
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
42 60 0.52
43 56 0.48
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (43 bp):
AAGCTTGAGGGACCAACATGATATGTAGGGGTTCCTTGATGAC
Found at i:5804939 original size:85 final size:85
Alignment explanation
Indices: 5804796--5804967 Score: 256
Period size: 85 Copynumber: 2.0 Consensus size: 85
5804786 ATAAGAAACT
** * *
5804796 AAGCTTGAGGGACCAACTTGATATGTAGGGGTTCCTTGATGACAAGCTTGAGGAACCAACATGAT
1 AAGCTTGAGGGACCAACGAGATATGTAAGGGTTCCTTAATGACAAGCTTGAGGAACCAAC-TGAT
* * *
5804861 ATGTA-GGGTTCTTTGATGAC
65 ATATAGGGGATCCTTGATGAC
*
5804881 AAGCTTGAGGGACCAACGAGATATGTAAGGGTTCCTTAATGACAAGCTTGAGGGACCAACTGATA
1 AAGCTTGAGGGACCAACGAGATATGTAAGGGTTCCTTAATGACAAGCTTGAGGAACCAACTGATA
5804946 TATAGGGGATCCTTGATGAC
66 TATAGGGGATCCTTGATGAC
5804966 AA
1 AA
5804968 CTAAGAAACC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 8 0.10
85 70 0.90
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (85 bp):
AAGCTTGAGGGACCAACGAGATATGTAAGGGTTCCTTAATGACAAGCTTGAGGAACCAACTGATA
TATAGGGGATCCTTGATGAC
Found at i:5805047 original size:42 final size:42
Alignment explanation
Indices: 5805001--5805089 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
5804991 AAGGGTTTCT
* * *
5805001 TGATGATTAAGTTCTTCGGGCCATC-AGTAAGTCTTTTGAGCA
1 TGATGATTAAATCCTTCGGGCCATCTA-TAAGTCTTTCGAGCA
* *
5805043 TGATGTTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCA
1 TGATGATTAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCA
*
5805085 AGATG
1 TGATG
5805090 CTAAGCCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (42 bp):
TGATGATTAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCA
Found at i:5805114 original size:41 final size:42
Alignment explanation
Indices: 5805014--5805114 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
5805004 TGATTAAGTT
* * * * *
5805014 CTTCGGGCCAT-CAGTAAGTCTTTTGAGCATGATGTTTAAATC
1 CTTCGGGCTATCCA-TAAGTCTTTCGAGCAAGATGTCTAAACC
* *
5805056 CTTCGGG-TCATCTATAAGTCTTTCGAGCAAGATG-CTAAGCC
1 CTTCGGGCT-ATCCATAAGTCTTTCGAGCAAGATGTCTAAACC
5805097 CTTCGGGCTATCCATAAG
1 CTTCGGGCTATCCATAAG
5805115 ACCTTCATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
41 19 0.40
42 28 0.58
43 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (42 bp):
CTTCGGGCTATCCATAAGTCTTTCGAGCAAGATGTCTAAACC
Found at i:5805371 original size:41 final size:41
Alignment explanation
Indices: 5805264--5805376 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 41
5805254 AGGGTTTCTT
*
5805264 GATGAGTAAGTCCTTCGGGTCATC-AGTAAGTCTTTCGAGCAT
1 GATGA-TAAGTCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAA
* * * *
5805306 TATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGTAA
1 GATG-ATAAGTCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
*
5805348 GATGATAAGTCCTTCGGGCCATCTATAAG
1 GATGATAAGTCCTTCGGGTCATCTATAAG
5805377 ACCCTTGGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 22 0.37
42 37 0.62
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (41 bp):
GATGATAAGTCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
Found at i:5805508 original size:55 final size:56
Alignment explanation
Indices: 5805410--5805529 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 56
5805400 ATGTGTTTTT
* **** *
5805410 AGAAACTAAGCCTGATTTGCAGGGGTTTCTTGATGTTTTTAAATGAAT-TTTTTGAA
1 AGAAACTAAGCCTAATTTGCAGGGGTTTCTTGACAACTGTAAATGAATCTTTTTG-A
* *
5805466 AGAAACTAAGCCTAATTT-TAGGGGTTTCTTGACAACTGTAAATTAATCTTTTTGA
1 AGAAACTAAGCCTAATTTGCAGGGGTTTCTTGACAACTGTAAATGAATCTTTTTGA
*
5805521 AGAAGCTAA
1 AGAAACTAA
5805530 ATTAATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
55 31 0.57
56 23 0.43
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (56 bp):
AGAAACTAAGCCTAATTTGCAGGGGTTTCTTGACAACTGTAAATGAATCTTTTTGA
Found at i:5806532 original size:132 final size:131
Alignment explanation
Indices: 5806345--5806650 Score: 366
Period size: 132 Copynumber: 2.3 Consensus size: 131
5806335 CGACATCTTG
* * * * * **
5806345 TTCGATTCCATCACAAAAGGAGTTGGATTGACATTTTTATTTTGCTCAAATCCATCGCATAAGGA
1 TTCGATTCCATCACAGAA-GAGGTGGATCGATATTTTCATTTCACTCAAATCCATCGCATAAGGA
* * * * *
5806410 GTTGGATC-GTCATCAAT-TTTTTTCTCTATTCTATCACAGAAGGATATAGATCATCAATGACA-
65 GTTGGATCAAT-ATCAATATTTTGT-TCGATTCTATCACAGAAGGATATAGATCAGCAATAACAT
5806472 TATCA
128 TAT-A
*
5806477 TTCGATTCCATTACAGAATGAGGTGGATCGATATTTTCATTTCACTCAAATCCATCGCATAAGGA
1 TTCGATTCCATCACAGAA-GAGGTGGATCGATATTTTCATTTCACTCAAATCCATCGCATAAGGA
* *
5806542 GTTGGATCAATATCAATATTTTGTTCGATTCTATCACAGAAGGATGTAGATCAGCACTAACATTA
65 GTTGGATCAATATCAATATTTTGTTCGATTCTATCACAGAAGGATATAGATCAGCAATAACATTA
*
5806607 TG
130 TA
* * *
5806609 TTTGATTCCATCACAGAAGAAGGTGGATCAATATTGTCATTT
1 TTCGATTCCATCACAGAAG-AGGTGGATCGATATTTTCATTT
5806651 TTTCTAGATT
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.01
132 139 0.93
133 9 0.06
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (131 bp):
TTCGATTCCATCACAGAAGAGGTGGATCGATATTTTCATTTCACTCAAATCCATCGCATAAGGAG
TTGGATCAATATCAATATTTTGTTCGATTCTATCACAGAAGGATATAGATCAGCAATAACATTAT
A
Found at i:5807863 original size:119 final size:121
Alignment explanation
Indices: 5807729--5808042 Score: 535
Period size: 121 Copynumber: 2.6 Consensus size: 121
5807719 CTCTTATTAC
*
5807729 TCGACTTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCA
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCA
* *
5807794 TTAAC-TTTTTATTTTA-TTTATTTTATTTTTATATATTTGTTTGCTTTATTCTAT
66 CTAACTTTTTTATTTTATTTTATTTTATTTTTATATATTTGTTTGCATTATTCTAT
* * *
5807848 TCGGCCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCGGACTCCGCTAACCA
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCA
5807913 CTAACTTTTTTATTTTATTTTATTTTATTTTTATATATTTGTTTGCATTATTCTAT
66 CTAACTTTTTTATTTTATTTTATTTTATTTTTATATATTTGTTTGCATTATTCTAT
* *
5807969 TCGACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGATTCAGACTCTGCTAACCG
1 TCGACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCA
5808034 CTAA-TTTTT
66 CTAACTTTTT
5808043 CTAATTTACT
Statistics
Matches: 182, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
119 65 0.36
120 16 0.09
121 101 0.55
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (121 bp):
TCGACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCA
CTAACTTTTTTATTTTATTTTATTTTATTTTTATATATTTGTTTGCATTATTCTAT
Found at i:5808090 original size:24 final size:25
Alignment explanation
Indices: 5808063--5808114 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
5808053 AACATTTTAG
5808063 CTTTTA-TTTTATTGTTCATACTAA
1 CTTTTATTTTTATTGTTCATACTAA
* *
5808087 CTTTTATTTTTATTGTTCTTATTAA
1 CTTTTATTTTTATTGTTCATACTAA
5808112 CTT
1 CTT
5808115 ACTAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (25 bp):
CTTTTATTTTTATTGTTCATACTAA
Found at i:5810315 original size:2 final size:2
Alignment explanation
Indices: 5810310--5810335 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5810300 ATTTTTTTCA
5810310 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5810336 TCTAATAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5813102 original size:13 final size:12
Alignment explanation
Indices: 5813084--5813124 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
5813074 CTTTAATCTA
5813084 AATTTATTATAAT
1 AATTTATT-TAAT
5813097 AATTTATTTAA-
1 AATTTATTTAAT
5813108 AATTTATTTAAAT
1 AATTTATTT-AAT
5813121 AATT
1 AATT
5813125 GTGATGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.35
12 5 0.19
13 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTTATTTAAT
Found at i:5813102 original size:24 final size:24
Alignment explanation
Indices: 5813079--5813124 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5813069 TATTTCTTTA
5813079 ATCT-AAATTTA-TTATAATAATTT
1 ATCTAAAATTTATTTA-AATAATTT
*
5813102 ATTTAAAATTTATTTAAATAATT
1 ATCTAAAATTTATTTAAATAATT
5813125 GTGATGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 14 0.70
25 3 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATCTAAAATTTATTTAAATAATTT
Found at i:5813120 original size:10 final size:11
Alignment explanation
Indices: 5813083--5813119 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
5813073 TCTTTAATCT
5813083 AAATTTATTATA
1 AAATTTATT-TA
5813095 ATAATTTATTTA
1 A-AATTTATTTA
5813107 AAATTTATTTA
1 AAATTTATTTA
5813118 AA
1 AA
5813120 TAATTGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.50
12 4 0.17
13 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATTTATTTA
Found at i:5817424 original size:15 final size:15
Alignment explanation
Indices: 5817405--5817458 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
5817395 TTTCTCACTC
5817405 AATATTTCATATGTT
1 AATATTTCATATGTT
* **
5817420 TATATTTCATA-AAT
1 AATATTTCATATGTT
5817434 AATATTTCATATGTT
1 AATATTTCATATGTT
*
5817449 GATATTTCAT
1 AATATTTCAT
5817459 TAGAATGTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (15 bp):
AATATTTCATATGTT
Found at i:5820849 original size:4 final size:4
Alignment explanation
Indices: 5820840--5820868 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
5820830 TCTCTCATCC
5820840 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
5820869 TTCCTTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:5821506 original size:3 final size:3
Alignment explanation
Indices: 5821498--5821561 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
5821488 TATGAAAAGA
* * *
5821498 AAT AAT AAT ATT AGT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAGTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T
*
5821545 AAT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
5821562 CCCGGACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 49 0.94
5 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:5821925 original size:41 final size:42
Alignment explanation
Indices: 5821879--5821981 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
5821869 GAAGGTCTTA
* * *
5821879 TAGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTGAC
1 TAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTGAC
* * *
5821921 -AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
1 TAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTGAC
5821963 TA-ATGGCCCGAAGGACTTA
1 TAGATGGCCCGAAGGACTTA
5821982 CCAATTTGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 17 0.33
42 33 0.65
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
TAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTGAC
Found at i:5822461 original size:42 final size:41
Alignment explanation
Indices: 5822394--5822476 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
5822384 CTTATGGATA
*
5822394 ACCCGAAGGACTTATCATCTCGCTCGAAAGACTGACTGATG
1 ACCCGAAGAACTTATCATCTCGCTCGAAAGACTGACTGATG
* *
5822435 ACCCGAAGAATTTAATCATCAT-GCTCGAAAGACTTACTGATG
1 ACCCGAAGAACTT-ATCATC-TCGCTCGAAAGACTGACTGATG
5822477 GCTCGAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 11 0.30
42 25 0.68
43 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
ACCCGAAGAACTTATCATCTCGCTCGAAAGACTGACTGATG
Found at i:5822645 original size:258 final size:258
Alignment explanation
Indices: 5821714--5822865 Score: 1429
Period size: 258 Copynumber: 4.5 Consensus size: 258
5821704 TCATGATGCT
* * *
5821714 CGAAAGACTTAACTAATTTTGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGT-TTTCTTA
1 CGAAGGACTT-ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATC-TCTTTCTTA
* * *
5821778 CTTTTCAAAAATTTCATTTTCTA-AAAATATTAAATGAGAAACTTTGGAAATCACTTTCCCA-TT
64 CTTTTCAAAAATTTCATTTTC-AGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTT
* * ** * *
5821841 TTT-CAAATCATGTGAAATCATCCTGCCTGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCT
128 TTTGAAAATCATGTGAAAACATCCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
* * * * * *
5821905 TGCTTGAAAGACTGACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGC
193 CGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGC
5821970 C
258 C
* * * *
5821971 CGAAGGACTTACCAATTTGGGAAATAGTTTACTGGGTATGAAAATTTGGAAATCTCTTTCTTACT
1 CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCTTTCTTACT
* * * *
5822036 TATCAAAAATTTCATTTTCTGAAAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTTT
66 TTTCAAAAATTTCATTTTCAGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTT
** * * * *
5822101 GAAGTTCATATGAAAACATCTCACTCGAAGGTCTTACT-AATTGGCCCGAAGGACTTATCATCTT
131 GAAAATCATGTGAAAACATCCCACCCGAAGGTCTTA-TGGA-TGGCCCGAAGGACTTATCATC-T
* ** * *
5822165 C-CTCGAAAGACTGACATATGACATAAAGGATTTAATCATCATGCTCAAAAGACTTATTGATGGT
193 CGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGC
5822229 C
258 C
* * *
5822230 TGAAGGACTTA-C-----T---AATAGTTTACTAGGTAAGAAACTTTAGAAATCACTTTCTTACT
1 CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCTTTCTTACT
* *
5822286 TTTCAAAAATTTCATTTTCAAGAAAATATTAAATGAGAAACTTTGGAAATCGTTTTCTCATTTTT
66 TTTCAAAAATTTCATTTTC-AGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTT
* * **
5822351 CGAAAATCATGTGAAAACATCCCACCTGAAGGTCTTATGGATAACCCGAAGGACTTATCATCTCG
130 TGAAAATCATGTGAAAACATCCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCG
* * * * *
5822416 CTCGAAAGACTGACTGATGACCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCT
195 CTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCC
* *
5822480 CGAAGGACCTACCAATTTTGGAAATAGTTTACTAGGCAAGAAACTTTGGAAATCT-TCTTCTTAC
1 CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCT-TTCTTAC
* * *
5822544 TTTTCAAAAGTTTTATTTTCAGAAAACATTAAATGAGAAACTTTGGAAATCGTTTTCTCATTTTT
65 TTTTCAAAAATTTCATTTTCAGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTT
* * * * *
5822609 TGAAAATTATGTGAAAACATCCCACCCGAAGGTCTTACGGATGGTCGGAAGGACTTATCATCTTG
130 TGAAAATCATGTGAAAACATCCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCG
* * * *
5822674 GTCGAAAGTCTTACAGATGACCCAAAGGATTTAATAATCATGCTCAAAAGACTTACTGAAT-GCC
195 CTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTG-ATGGCC
* * *
5822738 CGAAGGACATACCAATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACT
1 CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCTTTCTTACT
** * ** * *
5822803 TTTTGAAAATTTCTTTTTTTGAAAACATTAAATGAGAAACTTTGGAAATCGATTTCTTATTTT
66 TTTCAAAAATTTCATTTTCAGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTT
5822866 CAAGACAACT
Statistics
Matches: 767, Mismatches: 106, Indels: 43
0.84 0.12 0.05
Matches are distributed among these distances:
249 2 0.00
250 139 0.18
251 72 0.09
255 1 0.00
256 101 0.13
257 14 0.02
258 293 0.38
259 144 0.19
260 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (258 bp):
CGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCTTTCTTACT
TTTCAAAAATTTCATTTTCAGAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTT
GAAAATCATGTGAAAACATCCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCGC
TCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCC
Found at i:5835191 original size:16 final size:17
Alignment explanation
Indices: 5835166--5835204 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5835156 AAAAATACAA
5835166 ATAA-AAAATATA-ATT
1 ATAATAAAATATATATT
*
5835181 ATAATAAAATATATTTT
1 ATAATAAAATATATATT
5835198 ATAATAA
1 ATAATAA
5835205 CTCACTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATAAAATATATATT
Found at i:5837275 original size:15 final size:15
Alignment explanation
Indices: 5837252--5837286 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5837242 TCGGGGACTA
5837252 AAAAGGTCAATATCT
1 AAAAGGTCAATATCT
* *
5837267 AAAATGTCAATTTCT
1 AAAAGGTCAATATCT
5837282 AAAAG
1 AAAAG
5837287 ATTAAAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (15 bp):
AAAAGGTCAATATCT
Found at i:5839346 original size:79 final size:79
Alignment explanation
Indices: 5839212--5839365 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
5839202 GCTCTTCTTT
*
5839212 ATGAATTCTATACTGAAAATGTTGGTCCCTCGAGTGAGGCATTACTTATTCGAAATGTCGTGAAT
1 ATGAATTCTATACTGAAAATGTTGGTCCCTCGAGTGAGGCATTACTAATTCGAAATGTCGTGAAT
*
5839277 AGAGCCAAGGTTGA
66 AGAGCAAAGGTTGA
* * * * *
5839291 ATGAATTCTCTACTGGAAATGTTGGTCCCTCGAGTGAGGCGTTGCTAATTGGAAATGTCGTGAAT
1 ATGAATTCTATACTGAAAATGTTGGTCCCTCGAGTGAGGCATTACTAATTCGAAATGTCGTGAAT
*
5839356 CGAGCAAAGG
66 AGAGCAAAGG
5839366 AAATGAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (79 bp):
ATGAATTCTATACTGAAAATGTTGGTCCCTCGAGTGAGGCATTACTAATTCGAAATGTCGTGAAT
AGAGCAAAGGTTGA
Found at i:5839458 original size:94 final size:94
Alignment explanation
Indices: 5839291--5839464 Score: 222
Period size: 94 Copynumber: 1.9 Consensus size: 94
5839281 CCAAGGTTGA
* * * * * *
5839291 ATGAATTCTCTACTGGAAATGTTGGTCCCTCGAGTGAGGCGTTGCTAATTGGAAATGTCGTGAAT
1 ATGAATTCTCTAATGGAAATGTTAGTCCCTCGAGTGAGACGTTGCTAATTCGAAATATCGTAAAT
* *
5839356 CGAGCAAAGGAAATGAATAAGTTCTTCTC
66 CAAACAAAGGAAATGAATAAGTTCTTCTC
* * * * *
5839385 ATGAATTCTCTAATGGAAATGTTAGTGCCTCGAGTGAGACTTTGTTGATTCTAAATATCGTAAAT
1 ATGAATTCTCTAATGGAAATGTTAGTCCCTCGAGTGAGACGTTGCTAATTCGAAATATCGTAAAT
*
5839450 CAAACAAAGGTAATG
66 CAAACAAAGGAAATG
5839465 TTAATTCCTC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
94 66 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (94 bp):
ATGAATTCTCTAATGGAAATGTTAGTCCCTCGAGTGAGACGTTGCTAATTCGAAATATCGTAAAT
CAAACAAAGGAAATGAATAAGTTCTTCTC
Found at i:5839494 original size:59 final size:59
Alignment explanation
Indices: 5839430--5839658 Score: 300
Period size: 59 Copynumber: 3.9 Consensus size: 59
5839420 GAGACTTTGT
* * * * * * * *
5839430 TGATTCTAAATATCGTAAATCAAACAAAGGTAATGTTAATTCCTCGAGTGAGGCGTCGC
1 TGATTCGAAATGTCGTGAATCTAACAAAGGAAATGTTAATCCCTCAAGTGAGGCATCGC
*
5839489 TGATTCGAAATGTCGTGAATCTAGCAAA--AAATGTTAATCCCTCAAGTGAGGCATCGC
1 TGATTCGAAATGTCGTGAATCTAACAAAGGAAATGTTAATCCCTCAAGTGAGGCATCGC
** * * * *
5839546 TGATTTAAAATGTCATGATTCGAACAAAGGTAATGTTAATCCCTCAAGTGAGGCATCGC
1 TGATTCGAAATGTCGTGAATCTAACAAAGGAAATGTTAATCCCTCAAGTGAGGCATCGC
*
5839605 TGATTCGAAATGTCGTGAATCTAGCAAAGGAAATGTTAATCCCTCAAGTGAGGC
1 TGATTCGAAATGTCGTGAATCTAACAAAGGAAATGTTAATCCCTCAAGTGAGGC
5839659 GTAGTTTATT
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
57 47 0.32
59 98 0.68
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (59 bp):
TGATTCGAAATGTCGTGAATCTAACAAAGGAAATGTTAATCCCTCAAGTGAGGCATCGC
Found at i:5839733 original size:38 final size:37
Alignment explanation
Indices: 5839676--5840179 Score: 291
Period size: 38 Copynumber: 13.6 Consensus size: 37
5839666 ATTTTAAGAA
*
5839676 AAACAATCTCAAGTAAGATAAACTTCTTGTTTCAAGTG
1 AAACAATCTCAAGTGAGATAAA-TTCTTGTTTCAAGTG
* * * **
5839714 AAACTATCTCAAGCGAGAT-AATT-TT-TTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTCAAGTG
* * *
5839748 AAACAATTTCAAGTGAGATAAATATTTTGTTTCGAGTG
1 AAACAATCTCAAGTGAGATAAAT-TCTTGTTTCAAGTG
* ** * **
5839786 AAACTATCTCAAACGAGATAAATT-TTGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTCAAGTG
* * *
5839822 AAACAACCTCAAGTGAGATAAA-TCTTCTATTTCGAGTG
1 AAACAATCTCAAGTGAGATAAATTC-T-TGTTTCAAGTG
* * * * * * **
5839860 AAACTATCTCAAGCGAGATGAA-TATTATTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTCAAGTG
*
5839896 AAACAATCTCAAGTGAGATAAA-TCTTCTGTTTAAAGTG
1 AAACAATCTCAAGTGAGATAAATTC-T-TGTTTCAAGTG
* * **
5839934 AAACTATCTCAA-TCGAGATTAA-TCTT-TTTTTAG-G
1 AAACAATCTCAAGT-GAGATAAATTCTTGTTTCAAGTG
* *
5839968 AAAACAATCTCAAGTGGGATAAA-TCTTCTGTTTCGAGTG
1 -AAACAATCTCAAGTGAGATAAATTC-T-TGTTTCAAGTG
* * * * * ***
5840007 AAACTATCTCAAGCGATATGAA-TCTTGTTTTATGAAAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTCA--AGTG
*
5840045 AAACAACCTCAAGTGAGATAAA-TCTTATGTTTCAAGTG
1 AAACAATCTCAAGTGAGATAAATTC-T-TGTTTCAAGTG
* * * *
5840083 AAACTATCTCAAGTGAGATAAATTTTTTGCTTCTAGTG
1 AAACAATCTCAAGTGAGATAAA-TTCTTGTTTCAAGTG
* * * * * **
5840121 AAACCATCTCATGCGAGATGAA-TCTTGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTCTTGTTTCAAGTG
5840157 AAACAATCTCAAGTGAGATAAAT
1 AAACAATCTCAAGTGAGATAAAT
5840180 CTTATGTATT
Statistics
Matches: 349, Mismatches: 94, Indels: 47
0.71 0.19 0.10
Matches are distributed among these distances:
34 23 0.07
35 30 0.09
36 90 0.26
37 12 0.03
38 184 0.53
39 3 0.01
40 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (37 bp):
AAACAATCTCAAGTGAGATAAATTCTTGTTTCAAGTG
Found at i:5839855 original size:74 final size:73
Alignment explanation
Indices: 5839667--5840110 Score: 590
Period size: 74 Copynumber: 6.0 Consensus size: 73
5839657 GCGTAGTTTA
*
5839667 TTTTAAGAAAAACAATCTCAAGTAAGATAAA-CTTCTTGTTTCAAGTGAAACTATCTCAAGCGAG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTC-TGTTTCAAGTGAAACTATCTCAAGCGAG
5839731 AT-AATTTT
65 ATAAATTTT
* * * * *
5839739 TTTTAAGAAAAACAATTTCAAGTGAGATAAATATTTTGTTTCGAGTGAAACTATCTCAAACGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
5839804 TAAATTTT
66 TAAATTTT
* * *
5839812 GTTTTAAGAAAAACAACCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAG
1 -TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAG
* *
5839877 ATGAATATTA
65 ATAAAT-TTT
* *
5839887 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTAAAGTGAAACTATCTCAATCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
*
5839952 TTAATCTTT
66 TAAAT-TTT
* * * *
5839961 TTTT-AGGAAAACAATCTCAAGTGGGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGATA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
*
5840025 TGAATCTTGT
66 TAAAT-TT-T
* * *
5840035 TTTATGAA-AAAAACAACCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTATCTCAAGTGA
1 TTT-T-AAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGA
5840099 GATAAATTTT
64 GATAAATTTT
5840109 TT
1 TT
5840111 GCTTCTAGTG
Statistics
Matches: 327, Mismatches: 37, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
72 57 0.17
73 69 0.21
74 140 0.43
75 5 0.02
76 55 0.17
77 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
TAAATTTT
Found at i:5840044 original size:147 final size:146
Alignment explanation
Indices: 5839667--5840110 Score: 617
Period size: 147 Copynumber: 3.0 Consensus size: 146
5839657 GCGTAGTTTA
* *
5839667 TTTTAAGAAAAACAATCTCAAGTAAGATAAA-CTTCTTGTTTCAAGTGAAACTATCTCAAGCGAG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTC-TGTTTCGAGTGAAACTATCTCAAGCGAG
* * * * *
5839731 AT-AATTTTTTTTAAGAAAAACAATTTCAAGTGAGATAAATATTTTGTTTCGAGTGAAACTATCT
65 ATGAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTATCT
*
5839795 CAAACGAGATAAATTTT
130 CAATCGAGATAAATTTT
* *
5839812 GTTTTAAGAAAAACAACCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAG
1 -TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAG
* *
5839877 ATGAATATTATTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTAAAGTGAAACTATC
65 ATGAAT-TTATTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTATC
*
5839942 TCAATCGAGATTAATCTTT
129 TCAATCGAGATAAAT-TTT
* * *
5839961 TTTT-AGGAAAACAATCTCAAGTGGGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGATA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
* * *
5840025 TGAATCTTGTTTTATGAAAAAAACAACCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTAT
66 TGAAT-TTATTTTA--AGAAAAACAATCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTAT
5840090 CTCAAGT-GAGATAAATTTT
128 CTCAA-TCGAGATAAATTTT
5840109 TT
1 TT
5840111 GCTTCTAGTG
Statistics
Matches: 267, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
146 57 0.21
147 74 0.28
148 74 0.28
149 61 0.23
150 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (146 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
TGAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTATGTTTCAAGTGAAACTATCTC
AATCGAGATAAATTTT
Found at i:5850474 original size:85 final size:86
Alignment explanation
Indices: 5850385--5850543 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 86
5850375 TCCCCACTTG
* *** *
5850385 TTTATAATTTTATAAAATAATTTTATGAAAAG-TCTTATTT-TTCTAATTTTATAGAATTGTCCC
1 TTTATAATTTAATAAAATAATAAAATGAAAAGATCTTATTTGTT-TAATTGTATAGAATTGTCCC
5850448 CACTTTCTATCTTAATTATAAT
65 CACTTTCTATCTTAATTATAAT
*
5850470 TTTATTATTTAATAAAATAATAAAATGAAAAGACTCTTATTTGTTTAATTGTATAGAATTGTCCC
1 TTTATAATTTAATAAAATAATAAAATGAAAAGA-TCTTATTTGTTTAATTGTATAGAATTGTCCC
5850535 CACTTTCTA
65 CACTTTCTA
5850544 ACGTAAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 27 0.42
87 36 0.55
88 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (86 bp):
TTTATAATTTAATAAAATAATAAAATGAAAAGATCTTATTTGTTTAATTGTATAGAATTGTCCCC
ACTTTCTATCTTAATTATAAT
Found at i:5850831 original size:24 final size:27
Alignment explanation
Indices: 5850783--5850831 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
5850773 ATAAGAAGTT
*
5850783 TTTTATTGACAAAATAAAATTAATTTG
1 TTTTATTGACAAAATAAAATAAATTTG
5850810 TTTTATT-A-AAAATAAAA-AAATT
1 TTTTATTGACAAAATAAAATAAATT
5850832 CAAAATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 1 0.05
27 7 0.33
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTTATTGACAAAATAAAATAAATTTG
Found at i:5857880 original size:20 final size:20
Alignment explanation
Indices: 5857825--5857884 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
5857815 AATGTTTTTA
*
5857825 TGAATAGTA-CATATATTGTA
1 TGAATAGTACCA-ATATTGTG
*
5857845 TGAATAGTATCAATATTGTG
1 TGAATAGTACCAATATTGTG
* *
5857865 TTAATAGTACCGATATTGTG
1 TGAATAGTACCAATATTGTG
5857885 GAACATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 33 0.94
21 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (20 bp):
TGAATAGTACCAATATTGTG
Found at i:5876602 original size:29 final size:29
Alignment explanation
Indices: 5876564--5876643 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
5876554 TAGGAAAAGG
*
5876564 GTCATAGTTTAGGGATGAAATTATAATGT
1 GTCAAAGTTTAGGGATGAAATTATAATGT
* *
5876593 -TCAAAAGTTTATGGACT-AATTTATAATGT
1 GTC-AAAGTTTAGGGA-TGAAATTATAATGT
*
5876622 GTCATAGTTT-GAGGATGAAATT
1 GTCAAAGTTTAG-GGATGAAATT
5876644 GGAATGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
28 3 0.08
29 34 0.85
30 3 0.08
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (29 bp):
GTCAAAGTTTAGGGATGAAATTATAATGT
Found at i:5876650 original size:58 final size:59
Alignment explanation
Indices: 5876512--5876656 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 59
5876502 TTAGTTGAAC
*
5876512 TTAGGGATAAAATTGGAA-GATTCAAAAGTTTGGTGACTAATTTAGGAAAAGGGTCATAGT
1 TTAGGGATGAAATTGGAATG-TTCAAAAGTTTGGTGACTAATTTA-GAAAAGGGTCATAGT
** * * * *
5876572 TTAGGGATGAAATTATAATGTTCAAAAGTTT-ATGGACTAATTTA-TAATGTGTCATAGT
1 TTAGGGATGAAATTGGAATGTTCAAAAGTTTGGT-GACTAATTTAGAAAAGGGTCATAGT
*
5876630 TT-GAGGATGAAATTGGAATGTTAAAAA
1 TTAG-GGATGAAATTGGAATGTTCAAAA
5876657 AGTTAAGGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 33 0.46
59 1 0.01
60 36 0.50
61 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGGGATGAAATTGGAATGTTCAAAAGTTTGGTGACTAATTTAGAAAAGGGTCATAGT
Found at i:5876672 original size:58 final size:60
Alignment explanation
Indices: 5876546--5876692 Score: 144
Period size: 58 Copynumber: 2.5 Consensus size: 60
5876536 AAAGTTTGGT
* * * *
5876546 GACTAATTTAGGAAA-AGGGTCATAGTTT-AGGGATGAAATTATAATGTTCAAAAGTTTATG
1 GACTAATTTA--AAATAGAGTCATAGTTTGAGGGATGAAATTAGAATGTTAAAAAGTTTAAG
* * *
5876606 GACTAATTTATAAT-GTGTCATAGTTTGA-GGATGAAATTGGAATGTTAAAAAAG-TTAAG
1 GACTAATTTAAAATAGAGTCATAGTTTGAGGGATGAAATTAGAATGTT-AAAAAGTTTAAG
5876664 GA-TCAATTTAAAATGAGAGTCATAGTTTG
1 GACT-AATTTAAAAT-AGAGTCATAGTTTG
5876693 GGACATAGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
57 1 0.01
58 44 0.60
59 6 0.08
60 22 0.30
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (60 bp):
GACTAATTTAAAATAGAGTCATAGTTTGAGGGATGAAATTAGAATGTTAAAAAGTTTAAG
Found at i:5879881 original size:18 final size:18
Alignment explanation
Indices: 5879854--5879892 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5879844 CCGTAGGAGA
5879854 CCTCCAAATTATGAAATG
1 CCTCCAAATTATGAAATG
*
5879872 CCTCCGAATTATGAAATG
1 CCTCCAAATTATGAAATG
5879890 CCT
1 CCT
5879893 TATGTGGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (18 bp):
CCTCCAAATTATGAAATG
Found at i:5883162 original size:41 final size:41
Alignment explanation
Indices: 5883095--5883222 Score: 208
Period size: 41 Copynumber: 3.1 Consensus size: 41
5883085 CAAACCGGAT
5883095 AAAAAACT-GATTTTTTATCCGAAAAAAAAATCCGGTTTTTTA
1 AAAAAACTGGA-TTTTTATCCG-AAAAAAAATCCGGTTTTTTA
5883137 AAAAAACTGGATTTTTATCCGAAAAAAAATCCGGTTTTTTA
1 AAAAAACTGGATTTTTATCCGAAAAAAAATCCGGTTTTTTA
*
5883178 AAAAAACTGGATTTTTATCCG--AAAAAATCCGGTTTTTAA
1 AAAAAACTGGATTTTTATCCGAAAAAAAATCCGGTTTTTTA
5883217 AAAAAA
1 AAAAAA
5883223 ACCGGTTTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
39 23 0.27
41 41 0.49
42 18 0.21
43 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (41 bp):
AAAAAACTGGATTTTTATCCGAAAAAAAATCCGGTTTTTTA
Found at i:5886146 original size:3 final size:3
Alignment explanation
Indices: 5886138--5886167 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5886128 GATTGGTGCT
5886138 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5886168 AAACCTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5892469 original size:31 final size:31
Alignment explanation
Indices: 5892432--5892490 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
5892422 TACAGTCCCT
5892432 TAATATTTAGTCTATTTGTAATATGGTCTCC
1 TAATATTTAGTCTATTTGTAATATGGTCTCC
*
5892463 TAATATTTAGTCTATTTTTAATATGGTC
1 TAATATTTAGTCTATTTGTAATATGGTC
5892491 CCCGACCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (31 bp):
TAATATTTAGTCTATTTGTAATATGGTCTCC
Found at i:5897158 original size:18 final size:18
Alignment explanation
Indices: 5897112--5897149 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5897102 AGCTGCTTAG
*
5897112 GACGACGACGATGACGAT
1 GACGACGACAATGACGAT
*
5897130 GACGACGACAATGATGAT
1 GACGACGACAATGACGAT
5897148 GA
1 GA
5897150 TGATGACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (18 bp):
GACGACGACAATGACGAT
Found at i:5897161 original size:21 final size:21
Alignment explanation
Indices: 5897121--5897161 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5897111 GGACGACGAC
*
5897121 GATGACGATGACGACGACAAT
1 GATGACGATGACGACAACAAT
* *
5897142 GATGATGATGATGACAACAA
1 GATGACGATGACGACAACAA
5897162 AGAGTGATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.17
Consensus pattern (21 bp):
GATGACGATGACGACAACAAT
Found at i:5901586 original size:7 final size:8
Alignment explanation
Indices: 5901567--5901593 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
5901557 AATGATTTTT
5901567 TTTTTAGA
1 TTTTTAGA
5901575 TTTTTAGA
1 TTTTTAGA
5901583 TTTTTAGA
1 TTTTTAGA
5901591 TTT
1 TTT
5901594 ACATGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (8 bp):
TTTTTAGA
Found at i:5902212 original size:2 final size:2
Alignment explanation
Indices: 5902205--5902267 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
5902195 GTGTTTAGAG
5902205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5902247 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
5902268 CGATTAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5903638 original size:32 final size:32
Alignment explanation
Indices: 5903602--5903714 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 32
5903592 GCATTATATG
5903602 GATGCAATACTGACTCTACTGTACTTTATCTA
1 GATGCAATACTGACTCTACTGTACTTTATCTA
* *
5903634 GATGCAATACTGACTCTACTGT-GTATTATCAA
1 GATGCAATACTGACTCTACTGTACT-TTATCTA
* * * *
5903666 AATGTAATACTGACCCTGA-TGTACATTATCT-
1 GATGCAATACTGACTCT-ACTGTACTTTATCTA
*
5903697 GAATACAATACTGACTCT
1 G-ATGCAATACTGACTCT
5903715 GCTATACGAC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
31 1 0.02
32 63 0.97
33 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (32 bp):
GATGCAATACTGACTCTACTGTACTTTATCTA
Found at i:5907296 original size:21 final size:20
Alignment explanation
Indices: 5907272--5907342 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
5907262 TTACCAAGAA
*
5907272 GATCGATCCCTCAAGGAAAAG
1 GATCGATCCCTC-ACGAAAAG
*
5907293 GATCGATCCCTTCACCAAAAG
1 GATCGATCCC-TCACGAAAAG
* *
5907314 GATAGATCCCTCGATGAAAAG
1 GATCGATCCCTC-ACGAAAAG
5907335 GATCGATC
1 GATCGATC
5907343 TATTCCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
GATCGATCCCTCACGAAAAG
Found at i:5907322 original size:42 final size:42
Alignment explanation
Indices: 5907252--5907342 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
5907242 TGAGTTTGTA
* *
5907252 ATCGATCCCTTTACCAAGAAGATCGATCCCTCAAGGAAAAGG
1 ATCGATCCCTTCACCAAGAAGATAGATCCCTCAAGGAAAAGG
* *
5907294 ATCGATCCCTTCACCAA-AAGGATAGATCCCTCGATGAAAAGG
1 ATCGATCCCTTCACCAAGAA-GATAGATCCCTCAAGGAAAAGG
5907336 ATCGATC
1 ATCGATC
5907343 TATTCCCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (42 bp):
ATCGATCCCTTCACCAAGAAGATAGATCCCTCAAGGAAAAGG
Found at i:5924713 original size:3 final size:3
Alignment explanation
Indices: 5924698--5924761 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
5924688 AAAGAAAAAA
*
5924698 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5924745 AAT AAT AA- AAT AGAT AA
1 AAT AAT AAT AAT A-AT AA
5924762 CAAAGAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5924776 original size:22 final size:22
Alignment explanation
Indices: 5924748--5924793 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
5924738 TAATAATAAT
*
5924748 AATAAAA-TAGATAACAAAGAAA
1 AATAAAAGTAG-TAAAAAAGAAA
5924770 AATAAAAGTTAGTAAAAAAGAAA
1 AATAAAAG-TAGTAAAAAAGAAA
5924793 A
1 A
5924794 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AATAAAAGTAGTAAAAAAGAAA
Found at i:5924812 original size:13 final size:12
Alignment explanation
Indices: 5924692--5924831 Score: 61
Period size: 12 Copynumber: 10.8 Consensus size: 12
5924682 AAAGAGAAAG
*
5924692 AAAAAAAATATT
1 AAAAAAAATAAT
*
5924704 AATATAATAATAAT
1 AA-A-AAAAATAAT
5924718 AATAATAATAATAAT
1 AA-AA-AA-AATAAT
* *
5924733 AATAATAATAAT
1 AAAAAAAATAAT
5924745 AATAATAAAATAGAT
1 AA-AA-AAAATA-AT
5924760 AACAAAGAAA-AAT
1 AA-AAA-AAATAAT
** *
5924773 AAAAGTTAGTAA-
1 AAAA-AAAATAAT
5924785 AAAAGAAAATAAT
1 AAAA-AAAATAAT
5924798 AAAAAAAATAGAT
1 AAAAAAAATA-AT
5924811 -AAAAAAATAAAT
1 AAAAAAAAT-AAT
*
5924823 AAAGAAAAT
1 AAAAAAAAT
5924832 GACCAAAATG
Statistics
Matches: 99, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
12 38 0.38
13 24 0.24
14 20 0.20
15 17 0.17
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAAAAATAAT
Found at i:5924839 original size:25 final size:24
Alignment explanation
Indices: 5924790--5924839 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
5924780 AGTAAAAAAG
*
5924790 AAAATAATAAAAAAAATAGATAAA
1 AAAATAATAAAAAAAATAGACAAA
* *
5924814 AAAATAAATAAAGAAAAT-GACCAA
1 AAAAT-AATAAAAAAAATAGACAAA
5924838 AA
1 AA
5924840 TGAATGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATAATAAAAAAAATAGACAAA
Found at i:5926578 original size:106 final size:106
Alignment explanation
Indices: 5926418--5926950 Score: 717
Period size: 106 Copynumber: 5.0 Consensus size: 106
5926408 TACTGTTCCA
* * * * * * * * *
5926418 AGTCCAATATCCTCCGCTGTGGAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
5926483 CAGCGGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* * **
5926524 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGCCTTTGAAATTGGGAAGTTGTTTGTTGACAGT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * * *
5926589 CAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTG
66 CAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGTGTTGTCTGG
* * * * *
5926630 AGTCCAATATCATTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
5926695 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* *
5926736 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGATGCTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
5926801 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* *
5926842 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
** * *
5926907 CAGCTATCCCTTCGTCGTGAAGTTGAACTTGTGCTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
5926948 AGT
1 AGT
5926951 GGCACGATAT
Statistics
Matches: 372, Mismatches: 53, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
106 371 1.00
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
Found at i:5927423 original size:123 final size:120
Alignment explanation
Indices: 5927251--5927589 Score: 364
Period size: 123 Copynumber: 2.8 Consensus size: 120
5927241 ATCCAAAGAT
* *
5927251 TTTGTTTCAAGGGAAATTGTTTTCAAAGTTTATGTTTAAAAAGAGACTGTCTCAAGGGAGACAAA
1 TTTGTTTCAAGGGAAA-TGTTTTCAAAGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAGACAAA
* * *
5927316 ATTTGTTTCAAGGGATACTATCTCAA-A-ACT-TGTTTCTAGGGGAACT-GATTCAAGTATT
65 ATTTGTTTCAAGGGA-ACTATCTCAAGATACTGTGTTTCAAGGGAAACTAGA--CAA--A-A
** *
5927374 TTGTGTTTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
1 TT-TGTTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAGACAAA
* * * **
5927439 ACTCGTTTCTAGGGGAACTGAT-TCAAGTATTTTGTGTTTCAAGGGAAACTAGACAAAA
65 ATTTGTTTC-AAGGGAACT-ATCTCAAG-ATACTGTGTTTCAAGGGAAACTAGACAAAA
** * * *
5927497 TTCATTTGAAGAGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAA
5927562 TTTTGTTTCAAGGGAAACTATCTCAAGA
66 -TTTGTTTCAAGGG-AACTATCTCAAGA
5927590 GAGACAAAAT
Statistics
Matches: 181, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
122 62 0.34
123 76 0.42
124 22 0.12
125 1 0.01
126 4 0.02
127 14 0.08
128 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (120 bp):
TTTGTTTCAAGGGAAATGTTTTCAAAGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAA
TTTGTTTCAAGGGAACTATCTCAAGATACTGTGTTTCAAGGGAAACTAGACAAAA
Found at i:5927569 original size:37 final size:37
Alignment explanation
Indices: 5927528--5927702 Score: 138
Period size: 37 Copynumber: 5.0 Consensus size: 37
5927518 TCAATGTTTA
*
5927528 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
5927565 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
** * * *
5927601 CATTTCAAGTGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAAATTT
5927629 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * *
5927667 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
5927703 CATTTCAAGG
Statistics
Matches: 106, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
28 2 0.02
29 16 0.15
30 2 0.02
32 1 0.01
33 1 0.01
35 1 0.01
36 18 0.17
37 62 0.58
38 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:5927602 original size:102 final size:102
Alignment explanation
Indices: 5927489--5927788 Score: 519
Period size: 102 Copynumber: 2.9 Consensus size: 102
5927479 AAGGGAAACT
* *
5927489 AGACAAAATTCATTTGAAGAGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTGTCTCAAGGG
1 AGACAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
5927554 AGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAG
66 AGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAG
*
5927591 AGACAAAATTCATTTCAAGTGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
1 AGACAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
*
5927656 AGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGCG
66 AGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAG
* * * *
5927693 AGATAAAATTCATTTCAAGGGTAATGTGTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
1 AGACAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
*
5927758 AAACAAAATTTTGTTTCAAGGGAAACTATCT
66 AGACAAAATTTTGTTTCAAGGGAAACTATCT
5927789 TAATGTCTTT
Statistics
Matches: 189, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 189 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
AGACAAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGG
AGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAG
Found at i:5929175 original size:20 final size:20
Alignment explanation
Indices: 5929147--5929196 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
5929137 CTTTTTGTCC
5929147 CTTTTTCTTTTTGATT-TTTG
1 CTTTTTCTTTTTG-TTCTTTG
5929167 -TTCTTTCTTTTTGTTCTTTG
1 CTT-TTTCTTTTTGTTCTTTG
5929187 CTTTTTCTTT
1 CTTTTTCTTT
5929197 GTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.15
20 21 0.78
21 2 0.07
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (20 bp):
CTTTTTCTTTTTGTTCTTTG
Found at i:5929178 original size:14 final size:14
Alignment explanation
Indices: 5929147--5929192 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
5929137 CTTTTTGTCC
*
5929147 CTTTTTCTT-TTTG
1 CTTTTTGTTCTTTG
*
5929160 ATTTTTGTTCTTT-
1 CTTTTTGTTCTTTG
5929173 CTTTTTGTTCTTTG
1 CTTTTTGTTCTTTG
5929187 CTTTTT
1 CTTTTT
5929193 CTTTGTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.76
Consensus pattern (14 bp):
CTTTTTGTTCTTTG
Found at i:5929205 original size:13 final size:13
Alignment explanation
Indices: 5929156--5929202 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
5929146 CCTTTTTCTT
5929156 TTTGATTTTTGTTC
1 TTTG-TTTTTGTTC
*
5929170 TTTCTTTTTGTTC
1 TTTGTTTTTGTTC
*
5929183 TTTG-CTTT-TTC
1 TTTGTTTTTGTTC
5929194 TTTGTTTTT
1 TTTGTTTTT
5929203 TTTTCTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 7 0.25
12 6 0.21
13 12 0.43
14 3 0.11
ACGTcount: A:0.02, C:0.11, G:0.11, T:0.77
Consensus pattern (13 bp):
TTTGTTTTTGTTC
Found at i:5932241 original size:3 final size:3
Alignment explanation
Indices: 5932226--5932274 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
5932216 AAAGAAAAAA
*
5932226 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
5932273 AA
1 AA
5932275 CAAAGAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5932326 original size:28 final size:27
Alignment explanation
Indices: 5932255--5932336 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
5932245 TAATAATAAT
*
5932255 AATAATAAT-AAAATAGATAACAAAGA
1 AATAATAATAAAAATAGATAAAAAAGA
**
5932281 AA-AAT-A-AAATTTAG-TAAAAAAGAA
1 AATAATAATAAAAATAGATAAAAAAG-A
*
5932305 AATAATAATAAAAATAGATAAAAAATA
1 AATAATAATAAAAATAGATAAAAAAGA
5932332 AATAA
1 AATAA
5932337 AGAAAATGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
23 7 0.16
24 9 0.20
25 6 0.14
26 3 0.07
27 12 0.27
28 7 0.16
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (27 bp):
AATAATAATAAAAATAGATAAAAAAGA
Found at i:5950817 original size:15 final size:15
Alignment explanation
Indices: 5950797--5950826 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5950787 ATTTTTATCT
5950797 TTTGAAAAATTACTC
1 TTTGAAAAATTACTC
5950812 TTTGAAAAATTACTC
1 TTTGAAAAATTACTC
5950827 CACCTTACTA
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:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
TTTGAAAAATTACTC
Found at i:5953049 original size:20 final size:21
Alignment explanation
Indices: 5953026--5953082 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
5953016 AAACCCGACT
* *
5953026 AGGGGTATCGATACCCA-TCG
1 AGGGGTATCGATACACATTCA
5953046 AGGGGTATCGATACACATTCA
1 AGGGGTATCGATACACATTCA
5953067 AGGAGGGTATCGATAC
1 A-G-GGGTATCGATAC
5953083 TGCATGAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 16 0.50
21 3 0.09
22 1 0.03
23 12 0.38
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (21 bp):
AGGGGTATCGATACACATTCA
Found at i:5953119 original size:21 final size:21
Alignment explanation
Indices: 5953095--5953147 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
5953085 CATGAACATT
*
5953095 TATCGATACCTATTG-AATTAG
1 TATCGATACCTA-TGCAAGTAG
*
5953116 TATCGATA-CTATGCTAGTAG
1 TATCGATACCTATGCAAGTAG
5953136 TATCGATACCTA
1 TATCGATACCTA
5953148 GCTAGAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (21 bp):
TATCGATACCTATGCAAGTAG
Found at i:5961081 original size:39 final size:38
Alignment explanation
Indices: 5960964--5961095 Score: 112
Period size: 39 Copynumber: 3.6 Consensus size: 38
5960954 TTCAAAAAAT
* *
5960964 ATAAATTCAATGATTTATTTCTTCTAAAATAATATGAAA
1 ATAAATCCAATGATTTATTTCTTCTAAAA-AATAGGAAA
* ** **
5961003 ATAAATCTAAAAATTTA-TT-TTCT-AAAACGAGG--A
1 ATAAATCCAATGATTTATTTCTTCTAAAAAATAGGAAA
* *
5961036 AGAAATCCAATGATTTATTTCATTTTAAAAAATAGGAAA
1 ATAAATCCAATGATTTATTTC-TTCTAAAAAATAGGAAA
* *
5961075 ATAAATCAAACGATTTATTTC
1 ATAAATCCAATGATTTATTTC
5961096 CTTATACGAA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
33 14 0.20
34 2 0.03
35 3 0.04
36 6 0.09
37 11 0.16
38 2 0.03
39 32 0.46
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (38 bp):
ATAAATCCAATGATTTATTTCTTCTAAAAAATAGGAAA
Found at i:5961108 original size:39 final size:40
Alignment explanation
Indices: 5961038--5961135 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 40
5961028 AACGAGGAAG
* * * *
5961038 AAATCCAATGATTTATTTCATTTTAAAAAATAG-GAAAAT
1 AAATCAAACGATTTATTTCATTATAAAAAATAGAAAAAAT
* **
5961077 AAATCAAACGATTTATTTCCTTATACGAAATAGAAAAAAT
1 AAATCAAACGATTTATTTCATTATAAAAAATAGAAAAAAT
* * *
5961117 TAATTATACGATTTATTTC
1 AAATCAAACGATTTATTTC
5961136 TTTTTACATA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 27 0.56
40 21 0.44
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (40 bp):
AAATCAAACGATTTATTTCATTATAAAAAATAGAAAAAAT
Found at i:5961112 original size:72 final size:72
Alignment explanation
Indices: 5960960--5961112 Score: 177
Period size: 72 Copynumber: 2.1 Consensus size: 72
5960950 TAAGTTCAAA
* * * *
5960960 AAATATAAATTCAATGATTTATTTCTTCTAAAATAATATGAAAATAAATCTAAAAATTTATTTTC
1 AAATAGAAATCCAATGATTTATTTCTTCTAAAATAATAGGAAAATAAATCTAAAAATTTATTTCC
5961025 TAAAACG
66 TAAAACG
* * *
5961032 AGGA-AGAAATCCAATGATTTATTTCATTTTAAAA-AATAGGAAAATAAATC-AAACGATTTATT
1 A-AATAGAAATCCAATGATTTATTTC-TTCTAAAATAATAGGAAAATAAATCTAAA-AATTTATT
* *
5961094 TCCTTATACG
63 TCCTAAAACG
5961104 AAATAGAAA
1 AAATAGAAA
5961113 AAATTAATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
71 4 0.06
72 55 0.82
73 8 0.12
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (72 bp):
AAATAGAAATCCAATGATTTATTTCTTCTAAAATAATAGGAAAATAAATCTAAAAATTTATTTCC
TAAAACG
Found at i:5961287 original size:58 final size:56
Alignment explanation
Indices: 5961224--5961352 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 56
5961214 AAATTATATT
* * *
5961224 ATTTATTTTCATTTATAAACTGGAATCATTAAAGATTC-ATAGGAAAATAAATTCAAC
1 ATTTATTTACATTTATAAAATAGAATCATTAAAGATTCTA-AGG-AAATAAATTCAAC
* * *
5961281 GATTTATTTACTTTTATAAAATAGAATCATTCAAGATTCTCAAGGAAATAAATTGAAC
1 -ATTTATTTACATTTATAAAATAGAATCATTAAAGATTCT-AAGGAAATAAATTCAAC
*
5961339 AGTTTATTTCCATT
1 A-TTTATTTACATT
5961353 ACAATGTTAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.02
58 55 0.92
59 3 0.05
60 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (56 bp):
ATTTATTTACATTTATAAAATAGAATCATTAAAGATTCTAAGGAAATAAATTCAAC
Found at i:5961594 original size:45 final size:45
Alignment explanation
Indices: 5961545--5961666 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
5961535 TTTAGCAAAC
* *
5961545 CAATAATAAAAAGTAACTAATCCTTTGATTTTAATTTTTGCAACG
1 CAATAATAAAAAGTAACTAATCCTTTGATTTTAATTTTGGCAACA
*
5961590 CAATAATAAAAA-TGAACTAATCCTTTGATTTTACTTTTGGCAACA
1 CAATAATAAAAAGT-AACTAATCCTTTGATTTTAATTTTGGCAACA
* * * *
5961635 CAATAATTAAAAGGAACTAGTCCTTTGGTTTT
1 CAATAATAAAAAGTAACTAATCCTTTGATTTT
5961667 TTACTTTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 67 0.99
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (45 bp):
CAATAATAAAAAGTAACTAATCCTTTGATTTTAATTTTGGCAACA
Found at i:5961686 original size:47 final size:43
Alignment explanation
Indices: 5961541--5961694 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 43
5961531 TAAGTTTAGC
* * *
5961541 AAACCAATAATAAAAAGTAACTAATCCTTTGATTTTAATTTTTG
1 AAACCAATAATAAAAAGGAACTAATCCTTTG-TTTTTACTTTTG
* * *
5961585 CAACGCAATAATAAAAATGAACTAATCCTTTGATTTTACTTTTGG
1 AAAC-CAATAATAAAAAGGAACTAATCCTTTGTTTTTACTTTT-G
* * *
5961630 CAACACAATAATTAAAAGGAACTAGTCCTTTGGTTTTTTACTTTTG
1 AAAC-CAATAATAAAAAGGAACTAATCCTTT-G-TTTTTACTTTTG
*
5961676 AAAACTCAATAATCAAAAG
1 -AAAC-CAATAATAAAAAG
5961695 TCTTGGATTA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
44 11 0.12
45 53 0.58
46 2 0.02
47 25 0.27
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (43 bp):
AAACCAATAATAAAAAGGAACTAATCCTTTGTTTTTACTTTTG
Found at i:5964879 original size:2 final size:2
Alignment explanation
Indices: 5964872--5964914 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5964862 TTTTAAACAT
5964872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5964914 T
1 T
5964915 TTGAAGAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5989083 original size:17 final size:17
Alignment explanation
Indices: 5989061--5989098 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5989051 TTAAATGAAA
5989061 GAACTAATGTAATAAAT
1 GAACTAATGTAATAAAT
* *
5989078 GAACTAATGTATTCAAT
1 GAACTAATGTAATAAAT
5989095 GAAC
1 GAAC
5989099 CAGATGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (17 bp):
GAACTAATGTAATAAAT
Found at i:5998400 original size:45 final size:45
Alignment explanation
Indices: 5998336--5998424 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
5998326 AAATAAGAAG
5998336 TCTTAGGGAATAAGTTGGGTAATGCTGGTAATAGCTCCAACATAA
1 TCTTAGGGAATAAGTTGGGTAATGCTGGTAATAGCTCCAACATAA
* *
5998381 TCTTAGGGAATAAGTTGGGTAATGTTGTTAATAGCTCCAACATA
1 TCTTAGGGAATAAGTTGGGTAATGCTGGTAATAGCTCCAACATA
5998425 GTGAGAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (45 bp):
TCTTAGGGAATAAGTTGGGTAATGCTGGTAATAGCTCCAACATAA
Found at i:6000214 original size:15 final size:15
Alignment explanation
Indices: 6000194--6000229 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6000184 TTGATAATTT
*
6000194 TTTTAATATTTTATA
1 TTTTAATAATTTATA
6000209 TTTTAATAATTTATA
1 TTTTAATAATTTATA
6000224 TTTTAA
1 TTTTAA
6000230 AAAATAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAATAATTTATA
Found at i:6000421 original size:21 final size:21
Alignment explanation
Indices: 6000386--6000444 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6000376 ACATTTTTCT
*
6000386 ATATTCTAATTTTTTTAAATAA
1 ATATT-TAATATTTTTAAATAA
* * **
6000408 TTCTTTAATATTTTGGAATAA
1 ATATTTAATATTTTTAAATAA
6000429 ATATTTAATATTTTTA
1 ATATTTAATATTTTTA
6000445 TAATTATAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
ATATTTAATATTTTTAAATAA
Found at i:6000458 original size:18 final size:18
Alignment explanation
Indices: 6000435--6000485 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
6000425 ATAAATATTT
6000435 AATATTTTTATAATTATA
1 AATATTTTTATAATTATA
*
6000453 AATATTTTTATAACTTTTA
1 AATATTTTTATAA-TTATA
*
6000472 AAT-TCTTTATAATT
1 AATATTTTTATAATT
6000486 TCAAGAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 21 0.70
19 7 0.23
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTTTTATAATTATA
Found at i:6000573 original size:26 final size:26
Alignment explanation
Indices: 6000458--6000600 Score: 66
Period size: 26 Copynumber: 5.5 Consensus size: 26
6000448 TTATAAATAT
*
6000458 TTTTATAACT-TTTAA-ATTCTTTATAA
1 TTTTA-AACTATTTAATATT-TTTCTAA
* *
6000484 TTTCAAGAATATTTAATA-TTTT-TAA
1 TTTTAA-ACTATTTAATATTTTTCTAA
** *
6000509 TTTTAAA-TAATTTTTTATTTTTCAAA
1 TTTTAAACT-ATTTAATATTTTTCTAA
*** * *
6000535 AGATAGACAATTTAATATTTTTCTAA
1 TTTTAAACTATTTAATATTTTTCTAA
*
6000561 TTTTAAACTATTTTTAGA-ATTTTTGTAA
1 TTTTAAACTA--TTTA-ATATTTTTCTAA
6000589 TTTTAAA-TATTT
1 TTTTAAACTATTT
6000601 CTAAATAAAA
Statistics
Matches: 87, Mismatches: 20, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.01
24 7 0.08
25 16 0.18
26 33 0.38
27 8 0.09
28 21 0.24
29 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (26 bp):
TTTTAAACTATTTAATATTTTTCTAA
Found at i:6002514 original size:19 final size:20
Alignment explanation
Indices: 6002482--6002523 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6002472 TGTATATTAG
*
6002482 AAAAAAAAATTAAAATTTTT
1 AAAAAAAAATTAAAATTATT
*
6002502 AAAAATAAA-TAAAATTATT
1 AAAAAAAAATTAAAATTATT
6002521 AAA
1 AAA
6002524 TTTTAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAAAATTAAAATTATT
Found at i:6002765 original size:3 final size:3
Alignment explanation
Indices: 6002757--6002794 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6002747 GACGTTTTTA
6002757 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6002795 CTGCTACTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6005218 original size:131 final size:131
Alignment explanation
Indices: 6004853--6005218 Score: 507
Period size: 131 Copynumber: 2.8 Consensus size: 131
6004843 ATCGATATTG
* * * * * *
6004853 AGAATAGTAATATCTTTTCATTTCGGTTTGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTAGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * * * * *
6004918 TTTATTCTCGATTGGAAATAATTTGATATTATCATTCTCTCTCGAATTAATATTGATTTTTAAGA
66 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGA
*
6004983 T
131 C
* * * *
6004984 GGAATAATGATATCTCTTCATTTCGATTAGAGCAATAAATGACTGCTTTAAGGTATGAAAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTAGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * *
6005049 TTTATTCTCAATTGGAAATCATTAGATATTATCGTTTTCACTCGAATCGATATTGAATTTTAAGA
66 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGA
6005114 C
131 C
* *
6005115 ATAATAGTGATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTAGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * *
6005180 TTTATTCTCTATTGGAAATAATTAGATATCATTATTTTC
66 TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTC
6005219 TCTCTTAAAA
Statistics
Matches: 204, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 204 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (131 bp):
AGAATAGTGATATCTCTTCATTTCGATTAGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCA
TTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGA
C
Found at i:6014984 original size:7 final size:7
Alignment explanation
Indices: 6014974--6015047 Score: 68
Period size: 6 Copynumber: 10.7 Consensus size: 7
6014964 CTAAAGAATA
6014974 AAAAATG
1 AAAAATG
6014981 AAAAATG
1 AAAAATG
6014988 -AAAATG
1 AAAAATG
6014994 AAAAATG
1 AAAAATG
6015001 -AAAATG
1 AAAAATG
6015007 -AAAATG
1 AAAAATG
6015013 -AAAA-G
1 AAAAATG
*
6015018 AAAGAAAG
1 AAA-AATG
6015026 AAAAAAATG
1 --AAAAATG
6015035 AAAAATAG
1 AAAAAT-G
6015043 AAAAA
1 AAAAA
6015048 AATGAAATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
5 1 0.02
6 24 0.41
7 21 0.36
8 7 0.12
9 3 0.05
10 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:6014993 original size:13 final size:13
Alignment explanation
Indices: 6014975--6015020 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
6014965 TAAAGAATAA
6014975 AAAATGAAAAATG
1 AAAATGAAAAATG
6014988 AAAATGAAAAATG
1 AAAATGAAAAATG
6015001 AAAATG-AAAATG
1 AAAATGAAAAATG
6015013 AAAA-GAAA
1 AAAATGAAA
6015021 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.03
12 12 0.38
13 19 0.59
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:6015037 original size:17 final size:17
Alignment explanation
Indices: 6014973--6015054 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 17
6014963 CCTAAAGAAT
*
6014973 AAAAAATGAAAAATGAAA
1 AAAAAATGAAAAAT-AGA
6014991 ATGAAAAATG-AAAAT-GA
1 A--AAAAATGAAAAATAGA
*
6015008 AAATGAAAAGAAAGAA-AGA
1 AAA--AAATGAAA-AATAGA
6015027 AAAAAATGAAAAATAGA
1 AAAAAATGAAAAATAGA
6015044 AAAAAATGAAA
1 AAAAAATGAAA
6015055 TAAAAAAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 27 0.51
18 3 0.06
19 12 0.23
20 7 0.13
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAATAGA
Found at i:6015076 original size:56 final size:56
Alignment explanation
Indices: 6014973--6015100 Score: 149
Period size: 56 Copynumber: 2.3 Consensus size: 56
6014963 CCTAAAGAAT
* * * *
6014973 AAAAAATGAAAAAT-GAAAATGAAAAATGAAAATGAAAATGAAAAG-AAAGAAAGA
1 AAAAAATGAAAAATAGAAAATAAAAAATAAAAAAGAAAATGAAAAGAAAACAAAGA
6015027 AAAAAATGAAAAATAGAAAA-AAATGAAATAAAAAAGAAAGA-GAAAAGAAAACAAAGA
1 AAAAAATGAAAAATAGAAAATAAA--AAATAAAAAAGAAA-ATGAAAAGAAAACAAAGA
*
6015084 AAAAAAT-AAAAAGAGAA
1 AAAAAATGAAAAATAGAA
6015101 TGAATGAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
54 16 0.25
55 5 0.08
56 27 0.42
57 16 0.25
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.09
Consensus pattern (56 bp):
AAAAAATGAAAAATAGAAAATAAAAAATAAAAAAGAAAATGAAAAGAAAACAAAGA
Found at i:6015099 original size:30 final size:28
Alignment explanation
Indices: 6015006--6015100 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 28
6014996 AAATGAAAAT
* *
6015006 GAAAATGAAAAGAAAGAAAGAAAAAAATGA
1 GAAAA-GAAAA-AAAGAAAAAAAAAAAAGA
*
6015036 AAAATAGAAAAAAATGAAATAAAAAAGAAAGA
1 GAAA-AGAAAAAAA-GAAA-AAAAAA-AAAGA
6015068 GAAAAGAAAACAAAGAAAAAAATAAAAAGA
1 GAAAAGAAAA-AAAGAAAAAAA-AAAAAGA
6015098 GAA
1 GAA
6015101 TGAATGAAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
29 3 0.05
30 24 0.44
31 18 0.33
32 10 0.18
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (28 bp):
GAAAAGAAAAAAAGAAAAAAAAAAAAGA
Found at i:6016561 original size:134 final size:134
Alignment explanation
Indices: 6016332--6017045 Score: 804
Period size: 134 Copynumber: 5.3 Consensus size: 134
6016322 GCAAATCGAA
** * * * * *
6016332 CTCGATTCAATAATCCCTAAAGAACAGCGGAATGAATCAACGTCCCTAGATCTTATTTTCCTTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * *
6016397 AGAAGAAGAAGAACAAATCCCTTTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGAGCAAGT
66 AGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGAACAAGT
*
6016462 CTGC
131 CTAC
* * * * * * *
6016466 CTCGATTTAATCTTCCTTGAAGAAAAGTGGAATGAATCAACGTCCCTATATCTAATTTTCCCTCG
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* *
6016531 AGAAAAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAACAA-TAGAACAAG
66 AGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAA-AAGTGGAACAAG
6016595 TCTAC
130 TCTAC
* * * *
6016600 CCCGATTCAATATTCCCTG-AGTAATAGTGGAATGAATCAGCGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * *
6016664 AAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTTATAGTGGAACATG
65 AAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGAACAAG
*
6016729 TCTGC
130 TCTAC
* *
6016734 CTCGATTCAATCTTCTCTG-AGTAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTACCTC
1 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* *** * * *
6016798 AAGAAAAAATGGAACATATCCATCTCTTTCAAGATTTGATATTTCCTTGAGTAATAGTGGAACAA
65 AAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCC-TGAGTAAAAGTGGAACAA
*
6016863 ATCTAC
129 GTCTAC
* * * *
6016869 CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAATGTCCCCAGATCTGATTTTTCCTCG
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
* * * * * * ** * * * * * * *
6016934 AGAAGAAGCGGAAAAGATCCATCTCATTGAAGATTTGATCTCACATAACTAACACTGGAGCAAGA
66 AGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGAACAAGT
6016999 CTAC
131 CTAC
* * * *
6017003 CTCGATTCAGTCATCCCTGAAGAATAGTGGAATGAGTCAACGT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGT
6017046 TTCTCAATAT
Statistics
Matches: 494, Mismatches: 81, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
133 3 0.01
134 376 0.76
135 113 0.23
136 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGAACAAGT
CTAC
Found at i:6028336 original size:2 final size:2
Alignment explanation
Indices: 6028331--6028357 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6028321 TTATATCCTT
6028331 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6028358 TCAAAGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6032724 original size:18 final size:18
Alignment explanation
Indices: 6032701--6032745 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6032691 TAGTTTGATT
*
6032701 AATGAACTAACATTGTTC
1 AATGAACTAACATTATTC
*
6032719 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
6032737 AATGAACTA
1 AATGAACTA
6032746 GATGCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:6036143 original size:18 final size:18
Alignment explanation
Indices: 6036120--6036162 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6036110 GTTTGATTAT
*
6036120 TGAACTAAAATTGTTCAA
1 TGAACTAAAATTATTCAA
**
6036138 TGAACTAACTTTATTCAA
1 TGAACTAAAATTATTCAA
6036156 TGAACTA
1 TGAACTA
6036163 GATGCATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (18 bp):
TGAACTAAAATTATTCAA
Found at i:6039089 original size:40 final size:41
Alignment explanation
Indices: 6039034--6039197 Score: 226
Period size: 40 Copynumber: 4.0 Consensus size: 41
6039024 TCTCAGTATC
6039034 ACTTTTTACCTTTATAATTGAGC-CTAATTTTTTCAATCAT
1 ACTTTTTACCTTTATAATTGAGCTCTAATTTTTTCAATCAT
6039074 ACTTTTTACCTTTATAATTGAGC-CTAATTTTTTCAATCAT
1 ACTTTTTACCTTTATAATTGAGCTCTAATTTTTTCAATCAT
* *
6039114 ACTTTTTACCTTTATAGTTGAAGTCTCTAATTTTTTCAAT-TT
1 ACTTTTTACCTTTATAATTG-AG-CTCTAATTTTTTCAATCAT
* *
6039156 CACTTTTTACATTTATAATTGATGCTTCTAATTTTTTTAATC
1 -ACTTTTTACCTTTATAATTGA-GC-TCTAATTTTTTCAATC
6039198 CCACTTTCTA
Statistics
Matches: 112, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
40 59 0.53
41 2 0.02
42 4 0.04
43 47 0.42
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.52
Consensus pattern (41 bp):
ACTTTTTACCTTTATAATTGAGCTCTAATTTTTTCAATCAT
Found at i:6039161 original size:43 final size:42
Alignment explanation
Indices: 6039030--6039249 Score: 227
Period size: 43 Copynumber: 5.3 Consensus size: 42
6039020 GAAGTCTCAG
6039030 TATCACTTTTTACCTTTATAATTG-AGC-CTAATTTTTTCAA
1 TATCACTTTTTACCTTTATAATTGAAGCTCTAATTTTTTCAA
6039070 TCAT-ACTTTTTACCTTTATAATTG-AGC-CTAATTTTTTCAA
1 T-ATCACTTTTTACCTTTATAATTGAAGCTCTAATTTTTTCAA
*
6039110 TCAT-ACTTTTTACCTTTATAGTTGAAGTCTCTAATTTTTTCAA
1 T-ATCACTTTTTACCTTTATAATTGAAG-CTCTAATTTTTTCAA
* * * *
6039153 TTTCACTTTTTACATTTATAATTGATGCTTCTAATTTTTTTAA
1 TATCACTTTTTACCTTTATAATTGAAGC-TCTAATTTTTTCAA
** * ** * * *
6039196 TCCCACTTTCTATTTTTATAATTAATATCTCTAATTATTTCAA
1 TATCACTTTTTACCTTTATAATTGA-AGCTCTAATTTTTTCAA
*
6039239 TTTCACTTTTT
1 TATCACTTTTT
6039250 TTCTTTTACA
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
40 60 0.39
41 4 0.03
42 3 0.02
43 86 0.56
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.04, T:0.53
Consensus pattern (42 bp):
TATCACTTTTTACCTTTATAATTGAAGCTCTAATTTTTTCAA
Found at i:6040809 original size:14 final size:13
Alignment explanation
Indices: 6040788--6040821 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6040778 ATTTAATGTA
6040788 AATTTTATTGTTTT
1 AATTTTATT-TTTT
*
6040802 AGTTTTATTTTTT
1 AATTTTATTTTTT
6040815 AATTTTA
1 AATTTTA
6040822 AATATAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
AATTTTATTTTTT
Found at i:6041052 original size:96 final size:96
Alignment explanation
Indices: 6040944--6041120 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 96
6040934 TTTAAATTAT
* * ** * *
6040944 AATTATTAGACTATTTATATTGATTTTACATATTAAGTTGTATTTGAGTAGTTTGGTAAGTTTAG
1 AATTATTAGACTATTTATATTGATTTTACAAATTAAATCATATTTAAGTAGCTTGGTAAGTTTA-
*
6041009 TTT-GAATTATATTTTTTTATTGAGTAATATA
65 TTTAAAATTATATTTTTTTATTGAGTAATATA
* * *
6041040 AATTATTAGACTATTTATTTTTATTTTACAAATTAAATCATATTTAAGTGGCTTGGTAAGTTTAT
1 AATTATTAGACTATTTATATTGATTTTACAAATTAAATCATATTTAAGTAGCTTGGTAAGTTTAT
*
6041105 TTAAAATTTTATTTTT
66 TTAAAATTATATTTTT
6041121 AAATTTTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
95 3 0.04
96 66 0.96
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (96 bp):
AATTATTAGACTATTTATATTGATTTTACAAATTAAATCATATTTAAGTAGCTTGGTAAGTTTAT
TTAAAATTATATTTTTTTATTGAGTAATATA
Found at i:6048304 original size:20 final size:20
Alignment explanation
Indices: 6048279--6048336 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
6048269 ATTTAAATAA
6048279 ATTTTAAATAATATAAATTGC
1 ATTTTAAATAATATAAATT-C
*
6048300 A-TTTAATATTAAT-TAAATTT
1 ATTTTAA-A-TAATATAAATTC
6048320 ATTTTAAATAA-ATAAAT
1 ATTTTAAATAATATAAAT
6048337 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
19 8 0.25
20 7 0.22
21 13 0.41
22 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTTTAAATAATATAAATTC
Found at i:6055994 original size:36 final size:36
Alignment explanation
Indices: 6055950--6056088 Score: 224
Period size: 36 Copynumber: 3.9 Consensus size: 36
6055940 ATTTATCCAT
6055950 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* * * *
6055986 TATTAGCTTTGTTACATGCCTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
6056022 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
6056058 TATCAGCTTTGATGCATCCGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
6056089 CCAGCACCGT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:6061396 original size:64 final size:62
Alignment explanation
Indices: 6061252--6061434 Score: 212
Period size: 64 Copynumber: 2.9 Consensus size: 62
6061242 AGTTTTTGTC
* * * *
6061252 TCTCTTGAGACGGTATCTTTTGAAACATAAATCTTTGAGCATGTTTCATTT-AAA-AAAATTA
1 TCTCTTGAGACAGTATCTTTTGAAAGAAAAATCTTTGAGTATGTTTC-TTTGAAACAAAATTA
* * * *
6061313 TCTCTTGGGACAGTTTCTTTT-AAAGAAAAATCTTTAAGTATGTTTCTTTGGAAACAAAATTTTG
1 TCTCTTGAGACAGTATCTTTTGAAAGAAAAATCTTTGAGTATGTTTCTTT-GAAACAAAA--TTA
*
6061377 TCTCTTGAGACAGTATCTTTTGAAAG-AAAATCTTTGAGTCTGTTTCTCTTGAAACAAA
1 TCTCTTGAGACAGTATCTTTTGAAAGAAAAATCTTTGAGTATGTTTCT-TTGAAACAAA
6061435 CATCTTTGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
59 3 0.03
60 21 0.20
61 21 0.20
62 4 0.04
64 48 0.47
65 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (62 bp):
TCTCTTGAGACAGTATCTTTTGAAAGAAAAATCTTTGAGTATGTTTCTTTGAAACAAAATTA
Found at i:6061442 original size:30 final size:29
Alignment explanation
Indices: 6061396--6061465 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
6061386 ACAGTATCTT
*
6061396 TTGAAAGAAAATCTTTGAG-TC-TGTTTCTC
1 TTGAAACAAAATCTTTGAGATCGT-TTTC-C
6061425 TTGAAACAAACATCTTTGAGATCGTTTTCC
1 TTGAAACAAA-ATCTTTGAGATCGTTTTCC
*
6061455 TTGAAAAAAAA
1 TTGAAACAAAA
6061466 ATTTGTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 10 0.28
30 19 0.53
31 6 0.17
32 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (29 bp):
TTGAAACAAAATCTTTGAGATCGTTTTCC
Found at i:6061835 original size:127 final size:126
Alignment explanation
Indices: 6061532--6061861 Score: 331
Period size: 127 Copynumber: 2.6 Consensus size: 126
6061522 GAAACCATTC
* * * *
6061532 TCCCTAAAGATGGTCTATCATCCTCATCACGTAGGAATTGTGTCATC-CCTGACCAGACCTTCTC
1 TCCCTAAAGATGGTCTATCATCCTCATCACGTAGGAATCGTGTCATCTCCCGACCAGACCTCCTT
* * ** * ** *
6061596 ATCACATAGGAGCTGTGTCACCCTTGATAATCAGTTGTCCTCATCGTATAGGAATCATGTTATCG
66 ATCAC----GAGCTATGTCACCCTAGATAATCAACTATCCTCATCACATAGGAATCATGTTATCA
* * * * * *
6061661 CCCTCTGTAAAGATGGCCTACCATCCTCATTACGTAGGAACCATGTCATCTCCCGACCAGACCTC
1 TCC-C--TAAAGATGGTCTATCATCCTCATCACGTAGGAATCGTGTCATCTCCCGACCAGACCTC
* * *
6061726 CTTATCACGAG-TCATGTCACCCCTAGATAATCAACTATCCTCATCACGTAGGAATCGTTTTATC
63 CTTATCACGAGCT-ATGTCA-CCCTAGATAATCAACTATCCTCATCACATAGGAATCATGTTATC
6061790 A
126 A
* * * * *
6061791 TCCCTAAAGATGGTTTATCATCCTCATCATGTAGGAATCGTGTCATCTCCCAACTAGACTTCCTT
1 TCCCTAAAGATGGTCTATCATCCTCATCACGTAGGAATCGTGTCATCTCCCGACCAGACCTCCTT
6061856 ATCACG
66 ATCACG
6061862 TAGAAGTCGT
Statistics
Matches: 163, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
127 57 0.35
128 1 0.01
129 11 0.07
130 38 0.23
132 37 0.23
133 19 0.12
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (126 bp):
TCCCTAAAGATGGTCTATCATCCTCATCACGTAGGAATCGTGTCATCTCCCGACCAGACCTCCTT
ATCACGAGCTATGTCACCCTAGATAATCAACTATCCTCATCACATAGGAATCATGTTATCA
Found at i:6062285 original size:123 final size:123
Alignment explanation
Indices: 6062061--6062292 Score: 290
Period size: 123 Copynumber: 1.9 Consensus size: 123
6062051 CGTCCTCAAC
* * *
6062061 AACAAACAATTTACCCGAAAATGACTAGATCTCTTCAAAACGGATGAGCAAGCGTCATCTTCAAC
1 AACAAACAATTAACCCGAAAATGACTAGATCTCTTCAAAACGAATAAGCAAGCGTCATCTTCAAC
* *
6062126 ATCAAATTATCTTCTGATTGACCCGATTTCCTCAACGCGAAGGAATAGTGTCATCTTT
66 ATCAAATTATCTTCAGATTGACCCGATCTCCTCAACGCGAAGGAATAGTGTCATCTTT
* * * * *
6062184 AACACACAATTAACCTGAAAATGACCTA-ATCTCTTCAACACGAATAAGCAA-TGTCGTCTTCAA
1 AACAAACAATTAACCCGAAAATGA-CTAGATCTCTTCAAAACGAATAAGCAAGCGTCATCTTCAA
* * * *
6062247 CA-CTAAGTTATTTTCCAGATTGACTCGATCTCCTCAACGTGAAGGA
65 CATC-AAATTATCTT-CAGATTGACCCGATCTCCTCAACGCGAAGGA
6062293 GCCGAGTCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
121 1 0.01
122 20 0.22
123 68 0.74
124 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (123 bp):
AACAAACAATTAACCCGAAAATGACTAGATCTCTTCAAAACGAATAAGCAAGCGTCATCTTCAAC
ATCAAATTATCTTCAGATTGACCCGATCTCCTCAACGCGAAGGAATAGTGTCATCTTT
Found at i:6062609 original size:220 final size:221
Alignment explanation
Indices: 6062139--6062721 Score: 643
Period size: 220 Copynumber: 2.7 Consensus size: 221
6062129 AAATTATCTT
* * * * *
6062139 CTGATTGACCCGATTTCCTCAACGCGAAGGAATAGT-GTCATCTTTAACACACAATTAACCTGAA
1 CTGATTGACCCGATTTCCTCAACTCGAAGGAACA-TCGTCATCTTCAACAAACAATTTACCTGAA
* * * * *
6062203 AATGACCT--AATCTCTTCAACACGAATAAGCAATGTCGTCTTCAACACTAAGTTATTTTCCAGA
65 AATGA-CTAGAATCTCTTCAATACGAATGAGCAGTGTCGTCTTCAACAC-AAATTATCTTCCAGA
* * * **
6062266 TTGACTCGATCTCCTCAACGTGAAGGAGCCGAGTCATCCTCAGACAATTAGATTTCCTCAACGAA
128 TTAACTCGATCTCCTCAACGCGAAGGAGCCAAGTCATCCTCAGACAACCAGATTTCCTCAACGAA
* *
6062331 AAGGAACCATGTTATCTCAAAATTATCTC
193 AAGGAACCATGTTATCTCAAAATCATATC
6062360 CTGATTGACCCGATTTCCTCAACTCGAAGGAACATCGTCATCTTCAACAAACAATTTACCTGAAA
1 CTGATTGACCCGATTTCCTCAACTCGAAGGAACATCGTCATCTTCAACAAACAATTTACCTGAAA
* * * * *
6062425 ATGACTAGAAT-TCTTCAATAAGGATGAGCAGTTTTGTCTTCAACATCAAATTATCTT-CAGGTT
66 ATGACTAGAATCTCTTCAATACGAATGAGCAGTGTCGTCTTCAACA-CAAATTATCTTCCAGATT
* * **
6062488 AAC-CTGATCTCCTCAACGCGAATGAG-CAACGTCATCCTCAGATAACCAGATTTCCTCAACGCG
130 AACTC-GATCTCCTCAACGCGAAGGAGCCAA-GTCATCCTCAGACAACCAGATTTCCTCAACGAA
* * *
6062551 AAGGAACCGTGTTGTCTCCAAATCATAT-
193 AAGGAACCATGTTATCTCAAAATCATATC
* * * * *
6062579 CTAGATTGGCTCGATTTCCTCAATTCGAAGGAACATCATCATCTTCAACAAACAATTTATCT-AA
1 CT-GATTGACCCGATTTCCTCAACTCGAAGGAACATCGTCATCTTCAACAAACAATTTACCTGAA
* * * *
6062643 AAGCGACCAG-ATCTCTTCAATACGAATGAGTAGTGTCGTCTTCAACACCAA--A-CTTTCCAGA
65 AA-TGACTAGAATCTCTTCAATACGAATGAGCAGTGTCGTCTTCAACACAAATTATC-TTCCAGA
*
6062704 TTAATTCGATCTCCTCAA
128 TTAACTCGATCTCCTCAA
6062722 AATCCAAATA
Statistics
Matches: 306, Mismatches: 44, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
216 1 0.00
217 3 0.01
218 18 0.06
219 15 0.05
220 168 0.55
221 97 0.32
222 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (221 bp):
CTGATTGACCCGATTTCCTCAACTCGAAGGAACATCGTCATCTTCAACAAACAATTTACCTGAAA
ATGACTAGAATCTCTTCAATACGAATGAGCAGTGTCGTCTTCAACACAAATTATCTTCCAGATTA
ACTCGATCTCCTCAACGCGAAGGAGCCAAGTCATCCTCAGACAACCAGATTTCCTCAACGAAAAG
GAACCATGTTATCTCAAAATCATATC
Found at i:6064312 original size:28 final size:28
Alignment explanation
Indices: 6064267--6064321 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
6064257 TACTTTACTT
6064267 TTTTATCCTTTAATTTTCCAGTATTTTA
1 TTTTATCCTTTAATTTTCCAGTATTTTA
*
6064295 TTTTAGTCCTTTAA-TTTCCAGTTTTTT
1 TTTTA-TCCTTTAATTTTCCAGTATTTT
6064322 TAATTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTATCCTTTAATTTTCCAGTATTTTA
Found at i:6064322 original size:29 final size:29
Alignment explanation
Indices: 6064267--6064328 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
6064257 TACTTTACTT
6064267 TTTTATCCTTTAATTTTCCAGTATTTT-A
1 TTTTATCCTTTAATTTTCCAGTATTTTAA
*
6064295 TTTTAGTCCTTTAA-TTTCCAGTTTTTTTAA
1 TTTTA-TCCTTTAATTTTCCAG-TATTTTAA
6064325 TTTT
1 TTTT
6064329 CTGTATTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 12 0.40
29 13 0.43
30 5 0.17
ACGTcount: A:0.19, C:0.13, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTATCCTTTAATTTTCCAGTATTTTAA
Found at i:6066029 original size:19 final size:20
Alignment explanation
Indices: 6066005--6066042 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6065995 TCCATTGTCC
6066005 GTTGACT-TTTACTTTGACT
1 GTTGACTATTTACTTTGACT
6066024 GTTGACTATTTACTTTGAC
1 GTTGACTATTTACTTTGAC
6066043 CAAAAAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (20 bp):
GTTGACTATTTACTTTGACT
Found at i:6069919 original size:14 final size:14
Alignment explanation
Indices: 6069887--6069913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6069877 GAAGCCTGAG
6069887 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
6069901 GAGCCGTTTGAGC
1 GAGCCGTTTGAGC
6069914 TTAGCCAAGC
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:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:6069924 original size:19 final size:19
Alignment explanation
Indices: 6069895--6069963 Score: 120
Period size: 19 Copynumber: 3.6 Consensus size: 19
6069885 AGGAGCCGTT
6069895 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
* *
6069914 TTAGCCAAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
6069933 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
6069952 TGAGCCGAGCCG
1 TGAGCCGAGCCG
6069964 AGCCGCCTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:6069938 original size:14 final size:14
Alignment explanation
Indices: 6069887--6069939 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
6069877 GAAGCCTGAG
*
6069887 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCT
6069901 GAGCCGTTTGAGCTT
1 GAGCCGTTTGAGC-T
6069916 AGCCAAGCCGTTTGAGCT
1 -G---AGCCGTTTGAGCT
6069934 GAGCCG
1 GAGCCG
6069940 AGCCGTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 18 0.55
16 1 0.03
17 1 0.03
18 1 0.03
19 12 0.36
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (14 bp):
GAGCCGTTTGAGCT
Found at i:6069978 original size:24 final size:24
Alignment explanation
Indices: 6069928--6069982 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
6069918 CCAAGCCGTT
* * *
6069928 TGAGCTGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGAGCCGCTAGAGC
6069952 TGAGCCGAGCCGAGCCGCCTAGA-C
1 TGAGCCGAGCCGAGCCG-CTAGAGC
6069976 TGAGCCG
1 TGAGCCG
6069983 TTTACTGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.18, C:0.31, G:0.36, T:0.15
Consensus pattern (24 bp):
TGAGCCGAGCCGAGCCGCTAGAGC
Found at i:6072495 original size:24 final size:24
Alignment explanation
Indices: 6072406--6072500 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
6072396 TTATCCGATT
* * *
6072406 TCTGATTTGAATTCTGTTTTGACA
1 TCTGATCTGAATTCTGTTCTGATA
*
6072430 TCTGATCTGAAATCTGTTCTGAT-
1 TCTGATCTGAATTCTGTTCTGATA
* * *
6072453 TCCTAACCTGGATTCTGTTCTGATA
1 T-CTGATCTGAATTCTGTTCTGATA
* *
6072478 TCTGATCTGAATTATGTTTTGAT
1 TCTGATCTGAATTCTGTTCTGAT
6072501 TTATGATATC
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 1 0.02
24 54 0.96
25 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.46
Consensus pattern (24 bp):
TCTGATCTGAATTCTGTTCTGATA
Found at i:6072675 original size:2 final size:2
Alignment explanation
Indices: 6072668--6072702 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6072658 CGGATGGGGG
6072668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6072703 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6074644 original size:19 final size:19
Alignment explanation
Indices: 6074620--6074706 Score: 156
Period size: 19 Copynumber: 4.6 Consensus size: 19
6074610 GAAGCATGAG
*
6074620 GAGCCGAGCCGCTTGAGCT
1 GAGCCGAGCCGTTTGAGCT
6074639 GAGCCGAGCCGTTTGAGCT
1 GAGCCGAGCCGTTTGAGCT
*
6074658 GAGCCAAGCCGTTTGAGCT
1 GAGCCGAGCCGTTTGAGCT
6074677 GAGCCGAGCCGTTTGAGCT
1 GAGCCGAGCCGTTTGAGCT
6074696 GAGCCGAGCCG
1 GAGCCGAGCCG
6074707 AGCCGCCTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (19 bp):
GAGCCGAGCCGTTTGAGCT
Found at i:6077339 original size:24 final size:24
Alignment explanation
Indices: 6077245--6077346 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
6077235 TTATCCGATT
* * *
6077245 TCTGATTTGAATTCTGTTTTGACA
1 TCTGATCTGAATTCTGTTCTGATA
*
6077269 TCTGATCTGAAATCTGTTCTGAT-
1 TCTGATCTGAATTCTGTTCTGATA
* *
6077292 TCCT-AACTTGGATTCTGTTCTGATA
1 T-CTGATC-TGAATTCTGTTCTGATA
* * *
6077317 TCTGATCTGAATTATGTTTTGATT
1 TCTGATCTGAATTCTGTTCTGATA
6077341 TCTGAT
1 TCTGAT
6077347 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
23 3 0.05
24 56 0.90
25 3 0.05
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATCTGAATTCTGTTCTGATA
Found at i:6078611 original size:13 final size:13
Alignment explanation
Indices: 6078593--6078618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6078583 AATCTTAAAG
6078593 GTGGTAGACAATA
1 GTGGTAGACAATA
6078606 GTGGTAGACAATA
1 GTGGTAGACAATA
6078619 ACATTAGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GTGGTAGACAATA
Found at i:6079396 original size:31 final size:31
Alignment explanation
Indices: 6079350--6079428 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
6079340 AGTTTCAAAA
* *
6079350 GTAACCAATTAGTCACTAACGTTATCAATTT
1 GTAACAAAATAGTCACTAACGTTATCAATTT
* * *
6079381 GTAACAACATGGTCACTTACGTTATCAATTT
1 GTAACAAAATAGTCACTAACGTTATCAATTT
6079412 GTAACAAAATAGTCACT
1 GTAACAAAATAGTCACT
6079429 CTATAGTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (31 bp):
GTAACAAAATAGTCACTAACGTTATCAATTT
Found at i:6079444 original size:31 final size:30
Alignment explanation
Indices: 6079350--6079444 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
6079340 AGTTTCAAAA
* *
6079350 GTAACCAATTAGTCAC-TAACGTTATCAATTT
1 GTAACAAAATAGTCACTTAA-GTTATC-ATTT
* * *
6079381 GTAACAACATGGTCACTTACGTTATCAATTT
1 GTAACAAAATAGTCACTTAAGTTATC-ATTT
6079412 GTAACAAAATAGTCACTCTATAGTTATC-TTT
1 GTAACAAAATAGTCACT-TA-AGTTATCATTT
6079443 GT
1 GT
6079445 TAAATTGATG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
31 43 0.81
32 4 0.08
33 6 0.11
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (30 bp):
GTAACAAAATAGTCACTTAAGTTATCATTT
Found at i:6082040 original size:3 final size:3
Alignment explanation
Indices: 6082032--6082099 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
6082022 TCGTAAAAAA
6082032 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6082080 TAT TAT TAT CAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
6082100 ACTTTTTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6083575 original size:16 final size:16
Alignment explanation
Indices: 6083554--6083593 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6083544 GTGCTTCAAT
*
6083554 TTTTGGTTGACTTATA
1 TTTTGGTCGACTTATA
6083570 TTTTGGTCGACTTATA
1 TTTTGGTCGACTTATA
6083586 TTTTGGTC
1 TTTTGGTC
6083594 CTTTGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.20, T:0.55
Consensus pattern (16 bp):
TTTTGGTCGACTTATA
Found at i:6088044 original size:36 final size:36
Alignment explanation
Indices: 6087951--6088065 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
6087941 TCTGTCGCTT
*** *
6087951 TTGAGACGATTTCTCTTGGAACAAAGTGTCGTCTCGC
1 TTGAGACGATTTCTCTAAAAACAAA-TTTCGTCTCGC
* * *
6087988 TAGAGAC-ATTTTTCTAAAAACAAATTTTGTCTCGC
1 TTGAGACGATTTCTCTAAAAACAAATTTCGTCTCGC
* *
6088023 TTGAGACGATTTCTCTCAAAACAAATTACGTCTCGC
1 TTGAGACGATTTCTCTAAAAACAAATTTCGTCTCGC
*
6088059 TGGAGAC
1 TTGAGAC
6088066 AGTTTTTTCT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
35 15 0.23
36 43 0.67
37 6 0.09
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (36 bp):
TTGAGACGATTTCTCTAAAAACAAATTTCGTCTCGC
Found at i:6088267 original size:66 final size:64
Alignment explanation
Indices: 6088161--6088330 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 64
6088151 GTTTTGTCTC
* *
6088161 TCTTGAAACACTCATCTTTGAGTTCGTTTCCCTTGAAACGAATTTTTTCTC-CTTTGAGACAGTT
1 TCTTGAAACACTCATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTATCTCTC-TTGAGACA-AT
6088225 TT
63 TT
* *
6088227 TCTTGAAACACCCATCATTGAGATCGTTTCCCTTGAAACGAATTTTATCTCTCTTGAGACAATTT
1 TCTTGAAACACTCATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTATCTCTCTTGAGACAATTT
* *
6088292 CCATTGAAACA-TCATCTTTGAGTCTATTTCCCTTGAAAC
1 TC-TTGAAACACTCATCTTTGAGTC-GTTTCCCTTGAAAC
6088331 AAATCCCTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
64 2 0.02
65 26 0.28
66 63 0.68
67 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (64 bp):
TCTTGAAACACTCATCTTTGAGTCGTTTCCCTTGAAACGAATTTTATCTCTCTTGAGACAATTT
Found at i:6090365 original size:35 final size:35
Alignment explanation
Indices: 6090294--6090365 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
6090284 TTACTTTGTT
*
6090294 TTATTGATTGTTATAATTTCATGTATGTATGTAAA
1 TTATTGATTGTTATAATTTCATGTATGTATGAAAA
6090329 TTATGTGATTGTTATAAGTATTC-T-T-TGTATGAAAA
1 TTAT-TGATTGTTATAA-T-TTCATGTATGTATGAAAA
6090364 TT
1 TT
6090366 TTTATTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 15 0.45
36 13 0.39
37 2 0.06
38 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (35 bp):
TTATTGATTGTTATAATTTCATGTATGTATGAAAA
Found at i:6091687 original size:5 final size:5
Alignment explanation
Indices: 6091677--6091707 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6091667 TTTTTCAAAG
*
6091677 ATAAA ATAAA ATAAA ATAAA ATAAA ACAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
6091708 AGAAAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:6091695 original size:15 final size:15
Alignment explanation
Indices: 6091672--6091707 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6091662 ATAATTTTTT
6091672 CAAAGATAAAATAAAA
1 CAAA-ATAAAATAAAA
*
6091688 TAAAATAAAATAAAA
1 CAAAATAAAATAAAA
6091703 CAAAA
1 CAAAA
6091708 AGAAAGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (15 bp):
CAAAATAAAATAAAA
Found at i:6091783 original size:18 final size:20
Alignment explanation
Indices: 6091754--6091790 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6091744 TAAACGTGAA
6091754 ACAAAGAAAATTAT-CGAAT
1 ACAAAGAAAATTATGCGAAT
6091773 ACAAA-AAAATTATGCGAA
1 ACAAAGAAAATTATGCGAA
6091791 AAATCCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (20 bp):
ACAAAGAAAATTATGCGAAT
Found at i:6096259 original size:17 final size:16
Alignment explanation
Indices: 6096239--6096270 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6096229 ATATTTTAGA
6096239 TTTTTAATCTAAATAAT
1 TTTTTAAT-TAAATAAT
6096256 TTTTTAATTAAATAA
1 TTTTTAATTAAATAA
6096271 ATCCTCAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAATTAAATAAT
Done.