Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1593725 original size:26 final size:27
Alignment explanation
Indices: 1593671--1593725 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
1593661 TATTTTATAG
**
1593671 TAAATTATTTTAAAATAAATAACTTTAT
1 TAAATTATTTT-AAATAAATAACCGTAT
1593699 TAAATTATTTT-AATAAATAACCGTAT
1 TAAATTATTTTAAATAAATAACCGTAT
1593725 T
1 T
1593726 TTATAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
28 11 0.44
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAATTATTTTAAATAAATAACCGTAT
Found at i:1595212 original size:2 final size:2
Alignment explanation
Indices: 1595205--1595236 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1595195 AGCTTAATCA
1595205 AT AT AT 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 AT AT AT
1595237 TCAATTATAC
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):
AT
Found at i:1596137 original size:59 final size:60
Alignment explanation
Indices: 1596014--1596180 Score: 158
Period size: 59 Copynumber: 2.8 Consensus size: 60
1596004 TGCACCATAT
* * * * * * * * * * * **
1596014 ATCCTTAATCTATGATCCTCATTTTAAATTAGGCACTAAACTTTTGAACATTCTAATTTG
1 ATCCTCAAACTATAATCATCATTTTATATTAGTCCCCAAACTTTTGAACATGCCAAATCC
* *
1596074 ATCCTCAAACTATACT-TTCATTTTATATTAGTCCCCAAACTTTTGAACATGCCAAATCC
1 ATCCTCAAACTATAATCATCATTTTATATTAGTCCCCAAACTTTTGAACATGCCAAATCC
* *
1596133 ATCCTCAAACTATAATCATCCTTCTATATT-GATCCCCAAACTTTTGAA
1 ATCCTCAAACTATAATCATCATTTTATATTAG-TCCCCAAACTTTTGAA
1596181 TATTCTAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
59 49 0.56
60 38 0.44
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (60 bp):
ATCCTCAAACTATAATCATCATTTTATATTAGTCCCCAAACTTTTGAACATGCCAAATCC
Found at i:1596344 original size:60 final size:60
Alignment explanation
Indices: 1596229--1596346 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
1596219 GGGGTATTAT
* * * *
1596229 TGGGATGTTCAAAAGTTTGGGGACTAATTTATAATAGGGGTCATAGTTTGAGGATGAATA
1 TGGGATGTTCAAAAGTTTGGGGACTAATTTAGAATAGGAGTCACAGTTAGAGGATGAATA
*
1596289 TGGGATGTTCAAAAGTTTTGGGA-TCAATTTAGAAT-GAGAGTCACAGTTCAG-GGATGAA
1 TGGGATGTTCAAAAGTTTGGGGACT-AATTTAGAATAG-GAGTCACAGTT-AGAGGATGAA
1596347 GTTAAAATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 2 0.04
60 47 0.94
61 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (60 bp):
TGGGATGTTCAAAAGTTTGGGGACTAATTTAGAATAGGAGTCACAGTTAGAGGATGAATA
Found at i:1599976 original size:15 final size:15
Alignment explanation
Indices: 1599939--1599976 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1599929 CCGTAAACAA
* *
1599939 TCTCACACCTTCCTT
1 TCTCACATCTTCCTC
1599954 TCTCACATCTTCCTC
1 TCTCACATCTTCCTC
1599969 TCTCACAT
1 TCTCACAT
1599977 ATTTCTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (15 bp):
TCTCACATCTTCCTC
Found at i:1600077 original size:14 final size:15
Alignment explanation
Indices: 1600058--1600103 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
1600048 TATAAGGTAA
1600058 TTTTATTATAATT-T
1 TTTTATTATAATTAT
*
1600072 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
1600087 TATTTATTATGATTAT
1 T-TTTATTATAATTAT
1600103 T
1 T
1600104 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 2 0.07
16 13 0.48
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:1602891 original size:35 final size:35
Alignment explanation
Indices: 1602813--1602892 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
1602803 GCTCGCATAC
*
1602813 AACAAACTTACAATAAGTAATAAATGGTAAATGAT
1 AACAAAATTACAATAAGTAATAAATGGTAAATGAT
* *
1602848 AACCAAATTACAATAACTGATATTAAATGGT-AAT-A-
1 AACAAAATTACAATAA--G-TAATAAATGGTAAATGAT
1602883 AACAAAATTA
1 AACAAAATTA
1602893 ACCAACATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
35 23 0.61
36 1 0.03
37 4 0.11
38 10 0.26
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.26
Consensus pattern (35 bp):
AACAAAATTACAATAAGTAATAAATGGTAAATGAT
Found at i:1603171 original size:18 final size:18
Alignment explanation
Indices: 1603148--1603184 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1603138 ATCATCACCA
* *
1603148 TCTTCGTCGTTGTCGTCG
1 TCTTCGTCATCGTCGTCG
1603166 TCTTCGTCATCGTCGTCG
1 TCTTCGTCATCGTCGTCG
1603184 T
1 T
1603185 GAGCAGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.30, G:0.24, T:0.43
Consensus pattern (18 bp):
TCTTCGTCATCGTCGTCG
Found at i:1605283 original size:29 final size:26
Alignment explanation
Indices: 1605221--1605305 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
1605211 ATTTTCTATC
1605221 TACAAAAAAAAATTAATTAAATAAAA
1 TACAAAAAAAAATTAATTAAATAAAA
** * *
1605247 TATTAAAAAAATTTAATACTAAAATAAAT
1 TACAAAAAAAAATTAAT--T-AAATAAAA
* *
1605276 TACAAAAAATATATTAAATATAATAAAA
1 TACAAAAAA-AAATTAATTA-AATAAAA
1605304 TA
1 TA
1605306 TAACTTAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
26 14 0.32
27 1 0.02
28 10 0.23
29 14 0.32
30 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (26 bp):
TACAAAAAAAAATTAATTAAATAAAA
Found at i:1606623 original size:21 final size:21
Alignment explanation
Indices: 1606597--1606665 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
1606587 GATTCGAAAT
1606597 TCGCAACGCGATAGTCCAAAA
1 TCGCAACGCGATAGTCCAAAA
* * *
1606618 TCGCAACGAGATAGTCGAAAT
1 TCGCAACGCGATAGTCCAAAA
* *
1606639 TCGTAACGCGATACTCCAAAA
1 TCGCAACGCGATAGTCCAAAA
1606660 TCGCAA
1 TCGCAA
1606666 TGCATTTGTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGATAGTCCAAAA
Found at i:1606750 original size:6 final size:6
Alignment explanation
Indices: 1606734--1606776 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
1606724 GACACATATT
*
1606734 ACCACG GCCACG ACCACG ACCACG ACCACG ACCACG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
1606777 GGGACGGGCG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.30, C:0.51, G:0.19, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1607295 original size:32 final size:32
Alignment explanation
Indices: 1607259--1607324 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1607249 CACTTGGTTT
*
1607259 AATGTGTTTCAACTTCCAAATGTTAAATGTTA
1 AATGTGTTCCAACTTCCAAATGTTAAATGTTA
1607291 AATGTGTTCCAACTTCCAAATGTTAAATGTTA
1 AATGTGTTCCAACTTCCAAATGTTAAATGTTA
1607323 AA
1 AA
1607325 GGTTTAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (32 bp):
AATGTGTTCCAACTTCCAAATGTTAAATGTTA
Found at i:1608372 original size:29 final size:29
Alignment explanation
Indices: 1608294--1608372 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
1608284 AATTTTGTAT
* *
1608294 ATAAAGACCAAACTTTATAAAGTGATCGA
1 ATAAAGACCAAACTTTATAAAATAATCGA
* ** **
1608323 TTAAAGATTAGAGGTTT-TAAAATAATCGA
1 ATAAAGACCA-AACTTTATAAAATAATCGA
*
1608352 ATAAAGACCAAATTTTATAAA
1 ATAAAGACCAAACTTTATAAA
1608373 GTGATCAATT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
28 4 0.11
29 28 0.78
30 4 0.11
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (29 bp):
ATAAAGACCAAACTTTATAAAATAATCGA
Found at i:1608403 original size:58 final size:58
Alignment explanation
Indices: 1608294--1608483 Score: 218
Period size: 58 Copynumber: 3.3 Consensus size: 58
1608284 AATTTTGTAT
* * * * * *
1608294 ATAAAGACCAAACTTTATAAAGTGATCGATTAAAGATTAGAGGTTTTAAAATAATCGA
1 ATAAAGACCAAACTTTATAAAGTGATCAATTAAAGATTAAACGCTTCAAAATGATCGA
* * * * *
1608352 ATAAAGACCAAATTTTATAAAGTGATCAATTAATGATCAAACGCTTCAAAATGGTTGA
1 ATAAAGACCAAACTTTATAAAGTGATCAATTAAAGATTAAACGCTTCAAAATGATCGA
* * * * * *
1608410 ATAAAAAACAAACTTTATAAAGTGATTAACTAAGGATTAAACGCTTCAAAATGATCAA
1 ATAAAGACCAAACTTTATAAAGTGATCAATTAAAGATTAAACGCTTCAAAATGATCGA
*
1608468 ATAAAGATCAAACTTT
1 ATAAAGACCAAACTTT
1608484 TTCGAACCTC
Statistics
Matches: 109, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 109 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (58 bp):
ATAAAGACCAAACTTTATAAAGTGATCAATTAAAGATTAAACGCTTCAAAATGATCGA
Found at i:1612342 original size:123 final size:124
Alignment explanation
Indices: 1612135--1612397 Score: 325
Period size: 123 Copynumber: 2.1 Consensus size: 124
1612125 CATATAAGTA
* * * * *
1612135 CTTTAGTTGCGTTTTTAGATAAATGCCGCAATAGGGTACATATATTGTGGCGTTTTTGTACAAGC
1 CTTTAGTGGCGTTTTCAAACAAATGCCGCAATAGGGTACATATATTGTGGCGTTTTTGTACAAAC
* * * * *
1612200 GCCGCTAGAACTTAGTACTTTAGTGG-TGTTTCTAAATAAACGCTACAAAAGAATCATT
66 GCCGCTACAACTTAGTACTTTAGTGGACGTTTCTAAACAAACGCCACAAAAGAATCACT
*
1612258 CTTTAGTGGCGTTTTCAAACAAATGCCGCAATATGGTACATATATTGTGGCGTTTTTAG-ACAAA
1 CTTTAGTGGCGTTTTCAAACAAATGCCGCAATAGGGTACATATATTGTGGCGTTTTT-GTACAAA
** * *
1612322 CGTTGCTACAACCTTA-TACTTTAGTGGCACGTTTCTAAACAAATGCCACAAAAGAATCGCT
65 CGCCGCTACAA-CTTAGTACTTTAGTGG-ACGTTTCTAAACAAACGCCACAAAAGAATCACT
* *
1612383 CCTTAGTGGTGTTTT
1 CTTTAGTGGCGTTTT
1612398 TGAAATAAAC
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
123 75 0.63
124 5 0.04
125 39 0.33
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (124 bp):
CTTTAGTGGCGTTTTCAAACAAATGCCGCAATAGGGTACATATATTGTGGCGTTTTTGTACAAAC
GCCGCTACAACTTAGTACTTTAGTGGACGTTTCTAAACAAACGCCACAAAAGAATCACT
Found at i:1619406 original size:20 final size:20
Alignment explanation
Indices: 1619381--1619445 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
1619371 TTCATCCAAT
** *
1619381 TTTTTAAACCTTAGACCGGA
1 TTTTTAAACCCCAGACCAGA
*
1619401 TTTTTAAACCCCAAACCAGA
1 TTTTTAAACCCCAGACCAGA
1619421 TTTTTAAACCCCAGACCAGA
1 TTTTTAAACCCCAGACCAGA
1619441 TTTTT
1 TTTTT
1619446 TCCGGATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCAGA
Found at i:1620090 original size:132 final size:132
Alignment explanation
Indices: 1619853--1620096 Score: 434
Period size: 132 Copynumber: 1.8 Consensus size: 132
1619843 GTACGATTAT
* * *
1619853 TAATGATGTTGAGGATCCGGTCCGCCCGGACTTGTTCGTTTTGACTCGAATAGCATCCCGCCGTT
1 TAATGATGCTGAGGATCCGGTCCGCCCGGACTTGTTCGTTTCGACTCAAATAGCATCCCGCCGTT
1619918 TCTTTGAATGCTTGCTTTAATGGCTTCCCTGCCTTCTTCAACCAATGCACGCTTAGATTCAGCAA
66 TCTTTGAATGCTTGCTTTAATGGCTTCCCTGCCTTCTTCAACCAATGCACGCTTAGATTCAGCAA
1619983 AG
131 AG
* *
1619985 TAATGATGCTGAGGATCCGGTCCGCCTGGACTTGTTCGTTTCGACTCAAATGGCATCCCGCCGTT
1 TAATGATGCTGAGGATCCGGTCCGCCCGGACTTGTTCGTTTCGACTCAAATAGCATCCCGCCGTT
*
1620050 TCTTTGAATGCTTGTTTTAATGGCTTCCCTGCCTTCTTCAACCAATG
66 TCTTTGAATGCTTGCTTTAATGGCTTCCCTGCCTTCTTCAACCAATG
1620097 TGAAGATACT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (132 bp):
TAATGATGCTGAGGATCCGGTCCGCCCGGACTTGTTCGTTTCGACTCAAATAGCATCCCGCCGTT
TCTTTGAATGCTTGCTTTAATGGCTTCCCTGCCTTCTTCAACCAATGCACGCTTAGATTCAGCAA
AG
Found at i:1620137 original size:3 final size:3
Alignment explanation
Indices: 1620129--1620189 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
1620119 ATATTAATTA
* * * *
1620129 ATT ATT ATT ATT ATT ATA ATT ATT ATA ATT ATT ATA ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1620177 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
1620190 AATATATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:1620143 original size:9 final size:9
Alignment explanation
Indices: 1620127--1620198 Score: 92
Period size: 9 Copynumber: 8.0 Consensus size: 9
1620117 CCATATTAAT
1620127 TAATTATTA
1 TAATTATTA
*
1620136 TTATTATTA
1 TAATTATTA
1620145 TAATTATTA
1 TAATTATTA
1620154 TAATTATTA
1 TAATTATTA
*
1620163 TAATTATCA
1 TAATTATTA
*
1620172 TTATTATTA
1 TAATTATTA
*
1620181 TTATTATTA
1 TAATTATTA
1620190 -AATATATTA
1 TAAT-TATTA
1620199 AATACATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 2 0.04
9 54 0.96
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (9 bp):
TAATTATTA
Found at i:1620641 original size:15 final size:16
Alignment explanation
Indices: 1620614--1620643 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1620604 CTGAAAAAAA
1620614 AGAAAAGAAAGAAGAC
1 AGAAAAGAAAGAAGAC
1620630 AGAAAA-AAAGAAGA
1 AGAAAAGAAAGAAGA
1620644 ACACAGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAGAAGAC
Found at i:1632983 original size:10 final size:9
Alignment explanation
Indices: 1632968--1633043 Score: 84
Period size: 10 Copynumber: 8.1 Consensus size: 9
1632958 ATGCTTGAAG
1632968 AAAAGAAAGA
1 AAAAGAAA-A
1632978 AAAAG-AAA
1 AAAAGAAAA
*
1632986 AAGAGAAAAA
1 AAAAG-AAAA
1632996 AAAAGAAGAA
1 AAAAGAA-AA
1633006 AAAAGAAAA
1 AAAAGAAAA
1633015 AAAA-AGAAA
1 AAAAGA-AAA
1633024 AAAAGAGAAA
1 AAAAGA-AAA
1633034 AAAAGAAAA
1 AAAAGAAAA
1633043 A
1 A
1633044 GGAGGGTCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.10
9 21 0.36
10 32 0.54
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:1632998 original size:18 final size:18
Alignment explanation
Indices: 1632968--1633043 Score: 107
Period size: 18 Copynumber: 4.1 Consensus size: 18
1632958 ATGCTTGAAG
*
1632968 AAAAGAAAGAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
*
1632986 AAGAGAAAAAAAAAGAAGAA
1 AAAAGAAAAAAAAAG-A-AA
1633006 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
*
1633024 AAAAGAGAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
1633042 AA
1 AA
1633044 GGAGGGTCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
18 34 0.65
19 2 0.04
20 16 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAA
Found at i:1633008 original size:28 final size:29
Alignment explanation
Indices: 1632968--1633044 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 29
1632958 ATGCTTGAAG
*
1632968 AAAAGAA-AGAAAAAGAAAAAGAGAA-AAA
1 AAAAGAAGA-AAAAAGAAAAAGAAAAGAAA
1632996 AAAAGAAGAAAAAAGAAAAA-AAAAGAAA
1 AAAAGAAGAAAAAAGAAAAAGAAAAGAAA
1633024 AAAAG-AGAAAAAAAGAAAAAG
1 AAAAGAAG-AAAAAAGAAAAAG
1633045 GAGGGTCAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.11
28 38 0.86
29 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (29 bp):
AAAAGAAGAAAAAAGAAAAAGAAAAGAAA
Found at i:1633013 original size:38 final size:38
Alignment explanation
Indices: 1632968--1633040 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
1632958 ATGCTTGAAG
* *
1632968 AAAAGAAAGAAAAAGAAAAAGAGAAAAAAAAAGAAGAA
1 AAAAGAAAAAAAAAGAAAAAAAGAAAAAAAAAGAAGAA
*
1633006 AAAAGAAAAAAAAAGAAAAAAAGAGAAAAAAAGAA
1 AAAAGAAAAAAAAAGAAAAAAAGAAAAAAAAAGAA
1633041 AAAGGAGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (38 bp):
AAAAGAAAAAAAAAGAAAAAAAGAAAAAAAAAGAAGAA
Found at i:1634283 original size:83 final size:83
Alignment explanation
Indices: 1634144--1634804 Score: 1231
Period size: 83 Copynumber: 8.0 Consensus size: 83
1634134 GAAAGAGACT
* *
1634144 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACATAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634209 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1634227 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634292 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1634310 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634375 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1634393 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634458 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
*
1634476 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAA-CAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634540 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1634558 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
*
1634623 TTTAGAAGATGAATTAGC
66 TTTAGAAGATGAATTTGC
*
1634641 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634705 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
1634723 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG-ACCAATCATTGA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
*
1634786 ATTTGGAAGATGAATTTGC
65 ATTTAGAAGATGAATTTGC
1634805 TCATAGTAAA
Statistics
Matches: 566, Mismatches: 9, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
81 1 0.00
82 181 0.32
83 384 0.68
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGC
Found at i:1634636 original size:165 final size:166
Alignment explanation
Indices: 1634144--1634804 Score: 1231
Period size: 165 Copynumber: 4.0 Consensus size: 166
1634134 GAAAGAGACT
* *
1634144 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTGGACATAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634209 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1634274 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
1634310 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634375 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1634440 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
*
1634476 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAA-CAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634540 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
1634605 ACAGAACCAATCATTGAATTTAGAAGATGAATTAGC
131 ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
*
1634641 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1634705 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTG
*
1634770 G-CAG-ACCAATCATTGAATTTGGAAGATGAATTTGC
130 GACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
1634805 TCATAGTAAA
Statistics
Matches: 486, Mismatches: 8, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
164 29 0.06
165 237 0.49
166 220 0.45
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (166 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
ACAGAACCAATCATTGAATTTAGAAGATGAATTTGC
Found at i:1636033 original size:112 final size:113
Alignment explanation
Indices: 1635607--1636300 Score: 814
Period size: 112 Copynumber: 6.0 Consensus size: 113
1635597 ACTCAAATCT
* ** *
1635607 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * **
1635672 GAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
* ** *
1635720 ATCATTTGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCAATTGATGGATCAACATTTTCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
1635784 GGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATCC
62 GGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT-GAATTC
*
1635836 ATC-ATTAGATGGATCAGC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 ATCAATT-GATGGATCAACATTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
1635899 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTC
64 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
* *
1635949 ATCAATTGATGGATCAACATTTTCAGAG-AAGTTCATAATGAGAAGAACTCAACTGAAGAAGAAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
1636013 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
** * * *
1636060 TATCACAGAAGGAGATAGATTAGCATCAGCCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCAT
1 -AT--C--AA-TTGATGGA-T--CAACA--TTTTC-AGAGAAAGTTCATAATGAGAAGAACTCAT
* *
1636125 CTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTACATGAATTC
54 CTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
*
1636185 ATCAATTGATGGATCAACATTTTCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
1636249 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
1636296 TATCA
1 -ATCA
1636301 CAGAAGGAGA
Statistics
Matches: 501, Mismatches: 50, Indels: 61
0.82 0.08 0.10
Matches are distributed among these distances:
111 10 0.02
112 148 0.30
113 121 0.24
114 16 0.03
115 8 0.02
116 93 0.19
117 6 0.01
118 2 0.00
119 5 0.01
120 6 0.01
122 5 0.01
123 6 0.01
124 70 0.14
125 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (113 bp):
ATCAATTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATTC
Found at i:1636116 original size:124 final size:122
Alignment explanation
Indices: 1635969--1636361 Score: 540
Period size: 124 Copynumber: 3.3 Consensus size: 122
1635959 GGATCAACAT
*
1635969 TTTCAGAGAAGTTCATAATGAGAAGAACTCAACTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1636034 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
* *
1636091 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAG
** * * ** * * *
1636155 AAGAGCTTGTTCAACCTTTTACATGAATTC-AT--C--AA-TTGATGGA-T--CAACA--T
63 AAGAATTTGTTCAACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
1636205 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1636270 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
1636327 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATC
1636362 AAAAGCTTAT
Statistics
Matches: 230, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
111 5 0.02
112 71 0.31
113 6 0.03
114 5 0.02
116 6 0.03
117 5 0.02
118 2 0.01
119 5 0.02
120 6 0.03
122 9 0.04
123 10 0.04
124 95 0.41
125 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (122 bp):
TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
Found at i:1636152 original size:236 final size:236
Alignment explanation
Indices: 1635626--1636361 Score: 1081
Period size: 236 Copynumber: 3.1 Consensus size: 236
1635616 TGGATTGACA
1635626 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
* * *** * **
1635690 AAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTACCAG-GTAGAGTT
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAG-A-AGTT
* * **
1635754 CATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTC
128 CATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAGAAGAATTTGTTC
* ** * * *
1635818 AACCTTTTGC-TCAA----ATC-C---ATCA-TTAGA-T-GGATCAGCT
189 AACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
1635855 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA-AGAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGA-AAGTTCATAATGAG
1635919 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
*
1635984 TAATGAGAAGAACTCAACTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
130 TAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
1636049 TTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
195 TTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
1636091 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
*
1636156 AGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
1636221 AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
131 AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
1636286 TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
196 TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
1636327 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC
1636362 AAAAGCTTAT
Statistics
Matches: 468, Mismatches: 22, Indels: 27
0.91 0.04 0.05
Matches are distributed among these distances:
225 49 0.10
226 4 0.01
227 1 0.00
228 21 0.04
229 110 0.24
230 2 0.00
233 2 0.00
234 4 0.01
235 1 0.00
236 273 0.58
237 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (236 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
Found at i:1636621 original size:3 final size:3
Alignment explanation
Indices: 1636613--1636670 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
1636603 ATATTAATTA
* * * * * *
1636613 ATT ATT ATT ATA ATA ATA ATT ATT ATT ATT ATT ATT ATA ATA ATA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1636661 ATT ATT ATT A
1 ATT ATT ATT A
1636671 AATATATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:1636650 original size:27 final size:27
Alignment explanation
Indices: 1636604--1636670 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
1636594 TTTTTACCCA
1636604 TATTAATTAATTATTATTATAATAATAAT
1 TATT-ATT-ATTATTATTATAATAATAAT
1636633 TATTATTATTATTATTATAATAATAAT
1 TATTATTATTATTATTATAATAATAAT
1636660 TATTATTATTA
1 TATTATTATTA
1636671 AATATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 31 0.82
28 3 0.08
29 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTATTATTATTATTATAATAATAAT
Found at i:1636708 original size:34 final size:33
Alignment explanation
Indices: 1636655--1636718 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
1636645 TATTATAATA
* **
1636655 ATAATTATTATTATTAAATATATTAAATACATAT
1 ATAAATATTATTAAAAAATA-ATTAAATACATAT
*
1636689 ATAAATATTATTAAAAAATAATTAATTACA
1 ATAAATATTATTAAAAAATAATTAAATACA
1636719 AACCAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 9 0.35
34 17 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
ATAAATATTATTAAAAAATAATTAAATACATAT
Found at i:1637122 original size:17 final size:17
Alignment explanation
Indices: 1637097--1637130 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1637087 GAAAAAAAAG
* *
1637097 AAAATAAAGAAGACAGA
1 AAAAAAAAGAACACAGA
1637114 AAAAAAAAGAACACAGA
1 AAAAAAAAGAACACAGA
1637131 GCCGGAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAACACAGA
Found at i:1639873 original size:22 final size:21
Alignment explanation
Indices: 1639764--1639871 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 21
1639754 ATACTTAGAG
*
1639764 TAATTATAATAATTTCATTT-
1 TAATTATAATAATTTTATTTA
1639784 TAATTA-AATAATATTT-TTGTA
1 TAATTATAATAAT-TTTATT-TA
* *
1639805 TCAAATATATATTAATTTTAATTA
1 T--AAT-TATAATAATTTTATTTA
* *
1639829 AATATTACT-ATATATATTATTTA
1 TA-ATTA-TAATA-ATTTTATTTA
1639852 TAATTATAATAATTTTATTT
1 TAATTATAATAATTTTATTT
1639872 TAGTGAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
19 8 0.12
20 9 0.13
21 10 0.15
22 12 0.18
23 15 0.22
24 7 0.10
25 6 0.09
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.54
Consensus pattern (21 bp):
TAATTATAATAATTTTATTTA
Found at i:1641365 original size:21 final size:21
Alignment explanation
Indices: 1641340--1641380 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1641330 CTTTGATTTA
*
1641340 TTGTTATGGATTTCAAGTTTG
1 TTGTTATGGATGTCAAGTTTG
1641361 TTGTTATGGATGTCAAGTTT
1 TTGTTATGGATGTCAAGTTT
1641381 ATTGAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (21 bp):
TTGTTATGGATGTCAAGTTTG
Found at i:1643808 original size:44 final size:44
Alignment explanation
Indices: 1643760--1643856 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
1643750 TTTATACAAA
* * *
1643760 AAACACCACTATATGTCAGAACATTTA-ACGACGTCTTCGGGAAC
1 AAACACCACTAAATATCAGAACATTTAGA-GACGTCTTCAGGAAC
* * *
1643804 AAACACCCCTAAATATCAGAACATTTAGAGACGTTTTTAGGAAC
1 AAACACCACTAAATATCAGAACATTTAGAGACGTCTTCAGGAAC
*
1643848 AAACGCCAC
1 AAACACCAC
1643857 AAAAGAAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (44 bp):
AAACACCACTAAATATCAGAACATTTAGAGACGTCTTCAGGAAC
Found at i:1654249 original size:49 final size:50
Alignment explanation
Indices: 1654190--1654288 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
1654180 CCGCGCTCTA
* *
1654190 CCCACATGGCGCCGGATCAGCCTAAAGCGCACTTCAGGGG-GCGCCTTAC
1 CCCACATGGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGCGCGCCTTAC
* * *
1654239 CCCACGTGGCGCCATATCAGCGTAAAGCGCACTGCAGGGGCGCGCCTTAC
1 CCCACATGGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGCGCGCCTTAC
1654289 TGCAGGGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 35 0.80
50 9 0.20
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.14
Consensus pattern (50 bp):
CCCACATGGCGCCAGATCAGCCTAAAGCGCACTGCAGGGGCGCGCCTTAC
Found at i:1654292 original size:18 final size:19
Alignment explanation
Indices: 1654269--1654311 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1654259 CGTAAAGCGC
*
1654269 ACTGCA-GGGGCGCGCCTT
1 ACTGCAGGGGGCACGCCTT
1654287 ACTGCAGGGGGCACGCCTT
1 ACTGCAGGGGGCACGCCTT
1654306 ACTGCA
1 ACTGCA
1654312 AAGGGTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.16, C:0.33, G:0.35, T:0.16
Consensus pattern (19 bp):
ACTGCAGGGGGCACGCCTT
Found at i:1655237 original size:132 final size:132
Alignment explanation
Indices: 1655000--1655792 Score: 1424
Period size: 132 Copynumber: 6.0 Consensus size: 132
1654990 CCTGAAGCAG
1655000 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
*
1655065 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTGAGCATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655130 TT
131 TT
* *
1655132 ACTTTGCTGAATCCAAGCGTACATTGGTTGAAGGAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
1655197 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655262 TT
131 TT
* * *
1655264 ACTTTGCTGAATCGAAGCGTACATTGGTTGAAGGAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
*
1655329 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCAGATCCTGAGCATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655394 TT
131 TT
*
1655396 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAGAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
*
1655461 AGAAACGGCGGGATGCCATTCCAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655526 TT
131 TT
*
1655528 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGTAGGGAAGCCATTAAAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
* *
1655593 AGAAACGGCGGGATGCCATTCGAGTTGAAACGAACAAGTCCGGGCGGACCGGATCCTCAGCATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655658 TT
131 TT
* * *
1655660 ACTTTACTGAATCCAAGCTTGCATTGGTTGAAGAAGGAAGGGAAGCCATTAAAGCAAGCATTCAA
1 ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
* * *
1655725 AGAAACAGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTCAACATCA
66 AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
1655790 TT
131 TT
1655792 A
1 A
1655793 ATAATCGTAC
Statistics
Matches: 639, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 639 1.00
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (132 bp):
ACTTTGCTGAATCCAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAA
AGAAACGGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTGAGCATCA
TT
Found at i:1657458 original size:17 final size:16
Alignment explanation
Indices: 1657429--1657489 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
1657419 TTCACTAAAA
*
1657429 TAAAATTAT-TATAAT
1 TAAAATAATATATAAT
1657444 TATAAATAATATAT-A-
1 TA-AAATAATATATAAT
* *
1657459 TAAAGTAATATGTAAT
1 TAAAATAATATATAAT
1657475 TAAAATTAATATATA
1 TAAAA-TAATATATA
1657490 TTTGATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 9 0.25
15 5 0.14
16 11 0.31
17 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAAATAATATATAAT
Found at i:1657517 original size:17 final size:19
Alignment explanation
Indices: 1657482--1657518 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1657472 AATTAAAATT
*
1657482 AATATATATTTGATATAAA
1 AATATATATTTAATATAAA
1657501 AATAT-TATTTAAT-TAAA
1 AATATATATTTAATATAAA
1657518 A
1 A
1657519 TGAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATATATTTAATATAAA
Found at i:1658851 original size:132 final size:132
Alignment explanation
Indices: 1658614--1659139 Score: 953
Period size: 132 Copynumber: 4.0 Consensus size: 132
1658604 GAAGCAGCCG
*
1658614 TTGCTGAACCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1 TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1658679 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
66 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
1658744 CT
131 CT
*
1658746 TTGCTGAATCTAAGCGTGCTTTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1 TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1658811 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
66 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
1658876 CT
131 CT
* * *
1658878 TTGTTGAATCTAAGCGTGCTTTGGATGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1 TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
* *
1658943 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCGGGTGGACCGGATCCTCAGCATCATTA
66 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
1659008 CT
131 CT
1659010 TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
1 TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
* * * *
1659075 AACAGCGGGATGCCATTCGAGTCGAAACGAACAAGTCCGGGCGGACCGGATCCTCAACATCATTA
66 AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
1659140 ATAATCGTAC
Statistics
Matches: 381, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 381 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (132 bp):
TTGCTGAATCTAAGCGTGCATTGGTTGAAGAAGGCAGGGAAGCCATTAAAGCAAGCATTCAAAGA
AACGGCGGGATGCCATTTGAGTCGAAACGAACAAGTCCAGGCGGACCGGATCCTCAGCATCATTA
CT
Found at i:1659479 original size:20 final size:20
Alignment explanation
Indices: 1659454--1659493 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1659444 TATCAAAGTT
1659454 AAAAAATTTTAATTTACTCA
1 AAAAAATTTTAATTTACTCA
* *
1659474 AAAAAATTTTGATTTGCTCA
1 AAAAAATTTTAATTTACTCA
1659494 TATTTTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAAAATTTTAATTTACTCA
Found at i:1660211 original size:2 final size:2
Alignment explanation
Indices: 1660204--1660231 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1660194 AATTGAATTG
1660204 AT 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 AT
1660232 CGCAATCATC
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):
AT
Found at i:1665326 original size:3 final size:3
Alignment explanation
Indices: 1665318--1665390 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
1665308 ATATATATAT
* * * *
1665318 ATA ATA ATAA ATA ATA ATA ATA ATA AT- ATA TTA ATA ATT ATA TTT
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
1665363 ATA ATA ATA ATA ATA ATT TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1665391 CAAACGAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:1665630 original size:76 final size:76
Alignment explanation
Indices: 1665538--1665970 Score: 803
Period size: 76 Copynumber: 5.7 Consensus size: 76
1665528 GAGGTCTTAA
1665538 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1665603 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1665614 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAATCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1665679 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1665690 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1665755 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
1665766 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1665831 AGGCTTTTTGG
66 AGGCTTTTTGG
1665842 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1665907 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1665918 AAACATCATGCACTGCAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
1665971 TGCACTGAAG
Statistics
Matches: 346, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 346 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1665976 original size:45 final size:45
Alignment explanation
Indices: 1665912--1666243 Score: 488
Period size: 45 Copynumber: 7.3 Consensus size: 45
1665902 CCCGAAGGCT
* * **
1665912 TTTTGGAAACATCATGCACTGCAGGGCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
* *
1665957 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACACGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
*
1666002 TTTTGAAAACATCATGCACT-AGAGGGCTTACAGATGACCTGTAGG
1 TTTTGAAAACATCATGCACTGA-AGGGCTTACAGATGACCCGTAGG
* * * *
1666047 TTTTGAAAACATCAAAAAGCTCCCGAA-GGCTTATAGATGACCCGTAGG
1 TTTTGAAAACATC---ATGC-ACTGAAGGGCTTACAGATGACCCGTAGG
*
1666095 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
*
1666140 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGTAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
1666185 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
1666230 TTTTGAAAACATCA
1 TTTTGAAAACATCA
1666244 AAAAGCTCCC
Statistics
Matches: 260, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
44 5 0.02
45 217 0.83
48 35 0.13
49 2 0.01
50 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGG
Found at i:1666184 original size:138 final size:135
Alignment explanation
Indices: 1665912--1666243 Score: 488
Period size: 138 Copynumber: 2.4 Consensus size: 135
1665902 CCCGAAGGCT
* * * * **
1665912 TTTTGGAAACATCATGCACTGCAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCAAGCACCGAAGGGCTTACAGATGACCCGTAGGTTTTGAAAACATCATGCACT
*
1665977 GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCT
66 GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCC
1666042 GTAGG
131 GTAGG
* *
1666047 TTTTGAAAACATCAAAAAGCTCCCGAA-GGCTTATAGATGACCCGTAGGTTTTGAAAACATCATG
1 TTTTGAAAACATC---AAGC-ACCGAAGGGCTTACAGATGACCCGTAGGTTTTGAAAACATCATG
* *
1666111 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT-GAAGGGCTTATAGAT
62 CACTGAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAG-AGGGCTTACAGAT
1666175 GACCCGTAGG
126 GACCCGTAGG
* *
1666185 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGTAGGTTTTGAAAACATCA
1 TTTTGAAAACATCAAGCACCGAAGGGCTTACAGATGACCCGTAGGTTTTGAAAACATCA
1666244 AAAAGCTCCC
Statistics
Matches: 176, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
134 4 0.02
135 49 0.28
137 1 0.01
138 119 0.68
139 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (135 bp):
TTTTGAAAACATCAAGCACCGAAGGGCTTACAGATGACCCGTAGGTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCC
GTAGG
Found at i:1666231 original size:183 final size:183
Alignment explanation
Indices: 1665912--1666261 Score: 621
Period size: 183 Copynumber: 1.9 Consensus size: 183
1665902 CCCGAAGGCT
* *
1665912 TTTTGGAAACATCATGCACTGCAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
*
1665977 GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCT
66 GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCC
1666042 GTAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTATAGATGACCCGTAGG
131 GTAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTATAGATGACCCGTAGG
*
1666095 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
* * *
1666160 GAAGGGCTTATAGATGACCCGTAGGTTTTGAAAACATCATGCACT-GAAGGGCTTACAGATGACC
66 GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAG-AGGGCTTACAGATGACC
1666224 CGTAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
130 CGTAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1666262 TTTGGAAACA
Statistics
Matches: 159, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
182 1 0.01
183 158 0.99
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (183 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACACGAAGGTTTTGAAAACATCATGCACTAGAGGGCTTACAGATGACCC
GTAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTATAGATGACCCGTAGG
Found at i:1666363 original size:36 final size:36
Alignment explanation
Indices: 1666323--1666522 Score: 148
Period size: 36 Copynumber: 5.5 Consensus size: 36
1666313 AGTGAAACTG
*
1666323 TCTCAAGCGAGACAACTTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
* * * * ** ** **
1666359 TCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAATT-TTGTTTTAAGAAAAACAA
* *
1666396 TCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
* * * * * ** **
1666432 TCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTG
1 TCTCAAGCGAGACAAATT-TTGTTTTAAGAAAAACAA
* *
1666469 TCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
* *
1666505 TCTCAAGTGAGATAAATT
1 TCTCAAGCGAGACAAATT
1666523 GCTGTTTCGA
Statistics
Matches: 113, Mismatches: 49, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
36 64 0.57
37 49 0.43
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
Found at i:1666385 original size:73 final size:73
Alignment explanation
Indices: 1666308--1666538 Score: 408
Period size: 73 Copynumber: 3.2 Consensus size: 73
1666298 AAAATTTATG
* **
1666308 TTTCGAGTGAAACTGTCTCAAGCGAGACAACTTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1666373 AATTGCTA
66 AATTGCTA
1666381 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1666446 AATTGCTA
66 AATTGCTA
*
1666454 TTTCAAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1 TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
*
1666519 AATTGCTG
66 AATTGCTA
*
1666527 TTTCGAGGGAAA
1 TTTCGAGTGAAA
1666539 ATGTTTACTA
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 151 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (73 bp):
TTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
AATTGCTA
Found at i:1666742 original size:167 final size:165
Alignment explanation
Indices: 1666537--1666859 Score: 540
Period size: 167 Copynumber: 1.9 Consensus size: 165
1666527 TTTCGAGGGA
*
1666537 AAATGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTTCAG
1 AAATGTTTAATAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT-AG
** * *
1666602 AAAAGATTGAATGAGAAACTTTGGAAATCGTTTTCTCATTATG-TTTCAAAATAACCTGTTGATT
65 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATGTTTTCAAAATAACATGTTGATT
*
1666666 GGGTAACATGCCCCAATCTCCAGATAAGGTTGTTGG
130 GGGTAACATGCCCCAATCTCAAGATAAGGTTGTTGG
1666702 AAATAGTTTAATAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTTA
1 AAAT-GTTTAATAAGT-AAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTTA
**
1666767 GAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATGTTTTTGAAATAACATGTTGAT
64 GAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATGTTTTCAAAATAACATGTTGAT
1666832 TGGGTAACATGCCCCAATCTCAAGATAA
129 TGGGTAACATGCCCCAATCTCAAGATAA
1666860 TGCTCATTCT
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
165 4 0.03
166 52 0.35
167 91 0.62
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (165 bp):
AAATGTTTAATAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTTAGA
AAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATGTTTTCAAAATAACATGTTGATTG
GGTAACATGCCCCAATCTCAAGATAAGGTTGTTGG
Found at i:1667872 original size:54 final size:53
Alignment explanation
Indices: 1667790--1667892 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
1667780 TAACCGGTTC
***
1667790 GTAAAACATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTT
1 GTAAAACATTTGACAACACATTCATCCTTT-CTGTGGCTTCTGCTCAGATGTTT
*
1667844 GTAAAACATTTGACAACACATTCATCCTTTTTGTGGCTTCTGCTCAGAT
1 GTAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCTCAGAT
1667893 TTTTCAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 18 0.40
54 27 0.60
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (53 bp):
GTAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCTCAGATGTTT
Found at i:1674406 original size:22 final size:22
Alignment explanation
Indices: 1674371--1674413 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1674361 AAATAAATAA
1674371 AAAATATAAAAATGCATAAATGG
1 AAAATATAAAAATGCA-AAATGG
*
1674394 AAAA-ATAAGAATGCAAAATG
1 AAAATATAAAAATGCAAAATG
1674414 TGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
AAAATATAAAAATGCAAAATGG
Found at i:1674460 original size:14 final size:15
Alignment explanation
Indices: 1674443--1674483 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1674433 TAAAAGTATG
1674443 AATGCAAAAATG-AA
1 AATGCAAAAATGCAA
*
1674457 AATGCAAAGATGCAA
1 AATGCAAAAATGCAA
1674472 AATG--AAAATGCA
1 AATGCAAAAATGCA
1674484 TATATGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 11 0.46
15 6 0.25
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (15 bp):
AATGCAAAAATGCAA
Found at i:1674469 original size:8 final size:7
Alignment explanation
Indices: 1674443--1674483 Score: 50
Period size: 6 Copynumber: 5.9 Consensus size: 7
1674433 TAAAAGTATG
1674443 AATGCAAA
1 AATGC-AA
1674451 AATG-AA
1 AATGCAA
1674457 AATGCAA
1 AATGCAA
1674464 AGATGCAA
1 A-ATGCAA
1674472 AATG-AA
1 AATGCAA
1674478 AATGCA
1 AATGCA
1674484 TATATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
6 12 0.40
7 7 0.23
8 11 0.37
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:1676832 original size:28 final size:28
Alignment explanation
Indices: 1676801--1676855 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
1676791 TAATTCTTGA
*
1676801 ATATATAAATA-AATAA-AATAAAAAAT
1 ATATATAAAAATAATAAGAATAAAAAAT
1676827 ATATATAAAAATAATAAGTAATAAAAAAT
1 ATATATAAAAATAATAAG-AATAAAAAAT
1676856 TTAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 5 0.20
29 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (28 bp):
ATATATAAAAATAATAAGAATAAAAAAT
Found at i:1677382 original size:17 final size:18
Alignment explanation
Indices: 1677357--1677394 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1677347 TAAGAAAATC
1677357 TATTAATTTATATA-AAA
1 TATTAATTTATATAGAAA
* *
1677374 TATTTATTTATTTAGAAA
1 TATTAATTTATATAGAAA
1677392 TAT
1 TAT
1677395 CAGAAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTAATTTATATAGAAA
Found at i:1679503 original size:3 final size:3
Alignment explanation
Indices: 1679495--1679563 Score: 77
Period size: 3 Copynumber: 23.0 Consensus size: 3
1679485 TATATATATT
* * *
1679495 TAA TAA TAAA TAA TAA TAA TAA T-A TAT TAA TAA TAA TAT TTA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1679540 TAA TAA TAA TAA TTT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1679564 CAAACGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1685352 original size:40 final size:40
Alignment explanation
Indices: 1685308--1685387 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
1685298 GGATCCATGG
*
1685308 TGCTTCTAATGACTTCAATTATTTAGGATGTTTTTTCTAT
1 TGCTTCTAATGACTTCAATTATTTAGGATGTTTTTCCTAT
*
1685348 TGCTTCTAGTGACTTCAATTATTTAGGATGTTTTTCCTAT
1 TGCTTCTAATGACTTCAATTATTTAGGATGTTTTTCCTAT
1685388 ATGACTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (40 bp):
TGCTTCTAATGACTTCAATTATTTAGGATGTTTTTCCTAT
Found at i:1685405 original size:39 final size:39
Alignment explanation
Indices: 1685322--1685405 Score: 89
Period size: 40 Copynumber: 2.1 Consensus size: 39
1685312 TCTAATGACT
* * * **
1685322 TCAATTATTTAGGATGTTTTTTCTATTGCTTCTAGTGACT
1 TCAATTATTTAGGATGTTTTTCCTATTGC-ACTAGTAAAA
*
1685362 TCAATTATTTAGGATGTTTTTCCTATATG-ACTATTAAAA
1 TCAATTATTTAGGATGTTTTTCCTAT-TGCACTAGTAAAA
1685401 TCAAT
1 TCAAT
1685406 CTTTACCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 10 0.27
40 25 0.68
41 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (39 bp):
TCAATTATTTAGGATGTTTTTCCTATTGCACTAGTAAAA
Found at i:1686957 original size:38 final size:38
Alignment explanation
Indices: 1686884--1686957 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
1686874 CAAACATCTA
*
1686884 TATTATTTTATATAAAATTATAGACTTATACTATTAAT
1 TATTATTTTATATAAAATTATAGACTTATAATATTAAT
* *
1686922 TATTATTTTA-ATAATAATTCTATA-TCTATAATATTA
1 TATTATTTTATATAA-AATTATAGACT-TATAATATTA
1686958 CACTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (38 bp):
TATTATTTTATATAAAATTATAGACTTATAATATTAAT
Found at i:1687322 original size:23 final size:23
Alignment explanation
Indices: 1687296--1687361 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
1687286 TTTTATAAAG
1687296 TTTTATACTAGTAATTTAATATA
1 TTTTATACTAGTAATTTAATATA
*
1687319 TTTT-TA-T--T--TTATAA-A-G
1 TTTTATACTAGTAATT-TAATATA
1687335 TTTTATACTAGTAATTTAATATA
1 TTTTATACTAGTAATTTAATATA
1687358 TTTT
1 TTTT
1687362 TAGTGTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 18
0.62 0.04 0.35
Matches are distributed among these distances:
16 4 0.12
17 5 0.16
18 4 0.12
19 1 0.03
20 1 0.03
21 4 0.12
22 5 0.16
23 8 0.25
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTTATACTAGTAATTTAATATA
Found at i:1687332 original size:39 final size:39
Alignment explanation
Indices: 1687278--1687363 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
1687268 TTAGTTATTT
1687278 TATTTTTATTTTATAAAGTTTTATACTAGTAATTTAATA
1 TATTTTTATTTTATAAAGTTTTATACTAGTAATTTAATA
1687317 TATTTTTATTTTATAAAGTTTTATACTAGTAATTTAATA
1 TATTTTTATTTTATAAAGTTTTATACTAGTAATTTAATA
1687356 TATTTTTA
1 TATTTTTA
1687364 GTGTTACAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (39 bp):
TATTTTTATTTTATAAAGTTTTATACTAGTAATTTAATA
Found at i:1687854 original size:22 final size:23
Alignment explanation
Indices: 1687829--1687876 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1687819 TTAATTTATA
*
1687829 AAACGT-TAAATTATAAAGTA-TT
1 AAACGTAT-AATTATAAACTAGTT
1687851 AAACGTATAATTATAAACTAGTT
1 AAACGTATAATTATAAACTAGTT
1687874 AAA
1 AAA
1687877 AAATATACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (23 bp):
AAACGTATAATTATAAACTAGTT
Found at i:1688629 original size:2 final size:2
Alignment explanation
Indices: 1688617--1688683 Score: 109
Period size: 2 Copynumber: 33.5 Consensus size: 2
1688607 ATTAATCAAT
*
1688617 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1688659 TA TA -A TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA T-A TA T
1688684 TATCGTATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 58 0.95
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1691303 original size:19 final size:19
Alignment explanation
Indices: 1691279--1691320 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1691269 CATTAATTTC
*
1691279 GAAATAATCTCAAAACTTT
1 GAAATAATCCCAAAACTTT
1691298 GAAATAATCCCAAAACTTT
1 GAAATAATCCCAAAACTTT
1691317 GAAA
1 GAAA
1691321 ACCTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (19 bp):
GAAATAATCCCAAAACTTT
Found at i:1692242 original size:22 final size:23
Alignment explanation
Indices: 1692207--1692254 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1692197 CATTTAGATT
1692207 TTTAACTAATTTATAAT-TATATG
1 TTTAACTAATTTATAATATA-ATG
*
1692230 TTTAA-TATTTTATAATATAATG
1 TTTAACTAATTTATAATATAATG
1692252 TTT
1 TTT
1692255 TATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAACTAATTTATAATATAATG
Found at i:1697711 original size:30 final size:30
Alignment explanation
Indices: 1697670--1697740 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
1697660 GAACAAAGTT
* *
1697670 GAAGACACACTGTCTTCCCGGCGATTTTTC
1 GAAGACACACTGTCTTCCCGGCGACTTTCC
* * *
1697700 GAAGACTCACTGTGTTTCCGGCGACTTTCC
1 GAAGACACACTGTCTTCCCGGCGACTTTCC
*
1697730 GAAGACGCACT
1 GAAGACACACT
1697741 ATATTCCTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (30 bp):
GAAGACACACTGTCTTCCCGGCGACTTTCC
Found at i:1700773 original size:119 final size:119
Alignment explanation
Indices: 1700631--1700858 Score: 402
Period size: 119 Copynumber: 1.9 Consensus size: 119
1700621 CGAGAGGTTT
1700631 ACCCTTACATATACAATTCAATATTCAACATCTTTTAGTGTATAAAGATGTTGAATTAAAATTCG
1 ACCCTTACATATACAATTCAATATTCAACATCTTTTAGTGTATAAAGATGTTGAATTAAAATTCG
1700696 TAATTATAGACACATACGTGTAATACATGATGTTATTATAAAATCCATGTTTTG
66 TAATTATAGACACATACGTGTAATACATGATGTTATTATAAAATCCATGTTTTG
* *
1700750 ACCCTTACATATACAATTTAATATTCAGCATCTTTTAGTGTATAAAGATGTTGAATTAAAATTCG
1 ACCCTTACATATACAATTCAATATTCAACATCTTTTAGTGTATAAAGATGTTGAATTAAAATTCG
* * **
1700815 TAATTGTAGACACATATGTGTAATGTATGATGTTATTATAAAAT
66 TAATTATAGACACATACGTGTAATACATGATGTTATTATAAAAT
1700859 ATAATATAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 103 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (119 bp):
ACCCTTACATATACAATTCAATATTCAACATCTTTTAGTGTATAAAGATGTTGAATTAAAATTCG
TAATTATAGACACATACGTGTAATACATGATGTTATTATAAAATCCATGTTTTG
Found at i:1707881 original size:35 final size:35
Alignment explanation
Indices: 1707842--1707912 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
1707832 ATTTTAAAGC
1707842 TACTTTTATTTATTTGTTTATTTATTCATACATGA
1 TACTTTTATTTATTTGTTTATTTATTCATACATGA
*
1707877 TACTTTTATTTATTTGTTTATTTATTCATATATGA
1 TACTTTTATTTATTTGTTTATTTATTCATACATGA
1707912 T
1 T
1707913 CTGCTACCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (35 bp):
TACTTTTATTTATTTGTTTATTTATTCATACATGA
Found at i:1709444 original size:30 final size:30
Alignment explanation
Indices: 1709210--1709476 Score: 390
Period size: 30 Copynumber: 8.9 Consensus size: 30
1709200 TTCCCCATGC
*
1709210 TGTTGTTGGGTGGCGGCATCCCTCGCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
* *
1709240 CGTTGTTGGGTGGCGGCATCCCTCGCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
* *
1709270 CGTTGTTGGGTGGCGGCATCCCTCGCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
* * *
1709300 CGTTGTTGGGTGACGGCATCCCTCGCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
*
1709330 TGTTGTTGGGTGGCGGCATCCCTCCCATGT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
1709360 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
*
1709390 TGTTGTTGGGTGGCGGCATGCCTCCCATAT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
**
1709420 TGTTGTTGGGTGGCGGCATCCCTCCCACGT
1 TGTTGTTGGGTGGCGGCATCCCTCCCATAT
** * *
1709450 TCATGTTGGGTGGGGGCATTCCTCCCA
1 TGTTGTTGGGTGGCGGCATCCCTCCCA
1709477 CGTTCATGTT
Statistics
Matches: 222, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 222 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (30 bp):
TGTTGTTGGGTGGCGGCATCCCTCCCATAT
Found at i:1719462 original size:15 final size:15
Alignment explanation
Indices: 1719442--1719470 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1719432 TGTCCAGTAA
1719442 TTACATAATAATAAC
1 TTACATAATAATAAC
1719457 TTACATAATAATAA
1 TTACATAATAATAA
1719471 GATAACTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
TTACATAATAATAAC
Found at i:1720127 original size:39 final size:39
Alignment explanation
Indices: 1720058--1720136 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
1720048 TTAAACACAA
1720058 AGAATATACACACAGACGTACATCAGAATGAAGATCAAT
1 AGAATATACACACAGACGTACATCAGAATGAAGATCAAT
* * * *
1720097 AGAATATACACATAGATGTACTTCATAATGAAGATCAAT
1 AGAATATACACACAGACGTACATCAGAATGAAGATCAAT
1720136 A
1 A
1720137 CATCAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (39 bp):
AGAATATACACACAGACGTACATCAGAATGAAGATCAAT
Found at i:1722863 original size:35 final size:35
Alignment explanation
Indices: 1722817--1722892 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
1722807 AAAACAGTCA
* *
1722817 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
**
1722852 TCAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1722887 TCAATT
1 TCAATT
1722893 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1723430 original size:130 final size:130
Alignment explanation
Indices: 1723289--1723536 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
1723279 TATTTATATA
*
1723289 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1723354 TTAGCACATGATCATGACATGTGTCATTGGTGAAATATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACATGTGTCATTAGTGAAACATGTCACCACCTAATTATTTATATATGCT
1723419 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1723484 TTAACACATGATCATGATATGTGTTATTAGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATGTGTCATTAGTGAAACATGTCACCACCTAATTA
1723537 GAAGAAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACATGTGTCATTAGTGAAACATGTCACCACCTAATTATTTATATATGCT
Found at i:1724027 original size:16 final size:18
Alignment explanation
Indices: 1724006--1724039 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1723996 ATTTCTTATT
1724006 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1724022 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1724040 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1724121 original size:22 final size:22
Alignment explanation
Indices: 1724096--1724155 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1724086 AATATACATT
* **
1724096 TATATAAATATATTTTTATTCG
1 TATATAAATATATTTTGATTAA
*
1724118 TATATTGAA-ATATTTTGATTAA
1 TATA-TAAATATATTTTGATTAA
*
1724140 AATATAAATATATTTT
1 TATATAAATATATTTT
1724156 AAATACTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 24 0.80
23 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TATATAAATATATTTTGATTAA
Found at i:1724991 original size:15 final size:15
Alignment explanation
Indices: 1724971--1725000 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1724961 GGATAAAGTC
1724971 GGTGCTGATGCTGGA
1 GGTGCTGATGCTGGA
1724986 GGTGCTGATGCTGGA
1 GGTGCTGATGCTGGA
1725001 ATCAGAAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.47, T:0.27
Consensus pattern (15 bp):
GGTGCTGATGCTGGA
Found at i:1728546 original size:16 final size:16
Alignment explanation
Indices: 1728512--1728546 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1728502 TATAATATTG
* *
1728512 AAACTCGAACTCGAAA
1 AAACTCAAACTCAAAA
1728528 AAACTCAAACTCAAAA
1 AAACTCAAACTCAAAA
1728544 AAA
1 AAA
1728547 TTTCAAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.23, G:0.06, T:0.11
Consensus pattern (16 bp):
AAACTCAAACTCAAAA
Found at i:1729023 original size:15 final size:15
Alignment explanation
Indices: 1728993--1729023 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1728983 TGGAAACTCG
*
1728993 ACTCAAACTCGAAAA
1 ACTCAAACTCAAAAA
1729008 ACTCAAACTCAAAAA
1 ACTCAAACTCAAAAA
1729023 A
1 A
1729024 TTTCAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (15 bp):
ACTCAAACTCAAAAA
Found at i:1729147 original size:477 final size:472
Alignment explanation
Indices: 1728205--1729154 Score: 1715
Period size: 477 Copynumber: 2.0 Consensus size: 472
1728195 ACAATTATTT
* *
1728205 ATAAGGCTCTCTTTAAGCACATCTAGGGATGGCAAACGGGCGGGTCAGATGCGGATACCCCCTCC
1 ATAAGGCCCTCTTTAAGCACATCTAGGGATGGCAAACGGGCAGGTCAGATGCGGATACCCCCTCC
*
1728270 CCATCCCCACCTAATATTTTTCAATCCACCACCCGCCCACCACCCATGATGGGTAAAAAATTTTA
66 CCATCCCCACCTAATATTTTTCAATCCACCACCCGCCCACCACCCACGATGGGTAAAAAATTTTA
1728335 AATCCACACCCGCCCACACGGGTACATTCTCAAATCCATCCCCACACCCACCGAGTCGAGCTCGA
131 AATCCACACCCGCCCACACGGGTACATTCTCAAATCCATCCCCACACCCACCGAGTCGAGCTCGA
*
1728400 GTATTGCTGAGCTCGACTCGAACTCGAAAACTTTAAAAGTAGGCTCGACTCGACTGAAAAACTCG
196 GTATTGCTAAGCTCGACTCGAACTCGAAAACTTTAAAAGTAGGCTCGACTCGACTGAAAAACTCG
*
1728465 CGAGCTAAAAATTATCAAGCTCAACTCGAACTTGAAATATAATATTGAAACTCGAACTCGAAAAA
261 CGAGCTAAAAATTATCAAGCTCAACTCGAACTTGAAATATAATATGGAAACTCGAACTCGAAAAA
*
1728530 ACTCAAACTCAAAAAAATTTCAAGAGCTCAATTGAAGCTCGATTTTAAGCTCGATTCTAGCTCAA
326 ACTCAAACTCAAAAAAATTTCAAGAGCTCAATTGAAGCTCGATTTTAAGCTCGATTCAAGCTCAA
* *
1728595 ACTCACCCACTACCACAAATTATGACGTAAGCTCTCCTACAGTGGGAAGACCTTAGGTGAGCGCC
391 ACTCACCCACTACCACAAATTATGACGTAAGCTCTCCAACAGTGGGAAGACCTTAGGCGAGCGCC
1728660 CCTCCCAAGTGCAATGG
456 CCTCCCAAGTGCAATGG
*
1728677 ATAAGGCCCTCTTTAAGCACATCTAGGGATGGCAAACGGGCAGGTCGGATGCGGATACCCCCTCC
1 ATAAGGCCCTCTTTAAGCACATCTAGGGATGGCAAACGGGCAGGTCAGATGCGGATACCCCCT-C
1728742 CCCATCCCCACCTAATATTTTTCAATCCACCACCCGCCCACCACCCACGATGGGTAAAAAATTTT
65 CCCATCCCCACCTAATATTTTTCAATCCACCACCCGCCCACCACCCACGATGGGTAAAAAATTTT
* *
1728807 AAATCCACACCTGCCCACACGGGTACATTCTCAAATCCATCCCCACGCCCACCGAGTCGAGCTTC
130 AAATCCACACCCGCCCACACGGGTACATTCTCAAATCCATCCCCACACCCACCGAGTCGAGC-TC
1728872 GAGTATTGCTAAGCTCGACTCGAACTCGAAAACTTTAAAAGTAGGCTCGACTCGACTGAAAAACT
194 GAGTATTGCTAAGCTCGACTCGAACTCGAAAACTTTAAAAGTAGGCTCGACTCGACTGAAAAACT
1728937 CGCGAGCTAAAAATTATCAAGCTCAACTCGAACTTGAAATATAATATGGAAACTCGACTCAAACT
259 CGCGAGCTAAAAATTATCAAGCTCAACTCGAACTTGAAATATAATATGGAAACTCG-----AACT
1729002 CG-AAAAACTCAAACTC-AAAAAATTTCAAGAGCTCAATTGAAGCTCGATTTTAAGCTCGATTCA
319 CGAAAAAACTCAAACTCAAAAAAATTTCAAGAGCTCAATTGAAGCTCGATTTTAAGCTCGATTCA
*
1729065 AGCTCAAACTCACCCACTACCACAAATTATGACGTAGGCTCTCCAACAGTGGGAAGACCTTAGGC
384 AGCTCAAACTCACCCACTACCACAAATTATGACGTAAGCTCTCCAACAGTGGGAAGACCTTAGGC
1729130 GAGCGCCCCTCCCAAGTGCAATGG
449 GAGCGCCCCTCCCAAGTGCAATGG
1729154 A
1 A
1729155 GGTCGCTTAC
Statistics
Matches: 459, Mismatches: 12, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
472 60 0.13
473 125 0.27
474 121 0.26
477 133 0.29
478 14 0.03
479 6 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (472 bp):
ATAAGGCCCTCTTTAAGCACATCTAGGGATGGCAAACGGGCAGGTCAGATGCGGATACCCCCTCC
CCATCCCCACCTAATATTTTTCAATCCACCACCCGCCCACCACCCACGATGGGTAAAAAATTTTA
AATCCACACCCGCCCACACGGGTACATTCTCAAATCCATCCCCACACCCACCGAGTCGAGCTCGA
GTATTGCTAAGCTCGACTCGAACTCGAAAACTTTAAAAGTAGGCTCGACTCGACTGAAAAACTCG
CGAGCTAAAAATTATCAAGCTCAACTCGAACTTGAAATATAATATGGAAACTCGAACTCGAAAAA
ACTCAAACTCAAAAAAATTTCAAGAGCTCAATTGAAGCTCGATTTTAAGCTCGATTCAAGCTCAA
ACTCACCCACTACCACAAATTATGACGTAAGCTCTCCAACAGTGGGAAGACCTTAGGCGAGCGCC
CCTCCCAAGTGCAATGG
Found at i:1757982 original size:20 final size:19
Alignment explanation
Indices: 1757943--1757984 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1757933 TTTCTTCGAT
1757943 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1757962 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1757982 ATT
1 ATT
1757985 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1758095 original size:120 final size:120
Alignment explanation
Indices: 1757850--1758088 Score: 290
Period size: 120 Copynumber: 2.0 Consensus size: 120
1757840 AAATAATATT
* * * *
1757850 AATTTATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCATAAAAGGACTTCTAG
1 AATTAATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACATCCAG
* *
1757915 GTGCCTTAAGACAGCTATTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 GTGCCTTAAGACAGCCATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
**
1757970 AATTAATATATA-ATTTATAAAATAGGATATTTATTTATTTA-AAGATATCAGAAAATGGACATC
1 AATTAATATATATATTTAT-AAATAAAATATTTATTTATTTAGAA-ATATCAGAAAA-GGACATC
* ** ** *
1758033 CAGTTGTTTTAAGACTTCCA-TTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAAC
63 CAGGTGCCTTAAGACAGCCATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
1758088 A
1 A
1758089 TGATTAAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
118 9 0.09
119 27 0.26
120 47 0.46
121 19 0.19
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (120 bp):
AATTAATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACATCCAG
GTGCCTTAAGACAGCCATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:1758179 original size:3 final size:3
Alignment explanation
Indices: 1758171--1758203 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1758161 TATATGGCTA
*
1758171 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1758204 TAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1759534 original size:44 final size:44
Alignment explanation
Indices: 1759485--1759591 Score: 187
Period size: 44 Copynumber: 2.4 Consensus size: 44
1759475 CTGGAAGCTA
*
1759485 CTGGAAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGGAAATTG
1 CTGGAAATGCTGCGTGGAGGGGCTACTGCAGCTGATGGAAATTG
1759529 CTGGAAATGCTGCGTGGAGGGGCTACTGCAGCTGATGGAAATTG
1 CTGGAAATGCTGCGTGGAGGGGCTACTGCAGCTGATGGAAATTG
**
1759573 CTGGAAATGCAACGTGGAG
1 CTGGAAATGCTGCGTGGAG
1759592 CTGCTGGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.21
Consensus pattern (44 bp):
CTGGAAATGCTGCGTGGAGGGGCTACTGCAGCTGATGGAAATTG
Found at i:1760154 original size:137 final size:139
Alignment explanation
Indices: 1759995--1760352 Score: 524
Period size: 139 Copynumber: 2.6 Consensus size: 139
1759985 AATCTAGCAA
* *
1759995 AAGGTTGAACAAGTTCTACTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
1760060 GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGG-T-GTCGTTGATTCAACTTCATATGTGATG
66 GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGGTGATG
*
1760123 AATTAAGAC
131 AATCAAGAC
* * *
1760132 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTTCCTATTCAGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
1760197 GAACTTCC-TCTGAAAATATTGATCCTCAAGTGAGGTTCTTCTTTCATTCAACTTCATAGGTGAT
66 GAAC-TCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGGTGAT
*
1760261 GAATCAAGAT
130 GAATCAAGAC
* * * *
1760271 AAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
1760336 GAACTCTTTCTGGAAAT
66 GAACTCCTTCTGGAAAT
1760353 GGCTCTGCTG
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
137 89 0.46
138 6 0.03
139 100 0.51
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGGTGATG
AATCAAGAC
Found at i:1760887 original size:261 final size:251
Alignment explanation
Indices: 1760425--1760887 Score: 583
Period size: 261 Copynumber: 1.8 Consensus size: 251
1760415 AGTCATGCAA
* *
1760425 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATAAGTTCTTCTCATTA
* *
1760490 TGAACTCGACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCT
66 TGAACTCGACCTGGAAATGTTGATCCATCCAGTGATGAATTCAAGCAAAAAGTTGAACAAGCTCT
* * * * * *
1760555 TCTCATTATGAACTTATTCTTCTTTTTCAGATGAGTTCTTCTCATTATGATCTCCTTCTGGAAAT
131 TCTCATTATGAACTTATTCTTCCTCTTCAGATAAATTCTTCTCATTATGAACTCCTTCTGGAAAC
1760620 GCTGATCTTCAAAAGAGGGATTTGTTGATTCAACTTCATATGTGATGAATTAAGGT
196 GCTGATCTTCAAAAGAGGGATTTGTTGATTCAACTTCATATGTGATGAATTAAGGT
* *
1760676 AAGGTTGAATAAATTCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATAAGTTCTTCTCATTA
** * * * *
1760740 TGAACT-TTCTCTGGAAAAGTTGGTGTTGATCTATCTCATTCTGTGAT-AGATTTATGCAAAATG
66 TGAACTCGAC-CTGG-AAA-----TGTTGATCCATC-CA----GTGATGA-ATTCAAGCAAAAAG
*
1760803 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCATTATGAAC
118 TTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAATTCTTCTCATTATGAAC
* *
1760868 T-TTCTCTGGCAACGCTGATC
183 TCCT-TCTGGAAACGCTGATC
1760888 CATCGGGTGA
Statistics
Matches: 177, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
249 1 0.01
250 32 0.18
251 41 0.23
256 11 0.06
257 1 0.01
260 2 0.01
261 89 0.50
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (251 bp):
AAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATAAGTTCTTCTCATTA
TGAACTCGACCTGGAAATGTTGATCCATCCAGTGATGAATTCAAGCAAAAAGTTGAACAAGCTCT
TCTCATTATGAACTTATTCTTCCTCTTCAGATAAATTCTTCTCATTATGAACTCCTTCTGGAAAC
GCTGATCTTCAAAAGAGGGATTTGTTGATTCAACTTCATATGTGATGAATTAAGGT
Found at i:1761126 original size:73 final size:73
Alignment explanation
Indices: 1761002--1761247 Score: 411
Period size: 73 Copynumber: 3.4 Consensus size: 73
1760992 GAGGTCTTAT
* * *
1761002 CATCTTGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTGAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1761067 TTTGAAAA
66 TTTGAAAA
* * * *
1761075 CATCATGCACTATAGGTCTTACAGATGACCCTGAGGCTATAAGATCAAAAAGCTTCTGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
*
1761140 TTTGATAA
66 TTTGAAAA
*
1761148 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCTCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1761213 TTTGAAAA
66 TTTGAAAA
1761221 CATCATGCACTGTAGGTCTTACAGATG
1 CATCATGCACTGTAGGTCTTACAGATG
1761248 TGGGAAATAG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 159 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (73 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
TTTGAAAA
Found at i:1761538 original size:165 final size:166
Alignment explanation
Indices: 1761250--1761573 Score: 560
Period size: 165 Copynumber: 2.0 Consensus size: 166
1761240 TACAGATGTG
* *
1761250 GGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTTATTTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
** *
1761315 TAGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGA
66 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
* *
1761380 TTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 TTAGGTAACATGCCCCAATATCAAGATAAGGCTGTT
1761416 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTT
1 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
**
1761480 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTGAAATAACATGTCGA
66 TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
1761545 TTAGGTAACATGCCCCAATATCAAGATAA
131 TTAGGTAACATGCCCCAATATCAAGATAA
1761574 TGCTCATTTT
Statistics
Matches: 149, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
165 90 0.60
166 59 0.40
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (166 bp):
GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
TAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTCGA
TTAGGTAACATGCCCCAATATCAAGATAAGGCTGTT
Found at i:1762113 original size:22 final size:22
Alignment explanation
Indices: 1762088--1762147 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
1762078 AATAAAGCTT
*
1762088 TCATTTTTGAAAAGAGAATCTA
1 TCATATTTGAAAAGAGAATCTA
* *
1762110 TCATATTTAAAAAGATAATCTA
1 TCATATTTGAAAAGAGAATCTA
*
1762132 TCATCTTTGAAAAGAG
1 TCATATTTGAAAAGAG
1762148 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATATTTGAAAAGAGAATCTA
Found at i:1768755 original size:20 final size:20
Alignment explanation
Indices: 1768732--1768770 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1768722 CGAACGTAAA
*
1768732 AATGCAAATATAAAAATGTG
1 AATGCAAACATAAAAATGTG
* *
1768752 AATGTAACCATAAAAATGT
1 AATGCAAACATAAAAATGT
1768771 AAATTGTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGCAAACATAAAAATGTG
Found at i:1771036 original size:20 final size:19
Alignment explanation
Indices: 1770997--1771038 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1770987 TTTCTTCGAT
1770997 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1771016 ATTAAAATAATTAATATATA
1 ATTAAAA-AATAAATAAATA
1771036 ATT
1 ATT
1771039 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1771111 original size:120 final size:116
Alignment explanation
Indices: 1770905--1771140 Score: 287
Period size: 120 Copynumber: 2.0 Consensus size: 116
1770895 AAAAAAATAT
* * * *
1770905 TAATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGG
1 TAATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
* *
1770970 TGCCTTAAGACATCTATTTTCTTCGATATTAAAAAATAAATAAATAATTAAAA
66 TGCCTTAAGACATCTACTTTCTT-AATATTAAAAAATAAATAAAT-ATTAAAA
**
1771023 TAATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCC
1 TAATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCC
* ** * *
1771088 AGTTGTTTTAAGAC-TGC-CCTTTCTTAATATTGAAAAATAAATAAATATTAAAA
63 AGGTGCCTTAAGACAT-CTACTTTCTTAATATTAAAAAATAAATAAATATTAAAA
1771141 ACATGATTAA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
118 18 0.18
119 25 0.25
120 40 0.40
121 18 0.18
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (116 bp):
TAATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
TGCCTTAAGACATCTACTTTCTTAATATTAAAAAATAAATAAATATTAAAA
Found at i:1771234 original size:3 final size:3
Alignment explanation
Indices: 1771226--1771258 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1771216 TATATGGCTA
*
1771226 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1771259 TAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1772595 original size:44 final size:44
Alignment explanation
Indices: 1772546--1772648 Score: 179
Period size: 44 Copynumber: 2.3 Consensus size: 44
1772536 AAGCTACTGA
*
1772546 AAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGGAAATTGCTGG
1 AAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGAAAATTGCTGG
1772590 AAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGAAAATTGCTGG
1 AAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGAAAATTGCTGG
**
1772634 AAATGCAACGTGGAG
1 AAATGCTGCGTGGAG
1772649 CTGCTGGAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.21
Consensus pattern (44 bp):
AAATGCTGCGTGGAGGGGCTGCTGCAGCTGATGAAAATTGCTGG
Found at i:1775628 original size:21 final size:22
Alignment explanation
Indices: 1775604--1775666 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
1775594 TCTAAACATA
*
1775604 TAAACTTTTAATAAAT-T-ATAT
1 TAAAATTTTAA-AAATATAATAT
1775625 TAAAATTTTAAAAATATAATAT
1 TAAAATTTTAAAAATATAATAT
*
1775647 TACAAAATTTAAAATATATA
1 TA-AAATTTTAAAA-ATATA
1775667 TAAATTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 6 0.17
23 10 0.28
24 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTTTAAAAATATAATAT
Found at i:1775660 original size:22 final size:22
Alignment explanation
Indices: 1775621--1775666 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
1775611 TTAATAAATT
*
1775621 ATATTAAAATTTTAAAAATATA
1 ATATTAAAAATTTAAAAATATA
1775643 ATATTACAAAATTTAAAATATATA
1 ATATTA-AAAATTTAAAA-ATATA
1775667 TAAATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTAAAAATTTAAAAATATA
Found at i:1775705 original size:15 final size:15
Alignment explanation
Indices: 1775625--1775721 Score: 63
Period size: 15 Copynumber: 6.0 Consensus size: 15
1775615 TAAATTATAT
1775625 TAAAAT-TTTAAAAA
1 TAAAATATTTAAAAA
*
1775639 TATAATA-TTACAAAA
1 TAAAATATTTA-AAAA
1775654 TTTAAAATATATATAAATTAA
1 --TAAAATAT-T-TAAA--AA
*
1775675 TAAAAAAATATTAAAAA
1 T-AAAATAT-TTAAAAA
* *
1775692 TATAATTTTTAAAAA
1 TAAAATATTTAAAAA
1775707 TAAAATATTTAAAAA
1 TAAAATATTTAAAAA
1775722 ATACAATCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
14 8 0.12
15 24 0.37
16 4 0.06
17 9 0.14
19 8 0.12
20 10 0.15
21 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATATTTAAAAA
Found at i:1785289 original size:20 final size:20
Alignment explanation
Indices: 1785261--1785306 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1785251 GACTGAGAAT
*
1785261 TTTTCACTTACGTAAAGTTG
1 TTTTAACTTACGTAAAGTTG
1785281 TTTTAACTTACGTAAAGTTG
1 TTTTAACTTACGTAAAGTTG
1785301 TTTTAA
1 TTTTAA
1785307 AGGAGATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTTAACTTACGTAAAGTTG
Found at i:1789488 original size:3 final size:3
Alignment explanation
Indices: 1789471--1789512 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
1789461 GATATTTTAA
* *
1789471 AAT AAT AGT AGT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1789513 TAAGGTAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1789497 original size:20 final size:20
Alignment explanation
Indices: 1789472--1789515 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1789462 ATATTTTAAA
* *
1789472 ATAATAGTAGTAATAATAAT
1 ATAATAATAATAATAATAAT
1789492 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
1789512 ATAA
1 ATAA
1789516 GGTAGTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:1792540 original size:22 final size:21
Alignment explanation
Indices: 1792515--1792571 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
1792505 TAACGGCAAT
1792515 ATTTAATAATTTTGATATAAAA
1 ATTTAATAATTTTGATAT-AAA
* * * *
1792537 ATTTAATGATTGTAATCTAAA
1 ATTTAATAATTTTGATATAAA
*
1792558 TTTTAATAATTTTG
1 ATTTAATAATTTTG
1792572 TGACAAAAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTTAATAATTTTGATATAAA
Found at i:1800501 original size:20 final size:20
Alignment explanation
Indices: 1800476--1800547 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
1800466 TTTTCCCAAT
1800476 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
1800496 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
1800516 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
1800537 TCGCAATGCGA
1 TCGCAATGCGA
1800548 TACTGACCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:1800578 original size:41 final size:41
Alignment explanation
Indices: 1800533--1800610 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
1800523 GCGAATTGGG
* * *
1800533 AAAATCGCAATGCGATACTGACCATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACCATCGCAACGCGATAATAA
* * **
1800574 AAAATTGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACCATCGCAACGCGATA
1800611 CTGACTTTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACCATCGCAACGCGATAATAA
Found at i:1800605 original size:20 final size:20
Alignment explanation
Indices: 1800580--1800630 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1800570 ATAAAAAATT
* *
1800580 GCAACGAGATACTTACTTTC
1 GCAACGCGATACTGACTTTC
1800600 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
1800620 GCAACGCGATA
1 GCAACGCGATA
1800631 ATACATAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:1800846 original size:22 final size:22
Alignment explanation
Indices: 1800818--1800861 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1800808 CACTCTCTCA
1800818 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1800840 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1800862 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1801150 original size:20 final size:20
Alignment explanation
Indices: 1801125--1801162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1801115 CGATTCTCTG
1801125 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1801145 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1801163 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1802500 original size:18 final size:18
Alignment explanation
Indices: 1802479--1802521 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1802469 TCCACTTCGG
*
1802479 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1802497 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1802515 GAGCCAT
1 GAGCCAT
1802522 TATCTGATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.44, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1803056 original size:20 final size:20
Alignment explanation
Indices: 1803006--1803072 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1802996 TAGTTTACTT
*
1803006 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
1803026 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
1803046 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
1803065 TCGCAACG
1 TCGCAACG
1803073 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1803080 original size:14 final size:14
Alignment explanation
Indices: 1803061--1803118 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1803051 ATGCGAAATG
1803061 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1803075 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
1803091 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1803107 AAAATCGCAACG
1 AAAATCGCAACG
1803119 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1803103 original size:32 final size:33
Alignment explanation
Indices: 1803045--1803123 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1803035 GAAAATGGCT
1803045 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1803078 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1803110 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
1803124 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1803152 original size:19 final size:19
Alignment explanation
Indices: 1803130--1803267 Score: 91
Period size: 19 Copynumber: 7.8 Consensus size: 19
1803120 GAAACACAAA
1803130 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1803149 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1803165 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
1803181 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
1803197 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
***
1803214 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
* **
1803233 TCCGCGTTGCGATAGTCATT
1 T-CGCATTGCGATTTTCATT
*
1803253 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
1803268 AAGTTTCGTG
Statistics
Matches: 96, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
14 15 0.16
15 3 0.03
16 12 0.12
17 4 0.04
18 12 0.12
19 33 0.34
20 17 0.18
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1803171 original size:14 final size:14
Alignment explanation
Indices: 1803152--1803209 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1803142 TTTCATTTCG
1803152 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1803166 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1803182 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1803198 CGTTGCGATTTT
1 CGTTGCGATTTT
1803210 TATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1803220 original size:33 final size:33
Alignment explanation
Indices: 1803135--1803225 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
1803125 ACAAATCGCA
*
1803135 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1803168 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1803200 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1803226 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1803244 original size:20 final size:19
Alignment explanation
Indices: 1803211--1803264 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
1803201 TGCGATTTTT
*
1803211 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGATAGCC
*
1803230 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATAGCC
1803250 ATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGAT
1803265 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGCC
Found at i:1804994 original size:14 final size:14
Alignment explanation
Indices: 1804975--1805010 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1804965 ATTGTTTAAT
1804975 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1804989 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1805003 TGATTTGT
1 TGATTTGT
1805011 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1805121 original size:20 final size:20
Alignment explanation
Indices: 1805096--1805133 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1805086 GCAAAACAGA
*
1805096 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
1805116 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
1805134 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:1805152 original size:19 final size:19
Alignment explanation
Indices: 1805128--1805195 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1805118 ATCGCAACGA
1805128 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1805147 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1805166 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
1805180 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
1805196 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1805244 original size:20 final size:20
Alignment explanation
Indices: 1805221--1805291 Score: 142
Period size: 20 Copynumber: 3.5 Consensus size: 20
1805211 GCGATTTCCT
1805221 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
1805241 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
1805261 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
1805281 CGTTGCGATAG
1 CGTTGCGATAG
1805292 TCAAATGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Done.