Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 65
Found at i:7164843 original size:219 final size:219
Alignment explanation
Indices: 7164464--7164901 Score: 867
Period size: 219 Copynumber: 2.0 Consensus size: 219
7164454 TTTAACACCT
7164464 GTGAGGGTTTCATATACCTACAGAATAAGGAAAGTTGGTTACATCAACGAAGTGTTAATTACAAC
1 GTGAGGGTTTCATATACCTACAGAATAAGGAAAGTTGGTTACATCAACGAAGTGTTAATTACAAC
7164529 AACCAGCTGATATTTGTGAGAATGATAACTTTAAACATCAATACCATTTTAATTCATTTATGGAT
66 AACCAGCTGATATTTGTGAGAATGATAACTTTAAACATCAATACCATTTTAATTCATTTATGGAT
7164594 TTTTTTTTATAAAAACAGGTTTTACTTTTGGGAGAATGCTCAATTGATCCCTATAGTTAGGAAAA
131 TTTTTTTTATAAAAACAGGTTTTACTTTTGGGAGAATGCTCAATTGATCCCTATAGTTAGGAAAA
*
7164659 TTGGTTGTGTTAGGGTTCTAAAAG
196 TTGGTTGTGTTAGGGTACTAAAAG
7164683 GTGAGGGTTTCATATACCTACAGAATAAGGAAAGTTGGTTACATCAACGAAGTGTTAATTACAAC
1 GTGAGGGTTTCATATACCTACAGAATAAGGAAAGTTGGTTACATCAACGAAGTGTTAATTACAAC
7164748 AACCAGCTGATATTTGTGAGAATGATAACTTTAAACATCAATACCATTTTAATTCATTTATGGAT
66 AACCAGCTGATATTTGTGAGAATGATAACTTTAAACATCAATACCATTTTAATTCATTTATGGAT
7164813 TTTTTTTTATAAAAACAGGTTTTACTTTTGGGAGAATGCTCAATTGATCCCTATAGTTAGGAAAA
131 TTTTTTTTATAAAAACAGGTTTTACTTTTGGGAGAATGCTCAATTGATCCCTATAGTTAGGAAAA
7164878 TTGGTTGTGTTAGGGTACTAAAAG
196 TTGGTTGTGTTAGGGTACTAAAAG
7164902 AAATATTCAA
Statistics
Matches: 218, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 218 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (219 bp):
GTGAGGGTTTCATATACCTACAGAATAAGGAAAGTTGGTTACATCAACGAAGTGTTAATTACAAC
AACCAGCTGATATTTGTGAGAATGATAACTTTAAACATCAATACCATTTTAATTCATTTATGGAT
TTTTTTTTATAAAAACAGGTTTTACTTTTGGGAGAATGCTCAATTGATCCCTATAGTTAGGAAAA
TTGGTTGTGTTAGGGTACTAAAAG
Found at i:7165114 original size:87 final size:87
Alignment explanation
Indices: 7164968--7165141 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
7164958 ACACGTGACA
7164968 ACCCAACCAAACCTGATGAGGTATCCCTCAACCTATGTTGCTTCTACTTCTCATTTTATAGGAGC
1 ACCCAACCAAACCTGATGAGGTATCCCTCAACCTATGTTGCTTCTACTTCTCATTTTATAGGAGC
7165033 ACCCATGTCAAACACCTGTGTT
66 ACCCATGTCAAACACCTGTGTT
7165055 ACCCAACCAAACCTGATGAGGTATCCCTCAACCTATGTTGCTTCTACTTCTCATTTTATAGGAGC
1 ACCCAACCAAACCTGATGAGGTATCCCTCAACCTATGTTGCTTCTACTTCTCATTTTATAGGAGC
7165120 ACCCATGTCAAACACCTGTGTT
66 ACCCATGTCAAACACCTGTGTT
7165142 TGAGATTGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (87 bp):
ACCCAACCAAACCTGATGAGGTATCCCTCAACCTATGTTGCTTCTACTTCTCATTTTATAGGAGC
ACCCATGTCAAACACCTGTGTT
Found at i:7186520 original size:18 final size:18
Alignment explanation
Indices: 7186497--7186540 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7186487 GTCAGGTTTC
*
7186497 AAAAAACAAAACAAAAGT
1 AAAAAACAAAACAAAAGA
* * *
7186515 AAAAAAGAAAGCAATAGA
1 AAAAAACAAAACAAAAGA
7186533 AAAAAACA
1 AAAAAACA
7186541 CATACTTCCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAACAAAACAAAAGA
Found at i:7197477 original size:55 final size:54
Alignment explanation
Indices: 7197409--7197519 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 54
7197399 GAATGCTTCA
*
7197409 TTTTTTTTTTATAGGAATAAGAGGTCTCATTAAAAACCTCCCTCTTAGTGGACC
1 TTTTTTTTTTATAGGAATAAGAGGTCTCATTAAAAACCTCCCTCTTAATGGACC
*
7197463 TTTTTTTTTATATAGGAATAGGAGGTCTCATTAAAAACCTCCCTCTTAATGGACC
1 TTTTTTTTT-TATAGGAATAAGAGGTCTCATTAAAAACCTCCCTCTTAATGGACC
7197518 TT
1 TT
7197520 ATCAATAAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 9 0.17
55 45 0.83
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
TTTTTTTTTTATAGGAATAAGAGGTCTCATTAAAAACCTCCCTCTTAATGGACC
Found at i:7202145 original size:26 final size:26
Alignment explanation
Indices: 7202109--7202161 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7202099 ATTTTCACTT
7202109 CAAGCAGCGAAATAGAGTCTGCCAGC
1 CAAGCAGCGAAATAGAGTCTGCCAGC
7202135 CAAGCAGCGAAATAGAGTCTGCCAGC
1 CAAGCAGCGAAATAGAGTCTGCCAGC
7202161 C
1 C
7202162 CTAAATGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.11
Consensus pattern (26 bp):
CAAGCAGCGAAATAGAGTCTGCCAGC
Found at i:7207088 original size:18 final size:18
Alignment explanation
Indices: 7207045--7207079 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7207035 AAGAAATTAC
7207045 TAAGAGTTCTAGCTAAGG
1 TAAGAGTTCTAGCTAAGG
*
7207063 TAAGAGTTCTAGGTAAG
1 TAAGAGTTCTAGCTAAG
7207080 TTAGAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (18 bp):
TAAGAGTTCTAGCTAAGG
Found at i:7227330 original size:74 final size:74
Alignment explanation
Indices: 7227236--7227384 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
7227226 GTTAAATCTC
*
7227236 CAGTACCACCATGATTAAAACAGCCTTCACTGGAGATAAGAGATCCAGCAACCAACCTGAGGTAG
1 CAGTAACACCATGATTAAAACAGCCTTCACTGGAGATAAGAGATCCAGCAACCAACCTGAGGTAG
7227301 AAAGCTCTA
66 AAAGCTCTA
* *
7227310 CAGTAACACCGTGATTAAAACAGCCTTCACTGGAGATAAGATATCCAGCAACCAACCTGAGGTAG
1 CAGTAACACCATGATTAAAACAGCCTTCACTGGAGATAAGAGATCCAGCAACCAACCTGAGGTAG
7227375 AAAGCTCTA
66 AAAGCTCTA
7227384 C
1 C
7227385 TGCCGGAACA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.18
Consensus pattern (74 bp):
CAGTAACACCATGATTAAAACAGCCTTCACTGGAGATAAGAGATCCAGCAACCAACCTGAGGTAG
AAAGCTCTA
Found at i:7234580 original size:28 final size:28
Alignment explanation
Indices: 7234540--7234596 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
7234530 ATAAGAGATA
7234540 GATAAGAATTCTAAGTAAATCAGAAGTT
1 GATAAGAATTCTAAGTAAATCAGAAGTT
7234568 GATAAGAATTCTAAGTAAATCAGAAGTT
1 GATAAGAATTCTAAGTAAATCAGAAGTT
7234596 G
1 G
7234597 TCTTTCCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (28 bp):
GATAAGAATTCTAAGTAAATCAGAAGTT
Found at i:7241817 original size:21 final size:20
Alignment explanation
Indices: 7241791--7241829 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
7241781 CTCTTTGTCC
7241791 TCTTTTTTCTTTGTTCTTTTT
1 TCTTTTTTCTTT-TTCTTTTT
7241812 TCTTTTTTCTTTTTCTTT
1 TCTTTTTTCTTTTTCTTT
7241830 CTGCTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (20 bp):
TCTTTTTTCTTTTTCTTTTT
Found at i:7241824 original size:13 final size:14
Alignment explanation
Indices: 7241791--7241829 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
7241781 CTCTTTGTCC
7241791 TCTTTTTTCTTTGT
1 TCTTTTTTCTTTGT
*
7241805 TCTTTTTTCTTTTT
1 TCTTTTTTCTTTGT
7241819 TC-TTTTTCTTT
1 TCTTTTTTCTTT
7241830 CTGCTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (14 bp):
TCTTTTTTCTTTGT
Found at i:7241843 original size:22 final size:20
Alignment explanation
Indices: 7241792--7241840 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
7241782 TCTTTGTCCT
* *
7241792 CTTTTTTCTTTGTTCTTTTTT
1 CTTTTTTCTTT-TTCTTTCTG
7241813 CTTTTTTCTTTTTCTTTCTG
1 CTTTTTTCTTTTTCTTTCTG
7241833 CTTGTTTT
1 CTT-TTTT
7241841 TCTCTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (20 bp):
CTTTTTTCTTTTTCTTTCTG
Found at i:7241871 original size:16 final size:14
Alignment explanation
Indices: 7241790--7241862 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
7241780 GCTCTTTGTC
7241790 CTCTTT-TTTCTTT
1 CTCTTTGTTTCTTT
*
7241803 GTTCTTT-TTTCTTT
1 -CTCTTTGTTTCTTT
*
7241817 -T-TTCTTTTTCTTT
1 CTCTT-TGTTTCTTT
7241830 CTGC-TTG-TT-TTT
1 CT-CTTTGTTTCTTT
7241842 CTCTTTGTTTCTTT
1 CTCTTTGTTTCTTT
7241856 CTCTTTG
1 CTCTTTG
7241863 ATTTTCTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 11 0.22
14 24 0.49
15 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (14 bp):
CTCTTTGTTTCTTT
Found at i:7242528 original size:20 final size:20
Alignment explanation
Indices: 7242476--7242536 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
7242466 GGATAAATGC
* *
7242476 AATGTTTCAAGGCCACAAAG
1 AATGTTTCAAGGTCTCAAAG
7242496 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
7242516 AATGTTTCAAGGTCTCAAAG
1 AATGTTTCAAGGTCTCAAAG
7242536 A
1 A
7242537 GAGGGAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (20 bp):
AATGTTTCAAGGTCTCAAAG
Found at i:7247284 original size:3 final size:3
Alignment explanation
Indices: 7247276--7247320 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7247266 ATGCATATTA
7247276 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7247321 TAAAACTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7248781 original size:2 final size:2
Alignment explanation
Indices: 7248774--7248800 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7248764 CTATTAATTC
7248774 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7248801 AATTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7249248 original size:30 final size:29
Alignment explanation
Indices: 7249166--7249254 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 29
7249156 AGATAATAAT
**
7249166 AAAATAATAATAATGAAAATAACAATTTAAAC
1 AAAATAATAATAAT-AAAATAA-AA-CAAAAC
7249198 AAATATAA-AA-AATAATAATAAAACAAAAC
1 AAA-ATAATAATAATAA-AATAAAACAAAAC
7249227 AAAATAATAATAATCAAAATAAAACAAA
1 AAAATAATAATAAT-AAAATAAAACAAA
7249255 TTAAAAGCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
28 4 0.08
29 9 0.18
30 18 0.36
31 10 0.20
32 5 0.10
33 4 0.08
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.20
Consensus pattern (29 bp):
AAAATAATAATAATAAAATAAAACAAAAC
Found at i:7249255 original size:24 final size:24
Alignment explanation
Indices: 7249194--7249254 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
7249184 ATAACAATTT
*
7249194 AAACAAATATAAAA-AATAATAATA
1 AAACAAA-ACAAAATAATAATAATA
7249218 AAACAAAACAAAATAATAATAATCA
1 AAACAAAACAAAATAATAATAAT-A
*
7249243 AAATAAAACAAA
1 AAACAAAACAAA
7249255 TTAAAAGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 16 0.48
25 12 0.36
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.16
Consensus pattern (24 bp):
AAACAAAACAAAATAATAATAATA
Found at i:7249260 original size:15 final size:15
Alignment explanation
Indices: 7249214--7249260 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7249204 AAAAAATAAT
*
7249214 AATAAAACAAAACAA
1 AATAAAACAAATCAA
*
7249229 AATAATAA-TAATCAA
1 AATAA-AACAAATCAA
*
7249244 AATAAAACAAATTAA
1 AATAAAACAAATCAA
7249259 AA
1 AA
7249261 GCAATAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAACAAATCAA
Found at i:7249272 original size:15 final size:17
Alignment explanation
Indices: 7249254--7249291 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7249244 AATAAAACAA
*
7249254 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
7249269 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
7249286 ATTAAA
1 ATTAAA
7249292 TGAATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:7249936 original size:139 final size:137
Alignment explanation
Indices: 7249751--7250001 Score: 312
Period size: 139 Copynumber: 1.8 Consensus size: 137
7249741 ATTAAATCAT
* * * **
7249751 ATATATATAAATTTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAAA-GACTTTTAG
1 ATATATATAAATTTATATAAATAAAATATTTATTTACTTAGAAATATCA-AAAAAGGACATCGAG
*
7249815 GTGCTTTAAGACAGCCTATTTCTTAATATTAAAATATAAATGAATATTAATAAAACATTTATAAA
65 GTGCTTTAAGACAGCCT-TTTCTTAATATTAAAAAATAAAT--ATATTAATAAAACATTTATAAA
7249880 AAAATAGATTA
127 AAAATAGATTA
*
7249891 ATATATAT-AATTTATA-AAAGTAAAATATTTATTTATTTA-ACAATATCAAAAAATGGACATCG
1 ATATATATAAATTTATATAAA-TAAAATATTTATTTACTTAGA-AATATCAAAAAA-GGACATCG
* ** *
7249953 AGTTGCTTTAAGACTTCCTTTTTTTAATATTAAAAAATAAATATATTAA
63 AGGTGCTTTAAGACAGCCTTTTCTTAATATTAAAAAATAAATATATTAA
7250002 AATATGATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
137 7 0.07
138 9 0.09
139 52 0.54
140 28 0.29
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (137 bp):
ATATATATAAATTTATATAAATAAAATATTTATTTACTTAGAAATATCAAAAAAGGACATCGAGG
TGCTTTAAGACAGCCTTTTCTTAATATTAAAAAATAAATATATTAATAAAACATTTATAAAAAAA
TAGATTA
Found at i:7250137 original size:14 final size:15
Alignment explanation
Indices: 7250118--7250151 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7250108 ATGACTTAAG
7250118 ATAATAAT-AAAAAA
1 ATAATAATGAAAAAA
*
7250132 ATAATAATGAAAATA
1 ATAATAATGAAAAAA
7250147 ATAAT
1 ATAAT
7250152 TTAAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAATAATGAAAAAA
Found at i:7250146 original size:12 final size:12
Alignment explanation
Indices: 7250120--7250208 Score: 60
Period size: 12 Copynumber: 7.4 Consensus size: 12
7250110 GACTTAAGAT
7250120 AATAATAA-AAA
1 AATAATAATAAA
*
7250131 AATAATAATGAA
1 AATAATAATAAA
7250143 AATAATAATTTAAA
1 AATAATAA--TAAA
*
7250157 CAT-AT-ATCAAA
1 AATAATAAT-AAA
7250168 AATAATAATAAA
1 AATAATAATAAA
* * *
7250180 ACAAAACAA-AAT
1 A-ATAATAATAAA
*
7250192 AATAATAATCAA
1 AATAATAATAAA
7250204 AATAA
1 AATAA
7250209 AAGAAATTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
10 1 0.02
11 18 0.31
12 26 0.44
13 9 0.15
14 5 0.08
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:7250232 original size:15 final size:17
Alignment explanation
Indices: 7250214--7250251 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7250204 AATAAAAGAA
*
7250214 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
7250229 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
7250246 ATTAAA
1 ATTAAA
7250252 TGAATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:7250281 original size:959 final size:965
Alignment explanation
Indices: 7248364--7250292 Score: 3274
Period size: 959 Copynumber: 2.0 Consensus size: 965
7248354 GAGACTCGAG
* * *
7248364 TTGTGGTAACCGGTTTTCGTCCGGGCACAAAAATTTTTACTTGACTGGAAAAATAAAATGAATAA
1 TTGTCGTAACCGGTTTTCGTCCGAGCACAAAAATTTTTACTTGACTGGAAAAATAAAAGGAATAA
* *
7248429 ATAAATGATTTTGATTTTAAAAAATTTTTGCGAGTCGCCATTGACCTTTTTGGGTTAGGTAGGTC
66 ATAAATGATTTTGATTTTAAAAAATTTTTGAGAGTCGCCATTAACCTTTTTGGGTTAGGTAGGTC
*
7248494 AAATACCTAAACAAAATCTTTTAAAATAGGTTTTAAGAAAACATAATTTAAAAGATAAATTGGTC
131 AAATACCTAAACAAAATCTTTTAAAATAGGTTTTAAGAAAACATAATTTAAAAGATAAACTGGTC
7248559 TGCGTTTTAACCAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTGGTCGATTACGTTTAG
196 TGCGTTTTAACCAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTGGTCGATTACGTTTAG
* *
7248624 GGAATGATTAGCACCCCACAACGCCCAAAATTGGTACTCATTAATTATAAATTGTCTCTATTATT
261 GGAATGATTAGCACCCCACAACACCCAAAATTGGTACTCATTAATTATAAATTATCTCTATTATT
* *
7248689 AGAAATTTAAAAATAAAAATATATTTAATTCATAATCCTGTTATTTTAATTTTATTAATATAATT
326 AGAAATTTAAAAATAAAAATATATTTAATTCATAATCCTGTTATTTTAAATTTATTAATATAATA
*
7248754 TTAAGAAAATCTATTAATTCATATATATATATATATATATATATATAAATTTTTATAAATAAGAT
391 TTAAG--AA--TA-TAATTC--ATATATATATATACATATATATATAAATTTTTATAAATAAGAT
* *
7248819 ATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAGATAACCCATTTCTTAATA
449 ATTTATTTACTTAGAAATATCAGAAAAAGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATA
*
7248884 TTAAAATATAACTGAATATTAATAAAACATTTATAAAAAAATAGATTAATATATATAATTTATAA
514 TTAAAATATAAATGAATATTAATAAAACATTTATAAAAAAATAGATTAATATATATAATTTATAA
*
7248949 AAGTAAAATATTTATTTATTTAAAAATATCATAAAATGAACATTCAGTTGCTTTAAGACTGCCAT
579 AAGTAAAATATTTATTTATTTAAAAATATCAAAAAATGAACATTCAGTTGCTTTAAGACTGCCAT
*
7249014 TTCTTAATATTGAAAAATAAATATATTAAAATATGATTATTTTTCTTAAAAATAATTTATAAAAT
644 TTCTTAATATTAAAAAATAAATATATTAAAATATGATTATTTTTCTTAAAAATAATTTATAAAAT
*
7249079 TATATTTTATAAATAGGATTTTAATAGAAAATAAATAAATAAATAAATATTATATATATATATAT
709 TATATTTTATAAATAGAATTTTAATAGAAAATAAATAAATAAATAAATATTATATATATATATAT
*
7249144 TTATATGACTTAAGATAATAATAAAATAATAATAATGAAAATAACAATTTAAACAAATATAAAAA
774 TTATATGACTTAAGATAATAATAAAAAAATAATAATGAAAATAACAATTTAAACAAATATAAAAA
7249209 ATAATAATAAAACAAAACAAAATAATAATAATCAAAATAAAACAAATTAAAAGCAATAATATTAA
839 ATAATAATAAAACAAAACAAAATAATAATAATCAAAATAAAACAAATTAAAAGCAATAATATTAA
7249274 AATGCAAAATATATTAAATGAATTGTTAGGGATTAAAATATAAAAATATAAATTAATGGCAC
904 AATGCAAAATATATTAAATGAATTGTTAGGGATTAAAATATAAAAATATAAATTAATGGCAC
* * *
7249336 TTGTCGTAACCGGTTTTTG-CCTGAGCACGAAAATTTTTACTTGGCTGGAAAAATAAAAGGAATA
1 TTGTCGTAACCGGTTTTCGTCC-GAGCACAAAAATTTTTACTTGACTGGAAAAATAAAAGGAATA
** *
7249400 AATAAATGATTTTGATTTTAAAATTTTTTTGAGAGTCGCCATTAACCTTTTTGTGTTAGGTAGGT
65 AATAAATGATTTTGATTTTAAAAAATTTTTGAGAGTCGCCATTAACCTTTTTGGGTTAGGTAGGT
*
7249465 CAAATACCTAAA-AATAATCTTTTAAAATAGTTTTTAAGAAAACATAATTTAAAAGATAAACTGG
130 CAAATACCTAAACAA-AATCTTTTAAAATAGGTTTTAAGAAAACATAATTTAAAAGATAAACTGG
7249529 TCTGCGTTTTAACCAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTGGTCGATTACGTTT
194 TCTGCGTTTTAACCAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTGGTCGATTACGTTT
* *
7249594 GGGGAA-GAATTAGCACCCCCACAACATCCAAAATTGGTACTCATTAATTATAAATTATCTCTAT
259 AGGGAATG-ATTAGCA-CCCCACAACACCCAAAATTGGTACTCATTAATTATAAATTATCTCTAT
7249658 TATTAGAAATTTAAAAATTTAAAAATATATTTAATTCATAATCCTGTTATTTTAAATTTATTAAT
322 TATTAGAAATTTAAAAA--TAAAAATATATTTAATTCATAATCCTGTTATTTTAAATTTATTAAT
7249723 ATAATATTAAG-A-A-AA-TC-TAT-TA-A-AT-CATATATATATAAATTTTTATAAATAAGATA
385 ATAATATTAAGAATATAATTCATATATATATATACATATATATATAAATTTTTATAAATAAGATA
* * *
7249779 TTTATTTACTTAGAAATATCAGAAAAAGACTTTTAGGTGCTTTAAGACAGCCTATTTCTTAATAT
450 TTTATTTACTTAGAAATATCAGAAAAAGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATAT
7249844 TAAAATATAAATGAATATTAATAAAACATTTATAAAAAAATAGATTAATATATATAATTTATAAA
515 TAAAATATAAATGAATATTAATAAAACATTTATAAAAAAATAGATTAATATATATAATTTATAAA
* * * *
7249909 AGTAAAATATTTATTTATTTAACAATATCAAAAAATGGACA-TCGAGTTGCTTTAAGACTTCCTT
580 AGTAAAATATTTATTTATTTAAAAATATCAAAAAATGAACATTC-AGTTGCTTTAAGACTGCCAT
*
7249973 TTTTTAATATTAAAAAATAAATATATTAAAATATGATTATTTTTCTTAAAAATAATTTATAAAAT
644 TTCTTAATATTAAAAAATAAATATATTAAAATATGATTATTTTTCTTAAAAATAATTTATAAAAT
7250038 TATATTTTATAAATAGAATTTTAATAGAAAATAGAATAAATAAATAAATATTATATATATATATA
709 TATATTTTATAAATAGAATTTTAATAGAAAATA-AATAAATAAATAAATATTATATATATATATA
* * *
7250103 TTTATATGACTTAAGATAATAATAAAAAAATAATAATGAAAATAATAATTTAAACATATATCAAA
773 TTTATATGACTTAAGATAATAATAAAAAAATAATAATGAAAATAACAATTTAAACAAATATAAAA
*
7250168 AATAATAATAAAACAAAACAAAATAATAATAATCAAAATAAAAGAAATTAAAAGCAATAATATTA
838 AATAATAATAAAACAAAACAAAATAATAATAATCAAAATAAAACAAATTAAAAGCAATAATATTA
7250233 AAATGCAAAATATATTAAATGAATTGTTAGGGATTAAAATAT-AAAATATAAATTAATGGC
903 AAATGCAAAATATATTAAATGAATTGTTAGGGATTAAAATATAAAAATATAAATTAATGGC
7250293 CCTTATTCAA
Statistics
Matches: 910, Mismatches: 39, Indels: 29
0.93 0.04 0.03
Matches are distributed among these distances:
958 2 0.00
959 323 0.35
960 200 0.22
961 1 0.00
962 2 0.00
963 3 0.00
966 2 0.00
967 2 0.00
969 1 0.00
971 5 0.01
972 252 0.28
973 62 0.07
975 55 0.06
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.36
Consensus pattern (965 bp):
TTGTCGTAACCGGTTTTCGTCCGAGCACAAAAATTTTTACTTGACTGGAAAAATAAAAGGAATAA
ATAAATGATTTTGATTTTAAAAAATTTTTGAGAGTCGCCATTAACCTTTTTGGGTTAGGTAGGTC
AAATACCTAAACAAAATCTTTTAAAATAGGTTTTAAGAAAACATAATTTAAAAGATAAACTGGTC
TGCGTTTTAACCAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTGGTCGATTACGTTTAG
GGAATGATTAGCACCCCACAACACCCAAAATTGGTACTCATTAATTATAAATTATCTCTATTATT
AGAAATTTAAAAATAAAAATATATTTAATTCATAATCCTGTTATTTTAAATTTATTAATATAATA
TTAAGAATATAATTCATATATATATATACATATATATATAAATTTTTATAAATAAGATATTTATT
TACTTAGAAATATCAGAAAAAGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAT
ATAAATGAATATTAATAAAACATTTATAAAAAAATAGATTAATATATATAATTTATAAAAGTAAA
ATATTTATTTATTTAAAAATATCAAAAAATGAACATTCAGTTGCTTTAAGACTGCCATTTCTTAA
TATTAAAAAATAAATATATTAAAATATGATTATTTTTCTTAAAAATAATTTATAAAATTATATTT
TATAAATAGAATTTTAATAGAAAATAAATAAATAAATAAATATTATATATATATATATTTATATG
ACTTAAGATAATAATAAAAAAATAATAATGAAAATAACAATTTAAACAAATATAAAAAATAATAA
TAAAACAAAACAAAATAATAATAATCAAAATAAAACAAATTAAAAGCAATAATATTAAAATGCAA
AATATATTAAATGAATTGTTAGGGATTAAAATATAAAAATATAAATTAATGGCAC
Found at i:7251434 original size:3 final size:3
Alignment explanation
Indices: 7251426--7251481 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
7251416 AAAATTATTT
* * *
7251426 ATA ATA ATA AT- GTA ATA ATA ATA TTA ATA ATA AAA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
7251472 ATA AAA ATA A
1 ATA ATA ATA A
7251482 AGTCGGGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7251437 original size:26 final size:26
Alignment explanation
Indices: 7251408--7251458 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7251398 TTGGGCCTAC
* *
7251408 AATGTATTAA-AATTATTTATAATAAT
1 AATGTAATAATAA-TATTAATAATAAT
7251434 AATGTAATAATAATATTAATAATAA
1 AATGTAATAATAATATTAATAATAA
7251459 AAATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (26 bp):
AATGTAATAATAATATTAATAATAAT
Found at i:7251470 original size:17 final size:18
Alignment explanation
Indices: 7251442--7251481 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
7251432 ATAATGTAAT
7251442 AATAATATTAATAATAAA
1 AATAATATTAATAATAAA
7251460 AATAATA-TAATAATAAA
1 AATAATATTAATAATAAA
7251477 AATAA
1 AATAA
7251482 AGTCGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAATATTAATAATAAA
Found at i:7251480 original size:26 final size:28
Alignment explanation
Indices: 7251425--7251481 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
7251415 TAAAATTATT
* * *
7251425 TATAATAATAATGTAATAATAATATTAA
1 TATAATAATAATATAATAATAAAAATAA
*
7251453 TAATAAAAATAATATAATAATAAAAATAA
1 T-ATAATAATAATATAATAATAAAAATAA
7251482 AGTCGGGACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
TATAATAATAATATAATAATAAAAATAA
Found at i:7252937 original size:39 final size:40
Alignment explanation
Indices: 7252844--7252939 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 40
7252834 AATATTATAT
*
7252844 TAATGTGAAATAATTTAAGAAATTAAAATTTTATAATGTTA
1 TAAT-TGAAATAATTTAAGAAATTAAAATTTTAGAATGTTA
** * *
7252885 TGGTAGCAA-AATTTAAGAAATTAAGAA-TTTAGAATGTTA
1 TAATTGAAATAATTTAAGAAATTAA-AATTTTAGAATGTTA
7252924 -AATTGAAATAATTTAA
1 TAATTGAAATAATTTAA
7252940 AATTTCTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
38 4 0.09
39 33 0.75
40 5 0.11
41 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.38
Consensus pattern (40 bp):
TAATTGAAATAATTTAAGAAATTAAAATTTTAGAATGTTA
Found at i:7259741 original size:11 final size:11
Alignment explanation
Indices: 7259699--7259740 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
7259689 AACCAAAATT
7259699 TATAAATAATA
1 TATAAATAATA
7259710 TATAAATAATA
1 TATAAATAATA
7259721 TAT-AATATATA
1 TATAAATA-ATA
7259732 TATTAAATA
1 TA-TAAATA
7259741 TTTAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 1 0.04
13 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATAAATAATA
Found at i:7264704 original size:3 final size:3
Alignment explanation
Indices: 7264696--7264766 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
7264686 GTAATATAGT
7264696 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7264742 TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
7264767 TTTTTAATCC
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.09
3 59 0.91
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7264729 original size:20 final size:20
Alignment explanation
Indices: 7264696--7264766 Score: 117
Period size: 20 Copynumber: 3.5 Consensus size: 20
7264686 GTAATATAGT
7264696 TAATAATAATAATAATAATAA
1 TAAT-ATAATAATAATAATAA
7264717 TAATA-ATATAATAATAATAA
1 TAATATA-ATAATAATAATAA
7264737 TAATATAATAATAATAATAA
1 TAATATAATAATAATAATAA
7264757 TAATATAATA
1 TAATATAATA
7264767 TTTTTAATCC
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.02
20 42 0.88
21 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATATAATAATAATAATAA
Found at i:7264766 original size:17 final size:17
Alignment explanation
Indices: 7264696--7264758 Score: 117
Period size: 17 Copynumber: 3.6 Consensus size: 17
7264686 GTAATATAGT
7264696 TAATAATAATAATAATAA
1 TAATAATAAT-ATAATAA
7264714 TAATAATAATATAATAA
1 TAATAATAATATAATAA
7264731 TAATAATAATATAATAA
1 TAATAATAATATAATAA
7264748 TAATAATAATA
1 TAATAATAATA
7264759 ATATAATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 35 0.78
18 10 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:7264774 original size:20 final size:18
Alignment explanation
Indices: 7264696--7264767 Score: 103
Period size: 17 Copynumber: 3.9 Consensus size: 18
7264686 GTAATATAGT
7264696 TAATAATAATAATAATA-A
1 TAATAATAAT-ATAATATA
7264714 TAATAATAATATAATA-A
1 TAATAATAATATAATATA
7264731 TAATAATAATATAATAATAA
1 TAATAATAATATAAT-AT-A
7264751 TAATAATAATATAATAT
1 TAATAATAATATAATAT
7264768 TTTTAATCCC
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 22 0.43
18 11 0.22
19 2 0.04
20 16 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAATAATATAATATA
Found at i:7265205 original size:136 final size:136
Alignment explanation
Indices: 7264961--7265236 Score: 435
Period size: 136 Copynumber: 2.0 Consensus size: 136
7264951 AGTCGTCTAA
* *
7264961 GGATGATAACAAGGTTCCTACGTGATGAGAACGGCTGGTTATCTTAAAATATGATGACACGGCTC
1 GGATGATAACAAGGTTCCTACGTGATGAGAACAGCTGGTTATCTTAAAAGATGATGACACGGCTC
* *
7265026 CTACGTGATGAGGATATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGACATACCAT
66 CTACGTGATGACGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGACATACCAT
7265091 CTTTAG
131 CTTTAG
* * * * * *
7265097 GGATGATAACACGGTTCTTACGTGATGAGGACAGTTGGTTATCTTAAAGGATGATGACATGGCTC
1 GGATGATAACAAGGTTCCTACGTGATGAGAACAGCTGGTTATCTTAAAAGATGATGACACGGCTC
* **
7265162 CTACGTGATGACGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGATATGTCAT
66 CTACGTGATGACGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGACATACCAT
7265227 CTTTAG
131 CTTTAG
7265233 GGAT
1 GGAT
7265237 AGTGGCTTCA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 127 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (136 bp):
GGATGATAACAAGGTTCCTACGTGATGAGAACAGCTGGTTATCTTAAAAGATGATGACACGGCTC
CTACGTGATGACGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGACATACCAT
CTTTAG
Found at i:7265352 original size:33 final size:33
Alignment explanation
Indices: 7265304--7265465 Score: 96
Period size: 33 Copynumber: 4.8 Consensus size: 33
7265294 GAGATAAAAT
* *
7265304 TTGTTTCAAGGGAAACAATCTCAAAGATATTTG
1 TTGTTTCAAGAGAAACGATCTCAAAGATATTTG
* * * **
7265337 TTGTTTCATGAGAAACGATCTAAAAAATAATAAG
1 TTGTTTCAAGAGAAACGATCTCAAAGAT-ATTTG
* *
7265371 ATTCGTTTCAAGAGAAAC-ATTTCAAAG-TTTGGTTG
1 -TT-GTTTCAAGAGAAACGATCTCAAAGATAT--TTG
* * * * **
7265406 TTGTTTTATGAGACACGATCTCAAAGAAAATGGG
1 TTGTTTCAAGAGAAACGATCTCAAAG-ATATTTG
7265440 ATTTGTTTCAAGAGAAAC-ATCTCAAA
1 --TTGTTTCAAGAGAAACGATCTCAAA
7265466 CGATCTCAAG
Statistics
Matches: 94, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
33 35 0.37
34 15 0.16
35 17 0.18
36 27 0.29
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
TTGTTTCAAGAGAAACGATCTCAAAGATATTTG
Found at i:7265407 original size:69 final size:69
Alignment explanation
Indices: 7265288--7265465 Score: 191
Period size: 69 Copynumber: 2.6 Consensus size: 69
7265278 AGAAGCTGTA
* * * * * *
7265288 TCAAAAGAGATAAAATTTGTTTCAAGGGAAACAATCTCAAAGATAT--TTGTTGTTTCATGAGAA
1 TCAAAAAAAATAAGATTCGTTTCAAGAGAAAC-ATCTCAAAG-TTTGGTTGTTGTTTCATGAGAA
7265351 ACGATC
64 ACGATC
* * *
7265357 T-AAAAAATAATAAGATTCGTTTCAAGAGAAACATTTCAAAGTTTGGTTGTTGTTTTATGAGACA
1 TCAAAAAA-AATAAGATTCGTTTCAAGAGAAACATCTCAAAGTTTGGTTGTTGTTTCATGAGAAA
7265421 CGATC
65 CGATC
* ** *
7265426 TCAAAGAAAATGGGATTTGTTTCAAGAGAAACATCTCAAA
1 TCAAAAAAAATAAGATTCGTTTCAAGAGAAACATCTCAAA
7265466 CGATCTCAAG
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
67 2 0.02
68 13 0.14
69 71 0.78
70 5 0.05
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (69 bp):
TCAAAAAAAATAAGATTCGTTTCAAGAGAAACATCTCAAAGTTTGGTTGTTGTTTCATGAGAAAC
GATC
Found at i:7265471 original size:45 final size:46
Alignment explanation
Indices: 7265420--7265511 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
7265410 TTTATGAGAC
*** *
7265420 ACGATCTCAAAGAAAATGGGATTTGTTTCAAGAGAAAC-ATCTCAA
1 ACGATCTCAAAGAAAATAAAACTTGTTTCAAGAGAAACAATCTCAA
* * *
7265465 ACGATCTCAAGGAAACTAAAACTTGTTTCAAGGGAAACAATCTCAA
1 ACGATCTCAAAGAAAATAAAACTTGTTTCAAGAGAAACAATCTCAA
7265511 A
1 A
7265512 GTTTGGTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 31 0.79
46 8 0.21
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.23
Consensus pattern (46 bp):
ACGATCTCAAAGAAAATAAAACTTGTTTCAAGAGAAACAATCTCAA
Found at i:7265574 original size:36 final size:36
Alignment explanation
Indices: 7265527--7265694 Score: 141
Period size: 36 Copynumber: 4.8 Consensus size: 36
7265517 GTGTTTCATA
* *
7265527 AAAATTTGTTTCAAGAGAAACGGTCTCAAGTGAGAC
1 AAAATTTGTTTCAAGAGAAACAGTCTCAAGAGAGAC
* * *
7265563 AAAATATGTTTCAAGGGAAACAGTCTCAGGAGAGAC
1 AAAATTTGTTTCAAGAGAAACAGTCTCAAGAGAGAC
* * * *
7265599 AAAATTTGTTTCCAGGGAAACAATCTC-A-A-TG--
1 AAAATTTGTTTCAAGAGAAACAGTCTCAAGAGAGAC
*** **
7265630 -TTTTTATGTTTCAAGAGAAATTGTCTCAAGAGAGAC
1 AAAATT-TGTTTCAAGAGAAACAGTCTCAAGAGAGAC
* *
7265666 AAAATTTGTTTCAAAAGAAACAATCTCAA
1 AAAATTTGTTTCAAGAGAAACAGTCTCAA
7265695 AGGTTTTAAA
Statistics
Matches: 99, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
30 2 0.02
31 16 0.16
32 1 0.01
33 2 0.02
34 2 0.02
36 74 0.75
37 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (36 bp):
AAAATTTGTTTCAAGAGAAACAGTCTCAAGAGAGAC
Found at i:7265664 original size:67 final size:67
Alignment explanation
Indices: 7265567--7265694 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
7265557 TGAGACAAAA
* * * **
7265567 TATGTTTCAAGGGAAACAGTCTCAGGAGAGACAAAATTTGTTTCCAGGGAAACAATCTCAATGTT
1 TATGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATCTCAATGTT
7265632 TT
66 TT
**
7265634 TATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATCTCAA
1 TATGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATCTCAA
7265695 AGGTTTTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (67 bp):
TATGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATCTCAATGTT
TT
Found at i:7267884 original size:3 final size:3
Alignment explanation
Indices: 7267867--7267916 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
7267857 AAAATATATG
7267867 TAA T-A TAA TTAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7267910 T-A TAA TA
1 TAA TAA TA
7267917 TTTTTAAGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.19
3 31 0.74
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7267900 original size:16 final size:16
Alignment explanation
Indices: 7267867--7267916 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
7267857 AAAATATATG
7267867 TAAT-ATAAT-TAATAA
1 TAATAATAATATAAT-A
7267882 TAATAATAATATAATA
1 TAATAATAATATAATA
7267898 TAATAAT-A-ATAATA
1 TAATAATAATATAATA
7267912 TAATA
1 TAATA
7267917 TTTTTAAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.33
15 5 0.15
16 13 0.39
17 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATAATAATATAATA
Found at i:7267902 original size:19 final size:19
Alignment explanation
Indices: 7267867--7267917 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
7267857 AAAATATATG
7267867 TAATATAATTAATAATAATAA
1 TAATATAA-T-ATAATAATAA
7267888 TAATATAATATAATAATAA
1 TAATATAATATAATAATAA
7267907 TAATATAATAT
1 TAATATAATAT
7267918 TTTTAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 21 0.70
20 1 0.03
21 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATATAATATAATAATAA
Found at i:7268166 original size:48 final size:48
Alignment explanation
Indices: 7268104--7268330 Score: 166
Period size: 48 Copynumber: 4.9 Consensus size: 48
7268094 CAGGTCGTCT
* *
7268104 AAGGATGATAACACGGTTCCTACGTGATGAGGATAACTGGTTATCTTA
1 AAGGATGATGACACGGTTCCTACGTGATGAGGATAGCTGGTTATCTTA
* * * *
7268152 AAGGATGATGACACGGCTCCAATGTGATGAGGATATCT-G-T-TC---
1 AAGGATGATGACACGGTTCCTACGTGATGAGGATAGCTGGTTATCTTA
* * ** *
7268194 AAGG--GATGACA-GGATTCCTACGTGATGAGGATGGCAGGCCATCTTT
1 AAGGATGATGACACGG-TTCCTACGTGATGAGGATAGCTGGTTATCTTA
* * * * * ** *
7268240 AGGGATGATAACACGGTTCTTAAGTGACGAGGACGGCTTGTTATCTTA
1 AAGGATGATGACACGGTTCCTACGTGATGAGGATAGCTGGTTATCTTA
* * * * *
7268288 AAGGATGATGACACAGCTCTTACGTGATGAGGAGATCTGGTTA
1 AAGGATGATGACACGGTTCCTACGTGATGAGGATAGCTGGTTA
7268331 AGGGATGACA
Statistics
Matches: 136, Mismatches: 33, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 23 0.17
41 1 0.01
42 4 0.03
43 2 0.01
45 2 0.01
46 4 0.03
47 1 0.01
48 95 0.70
49 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
AAGGATGATGACACGGTTCCTACGTGATGAGGATAGCTGGTTATCTTA
Found at i:7268350 original size:136 final size:136
Alignment explanation
Indices: 7268106--7268381 Score: 394
Period size: 136 Copynumber: 2.0 Consensus size: 136
7268096 GGTCGTCTAA
* * * *
7268106 GGATGATAACACGGTTCCTACGTGATGAGGATAACTGGTTATCTTAAAGGATGATGACACGGCTC
1 GGATGATAACACGGTTCCTAAGTGACGAGGACAACTGGTTATCTTAAAGGATGATGACACAGCTC
* *
7268171 CAATGTGATGAGGATATCTGTTCAAGGGATGACAGGATTCCTACGTGATGAGGATGGCAGGCCAT
66 CAACGTGATGAGGAGATCTGTTCAAGGGATGACAGGATTCCTACGTGATGAGGATGGCAGGCCAT
7268236 CTTTAG
131 CTTTAG
* ** *
7268242 GGATGATAACACGGTTCTTAAGTGACGAGGACGGCTTGTTATCTTAAAGGATGATGACACAGCTC
1 GGATGATAACACGGTTCCTAAGTGACGAGGACAACTGGTTATCTTAAAGGATGATGACACAGCTC
** * *
7268307 TTACGTGATGAGGAGATCTGGTT-AAGGGATGACATGG-TTCCTACGTGATGAGGATGGTAGGTC
66 CAACGTGATGAGGAGATCT-GTTCAAGGGATGACA-GGATTCCTACGTGATGAGGATGGCAGGCC
7268370 ATCTTTAG
129 ATCTTTAG
7268378 GGAT
1 GGAT
7268382 AGTGGTTTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 119 0.96
137 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (136 bp):
GGATGATAACACGGTTCCTAAGTGACGAGGACAACTGGTTATCTTAAAGGATGATGACACAGCTC
CAACGTGATGAGGAGATCTGTTCAAGGGATGACAGGATTCCTACGTGATGAGGATGGCAGGCCAT
CTTTAG
Found at i:7268571 original size:69 final size:68
Alignment explanation
Indices: 7268447--7268610 Score: 206
Period size: 69 Copynumber: 2.4 Consensus size: 68
7268437 AAGAGACAAA
* *
7268447 ATTTATTTCAAGGGAAACGATCTCAAAGATATTTGTTGTTTCATGATAAAAGATCT-AAAAAATA
1 ATTTATTTCAAGAGAAAC-ATCTCAAAGATATTTGTTGTTTCATGAGAAAAGATCTCAAAAAA-A
7268511 ATAGG
64 ATAGG
* * * *
7268516 ATTTATTTCAAGAGAAACATCTCAAAG-TTTGGTTGTTGTTTTATGAGAAACGATCTCAAAGAAA
1 ATTTATTTCAAGAGAAACATCTCAAAGATAT--TTGTTGTTTCATGAGAAAAGATCTCAAAAAAA
*
7268580 ATGGG
64 ATAGG
*
7268585 ATTTGTTTCAAGAGAAACATCTCAAA
1 ATTTATTTCAAGAGAAACATCTCAAA
7268611 CGATCTCAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
67 2 0.02
68 9 0.11
69 68 0.81
70 5 0.06
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (68 bp):
ATTTATTTCAAGAGAAACATCTCAAAGATATTTGTTGTTTCATGAGAAAAGATCTCAAAAAAAAT
AGG
Found at i:7268600 original size:36 final size:35
Alignment explanation
Indices: 7268447--7268610 Score: 115
Period size: 33 Copynumber: 4.8 Consensus size: 35
7268437 AAGAGACAAA
* * * *
7268447 ATTTATTTCAAGGGAAACGATCTCAAAGATATTTG
1 ATTTGTTTCAAGAGAAACGATCTCAAAGAAATTGG
* * * * * *
7268482 --TTGTTTCATGATAAAAGATCTAAAAAATAATAGG
1 ATTTGTTTCAAGAGAAACGATCTCAAAGA-AATTGG
* *
7268516 ATTTATTTCAAGAGAAAC-ATCTCAAAG--TTTGG
1 ATTTGTTTCAAGAGAAACGATCTCAAAGAAATTGG
* * * *
7268548 TTGTTGTTTTATGAGAAACGATCTCAAAGAAAATGGG
1 AT-TTGTTTCAAGAGAAACGATCTCAAAG-AAATTGG
7268585 ATTTGTTTCAAGAGAAAC-ATCTCAAA
1 ATTTGTTTCAAGAGAAACGATCTCAAA
7268611 CGATCTCAAG
Statistics
Matches: 94, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
32 4 0.04
33 33 0.35
34 12 0.13
35 15 0.16
36 26 0.28
37 4 0.04
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (35 bp):
ATTTGTTTCAAGAGAAACGATCTCAAAGAAATTGG
Found at i:7268720 original size:36 final size:36
Alignment explanation
Indices: 7268678--7268764 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
7268668 CATAAATATT
* *
7268678 TGTTTCAAGAGAAACGGTCTCAAGTGAGACAAAATA
1 TGTTTCAAGGGAAACGGTCTCAAGAGAGACAAAATA
* *
7268714 TGTTTCAAGGGAAACTGTCTCAGGAGAGACAAAATA
1 TGTTTCAAGGGAAACGGTCTCAAGAGAGACAAAATA
*
7268750 TGTTTCTAGGGAAAC
1 TGTTTCAAGGGAAAC
7268765 AATCTCAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACGGTCTCAAGAGAGACAAAATA
Found at i:7268796 original size:67 final size:67
Alignment explanation
Indices: 7268712--7268839 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 67
7268702 TGAGACAAAA
* * **
7268712 TATGTTTCAAGGGAAACTGTCTC-AGGAGAGACAAAATATGTTTCTAGGGAAACAATCTCAATGT
1 TATGTTTCAAGAGAAACTGTCTCTA-GAGAGACAAAATATGTTTCAAAAGAAACAATCTCAATGT
7268776 TTT
65 TTT
* *
7268779 TATGTTTCAAGAGAAACTGTCTCTAGAGAGATAAAATTTGTTTCAAAAGAAACAATCTCAA
1 TATGTTTCAAGAGAAACTGTCTCTAGAGAGACAAAATATGTTTCAAAAGAAACAATCTCAA
7268840 AGGTTTTAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 53 0.98
68 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (67 bp):
TATGTTTCAAGAGAAACTGTCTCTAGAGAGACAAAATATGTTTCAAAAGAAACAATCTCAATGTT
TT
Found at i:7269710 original size:21 final size:21
Alignment explanation
Indices: 7269668--7269710 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7269658 TTTCTGGGTT
* * *
7269668 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
7269689 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
7269710 A
1 A
7269711 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:7269771 original size:67 final size:67
Alignment explanation
Indices: 7269690--7269840 Score: 257
Period size: 67 Copynumber: 2.3 Consensus size: 67
7269680 ACCCATTCAA
* *
7269690 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
7269755 GG
66 GG
* *
7269757 GGGGAACCGATACCCCCTCGACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
7269822 GG
66 GG
*
7269824 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
7269841 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
GG
Found at i:7269829 original size:20 final size:20
Alignment explanation
Indices: 7269804--7269841 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7269794 GAATGCTAGA
7269804 GGGGAACCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
7269824 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
7269842 TGAGAAAAAA
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:0.24, C:0.37, G:0.32, T:0.08
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:7270510 original size:149 final size:149
Alignment explanation
Indices: 7270319--7270622 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
7270309 GGGTAGAGGG
7270319 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
7270384 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCCTTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7270449 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
7270468 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
7270533 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7270598 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
7270617 TCTACG
1 TCTACG
7270623 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:7270645 original size:23 final size:23
Alignment explanation
Indices: 7270601--7270645 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7270591 ATCATTATAT
*
7270601 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
7270624 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
7270646 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:7271777 original size:124 final size:113
Alignment explanation
Indices: 7271669--7271879 Score: 289
Period size: 113 Copynumber: 1.9 Consensus size: 113
7271659 GAGATGGATG
* *
7271669 TTGCTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGAATGGCTCC-TTCATTGTGAA
1 TTGCTTATGGGCACGATATCATTCGTCGTGAAGTTGAAATCATGAATGGC-CCATTCATTGTGAA
* *
7271733 GTTGAGCTTTGAATTGGATATCTTTCGTCATGAAATCGAAATCCAATCT
65 GTTGAGCTTTGAATTGGATATCCTTCGTCATGAAATCAAAATCCAATCT
* * * *
7271782 TTGGTTATGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTGTGAAG
1 TTGCTTATGGGCACGATATCATTCGTCGTGAAGTTGAAATCATGAATGGCCCATTCATTGTGAAG
* * * * *
7271847 TTGAGCCTCGAATTAGATATCCTTTGTCGTGAA
66 TTGAGCTTTGAATTGGATATCCTTCGTCATGAA
7271880 GTTGAAATCG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 2 0.02
113 83 0.98
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (113 bp):
TTGCTTATGGGCACGATATCATTCGTCGTGAAGTTGAAATCATGAATGGCCCATTCATTGTGAAG
TTGAGCTTTGAATTGGATATCCTTCGTCATGAAATCAAAATCCAATCT
Found at i:7271942 original size:65 final size:66
Alignment explanation
Indices: 7271796--7271952 Score: 244
Period size: 65 Copynumber: 2.4 Consensus size: 66
7271786 TTATGGGCAC
* * *
7271796 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTCGAATT
1 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTATGAAGTTGAGCCTCGAATT
7271861 A
66 A
* *
7271862 GATATCCTTTGTCGTGAAGTTGAAATCGTGGATGACCC-TTCATTATGAAGTTGAGCCTCGAATT
1 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTATGAAGTTGAGCCTCGAATT
*
7271926 G
66 A
*
7271927 GATATCATTCATCGTGAAGTTGAAAT
1 GATATCATTCGTCGTGAAGTTGAAAT
7271953 TGGGGCTGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 47 0.57
66 35 0.43
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (66 bp):
GATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCATTATGAAGTTGAGCCTCGAATT
A
Found at i:7271945 original size:34 final size:34
Alignment explanation
Indices: 7271841--7271949 Score: 100
Period size: 34 Copynumber: 3.3 Consensus size: 34
7271831 CCCATTCGTT
* **
7271841 GTGAAGTTGAGCCTCGAATTAGATATCCTTTGTC
1 GTGAAGTTGAGCCTCGAATTGGATATCCTTCATC
** * *
7271875 GTGAAGTTGA-AATCG---TGGATGACCCTTCATT
1 GTGAAGTTGAGCCTCGAATTGGAT-ATCCTTCATC
* *
7271906 ATGAAGTTGAGCCTCGAATTGGATATCATTCATC
1 GTGAAGTTGAGCCTCGAATTGGATATCCTTCATC
7271940 GTGAAGTTGA
1 GTGAAGTTGA
7271950 AATTGGGGCT
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
30 4 0.07
31 15 0.27
32 3 0.05
33 3 0.05
34 26 0.46
35 5 0.09
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (34 bp):
GTGAAGTTGAGCCTCGAATTGGATATCCTTCATC
Found at i:7273757 original size:16 final size:15
Alignment explanation
Indices: 7273721--7273759 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7273711 TCTTTCTTTA
* *
7273721 TTTTATTTTTGCTTC
1 TTTTCTTTTTGATTC
7273736 TTTTCTTTTTGATTC
1 TTTTCTTTTTGATTC
7273751 TTGTTCTTT
1 TT-TTCTTT
7273760 GCTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTTGATTC
Found at i:7273936 original size:2 final size:2
Alignment explanation
Indices: 7273929--7274005 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
7273919 GGACAACAAG
7273929 AT AT AT AT AT 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 AT AT AT AT AT
*
7273971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7274006 AGGATAAACA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7276441 original size:6 final size:6
Alignment explanation
Indices: 7276430--7276455 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7276420 ATCGAATAAA
7276430 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
7276456 CCATTTTCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:7278519 original size:3 final size:3
Alignment explanation
Indices: 7278511--7278566 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
7278501 TTAATATAGT
7278511 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7278557 TAA T-A TAA TA
1 TAA TAA TAA TA
7278567 TTTTTTAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:7278533 original size:17 final size:17
Alignment explanation
Indices: 7278511--7278566 Score: 96
Period size: 17 Copynumber: 3.3 Consensus size: 17
7278501 TTAATATAGT
7278511 TAATAATAATAAT-ATAA
1 TAATAATAATAATAAT-A
7278528 TAATAATAATAATAATA
1 TAATAATAATAATAATA
7278545 TAATAATAATAATAATA
1 TAATAATAATAATAATA
7278562 TAATA
1 TAATA
7278567 TTTTTTAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 36 0.95
18 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATAATA
Found at i:7278536 original size:20 final size:20
Alignment explanation
Indices: 7278511--7278561 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
7278501 TTAATATAGT
7278511 TAATAATAATAATATAATAA
1 TAATAATAATAATATAATAA
7278531 TAATAATAATAATATAATAA
1 TAATAATAATAATATAATAA
7278551 TAATAATAATA
1 TAATAATAATA
7278562 TAATATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATAATAATAATATAATAA
Found at i:7278976 original size:30 final size:30
Alignment explanation
Indices: 7278940--7279042 Score: 172
Period size: 30 Copynumber: 3.5 Consensus size: 30
7278930 GTACTTCTTC
*
7278940 AGGTCTTTGCTATTGGCGATTATATCACAA
1 AGGTCTTTGCTATTGGCGATCATATCACAA
*
7278970 AGGTCTTTGTTATTGGCGATCATATCACAA
1 AGGTCTTTGCTATTGGCGATCATATCACAA
7279000 AGGTCTTTGCTATTGGCGATCATATCACAA
1 AGGTCTTTGCTATTGGCGATCATATCACAA
*
7279030 AGGT-TATGCTATT
1 AGGTCTTTGCTATT
7279043 CCATAGCCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
29 8 0.12
30 61 0.88
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (30 bp):
AGGTCTTTGCTATTGGCGATCATATCACAA
Found at i:7280055 original size:6 final size:6
Alignment explanation
Indices: 7280044--7280135 Score: 59
Period size: 6 Copynumber: 15.7 Consensus size: 6
7280034 CGTTAGATTG
* * *
7280044 TAAAAA TAAAAA TAAATA TAAAAA -ATAAA TAAGAAA -AAAAA TATAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA-AAA TAAAAA TAAAAA
* * **
7280091 T-ATAA TAATAA TAAAAA -ATGAA -AAAAA TAAATAA GTAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA-AA -TAAAAA TAAA
7280136 TAAAAGTGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
5 16 0.24
6 40 0.60
7 7 0.10
8 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:7280080 original size:14 final size:13
Alignment explanation
Indices: 7280051--7280140 Score: 71
Period size: 13 Copynumber: 7.1 Consensus size: 13
7280041 TTGTAAAAAT
*
7280051 AAAAATAAATATA
1 AAAAATAAATAAA
*
7280064 AAAAATAAATAAG
1 AAAAATAAATAAA
*
7280077 AAAAA-AAAT-AT
1 AAAAATAAATAAA
*
7280088 AAATAT-AATAATA
1 AAAAATAAATAA-A
* *
7280101 ATAAA-AAATGAA
1 AAAAATAAATAAA
*
7280113 AAAAATAAATAAGT
1 AAAAATAAATAA-A
7280127 AAAAATAAATAAA
1 AAAAATAAATAAA
7280140 A
1 A
7280141 GTGAGTAGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
11 8 0.14
12 10 0.17
13 29 0.49
14 12 0.20
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAAATAAATAAA
Found at i:7280118 original size:27 final size:26
Alignment explanation
Indices: 7280050--7280140 Score: 102
Period size: 26 Copynumber: 3.6 Consensus size: 26
7280040 ATTGTAAAAA
7280050 TAAAAATAAATATAAAAAATAAATAAG
1 TAAAAATAAATA-AAAAAATAAATAAG
* *
7280077 -AAAAA-AAATATAAATAT-AATAA-
1 TAAAAATAAATAAAAAAATAAATAAG
7280099 TAATAAA-AAATGAAAAAAATAAATAAG
1 TAA-AAATAAAT-AAAAAAATAAATAAG
7280126 TAAAAATAAATAAAA
1 TAAAAATAAATAAAA
7280141 GTGAGTAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 11 0.20
26 17 0.31
27 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (26 bp):
TAAAAATAAATAAAAAAATAAATAAG
Found at i:7280121 original size:31 final size:30
Alignment explanation
Indices: 7280046--7280138 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 30
7280036 TTAGATTGTA
7280046 AAAATAAAAATAAATATAAAAAATAAATAAG
1 AAAA-AAAAATAAATATAAAAAATAAATAAG
7280077 AAAAAAAATATAAATATAATAATAATAAA-AA-
1 AAAAAAAA-ATAAATATAA-AA-AATAAATAAG
*
7280108 ATGAAAAAAATAAATA-AGTAAAAATAAATAA
1 A-AAAAAAAATAAATATA--AAAAATAAATAA
7280139 AAGTGAGTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 14
0.78 0.01 0.20
Matches are distributed among these distances:
30 11 0.20
31 26 0.48
32 11 0.20
33 6 0.11
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (30 bp):
AAAAAAAAATAAATATAAAAAATAAATAAG
Found at i:7280154 original size:53 final size:48
Alignment explanation
Indices: 7280046--7280177 Score: 126
Period size: 49 Copynumber: 2.6 Consensus size: 48
7280036 TTAGATTGTA
7280046 AAAATAA-AAATAAAT-ATAAAAAATAAATAAGAAAAAAAATATAAATAT
1 AAAATAATAAA-AAATGA-AAAAAATAAATAAGAAAAAAAATATAAATAT
7280094 AATAATAATAAAAAATGAAAAAAATAAATAAGTAAAAATAAATA-AAAGTGAGT
1 AA-AATAATAAAAAATGAAAAAAATAAATAAG-AAAAA-AAATATAAA-T-A-T
*
7280147 AGAAATAATAAAATGATGAAAATATAATAAA
1 A-AAATAATAAAA-AATGAAAA-A-AATAAA
7280178 AACAAAACAT
Statistics
Matches: 71, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
48 2 0.03
49 23 0.32
50 12 0.17
51 6 0.08
52 1 0.01
53 12 0.17
54 8 0.11
55 1 0.01
56 6 0.08
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (48 bp):
AAAATAATAAAAAATGAAAAAAATAAATAAGAAAAAAAATATAAATAT
Found at i:7281175 original size:67 final size:67
Alignment explanation
Indices: 7280996--7281374 Score: 225
Period size: 67 Copynumber: 5.5 Consensus size: 67
7280986 CGAGAGAAGT
* * * * *
7280996 TGTCTCAAAAGAGACAGAATTCGTTTCAAGGGAAACGATCTCAAAGATATTTGTTGTTTCACGAG
1 TGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAG
7281061 AAAC
64 AAAC
* * * * * *
7281065 -G-GTCAAAGGAAACAAAATTTTGTTTTAAGGGAAATAAAT-TCAAAGATTTCGTGTTTAAAGAG
1 TGTCTCAAAGGAGACAAAA-TTTGTTTCAAGGGAAA-CAATCTCAAAGATTTTGTGTTTCAAGAG
7281127 AAAC
64 AAAC
* * *
7281131 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTATTTCAAGAGAA
1 TGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAA
7281196 A-
66 AC
* * ******** * *
7281197 TATTTTCAAAGGTTTTTTTTTGTGTGTTTCAAGAGAAACAATTTCAAAGGTTTATTTTTGTGTTT
1 T-GTCTCAAAGGAGACAAAAT-T-TGTTTCAAGGGAAACAATCTCAAA-G---A-TTTTGTGTTT
*
7281262 CAAGAGAAGC
58 CAAGAGAAAC
* * ** * *
7281272 TGCCTCAAGGGAGGA-AAAATTTTGTTTCAAGAAAAATATAT-TCAAAGA-TTGGTGTTTCAAGA
1 TGTCTCAAAGGA-GACAAAA-TTTGTTTCAAGGGAAACA-ATCTCAAAGATTTTGTGTTTCAAGA
7281334 GAAAC
63 GAAAC
* **
7281339 TGTCTC-GAGAGAGACAAAACTTTAATTCAAGGGAAA
1 TGTCTCAAAG-GAGACAAAA-TTTGTTTCAAGGGAAA
7281375 TTGTCTCAAG
Statistics
Matches: 232, Mismatches: 59, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
66 20 0.09
67 101 0.44
68 37 0.16
69 25 0.11
70 1 0.00
72 1 0.00
73 19 0.08
74 26 0.11
75 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (67 bp):
TGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAA
AC
Found at i:7281189 original size:31 final size:31
Alignment explanation
Indices: 7281154--7281212 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7281144 ACAAAATTTG
*
7281154 TTTCAAGGGAAACAATCTCAAAGGTTTTGTA
1 TTTCAAGAGAAACAATCTCAAAGGTTTTGTA
* * *
7281185 TTTCAAGAGAAATATTTTCAAAGGTTTT
1 TTTCAAGAGAAACAATCTCAAAGGTTTT
7281213 TTTTTGTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCAAGAGAAACAATCTCAAAGGTTTTGTA
Found at i:7281266 original size:36 final size:37
Alignment explanation
Indices: 7281178--7281269 Score: 132
Period size: 38 Copynumber: 2.5 Consensus size: 37
7281168 ATCTCAAAGG
* * * *
7281178 TTTTGTATTTCAAGAGAAATATTTTCAAAGGTTTTTT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTAT
7281215 TTTGTGTGTTTCAAGAGAAACAATTTCAAAGG-TTTAT
1 TTT-TGTGTTTCAAGAGAAACAATTTCAAAGGTTTTAT
7281252 TTTTGTGTTTCAAGAGAA
1 TTTTGTGTTTCAAGAGAA
7281270 GCTGCCTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 15 0.30
37 10 0.20
38 25 0.50
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (37 bp):
TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTAT
Found at i:7281409 original size:35 final size:36
Alignment explanation
Indices: 7281324--7281706 Score: 108
Period size: 36 Copynumber: 11.1 Consensus size: 36
7281314 CAAAGATTGG
* *
7281324 TGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTT
1 TGTTTAAAG-GAAACTGTCTCAAGAGAGACAAAACTT
* * * *
7281361 TAATTCAAGGGAAATTGTCTCAAGAGAGACAAAA-TT
1 T-GTTTAAAGGAAACTGTCTCAAGAGAGACAAAACTT
* *
7281397 TGTTTAAAGGAAAACATAT-TC-A-A-AG-----ATTT
1 TGTTTAAAGG-AAAC-TGTCTCAAGAGAGACAAAACTT
* * * *
7281426 TATTTCAAGGGAAACCGTCTTAAGAGAGACAAAA-TT
1 TGTTT-AAAGGAAACTGTCTCAAGAGAGACAAAACTT
* * *
7281462 TGTTTTAAAAGAAACTGTCTCAAGGGAGACGAAA-TT
1 TG-TTTAAAGGAAACTGTCTCAAGAGAGACAAAACTT
* * * *
7281498 TATTTCAAGGAAAACAGAT-TC-A-A-AG-----ATTT
1 TGTTTAAAGG-AAACTG-TCTCAAGAGAGACAAAACTT
* *
7281527 TGTTTTAAGGGAAACCGTCTCAAGAGAGACAAAACTT
1 TG-TTTAAAGGAAACTGTCTCAAGAGAGACAAAACTT
* * * *
7281564 AGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAA-TT
1 TGTT-TAAAGGAAACTGTCTCAAGAGAGACAAAACTT
* * ** *
7281600 TGTTTCAA-GAAA-------AACAGATTCAAAGATTT
1 TGTTTAAAGGAAACTGTCTCAAGAGAGACAAA-ACTT
* * *
7281629 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAGAA-TT
1 TGTTT-AAAGGAAACTGTCTCAAGAGAGACAAAACTT
* * *
7281665 TGTTTTAAGAGAAAATGTCTCAAGAGTGACAAAACTT
1 TGTTTAAAG-GAAACTGTCTCAAGAGAGACAAAACTT
7281702 TGTTT
1 TGTTT
7281707 TGAGAGAATC
Statistics
Matches: 247, Mismatches: 57, Indels: 84
0.64 0.15 0.22
Matches are distributed among these distances:
27 8 0.03
28 5 0.02
29 28 0.11
30 13 0.05
31 6 0.02
32 4 0.02
33 4 0.02
34 5 0.02
35 18 0.07
36 78 0.32
37 66 0.27
38 12 0.05
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTTTAAAGGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:7281508 original size:101 final size:102
Alignment explanation
Indices: 7281257--7281706 Score: 528
Period size: 102 Copynumber: 4.4 Consensus size: 102
7281247 TTTATTTTTG
* * * * *
7281257 TGTTTCAAGAGAAGCTGCCTCAAGGGAGGA-AAAATTTTGTTTCAAGAAAAATATATTCAAAGAT
1 TGTTTCAAAAGAAACTGTCTCAAGGGA-GACAAAA-TTTGTTTCAAGAAAAACAGATTCAAAGAT
* * * *
7281321 TGGTGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTT
64 T-TTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAACTT
** ** * * * * *
7281361 TAATTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACATATTCAAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATTT
* *
7281426 TATTTCAAGGGAAACCGTCTTAAGAGAGACAAAA-TT
66 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAACTT
* * * *
7281462 TGTTTTAAAAGAAACTGTCTCAAGGGAGACGAAATTTATTTCAAGGAAAACAGATTCAAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATTT
*
7281527 TGTTTTAAGGGAAACCGTCTCAAGAGAGACAAAACTT
66 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAACTT
* *
7281564 AGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATTT
** *
7281629 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAGAA-TT
66 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAACTT
* * * * *
7281665 TGTTTTAAGAGAAAATGTCTCAAGAGTGACAAAACTTTGTTT
1 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTT
7281707 TGAGAGAATC
Statistics
Matches: 296, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
101 116 0.39
102 127 0.43
103 29 0.10
104 24 0.08
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (102 bp):
TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATTT
TGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAACTT
Found at i:7281587 original size:203 final size:204
Alignment explanation
Indices: 7281296--7281688 Score: 556
Period size: 203 Copynumber: 1.9 Consensus size: 204
7281286 AAAAATTTTG
* * * *
7281296 TTTCAAGAAAAATATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCGAGAGAGACAAAACTT
1 TTTCAAGAAAAACAGATTCAAAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTT
** * * *
7281361 TAATTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACATATTCAAAGATTT
66 TAATTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAAAAACAGATTCAAAGATTT
* *
7281426 TATTTCAAGGGAAACCGTCTTAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAGA
131 TATTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGGGAGA
7281491 CGAAATTTA
196 CGAAATTTA
* * * *
7281500 TTTCAAGGAAAACAGATTCAAAGATT-TTGTTTTAAGGGAAACCGTCTCAAGAGAGACAAAAC-T
1 TTTCAAGAAAAACAGATTCAAAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTT
* * *
7281563 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACAGATTCAAAGATT
66 TAATT-CAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAAAAACAGATTCAAAGATT
* ** * *
7281628 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAGAATTTGTTTTAAGAGAAAATGTCTCAAG
130 TTATTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAG
7281689 AGTGACAAAA
Statistics
Matches: 165, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
202 5 0.03
203 137 0.83
204 23 0.14
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (204 bp):
TTTCAAGAAAAACAGATTCAAAGATTGGTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTT
TAATTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAAAAACAGATTCAAAGATTT
TATTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAAATGTCTCAAGGGAGA
CGAAATTTA
Found at i:7281684 original size:36 final size:37
Alignment explanation
Indices: 7281627--7281714 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 37
7281617 ATTCAAAGAT
* * * *
7281627 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAGAA-
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAC
*
7281663 TTTGTTTTAAGAGAAAATGTCTCAAGAGTGACAAAAC
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAC
*
7281700 TTTGTTTTGAGAGAA
1 TTTGTTTTAAGAGAA
7281715 TCAGTCTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 31 0.69
37 14 0.31
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (37 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAC
Found at i:7282293 original size:32 final size:32
Alignment explanation
Indices: 7282223--7282285 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
7282213 ATACCCGAAG
*
7282223 ATGCCCCAATATTCGATGTTGAATCTCCAAAA
1 ATGCCCCAACATTCGATGTTGAATCTCCAAAA
* * *
7282255 ATGCCCCAACATTTGATGTTGTATCTTCAAA
1 ATGCCCCAACATTCGATGTTGAATCTCCAAA
7282286 GGTGCCCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (32 bp):
ATGCCCCAACATTCGATGTTGAATCTCCAAAA
Found at i:7283352 original size:15 final size:15
Alignment explanation
Indices: 7283326--7283389 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
7283316 CATATGCGCC
*
7283326 TTGTTTTCTTTTTCCT
1 TTGTTTT-TTTTTGCT
*
7283342 TTGTTTTTTTTTTGTT
1 TTG-TTTTTTTTTGCT
*
7283358 TTGTTTTTTGTTT-TT
1 TTGTTTTTT-TTTGCT
7283373 TTGTTTTTTTTTGCT
1 TTGTTTTTTTTTGCT
7283388 TT
1 TT
7283390 TTTGCTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 3 0.07
15 20 0.48
16 15 0.36
17 4 0.10
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (15 bp):
TTGTTTTTTTTTGCT
Found at i:7283371 original size:20 final size:19
Alignment explanation
Indices: 7283348--7283403 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
7283338 TCCTTTGTTT
7283348 TTTTTTTGTTTTGTTTTTTG
1 TTTTTTTG-TTTGTTTTTTG
7283368 TTTTTTTGTTT-TTTTTTG
1 TTTTTTTGTTTGTTTTTTG
*
7283386 CTTTTTTGCTTTGTTTTT
1 TTTTTTTG-TTTGTTTTT
7283404 CTCTTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 13 0.39
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (19 bp):
TTTTTTTGTTTGTTTTTTG
Found at i:7283371 original size:23 final size:24
Alignment explanation
Indices: 7283341--7283403 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
7283331 TTCTTTTTCC
7283341 TTTGTTTTTTTTTTGTTTTG-TTT
1 TTTGTTTTTTTTTTGTTTTGCTTT
*
7283364 TTTGTTTTTTTGTTTTTTTTTGCTTT
1 TTTG-TTTTTT-TTTTGTTTTGCTTT
* *
7283390 TTTGCTTTGTTTTT
1 TTTGTTTTTTTTTT
7283404 CTCTTTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.12
24 10 0.29
25 13 0.38
26 7 0.21
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (24 bp):
TTTGTTTTTTTTTTGTTTTGCTTT
Found at i:7283390 original size:11 final size:10
Alignment explanation
Indices: 7283341--7283403 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 10
7283331 TTCTTTTTCC
7283341 TTTGTTTTTTT
1 TTTG-TTTTTT
7283352 TTTGTTTTGTT
1 TTTGTTTT-TT
*
7283363 TTT-TGTTTT
1 TTTGTTTTTT
7283372 TTTGTTTTTT
1 TTTGTTTTTT
7283382 TTTGCTTTTTT
1 TTTG-TTTTTT
7283393 GCTTTGTTTTT
1 --TTTGTTTTT
7283404 CTCTTTTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.11
10 16 0.36
11 15 0.33
12 5 0.11
13 4 0.09
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:7283399 original size:31 final size:30
Alignment explanation
Indices: 7283341--7283412 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
7283331 TTCTTTTTCC
*
7283341 TTTGTTTTTTTTTTGTTTTGTTTTTTGTTTT
1 TTTG-TTTTTTTTTGTTTTGTTCTTTGTTTT
7283372 TTTGTTTTTTTTTGCTTTT-TTGCTTTGTTTT
1 TTTGTTTTTTTTTG-TTTTGTT-CTTTGTTTT
* *
7283403 TCTCTTTTTT
1 TTTGTTTTTT
7283413 CCTTCTTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (30 bp):
TTTGTTTTTTTTTGTTTTGTTCTTTGTTTT
Found at i:7283409 original size:20 final size:19
Alignment explanation
Indices: 7283349--7283412 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
7283339 CCTTTGTTTT
*
7283349 TTTTTTGTTTTGTTTTTTGT
1 TTTTTTG-TTTGTTTTTTGC
7283369 TTTTTTGTTT-TTTTTTGC
1 TTTTTTGTTTGTTTTTTGC
7283387 TTTTTTGCTTTGTTTTTCT-C
1 TTTTTTG-TTTGTTTTT-TGC
7283407 TTTTTT
1 TTTTTT
7283413 CCTTCTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 14 0.35
19 6 0.15
20 19 0.47
21 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (19 bp):
TTTTTTGTTTGTTTTTTGC
Found at i:7286471 original size:14 final size:13
Alignment explanation
Indices: 7286444--7286531 Score: 53
Period size: 13 Copynumber: 6.8 Consensus size: 13
7286434 TTGTAAAAAT
7286444 AAAAATAAATATA
1 AAAAATAAATATA
*
7286457 AAAAATGAATA-A
1 AAAAATAAATATA
*
7286469 TAAAA-AAATATTA
1 AAAAATAAATA-TA
*
7286482 ATATAAT-AATA-A
1 A-AAAATAAATATA
*
7286494 TAAAATAAATGA-A
1 AAAAATAAAT-ATA
7286507 AAAAATAAATA-A
1 AAAAATAAATATA
7286519 GTAAAAATAAATA
1 --AAAAATAAATA
7286532 AAAGTGAGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
11 8 0.14
12 11 0.19
13 22 0.37
14 18 0.31
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAATAAATATA
Found at i:7286532 original size:14 final size:12
Alignment explanation
Indices: 7286444--7286534 Score: 69
Period size: 11 Copynumber: 7.2 Consensus size: 12
7286434 TTGTAAAAAT
7286444 AAAAATAAATATA
1 AAAAATAAATA-A
7286457 AAAAATGAATAATAA
1 AAAAAT--A-AATAA
*
7286472 AAAAAT-ATTAA
1 AAAAATAAATAA
* *
7286483 TATAAT-AATAA
1 AAAAATAAATAA
*
7286494 TAAAATAAATGAA
1 AAAAATAAAT-AA
7286507 AAAAATAAATAA
1 AAAAATAAATAA
7286519 GTAAAAATAAATAA
1 --AAAAATAAATAA
7286533 AA
1 AA
7286535 GTGAGTAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
11 17 0.26
12 7 0.11
13 17 0.26
14 12 0.18
15 8 0.12
16 4 0.06
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:7290818 original size:60 final size:60
Alignment explanation
Indices: 7290696--7290808 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
7290686 GTATATACAT
* ** * *
7290696 ATAGTTTGGGATGAAATTGGAATGTTTAAAAATGTTGGAGACCAATTTAAAATAAAGGTC
1 ATAGTTTGGGATGAAATTAGAACATTTAAAAATGTTAGAGACCAAATTAAAATAAAGGTC
* *
7290756 ATAGTTTGGGGATGAAATTAGAACATTTAAAAGT-TTAGAGATCAAATTAAAAT
1 ATAGTTT-GGGATGAAATTAGAACATTTAAAAATGTTAGAGACCAAATTAAAAT
7290809 GAGAGTCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 23 0.51
61 22 0.49
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.32
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTAGAACATTTAAAAATGTTAGAGACCAAATTAAAATAAAGGTC
Found at i:7291384 original size:24 final size:24
Alignment explanation
Indices: 7291357--7291429 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
7291347 CGTTCATTTA
7291357 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
7291381 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
7291405 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
7291429 C
1 C
7291430 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:7291389 original size:14 final size:14
Alignment explanation
Indices: 7291367--7291423 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
7291357 CGTTCGTGAA
*
7291367 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
7291381 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
7291395 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
7291405 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
7291419 CGTTT
1 CGTTT
7291424 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:7291439 original size:24 final size:24
Alignment explanation
Indices: 7291368--7291442 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
7291358 GTTCGTGAAC
* * * *
7291368 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
7291392 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
7291416 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
7291440 GTT
1 GTT
7291443 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:7292189 original size:16 final size:16
Alignment explanation
Indices: 7292166--7292226 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
7292156 GGGTCTCCAA
7292166 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
* *
7292182 CATTTATGTTCATGTT
1 CGTTTATGTTCGTGTT
7292198 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
7292214 CGTTTATGTTCGT
1 CGTTTATGTTCGT
7292227 TTATGTTCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:7292327 original size:16 final size:16
Alignment explanation
Indices: 7292306--7292338 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7292296 AAAAAAATTT
7292306 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
7292322 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
7292338 T
1 T
7292339 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:7293333 original size:16 final size:16
Alignment explanation
Indices: 7293293--7293333 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7293283 AATCACCTTT
7293293 ATAAAATTTTAAAAAA
1 ATAAAATTTTAAAAAA
* * *
7293309 TTTATATTTTAAAAAA
1 ATAAAATTTTAAAAAA
7293325 ATAAAATTT
1 ATAAAATTT
7293334 CAAATTACCT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAATTTTAAAAAA
Found at i:7293653 original size:21 final size:21
Alignment explanation
Indices: 7293627--7293666 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7293617 AAAAAGGTTG
*
7293627 GTGGAAAAGATGTTTTTTCAT
1 GTGGAAAAGATGTATTTTCAT
*
7293648 GTGGAAAATATGTATTTTC
1 GTGGAAAAGATGTATTTTC
7293667 TTAATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (21 bp):
GTGGAAAAGATGTATTTTCAT
Found at i:7294725 original size:22 final size:22
Alignment explanation
Indices: 7294700--7294747 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
7294690 AAGTTGATTG
*
7294700 TTGACCGGTCAAACCGTTGACT
1 TTGACCGGTCAAACCATTGACT
* **
7294722 TTGACTGGTCTGACCATTGACT
1 TTGACCGGTCAAACCATTGACT
7294744 TTGA
1 TTGA
7294748 TAGAAAAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (22 bp):
TTGACCGGTCAAACCATTGACT
Found at i:7297211 original size:14 final size:13
Alignment explanation
Indices: 7297192--7297234 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
7297182 TTCTCTTAGA
*
7297192 ATCACATATATCT
1 ATCACATATATAT
7297205 CATCACATATCATAT
1 -ATCACATAT-ATAT
*
7297220 ATCACATATACAT
1 ATCACATATATAT
7297233 AT
1 AT
7297235 AATAATCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 18 0.69
15 3 0.12
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
ATCACATATATAT
Found at i:7300167 original size:23 final size:23
Alignment explanation
Indices: 7300125--7300193 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
7300115 CACCACAACT
* * *
7300125 CATATAATTACACCGAAGTGCCA
1 CATAGAATTGCACCGTAGTGCCA
**
7300148 CATAGAATTGCACCAG-AGTGCTG
1 CATAGAATTGCACC-GTAGTGCCA
*
7300171 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGTAGTGCCA
7300194 TATAATAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CATAGAATTGCACCGTAGTGCCA
Found at i:7300330 original size:103 final size:103
Alignment explanation
Indices: 7300209--7300426 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
7300199 TAATGTCCAT
* * *
7300209 AAGGACCATATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATACACATATACCAAGGATCAAGTATGTGTCTCACCA
7300274 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
7300312 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATACACATATACCAAGGATCAAGTATGTGTCTCACCA
7300377 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
7300415 AATGACCACATA
1 AAGGACCACATA
7300427 GACCCTCTAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATACACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:7300983 original size:64 final size:67
Alignment explanation
Indices: 7300875--7301002 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 67
7300865 ATTTTCATCT
7300875 TTTAATGGAGGTATGCATCGATGCAATACACCATGCATCGATGCATAAATCATATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCAATACACCATGCATCGATGCATAAATCATATTCGATGTTTG
7300940 TA
66 TA
* * *
7300942 TTTAATGG-GG-ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCAATACAC-CATGCATCGATGCATAAATCATATTCGATGTTT
7301003 TCTTTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 1 0.02
64 32 0.56
65 14 0.25
66 2 0.04
67 8 0.14
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCAATACACCATGCATCGATGCATAAATCATATTCGATGTTTG
TA
Found at i:7301040 original size:64 final size:63
Alignment explanation
Indices: 7300887--7301047 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 63
7300877 TAATGGAGGT
* ** * *
7300887 ATGCATCGATGCAATACACCATGCATCGATGCATAAATCATATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-CAATATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAAT-GGA
** * * *
7300952 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCAATATGCATCGATGCATAAATCATATTCGATG-TTTCTATTT-AATGGA
* *
7301016 ATGCATCGATGCACTGAATGTGCATCGATGCA
1 ATGCATCGATGCACTCAATATGCATCGATGCA
7301048 CCTTAAACAA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 57 0.70
65 21 0.26
66 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCAATATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAATGGA
Found at i:7303536 original size:18 final size:18
Alignment explanation
Indices: 7303513--7303559 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
7303503 ATTAACCATT
*
7303513 CTTTTAGTTTCTGTATCA
1 CTTTTAGTTTCTATATCA
7303531 CTTTTAGTTTCTATATCA
1 CTTTTAGTTTCTATATCA
*
7303549 CTTTAAGTTTC
1 CTTTTAGTTTC
7303560 CATAATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (18 bp):
CTTTTAGTTTCTATATCA
Found at i:7305494 original size:105 final size:106
Alignment explanation
Indices: 7305312--7305759 Score: 649
Period size: 105 Copynumber: 4.3 Consensus size: 106
7305302 GCATTTTCTT
* * * **
7305312 TTGAAATAAAATTAATCTCACTTGATATTGTTGTTTCTTTCAAAAAAAAATTT-GTCTCGTTTGA
1 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAACAAATTTCGTCTCGCCTGA
*
7305376 GACATTTTTCCTTTGAGATACAAATTTTGAATTTTCTTCAC
66 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
*
7305417 TTGAAACAAATTTAATCTCACTTGAGATTGTTGTTTCTTTC-AAAACAAATTTCGTCTCGCCTGA
1 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAACAAATTTCGTCTCGCCTGA
7305481 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
66 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
*
7305522 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAAACAAATTTCATCTCGCCTG
1 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTC-AAAAACAAATTTCGTCTCGCCTG
7305587 AGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
65 AGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
* * *
7305629 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC-AAAACAAATTCCGTCTCGCTTGA
1 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAACAAATTTCGTCTCGCCTGA
* * ** * *
7305693 GACATTTTCCCTCAT-A-ATACAAATTTCAAAGTTGATAT-AC
66 GACATTTTTCCT-TTGAGATACAAATTTTGAATTTGCT-TCAC
*
7305733 TTGAAAAAAAATTAATC-CTACTTGAGA
1 TTGAAACAAAATTAATCTC-ACTTGAGA
7305760 ATTTTAAAGT
Statistics
Matches: 317, Mismatches: 20, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
103 1 0.00
104 52 0.16
105 160 0.50
106 1 0.00
107 103 0.32
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (106 bp):
TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAACAAATTTCGTCTCGCCTGA
GACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
Found at i:7305687 original size:212 final size:209
Alignment explanation
Indices: 7305312--7305759 Score: 668
Period size: 212 Copynumber: 2.1 Consensus size: 209
7305302 GCATTTTCTT
* * * **
7305312 TTGAAATAAAATTAATCTCACTTGATATTGTTGTTTCTTTCAAAAAAAAATTTGTCTCGTTTGAG
1 TTGAAAAAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAAAAAATTTATCTCGCCTGAG
* *
7305377 ACATTTTTCCTTTGAGATACAAATTTTGAATTTTCTTCACTTGAAACAAATTTAATCTCACTTGA
66 ACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACTTGAAACAAAATTAATCTCACTTGA
* * * *
7305442 GATTGTTGTTTCTTTCAAAACAAATTTCGTCTCGCCTGAGACATTTTTCCT-TTGAGATACAAAT
131 GATTGTTGTTTATTTCAAAACAAATTCCGTCTCGCCTGAGACATTTTCCCTCAT-A-ATACAAAT
** * *
7305506 TTTGAATTTGCT-TCAC
194 TTCAAAGTTGATAT-AC
*
7305522 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAAACAAATTTCATCTCGCCTG
1 TTGAAAAAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAAA-AAATTT-ATCTCGCCTG
7305587 AGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACTTGAAACAAAATTAATCTCACTT
64 AGACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACTTGAAACAAAATTAATCTCACTT
*
7305652 GAGATTGTTGTTTATTTCAAAACAAATTCCGTCTCGCTTGAGACATTTTCCCTCATAATACAAAT
129 GAGATTGTTGTTTATTTCAAAACAAATTCCGTCTCGCCTGAGACATTTTCCCTCATAATACAAAT
7305717 TTCAAAGTTGATATAC
194 TTCAAAGTTGATATAC
7305733 TTGAAAAAAAATTAATC-CTACTTGAGA
1 TTGAAAAAAAATTAATCTC-ACTTGAGA
7305760 ATTTTAAAGT
Statistics
Matches: 216, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
210 46 0.21
211 48 0.22
212 121 0.56
213 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (209 bp):
TTGAAAAAAAATTAATCTCACTTGAGATTGTTGTTTCTTTCAAAAAAAAATTTATCTCGCCTGAG
ACATTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCACTTGAAACAAAATTAATCTCACTTGA
GATTGTTGTTTATTTCAAAACAAATTCCGTCTCGCCTGAGACATTTTCCCTCATAATACAAATTT
CAAAGTTGATATAC
Found at i:7305975 original size:29 final size:27
Alignment explanation
Indices: 7305935--7306021 Score: 108
Period size: 29 Copynumber: 3.2 Consensus size: 27
7305925 GACAATTTCG
7305935 TGAAAAAAATCTTTGAGTCTGTTCCTTT
1 TGAAAAAAATCTTTGAGTCTGTT-CTTT
*
7305963 TGAATAAAAATCTTTGTGT-TGTT-TTT
1 TGAA-AAAAATCTTTGAGTCTGTTCTTT
*
7305989 TGAAAAAAATATTTGAGTCTGTTTCTTT
1 TGAAAAAAATCTTTGAGTCTG-TTCTTT
7306017 T-AAAA
1 TGAAAA
7306022 CAAAGTTTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.23
26 9 0.17
27 6 0.12
28 12 0.23
29 13 0.25
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (27 bp):
TGAAAAAAATCTTTGAGTCTGTTCTTT
Found at i:7306066 original size:62 final size:62
Alignment explanation
Indices: 7305992--7306402 Score: 253
Period size: 62 Copynumber: 6.5 Consensus size: 62
7305982 TGTTTTTTGA
* *
7305992 AAAAAATATTTGAGTCTGTTTCTTTTAAAACAAAGTTTTGTCTCTCTTGAGGA-AATTTCGTG
1 AAAAAATCTTTGAGTCTGTTTCTTTGAAAACAAAGTTTTGTCTCTCTTGA-GACAATTTCGTG
* * * * **
7306054 CAAAAATCTTTGAGTCTATTTCTTTTG-AAACAAAGTTTTGTCTCTATTGAGACAATTTTGAAA
1 AAAAAATCTTTGAGTCTGTTTC-TTTGAAAACAAAGTTTTGTCTCTCTTGAGACAATTTCG-TG
* * * * *
7306117 AAAAAATCTTTGAG-CTTGTTTCTTTGGAAACACAGTTTTATCTCTCTTGAAACAATTTCTTTTG
1 AAAAAATCTTTGAGTC-TGTTTCTTTGAAAACAAAGTTTTGTCTCTCTTGAGACAATTTC--GTG
* ** *** *
7306181 AGAAAAATCTTTGAGTCTGTTTCTTTGAAAACAAA-ATTTAACGTCT-TTGAGATTGTTTCCCTT
1 A-AAAAATCTTTGAGTCTGTTTCTTTGAAAACAAAGTTTTGTC-TCTCTTGAGACAATTT--CGT
7306244 G
62 G
* * **
7306245 AAACAAACCCATCTTTGAGTCTTTTTCTCTTG-AAACAAAAGTCTTTGAGTCGTTTCTTTTGA-A
1 -AA-AAA---ATCTTTGAGTCTGTTTCT-TTGAAAAC-AAAGT-TTT--GTC-TCTCTTGAGACA
7306308 A---C---
55 ATTTCGTG
* * * *
7306310 -AAAAATCTTTAAGTTTGTTTCTTTTAAAACAAAGTTTTGTCACTCTTGAGACAATTTCGTG
1 AAAAAATCTTTGAGTCTGTTTCTTTGAAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG
7306371 -AAAAATCTTTGAGT-TGTTTCTTTTG-AAACAAA
1 AAAAAATCTTTGAGTCTGTTTC-TTTGAAAACAAA
7306403 TATTTGAGTC
Statistics
Matches: 271, Mismatches: 45, Indels: 68
0.71 0.12 0.18
Matches are distributed among these distances:
54 6 0.02
55 5 0.02
57 3 0.01
58 8 0.03
59 19 0.07
60 13 0.05
61 18 0.07
62 55 0.20
63 49 0.18
64 18 0.07
65 36 0.13
66 2 0.01
68 22 0.08
69 6 0.02
71 3 0.01
73 4 0.01
74 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (62 bp):
AAAAAATCTTTGAGTCTGTTTCTTTGAAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG
Found at i:7306154 original size:63 final size:62
Alignment explanation
Indices: 7305991--7306402 Score: 260
Period size: 63 Copynumber: 6.6 Consensus size: 62
7305981 TTGTTTTTTG
* * *
7305991 AAAAAAATATTTGAGTCTGTTTCTTTTAAAACAAAGTTTTGTCTCTCTTGAGGA-AATTTCGT
1 AAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGA-GACAATTTCGA
** * * *
7306053 GCAAAAATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTATTGAGACAATTTTGAA
1 AAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCG-A
* * * *
7306116 AAAAAAATCTTTGAG-CTTGTTTCTTTGGAAACACAGTTTTATCTCTCTTGAAACAATTTCTTTT
1 AAAAAAATCTTTGAGTC-TGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTC----
7306180 G-
61 GA
* * ** ***
7306181 AGAAAAATCTTTGAGTCTGTTTC-TTTGAAAACAAA-ATTTAACGTCT-TTGAGATTGTTTCCCT
1 AAAAAAATCTTTGAGTCTGTTTCTTTTG-AAACAAAGTTTTGTC-TCTCTTGAGACAATTT--C-
7306243 TGA
61 -GA
* * * **
7306246 AACAAACCCATCTTTGAGTCTTTTTCTCTTGAAACAAAAGTCTTTGAGTCGT-TT----C--TTT
1 AA-AAA--AATCTTTGAGTCTGTTTCTTTTGAAAC-AAAGT-TTTGTCTC-TCTTGAGACAATTT
*
7306304 TGA
60 CGA
* * * *
7306307 AACAAAAATCTTTAAGTTTGTTTCTTTTAAAACAAAGTTTTGTCACTCTTGAGACAATTTCG-
1 AA-AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGA
**
7306369 TGAAAAATCTTTGAGT-TGTTTCTTTTGAAACAAA
1 AAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAA
7306403 TATTTGAGTC
Statistics
Matches: 273, Mismatches: 49, Indels: 58
0.72 0.13 0.15
Matches are distributed among these distances:
56 1 0.00
57 7 0.03
58 5 0.02
59 21 0.08
60 17 0.06
61 24 0.09
62 52 0.19
63 53 0.19
64 19 0.07
65 33 0.12
66 5 0.02
67 1 0.00
68 20 0.07
69 6 0.02
70 2 0.01
71 7 0.03
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (62 bp):
AAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGA
Found at i:7306292 original size:30 final size:30
Alignment explanation
Indices: 7306255--7306342 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
7306245 AAACAAACCC
*
7306255 ATCTTTGAGTCTTTTTCTCTTGAAACAAAA
1 ATCTTTGAGTCTTTTTCTTTTGAAACAAAA
* *
7306285 GTCTTTGAGTC-GTTTCTTTTGAAACAAAA
1 ATCTTTGAGTCTTTTTCTTTTGAAACAAAA
* *
7306314 ATCTTTAAGT-TTGTTTCTTTTAAAACAAA
1 ATCTTTGAGTCTT-TTTCTTTTGAAACAAA
7306343 GTTTTGTCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 24 0.49
30 25 0.51
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
ATCTTTGAGTCTTTTTCTTTTGAAACAAAA
Found at i:7306308 original size:29 final size:29
Alignment explanation
Indices: 7306183--7306342 Score: 106
Period size: 30 Copynumber: 5.1 Consensus size: 29
7306173 TTCTTTTGAG
7306183 AAAAATCTTTGAGTCTGTTTC-TTTGAAAAC
1 AAAAATCTTTGAGTC-GTTTCTTTTG-AAAC
* **
7306213 AAAATTTAACGTCTTTGAGATTGTTTCCCTTGAAAC
1 -AAA---AA--TCTTTGAG-TCGTTTCTTTTGAAAC
* * *
7306249 AAACCCATCTTTGAGTCTTTTTCTCTTGAAAC
1 AAA--AATCTTTGAGTC-GTTTCTTTTGAAAC
*
7306281 AAAAGTCTTTGAGTCGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTCGTTTCTTTTGAAAC
* * *
7306310 AAAAATCTTTAAGTTTGTTTCTTTTAAAAC
1 AAAAATCTTTGAG-TCGTTTCTTTTGAAAC
7306340 AAA
1 AAA
7306343 GTTTTGTCAC
Statistics
Matches: 104, Mismatches: 16, Indels: 19
0.75 0.12 0.14
Matches are distributed among these distances:
29 23 0.22
30 27 0.26
31 4 0.04
32 23 0.22
34 3 0.03
35 3 0.03
36 17 0.16
37 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (29 bp):
AAAAATCTTTGAGTCGTTTCTTTTGAAAC
Found at i:7306408 original size:27 final size:27
Alignment explanation
Indices: 7306371--7306447 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
7306361 CAATTTCGTG
7306371 AAAAATCTTTGAGTTGTTTCTTTTGAA
1 AAAAATCTTTGAGTTGTTTCTTTTGAA
* *
7306398 ACAAATATTTGAGTCTG-TTCATTTTGAA
1 AAAAATCTTTGAGT-TGTTTC-TTTTGAA
7306426 AAAAATCTTTGAGTTTGTTTCT
1 AAAAATCTTTGAG-TTGTTTCT
7306448 ACTAACAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.36
28 23 0.55
29 4 0.10
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (27 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAA
Found at i:7306973 original size:29 final size:29
Alignment explanation
Indices: 7306912--7306988 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
7306902 GAAACACGTC
* *
7306912 ATCTTTGAGTCTGTTT-TTCTTTAAACAA
1 ATCTTTGAGTCTGTTTCTTTTTTAAAAAA
*
7306940 ATCTTTGAGTTTGTTTCTTTTTTAAAAAA
1 ATCTTTGAGTCTGTTTCTTTTTTAAAAAA
7306969 ATCTTTGAGTCTGTTTCTTT
1 ATCTTTGAGTCTGTTTCTTT
7306989 GGTAACAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 15 0.34
29 29 0.66
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.55
Consensus pattern (29 bp):
ATCTTTGAGTCTGTTTCTTTTTTAAAAAA
Found at i:7307047 original size:63 final size:63
Alignment explanation
Indices: 7306965--7307125 Score: 223
Period size: 63 Copynumber: 2.5 Consensus size: 63
7306955 TCTTTTTTAA
* * *
7306965 AAAAATCTTTGAGTCTGTTTCTTTGGTAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTTTG
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTG
*
7307028 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAG
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTT--G
* * *
7307093 AAAATTATTTTTAAGTCTGTTTCTTTCGAAACA
1 AAAA--ATCTTTGAGTCTGTTTCTTTGGAAACA
7307126 TCATCTTTGA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
63 58 0.67
65 5 0.06
67 23 0.27
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (63 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTG
Found at i:7307402 original size:134 final size:134
Alignment explanation
Indices: 7307176--7307438 Score: 377
Period size: 134 Copynumber: 2.0 Consensus size: 134
7307166 AGATAGCTAG
* *
7307176 AACTCTTCATCACGTATGAGTCGTACCATCCCCTGACCAGATCTCCTCATCACGTAGGAGCAGCG
1 AACTCTTCATCACGTATGAGTAGTACCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCAGCG
** * * * **
7307241 TCAACTTTAGATAACCAGTCGTCCTCATCACATAGGATCCGAGTTATCATCTTTCCTAAATATGG
66 TCAACCGTAGATAACCAGCCGTCCTCATCACATAGGAACCGAGTTATCACCACTCCTAAATATGG
7307306 CCAA
131 CCAA
**
7307310 AACTCTTCATCACGTATGAGTAGTGTCAT-CCCTCGACCAGACCTCCTCATCACGTAGGAGCCA-
1 AACTCTTCATCACGTATGAGTAGTACCATCCCCT-GACCAGACCTCCTCATCACGTAGGAG-CAG
* *
7307373 CGTCAACCGTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCACCACTCCTAAATAT
64 CGTCAACCGTAGATAACCAGCCGTCCTCATCACATAGGAACCGAGTTATCACCACTCCTAAATAT
7307438 G
129 G
7307439 ACCAGCCGTC
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
133 4 0.04
134 108 0.95
135 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (134 bp):
AACTCTTCATCACGTATGAGTAGTACCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCAGCG
TCAACCGTAGATAACCAGCCGTCCTCATCACATAGGAACCGAGTTATCACCACTCCTAAATATGG
CCAA
Found at i:7307473 original size:134 final size:134
Alignment explanation
Indices: 7307206--7307495 Score: 336
Period size: 134 Copynumber: 2.2 Consensus size: 134
7307196 TCGTACCATC
** *
7307206 CCCT-GACCAGATCTCCTCATCACGTAGGAGCAGCGTCAACTTTAGATAACCAGTCGTCCTCATC
1 CCCTCGACCAGATCTCCTCATCACGTAGGAGCAGCGTCAACCGTAGATAACCAGCCGTCCTCATC
* * ** * * * ** *
7307270 ACATAGGATCCGAGTTATCATCTTTCCTAAATATGGCCAAAACTCTTCATCACGTATGAGTAGTG
66 ACATAGGAACCGAGTTATCACCACTCCTAAATATGACCAAAACTCCTCATCACGTAGGACCAGTA
7307335 TCAT
131 TCAT
*
7307339 CCCTCGACCAGACCTCCTCATCACGTAGGAGCCA-CGTCAACCGTAGATAACCAGCCGTCCTCAT
1 CCCTCGACCAGATCTCCTCATCACGTAGGAG-CAGCGTCAACCGTAGATAACCAGCCGTCCTCAT
* * ** *
7307403 CGCGTAGGAACCGAGTTATCACCACTCCTAAATATGACC-AGCCGTCCTCATCGCGTAGGAACCA
65 CACATAGGAACCGAGTTATCACCACTCCTAAATATGACCAAAAC-TCCTCATCACGTAGG-ACCA
7307467 -TATCAT
128 GTATCAT
* *
7307473 CCCCCGACCATATCTCCTCATCA
1 CCCTCGACCAGATCTCCTCATCA
7307496 AGTAAGATTC
Statistics
Matches: 131, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
133 6 0.05
134 121 0.92
135 4 0.03
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.23
Consensus pattern (134 bp):
CCCTCGACCAGATCTCCTCATCACGTAGGAGCAGCGTCAACCGTAGATAACCAGCCGTCCTCATC
ACATAGGAACCGAGTTATCACCACTCCTAAATATGACCAAAACTCCTCATCACGTAGGACCAGTA
TCAT
Found at i:7307735 original size:3 final size:3
Alignment explanation
Indices: 7307723--7307758 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
7307713 TTTAGTTTTA
7307723 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7307759 TAATATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:7313166 original size:22 final size:22
Alignment explanation
Indices: 7313141--7313234 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 22
7313131 CCATAACTTG
**
7313141 CATAATTTG-CACCGAAGTGCCA
1 CATAATTTGTC-CCGAAGAACCA
7313163 CATAA-TTGTCCCGAAGAACCA
1 CATAATTTGTCCCGAAGAACCA
*
7313184 CATAATTTGTCCCAAATG-ACCA
1 CATAATTTGTCCCGAA-GAACCA
* *
7313206 CATAGGTTTTGTCCCGAAGGACCA
1 CATA--ATTTGTCCCGAAGAACCA
7313230 CATAA
1 CATAA
7313235 AACCCTCGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
21 17 0.28
22 23 0.38
23 2 0.03
24 18 0.30
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (22 bp):
CATAATTTGTCCCGAAGAACCA
Found at i:7313394 original size:7 final size:7
Alignment explanation
Indices: 7313374--7313404 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
7313364 TATCTTTGTA
7313374 TTCACAT
1 TTCACAT
7313381 ATTCACAT
1 -TTCACAT
7313389 TTCACAT
1 TTCACAT
7313396 TTCACAT
1 TTCACAT
7313403 TT
1 TT
7313405 TCATAGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (7 bp):
TTCACAT
Found at i:7317266 original size:13 final size:13
Alignment explanation
Indices: 7317248--7317277 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
7317238 CGTCCAGATG
7317248 TTTTAAAAAAATA
1 TTTTAAAAAAATA
7317261 TTTT-AAAAAATA
1 TTTTAAAAAAATA
7317273 TTTTA
1 TTTTA
7317278 TTTTGAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:7318993 original size:31 final size:32
Alignment explanation
Indices: 7318932--7318996 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
7318922 AATTTAAATT
*
7318932 CGAATAAATTATTATAATTGAAGATTAACATA
1 CGAATAAATTATTATAATTGAAGATAAACATA
*
7318964 CGAATATATTATTATAATT-AAGATAAACATA
1 CGAATAAATTATTATAATTGAAGATAAACATA
7318995 CG
1 CG
7318997 TGAGGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (32 bp):
CGAATAAATTATTATAATTGAAGATAAACATA
Found at i:7319219 original size:32 final size:32
Alignment explanation
Indices: 7319183--7319259 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 32
7319173 ATAAAGTTTA
*
7319183 CGATAATTGAAATACTTAAATACTT-CACAGTT
1 CGATAATTGAAATACTTAAAAACTTCCA-AGTT
*
7319215 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
7319248 CGATAATTGAAA
1 CGATAATTGAAA
7319260 CAAAGTTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.28
33 27 0.68
34 2 0.05
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:7319273 original size:21 final size:21
Alignment explanation
Indices: 7319248--7319289 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7319238 CTTCCAAGTT
7319248 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
7319269 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
7319290 AATAAACTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:7320728 original size:31 final size:31
Alignment explanation
Indices: 7320693--7320756 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7320683 AATTTAAATT
*
7320693 CGAATAAATTATTATAATGAAGATTAACATA
1 CGAATAAATTATTATAATGAAGATAAACATA
* *
7320724 CGAATATATTATTATAATTAAGATAAACATA
1 CGAATAAATTATTATAATGAAGATAAACATA
7320755 CG
1 CG
7320757 TGAGGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (31 bp):
CGAATAAATTATTATAATGAAGATAAACATA
Done.