Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 22 of 187
Found at i:7336769 original size:2 final size:2
Alignment explanation
Indices: 7336764--7336800 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7336754 CATGTTTACT
7336764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7336801 ATAATTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7337100 original size:42 final size:42
Alignment explanation
Indices: 7337054--7337137 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
7337044 TATAATTTTC
*
7337054 ATATGTTT-TCCTTTAT-TTTTATGTTCATTTATGTATTTATTT
1 ATATGTTTAT-CTTTATGCTTTA-GTTCATTTATGTATTTATTT
* * *
7337096 ATATGTTTATTTTTATGCTTTAGTTTATTTATTTATTTATTT
1 ATATGTTTATCTTTATGCTTTAGTTCATTTATGTATTTATTT
7337138 GTTATGGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.86
43 5 0.14
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (42 bp):
ATATGTTTATCTTTATGCTTTAGTTCATTTATGTATTTATTT
Found at i:7337481 original size:108 final size:107
Alignment explanation
Indices: 7337266--7337653 Score: 546
Period size: 108 Copynumber: 3.6 Consensus size: 107
7337256 TTTCTAATTG
* * * *
7337266 AGGCAATATTTAGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTACTGGGTTTCGA--TTTCT
* *
7337331 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTT-AAAATA
63 CGTTCGACCAAATGACTTAATATCCTTTTAAAAATTTTCAAAATA
* *
7337375 AGGCAATATGTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGT
7337440 TCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAAATA
66 TCGACCAAATGACTTAATATCCTTTT-AAAAATTTTCAAAATA
* *
7337483 AGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTACCCTAAGGTACTGGGTTTCGATTTCTCGT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGT
*
7337548 TCGACCAAAT-AGCTAAATATCCTTTTAAAAAACTTTTCAAAAATA
66 TCGACCAAATGA-CTTAATATCCTTTT-AAAAA-TTTTC-AAAATA
* * ** *
7337593 AGGTAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGTTAGGTTTCGATTTC
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTC
7337654 ACATTTAGCC
Statistics
Matches: 255, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
106 32 0.13
107 10 0.04
108 122 0.48
109 31 0.12
110 60 0.24
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (107 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGT
TCGACCAAATGACTTAATATCCTTTTAAAAATTTTCAAAATA
Found at i:7337679 original size:218 final size:216
Alignment explanation
Indices: 7337266--7337680 Score: 559
Period size: 218 Copynumber: 1.9 Consensus size: 216
7337256 TTTCTAATTG
* *
7337266 AGGCAATATTTAGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTAGCGTTTAGAAATTCGAGAAAACGTACCCTAAGGTACTGGGTGTCGA-TTTTCT
* *
7337331 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATATGTTGCGTTTGGA
65 CGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTAAAATAAGGCAATATGTTGCGTTTGGA
* * * * *
7337396 AATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATGACTTAATATC
130 AATTCGAGAAACGTGCCCTAAGGTACTAGGTTTCGATTTCACGTTAGACCAAATGACTAAATATC
7337461 CTTTTCAAAAATTTTCAAAATA
195 CTTTTCAAAAATTTTCAAAATA
* * * *
7337483 AGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTACCCTAAGGTACTGGGTTTCGA-TTTCTC
1 AGGCAATATTTAGCGTTTAGAAATTCGAGAAAACGTACCCTAAGGTACTGGGTGTCGATTTTCTC
* * * *
7337546 GTTCGACCAAATAGCTAAATATCCTTTTAAAAAACTTTTCAAAAATAAGGTAATGTTTTGCGTTT
66 GTTCAACCAAATAGCTAAATATCCTTTT-AAAAA-TTTT--AAAATAAGGCAATATGTTGCGTTT
** *
7337611 GGAAATTCGAGAAACGTGCCCTAAGGTGTTAGGTTTCGATTTCACATTTAG-CCAAATTG-CTAA
127 GGAAATTCGAGAAACGTGCCCTAAGGTACTAGGTTTCGATTTCAC-GTTAGACCAAA-TGACTAA
7337674 ATATCCT
190 ATATCCT
7337681 CTTGAATTTT
Statistics
Matches: 172, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
214 31 0.18
215 5 0.03
216 28 0.16
217 27 0.16
218 76 0.44
219 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (216 bp):
AGGCAATATTTAGCGTTTAGAAATTCGAGAAAACGTACCCTAAGGTACTGGGTGTCGATTTTCTC
GTTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTAAAATAAGGCAATATGTTGCGTTTGGAA
ATTCGAGAAACGTGCCCTAAGGTACTAGGTTTCGATTTCACGTTAGACCAAATGACTAAATATCC
TTTTCAAAAATTTTCAAAATA
Found at i:7338338 original size:45 final size:44
Alignment explanation
Indices: 7338288--7338476 Score: 226
Period size: 45 Copynumber: 4.3 Consensus size: 44
7338278 ACAGTAATTA
* * * *
7338288 GTAACAGTAGCAGTAATAGTATTCAACACATAAAGTGCTGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
* *
7338332 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATC
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
*
7338377 GATAACAGTAACAGTAACAGTATTCGACACACAAAGTGTTG-A--
1 G-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
* *
7338419 GT--CGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
*
7338461 AATAACAGTAACAGTA
1 -GTAACAGTAACAGTA
7338477 GTCGGCACAT
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 33 0.27
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 2 0.02
45 84 0.68
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
Found at i:7338427 original size:39 final size:39
Alignment explanation
Indices: 7338337--7338503 Score: 174
Period size: 39 Copynumber: 4.2 Consensus size: 39
7338327 GAATCTGTAA
*
7338337 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A--G-T
**
7338380 AACAGTAACAGTAACAGTATTCGACACACAAAGTGTTGAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* *
7338421 CGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * * * * *
7338460 CAATAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
7338498 CAGTAA
1 CAGTAA
7338504 GCCGGCAAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 15 0.14
39 57 0.53
41 1 0.01
42 1 0.01
44 1 0.01
45 33 0.31
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:7342648 original size:2 final size:2
Alignment explanation
Indices: 7342641--7342666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7342631 GTAATCCATA
7342641 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
7342667 TGTCATGTTC
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:7344212 original size:20 final size:20
Alignment explanation
Indices: 7344187--7344229 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7344177 AACCCAATTC
* *
7344187 AATTAATCATTCAAATATAA
1 AATTAAACACTCAAATATAA
*
7344207 AATTAAACACTCGAATATAA
1 AATTAAACACTCAAATATAA
7344227 AAT
1 AAT
7344230 AGCTCAGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTAAACACTCAAATATAA
Found at i:7345735 original size:27 final size:26
Alignment explanation
Indices: 7345697--7345749 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7345687 AGCATAATCC
* *
7345697 AACTGAACTTTATATTGTTC-TTCATT
1 AACTAAACTTTAT-TGGTTCTTTCATT
7345723 AACTAAACATTTATTGGTTCTTTCATT
1 AACTAAAC-TTTATTGGTTCTTTCATT
7345750 TTCTTGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (26 bp):
AACTAAACTTTATTGGTTCTTTCATT
Found at i:7355122 original size:90 final size:91
Alignment explanation
Indices: 7354999--7355183 Score: 250
Period size: 90 Copynumber: 2.0 Consensus size: 91
7354989 GACTTGATTT
* * *
7354999 TTTTTGTTCAAGCTAACCCTTAAATTTGGCAATTGTTTCCACATTGGTGTCTGAACTAGCCAATT
1 TTTTTGTTCAAGCTAACCCTTAAATTTGACAATTGTTCCCACATTGGAGTCTGAACTAGCCAATT
7355064 G-TTCTCATATTAAGGTCTGAAC-TTC
66 GTTTC-CATATTAAGGTCTGAACTTTC
* * * *
7355089 TTTTTGTTCAAGTTAATCCCTT-AGTTTGACAATTGTTCCCACATTGGAGTGTGAACTAGCTAAT
1 TTTTTGTTCAAGCTAA-CCCTTAAATTTGACAATTGTTCCCACATTGGAGTCTGAACTAGCCAAT
* *
7355153 TGTTTCCATATTAGGGTTTGAACTTTC
65 TGTTTCCATATTAAGGTCTGAACTTTC
7355180 TTTT
1 TTTT
7355184 GGCCCAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
90 68 0.82
91 15 0.18
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (91 bp):
TTTTTGTTCAAGCTAACCCTTAAATTTGACAATTGTTCCCACATTGGAGTCTGAACTAGCCAATT
GTTTCCATATTAAGGTCTGAACTTTC
Found at i:7358135 original size:22 final size:22
Alignment explanation
Indices: 7358107--7358150 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7358097 TAAGGCAATC
7358107 AGATTTCTTGTCATATTTGTGT
1 AGATTTCTTGTCATATTTGTGT
7358129 AGATTTCTTGTCATATTTGTGT
1 AGATTTCTTGTCATATTTGTGT
7358151 TAGCAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (22 bp):
AGATTTCTTGTCATATTTGTGT
Found at i:7358730 original size:30 final size:28
Alignment explanation
Indices: 7358672--7358739 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
7358662 AGCGAACAAA
* *
7358672 ATATATAAATATAAATAAACAATTATTT
1 ATATATAAATAAAAATAAACAATAATTT
7358700 ATATAT-AATAAAATATAAACAGAATAATTT
1 ATATATAAATAAAA-ATAAAC--AATAATTT
*
7358730 ATATTTAAAT
1 ATATATAAAT
7358740 TGTCAAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 6 0.18
28 12 0.36
30 12 0.36
31 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
ATATATAAATAAAAATAAACAATAATTT
Found at i:7361329 original size:18 final size:18
Alignment explanation
Indices: 7361282--7361329 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
7361272 GATACAGATT
7361282 TTCTTATGA-AGTTTCATA
1 TTCTTA-GAGAGTTTCATA
* *
7361300 TTTTTA-AGAGTTTCCTA
1 TTCTTAGAGAGTTTCATA
7361317 TTCTTAGAGAGTT
1 TTCTTAGAGAGTT
7361330 AATTACTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 11 0.44
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (18 bp):
TTCTTAGAGAGTTTCATA
Found at i:7365618 original size:107 final size:105
Alignment explanation
Indices: 7365387--7365670 Score: 370
Period size: 107 Copynumber: 2.6 Consensus size: 105
7365377 GCGAAAAAAG
* * * * * ** *
7365387 ATCGAAACCCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGGAATATTGCCTTCATTA
1 ATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGATTTTCCAAACGCGAAATATTGCCTT-ATT-
* * *
7365452 TTGAAAGTTTAAAAGGGTATTTGGCCATTTGGTCAAACGAGAA
63 TTAAAAGTTTAAAAGGATATTTGGCCATTTGGTCAAACAAGAA
* *
7365495 GTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTT-CTCGATTTTCCAAACGCGAAATATTGCCTTATTTT
* *
7365560 AAAAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACAAGAA
65 AAAAGTTT-AAAAGGATATTTGGCCATTTGGTCAAACAAGAA
*
7365602 ATCGAAACCCAGCACGTTAGGGCACGTTTTCTTGATTTTCCAAACGCGAAATATTGCCTTATTTT
1 ATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGATTTTCCAAACGCGAAATATTGCCTTATTTT
7365667 AAAA
65 AAAA
7365671 TTTTCTTTTT
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
106 9 0.06
107 96 0.62
108 50 0.32
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (105 bp):
ATCGAAACCCAGCACGTTAGGGCACGTTTCTCGATTTTCCAAACGCGAAATATTGCCTTATTTTA
AAAGTTTAAAAGGATATTTGGCCATTTGGTCAAACAAGAA
Found at i:7371242 original size:45 final size:45
Alignment explanation
Indices: 7371158--7371246 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
7371148 TCTCGACTCA
** *
7371158 TCTTCTCAGTTGAGCTATTTACTGCCACTGCCATTTCTTTCTTCC
1 TCTTCTCAACTGAGCTATTTACTGCCACTGCCATCTCTTTCTTCC
* *
7371203 TCTTCTCAACTGAGCTATTTACTGTCAGC-GCCGTCTCTTTCTTC
1 TCTTCTCAACTGAGCTATTTACTGCCA-CTGCCATCTCTTTCTTC
7371247 ATTTTATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.43
Consensus pattern (45 bp):
TCTTCTCAACTGAGCTATTTACTGCCACTGCCATCTCTTTCTTCC
Found at i:7377782 original size:55 final size:55
Alignment explanation
Indices: 7377717--7377821 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
7377707 GAGGGCTAAA
*
7377717 AATGATAGTCTATATTTTTTATAATTACAAAATTAGACAAAGAATCAAAATTTTG
1 AATGATAGTCTATATTTTTTATAATTACAAAATTAGACAAAGAATAAAAATTTTG
*
7377772 AATGATAGTCTATATTTTTTATAATTACAAAATTAGACAAATAATAAAAA
1 AATGATAGTCTATATTTTTTATAATTACAAAATTAGACAAAGAATAAAAA
7377822 ATATAAAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (55 bp):
AATGATAGTCTATATTTTTTATAATTACAAAATTAGACAAAGAATAAAAATTTTG
Found at i:7388205 original size:22 final size:22
Alignment explanation
Indices: 7388156--7388215 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
7388146 TTTTGCCACC
*
7388156 TATTTATTTTAT--T-AATTTA
1 TATTTATTTTATAATAAATATA
**
7388175 TATCAATTTTATAATAAATATA
1 TATTTATTTTATAATAAATATA
*
7388197 TATTTATTTTGTAA-AAATA
1 TATTTATTTTATAATAAATA
7388216 ATTTTTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 10 0.31
21 6 0.19
22 16 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTATTTTATAATAAATATA
Found at i:7388410 original size:60 final size:60
Alignment explanation
Indices: 7388342--7388461 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
7388332 GTTTTTACTA
*
7388342 GAAATTAAAATATAAATAAAGAATAAAAGTGTCAAAATAACTTTCTCTCAAGAGTAGGGG
1 GAAATTAAAATATAAATAAAGAATAAAAGTGTCAAAATAACTTTCACTCAAGAGTAGGGG
*
7388402 GAAATTAAAATATAAATAAAGAATAAAAGTGTCAAAATAGCTTTCACTCAAGAGTAGGGG
1 GAAATTAAAATATAAATAAAGAATAAAAGTGTCAAAATAACTTTCACTCAAGAGTAGGGG
7388462 CAACAAAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.24
Consensus pattern (60 bp):
GAAATTAAAATATAAATAAAGAATAAAAGTGTCAAAATAACTTTCACTCAAGAGTAGGGG
Found at i:7389098 original size:18 final size:19
Alignment explanation
Indices: 7389075--7389123 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
7389065 GTTGTAAAGT
*
7389075 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
7389093 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
7389112 TTTAATTTTTAT
1 TTT-ATTTTTAT
7389124 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:7389103 original size:22 final size:22
Alignment explanation
Indices: 7389074--7389123 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7389064 AGTTGTAAAG
* *
7389074 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
7389095 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
7389118 TTTTAT
1 TTTTAT
7389124 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:7405808 original size:21 final size:21
Alignment explanation
Indices: 7405782--7405821 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7405772 TAATTATCTT
*
7405782 CACATTCTGGCGGTATATTCA
1 CACATTCTGGCAGTATATTCA
*
7405803 CACATTTTGGCAGTATATT
1 CACATTCTGGCAGTATATT
7405822 TGCAATATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (21 bp):
CACATTCTGGCAGTATATTCA
Found at i:7409762 original size:27 final size:27
Alignment explanation
Indices: 7409696--7409764 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
7409686 AAACCTAAAT
* **
7409696 CTCGGATACCTCTTGGTTTGAACTTGG
1 CTCGGATACCACTTGGTTCAAACTTGG
* * *
7409723 CTTGAATATCACTTGGTTCAAACTTGG
1 CTCGGATACCACTTGGTTCAAACTTGG
7409750 CTCGGATACCACTTG
1 CTCGGATACCACTTG
7409765 TCACGGGGCT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
CTCGGATACCACTTGGTTCAAACTTGG
Found at i:7415306 original size:22 final size:22
Alignment explanation
Indices: 7415262--7415306 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7415252 AACCTTTTCT
** *
7415262 TATATTTTTTGCAATTCTTTTA
1 TATATTTTTTGCAATAATATTA
*
7415284 TATATTTTTTGTAATAATATTA
1 TATATTTTTTGCAATAATATTA
7415306 T
1 T
7415307 TAATTTCAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TATATTTTTTGCAATAATATTA
Found at i:7417018 original size:12 final size:12
Alignment explanation
Indices: 7417003--7417030 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7416993 CCATTTTTAT
7417003 TTTTTTATATTC
1 TTTTTTATATTC
7417015 TTTTTTATATTC
1 TTTTTTATATTC
7417027 TTTT
1 TTTT
7417031 CCGCGTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTC
Found at i:7417785 original size:3 final size:3
Alignment explanation
Indices: 7417777--7417810 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7417767 TTTTAATCTC
7417777 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7417811 GTTACTCGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7418054 original size:14 final size:14
Alignment explanation
Indices: 7418035--7418067 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7418025 TTATAATTTT
7418035 TATATACATACATA
1 TATATACATACATA
*
7418049 TATATACATACTTA
1 TATATACATACATA
7418063 TATAT
1 TATAT
7418068 CTTTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATACATACATA
Found at i:7421028 original size:30 final size:31
Alignment explanation
Indices: 7420983--7421042 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
7420973 GGAGGTGGGA
7420983 TGGGAAGGGAATAAAAGA-TTTAGGGGAAAAG
1 TGGGAAGGGAATAAAA-ATTTTAGGGGAAAAG
* *
7421014 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
7421043 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 21 0.81
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:7422050 original size:24 final size:24
Alignment explanation
Indices: 7422022--7422067 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7422012 ATACTTATTT
*
7422022 TTATATCA-TAAAAAACTAAAATAG
1 TTATA-CATTAAAAAAATAAAATAG
7422046 TTATACATTAAAAAAATAAAAT
1 TTATACATTAAAAAAATAAAAT
7422068 TTAATTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (24 bp):
TTATACATTAAAAAAATAAAATAG
Found at i:7423181 original size:29 final size:30
Alignment explanation
Indices: 7423149--7423216 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
7423139 TTAGAAAATT
*
7423149 AAAATTTAATCCCTATATTTTT-A-TTTTC
1 AAAATTTAATCCCTATATTTTTCACATTTC
* *
7423177 AAAAATTTAATCTCTTTATTTTTCACATTTC
1 -AAAATTTAATCCCTATATTTTTCACATTTC
7423208 AAAATTTAA
1 AAAATTTAA
7423217 GTCAAATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 20 0.59
30 10 0.29
31 4 0.12
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTTAATCCCTATATTTTTCACATTTC
Found at i:7423933 original size:15 final size:16
Alignment explanation
Indices: 7423907--7423936 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7423897 AATAAAAATA
7423907 TATTATTTTTATATTT
1 TATTATTTTTATATTT
7423923 TATTA-TTTTATATT
1 TATTATTTTTATATT
7423937 ATGTTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATTTTTATATTT
Found at i:7424617 original size:22 final size:24
Alignment explanation
Indices: 7424592--7424635 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
7424582 GCTTCTTGCA
7424592 ATTTCTTGATTC-AATT-TTTAGG
1 ATTTCTTGATTCTAATTGTTTAGG
* *
7424614 ATTTTTTTATTCTAATTGTTTA
1 ATTTCTTGATTCTAATTGTTTA
7424636 AGTATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTTCTTGATTCTAATTGTTTAGG
Found at i:7429057 original size:148 final size:147
Alignment explanation
Indices: 7428890--7429238 Score: 438
Period size: 153 Copynumber: 2.3 Consensus size: 147
7428880 TGCATGTTTG
* **
7428890 TATTTCGGCCCTTTATTCGTATTTTTTTCTCGAATTTTATTTCTTTAAAAA-ATATTATTTTCTA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTTCAATAAAAATATATTATTTT-TA
* *
7428954 -ATTTTATTATTTTACATTATTTTTGTACATTATGTTTGAAATGTATTCATTTA-GT-TGTTTTT
65 TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACGTAT-TTTTT
7429016 AAATAAATTTTAAAAAAACTCT
129 AAATAAA--TTAAAAAAA-TCT
*
7429038 TATTTCGGCCCTTTGTTCGTATTTTTTTCTTAGAATTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTC-TCGAA-TT-TTA-TTTCAATAAAAATATATTATTT
* *
7429103 TTATATTTTATTATTTTACATTATTTTAGTATATTATGTTTGAAGTGTATTAATTTACTGTATTT
62 TTATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAC-GTATTT
*
7429168 TTTAAATAAATTAAAAAAATTT
126 TTTAAATAAATTAAAAAAATCT
* * * * *
7429190 TATTTCAGTCCTTTGTTTGTATTTTTTT-TCTGAAATTTATTTAAATAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCTC-GAATTTTATTTCAATAAA
7429239 TTTAAAGAGT
Statistics
Matches: 176, Mismatches: 15, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
148 37 0.21
149 7 0.04
150 4 0.02
151 6 0.03
152 39 0.22
153 68 0.39
155 14 0.08
156 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (147 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTTCAATAAAAATATATTATTTTTAT
ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACGTATTTTTTAA
ATAAATTAAAAAAATCT
Found at i:7430516 original size:2 final size:2
Alignment explanation
Indices: 7430509--7430540 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7430499 TAGAAGCATT
7430509 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
7430541 CAAAATAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7431957 original size:14 final size:14
Alignment explanation
Indices: 7431940--7431974 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7431930 GTGGAGGACC
*
7431940 GGAGGTGGATCGGT
1 GGAGGTGGATCGGA
*
7431954 GGAGGTGGATTGGA
1 GGAGGTGGATCGGA
7431968 GGAGGTG
1 GGAGGTG
7431975 AAGATTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.60, T:0.20
Consensus pattern (14 bp):
GGAGGTGGATCGGA
Found at i:7432042 original size:15 final size:15
Alignment explanation
Indices: 7432022--7432068 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
7432012 TCGTGGATGA
7432022 GGGGAAATGGGAAAT
1 GGGGAAATGGGAAAT
7432037 GGGGAAATGGGGAAAT
1 GGGGAAAT-GGGAAAT
**
7432053 GGGTTAATGGGAAAT
1 GGGGAAATGGGAAAT
7432068 G
1 G
7432069 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (15 bp):
GGGGAAATGGGAAAT
Found at i:7432043 original size:8 final size:8
Alignment explanation
Indices: 7432022--7432068 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
7432012 TCGTGGATGA
7432022 GGGGAAAT
1 GGGGAAAT
7432030 -GGGAAAT
1 GGGGAAAT
7432037 GGGGAAAT
1 GGGGAAAT
7432045 GGGGAAAT
1 GGGGAAAT
**
7432053 GGGTTAAT
1 GGGGAAAT
7432061 -GGGAAAT
1 GGGGAAAT
7432068 G
1 G
7432069 TATTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 12 0.36
8 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (8 bp):
GGGGAAAT
Found at i:7432052 original size:23 final size:23
Alignment explanation
Indices: 7432022--7432068 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
7432012 TCGTGGATGA
7432022 GGGGAAATGGG-AAATGGGGAAAT
1 GGGGAAATGGGTAAAT-GGGAAAT
*
7432045 GGGGAAATGGGTTAATGGGAAAT
1 GGGGAAATGGGTAAATGGGAAAT
7432068 G
1 G
7432069 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (23 bp):
GGGGAAATGGGTAAATGGGAAAT
Found at i:7432509 original size:63 final size:64
Alignment explanation
Indices: 7432438--7432562 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 64
7432428 TTTTCGTGTC
* *
7432438 AGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATT-CTGGTGGCCTGGCAATGGCTG
1 AGATGAAGCTATCAATATACGAAAAAAGTAAAAAAAAAAATTGCTGGTGGCCTGACAATGGCTG
** *
7432501 AGATGAAGCTATCAATATACGAAAAAAGTAAAAAAAAATTTTGGTGGTGGCCTGACAATGGC
1 AGATGAAGCTATCAATATACGAAAAAAGTAAAAAAAAAAATTGCTGGTGGCCTGACAATGGC
7432563 CGGCACCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 39 0.70
64 17 0.30
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (64 bp):
AGATGAAGCTATCAATATACGAAAAAAGTAAAAAAAAAAATTGCTGGTGGCCTGACAATGGCTG
Found at i:7432636 original size:167 final size:168
Alignment explanation
Indices: 7432350--7432658 Score: 464
Period size: 167 Copynumber: 1.8 Consensus size: 168
7432340 CGGTACCAAA
*
7432350 ATACGAGAAAAAGTAAAAAAAATTTGGTGGTGGCTCGGCAATGGCCGGCACCACCTTTTGTAAAA
1 ATACGAGAAAAAGTAAAAAAAATTTGGTGGTGGCTCGACAATGGCCGGCACCACCTTTTGTAAAA
7432415 AAAAAATTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATT
66 AAAAAATTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATT
7432480 -CTGGTGGCCTGGCAATGGCTGAGATGAAGCTATCAAT
131 GCTGGTGGCCTGGCAATGGCTGAGATGAAGCTATCAAT
7432517 ATACGA-AAAAAGTAAAAAAAAATTTTGGTGGTGGC-CTGACAATGGCCGGCACCACCTTTTGTA
1 ATACGAGAAAAAGT-AAAAAAAA-TTTGGTGGTGGCTC-GACAATGGCCGGCACCACCTTTTGTA
******** *
7432580 ATTTTTTTTTTAC-TTTTTTCGTGTCAGATGAAGCTATTAGTATACGAAAAAAGTAAAAAAAAAA
63 AAAAAAAAATTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAA
*
7432644 ATTGGTGGTGGCCTG
128 ATTGCTGGTGGCCTG
7432659 TTAATGGCCG
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
166 7 0.06
167 68 0.54
168 52 0.41
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (168 bp):
ATACGAGAAAAAGTAAAAAAAATTTGGTGGTGGCTCGACAATGGCCGGCACCACCTTTTGTAAAA
AAAAAATTACTTTTTTTCGTGTCAGATGAAGCTATCAGTATACGAAAAAAGTAAAAAAAAAAATT
GCTGGTGGCCTGGCAATGGCTGAGATGAAGCTATCAAT
Found at i:7434123 original size:51 final size:51
Alignment explanation
Indices: 7434067--7434170 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
7434057 TCAGCAGCGA
* * *
7434067 TAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACGGTAACAG
1 TAACAGTAACAGTATTCGACACACAAAATGCCGAATCGGTAACAGTAACAG
7434118 TAACAGTAACAGTATTCGACACACAAAATGCCGAATCGGTAACAGTAACAG
1 TAACAGTAACAGTATTCGACACACAAAATGCCGAATCGGTAACAGTAACAG
7434169 TA
1 TA
7434171 GTCAGCACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (51 bp):
TAACAGTAACAGTATTCGACACACAAAATGCCGAATCGGTAACAGTAACAG
Found at i:7435177 original size:20 final size:20
Alignment explanation
Indices: 7435154--7435197 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7435144 AAAAACCCTA
*
7435154 TTTCCCCTTTTTCTTCT-TTC
1 TTTCCCCTGTTTCTT-TGTTC
7435174 TTTCCCCTGTTTCTTTGTTC
1 TTTCCCCTGTTTCTTTGTTC
7435194 TTTC
1 TTTC
7435198 TATTCTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTCCCCTGTTTCTTTGTTC
Found at i:7437285 original size:105 final size:102
Alignment explanation
Indices: 7437084--7437499 Score: 344
Period size: 105 Copynumber: 4.1 Consensus size: 102
7437074 CCACAAAATT
***
7437084 TTTTTTCGTATACTGATAGCTTCATCTGACACGAAAAAAGTAATTTTTTTTTATAAAAGGTGGTG
1 TTTTTTCGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAATTTTTTATAAAAGGTGGTG
* *
7437149 CCGGCCATTGCTAGGCCACCACCAAATTTTTTTTTTTTAC
66 CCGGCCATTGCCAGG-C-CCACC-AATTTTTTTTTTTCAC
* * *
7437189 TTTTTTCGTATACTAATAGCTTCATCTGACAGGAAAAAATTTTTAAAAATTTTTTAT-AAAGGTG
1 TTTTTTCGTATACTGATAGCTTCATCTGACACGAAAAAA---GTAAAAATTTTTTATAAAAGGTG
*
7437253 GTGCCGGCCGGCCATTGCCAGG-GCACC-A-TTTTTTTTTTCAC
63 GT----GCCGGCCATTGCCAGGCCCACCAATTTTTTTTTTTCAC
* * * *
7437294 TTTTTTCGTATATTGATAGCTTCATTTGACACGAAAAAAGTAAAAA---ATTA-CAAA-GTGGTG
1 TTTTTTCGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAATTTTTTATAAAAGGTGGTG
* * * ***
7437354 TCGGCCATTGCGAGG-CCACCACTAAATTTTTTT-AC
66 CCGGCCATTGCCAGGCCCACCAATTTTTTTTTTTCAC
***** *
7437389 TTTTTT-GTTATACTGATAGCTTCATCTGACAC---AAAA-TTTTTTTTTTTTACAAAAGGTGGT
1 TTTTTTCG-TATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAATTTTTTATAAAAGGTGGT
* *
7437449 GCCGGCCATTGCCAGGCCACCACAAAGTTTTTTTTTT-AC
65 GCCGGCCATTGCCAGG-C-CCACCAATTTTTTTTTTTCAC
7437488 TTTTTCTCGTAT
1 TTTTT-TCGTAT
7437500 TTTGGTACCG
Statistics
Matches: 251, Mismatches: 39, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
91 1 0.00
92 4 0.02
94 22 0.09
95 33 0.13
96 26 0.10
98 5 0.02
99 25 0.10
100 4 0.02
101 1 0.00
102 6 0.02
105 84 0.33
106 1 0.00
107 9 0.04
108 15 0.06
111 15 0.06
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (102 bp):
TTTTTTCGTATACTGATAGCTTCATCTGACACGAAAAAAGTAAAAATTTTTTATAAAAGGTGGTG
CCGGCCATTGCCAGGCCCACCAATTTTTTTTTTTCAC
Found at i:7439968 original size:24 final size:24
Alignment explanation
Indices: 7439905--7439973 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
7439895 ATTAACATTA
*
7439905 TTTAAATTTATCATACATTAATGT
1 TTTAAATTTATCATAGATTAATGT
* * **
7439929 TTTAAGTTTATTATAGATTTTTGT
1 TTTAAATTTATCATAGATTAATGT
*
7439953 TTTAAATTTAACATAGTATTA
1 TTTAAATTTATCATAG-ATTA
7439974 TTTACTTCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 32 0.91
25 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTTAAATTTATCATAGATTAATGT
Found at i:7440256 original size:31 final size:31
Alignment explanation
Indices: 7440181--7440256 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 31
7440171 TAAGTATATA
*
7440181 TTAATATTTTGATTTCACTATGATTAATAATT
1 TTAAGATTTT-ATTTCACTATGATTAATAATT
*
7440213 TTAAG-TTTTATTTCATTATGATTAATAATT
1 TTAAGATTTTATTTCACTATGATTAATAATT
7440243 TTAAGATTTTATTT
1 TTAAGATTTTATTT
7440257 ATATATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 25 0.61
31 12 0.29
32 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (31 bp):
TTAAGATTTTATTTCACTATGATTAATAATT
Found at i:7441844 original size:24 final size:25
Alignment explanation
Indices: 7441792--7441845 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
7441782 TTTATTACGT
*
7441792 ATATACATATACATTTTTATAATAC
1 ATATACATATACATTTTTATAATAA
*
7441817 ATATAC-T-TACATTTTTTATTATAA
1 ATATACATATACA-TTTTTATAATAA
7441841 ATATA
1 ATATA
7441846 TACTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATACATATACATTTTTATAATAA
Found at i:7446811 original size:50 final size:50
Alignment explanation
Indices: 7446696--7446944 Score: 338
Period size: 50 Copynumber: 4.8 Consensus size: 50
7446686 GATAATAACA
* **
7446696 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
7446747 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGG
*
7446797 TGCCAACGGCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
7446847 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
7446902 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7446945 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
50 98 0.55
51 33 0.19
53 5 0.03
55 2 0.01
56 40 0.22
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:7449940 original size:63 final size:63
Alignment explanation
Indices: 7449841--7449960 Score: 231
Period size: 63 Copynumber: 1.9 Consensus size: 63
7449831 CAAGGGTTAT
*
7449841 TCTACGTGATGGATATAGCACTCGATCGAATTGCATTGCAGAACATGGAAAAGAAGCAATTCA
1 TCTACGTGATGGATATAGCACCCGATCGAATTGCATTGCAGAACATGGAAAAGAAGCAATTCA
7449904 TCTACGTGATGGATATAGCACCCGATCGAATTGCATTGCAGAACATGGAAAAGAAGC
1 TCTACGTGATGGATATAGCACCCGATCGAATTGCATTGCAGAACATGGAAAAGAAGC
7449961 CTAGTGAGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (63 bp):
TCTACGTGATGGATATAGCACCCGATCGAATTGCATTGCAGAACATGGAAAAGAAGCAATTCA
Found at i:7450248 original size:416 final size:416
Alignment explanation
Indices: 7449477--7450260 Score: 1487
Period size: 416 Copynumber: 1.9 Consensus size: 416
7449467 AGGCTTTTAT
*
7449477 GAAGCAATACATCTATGTGATGGATATAACACCCGATCGAATTGCATTGCAGAACATGGAAAAGA
1 GAAGCAATACATCTACGTGATGGATATAACACCCGATCGAATTGCATTGCAGAACATGGAAAAGA
*
7449542 AGCCTAGTGAGAGCTTAAGATAGTATGCCCAAAGATGGAGAGAATTAGCAACGCAAGTCCAACCA
66 AGCCTAGTGAGAGCTTAAGACAGTATGCCCAAAGATGGAGAGAATTAGCAACGCAAGTCCAACCA
7449607 CCACTCCTGGAGAAAGAGATAACCATGCTTTTTATTAATACTTTGAAGGCTCCATTTATCAATCA
131 CCACTCCTGGAGAAAGAGATAACCATGCTTTTTATTAATACTTTGAAGGCTCCATTTATCAATCA
*
7449672 CATGTTGGGCAGCGCCACTAAAAGCTTTTCAGACATAGTGATGTCCGGAGAAATGATAGAGAACG
196 CATGTTGGACAGCGCCACTAAAAGCTTTTCAGACATAGTGATGTCCGGAGAAATGATAGAGAACG
*
7449737 CCATAGGATGTGGCATGATAGAACCGGGAGAGAGCGCCAGAAGGTCAGCCCCAAGAAAGAAAGAA
261 CCATAGGATGCGGCATGATAGAACCGGGAGAGAGCGCCAGAAGGTCAGCCCCAAGAAAGAAAGAA
7449802 CACGAGATAAACAATGCAAGCGTGTTTAACAAGGGTTATTCTACGTGATGGATATAGCACTCGAT
326 CACGAGATAAACAATGCAAGCGTGTTTAACAAGGGTTATTCTACGTGATGGATATAGCACTCGAT
7449867 CGAATTGCATTGCAGAACATGGAAAA
391 CGAATTGCATTGCAGAACATGGAAAA
* *
7449893 GAAGCAATTCATCTACGTGATGGATATAGCACCCGATCGAATTGCATTGCAGAACATGGAAAAGA
1 GAAGCAATACATCTACGTGATGGATATAACACCCGATCGAATTGCATTGCAGAACATGGAAAAGA
7449958 AGCCTAGTGAGAGCTTAAGACAGTATGCCCAAAGATGGAGAGAATTAGCAACGCAAGTCCAACCA
66 AGCCTAGTGAGAGCTTAAGACAGTATGCCCAAAGATGGAGAGAATTAGCAACGCAAGTCCAACCA
7450023 CCACTCCTGGAGAAAGAGATAACCATGCTTTTTATTAATACTTTGAAGGCTCCATTTATCAATCA
131 CCACTCCTGGAGAAAGAGATAACCATGCTTTTTATTAATACTTTGAAGGCTCCATTTATCAATCA
*
7450088 CATGTTGGACAGCGCCACTAAAAGTTTTTCAGACATAGTGATGTCCGGAGAAATGATAGAGAACG
196 CATGTTGGACAGCGCCACTAAAAGCTTTTCAGACATAGTGATGTCCGGAGAAATGATAGAGAACG
* *
7450153 CCATAGGATGCGGCATGATAGAAGCGGGAGAGAGCGCTAGAAGGTCAGCCCCAAGAAAGAAAGAA
261 CCATAGGATGCGGCATGATAGAACCGGGAGAGAGCGCCAGAAGGTCAGCCCCAAGAAAGAAAGAA
7450218 CACGAGATAAACAATGCAAGCGTGTTTAACAAGGGTTATTCTA
326 CACGAGATAAACAATGCAAGCGTGTTTAACAAGGGTTATTCTA
7450261 AACCAATCAC
Statistics
Matches: 359, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
416 359 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (416 bp):
GAAGCAATACATCTACGTGATGGATATAACACCCGATCGAATTGCATTGCAGAACATGGAAAAGA
AGCCTAGTGAGAGCTTAAGACAGTATGCCCAAAGATGGAGAGAATTAGCAACGCAAGTCCAACCA
CCACTCCTGGAGAAAGAGATAACCATGCTTTTTATTAATACTTTGAAGGCTCCATTTATCAATCA
CATGTTGGACAGCGCCACTAAAAGCTTTTCAGACATAGTGATGTCCGGAGAAATGATAGAGAACG
CCATAGGATGCGGCATGATAGAACCGGGAGAGAGCGCCAGAAGGTCAGCCCCAAGAAAGAAAGAA
CACGAGATAAACAATGCAAGCGTGTTTAACAAGGGTTATTCTACGTGATGGATATAGCACTCGAT
CGAATTGCATTGCAGAACATGGAAAA
Found at i:7456835 original size:108 final size:108
Alignment explanation
Indices: 7456634--7456849 Score: 263
Period size: 108 Copynumber: 2.0 Consensus size: 108
7456624 GCACCTATTG
* * * * **
7456634 TCATCTTATTTATTTTGAATCTTAGCAAAATTTGCTGTCTTGATTAATTTATTCATTTCAAGCTT
1 TCATCTTATTCAGTTCGAATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGAGT
* * * *
7456699 TGCTCTCAATAAGATTCCCTATTATCCATTTTGATAATCTTTT
66 CGCTATCAATAACATTCCCTATTATCCATTGTGATAATCTTTT
* *
7456742 TCATCTTATTCAGTTCGTATCTTAGCGAAATTTGCTATCTTGATTAATTTATTCATTTCAAGAGT
1 TCATCTTATTCAGTTCGAATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGAGT
* * ***
7456807 CGTTATCACTAACATTTTGT-TTAGTCCATTGTGATAATCTTTT
66 CGCTATCAATAACATTCCCTATTA-TCCATTGTGATAATCTTTT
7456850 CGAACATTCT
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
107 3 0.03
108 87 0.97
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.48
Consensus pattern (108 bp):
TCATCTTATTCAGTTCGAATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCAAGAGT
CGCTATCAATAACATTCCCTATTATCCATTGTGATAATCTTTT
Found at i:7460458 original size:132 final size:132
Alignment explanation
Indices: 7460131--7461335 Score: 1824
Period size: 132 Copynumber: 9.1 Consensus size: 132
7460121 TACTGACAGC
* * * * *
7460131 GAAGCAGATTTAAGCCGTTAATCTTATTTCCCTAAGCAGTGGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* *
7460196 TAT-TGTCTCCCTAAGCAGTAGTGGAGCAGACCGAAGATGGTGAATCTTATCTTCCCAATATA-T
66 T-TCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
*
7460259 AGA
130 GGA
*
7460262 GAAGCAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* * * *
7460327 TTATATCTCCCTAAGCAGTAGTGGAGCAGAACGAAGATGGTGAATCTTATCTTCCCAATATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7460392 GA
131 GA
*
7460394 GAAGCAGATTTAATCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* *
7460459 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGTGAATATTATCTTCCCAAGATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7460524 GA
131 GA
* * * *
7460526 GAAGCTGATTTAAGCCTTTAGTCCTATCTCCCTAAGTAGTAGTGGAGTAGGTTAAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* *
7460591 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGACCGAAGATGGTGAATCTTATCTTCCCAATATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7460656 GA
131 GA
* * *
7460658 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGTAGAGTAGGTTAAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* *
7460723 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGACCGAAGATGGTGAATCTTATCTTCCCAATATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7460788 GA
131 GA
* *
7460790 GAAGCAAATTTAAGCCATTAGTCCTATCTCCCTAAGCTGTAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
*
7460855 TTCTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7460920 GA
131 GA
** *
7460922 GAAGTTGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGAAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* *
7460987 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGAATCTTATCTTCCCAAGATAGTG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7461052 GA
131 GA
* * * *
7461054 GAAGCAGATTTAAGCCATTAGTCCTATCTTCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* * * * *
7461119 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAAATGGTGAATCTTATATTCCTAAGATAATG
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
7461184 GA
131 GA
* * * ** * * * * *
7461186 GAAGCATATTTAGGCCATTAGTCATATCTCATTGAGCAGCAGTAGAATAGGTTGAAGATTGCAAA
1 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
* * *
7461251 TTCTGTCTCCCTAAGCAGTGGTGGAGCAGATC-AATTATGGTGAATCTTATCTTCCCAAGGTAGT
66 TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGTGAATCTTATCTTCCCAAGATAGT
7461315 AGG-
130 -GGA
* *
7461318 GAAGCAAATTTAAACCAT
1 GAAGCAGATTTAAGCCAT
7461336 AAACCTCGCC
Statistics
Matches: 996, Mismatches: 74, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 121 0.12
132 872 0.88
133 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
TTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTG
GA
Found at i:7462039 original size:2 final size:2
Alignment explanation
Indices: 7462032--7462059 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7462022 ATTTTTGTTT
7462032 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
7462060 CGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7462939 original size:23 final size:23
Alignment explanation
Indices: 7462911--7462975 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
7462901 TTTTATTATG
*
7462911 TATATACATATACATTTTTATAA
1 TATATATATATACATTTTTATAA
*
7462934 TATATATACT-TACATTTTT-TAT
1 TATATATA-TATACATTTTTATAA
*
7462956 TATAAATATATAC-TTTTTAT
1 TATATATATATACATTTTTAT
7462976 GTTTCACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 6 0.17
22 13 0.36
23 16 0.44
24 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATATATATACATTTTTATAA
Found at i:7462939 original size:25 final size:23
Alignment explanation
Indices: 7462901--7462975 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 23
7462891 TGACTCCAAG
7462901 TTTTATTATGTATATACATATACAT
1 TTTTA-TAT-TATATACATATACAT
7462926 TTTTATAATATATATAC-T-TACAT
1 TTTTAT-AT-TATATACATATACAT
* *
7462949 TTTT-TATTATAAATATATAC-T
1 TTTTATATTATATACATATACAT
7462970 TTTTAT
1 TTTTAT
7462976 GTTTCACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
20 5 0.12
21 8 0.19
22 5 0.12
23 9 0.21
24 2 0.05
25 14 0.33
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTATATTATATACATATACAT
Found at i:7462973 original size:22 final size:23
Alignment explanation
Indices: 7462921--7462973 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
7462911 TATATACATA
*
7462921 TACA-TTTTTATAATATATATAC
1 TACATTTTTTATAATAAATATAC
*
7462943 TTACATTTTTTATTATAAATATA-
1 -TACATTTTTTATAATAAATATAC
7462966 TAC-TTTTT
1 TACATTTTT
7462974 ATGTTTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 3 0.11
23 4 0.15
24 15 0.56
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (23 bp):
TACATTTTTTATAATAAATATAC
Found at i:7467511 original size:14 final size:14
Alignment explanation
Indices: 7467492--7467518 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7467482 TTCTGCTTGT
7467492 TTATTTTATTTTAC
1 TTATTTTATTTTAC
7467506 TTATTTTATTTTA
1 TTATTTTATTTTA
7467519 TCTTTTACAT
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:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:7468326 original size:3 final size:3
Alignment explanation
Indices: 7468283--7468369 Score: 79
Period size: 3 Copynumber: 28.0 Consensus size: 3
7468273 TTTAGCAATC
* *
7468283 TTA TTA TT- TTG TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
7468330 TTA TTA TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
7468370 GTTTTATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.06
3 55 0.79
4 10 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7469709 original size:3 final size:3
Alignment explanation
Indices: 7469701--7469726 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7469691 CAATGAATCA
7469701 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7469727 ATGAATCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7469878 original size:33 final size:33
Alignment explanation
Indices: 7469841--7469911 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
7469831 TAAACCAAAC
* *
7469841 TTTGTGAGATAAACATGTAAAAAGCAGATAAAA-
1 TTTGTGAGATAAACATATAAAAAACAGA-AAAAG
7469874 TTTGTGAGATAAACATATAAAAAACAGAAAAAG
1 TTTGTGAGATAAACATATAAAAAACAGAAAAAG
7469907 TTTGT
1 TTTGT
7469912 AACCCAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.27
Consensus pattern (33 bp):
TTTGTGAGATAAACATATAAAAAACAGAAAAAG
Found at i:7470762 original size:38 final size:39
Alignment explanation
Indices: 7470720--7470803 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
7470710 TGGGCCTAGG
* *
7470720 TTTTTTGCGGCGCTTTT-CTAAAAAC-CCACTAATGCTCA
1 TTTTTAGCGGCG-TTTTCCGAAAAACGCCACTAATGCTCA
* * *
7470758 TTTTTAGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGTTTTCCGAAAAACGCCACTAATGCTCA
7470797 TTTTTAG
1 TTTTTAG
7470804 TGGGAGACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 4 0.10
38 17 0.44
39 18 0.46
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCCGAAAAACGCCACTAATGCTCA
Found at i:7471361 original size:7 final size:7
Alignment explanation
Indices: 7471351--7471383 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7471341 CACTAACTCT
7471351 TAACCTC
1 TAACCTC
7471358 TAACCTC
1 TAACCTC
7471365 TAACCTC
1 TAACCTC
7471372 TAACCTC
1 TAACCTC
7471379 TAACC
1 TAACC
7471384 CCAAACCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
TAACCTC
Found at i:7471367 original size:21 final size:21
Alignment explanation
Indices: 7471351--7471409 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
7471341 CACTAACTCT
7471351 TAACCTCTAACCTCTAACCTC
1 TAACCTCTAACCTCTAACCTC
* * *
7471372 TAACCTCTAACCCCAAACCCC
1 TAACCTCTAACCTCTAACCTC
*
7471393 TAA-CTACTAACCCCTAA
1 TAACCT-CTAACCTCTAA
7471410 ACCTTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (21 bp):
TAACCTCTAACCTCTAACCTC
Found at i:7471532 original size:14 final size:15
Alignment explanation
Indices: 7471513--7471545 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
7471503 CTTAAACCAG
7471513 AATCCCT-ATTCCAT
1 AATCCCTAATTCCAT
7471527 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
7471542 AATC
1 AATC
7471546 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:7471855 original size:41 final size:41
Alignment explanation
Indices: 7471810--7472041 Score: 340
Period size: 41 Copynumber: 5.7 Consensus size: 41
7471800 CAATGTTTTT
* *
7471810 GCGGCGCTTTTTCAAAAATGCCGCTAAAAGCCAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
7471851 GCGGCGCTTCTTT-AAAAACGCCGCTAAAAGCATGAGCAATA
1 GCGGCGCTT-TTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
7471892 GCGGCGCTTTTTCAAAAACACCGTTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
7471933 GCGGCGCTTTTTTAAAAACGCCGCAAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* * *
7471974 GCGGCGCTTTTTCATAAACGTCGCAAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
7472015 GCAGCGCTTTTTCAAAAACGCCGCTAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAA
7472042 TGCCCCGAAA
Statistics
Matches: 170, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.02
41 164 0.96
42 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:7473284 original size:11 final size:11
Alignment explanation
Indices: 7473268--7473301 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
7473258 TCAATTATTT
7473268 TCTCAATTTCC
1 TCTCAATTTCC
*
7473279 TCTCAATTTGC
1 TCTCAATTTCC
7473290 TCTCAATTTCC
1 TCTCAATTTCC
7473301 T
1 T
7473302 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:7473314 original size:22 final size:21
Alignment explanation
Indices: 7473264--7473320 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
7473254 TCTCTCAATT
7473264 ATTT-TCTCAATTTCCTCTCA
1 ATTTCTCTCAATTTCCTCTCA
7473284 ATTTGCTCTCAATTTCCT-TCCAA
1 ATTT-CTCTCAATTTCCTCT-C-A
7473307 ATTTCTCTCTAATT
1 ATTTCTCTC-AATT
7473321 CATATTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 18 0.56
23 9 0.28
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTCTCTCAATTTCCTCTCA
Found at i:7473517 original size:40 final size:40
Alignment explanation
Indices: 7473457--7473535 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
7473447 CAGGGGCGCG
* *
7473457 CTACGTGGCAGCAATACGCGTCCACGTCAA-CGCGCTTTGC
1 CTACGTGGCAACAATACGCGTCCACAT-AAGCGCGCTTTGC
*
7473497 CTACGTGGCAACAA-AGCGCGTTCACATAAGCGCGCTTTG
1 CTACGTGGCAACAATA-CGCGTCCACATAAGCGCGCTTTG
7473536 TTGCCACGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (40 bp):
CTACGTGGCAACAATACGCGTCCACATAAGCGCGCTTTGC
Found at i:7473797 original size:11 final size:11
Alignment explanation
Indices: 7473781--7473814 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
7473771 ATGTATGTTG
7473781 TTTATTTCAAA
1 TTTATTTCAAA
*
7473792 TTTATTTCCAA
1 TTTATTTCAAA
7473803 TTTATTTCAAA
1 TTTATTTCAAA
7473814 T
1 T
7473815 ACTAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTATTTCAAA
Found at i:7476406 original size:13 final size:13
Alignment explanation
Indices: 7476388--7476412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7476378 AACATAATAT
7476388 AATAAATCATTTA
1 AATAAATCATTTA
7476401 AATAAATCATTT
1 AATAAATCATTT
7476413 TACATACACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAAATCATTTA
Found at i:7476635 original size:42 final size:41
Alignment explanation
Indices: 7476588--7476726 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 41
7476578 CGAAGGCTGC
* * * *
7476588 ACAGAAGCACATGAGTGCTAAACAGAAACCCATTAGGGTTGA
1 ACAGAAGCTCAT-AGAGCTAAACGGAAACCCATTAGGGTTAA
* * * *
7476630 ACAGAAGTTCATAGGAGCTAAAGGGAAACCCATAACGGTTAA
1 ACAGAAGCTCATA-GAGCTAAACGGAAACCCATTAGGGTTAA
* * *
7476672 ACAGAAGCTCAAAAGAGCTAAACGGAAACCTACTAGGGTTAA
1 ACAGAAGCTC-ATAGAGCTAAACGGAAACCCATTAGGGTTAA
*
7476714 ACAGAAACTCATA
1 ACAGAAGCTCATA
7476727 TGAGTTAACT
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.04
42 73 0.94
43 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (41 bp):
ACAGAAGCTCATAGAGCTAAACGGAAACCCATTAGGGTTAA
Found at i:7483088 original size:21 final size:21
Alignment explanation
Indices: 7483062--7483108 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7483052 ATTTAAAAAT
7483062 AAAAA-TTCAAAAAAACTATAA
1 AAAAATTTCAAAAAAACT-TAA
* *
7483083 AAAAATTTCATAAAATCTTAA
1 AAAAATTTCAAAAAAACTTAA
7483104 AAAAA
1 AAAAA
7483109 AAAAAAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATTTCAAAAAAACTTAA
Found at i:7484921 original size:265 final size:264
Alignment explanation
Indices: 7484439--7484934 Score: 610
Period size: 265 Copynumber: 1.9 Consensus size: 264
7484429 CTATGATTCT
* *
7484439 TTGTTGAAGTTTCAGTTGAATGTTAACTATCTCGATACCTTATCAATAGTCACACATAATTCGAT
1 TTGTTAAAGTTTCAGTTGAATGTTAACTATCTCAATACCTTATCAATAGTCACACATAATTCGAT
* * *
7484504 TTAATAAGACATCTAGAGAGCAATTAGATTGAAATAGAGTGATGCAAGAAAAATAAAATATCATT
66 TTAACAAGACATCTAGAGAGCAATTAGATAGAAATAGAG-GATACAAGAAAAATAAAATATCATT
* * * *
7484569 ATAGTGTTTCATTCATTTATATTTACCAATGTTCCAATTATGCCTTTTTGTTGTGAATATAATAG
130 ATAGTGTTTCATTCATTGATATTTACCAATGTTCCAATTATGCATTTTTATTATGAATATAATAG
* * * *
7484634 TGAATAAAAGAATTTTATTTTATCATTGATAATTGAAATGTGACTAAATGGGTCTGGGTACTACA
195 TGAATAAAAAAAGTTCATTTTATCATTAATAATTGAAATGTGACTAAATGGGTCTGGGTACTACA
7484699 TATAA
260 TATAA
* * * * **
7484704 TTGTTAAAGTTTCAGTTGAATGTTAGA-TATTTTAATACCTTATCAATGGTGATGCATAATTCGA
1 TTGTTAAAGTTTCAGTTGAATGTTA-ACTATCTCAATACCTTATCAATAGTCACACATAATTCGA
* * **
7484768 TTTAACAAGACATGTCTAGAGAGCAGTT-GAATAGATATAGA-GATACAAGAAGAAA-GGAATAT
65 TTTAACAAGACA--TCTAGAGAGCAATTAG-ATAGAAATAGAGGATACAAGAA-AAATAAAATAT
* * *
7484830 TATTATAGTGTCTT-ATTCACTTGA-ATTTACCAAT-TATCTAATTCTGCATTTTTATTATGAAT
126 CATTATAGTGT-TTCATTCA-TTGATATTTACCAATGT-TCCAATTATGCATTTTTATTATGAAT
* *
7484892 ATAATTGTGTATAAAAAAAGTTCATTTTATCATTAATAATTGA
188 ATAATAGTGAATAAAAAAAGTTCATTTTATCATTAATAATTGA
7484935 TCTAGGTATT
Statistics
Matches: 195, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
264 1 0.01
265 162 0.83
266 10 0.05
267 22 0.11
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (264 bp):
TTGTTAAAGTTTCAGTTGAATGTTAACTATCTCAATACCTTATCAATAGTCACACATAATTCGAT
TTAACAAGACATCTAGAGAGCAATTAGATAGAAATAGAGGATACAAGAAAAATAAAATATCATTA
TAGTGTTTCATTCATTGATATTTACCAATGTTCCAATTATGCATTTTTATTATGAATATAATAGT
GAATAAAAAAAGTTCATTTTATCATTAATAATTGAAATGTGACTAAATGGGTCTGGGTACTACAT
ATAA
Found at i:7492673 original size:23 final size:23
Alignment explanation
Indices: 7492647--7492701 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
7492637 AGGGCTTGTT
7492647 TAAAAATAATATAGTGAGTTGAA
1 TAAAAATAATATAGTGAGTTGAA
*
7492670 TAAAAATAGTATAGTGAGTTGAA
1 TAAAAATAATATAGTGAGTTGAA
* *
7492693 GAGAAATAA
1 TAAAAATAA
7492702 AAAAAACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (23 bp):
TAAAAATAATATAGTGAGTTGAA
Found at i:7492932 original size:29 final size:29
Alignment explanation
Indices: 7492882--7492937 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7492872 ACCAATAAAA
**
7492882 CCATACCATTTTGGTAAATAATTTTATGG
1 CCATACCATTTCAGTAAATAATTTTATGG
* *
7492911 CCATACCATTTCAGTTATTAATTTTAT
1 CCATACCATTTCAGTAAATAATTTTAT
7492938 TTTTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (29 bp):
CCATACCATTTCAGTAAATAATTTTATGG
Found at i:7494345 original size:6 final size:6
Alignment explanation
Indices: 7494334--7494359 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7494324 GCTCCTCTTC
7494334 TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT
7494360 TTATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:7512424 original size:21 final size:21
Alignment explanation
Indices: 7512393--7512442 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7512383 CCCAATTTTT
* *
7512393 AATATATATATATGTTATGAAA
1 AATATAAATATATATTAT-AAA
7512415 AA-ATAAATATATATTATAAA
1 AATATAAATATATATTATAAA
7512435 AATATAAA
1 AATATAAA
7512443 AATTATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 18 0.72
22 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AATATAAATATATATTATAAA
Found at i:7512462 original size:28 final size:28
Alignment explanation
Indices: 7512431--7512500 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
7512421 ATATATATTA
7512431 TAAAAATATA-AAAATTATGAAAAATGAT
1 TAAAAATATAGAAAATTATGAAAAAT-AT
**
7512459 T-AAAATATAGAAAATTATTTAAAATAT
1 TAAAAATATAGAAAATTATGAAAAATAT
7512486 TAAAAATATAGAAAA
1 TAAAAATATAGAAAA
7512501 GTGAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 11 0.29
28 27 0.71
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (28 bp):
TAAAAATATAGAAAATTATGAAAAATAT
Found at i:7512471 original size:19 final size:19
Alignment explanation
Indices: 7512432--7512494 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
7512422 TATATATTAT
*
7512432 AAAAATATAAAAAT-TATG
1 AAAAATATTAAAATATATG
7512450 AAAAATGATTAAAATATA-G
1 AAAAAT-ATTAAAATATATG
*
7512469 AAAATTATTTAAAATAT-T-
1 AAAAATA-TTAAAATATATG
7512487 AAAAATAT
1 AAAAATAT
7512495 AGAAAAGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.03
18 13 0.34
19 22 0.58
20 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATATTAAAATATATG
Found at i:7512509 original size:27 final size:27
Alignment explanation
Indices: 7512479--7512541 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
7512469 AAAATTATTT
*
7512479 AAAATATTAAAAATATAGAAAAGTGAAA
1 AAAATATTAAAAA-ATAGAAAAGTGCAA
* *
7512507 AAAAT-TGTTAAAAATGGAAAAGTGCAA
1 AAAATAT-TAAAAAATAGAAAAGTGCAA
7512534 AAAATATT
1 AAAATATT
7512542 GTTACAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAATATTAAAAAATAGAAAAGTGCAA
Found at i:7512536 original size:29 final size:27
Alignment explanation
Indices: 7512496--7512550 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
7512486 TAAAAATATA
7512496 GAAAAGTGAAAAAAATTGTTAAAAATG
1 GAAAAGTGAAAAAAATTGTTAAAAATG
*
7512523 GAAAAGTGCAAAAAATATTGTTACAAAT
1 GAAAAGTG-AAAAAA-ATTGTTAAAAAT
7512551 TAATCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.32
28 6 0.24
29 11 0.44
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (27 bp):
GAAAAGTGAAAAAAATTGTTAAAAATG
Found at i:7512600 original size:19 final size:20
Alignment explanation
Indices: 7512557--7512606 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
7512547 AAATTAATCA
* *
7512557 AAAAAATAATATAAAATTGC
1 AAAAAATAATATAAAACTAC
*
7512577 AAAAAATTATATAAAACTAC
1 AAAAAATAATATAAAACTAC
7512597 AAAAATATAA
1 AAAAA-ATAA
7512607 AAAGGGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATAATATAAAACTAC
Found at i:7514135 original size:29 final size:30
Alignment explanation
Indices: 7514036--7514140 Score: 116
Period size: 29 Copynumber: 3.7 Consensus size: 30
7514026 AAAAATAAAA
* *
7514036 ATTTACTAAAATAT-TA-CAACTTTTTTTTT
1 ATTTACCAAAATATATATAAAC-TTTTTTTT
* *
7514065 ATTTACGAAAATAT-TA-CAACTTTTTTTT
1 ATTTACCAAAATATATATAAACTTTTTTTT
7514093 ATTTACC-AAA-ATATATAAAC-TTTTTTT
1 ATTTACCAAAATATATATAAACTTTTTTTT
7514120 ATTTACCAAAATATATATAAA
1 ATTTACCAAAATATATATAAA
7514141 AAAAACAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
26 2 0.03
27 19 0.28
28 20 0.29
29 28 0.41
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTTACCAAAATATATATAAACTTTTTTTT
Found at i:7514136 original size:27 final size:28
Alignment explanation
Indices: 7514036--7514133 Score: 146
Period size: 28 Copynumber: 3.5 Consensus size: 28
7514026 AAAAATAAAA
*
7514036 ATTTACTAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAAC-TTTTTTTT
*
7514065 ATTTACGAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
7514093 ATTTACCAAAATATATA-AAC-TTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTT
7514120 ATTTACCAAAATAT
1 ATTTACCAAAATAT
7514134 ATATAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
27 21 0.32
28 24 0.36
29 21 0.32
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:7514225 original size:27 final size:27
Alignment explanation
Indices: 7514195--7514272 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
7514185 CCCCAATGGT
*
7514195 ATTGGCGGCACCAAAGGTGCCAAA-TAA
1 ATTGGCGGCACCAATGGTGCCAAAGT-A
* * *
7514222 ATTGGTGGCACCATTGGTGCCAAAGTC
1 ATTGGCGGCACCAATGGTGCCAAAGTA
7514249 ATTGGCGGCACC-ATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
7514273 GGAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.25
27 32 0.73
28 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGTA
Found at i:7514382 original size:18 final size:18
Alignment explanation
Indices: 7514345--7514420 Score: 89
Period size: 19 Copynumber: 4.1 Consensus size: 18
7514335 TCAACTCATT
*
7514345 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAA-TCTA
*
7514364 TTTTAATTTAATAAGCTA
1 TTTTAATTTAATAATCTA
* *
7514382 TTCTCATTTAATAAATCTA
1 TTTTAATTTAAT-AATCTA
*
7514401 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAATCTA
7514419 TT
1 TT
7514421 AAGTAATACT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.42
19 28 0.58
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (18 bp):
TTTTAATTTAATAATCTA
Found at i:7514395 original size:37 final size:37
Alignment explanation
Indices: 7514350--7514420 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
7514340 TCATTTTTTT
* *
7514350 ATTTAATAACTCTATTTTAATTTAATAAGCTATTCTC
1 ATTTAATAAATCTATTTTAATTTAATAAACTATTCTC
7514387 ATTTAATAAATCTATTTTAATTTAATAAACTATT
1 ATTTAATAAATCTATTTTAATTTAATAAACTATT
7514421 AAGTAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (37 bp):
ATTTAATAAATCTATTTTAATTTAATAAACTATTCTC
Found at i:7514739 original size:18 final size:19
Alignment explanation
Indices: 7514702--7514740 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7514692 TCAACTCATT
* *
7514702 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
7514721 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
7514739 TT
1 TT
7514741 AAGTAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:7515085 original size:37 final size:37
Alignment explanation
Indices: 7515043--7515113 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
7515033 AGTATTACTT
*
7515043 AATAGTTTATTAAATTAAAATAGATTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
7515080 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
7515114 AAAAAAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:7515090 original size:18 final size:19
Alignment explanation
Indices: 7515043--7515117 Score: 102
Period size: 18 Copynumber: 4.1 Consensus size: 19
7515033 AGTATTACTT
7515043 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* *
7515061 AATAGATTTATTAAATGAG
1 AATAGATTTATTAAATTAA
7515080 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
*
7515098 AATAGAGTTATTAAA-TAA
1 AATAGATTTATTAAATTAA
7515116 AA
1 AA
7515118 AAAGAGTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
18 26 0.52
19 24 0.48
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:7515118 original size:19 final size:19
Alignment explanation
Indices: 7515049--7515125 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
7515039 ACTTAATAGT
*
7515049 TTATTAAATTAAAATAGAT
1 TTATTAAATTAAAATAGAG
* * *
7515068 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
7515086 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* *
7515105 TTATTAAATAAAAAAAGAG
1 TTATTAAATTAAAATAGAG
7515124 TT
1 TT
7515126 GAAGGAGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
18 16 0.32
19 34 0.68
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:7515240 original size:27 final size:26
Alignment explanation
Indices: 7515191--7515268 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
7515181 ATTTTTTTCC
7515191 CTTTGGCACCATGGTGCCGCCAATGA
1 CTTTGGCACCATGGTGCCGCCAATGA
* *
7515217 CTTTGGCACCAATGGTGCCACCAATTTA
1 CTTTGGCACC-ATGGTGCCGCCAA-TGA
*
7515245 -TTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACC-ATGGTGCCGCCAAT
7515269 ACCATTGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 11 0.24
27 32 0.71
28 2 0.04
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTTGGCACCATGGTGCCGCCAATGA
Found at i:7515361 original size:27 final size:28
Alignment explanation
Indices: 7515330--7515407 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
7515320 TTTTTTTGAT
7515330 ATATTTTGGTAAATAAAAAAAA-TAATA
1 ATATTTTGGTAAATAAAAAAAATTAATA
**
7515357 ATATTTTGGTAAATAAAAAAAAATTTGTA
1 ATATTTTGGTAAAT-AAAAAAAATTAATA
*
7515386 ATATTTTCGTAAATAAAAAAAA
1 ATATTTTGGTAAATAAAAAAAA
7515408 AGTTGTACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.30
28 16 0.35
29 16 0.35
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAATTAATA
Found at i:7515377 original size:29 final size:29
Alignment explanation
Indices: 7515330--7515428 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
7515320 TTTTTTTGAT
7515330 ATATTTTGGTAAATAAAAAAAATAA---TA
1 ATATTTTGGTAAATAAAAAAAA-AATTGTA
*
7515357 ATATTTTGGTAAATAAAAAAAAATTTGTA
1 ATATTTTGGTAAATAAAAAAAAAATTGTA
* *
7515386 ATATTTTCGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAAATTGTA
*
7515415 CTATTTTGGTAAAT
1 ATATTTTGGTAAAT
7515429 TTTTATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 22 0.34
29 41 0.64
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAAAAATTGTA
Found at i:7515966 original size:12 final size:12
Alignment explanation
Indices: 7515949--7515982 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7515939 TGCATCCACA
7515949 CCCATCCTCATC
1 CCCATCCTCATC
*
7515961 CCCATCCCCATC
1 CCCATCCTCATC
*
7515973 CCCAACCTCA
1 CCCATCCTCA
7515983 CTGCTTGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.62, G:0.00, T:0.18
Consensus pattern (12 bp):
CCCATCCTCATC
Found at i:7516595 original size:13 final size:13
Alignment explanation
Indices: 7516577--7516605 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7516567 TGTAAAGTTT
7516577 ATTCAAGTCACGG
1 ATTCAAGTCACGG
7516590 ATTCAAGTCACGG
1 ATTCAAGTCACGG
7516603 ATT
1 ATT
7516606 TGACTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (13 bp):
ATTCAAGTCACGG
Found at i:7516694 original size:13 final size:13
Alignment explanation
Indices: 7516676--7516722 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
7516666 AAGTCAGATA
*
7516676 AAATAATTAAAAT
1 AAATAAATAAAAT
*
7516689 AAATAACTAAAAT
1 AAATAAATAAAAT
7516702 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
7516716 -AATAAAT
1 AAATAAAT
7516723 TTACGATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 4 0.13
13 19 0.61
14 8 0.26
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:7516699 original size:22 final size:22
Alignment explanation
Indices: 7516673--7516721 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
7516663 GTAAAGTCAG
*
7516673 ATAAAATAATTAAAAT-AAATA
1 ATAAAATAAATAAAATAAAATA
7516694 ACTAAAATAAATAAAATAAAATA
1 A-TAAAATAAATAAAATAAAATA
7516717 ATAAA
1 ATAAA
7516722 TTTACGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAATAAATAAAATAAAATA
Found at i:7517182 original size:100 final size:100
Alignment explanation
Indices: 7517009--7517208 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
7516999 GCCTTGGCTC
7517009 ACACAAGAAAAATTGGGAAGGTTTTCTTTGTGATTTTTGTTGGATTTTTTTAATAAGCAATGACA
1 ACACAAGAAAAATTGGGAAGGTTTTCTTTGTGATTTTTGTTGGATTTTTTTAATAAGCAATGACA
7517074 AATATGAAAAAACCCACTTGTTAGATTGATAAATT
66 AATATGAAAAAACCCACTTGTTAGATTGATAAATT
7517109 ACACAAGAAAAATTGGGAAGGTTTTCTTTGTGATTTTTGTTGGATTTTTTTAATAAGCAATGACA
1 ACACAAGAAAAATTGGGAAGGTTTTCTTTGTGATTTTTGTTGGATTTTTTTAATAAGCAATGACA
* *
7517174 AATATGAAAAAATCCGCTTGTTAGATTGATAAATT
66 AATATGAAAAAACCCACTTGTTAGATTGATAAATT
7517209 GATGAAATTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (100 bp):
ACACAAGAAAAATTGGGAAGGTTTTCTTTGTGATTTTTGTTGGATTTTTTTAATAAGCAATGACA
AATATGAAAAAACCCACTTGTTAGATTGATAAATT
Found at i:7518875 original size:62 final size:60
Alignment explanation
Indices: 7518801--7519467 Score: 388
Period size: 62 Copynumber: 10.9 Consensus size: 60
7518791 ATAAATGTTA
* * * * *
7518801 TATACATTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATT-GTTTATGAA
1 TATACCTTGCTG-AATTGATTTGTATATGGTTATATATTGTCGA-ATTG-ATTCGTTTATGAT
*** * * * * ** *
7518863 TATAGGATGCTGAATTGGATTTGTATATGATTATATATTGCCGGACTTGATTCATGAATGGT
1 TATACCTTGCTGAATT-GATTTGTATATGGTTATATATTGTC-GAATTGATTCGTTTATGAT
* * * *
7518925 TATACCTTGTTGAATTG-TTTGGTATATGGATGTA-AGTTGTCGAATTGATTCGTATATG-T
1 TATACCTTGCTGAATTGATTT-GTATATGGTTATATA-TTGTCGAATTGATTCGTTTATGAT
* * * *
7518984 TGTACCTTGCTGATATTAATTTGTACATGGTTATATATTGTCGATATTGAATT-GTTTATGAA
1 TATACCTTGCTGA-ATTGATTTGTATATGGTTATATATTGTCGA-ATTG-ATTCGTTTATGAT
*** * * * ** *
7519046 TATAGGATGCCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGT
1 TATACCTTGCTGAATT-GATTTGTATATGGTTATATATTGTCGAA-TTGATTCGTTTATGAT
* * *
7519108 TATACCTTGCCGAATTG-TTTGGTATATGGATATA-AGTTGTCGAATTGATTCGTATATG-T
1 TATACCTTGCTGAATTGATTT-GTATATGGTTATATA-TTGTCGAATTGATTCGTTTATGAT
* * * *
7519167 TGTACCTTGCTGAAATTAATTTGTACATGGTTATATATTGTCGATATTGAATT-GTTTATGAA
1 TATACCTTGCTG-AATTGATTTGTATATGGTTATATATTGTCGA-ATTG-ATTCGTTTATGAT
*** * * * *
7519229 TATAGGATGCCGAATTGGATTTGTATATGATTATATATTGTCGAACTTGATTCGTGTATGGT
1 TATACCTTGCTGAATT-GATTTGTATATGGTTATATATTGTCGAA-TTGATTCGTTTATGAT
* * * * * *
7519291 TATACATTGCCGAATTG-TTTGATATATGGATATA-AGTTG-CTAAATTGATTCGTATATGGT
1 TATACCTTGCTGAATTGATTTG-TATATGGTTATATA-TTGTC-GAATTGATTCGTTTATGAT
* * * * * * * *
7519351 TGTACATTGCTGAAATTAATTCGTACATGGTTATATATTGTCAACATTGAATT-GATTATGAA
1 TATACCTTGCTG-AATTGATTTGTATATGGTTATATATTGTCGA-ATTG-ATTCGTTTATGAT
*** * * * * *
7519413 TATAGAATGCCGAATTTGATTTGTGTATGATTATACATTGCCGAACTTGATTCGT
1 TATACCTTGCTGAA-TTGATTTGTATATGGTTATATATTGTCGAA-TTGATTCGT
7519468 AAATGGTTAT
Statistics
Matches: 465, Mismatches: 103, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
59 23 0.05
60 106 0.23
61 125 0.27
62 206 0.44
63 5 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (60 bp):
TATACCTTGCTGAATTGATTTGTATATGGTTATATATTGTCGAATTGATTCGTTTATGAT
Found at i:7519088 original size:31 final size:30
Alignment explanation
Indices: 7518801--7519487 Score: 267
Period size: 31 Copynumber: 22.4 Consensus size: 30
7518791 ATAAATGTTA
* * * * *
7518801 TATACATTGCTGAAATTAATTCGTACATGGT
1 TATACATTGCCG-AATTGATTTGTATATGAT
* * * * *
7518832 TATATATTGTCGATATTGAATTGTTTATGAA
1 TATACATTGCCGA-ATTGATTTGTATATGAT
* *
7518863 TATAGGA-TGCTGAATTGGATTTGTATATGAT
1 TATA-CATTGCCGAATT-GATTTGTATATGAT
* * *
7518894 TATATATTGCCGGACTTGATTCATG-A-ATGGT
1 TATACATTGCC-GAATTGATT--TGTATATGAT
* **
7518925 TATACCTTGTTGAATTG-TTTGGTATATGGAT
1 TATACATTGCCGAATTGATTT-GTATAT-GAT
* * *
7518956 GTA-A-GTTGTCGAATTGATTCGTATATG-T
1 -TATACATTGCCGAATTGATTTGTATATGAT
* * * * * *
7518984 TGTACCTTGCTGATATTAATTTGTACATGGT
1 TATACATTGCCGA-ATTGATTTGTATATGAT
* * * * *
7519015 TATATATTGTCGATATTGAATTGTTTATGAA
1 TATACATTGCCGA-ATTGATTTGTATATGAT
*
7519046 TATAGGA-TGCCGAATTGGATTTGTATATGAT
1 TATA-CATTGCCGAATT-GATTTGTATATGAT
* * *
7519077 TATATATTGCCGAACTTGATTCGTGA-ATGGT
1 TATACATTGCCGAA-TTGATTTGT-ATATGAT
*
7519108 TATACCTTGCCGAATTG-TTTGGTATATGGA-
1 TATACATTGCCGAATTGATTT-GTATAT-GAT
* *
7519138 TATA-AGTTGTCGAATTGATTCGTATATG-T
1 TATACA-TTGCCGAATTGATTTGTATATGAT
* * * * * *
7519167 TGTACCTTGCTGAAATTAATTTGTACATGGT
1 TATACATTGCCG-AATTGATTTGTATATGAT
* * * * *
7519198 TATATATTGTCGATATTGAATTGTTTATGAA
1 TATACATTGCCGA-ATTGATTTGTATATGAT
*
7519229 TATAGGA-TGCCGAATTGGATTTGTATATGAT
1 TATA-CATTGCCGAATT-GATTTGTATATGAT
* * * * *
7519260 TATATATTGTCGAACTTGATTCGTGTATGGT
1 TATACATTGCCGAA-TTGATTTGTATATGAT
7519291 TATACATTGCCGAATTG-TTTGATATATGGA-
1 TATACATTGCCGAATTGATTTG-TATAT-GAT
** * *
7519321 TATA-AGTTGCTAAATTGATTCGTATATGGT
1 TATACA-TTGCCGAATTGATTTGTATATGAT
* * * * * *
7519351 TGTACATTGCTGAAATTAATTCGTACATGGT
1 TATACATTGCCG-AATTGATTTGTATATGAT
* * * * *
7519382 TATATATTGTCAACATTGAATTG-ATTATGAA
1 TATACATTGCCGA-ATTGATTTGTA-TATGAT
* * *
7519413 TATAGAATGCCGAATTTGATTTGTGTATGAT
1 TATACATTGCCGAA-TTGATTTGTATATGAT
* * *
7519444 TATACATTGCCGAACTTGATTCGTAAATGGT
1 TATACATTGCCGAA-TTGATTTGTATATGAT
7519475 TATACATTGCCGA
1 TATACATTGCCGA
7519488 TGTAACAGCC
Statistics
Matches: 481, Mismatches: 128, Indels: 94
0.68 0.18 0.13
Matches are distributed among these distances:
27 2 0.00
28 3 0.01
29 25 0.05
30 125 0.26
31 309 0.64
32 15 0.03
33 2 0.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGAT
Found at i:7519115 original size:183 final size:183
Alignment explanation
Indices: 7518807--7519487 Score: 1121
Period size: 183 Copynumber: 3.7 Consensus size: 183
7518797 GTTATATACA
7518807 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
1 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
* * * **
7518872 CTGAATTGGATTTGTATATGATTATATATTGCCGGACTTGATTCATGAATGGTTATACCTTGTTG
66 CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
*
7518937 AATTGTTTGGTATATGGATGTAAGTTGTCGAATTGATTCGTATATGTTGTACC
131 AATTGTTTGGTATATGGATATAAGTTGTCGAATTGATTCGTATATGTTGTACC
* *
7518990 TTGCTGATATTAATTTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
1 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
7519055 CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
66 CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
7519120 AATTGTTTGGTATATGGATATAAGTTGTCGAATTGATTCGTATATGTTGTACC
131 AATTGTTTGGTATATGGATATAAGTTGTCGAATTGATTCGTATATGTTGTACC
*
7519173 TTGCTGAAATTAATTTGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
1 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
* * *
7519238 CCGAATTGGATTTGTATATGATTATATATTGTCGAACTTGATTCGTGTATGGTTATACATTGCCG
66 CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
* * *
7519303 AATTGTTTGATATATGGATATAAGTTG-CTAAATTGATTCGTATATGGTTGTACA
131 AATTGTTTGGTATATGGATATAAGTTGTC-GAATTGATTCGTATAT-GTTGTACC
* * * *
7519357 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCAACATTGAATTGATTATGAATATAGAATG
1 TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
* * * * *
7519422 CCGAATTTGATTTGTGTATGATTATACATTGCCGAACTTGATTCGTAAATGGTTATACATTGCCG
66 CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
7519487 A
131 A
7519488 TGTAACAGCC
Statistics
Matches: 470, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 342 0.73
184 127 0.27
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (183 bp):
TTGCTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG
CCGAATTGGATTTGTATATGATTATATATTGCCGAACTTGATTCGTGAATGGTTATACCTTGCCG
AATTGTTTGGTATATGGATATAAGTTGTCGAATTGATTCGTATATGTTGTACC
Found at i:7520122 original size:14 final size:13
Alignment explanation
Indices: 7520082--7520132 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
7520072 TAAAGTATGT
*
7520082 TATTATTTTATTA
1 TATTATTATATTA
* *
7520095 TATT-GTAAATTA
1 TATTATTATATTA
7520107 TATTAATTATATTA
1 TATT-ATTATATTA
7520121 TATTATTATATT
1 TATTATTATATT
7520133 TTAAATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:7520365 original size:13 final size:13
Alignment explanation
Indices: 7520347--7520377 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7520337 CGAAACAGAG
*
7520347 AAAGAAAGAAGGA
1 AAAGAAAGAAAGA
7520360 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
7520373 AAAGA
1 AAAGA
7520378 GAAAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:7523729 original size:7 final size:7
Alignment explanation
Indices: 7523717--7523759 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
7523707 AAATGACGAG
7523717 ATGAAAA
1 ATGAAAA
7523724 ATGAAAA
1 ATGAAAA
7523731 AGTG-AAA
1 A-TGAAAA
7523738 ATGAAAA
1 ATGAAAA
*
7523745 TTGAAAA
1 ATGAAAA
7523752 ATGGAAAA
1 AT-GAAAA
7523760 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 22 0.71
8 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (7 bp):
ATGAAAA
Found at i:7523738 original size:14 final size:13
Alignment explanation
Indices: 7523721--7523767 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
7523711 GACGAGATGA
7523721 AAAATGAAAAAGTG
1 AAAATG-AAAAGTG
*
7523735 AAAATGAAAATTG
1 AAAATGAAAAGTG
7523748 AAAAATGGAAAAGT-
1 -AAAAT-GAAAAGTG
7523762 AAAATG
1 AAAATG
7523768 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 11 0.38
15 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:7525134 original size:45 final size:45
Alignment explanation
Indices: 7525041--7525881 Score: 558
Period size: 44 Copynumber: 18.9 Consensus size: 45
7525031 TGAAAGATAA
** * * *
7525041 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AGAGATAC
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGA-AGAAAG
* *
7525085 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
** * *
7525130 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA-AAG
* * * * * *
7525174 CAGA-CTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAA
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
** * * * ** *
7525218 CAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATC-AGAGGTAC
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGA-AGAAAG
* * * * *
7525262 CAGATCTTGCCTTCCCATATTGGTGGCGAAGCAGATC-AAGGAAAAAG
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAA-G--AAAG
** * * *
7525309 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGACAA-
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA-AAG
* * * *
7525353 CAGATCTTGTCTCCCCATACTAGTGGTGGAGTAGATCGAAGAGAA-
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA-AAG
** * *
7525398 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA-AAG
* * ** **
7525442 TAGATCTTGTCTTCCCATACTGGTGGCAAAACAGATCGAAGAAAG
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
** * *
7525487 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA-AAG
* * * *
7525531 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAG
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
** * * *
7525576 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AGAGATAC
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGA-AGAAAG
* * *
7525620 CAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATC--AGAAAG
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
* ** * * * ** *
7525663 CAGATCTTATCTTCATGTACTAG-CGTGAAGTAGATCAAAGGTAC
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
* * * * *
7525707 CAGATCTTGTCTTCCCACACTGGTGGCGAAGTAGATCGAAAAAAA
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
* * ** * * * * *
7525752 TAGATTTTGTCTTCATGTACT-GTAGTGGAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
* *
7525796 CAGATCTTGTCTTGC-CACACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTT-CACATACTGGTGGTGAAGTAGATCGAAGAAAG
** * * *
7525841 CAGATCTTGTCTTCATGTATTGG-CGTAAAGTAGATCGAAGA
1 CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGA
7525882 TTACAGATCT
Statistics
Matches: 600, Mismatches: 170, Indels: 54
0.73 0.21 0.07
Matches are distributed among these distances:
42 11 0.02
43 38 0.06
44 277 0.46
45 240 0.40
46 12 0.02
47 22 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAAGAAAG
Found at i:7525146 original size:89 final size:89
Alignment explanation
Indices: 7525041--7525892 Score: 1203
Period size: 89 Copynumber: 9.6 Consensus size: 89
7525031 TGAAAGATAA
*
7525041 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
7525106 GGTGGCGAAGTAGATCGAAGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* *
7525130 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGA-CTTGCCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
* * *
7525194 AGTGGCGAAGCAGATCGAAGAAAA
66 GGTGGCGAAGTAGATCGAAGAAAG
* * * * * *
7525218 CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAGAGGTACCAGATCTTGCCTTCCCATATT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
*
7525283 GGTGGCGAAGCAGATC-AAGGAAAAAG
66 GGTGGCGAAGTAGATCGAA-G--AAAG
* * * *
7525309 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAGATCTTGTCTCCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
* * *
7525374 AGTGGTGGAGTAGATCGAAGAGAA-
66 GGTGGCGAAGTAGATCGAAGA-AAG
**
7525398 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGATCTTGTCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
* **
7525463 GGTGGCAAAACAGATCGAAGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* *
7525487 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
*
7525552 GGTGGCGAAGCAGATCGAAGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* *
7525576 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
7525641 GGTGGCGAAGTAGATC--AGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* * * *
7525663 CAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAAAGGTACCAGATCTTGTCTTCCCACACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
* *
7525728 GGTGGCGAAGTAGATCGAAAAAAA
66 GGTGGCGAAGTAGATCGAAGAAAG
* * ** * * *
7525752 TAGATTTTGTCTTCATGTACTGTAGTGGAGTAGATCAAAGATACCAGATCTTGTCTTGCCACACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
7525817 GGTGGCGAAGTAGATCGAAGAAAG
66 GGTGGCGAAGTAGATCGAAGAAAG
* * *
7525841 CAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATTA-CAGATCTT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-TACCAGATCTT
7525893 ATCTCCCTAA
Statistics
Matches: 683, Mismatches: 70, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
87 81 0.12
88 83 0.12
89 440 0.64
90 4 0.01
91 73 0.11
92 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (89 bp):
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
GGTGGCGAAGTAGATCGAAGAAAG
Found at i:7525820 original size:354 final size:357
Alignment explanation
Indices: 7525039--7525892 Score: 1338
Period size: 354 Copynumber: 2.4 Consensus size: 357
7525029 GTTGAAAGAT
*
7525039 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGTCTTCCCATA
1 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATA
7525104 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
66 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
7525169 GATAACAGA-CTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCA
131 GATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCA
* * *
7525233 TGTATTAGCGTGAAGTAGATCAGAGGTACCAGATCTTGCCTTCCCATATTGGTGGCGAAGCAGAT
196 TGTACTAGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT
* * *
7525298 CAAGGAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAGATCTTGT
261 CAAGG-AAAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAAAGACAACAGATCTTGT
* * * * *
7525363 CTCCCCATACTAGTGGTGGAGTAGATCGAAGAG
325 CTCCCCACACTAGTGGCGAAGTAGATCGAAAAA
**
7525396 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAGATCTTGTCTTCCCATA
1 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATA
* **
7525461 CTGGTGGCAAAACAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
66 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
* *
7525526 GATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCA
131 GATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCA
* *
7525591 TGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGAT
196 TGTACTAGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT
** *
7525656 C-A-G-AAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAAAGGTACCAGATCTTGTC
261 CAAGGAAAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAAAGACAACAGATCTTGTC
* *
7525718 TTCCCACACTGGTGGCGAAGTAGATCGAAAAA
326 TCCCCACACTAGTGGCGAAGTAGATCGAAAAA
* * ** * * *
7525750 AATAGATTTTGTCTTCATGTACTGTAGTGGAGTAGATCAAAGATACCAGATCTTGTCTTGCCACA
1 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATA
* * *
7525815 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAA
66 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
*
7525880 GATTACAGATCTT
131 GATAACAGATCTT
7525893 ATCTCCCTAA
Statistics
Matches: 454, Mismatches: 42, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
354 205 0.45
356 1 0.00
357 134 0.30
358 114 0.25
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (357 bp):
AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATA
CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
GATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCA
TGTACTAGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT
CAAGGAAAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAAAGACAACAGATCTTGTC
TCCCCACACTAGTGGCGAAGTAGATCGAAAAA
Found at i:7525920 original size:44 final size:44
Alignment explanation
Indices: 7525869--7526316 Score: 145
Period size: 44 Copynumber: 10.2 Consensus size: 44
7525859 ATTGGCGTAA
7525869 AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * ** * * *
7525913 AGCAGATCGAGGATGGCAGATTTTA-CATCCCTGAG--GTTACAGCGG
1 AGTAGATCGAAGATTACAGATCTTATC-TCCCTAAGCAG-T--AGTGG
* * * * ** *
7525958 AGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCAGTGG
1 AGTAGATCGAAG--ATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
7526001 AATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGG
1 AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
** * * *
7526045 AGTAGATCGAAGATGGC-GAATTTTACCTCCCTGAG--GTTACAGTGG
1 AGTAGATCGAAGATTACAG-ATCTTATCTCCCTAAGCAG-T--AGTGG
* * * * ** *
7526090 AGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCAGTGG
1 AGTAGATCGAAG--ATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
7526133 AATAGATTGAAGATTACGGATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * ** **** * * * * *
7526177 GGCAGATAAAAGATGGTGGATTTTACCTCCCTGAGGTCA-CAGTAG
1 AGTAGATCGAAGATTACAGATCTTATCTCCCT-AAG-CAGTAGTGG
* * * * ** * *
7526222 AGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAGCAGTGG
1 AGTAGATCGAAG--ATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
7526265 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
7526309 AGTAGATC
1 AGTAGATC
7526317 AATGATGGTG
Statistics
Matches: 283, Mismatches: 89, Indels: 64
0.65 0.20 0.15
Matches are distributed among these distances:
41 9 0.03
42 5 0.02
43 56 0.20
44 161 0.57
45 44 0.16
46 5 0.02
47 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
AGTAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:7526029 original size:132 final size:132
Alignment explanation
Indices: 7525871--7526646 Score: 1205
Period size: 132 Copynumber: 5.9 Consensus size: 132
7525861 TGGCGTAAAG
* * * *
7525871 TAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
* *
7525936 TACATCCCTGAGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
7526001 AA
131 AA
* * * *
7526003 TAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGAATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
7526068 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
7526133 AA
131 AA
* * * *
7526135 TAGATTGAAGATTACGGATCTTATCTCCCTAAGCAGTAGTGGGGCAGATAAAAGATGGTGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
* * *
7526200 TACCTCCCTGAGGTCACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
7526265 AA
131 AA
* * *
7526267 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAATGATGGTGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
*
7526332 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTAG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
7526397 AA
131 AA
* * * * *
7526399 TAGATTGAATATTACAGATATTATCTCCCT-AGACAGTAGTGGAGCAGATCGAAGAGGGTGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCAAAGATGGCGGATT
* * * *
7526463 TTACCTCCCTGAGGTTAAAGTGGAGTGCATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
7526528 GAA
130 GAA
* * * **
7526531 TAGATTGAAGATTACAGATCTTATCTCCCTAGGAAGTAGTGGAGTAGATCAAAGATGGCAAATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
7526596 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT-ATTCCTATCTCC
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT-CTATCTCC
7526647 TTGAAGTTGT
Statistics
Matches: 590, Mismatches: 51, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
131 5 0.01
132 584 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
AA
Found at i:7526383 original size:44 final size:43
Alignment explanation
Indices: 7525940--7526385 Score: 132
Period size: 44 Copynumber: 10.1 Consensus size: 43
7525930 AGATTTTACA
*
7525940 TCCCTGAGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTATC
1 TCCCTGAGG-TACAGTGGAGTACATTGAAGCCAGTAATTCTATC
* * * * *
7525984 TCCCTG-GGCAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATC
1 TCCCTGAGGTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATC
* * * * *** * * *
7526028 TCCCT-AGGCAGTAGTGGAGTAGATCGAAGATGGCGAATTTTACC
1 TCCCTGAGGTA-CAGTGGAGTACATTGAAGCCAG-TAATTCTATC
7526072 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC
1 TCCCTGAGG-TACAGTGGAGTACATTGAAGCCAGTAATTCTATC
* * * *
7526116 TCCCTG-GGCAGCAGTGGAATAGATTGAAG--ATTACGGA-TCTTATC
1 TCCCTGAGGTA-CAGTGGAGTACATTGAAGCCAGTA---ATTC-TATC
* * * * ** *** * * *
7526160 TCCCTAAGCAGT--AGTGGGGCAGATAAAAGATGGTGGATTTTACC
1 TCCCTGAG--GTACAGTGGAGTACATTGAAGCCAGT-AATTCTATC
*
7526204 TCCCTGAGGTCACAGTAGAGTACATTGAAGCCAGTAATTCTATC
1 TCCCTGAGGT-ACAGTGGAGTACATTGAAGCCAGTAATTCTATC
* * * *
7526248 TCCCTG-GGTAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATC
1 TCCCTGAGGTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATC
* * * *** * * *
7526292 TCCCTAAGCAGT--AGTGGAGTAGA-TCAATGATGGTGGATTTTACC
1 TCCCTGAG--GTACAGTGGAGTACATTGAA-GCCAGT-AATTCTATC
7526336 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC
1 TCCCTGAGG-TACAGTGGAGTACATTGAAGCCAGTAATTCTATC
7526380 TCCCTG
1 TCCCTG
7526386 GGCAGCAGTA
Statistics
Matches: 285, Mismatches: 77, Indels: 80
0.64 0.17 0.18
Matches are distributed among these distances:
41 9 0.03
42 8 0.03
43 63 0.22
44 143 0.50
45 50 0.18
46 8 0.03
47 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TCCCTGAGGTACAGTGGAGTACATTGAAGCCAGTAATTCTATC
Found at i:7528577 original size:11 final size:11
Alignment explanation
Indices: 7528561--7528585 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7528551 ATTAAAATCG
7528561 TTTTTTAAATA
1 TTTTTTAAATA
7528572 TTTTTTAAATA
1 TTTTTTAAATA
7528583 TTT
1 TTT
7528586 GGCAATCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:7532521 original size:41 final size:41
Alignment explanation
Indices: 7532472--7532580 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
7532462 GACTTTAAGT
*
7532472 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
**
7532513 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
7532554 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
7532581 TTTAAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:7540254 original size:41 final size:41
Alignment explanation
Indices: 7540205--7540313 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
7540195 GACTTTAAGT
*
7540205 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
7540246 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
7540287 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
7540314 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:7541251 original size:17 final size:17
Alignment explanation
Indices: 7541229--7541262 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7541219 ACGTGGCATG
7541229 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
*
7541246 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
7541263 GGGATTAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:7542397 original size:41 final size:41
Alignment explanation
Indices: 7542301--7542413 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 41
7542291 TTCATGTAAA
* * *
7542301 ACCATATCTGGGACATTGGCATCGAAGTAAGAAAACGTGTAAG
1 ACCATGTCTGGGACATTGGCATCG-A-TATGAAAACGTATAAG
* **
7542344 ATCATGTCTGGGACATTGGCATCGTATATG-ATTCGTATAAG
1 ACCATGTCTGGGACATTGGCATCG-ATATGAAAACGTATAAG
* *
7542385 ACCTTGTCTGGGACAGTGGCATCGATATG
1 ACCATGTCTGGGACATTGGCATCGATATG
7542414 TGTTAACATG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.08
41 29 0.48
42 3 0.05
43 23 0.38
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (41 bp):
ACCATGTCTGGGACATTGGCATCGATATGAAAACGTATAAG
Found at i:7542440 original size:43 final size:43
Alignment explanation
Indices: 7542293--7542440 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
7542283 GGTGTGATTT
* **
7542293 CATGTAAAACCATATCTGGGACATTGGCATCGA-A-GTAAGAAAA
1 CATGTAAGACCATATCTGGGACATTGGCATCGATATGT--GTTAA
* * * *
7542336 CGTGTAAGATCATGTCTGGGACATTGGCATCGTATATG-ATT--
1 CATGTAAGACCATATCTGGGACATTGGCATCG-ATATGTGTTAA
* * * * *
7542377 CGTATAAGACCTTGTCTGGGACAGTGGCATCGATATGTGTTAA
1 CATGTAAGACCATATCTGGGACATTGGCATCGATATGTGTTAA
7542420 CATGTAAGACCATATCTGGGA
1 CATGTAAGACCATATCTGGGA
7542441 TATGACATTG
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
40 5 0.06
41 30 0.36
43 45 0.54
44 1 0.01
45 1 0.01
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGACATTGGCATCGATATGTGTTAA
Found at i:7543070 original size:8 final size:7
Alignment explanation
Indices: 7543038--7543063 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7543028 TCTAATTGGT
7543038 AAAAAGA
1 AAAAAGA
7543045 AAAAAGA
1 AAAAAGA
7543052 AAAAAGA
1 AAAAAGA
7543059 AAAAA
1 AAAAA
7543064 ATGAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:7554301 original size:25 final size:25
Alignment explanation
Indices: 7554254--7554304 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
7554244 GAATGAAATT
* *
7554254 TCTTAAAATTTTATTGGGGGTAAAA
1 TCTTAAAATTTTACTGGGAGTAAAA
7554279 TCTTAAAAATTTTACT-GGAGTAAAA
1 TCTT-AAAATTTTACTGGGAGTAAAA
7554304 T
1 T
7554305 TGGGATGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (25 bp):
TCTTAAAATTTTACTGGGAGTAAAA
Found at i:7556147 original size:21 final size:19
Alignment explanation
Indices: 7556113--7556188 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 19
7556103 GTTTAAATTT
*
7556113 TTTA-AAAAAAATTAAAAA
1 TTTATAAAAATATTAAAAA
*
7556131 TTTGTAAAACATTATT-AAAA
1 TTTATAAAA-A-TATTAAAAA
7556151 TTTATAAAAATATTAAATAAA
1 TTTATAAAAATATT-AA-AAA
*
7556172 TTT-TCAAAA-ATTAAAAA
1 TTTATAAAAATATTAAAAA
7556189 ATAGAAAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
17 3 0.06
18 9 0.19
19 8 0.17
20 19 0.40
21 9 0.19
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (19 bp):
TTTATAAAAATATTAAAAA
Found at i:7557574 original size:16 final size:15
Alignment explanation
Indices: 7557555--7557596 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
7557545 CTTAATAAAT
7557555 AATATAAATATGTTAA
1 AATATAAATAT-TTAA
*
7557571 AATATATATATTTAA
1 AATATAAATATTTAA
7557586 AAT-T-AATATTT
1 AATATAAATATTT
7557597 CTCAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 1 0.04
15 7 0.29
16 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AATATAAATATTTAA
Done.