Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 282 of 333
Found at i:93365320 original size:55 final size:53
Alignment explanation
Indices: 93365206--93365394 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
93365196 AACTTACCAT
* * *
93365206 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
93365259 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
93365314 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
93365368 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
93365395 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 35 0.30
55 44 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:93365408 original size:109 final size:108
Alignment explanation
Indices: 93365206--93365408 Score: 309
Period size: 109 Copynumber: 1.9 Consensus size: 108
93365196 AACTTACCAT
* *
93365206 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
93365271 GCATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAA
* * *
93365314 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
*
93365379 GGCATGGTCTTACATGATATCC-TTATCTTA
65 GGCATGGTCTTACATGAGA-CCTTTATCTTA
93365409 CCAAATGCCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 39 0.46
109 44 0.52
110 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAA
Found at i:93365436 original size:47 final size:47
Alignment explanation
Indices: 93365381--93365502 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
93365371 CATGCCTTGG
*
93365381 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
93365428 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
93365475 CATGGTCTTATATGGTATCCTTCTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
93365503 GCGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:93375262 original size:24 final size:25
Alignment explanation
Indices: 93375235--93375282 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
93375225 TTAATAAAAC
93375235 AATA-TTATT-TTAAATAAAATATTA
1 AATATTTATTATTAAA-AAAATATTA
93375259 AATATTTATTAATTAAAAAAATAT
1 AATATTTATT-ATTAAAAAAATAT
93375283 CATTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 5 0.24
26 7 0.33
27 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATTTATTATTAAAAAAATATTA
Found at i:93377912 original size:3 final size:3
Alignment explanation
Indices: 93377904--93377945 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
93377894 ACTAATATAT
* * *
93377904 ATA ATA ATA ATA ATG ATA ATA ATA TTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93377946 CAAGGATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93378630 original size:13 final size:13
Alignment explanation
Indices: 93378604--93378653 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
93378594 AAATAAGTAG
*
93378604 AATAGAAAATAAA
1 AATAAAAAATAAA
93378617 AAT-AAAAATAAA
1 AATAAAAAATAAA
93378629 AATAAAATAATAAA
1 AATAAAA-AATAAA
*
93378643 AGTAAATAAAT
1 AATAAA-AAAT
93378654 CACCTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 11 0.34
13 6 0.19
14 14 0.44
15 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:93378648 original size:6 final size:6
Alignment explanation
Indices: 93378604--93378635 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
93378594 AAATAAGTAG
93378604 AATAGAA AATAAA AATAAA AATAAA AATAAA A
1 AATA-AA AATAAA AATAAA AATAAA AATAAA A
93378636 TAATAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:93380212 original size:87 final size:87
Alignment explanation
Indices: 93379940--93380237 Score: 443
Period size: 88 Copynumber: 3.4 Consensus size: 87
93379930 ATGACCCGAT
* * * * *
93379940 GCTCAACTCACCTCTTGCAATTTGAGTTGATTTTTGAAAAATATAATTTAAAAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATT-GAAAAACAGAAATTG
93380005 AAAATACCTCAGCGTGCCCTGAG
65 AAAATACCTCAGCGTGCCCTGAG
*
93380028 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG-AAAAACAGAAATTG
93380093 AAAATACCTCAGCGTGCCCTGAG
65 AAAATACCTCAGCGTGCCCTGAG
* * ** * *
93380116 ACTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAGCATAACTTGAAAAACGGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
*
93380181 AAATACCTCAGCGTGTCCTGAG
66 AAATACCTCAGCGTGCCCTGAG
* *
93380203 GCTCAACTCACCTCTTGCAATATGAGTTGGTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
93380238 TTTGAAAACA
Statistics
Matches: 191, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
87 66 0.35
88 125 0.65
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATTGA
AAATACCTCAGCGTGCCCTGAG
Found at i:93380457 original size:228 final size:230
Alignment explanation
Indices: 93380027--93380465 Score: 597
Period size: 226 Copynumber: 1.9 Consensus size: 230
93380017 CGTGCCCTGA
93380027 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
* * *
93380092 GAAAATACCTCAGCGTGCCCTGAGACTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAG
66 GAAAATACCTCAGCGTG-CCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAAG
* * * *
93380157 CATAACTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCA
130 CAAAACTTGAAAAACAGAAATTGAAAATACCTCAGCATGGCCTGAGGCTCAACTCACCTCTTGCA
*
93380222 ATATGAGTTGGTTTTTTTTGAAAACATGAATTAAAG
195 ATATGAGTTGATTTTTTTTGAAAACATGAATTAAAG
* * * * *
93380258 GGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAACATA-AAGT-GAAAATATAGAAATT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
*
93380320 GAAAATACCTCAGCGTG-CTGA-AGCTCAACTCACCTTTCACAATATGAGTTGATTTCTGAAAA-
66 GAAAATACCTCAGCGTGCCTGAGA-CTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAAG
* * *
93380382 CAGAAATTTGAAAAATAGAATTTGAAAATACCTCAGCACATGGGCC-GAGGCTCAACTCACCT-T
130 CA-AAACTTGAAAAACAGAAATTGAAAATACCTCAG--CAT-GGCCTGAGGCTCAACTCACCTCT
*
93380445 TCGCGATATGAGTTGATTTTT
191 T-GCAATATGAGTTGATTTTT
93380466 GAAAACAGAA
Statistics
Matches: 184, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
225 3 0.02
226 67 0.36
227 2 0.01
228 65 0.35
229 6 0.03
230 11 0.06
231 30 0.16
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (230 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
GAAAATACCTCAGCGTGCCTGAGACTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAAGC
AAAACTTGAAAAACAGAAATTGAAAATACCTCAGCATGGCCTGAGGCTCAACTCACCTCTTGCAA
TATGAGTTGATTTTTTTTGAAAACATGAATTAAAG
Found at i:93380460 original size:89 final size:85
Alignment explanation
Indices: 93380258--93380477 Score: 277
Period size: 89 Copynumber: 2.6 Consensus size: 85
93380248 TGAATTAAAG
*
93380258 GGCTCAACTCACCTCTT-GCAATATGAGTTGATTTTG-AAACATAAA-GTGAAAATATAGAAATT
1 GGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTGAAAACAGAAATGTGAAAATATAGAAATT
* *
93380320 GAAAATACCTCAGCGTGCTGA
65 GAAAATACCTCAGCGGGCCGA
* * * *
93380341 AGCTCAACTCACCTTTCACAATATGAGTTGATTTCTGAAAACAGAAATTTGAAAA-ATAGAATTT
1 GGCTCAACTCACCTTTCGCAATATGAGTTGATTT-TGAAAACAGAAATGTGAAAATATAGAAATT
93380405 GAAAATACCTCAGCACATGGGCCGA
65 GAAAATACCTCAG--C--GGGCCGA
*
93380430 GGCTCAACTCACCTTTCGCGATATGAGTTGATTTTTGAAAACAGAAAT
1 GGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTGAAAACAGAAAT
93380478 AAAACATCAA
Statistics
Matches: 118, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
82 2 0.02
83 29 0.25
84 2 0.02
85 29 0.25
86 6 0.05
87 1 0.01
89 46 0.39
90 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (85 bp):
GGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAACAGAAATGTGAAAATATAGAAATTG
AAAATACCTCAGCGGGCCGA
Found at i:93382937 original size:15 final size:15
Alignment explanation
Indices: 93382917--93382960 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
93382907 ATATTGTAAA
93382917 TATCATATTATGTTT
1 TATCATATTATGTTT
*
93382932 TATCATGTATATGTTT
1 TATCATAT-TATGTTT
93382948 TAAT-ATATTATGT
1 T-ATCATATTATGT
93382961 GTATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (15 bp):
TATCATATTATGTTT
Found at i:93383040 original size:24 final size:25
Alignment explanation
Indices: 93382985--93383040 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
93382975 GTATGTTATG
* *
93382985 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
93383010 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
93383033 TATATATT
1 TATATATT
93383041 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:93394612 original size:55 final size:55
Alignment explanation
Indices: 93394528--93394702 Score: 305
Period size: 55 Copynumber: 3.2 Consensus size: 55
93394518 TCTGGGGCAC
* *
93394528 CTATTCCCTTTTTATTCATTTTGTATTCCATCAATGTTTGTTGATTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAACAATGTTTGTTGACTGTGATTAAT
*
93394583 CTATTCCCTTTTTATTCATTTTTTATTCCAACAATGTTTGTTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAACAATGTTTGTTGACTGTGATTAAT
* *
93394638 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTATTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAACAATGTTTGTTGACTGTGATTAAT
93394693 CTATTCCCTT
1 CTATTCCCTT
93394703 CAAATTTTGT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 114 1.00
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.53
Consensus pattern (55 bp):
CTATTCCCTTTTTATTCATTTTGTATTCCAACAATGTTTGTTGACTGTGATTAAT
Found at i:93395353 original size:44 final size:43
Alignment explanation
Indices: 93395219--93395363 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 43
93395209 ACCTTAACCA
* *
93395219 CCTAAGCAGTAGGGTAACAGGCTGAAGATATAGATCTTATCAT
1 CCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCAC
* * * * * *
93395262 CCTAAGCAGTATGGAAAC-AGATCAAAGGTA-ACGAGCTTTAATC-C
1 CCTAAGCAGTAGGGTAACAAGCT-GAAGATATA-GATC-TT-ATCAC
*
93395306 CCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATCTTATCAC
1 CCTAAGCAGTAGGGTAACAAGCTGAAG-ATATAGATCTTATCAC
*
93395350 CCTAAGCAGCAGGG
1 CCTAAGCAGTAGGG
93395364 AAGTAGATCA
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
42 3 0.04
43 27 0.34
44 37 0.47
45 11 0.14
46 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (43 bp):
CCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCAC
Found at i:93407512 original size:37 final size:37
Alignment explanation
Indices: 93407462--93407540 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
93407452 TTATTACGAA
* *
93407462 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
93407499 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
93407536 GTCTT
1 GTCTT
93407541 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:93407809 original size:47 final size:47
Alignment explanation
Indices: 93407659--93408031 Score: 571
Period size: 47 Copynumber: 8.1 Consensus size: 47
93407649 CCCTACGGGA
* * * * * * *
93407659 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93407706 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93407752 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93407799 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93407846 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93407893 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93407940 CTTATCAC--ATATACAC-TTCACATTCATCACATC-G-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93407981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93408028 CTTA
1 CTTA
93408032 CTATCATTTC
Statistics
Matches: 302, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
41 10 0.03
42 4 0.01
43 9 0.03
44 34 0.11
45 9 0.03
46 45 0.15
47 191 0.63
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93407923 original size:141 final size:140
Alignment explanation
Indices: 93407659--93408031 Score: 560
Period size: 140 Copynumber: 2.7 Consensus size: 140
93407649 CCCTACGGGA
* * * * * * * * * *
93407659 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATTACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
93407724 TTTCACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
93407788 GACCATTAGGC
130 GACCATTAGGC
93407799 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATTACATATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTATCACATATATACAC
*
93407864 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
93407929 GGCTATTAGGC
130 GACCATTAGGC
*
93407940 CTTA-T-CACATATACAC-TTCACATTCATCACATC-GCATTA-GCCTTATCACATATATACACT
1 CTTATTACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
93408000 TTCACATTCATCACATCGGCCATTAGGCCTTA
66 TTCACATTCATCACATCGGCCATTAGGCCTTA
93408032 CTATCATTTC
Statistics
Matches: 216, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
135 52 0.24
136 4 0.02
137 2 0.01
138 17 0.08
139 11 0.05
140 65 0.30
141 65 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATTACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
ACCATTAGGC
Found at i:93411792 original size:40 final size:40
Alignment explanation
Indices: 93411735--93411878 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
93411725 CCAGCATGAT
* *
93411735 TGCTCTTCGGGATTTAGCAC-GGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CTGGATACATCACTAGCACGAA
* *
93411775 TGCTCTTCGGAACTTAGCCTGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
* * *
93411815 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
93411855 TGCTCTTCGGGACTTAGCCTGGAT
1 TGCTCTTCGGGACTTAGCCTGGAT
93411879 TTAGTAACTC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 94 0.99
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
Found at i:93411824 original size:80 final size:80
Alignment explanation
Indices: 93411722--93411878 Score: 242
Period size: 80 Copynumber: 2.0 Consensus size: 80
93411712 CGAATACACG
* * *
93411722 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
93411787 CTTAGCCTGGATACA
66 CTTAGCCTGGATACA
* * * * *
93411802 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
93411867 CTTAGCCTGGAT
66 CTTAGCCTGGAT
93411879 TTAGTAACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCTGGATACA
Found at i:93411903 original size:40 final size:40
Alignment explanation
Indices: 93411766--93411960 Score: 105
Period size: 40 Copynumber: 4.8 Consensus size: 40
93411756 GATATATCAC
* * * *
93411766 TAGCACGAATGCTCTTCGGAACTTAGCCTGGATACA-TCAC-
1 TAGCAC-AATGC-CTTCGGGACTTAGCCTGGACATAGTAACT
* * * * **
93411806 TAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCGC-
1 TAGCA-CAATGC-CTTCGGGACTTAGCCTGGACATAGTAACT
* **
93411846 TAGCATGAATGCTCTTCGGGACTTAGCCTGGATTTAGTAAC-
1 TAGCA-CAATGC-CTTCGGGACTTAGCCTGGACATAGTAACT
* * * *
93411887 TCGCACCAATGCCTTC-GGATCTTAGTCTGGACATGGTCACT
1 TAGCA-CAATGCCTTCGGGA-CTTAGCCTGGACATAGTAACT
* *
93411928 TAGCACAAAGCCTTCGGGACTTAGCCCGGACAT
1 TAGCACAATGCCTTCGGGACTTAGCCTGGACAT
93411961 CATTCGAATA
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.02
40 108 0.84
41 18 0.14
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TAGCACAATGCCTTCGGGACTTAGCCTGGACATAGTAACT
Found at i:93411911 original size:80 final size:81
Alignment explanation
Indices: 93411735--93411911 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 81
93411725 CCAGCATGAT
*
93411735 TGCTCTTCGGGAT-TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
1 TGCTCTTCGGGATCTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
* **
93411799 ACATCACTAGCATGAA
66 ACATAACTAGCACCAA
* * * *
93411815 TGCTCTTCGGGA-CTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCTGGAT
1 TGCTCTTCGGGATCTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
** *
93411879 TTAGTAACTCGCACCAA
66 ACA-TAACTAGCACCAA
93411896 TGC-CTTC-GGATCTTAG
1 TGCTCTTCGGGATCTTAG
93411912 TCTGGACATG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.04
80 68 0.82
81 12 0.14
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (81 bp):
TGCTCTTCGGGATCTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
ACATAACTAGCACCAA
Found at i:93411943 original size:120 final size:120
Alignment explanation
Indices: 93411727--93411957 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
93411717 ACACGTCACC
* * * *
93411727 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
* * *
93411792 CCTGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
66 CCTGGACACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * *
93411847 AGCATGAATGCTCTTCGGGACTTAGC-CTGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTT
1 AGCATGAATGCTCTTCGGGACTTAGCAC-GGATATA-TAACTAGCACCAATGCTCTTCGGAACTT
* **
93411910 AGTCTGGACATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
64 AGCCTGGACA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
93411958 CATCATTCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 1 0.01
120 67 0.71
121 21 0.22
122 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (120 bp):
AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
CCTGGACACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:93412296 original size:28 final size:29
Alignment explanation
Indices: 93412260--93412337 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
93412250 CTTAATAATC
*
93412260 AACCACGCACACTTAGT-CCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
93412289 AACTCGCACACTTACTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
93412318 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
93412338 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 14 0.34
29 27 0.66
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:93412380 original size:43 final size:43
Alignment explanation
Indices: 93412319--93412421 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
93412309 TGCATTTCAA
93412319 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
93412362 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
93412405 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
93412422 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:93414303 original size:37 final size:37
Alignment explanation
Indices: 93414253--93414331 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
93414243 TTATTACGAA
* *
93414253 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
93414290 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
93414327 GTCTT
1 GTCTT
93414332 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:93414599 original size:47 final size:47
Alignment explanation
Indices: 93414449--93414780 Score: 531
Period size: 47 Copynumber: 7.1 Consensus size: 47
93414439 CCCTTCGGGA
* * * * * * *
93414449 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93414496 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93414542 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93414589 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93414636 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93414683 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93414730 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93414777 CTTA
1 CTTA
93414781 CTATCATTTC
Statistics
Matches: 267, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.15
47 227 0.85
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93420823 original size:44 final size:44
Alignment explanation
Indices: 93420751--93420862 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
93420741 ATCCTGTCTT
* * * * *
93420751 CCTGAAGTCTCAGCGAAGCAGA-TCGAAGTCACCAGTCTTATCTC
1 CCTGAAGTCGCAGTGGAGCAGACT-GAAGTCACAAGTCTCATCTC
*
93420795 CCTGAAGT-GCAGTGGAGCAAGACTGAAGTTACAAGTCTCATCTC
1 CCTGAAGTCGCAGTGGAGC-AGACTGAAGTCACAAGTCTCATCTC
93420839 CCTGAAGTCGCAGTGGAGCAGACT
1 CCTGAAGTCGCAGTGGAGCAGACT
93420863 AAATATACAG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
43 7 0.12
44 41 0.69
45 11 0.19
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (44 bp):
CCTGAAGTCGCAGTGGAGCAGACTGAAGTCACAAGTCTCATCTC
Found at i:93425716 original size:31 final size:31
Alignment explanation
Indices: 93425681--93425758 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
93425671 TTACCAACCT
*
93425681 AGTGACTTAAATAAAATATTTTGAATAGTTC
1 AGTGACTTAAATAAAATATTTTGAATAATTC
* * *
93425712 AGTGACTTAAATGAATTTTTTTGAATAATTC
1 AGTGACTTAAATAAAATATTTTGAATAATTC
* * *
93425743 AATGACTAAAACAAAA
1 AGTGACTTAAATAAAA
93425759 ACTTACCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAATATTTTGAATAATTC
Found at i:93431684 original size:12 final size:12
Alignment explanation
Indices: 93431667--93431698 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
93431657 TATTTTACCC
93431667 AATTTCTTCAAT
1 AATTTCTTCAAT
93431679 AATTTCTTCAAT
1 AATTTCTTCAAT
93431691 AATTTCTT
1 AATTTCTT
93431699 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:93434415 original size:44 final size:41
Alignment explanation
Indices: 93434366--93434461 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 41
93434356 TATGGGATGT
93434366 TGGCATCGACTTATGATTTACGTATAAGACAATGTCTGGGACA-
1 TGGCATCGA-TT-TGATTT-CGTATAAGACAATGTCTGGGACAG
* ** *
93434409 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGGCAG
1 T-GGCATCG-ATTTGATTTCGTATAAGACAATGTCTGGGACAG
93434452 TGGCATCGAT
1 TGGCATCGAT
93434462 ATTTGATTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.04
42 26 0.57
43 8 0.17
44 9 0.20
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
TGGCATCGATTTGATTTCGTATAAGACAATGTCTGGGACAG
Found at i:93434445 original size:42 final size:43
Alignment explanation
Indices: 93434366--93434500 Score: 118
Period size: 43 Copynumber: 3.1 Consensus size: 43
93434356 TATGGGATGT
* *
93434366 TGGCATCGACT-TATGATTTACGTATAAGACAATGTCTGGGACA-
1 TGGCATCGA-TATTTGATTT-CGTGTAAGACAATGTCTGGGACAG
** *
93434409 TCGGCATCG-TATTTGATTTCGTGTAAGACCCTGTCTGGGGCAG
1 T-GGCATCGATATTTGATTTCGTGTAAGACAATGTCTGGGACAG
* * *
93434452 TGGCATCGATATTTGATTACATGTAAGATCACAT-T-TGGGACAT
1 TGGCATCGATATTTGATTTCGTGTAAGA-CA-ATGTCTGGGACAG
93434495 TGGCAT
1 TGGCAT
93434501 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
42 27 0.36
43 38 0.51
44 9 0.12
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCGTGTAAGACAATGTCTGGGACAG
Found at i:93435135 original size:26 final size:26
Alignment explanation
Indices: 93435105--93435156 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
93435095 TCAAAAATGG
93435105 TATGTTTTGATGCATTCTTGAATGAC
1 TATGTTTTGATGCATTCTTGAATGAC
93435131 TATGTTTTGATGCATTCTTGAATGAC
1 TATGTTTTGATGCATTCTTGAATGAC
93435157 CAAATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (26 bp):
TATGTTTTGATGCATTCTTGAATGAC
Found at i:93436839 original size:63 final size:63
Alignment explanation
Indices: 93436766--93436924 Score: 169
Period size: 63 Copynumber: 2.5 Consensus size: 63
93436756 TTTAGAGGAG
* * *
93436766 GTGTTGATGCAGAGAATGATTGTGTGTGATATGGTGCTTGTGCAAAATAATCTGGTGCT-AAA
1 GTGTTGATGCAGAGAATGATTGTGTGTGATATGGTACTTGTGCAAAATAAACTGGAGCTGAAA
* * * * * *
93436828 TGTGTTGATGCA-AGGAATGGTTGTGCGTGCTCTGGTACTTGTGTAAAATAAACTGGAGTTGAAA
1 -GTGTTGATGCAGA-GAATGATTGTGTGTGATATGGTACTTGTGCAAAATAAACTGGAGCTGAAA
* * * *
93436892 GTGTTGATGCGGGGAGTGATTGTATGTGATATG
1 GTGTTGATGCAGAGAATGATTGTGTGTGATATG
93436925 ATGTGATACT
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
62 1 0.01
63 72 0.95
64 3 0.04
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.34
Consensus pattern (63 bp):
GTGTTGATGCAGAGAATGATTGTGTGTGATATGGTACTTGTGCAAAATAAACTGGAGCTGAAA
Found at i:93438623 original size:7 final size:7
Alignment explanation
Indices: 93438611--93438656 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
93438601 ATTAAAAAAC
93438611 AATTGAG
1 AATTGAG
93438618 AATTGAG
1 AATTGAG
93438625 AATTGAG
1 AATTGAG
** *
93438632 GGTTGAA
1 AATTGAG
93438639 AATTGAG
1 AATTGAG
*
93438646 GATTGAG
1 AATTGAG
93438653 AATT
1 AATT
93438657 TAAGATTGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:93438630 original size:14 final size:14
Alignment explanation
Indices: 93438611--93438666 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
93438601 ATTAAAAAAC
*
93438611 AATTGAGAATTGAG
1 AATTGAGGATTGAG
* *
93438625 AATTGAGGGTTGAA
1 AATTGAGGATTGAG
93438639 AATTGAGGATTGAG
1 AATTGAGGATTGAG
* *
93438653 AATTTAAGATTGAG
1 AATTGAGGATTGAG
93438667 GAATGAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:93438642 original size:21 final size:21
Alignment explanation
Indices: 93438613--93438652 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93438603 TAAAAAACAA
*
93438613 TTGAGAATTGAGAATTGAGGG
1 TTGAAAATTGAGAATTGAGGG
*
93438634 TTGAAAATTGAGGATTGAG
1 TTGAAAATTGAGAATTGAG
93438653 AATTTAAGAT
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:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (21 bp):
TTGAAAATTGAGAATTGAGGG
Found at i:93443496 original size:15 final size:16
Alignment explanation
Indices: 93443476--93443505 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93443466 CTATTTACTT
93443476 TTCCTC-AAACTTTTA
1 TTCCTCAAAACTTTTA
93443491 TTCCTCAAAACTTTT
1 TTCCTCAAAACTTTT
93443506 TATTTTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCCTCAAAACTTTTA
Found at i:93449345 original size:13 final size:13
Alignment explanation
Indices: 93449327--93449358 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
93449317 ATTTTTTATG
93449327 AAAAAAATAATAT
1 AAAAAAATAATAT
93449340 AAAAAAATAATAT
1 AAAAAAATAATAT
93449353 AAAAAA
1 AAAAAA
93449359 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAAAATAATAT
Found at i:93460027 original size:19 final size:18
Alignment explanation
Indices: 93459969--93460037 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 18
93459959 ATTGAGACTG
93459969 ATACTGAATTGAATTATGGA
1 ATACTGAATTGAATT-T-GA
* *
93459989 ATACTGAATATTACTTTGA
1 ATACTGAAT-TGAATTTGA
93460008 ATACTGAATTGAATTGTGA
1 ATACTGAATTGAATT-TGA
93460027 AGTTACTGAAT
1 A--TACTGAAT
93460038 ATTGTTATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.10
19 15 0.37
20 10 0.24
21 12 0.29
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (18 bp):
ATACTGAATTGAATTTGA
Found at i:93460552 original size:45 final size:44
Alignment explanation
Indices: 93460488--93460625 Score: 204
Period size: 45 Copynumber: 3.1 Consensus size: 44
93460478 CTGTTACTGC
*
93460488 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCG-CACTTTGTGTGTCGAATATTGT
* **
93460533 TACTGTTACCGTTATCGATTCGGCACCCTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTC-GCACTTTGTGTGTCGAATATTGT
*
93460578 TACTGTTACCGTTACCGATTCTGCACTTTGTGTGTCGGATATTGT
1 TACTGTTACCGTTACCGATTC-GCACTTTGTGTGTCGAATATTGT
93460623 TAC
1 TAC
93460626 CGTACTGTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 82 0.99
46 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (44 bp):
TACTGTTACCGTTACCGATTCGCACTTTGTGTGTCGAATATTGT
Found at i:93460712 original size:51 final size:53
Alignment explanation
Indices: 93460628--93460738 Score: 138
Period size: 51 Copynumber: 2.1 Consensus size: 53
93460618 ATTGTTACCG
** *
93460628 TACTGTTACTATTTCGGATTTGTTGTGAAGAGGTACT-T-TGTACCTTACTGT
1 TACTGTTACTATTTCGGATTTGTTGCCAAGAGGTACTCTATGTACCGTACTGT
* * *
93460679 TATTGTTACTGTTTCGGATTTGTT-CCAATGAGGTACTCTATGTACCGTATTGT
1 TACTGTTACTATTTCGGATTTGTTGCCAA-GAGGTACTCTATGTACCGTACTGT
93460732 TACTGTT
1 TACTGTT
93460739 CCGGCTTCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 2 0.04
51 30 0.60
52 1 0.02
53 17 0.34
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (53 bp):
TACTGTTACTATTTCGGATTTGTTGCCAAGAGGTACTCTATGTACCGTACTGT
Found at i:93465830 original size:43 final size:43
Alignment explanation
Indices: 93465769--93465923 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
93465759 CCGGCATTAC
* *
93465769 GCCTGCTAGGCATGAAGGCCCGAATACACATCA-CTAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATC-GGCACGAA
*
93465812 GCCTGCTAGGCACAAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
93465855 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
*
93465898 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
93465924 TAATACCAGC
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
43 105 0.99
44 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
Found at i:93465969 original size:38 final size:38
Alignment explanation
Indices: 93465921--93466008 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
93465911 GAAGGCCCAA
* * *
93465921 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
93465959 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
93465997 ATATATTACCAG
1 ATATATTACCAG
93466009 ATTTAACCCG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:93466015 original size:23 final size:23
Alignment explanation
Indices: 93465985--93466031 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
93465975 AAGCCTGCGG
93465985 GATTTAACCCGGATATATTACCA
1 GATTTAACCCGGATATATTACCA
93466008 GATTTAACCCGGATATATTACCA
1 GATTTAACCCGGATATATTACCA
93466031 G
1 G
93466032 CACAAAGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (23 bp):
GATTTAACCCGGATATATTACCA
Found at i:93466019 original size:61 final size:61
Alignment explanation
Indices: 93465947--93466069 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
93465937 AGGCCTGCGG
*
93465947 GATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCA
1 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCA
93466008 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCA
1 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCA
93466069 G
1 G
93466070 CACGAAGCCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (61 bp):
GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCA
Found at i:93466059 original size:38 final size:38
Alignment explanation
Indices: 93466008--93466109 Score: 161
Period size: 38 Copynumber: 2.7 Consensus size: 38
93465998 TATATTACCA
93466008 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGG
1 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGG
* *
93466046 GATTTAACCCGGATATATTACCAGCACGAAGCCTGTGG
1 GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGG
*
93466084 GATTTAACTCGGATATAATT-CCAGCA
1 GATTTAACCCGGATAT-ATTACCAGCA
93466110 TATAGCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 57 0.95
39 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (38 bp):
GATTTAACCCGGATATATTACCAGCACAAAGCCTGCGG
Found at i:93466097 original size:99 final size:99
Alignment explanation
Indices: 93465921--93466100 Score: 315
Period size: 99 Copynumber: 1.8 Consensus size: 99
93465911 GAAGGCCCAA
* *
93465921 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGG
93465986 ATTTAACCCGGATATATTACCAGATTTAACCCGG
66 ATTTAACCCGGATATATTACCAGATTTAACCCGG
* *
93466020 ATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGTGGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGG
*
93466085 ATTTAACTCGGATATA
66 ATTTAACCCGGATATA
93466101 ATTCCAGCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (99 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGG
ATTTAACCCGGATATATTACCAGATTTAACCCGG
Found at i:93478091 original size:14 final size:14
Alignment explanation
Indices: 93478072--93478101 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93478062 TATCTTATAC
93478072 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
93478086 ATATGCGTTAATCT
1 ATATGCGTGAATCT
93478100 AT
1 AT
93478102 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:93480250 original size:17 final size:18
Alignment explanation
Indices: 93480218--93480253 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
93480208 AAAATCATAG
93480218 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
93480237 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
93480254 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:93480255 original size:25 final size:25
Alignment explanation
Indices: 93480227--93480274 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93480217 GCTTTTTCTC
* * *
93480227 CTTTCTTTCTCTTTTTCTTTTCTTT
1 CTTTCCTTCTCTGTTTCATTTCTTT
93480252 CTTTCCTTCTCTGTTTCATTTCT
1 CTTTCCTTCTCTGTTTCATTTCT
93480275 ACTTTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTCCTTCTCTGTTTCATTTCTTT
Found at i:93480273 original size:21 final size:21
Alignment explanation
Indices: 93480227--93480274 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
93480217 GCTTTTTCTC
*
93480227 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
93480248 CTTTCTTTC-C-TTCTCTGTTT
1 CTTTCTTTCTCTTTCTCT-TTT
93480268 CATTTCT
1 C-TTTCT
93480275 ACTTTAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:93480312 original size:25 final size:24
Alignment explanation
Indices: 93480284--93480330 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
93480274 TACTTTAGCT
93480284 TTCTTT-TTCTATTTCTATTTATTTA
1 TTCTTTCTT-TATTTCT-TTTATTTA
*
93480309 TTCTTTCTTTATTTGTTTTATT
1 TTCTTTCTTTATTTCTTTTATT
93480331 ATATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTCTTTCTTTATTTCTTTTATTTA
Found at i:93480348 original size:5 final size:5
Alignment explanation
Indices: 93480340--93480408 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
93480330 TATATATAAT
93480340 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
93480390 ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATAT
93480409 TTATACTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:93482187 original size:39 final size:39
Alignment explanation
Indices: 93482094--93482242 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
93482084 ATTCCACTCC
* * * *
93482094 CCCCATTCTACTTTGTTTTATTATTAATCAAAAAC-ACTT
1 CCCCATACTATTTTGTTTTATTGTTAAT-TAAAACTACTT
* *
93482133 -CCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
93482171 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
*
93482210 CCTCATACTATTTTGTTTTATT-TTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTGTTAATTAAAAC
93482243 CATACTTTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
37 5 0.05
38 38 0.38
39 57 0.57
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (39 bp):
CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
Found at i:93482192 original size:77 final size:77
Alignment explanation
Indices: 93482094--93482242 Score: 221
Period size: 77 Copynumber: 1.9 Consensus size: 77
93482084 ATTCCACTCC
* *
93482094 CCCCATTCTACTTTGTTTTATTATTAATCAAAAAC-ACTTCC-CATGCTATTTTGTTTTATTGTT
1 CCCCATACTACTTTGTTTTATTATTAAT-AAAAACTACTTCCTCATACTATTTTGTTTTATT-TT
93482157 AATTAAAACTATTT
64 AATTAAAACTATTT
* * *
93482171 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACTATTTTGTTTTATTTTAA
1 CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTTCCTCATACTATTTTGTTTTATTTTAA
93482236 TTAAAAC
66 TTAAAAC
93482243 CATACTTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
76 5 0.08
77 42 0.65
78 18 0.28
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (77 bp):
CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTTCCTCATACTATTTTGTTTTATTTTAA
TTAAAACTATTT
Found at i:93486278 original size:20 final size:20
Alignment explanation
Indices: 93486253--93486293 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
93486243 TATATATATT
*
93486253 TGTGATATT-ATTATGAATTA
1 TGTGAT-TTAATTATAAATTA
93486273 TGTGATTTAATTATAAATTA
1 TGTGATTTAATTATAAATTA
93486293 T
1 T
93486294 ATCTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TGTGATTTAATTATAAATTA
Found at i:93492398 original size:26 final size:26
Alignment explanation
Indices: 93492369--93492472 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
93492359 ATTCCCATCT
*
93492369 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93492395 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
93492421 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
93492447 TGGAGCATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93492473 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:93499042 original size:26 final size:26
Alignment explanation
Indices: 93499013--93499116 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
93499003 ATTCCCATCT
*
93499013 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93499039 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
93499065 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93499091 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93499117 ATTTGTACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:93506900 original size:19 final size:19
Alignment explanation
Indices: 93506878--93506917 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
93506868 ATATATTTTG
*
93506878 AAATTATAAAGACATTAAA
1 AAATTATAAAAACATTAAA
*
93506897 AAATTATAAAAATATTAAA
1 AAATTATAAAAACATTAAA
93506916 AA
1 AA
93506918 TCTTCCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATTATAAAAACATTAAA
Found at i:93518737 original size:25 final size:27
Alignment explanation
Indices: 93518700--93518752 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
93518690 TCAAACATGC
93518700 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
93518726 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
93518752 A
1 A
93518753 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:93520277 original size:26 final size:26
Alignment explanation
Indices: 93520241--93520348 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
93520231 TGAAATTCTC
* *
93520241 ATCATCGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93520267 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
** *
93520293 ATCATTCAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93520319 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93520345 ATCA
1 ATCA
93520349 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93525766 original size:25 final size:27
Alignment explanation
Indices: 93525729--93525781 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
93525719 TCAAACATAC
93525729 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
93525755 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
93525781 A
1 A
93525782 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:93527308 original size:26 final size:26
Alignment explanation
Indices: 93527256--93527358 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
93527246 ATTCCCATCT
93527256 TGGAACATTTACCTAA-CCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93527281 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
93527307 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93527333 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
93527359 ATTTGTACAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 16 0.22
26 57 0.78
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:93552902 original size:25 final size:26
Alignment explanation
Indices: 93552852--93552902 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
93552842 GAAAGGGAAA
*
93552852 AAAAAACAGAAACAAATATGGTTTTT
1 AAAAAACAGAAACAAATATGGATTTT
*
93552878 AAAAAA-A-AAACAACATATTGATTTT
1 AAAAAACAGAAACAA-ATATGGATTTT
93552903 GAATTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 10 0.45
26 6 0.27
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (26 bp):
AAAAAACAGAAACAAATATGGATTTT
Found at i:93555032 original size:21 final size:21
Alignment explanation
Indices: 93554982--93555032 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
93554972 ATTTAAGAGA
93554982 TATTA-TTTGAATAATTATATC
1 TATTACTTT-AATAATTATATC
* *
93555003 TCTTACTTTAATAGTTATATC
1 TATTACTTTAATAATTATATC
*
93555024 TATTTCTTT
1 TATTACTTT
93555033 TTAAAATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (21 bp):
TATTACTTTAATAATTATATC
Found at i:93564658 original size:12 final size:12
Alignment explanation
Indices: 93564636--93564664 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93564626 TTATTTAACT
93564636 TTTAA-ATTTAA
1 TTTAATATTTAA
93564647 TTTAATATTTAA
1 TTTAATATTTAA
93564659 TTTAAT
1 TTTAAT
93564665 GCTACATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAATATTTAA
Found at i:93567725 original size:26 final size:26
Alignment explanation
Indices: 93567683--93567735 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
93567673 CAAGCTTCAC
*
93567683 CTCTCTGTCTTTGTCTCTCTTTATCA
1 CTCTCTGTCTTTATCTCTCTTTATCA
* *
93567709 CTCTCTGT-TCTTATCTCTGTTTCTCA
1 CTCTCTGTCT-TTATCTCTCTTTATCA
93567735 C
1 C
93567736 CTTGAGAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.08, C:0.32, G:0.08, T:0.53
Consensus pattern (26 bp):
CTCTCTGTCTTTATCTCTCTTTATCA
Found at i:93575485 original size:43 final size:42
Alignment explanation
Indices: 93575424--93575532 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
93575414 AATGCCAACT
93575424 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCT-ACTG
1 TCCCAGACAG-GGTCTTACATGTAATCAAATA-CGATGCTGA-TG
*
93575467 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCTGATG
1 TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
* *
93575509 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACAGGGTCTTACATGTAA
93575533 ATCATCAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
42 30 0.50
43 29 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
Found at i:93575535 original size:43 final size:41
Alignment explanation
Indices: 93575424--93575597 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 41
93575414 AATGCCAACT
* * *
93575424 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCTACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCTA-TG
* *
93575467 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCTGATG
1 TCCCAGACATGGTCTTACACGAAATCAAATACGATGCT-ATG
* * *
93575509 TCCCAGACATGGTCTTACACGTAAATCATCAGT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCA--AATACGATG-CTATG
* * *
93575553 TTCCAGACATGGTCTTACACGAAAACAAATATCGAATCCTATG
1 TCCCAGACATGGTCTTACACGAAATCAAATA-CG-ATGCTATG
93575596 TC
1 TC
93575598 ATGACATATG
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.26
43 46 0.43
44 29 0.27
45 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAAATCAAATACGATGCTATG
Found at i:93583479 original size:30 final size:30
Alignment explanation
Indices: 93583444--93583500 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
93583434 TGGGCAGGCC
93583444 GTGTGTCTCACACGGCCACTAGACATGTCT
1 GTGTGTCTCACACGGCCACTAGACATGTCT
* * *
93583474 GTGTGTCTTACATGGCCATTAGACATG
1 GTGTGTCTCACACGGCCACTAGACATG
93583501 CCCGTCTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (30 bp):
GTGTGTCTCACACGGCCACTAGACATGTCT
Found at i:93587734 original size:28 final size:28
Alignment explanation
Indices: 93587650--93587735 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
93587640 GAACATGCTA
* * *
93587650 GAAAATGAAAGCCTTTGTGGTAATTTAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
* **
93587678 AAAAATGGAAGCCTTTGTCACAATATAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
* *
93587706 GAAAATGGAAGCCTTTGTGGCGATCTAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
93587734 GA
1 GA
93587736 TGTAACACCC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (28 bp):
GAAAATGGAAGCCTTTGTGGCAATATAT
Found at i:93589075 original size:2 final size:2
Alignment explanation
Indices: 93589068--93589128 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
93589058 ACAAGTAAAC
* * *
93589068 AT AT AT AT AT AA AT AT AT AT AA AT AT AT AT AT AA 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
*
93589110 AT TT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
93589129 CAAACCTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:93589384 original size:43 final size:42
Alignment explanation
Indices: 93589335--93589480 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 42
93589325 TATCCGAGAT
* * * *
93589335 ATGGTCTTACATGTTATTACATATGGATGCCATTGTCCCAGAC
1 ATGGTCTTACACGTAATTA-ATATCGATGCCAATGTCCCAGAC
* *
93589378 ATGGTCTTACACATAATTAATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATTAA-TATCGATGCCAATGTCCCAGAC
* * *
93589421 ATCGTCTTACACGTAATCTTAATA-CAATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAA--TTAATATCGATGCCAATGTCCCAGAC
*
93589464 ATGGTCTTACATGTAAT
1 ATGGTCTTACACGTAAT
93589481 CACATATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 80 0.91
44 2 0.02
45 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACACGTAATTAATATCGATGCCAATGTCCCAGAC
Found at i:93589481 original size:43 final size:45
Alignment explanation
Indices: 93589361--93589481 Score: 160
Period size: 43 Copynumber: 2.8 Consensus size: 45
93589351 TTACATATGG
* * *
93589361 ATGCCATTGTCCCAGACATGGTCTTACACATAA--TTAATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATTAACA
*
93589404 ATGCCAATGTCCCAGACATCGTCTTACACGTAATCTTAA-T-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATTAACA
* *
93589447 ATGCTAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC
93589482 ACATATCAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 64 0.93
44 1 0.01
45 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATTAACA
Found at i:93590006 original size:29 final size:28
Alignment explanation
Indices: 93589965--93590030 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
93589955 CTTTCATTTA
*
93589965 TTTCACAAATTAACCCCTTAATTT-ACATT
1 TTTCTCAAATTAA-CCCTT-ATTTAACATT
* *
93589994 TTTCTCAATTTAATCCTTATTTAACATT
1 TTTCTCAAATTAACCCTTATTTAACATT
*
93590022 TTTGTCAAA
1 TTTCTCAAA
93590031 AATCACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 16 0.52
29 11 0.35
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.47
Consensus pattern (28 bp):
TTTCTCAAATTAACCCTTATTTAACATT
Found at i:93590150 original size:20 final size:21
Alignment explanation
Indices: 93590107--93590151 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
93590097 AATCTCAAGC
93590107 ATTCATCAATGAAAAATCACAA
1 ATTCATCAA-GAAAAATCACAA
* *
93590129 ATTCATCAA-AAAATTCAGAA
1 ATTCATCAAGAAAAATCACAA
93590149 ATT
1 ATT
93590152 AGGGTACGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
ATTCATCAAGAAAAATCACAA
Found at i:93596952 original size:43 final size:43
Alignment explanation
Indices: 93596774--93596952 Score: 122
Period size: 43 Copynumber: 4.2 Consensus size: 43
93596764 ACTCAGAAAT
* * *
93596774 CACGTAAGCTC-ATACAATGCC-ATATCCCAGATATGGTCTTA
1 CACGTAATCTCAATACAATGCCAATGTCCCAGACATGGTCTTA
* * * * * *
93596815 CATGTTAT-T-ACATATCGATGCCACTGTTCTAGACA-GAGTCTTA
1 CACGTAATCTCA-ATA-CAATGCCAATGTCCCAGACATG-GTCTTA
* * *
93596858 CACATAA--TCAATTAACGATGCCATTGTCCC-GAACATGGTCTTA
1 CACGTAATCTCAA-T-ACAATGCCAATGTCCCAG-ACATGGTCTTA
*
93596901 CACATAATCTCAATACAATGCCAATGTCCCAGACATGGTCTTA
1 CACGTAATCTCAATACAATGCCAATGTCCCAGACATGGTCTTA
*
93596944 CATGTAATC
1 CACGTAATC
93596953 ACATATCAAT
Statistics
Matches: 106, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
40 1 0.01
41 8 0.08
42 10 0.09
43 79 0.75
44 4 0.04
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
CACGTAATCTCAATACAATGCCAATGTCCCAGACATGGTCTTA
Found at i:93600057 original size:22 final size:22
Alignment explanation
Indices: 93600026--93600080 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
93600016 GCCTTATGAA
93600026 TCTC-TTCCAAGGCTTTGAGTT
1 TCTCTTTCCAAGGCTTTGAGTT
93600047 TCTCTTTCCAAGGCTTTGAGTT
1 TCTCTTTCCAAGGCTTTGAGTT
*
93600069 TCTCTTCCCAAG
1 TCTCTTTCCAAG
93600081 CAAGTTTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (22 bp):
TCTCTTTCCAAGGCTTTGAGTT
Found at i:93603186 original size:51 final size:49
Alignment explanation
Indices: 93602969--93603458 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 49
93602959 GAAATGATAG
93602969 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
93603018 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
93603065 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
93603112 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAGATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--ATGTGA
93603163 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
93603212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
93603263 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
93603314 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
93603361 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
93603408 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
93603455 TAAG
1 TAAG
93603459 TCCCGAAGGG
Statistics
Matches: 418, Mismatches: 13, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
46 5 0.01
47 178 0.43
48 3 0.01
49 85 0.20
51 147 0.35
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:93603633 original size:37 final size:37
Alignment explanation
Indices: 93603577--93603655 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
93603567 CCGAGCTCTA
* * *
93603577 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
93603614 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
93603651 AAGAC
1 AAGAC
93603656 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:93611851 original size:28 final size:29
Alignment explanation
Indices: 93611795--93611874 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 29
93611785 GAACACGATA
93611795 GAAAATGGAAG-TGTTTGTGGCAATATAT
1 GAAAATGGAAGCTGTTTGTGGCAATATAT
* *
93611823 GAAAATGGAAGCT-TTCT-TGGTAATCTAT
1 GAAAATGGAAGCTGTT-TGTGGCAATATAT
* *
93611851 GAAAATAGAAGC-CTTTGTGGCAAT
1 GAAAATGGAAGCTGTTTGTGGCAAT
93611875 CTAAGGAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 1 0.02
28 41 0.93
29 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (29 bp):
GAAAATGGAAGCTGTTTGTGGCAATATAT
Found at i:93612060 original size:27 final size:27
Alignment explanation
Indices: 93612012--93612075 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
93612002 CATCTCCAAT
* **
93612012 GAACTCTAAACGGATAGCATGTATGGC
1 GAACTCTGAACGGATAAAATGTATGGC
* *
93612039 GAACTCTGAAGGGATAAAATGTGTGGC
1 GAACTCTGAACGGATAAAATGTATGGC
* *
93612066 AAACTTTGAA
1 GAACTCTGAA
93612076 ATAATGGTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (27 bp):
GAACTCTGAACGGATAAAATGTATGGC
Found at i:93614069 original size:26 final size:25
Alignment explanation
Indices: 93614033--93614088 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
93614023 ATTACATGTT
93614033 AGTTATTTAAATACATGATATCATCC
1 AGTTATTTAAATACATGAT-TCATCC
93614059 AGTTATTTAAATACATGATTCATCC
1 AGTTATTTAAATACATGATTCATCC
93614084 A-TTAT
1 AGTTAT
93614089 CTCAATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 4 0.13
25 7 0.23
26 19 0.63
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (25 bp):
AGTTATTTAAATACATGATTCATCC
Found at i:93614422 original size:45 final size:47
Alignment explanation
Indices: 93614358--93614473 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 47
93614348 TAGCTGATAG
*
93614358 ATAGTAAGCTC-TATTGAGCTGA-AAC-GATAAGCTCTAACGAGGTGA-
1 ATAGTAAGCTCATA-CGAGCTGAGAACAG-TAAGCTCTAACGAGGTGAT
* * *
93614403 ATAGTAAGCTCATACGAGCTAAGAACAGTAAGCTCTTACGAGTTGAT
1 ATAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTAACGAGGTGAT
93614450 ATATCGGTAAGCTCATACGAGCTG
1 ATA---GTAAGCTCATACGAGCTG
93614474 CGGTGAGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
45 17 0.29
46 21 0.36
47 4 0.07
50 17 0.29
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (47 bp):
ATAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTAACGAGGTGAT
Found at i:93614435 original size:24 final size:26
Alignment explanation
Indices: 93614405--93614473 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
93614395 CGAGGTGAAT
93614405 AGTAAGCTCATACGAGCT-A-AGAAC
1 AGTAAGCTCATACGAGCTGATAGAAC
* * * *
93614429 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCATACGAGCTGATAGAAC
*
93614455 GGTAAGCTCATACGAGCTG
1 AGTAAGCTCATACGAGCTG
93614474 CGGTGAGTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 16 0.44
25 1 0.03
26 19 0.53
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (26 bp):
AGTAAGCTCATACGAGCTGATAGAAC
Found at i:93621007 original size:18 final size:18
Alignment explanation
Indices: 93620984--93621019 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93620974 TTCCTGGGTG
93620984 ATAGTCGATTATCAACTC
1 ATAGTCGATTATCAACTC
**
93621002 ATAGTCTTTTATCAACTC
1 ATAGTCGATTATCAACTC
93621020 TAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAGTCGATTATCAACTC
Found at i:93640438 original size:13 final size:13
Alignment explanation
Indices: 93640420--93640445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93640410 TCGACAAGGA
93640420 CACGCCCGTGTGC
1 CACGCCCGTGTGC
93640433 CACGCCCGTGTGC
1 CACGCCCGTGTGC
93640446 GATTGCTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:93647864 original size:23 final size:23
Alignment explanation
Indices: 93647782--93647868 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
93647772 CCTGATCAGT
*
93647782 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
93647804 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
93647824 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
93647847 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
93647869 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:93648265 original size:15 final size:15
Alignment explanation
Indices: 93648245--93648296 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
93648235 ATATTATATG
93648245 ATTCAATCAATATAA
1 ATTCAATCAATATAA
*
93648260 ATTCAATCAAAATAA
1 ATTCAATCAATATAA
*
93648275 TTTCAATCAATATAA
1 ATTCAATCAATATAA
93648290 ATTCAAT
1 ATTCAAT
93648297 AAATTCATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTCAATCAATATAA
Found at i:93654222 original size:23 final size:22
Alignment explanation
Indices: 93654161--93654222 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
93654151 CCTGATCAAT
*
93654161 ATACGGCACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
** *
93654183 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
93654205 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
93654223 TTGATCGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 13 0.42
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:93654622 original size:15 final size:15
Alignment explanation
Indices: 93654597--93654654 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
93654587 TCATATATAT
93654597 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
93654613 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
93654628 AATAATTTCAATCAA
1 TATAAATTCAATCAA
93654643 TATAAATTCAAT
1 TATAAATTCAAT
93654655 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:93656963 original size:12 final size:12
Alignment explanation
Indices: 93656946--93656987 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
93656936 GTTTAAAAAC
*
93656946 TTTTATTTATTA
1 TTTTATTTTTTA
93656958 TTTTATGTTTTTA
1 TTTTAT-TTTTTA
93656971 TTTT-TTTTTCTA
1 TTTTATTTTT-TA
93656983 TTTTA
1 TTTTA
93656988 AGACTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.15
12 13 0.50
13 9 0.35
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:93659869 original size:138 final size:138
Alignment explanation
Indices: 93659627--93659896 Score: 531
Period size: 138 Copynumber: 2.0 Consensus size: 138
93659617 ATGTATTATG
93659627 ATATATATATGTGTGTGTGTGAACGATAATTGAGGATTTTAACCGGGCTAAGACCCGCAGGCCTT
1 ATATATATATGTGTGTGTGTGAACGATAATTGAGGATTTTAACCGGGCTAAGACCCGCAGGCCTT
93659692 GTGTGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGT
66 GTGTGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGT
93659757 CCTATGAT
131 CCTATGAT
93659765 ATATATATATGTGTGTGTGTGAACGATAATTGAGGATTTTAACCGGGCTAAGACCCGCAGGCCTT
1 ATATATATATGTGTGTGTGTGAACGATAATTGAGGATTTTAACCGGGCTAAGACCCGCAGGCCTT
*
93659830 GTGTGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGT
66 GTGTGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGT
93659895 CC
131 CC
93659897 CGAAGGCATT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (138 bp):
ATATATATATGTGTGTGTGTGAACGATAATTGAGGATTTTAACCGGGCTAAGACCCGCAGGCCTT
GTGTGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGT
CCTATGAT
Found at i:93659887 original size:39 final size:39
Alignment explanation
Indices: 93659807--93659978 Score: 233
Period size: 39 Copynumber: 4.4 Consensus size: 39
93659797 AGGATTTTAA
* * *
93659807 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAG-ATATATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTG-GTAT-TATAT
* *
93659845 CCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
93659884 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
*
93659923 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
93659962 CCGGGCTTAAAGTCCCG
1 CCGGGC-T-AAGTCCCG
93659979 CATGCTTTGT
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 19 0.16
39 90 0.74
40 4 0.03
41 8 0.07
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
Found at i:93670146 original size:13 final size:13
Alignment explanation
Indices: 93670128--93670155 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93670118 TTCAAAAACT
93670128 TGTGAAGTTTGAA
1 TGTGAAGTTTGAA
93670141 TGTGAAGTTTGAA
1 TGTGAAGTTTGAA
93670154 TG
1 TG
93670156 GTCTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (13 bp):
TGTGAAGTTTGAA
Found at i:93673422 original size:44 final size:44
Alignment explanation
Indices: 93673352--93673436 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
93673342 ATTTCCGATA
* **
93673352 TCTGTTTTGCGTGTAAGACCACGTCTTCGATGTTGGCATCGACT
1 TCTGTTTTGCATGTAAGACCACGTCTTCGACATTGGCATCGACT
* * *
93673396 TCTGTTTTGCATGTAAGACTATGTCTTGGACATTGGCATCG
1 TCTGTTTTGCATGTAAGACCACGTCTTCGACATTGGCATCG
93673437 TATCTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (44 bp):
TCTGTTTTGCATGTAAGACCACGTCTTCGACATTGGCATCGACT
Found at i:93683518 original size:61 final size:61
Alignment explanation
Indices: 93683448--93683570 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
93683438 TTGGTAAGTT
*
93683448 TAGTTTCTATTATATGAACTTACTAAGCATGTAATGCTTACTCCGCTTTACTTTTTTCCTA
1 TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTACTTTTTTCCTA
* *
93683509 TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGTTTTATTTTTTTCCTA
1 TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTACTTTTTTCCTA
93683570 T
1 T
93683571 TTTATAGTGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (61 bp):
TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTACTTTTTTCCTA
Found at i:93693697 original size:18 final size:18
Alignment explanation
Indices: 93693663--93693958 Score: 191
Period size: 18 Copynumber: 16.1 Consensus size: 18
93693653 TCATTAACAA
* *
93693663 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
93693680 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
93693698 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
93693716 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
* *
93693734 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
93693758 ATCTAGTAACACTCAATTAT
1 -TC-AGTAACAATCAATTAT
* *
93693778 TTAGTAA-AATCAAATAT
1 TCAGTAACAATCAATTAT
* *
93693795 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
93693814 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
* * *
93693832 TTAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
93693850 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
93693868 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
93693886 TCAGTAACAGTCCATTAT
1 TCAGTAACAATCAATTAT
* *
93693904 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
93693922 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
93693940 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
93693958 T
1 T
93693959 TTATACCTTT
Statistics
Matches: 213, Mismatches: 55, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
17 17 0.08
18 165 0.77
19 15 0.07
20 1 0.00
24 1 0.00
25 3 0.01
26 11 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:93693891 original size:72 final size:71
Alignment explanation
Indices: 93693756--93693958 Score: 221
Period size: 72 Copynumber: 2.8 Consensus size: 71
93693746 AATTGATCGG
* * * * * *
93693756 TTATCTAGTAACACTCAATTATTTAGTAAAATCAAATATTCAGTAGCA-ATTAAGTTATTCAGTA
1 TTATCCAGTAACAATCAATTATTCAGTAACATCAATTATTCAGTA--ATATTCAGTTATTCAGTA
93693820 ACAGT-CA
64 ACAGTCCA
** * * *
93693827 TTTATTTAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 -TTATCCAGTAACAATCAATTATTCAGTAA-CATCAATTATTCAGTAATATTCAGTTATTCAGTA
93693892 ACAGTCCA
64 ACAGTCCA
* * *
93693900 TTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACA-TCAATTATTCAGTAATATTCAGTTATT
93693959 TTATACCTTT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.02
72 93 0.84
73 16 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (71 bp):
TTATCCAGTAACAATCAATTATTCAGTAACATCAATTATTCAGTAATATTCAGTTATTCAGTAAC
AGTCCA
Found at i:93694226 original size:45 final size:44
Alignment explanation
Indices: 93694121--93694236 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 44
93694111 AACAAATCTG
*
93694121 GAATAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCT
1 GAATAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT
* * *
93694165 GAATTGATAACGGTAACAGTAACAGTATTCGACACACAAAGTG-T
1 GAATAG-TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT
*
93694209 CGAATCAGTAACAGTAACAGAAACAGTA
1 -GAAT-AGTAACAGTAACAGTAACAGTA
93694237 ACAGTAGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 6 0.10
45 55 0.89
46 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (44 bp):
GAATAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT
Found at i:93695166 original size:8 final size:7
Alignment explanation
Indices: 93695137--93695265 Score: 159
Period size: 7 Copynumber: 17.4 Consensus size: 7
93695127 ATTAATTATT
93695137 GGTTTAG
1 GGTTTAG
93695144 GGTTTAG
1 GGTTTAG
93695151 GGTTTAG
1 GGTTTAG
93695158 GGTTTTAG
1 GG-TTTAG
93695166 GGTTTTAG
1 GG-TTTAG
*
93695174 GGTTTAT
1 GGTTTAG
93695181 GGTTTAAG
1 GGTTT-AG
93695189 GGTTTAG
1 GGTTTAG
93695196 GGTTTAAG
1 GGTTT-AG
93695204 GGTTTAAG
1 GGTTT-AG
93695212 GGTTTAG
1 GGTTTAG
93695219 GGTTTTAG
1 GG-TTTAG
93695227 GGTTTAG
1 GGTTTAG
* *
93695234 TGCTTATG
1 GGTTTA-G
*
93695242 GTTTTAG
1 GGTTTAG
93695249 GGTTTAG
1 GGTTTAG
93695256 GGTTTAG
1 GGTTTAG
93695263 GGT
1 GGT
93695266 CATTGATTTA
Statistics
Matches: 109, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
7 62 0.57
8 47 0.43
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:93695166 original size:15 final size:14
Alignment explanation
Indices: 93695137--93695265 Score: 159
Period size: 15 Copynumber: 8.7 Consensus size: 14
93695127 ATTAATTATT
93695137 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
93695151 GGTTTAGGGTTTTAG
1 GGTTTAGGG-TTTAG
*
93695166 GGTTTTAGGGTTTAT
1 GG-TTTAGGGTTTAG
93695181 GGTTTAAGGGTTTAG
1 GGTTT-AGGGTTTAG
93695196 GGTTTAAGGGTTTAAG
1 GGTTT-AGGGTTT-AG
93695212 GGTTTAGGGTTTTAG
1 GGTTTAGGG-TTTAG
* *
93695227 GGTTTAGTGCTTATG
1 GGTTTAGGGTTTA-G
*
93695242 GTTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
93695256 GGTTTAGGGT
1 GGTTTAGGGT
93695266 CATTGATTTA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
14 25 0.25
15 59 0.58
16 17 0.17
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:93696092 original size:5 final size:5
Alignment explanation
Indices: 93696082--93696139 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
93696072 TTACTTATTT
93696082 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
93696132 ATATA ATA
1 ATATA ATA
93696140 ACAATTTCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:93696271 original size:21 final size:22
Alignment explanation
Indices: 93696232--93696284 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
93696222 CATACAATTG
*
93696232 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
93696254 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
93696274 ATAAAATAATA
1 TTAAAATAATA
93696285 AATAATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:93702534 original size:27 final size:25
Alignment explanation
Indices: 93702478--93702554 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
93702468 TCTCTAGCGC
93702478 GCTCTCTATTTTCTAGCATGCTTGT
1 GCTCTCTATTTTCTAGCATGCTTGT
*
93702503 GCTCTCTATTTTCTAGCATGTTTGT
1 GCTCTCTATTTTCTAGCATGCTTGT
93702528 GCTCTCTA--TT-TAGCATGCTTGT
1 GCTCTCTATTTTCTAGCATGCTTGT
93702550 GCTCT
1 GCTCT
93702555 TTGTATAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
22 16 0.32
23 2 0.04
25 32 0.64
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (25 bp):
GCTCTCTATTTTCTAGCATGCTTGT
Found at i:93702563 original size:22 final size:22
Alignment explanation
Indices: 93702491--93702564 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
93702481 CTCTATTTTC
* *
93702491 TAGCATGCTTGTGCTCTCTATTTTC
1 TAGCATGCTTGTG--CTCT-TTATA
* * *
93702516 TAGCATGTTTGTGCTCTCTATT
1 TAGCATGCTTGTGCTCTTTATA
*
93702538 TAGCATGCTTGTGCTCTTTGTA
1 TAGCATGCTTGTGCTCTTTATA
93702560 TAGCA
1 TAGCA
93702565 CATCGGTGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 25 0.61
23 4 0.10
25 12 0.29
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (22 bp):
TAGCATGCTTGTGCTCTTTATA
Found at i:93714477 original size:16 final size:16
Alignment explanation
Indices: 93714441--93714495 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
93714431 GTTTGGTTCA
* *
93714441 CTGTAATGGAATAGGG
1 CTGTAATAGAATAGAG
* *
93714457 TTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
*
93714473 CTGTAATAGAACAGAG
1 CTGTAATAGAATAGAG
93714489 CTGTAAT
1 CTGTAAT
93714496 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:93714822 original size:21 final size:21
Alignment explanation
Indices: 93714791--93714832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93714781 ATGAATTAAA
93714791 AAAACATAATATATAATACTAT
1 AAAACATAATATATAAT-CTAT
93714813 AAAA-ATAATATATAATCTAT
1 AAAACATAATATATAATCTAT
93714833 TTTATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAACATAATATATAATCTAT
Found at i:93717287 original size:5 final size:5
Alignment explanation
Indices: 93717266--93717312 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
93717256 AATTATAAAG
*
93717266 TATAT TATTAT TTTAT TATAT TA-AT TATAT TATA- T-TAT TATAT TATA
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
93717313 AATAAACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 24 0.67
6 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:93717306 original size:8 final size:8
Alignment explanation
Indices: 93717266--93717311 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
93717256 AATTATAAAG
93717266 TATATTAT
1 TATATTAT
*
93717274 TATTTTAT
1 TATATTAT
*
93717282 TATATTAA
1 TATATTAT
93717290 T-TA-TAT
1 TATATTAT
93717296 TATATTAT
1 TATATTAT
93717304 TATATTAT
1 TATATTAT
93717312 AAATAAACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 3 0.09
7 4 0.12
8 25 0.78
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATTAT
Found at i:93725871 original size:15 final size:15
Alignment explanation
Indices: 93725851--93725881 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93725841 GTCATGTAAG
93725851 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
93725866 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
93725881 T
1 T
93725882 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:93726071 original size:17 final size:17
Alignment explanation
Indices: 93726038--93726076 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
93726028 TAAGCTTTTG
93726038 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
93726055 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
93726072 ATTTT
1 ATTTT
93726077 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:93726842 original size:15 final size:15
Alignment explanation
Indices: 93726818--93726847 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93726808 TGGAGATCGA
*
93726818 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
93726833 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
93726848 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:93730206 original size:15 final size:15
Alignment explanation
Indices: 93730186--93730216 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93730176 GTCATGTAAG
93730186 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
93730201 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
93730216 T
1 T
93730217 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:93730406 original size:17 final size:17
Alignment explanation
Indices: 93730373--93730411 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
93730363 TAAGCTTTTG
93730373 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
93730390 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
93730407 ATTTT
1 ATTTT
93730412 CCACAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:93737036 original size:63 final size:62
Alignment explanation
Indices: 93736969--93737098 Score: 138
Period size: 62 Copynumber: 2.1 Consensus size: 62
93736959 AAGGTGGTAC
* *
93736969 AAAAAATATAC-CTGCAGAAGGTGTTGATGCAGGGCACAATGGTTCATAGTGTGGTGCTTGTGT
1 AAAAAATA-ACACTACAGAAGGTGTTGATGCA-GGCACAATGGTGCATAGTGTGGTGCTTGTGT
* * * *** *
93737032 -AAAAATAACAGGTACAGAATGTGTTGATGCAGGTATGGTGGTGCATAGTGTGGTGTTTGTGT
1 AAAAAATAACA-CTACAGAAGGTGTTGATGCAGGCACAATGGTGCATAGTGTGGTGCTTGTGT
93737094 AAAAA
1 AAAAA
93737099 TAATGAAGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
61 2 0.04
62 32 0.58
63 21 0.38
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (62 bp):
AAAAAATAACACTACAGAAGGTGTTGATGCAGGCACAATGGTGCATAGTGTGGTGCTTGTGT
Found at i:93740226 original size:27 final size:27
Alignment explanation
Indices: 93740191--93740303 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
93740181 AGCATGGCTG
* *
93740191 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
93740217 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
93740245 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
93740272 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
93740299 CCAGA
1 CCAGA
93740304 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 4 0.05
27 57 0.74
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:93740250 original size:54 final size:54
Alignment explanation
Indices: 93740191--93740305 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
93740181 AGCATGGCTG
*
93740191 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * * *
93740245 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
93740299 CCAGAAC
1 CCAGAAC
93740306 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:93741959 original size:26 final size:26
Alignment explanation
Indices: 93741923--93742161 Score: 399
Period size: 26 Copynumber: 9.2 Consensus size: 26
93741913 CATGAAATTC
* *
93741923 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
93741949 TTATCATGAAACATTTACCTAACC-C
1 TTATCATGGAACATTTACCTAACCTA
93741974 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
93742000 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
93742026 TTATCATGGAACATTTACCTGACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
93742052 TTATCATGAAACATTTACCCAACCTA
1 TTATCATGGAACATTTACCTAACCTA
93742078 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
93742104 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
93742130 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
93742156 TTATCA
1 TTATCA
93742162 ATTTGTACCA
Statistics
Matches: 202, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
25 23 0.11
26 179 0.89
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:93747587 original size:40 final size:41
Alignment explanation
Indices: 93747528--93747733 Score: 269
Period size: 40 Copynumber: 5.1 Consensus size: 41
93747518 CATTTGAATG
*
93747528 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
93747568 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
93747608 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
93747648 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * * * *
93747688 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
93747728 ATATCC
1 ATATCC
93747734 TGCTAAATTC
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
39 2 0.01
40 145 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Done.