Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006435.1 Hibiscus syriacus cultivar Beakdansim tig00015541_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: 203184
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4493 original size:3 final size:3
Alignment explanation
Indices: 4485--4514 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4475 ATTAAAATTT
4485 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4515 GGCTTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8070 original size:20 final size:22
Alignment explanation
Indices: 8047--8090 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
8037 AGGGTTGGGG
8047 TTTAGAATTTAGG-TTTA-AGA
1 TTTAGAATTTAGGATTTAGAGA
**
8067 TTTAGGGTTTAGGATTTAGAGA
1 TTTAGAATTTAGGATTTAGAGA
8089 TT
1 TT
8091 AAAATTCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (22 bp):
TTTAGAATTTAGGATTTAGAGA
Found at i:8077 original size:14 final size:14
Alignment explanation
Indices: 8044--8085 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8034 TTTAGGGTTG
8044 GGGTTT-AGAATTTA
1 GGGTTTAAG-ATTTA
8058 -GGTTTAAGATTTA
1 GGGTTTAAGATTTA
*
8071 GGGTTTAGGATTTA
1 GGGTTTAAGATTTA
8085 G
1 G
8086 AGATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (14 bp):
GGGTTTAAGATTTA
Found at i:8101 original size:27 final size:27
Alignment explanation
Indices: 8044--8103 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
8034 TTTAGGGTTG
* *
8044 GGGTTTAGAATTTAGGTTTAAGATTTA
1 GGGTTTAGAATTTAGGATTAAGAATTA
* *
8071 GGGTTTAGGATTTAGAGATTAA-AATTC
1 GGGTTTAGAATTTAG-GATTAAGAATTA
8098 GGGTTT
1 GGGTTT
8104 GATATAGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (27 bp):
GGGTTTAGAATTTAGGATTAAGAATTA
Found at i:8254 original size:31 final size:31
Alignment explanation
Indices: 8219--8279 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
8209 AAACTAAACT
*
8219 CGATTTGAAAATTCACAACTATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
8250 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
8280 TAAGCTCGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:8860 original size:25 final size:25
Alignment explanation
Indices: 8838--8885 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
8828 AAAATTTATA
*
8838 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
8863 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
8886 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:8948 original size:26 final size:26
Alignment explanation
Indices: 8896--8949 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8886 GGGTTGGGGT
*
8896 TTAGAATTTAGATTTAAGATTTAGGG
1 TTAGAATTTAGATTTAAGAATTAGGG
* *
8922 TTAGGATTTAGAGTTTAA-AATTCGGG
1 TTAGAATTTAGA-TTTAAGAATTAGGG
8948 TT
1 TT
8950 TGATATAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (26 bp):
TTAGAATTTAGATTTAAGAATTAGGG
Found at i:9093 original size:15 final size:15
Alignment explanation
Indices: 9073--9124 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
9063 ACTCGATTTG
9073 AAAATTCACAAATAT
1 AAAATTCACAAATAT
** ** *
9088 AAAATTGGCCGATTT
1 AAAATTCACAAATAT
9103 GAAAATTCACAAATAT
1 -AAAATTCACAAATAT
9119 AAAATT
1 AAAATT
9125 GGTACGCTCG
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAATTCACAAATAT
Found at i:9101 original size:31 final size:31
Alignment explanation
Indices: 9066--9126 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
9056 AAACTAAACT
9066 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
9097 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
9127 TACGCTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:9703 original size:25 final size:25
Alignment explanation
Indices: 9681--9728 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
9671 AAAATTTATA
*
9681 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
9706 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
9729 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:9937 original size:15 final size:15
Alignment explanation
Indices: 9917--9968 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
9907 ACTCGATTTG
9917 AAAATTCACAAATAT
1 AAAATTCACAAATAT
** ** *
9932 AAAATTGGCCGATTT
1 AAAATTCACAAATAT
9947 GAAAATTCACAAATAT
1 -AAAATTCACAAATAT
9963 AAAATT
1 AAAATT
9969 GGTAAGCTCG
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAATTCACAAATAT
Found at i:9945 original size:31 final size:31
Alignment explanation
Indices: 9910--9970 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
9900 AAACTAAACT
9910 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
9941 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
9971 TAAGCTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:10046 original size:844 final size:847
Alignment explanation
Indices: 7407--12084 Score: 7900
Period size: 844 Copynumber: 5.6 Consensus size: 847
7397 AAACTAAACT
7407 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
* * *
7472 GCTCGACTCGACTAAAAAACTTACAAGCTTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
*
7537 AGCTCGACTTGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTT
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATC----TTTTT
*
7602 TTTAAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTT-AAAAATCTAAAATTTC
192 TTTAAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTC
7666 AATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGAC
257 AATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGAC
7731 TTGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGC-TGTCTGAG
322 TTGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGT-CTTGTCTGAG
*
7795 CTTTGACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGA
386 CTTTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGA
*
7860 TGTTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTGATGA-T
451 TGTTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATT
7924 -T-A-ATATATATATATATATTAATCATCAGATTTAAAT-AA-AAATGACTTGGATTTAATTAAA
516 ATAACATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAA
7984 ATTTATAACACATAAATAGATA-TTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGT
581 ATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGT
* *
8048 TTAGAATTTAGGTTTAAGATTTAGGGTTTAGGATTTAGAGATTAAAATTCGGGTTTGATATAGAG
646 TTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAG
*
8113 GTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGATTCGAGTTCGTGTA
711 GTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTA
* *
8178 TTATTGAGTTTGACTCGACTCAAGTATTTTAAAACTAAACTCGATTTGAAAATTCACAACTATAA
776 TTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAA
8243 AATTGGC
841 AATTGGC
*
8250 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGGCTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
8315 AGCTCGACTCGACTCAAAAGATTACAAGATT-AAATTTTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
8379 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
* *
8444 AAAAAAATAGCATATAAATGTCAATATTATTACTAATTTAATTTTAAAAAATCTGAAATTTCAAT
195 AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
8509 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
260 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
8574 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
325 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* *
8639 GACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATATT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
8704 GATTTAGGATCAATGAATAAGTATATAATCCAAGTC----ATTTATTTAAATCTAATGATTATAA
455 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
*
8765 CATATATATATATATATATATATTATCATCATATTTAAATAAATAAATGACTTGGATTTAATTAA
520 C--ATATATATATATATAT-TA--ATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAA
8830 AATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGG
580 AATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGG
*
8895 TTTAGAATTTAGATTTAAGATTTA-GGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGA
645 TTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGA
8959 GGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGT
710 GGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGT
9024 ATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATA
775 ATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATA
9089 AAATTGGC
840 AAATTGGC
*
9097 CGATTTGAAAATTCACAAATATAAAATTGGTACGCTCGACTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
9162 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATATTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
*
9227 AAGCTCGACTCGAATAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATC-TTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
*
9291 -AAAAAA-AGCATATAAATGTTAATATTATGAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
195 AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
9354 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
260 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
9419 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
325 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* *
9484 GACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATATT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
9549 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTT-TTTAAATCTAATGATTATAA
455 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
*
9613 CATATATATATATATATTAATCATCATATTTAAATAAATAAATGACTTGGATTTAATTAAAATTT
520 CATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAAATTT
9678 ATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTTAG
585 ATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTTAG
*
9743 AATTTAGATTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGTTT
650 AATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGTTT
9808 TAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATTAT
715 TAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATTAT
9873 TGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAATT
780 TGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAATT
9938 GGC
845 GGC
9941 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
10006 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATATTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
*
10071 AAGCTCGACTCGAATAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATC-TTTTTTT
*
10136 TAAAAAAAATAGCATATAAATGTTAATATTATGAATAATTTAATTTTAAAAAATCTGAAATTTCA
194 T-AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCA
*
10201 ATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTTCGAATCGAGTATCAAGTAGCTCGCTTCGACT
258 ATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACT
* *
10266 TGTTAAGAATTCGAGTTGAATTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGTTGTCTGAGCT
323 TGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCT
10331 TTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGT-TCAATTACAATCCTAATTAGGATG
388 TTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATG
10395 TTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTAT
453 TTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTAT
*
10460 AAC--------ATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGTTTTAATTAAAAT
518 AACATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAAAT
10517 TTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTT
583 TTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTT
*
10582 AGAATTTAGGTTTAAAATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGT
648 AGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGT
10647 TTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATT
713 TTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATT
10712 ATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAA
778 ATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAA
10777 TTGGC
843 TTGGC
10782 CGATTTGAAAA-TCAC-AA-ATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
10844 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
*
10909 AGCTCGAATCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTA--TTTTTTTT-
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
10971 --AAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
196 AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
11034 TATTGTTTTTTCAAGTAGCTCGAGAGTTTT-CGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
261 TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
*
11098 TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGTTGTCTGAGCTTTG
326 TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTTG
* * *
11163 ACCGAGTCAATCTCAAGTAACTCACGATATGTTTCGTCTCAATTATAATCCTAATTAGGATGTTG
391 ACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTTG
11228 ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
456 ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
* *
11293 ATATATATATATATATATATATATATATATATAATCATCAGATTTAAATAAATAAATGAGTTGTA
521 --------------ATATATATATATATAT-TAATCATCAGATTTAAATAAATAAATGACTTGGA
*
11358 -TTAATTAAAATTTATAACACATAAATAGATAATTCTTTAACTCACAATAAATAAATATTTTTTA
571 TTTAATTAAAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTA
* *
11422 GGGTTGGGGTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGTTTTAGAGTTTAAAATTTGAGGT
636 GGGTTGGGGTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCG-GGT
* *
11487 TTGAGATAGAGGTTTTAGATTTGTCTTTTTTTTTTCAAATTAGTTAGGGTTATGTCCGTAAACGA
700 TTGATATAGAGGTTTTAGATTTGTC---TTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGA
11552 GTCGAGTTCGTGTATTATTGAGTTTGACTCGACTCAAATATTTT---A--AAA--C----T---A
762 GTCGAGTTCGTGTATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAA
11603 A---AC-----------T---
827 ATTCACAAATATAAAATTGGC
*
11607 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTTGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
* *
11672 GCTCGACTCGACTCAAAAGCTTACAAGCTTAAAATTTTTAAACTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
* *
11737 AGCTCGACTTGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTAT-TTGTTTTTA
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
*
11801 AAAATA-AG-ATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
196 AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
* * * * *
11864 TATTATTTTTTCAACTAGCTCGAGAGTTTTCCAAATCGAGTATCAAGTAGCTCGCTTCGGCTCGT
261 TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
* * * * *
11929 TAAGAACTCGAGTTAAGTTTGAGCTCGA-TTCAAGTCCATTTGATTCGAGTGTTATCTGAGCTTT
326 TAAGAATTCGAGTTGAGTTTGAGCTCGACTT-AAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* ** * * *
11993 GACCGAGTCAATCTCAAGTAACTCATAATCTGTCTCGTATCAATTACAATCCTAATTAGGACGTT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
12058 GATTTAGGATCAATGAATAAGTATATA
455 GATTTAGGATCAATGAATAAGTATATA
12085 TATATATTAT
Statistics
Matches: 3695, Mismatches: 76, Indels: 140
0.94 0.02 0.04
Matches are distributed among these distances:
825 11 0.00
826 4 0.00
827 2 0.00
828 160 0.04
829 140 0.04
830 268 0.07
831 175 0.05
832 3 0.00
834 8 0.00
836 18 0.00
837 129 0.03
838 34 0.01
839 57 0.02
840 250 0.07
841 326 0.09
842 18 0.00
843 273 0.07
844 402 0.11
845 303 0.08
846 31 0.01
847 317 0.09
848 248 0.07
849 247 0.07
851 3 0.00
852 129 0.03
853 59 0.02
856 80 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (847 bp):
CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTTG
ACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTTG
ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
ATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAAATTTA
TAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTTAGA
ATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGTTTT
AGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATTATT
GAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAATTG
GC
Found at i:10544 original size:25 final size:25
Alignment explanation
Indices: 10522--10569 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
10512 AAAATTTATA
*
10522 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
10547 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
10570 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:10593 original size:13 final size:13
Alignment explanation
Indices: 10577--10628 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
10567 TTAGGGTTGG
*
10577 GGTTTAGAATTTA
1 GGTTTAAAATTTA
10590 GGTTTAAAATTTA
1 GGTTTAAAATTTA
* **
10603 GGGGTTAGGATTTA
1 -GGTTTAAAATTTA
10617 GAGTTTAAAATT
1 G-GTTTAAAATT
10629 CGGGTTTGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (13 bp):
GGTTTAAAATTTA
Found at i:10607 original size:28 final size:28
Alignment explanation
Indices: 10575--10628 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
10565 TTTTAGGGTT
10575 GGGGTTTAGAATTTAG-GTTTAAAATTTA
1 GGGG-TTAGAATTTAGAGTTTAAAATTTA
*
10603 GGGGTTAGGATTTAGAGTTTAAAATT
1 GGGGTTAGAATTTAGAGTTTAAAATT
10629 CGGGTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (28 bp):
GGGGTTAGAATTTAGAGTTTAAAATTTA
Found at i:10799 original size:30 final size:29
Alignment explanation
Indices: 10751--10808 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
10741 AAACTAAACT
10751 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCAC-AA-ATAAAATTGGC
10782 CGATTTGAAAA-TCACAAATAAAATTGG
1 CGATTTGAAAATTCACAAATAAAATTGG
10809 TAAGCTCGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.37
29 2 0.07
30 4 0.15
31 11 0.41
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (29 bp):
CGATTTGAAAATTCACAAATAAAATTGGC
Found at i:11300 original size:2 final size:2
Alignment explanation
Indices: 11293--11325 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11283 TGATTATAAC
11293 AT AT AT 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 AT AT AT A
11326 ATCATCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11454 original size:20 final size:20
Alignment explanation
Indices: 11431--11493 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
11421 AGGGTTGGGG
11431 TTTAGAATTTAGGTTTAAGA
1 TTTAGAATTTAGGTTTAAGA
*** *
11451 TTTAGGGGTTAGGTTTTAGA
1 TTTAGAATTTAGGTTTAAGA
* *
11471 GTTTAAAATTTGAGGTTTGAGA
1 -TTTAGAATTT-AGGTTTAAGA
11493 T
1 T
11494 AGAGGTTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.50
21 7 0.22
22 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (20 bp):
TTTAGAATTTAGGTTTAAGA
Found at i:12914 original size:21 final size:23
Alignment explanation
Indices: 12890--12932 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
12880 ATTTAATATT
12890 AAATTATA-AAA-ATTTGAATGA
1 AAATTATATAAATATTTGAATGA
*
12911 AAATTATATAAATATTTTAATG
1 AAATTATATAAATATTTGAATG
12933 TTACACTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATTATATAAATATTTGAATGA
Found at i:14067 original size:19 final size:20
Alignment explanation
Indices: 14035--14073 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
14025 CAAAAAAACA
* *
14035 TTACCCAAAGTATT-ATTTT
1 TTACCAAAAATATTAATTTT
14054 TTACCAAAAATATTAATTTT
1 TTACCAAAAATATTAATTTT
14074 ACTAACTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (20 bp):
TTACCAAAAATATTAATTTT
Found at i:14188 original size:25 final size:25
Alignment explanation
Indices: 14149--14218 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
14139 TTTTACCGAA
14149 AATATTAAACATTTTAGGTAGAGTCC
1 AATATT-AACATTTTAGGTAGAGTCC
14175 AATATTAACATTTTAGGTAGAGTCC
1 AATATTAACATTTTAGGTAGAGTCC
* *
14200 AATATTAATATTTTCGGTA
1 AATATTAACATTTTAGGTA
14219 AAAAAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 36 0.86
26 6 0.14
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (25 bp):
AATATTAACATTTTAGGTAGAGTCC
Found at i:14756 original size:21 final size:22
Alignment explanation
Indices: 14722--14767 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
14712 ATAATTTTGA
*
14722 AAAAAGTGAAAGTTTAGGTACT
1 AAAAAGTGAAAGTTTAGATACT
*
14744 AAAAA-TGATAGTTTAGATACT
1 AAAAAGTGAAAGTTTAGATACT
14765 AAA
1 AAA
14768 CGCGTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.28
Consensus pattern (22 bp):
AAAAAGTGAAAGTTTAGATACT
Found at i:14790 original size:3 final size:3
Alignment explanation
Indices: 14782--14808 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14772 TAATTTACTC
14782 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
14809 CTACTAGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15585 original size:16 final size:17
Alignment explanation
Indices: 15561--15600 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
15551 TAGATATTAA
15561 TTTATATTAATTAAAAT
1 TTTATATTAATTAAAAT
*
15578 TTTA-ATTAATTAAAGT
1 TTTATATTAATTAAAAT
15594 TTT-TATT
1 TTTATATT
15601 TGAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATTAATTAAAAT
Found at i:24565 original size:16 final size:16
Alignment explanation
Indices: 24547--24576 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24537 CTAAAATAAA
24547 AAAATAT-TAAATTAT
1 AAAATATATAAATTAT
24562 AAAATATATAAATTA
1 AAAATATATAAATTA
24577 ATAGCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATATAAATTAT
Found at i:25557 original size:20 final size:20
Alignment explanation
Indices: 25532--25576 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
25522 TAAGGGTGGT
25532 GAATCCTAGGGTTTCTGTTA
1 GAATCCTAGGGTTTCTGTTA
25552 GAATCCTAGGGTTTCTGTTA
1 GAATCCTAGGGTTTCTGTTA
25572 GAATC
1 GAATC
25577 ATTATGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (20 bp):
GAATCCTAGGGTTTCTGTTA
Found at i:25842 original size:3 final size:3
Alignment explanation
Indices: 25836--25870 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
25826 AATTATTATT
*
25836 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25871 GGGGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:25858 original size:17 final size:17
Alignment explanation
Indices: 25838--25870 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25828 TTATTATTTA
25838 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
*
25855 ATAATAATATTAATAA
1 ATAATAATAATAATAA
25871 GGGGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:30144 original size:20 final size:20
Alignment explanation
Indices: 30068--30152 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
30058 AGCAGAACCC
*
30068 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGAATCGATT-CCCT
** * *
30089 GTGGGGGGAATTGGTTCCCCTT
1 CAGGGGGGAATCGATT-CCC-T
* *
30111 CAAAGGGGGAATCGGTTCCCT
1 C-AGGGGGGAATCGATTCCCT
*
30132 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
30152 C
1 C
30153 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
20 17 0.34
21 17 0.34
22 4 0.08
23 12 0.24
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.24
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:33984 original size:21 final size:21
Alignment explanation
Indices: 33960--33999 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33950 GTTTGTTTTC
*
33960 ATTTTTCA-ATTTTGAAACATT
1 ATTTTT-ATATTTTAAAACATT
33981 ATTTTTATATTTTAAAACA
1 ATTTTTATATTTTAAAACA
34000 ATTTCTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTTATATTTTAAAACATT
Found at i:36480 original size:7 final size:7
Alignment explanation
Indices: 36470--36550 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
36460 ACTCTAAATT
36470 CTAAACC
1 CTAAACC
36477 CTAAACC
1 CTAAACC
*
36484 ATAAACC
1 CTAAACC
*
36491 AT-AACC
1 CTAAACC
36497 CTAAACC
1 CTAAACC
*
36504 TCTAAACTA
1 -CTAAAC-C
*
36513 C-AAAAC
1 CTAAACC
*
36519 TTAAACC
1 CTAAACC
36526 CT-AACC
1 CTAAACC
*
36532 CTTAA-C
1 CTAAACC
*
36538 TTAAACC
1 CTAAACC
36545 CTAAAC
1 CTAAAC
36551 AATAGTAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
6 15 0.26
7 35 0.61
8 7 0.12
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:36508 original size:35 final size:34
Alignment explanation
Indices: 36463--36550 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 34
36453 ACTTAAAACT
*
36463 CTAAATTCTAAACCCTAAACCATAAACCATAACC
1 CTAAACTCTAAACCCTAAACCATAAACCATAACC
* * * *
36497 CTAAACCTCTAAACTAC-AAAACTTAAACCCTAACC
1 CTAAA-CTCTAAAC-CCTAAACCATAAACCATAACC
*
36532 CTTAACT-TAAACCCTAAAC
1 CTAAACTCTAAACCCTAAAC
36551 AATAGTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
32 1 0.02
33 8 0.19
34 7 0.16
35 26 0.60
36 1 0.02
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (34 bp):
CTAAACTCTAAACCCTAAACCATAAACCATAACC
Found at i:39364 original size:95 final size:95
Alignment explanation
Indices: 38980--39474 Score: 476
Period size: 95 Copynumber: 5.1 Consensus size: 95
38970 GCATTTCCCC
* *
38980 CCCTAAAATTAAATGTT--GGGGG-CAAAATGCTGAAAGAAAAAAAAAGAATAAG-GATCAAAAT
1 CCCTAAAATGAAACGTTGGGGGGGCCAAAATGCTG-AAGAAAAAAAAAGAATAAGAG-TCAAAAT
* ***
39041 GGCTATTCTGTCAAATGTTAGGGGCATTTCCCC
64 GACTATTCTGTCAAATGTTAGGGGCATTT-TTG
* * * *
39074 CCCTAAAATTAAACGTTGGGGGAGGGGCAAAATGCTAAATAGAAAAAAAAAAGAATAAGGGTCAA
1 CCCTAAAATGAAACGTT-GGGG-GGGCCAAAATGCT-GA-AG-AAAAAAAAAGAATAAGAGTCAA
* * * *
39139 AATGACTATTCTGTCGAATGTTAGAGACATTTTTTC
61 AATGACTATTCTGTCAAATGTTAGGGGCA-TTTTTG
* * * * *
39175 CCCTAAAATGAAACGTTGGGGAGGGGCAAAATGCTAAATAGAAAAAAAGAATAAGGGTCAAAATG
1 CCCTAAAATGAAACGTTGGGG-GGGCCAAAATGCTGAAGAAAAAAAAAGAATAAGAGTCAAAATG
* * ** *
39240 ACTATTCTGTCGAATGTTAGAGATATTTTTT
65 ACTATTCTGTCAAATGTTAGGGGCATTTTTG
* *
39271 CCCTAAAATGAAACGTTGGGGGGGCCAAAATGCTGAAGAAGAAAAAAGAATAAGAGTCAAATTGA
1 CCCTAAAATGAAACGTTGGGGGGGCCAAAATGCTGAAGAAAAAAAAAGAATAAGAGTCAAAATGA
* ** *
39336 CTATTCAGTCAAACATTAGGGGCCTTTTTG
66 CTATTCTGTCAAATGTTAGGGGCATTTTTG
* * * * * * * *
39366 CCTTAAAATGGAACATTAGGGGAGCCAAAATGCTGAATAATAAAAAAGAATAAGAGTCAAAGTGA
1 CCCTAAAATGAAACGTTGGGGGGGCCAAAATGCTGAAGAAAAAAAAAGAATAAGAGTCAAAATGA
* * * * *
39431 CTATTCAGTCAGACGTGAGGGGCCTTTTTG
66 CTATTCTGTCAAATGTTAGGGGCATTTTTG
*
39461 CCCTAAAATAAAAC
1 CCCTAAAATGAAAC
39475 ATCGGAGGCC
Statistics
Matches: 348, Mismatches: 43, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
94 16 0.05
95 153 0.44
96 26 0.07
97 51 0.15
98 4 0.01
99 12 0.03
100 20 0.06
101 62 0.18
102 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (95 bp):
CCCTAAAATGAAACGTTGGGGGGGCCAAAATGCTGAAGAAAAAAAAAGAATAAGAGTCAAAATGA
CTATTCTGTCAAATGTTAGGGGCATTTTTG
Found at i:39476 original size:95 final size:93
Alignment explanation
Indices: 39118--39521 Score: 375
Period size: 95 Copynumber: 4.3 Consensus size: 93
39108 CTAAATAGAA
* * * * *
39118 AAAAAAAAGAATAAGGGTCAAAATGACTATTCTGTCGAATGTTAGAGACATTTTTTCCCCTAAAA
1 AAAAAAAAGAATAAGAGTCAAAATGACTATTCAGTCGAACGTTAGAGAC-CTTTTTGCCCTAAAA
* * *
39183 TGAAACGTTGGGGAGGGGCAAAATGCTAAAT
65 TGAAACATTGGGGA--GCCAAAATGCTGAAT
* * * ** *
39214 AGAAAAAAAGAATAAGGGTCAAAATGACTATTCTGTCGAATGTTAGAGATATTTTTTCCCTAAAA
1 A-AAAAAAAGAATAAGAGTCAAAATGACTATTCAGTCGAACGTTAGAGACCTTTTTGCCCTAAAA
* * *
39279 TGAAACGTTGGGGGGGCCAAAATGCTGAAG
65 TGAAACATT-GGGGAGCCAAAATGCTGAAT
* * * * * *
39309 AAGAAAAAAGAATAAGAGTCAAATTGACTATTCAGTCAAACATTAGGGGCCTTTTTGCCTTAAAA
1 AA-AAAAAAGAATAAGAGTCAAAATGACTATTCAGTCGAACGTTAGAGACCTTTTTGCCCTAAAA
*
39374 TGGAACATTAGGGGAGCCAAAATGCTGAAT
65 TGAAACATT-GGGGAGCCAAAATGCTGAAT
* * * *
39404 AATAAAAAAGAATAAGAGTCAAAGTGACTATTCAGTC-AGACGTGAGGGGCCTTTTTGCCCTAAA
1 AA-AAAAAAGAATAAGAGTCAAAATGACTATTCAGTCGA-ACGTTAGAGACCTTTTTGCCCTAAA
* * * * **
39468 ATAAAACATCGGAG-GCCGAAATGCTTCA-
64 ATGAAACATTGGGGAGCCAAAATGCTGAAT
*
39496 AAAAAAAGGAATAAG-GATCAAAATGA
1 AAAAAAAAGAATAAGAG-TCAAAATGA
39522 TAATTCTGAT
Statistics
Matches: 265, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
90 1 0.00
91 20 0.08
92 2 0.01
93 11 0.04
94 5 0.02
95 152 0.57
96 23 0.09
97 51 0.19
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (93 bp):
AAAAAAAAGAATAAGAGTCAAAATGACTATTCAGTCGAACGTTAGAGACCTTTTTGCCCTAAAAT
GAAACATTGGGGAGCCAAAATGCTGAAT
Found at i:42099 original size:35 final size:35
Alignment explanation
Indices: 42055--42128 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
42045 AGATTTACCT
42055 AAAGAAAAAATCTATCTAAAGATGTAGGGGACAGAG
1 AAAGAAAAAATCTATCTAAAGATGTA-GGGACAGAG
* *
42091 AAAG-AAAAATCTATCTCAAGATGTAGGGACAGAT
1 AAAGAAAAAATCTATCTAAAGATGTAGGGACAGAG
42125 AAAG
1 AAAG
42129 GAAAGCTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 12 0.33
35 20 0.56
36 4 0.11
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (35 bp):
AAAGAAAAAATCTATCTAAAGATGTAGGGACAGAG
Found at i:49970 original size:28 final size:28
Alignment explanation
Indices: 49916--49970 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
49906 GTCATGTTAG
* * *
49916 CATAAAAATAATTAAAATACAATATCAA
1 CATAAAAACAATAAAAATACAACATCAA
49944 CATAAAAACAATAAAAATATC-ACATCA
1 CATAAAAACAATAAAAATA-CAACATCA
49971 GTTGATCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.22
Consensus pattern (28 bp):
CATAAAAACAATAAAAATACAACATCAA
Found at i:51561 original size:14 final size:14
Alignment explanation
Indices: 51544--51573 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51534 AAGAACACAC
51544 AAAAAAGAAGAAAA
1 AAAAAAGAAGAAAA
*
51558 AAAAAAGTAGAAAA
1 AAAAAAGAAGAAAA
51572 AA
1 AA
51574 GAATCTTTTG
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:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAGAAAA
Found at i:74388 original size:5 final size:5
Alignment explanation
Indices: 74378--74407 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
74368 TTGTAAAGGG
74378 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
74408 ATTGGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTCTT
Found at i:82954 original size:23 final size:23
Alignment explanation
Indices: 82928--82972 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
82918 CACCACAGCT
*
82928 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
82951 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
82973 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:84327 original size:19 final size:17
Alignment explanation
Indices: 84295--84329 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
84285 ACGTTTGGAG
84295 AAGGAAGAGAAGAAGAT
1 AAGGAAGAGAAGAAGAT
84312 AAGGAAGAAGGAAGAAGA
1 AAGGAAG-A-GAAGAAGA
84330 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
AAGGAAGAGAAGAAGAT
Found at i:90083 original size:150 final size:149
Alignment explanation
Indices: 89891--90187 Score: 522
Period size: 150 Copynumber: 2.0 Consensus size: 149
89881 CGAAGTCCGT
* *
89891 GTAGAATTGCACCGTAGTGCCATATAATGATGTCTATAAGGACCACATATAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
* * *
89956 ATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTTCCACAGAATATA
66 ATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGTTCCAAAGAATATA
*
90021 TATATATCCCGAAGGACCGC
130 CATATATCCCGAAGGACCGC
90041 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
90106 ATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
66 ATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
*
90171 ATATGTCCCGAAGGACC
131 ATATATCCCGAAGGACC
90188 ACGCAGACCC
Statistics
Matches: 140, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
149 45 0.32
150 95 0.68
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
GTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
ATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
ATATATCCCGAAGGACCGC
Found at i:91270 original size:19 final size:17
Alignment explanation
Indices: 91238--91272 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
91228 ACGTTTGGAG
91238 AAGGAAGAGAAGAAGAT
1 AAGGAAGAGAAGAAGAT
91255 AAGGAAGAAGGAAGAAGA
1 AAGGAAG-A-GAAGAAGA
91273 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
AAGGAAGAGAAGAAGAT
Found at i:92244 original size:17 final size:17
Alignment explanation
Indices: 92222--92260 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
92212 TAATTTACAC
*
92222 TCAAATAAATTGATGTT
1 TCAAATAAATTAATGTT
92239 TCAAAT-AATTAATGTT
1 TCAAATAAATTAATGTT
92255 T-AAATA
1 TCAAATA
92261 TTGGGTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (17 bp):
TCAAATAAATTAATGTT
Found at i:93497 original size:31 final size:31
Alignment explanation
Indices: 93462--93538 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
93452 GTCACTCTTC
* *
93462 AGTGACCATATCTTAATTAAAATGAAACGA-A
1 AGTGACCAAATCTTAATTAAAACGAAAC-ACA
*
93493 AGTGACTAAATCTTAATTAAAACGAAACACA
1 AGTGACCAAATCTTAATTAAAACGAAACACA
93524 AGTGACCAAATCTTA
1 AGTGACCAAATCTTA
93539 TGTTTTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.25
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACGAAACACA
Found at i:94046 original size:7 final size:7
Alignment explanation
Indices: 94034--94101 Score: 136
Period size: 7 Copynumber: 9.7 Consensus size: 7
94024 TATCGACGTG
94034 CATGCAA
1 CATGCAA
94041 CATGCAA
1 CATGCAA
94048 CATGCAA
1 CATGCAA
94055 CATGCAA
1 CATGCAA
94062 CATGCAA
1 CATGCAA
94069 CATGCAA
1 CATGCAA
94076 CATGCAA
1 CATGCAA
94083 CATGCAA
1 CATGCAA
94090 CATGCAA
1 CATGCAA
94097 CATGC
1 CATGC
94102 GTTGGGTTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.15
Consensus pattern (7 bp):
CATGCAA
Found at i:94379 original size:21 final size:21
Alignment explanation
Indices: 94353--94433 Score: 153
Period size: 21 Copynumber: 3.9 Consensus size: 21
94343 ATGCACATGG
94353 TCGGATAAAAACCGATCCGGA
1 TCGGATAAAAACCGATCCGGA
94374 TCGGATAAAAACCGATCCGGA
1 TCGGATAAAAACCGATCCGGA
94395 TCGGATAAAAACCGATCCGGA
1 TCGGATAAAAACCGATCCGGA
*
94416 TCGGATAAAATCCGATCC
1 TCGGATAAAAACCGATCC
94434 AATTTTTTCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
TCGGATAAAAACCGATCCGGA
Found at i:94616 original size:20 final size:20
Alignment explanation
Indices: 94591--94635 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
94581 GTCGTCCAAT
*
94591 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
*
94611 TTTTTAAACCCCAGATCGGA
1 TTTTTAAACCCCAGACCGGA
94631 TTTTT
1 TTTTT
94636 TTCGGATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:95459 original size:12 final size:12
Alignment explanation
Indices: 95442--95466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95432 ATAAATAATT
95442 ATAAGAAAATAA
1 ATAAGAAAATAA
95454 ATAAGAAAATAA
1 ATAAGAAAATAA
95466 A
1 A
95467 ATCATCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAAGAAAATAA
Found at i:97690 original size:18 final size:19
Alignment explanation
Indices: 97663--97698 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
97653 GGCTCTAGGT
97663 TTTTTAGTTTC-AATGAGA
1 TTTTTAGTTTCGAATGAGA
*
97681 TTTTTGGTTTCGAATGAG
1 TTTTTAGTTTCGAATGAG
97699 CAGATTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (19 bp):
TTTTTAGTTTCGAATGAGA
Found at i:100749 original size:14 final size:14
Alignment explanation
Indices: 100730--100757 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100720 TTGATTAACC
100730 ATTAATAAATTATA
1 ATTAATAAATTATA
100744 ATTAATAAATTATA
1 ATTAATAAATTATA
100758 TTATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAATAAATTATA
Found at i:111247 original size:23 final size:23
Alignment explanation
Indices: 111221--111265 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
111211 CACCACAGCT
*
111221 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
111244 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
111266 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:111432 original size:150 final size:149
Alignment explanation
Indices: 111233--111548 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
111223 TATAATTGCA
*
111233 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
111297 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGT
* *
111362 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
111383 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
111448 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
*
111513 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
111532 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
111549 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 53 0.33
150 106 0.67
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:112623 original size:19 final size:17
Alignment explanation
Indices: 112591--112625 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
112581 ACGTTTGGAG
112591 AAGGAAGAGAAGAAGAT
1 AAGGAAGAGAAGAAGAT
112608 AAGGAAGAAGGAAGAAGA
1 AAGGAAG-A-GAAGAAGA
112626 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
AAGGAAGAGAAGAAGAT
Found at i:119567 original size:19 final size:17
Alignment explanation
Indices: 119535--119569 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
119525 ACGTTTGGAG
119535 AAGGAAGAGAAGAAGAT
1 AAGGAAGAGAAGAAGAT
119552 AAGGAAGAAGGAAGAAGA
1 AAGGAAG-A-GAAGAAGA
119570 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (17 bp):
AAGGAAGAGAAGAAGAT
Found at i:120538 original size:17 final size:17
Alignment explanation
Indices: 120516--120554 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
120506 TAATTTACAC
*
120516 TCAAATAAATTGATGTT
1 TCAAATAAATTAATGTT
120533 TCAAAT-AATTAATGTT
1 TCAAATAAATTAATGTT
120549 T-AAATA
1 TCAAATA
120555 TTGGGTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (17 bp):
TCAAATAAATTAATGTT
Found at i:121805 original size:31 final size:31
Alignment explanation
Indices: 121761--121837 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
121751 GTCACTCTTC
* *
121761 AGTGACCACATCTTAATTAAAATGAAACGA-A
1 AGTGACCAAATCTTAATTAAAACGAAAC-ACA
*
121792 AGTGACTAAATCTTAATTAAAACGAAACACA
1 AGTGACCAAATCTTAATTAAAACGAAACACA
121823 AGTGACCAAATCTTA
1 AGTGACCAAATCTTA
121838 TGTTTTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACGAAACACA
Found at i:122345 original size:7 final size:7
Alignment explanation
Indices: 122333--122386 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
122323 TATCGACGTG
122333 CATGCAA
1 CATGCAA
122340 CATGCAA
1 CATGCAA
122347 CATGCAA
1 CATGCAA
122354 CATGCAA
1 CATGCAA
122361 CATGCAA
1 CATGCAA
122368 CATGCAA
1 CATGCAA
122375 CATGCAA
1 CATGCAA
122382 CATGC
1 CATGC
122387 GTTGGGTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (7 bp):
CATGCAA
Found at i:122664 original size:21 final size:21
Alignment explanation
Indices: 122638--122697 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
122628 ATGCACATGG
122638 TCGGATAAAAACCGATCCGGA
1 TCGGATAAAAACCGATCCGGA
122659 TCGGATAAAAACCGATCCGGA
1 TCGGATAAAAACCGATCCGGA
*
122680 TCGGATAAAATCCGATCC
1 TCGGATAAAAACCGATCC
122698 AATTTTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TCGGATAAAAACCGATCCGGA
Found at i:122880 original size:20 final size:20
Alignment explanation
Indices: 122855--122899 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
122845 GTCGTCCAAT
*
122855 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
*
122875 TTTTTAAACCCCAGATCGGA
1 TTTTTAAACCCCAGACCGGA
122895 TTTTT
1 TTTTT
122900 TTCGGATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:123721 original size:12 final size:12
Alignment explanation
Indices: 123704--123728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123694 ATAAATAATT
123704 ATAAGAAAATAA
1 ATAAGAAAATAA
123716 ATAAGAAAATAA
1 ATAAGAAAATAA
123728 A
1 A
123729 ATCATCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAAGAAAATAA
Found at i:125960 original size:18 final size:19
Alignment explanation
Indices: 125933--125968 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
125923 GGCTCTAGGT
125933 TTTTTAGTTTC-AATGAGA
1 TTTTTAGTTTCGAATGAGA
*
125951 TTTTTGGTTTCGAATGAG
1 TTTTTAGTTTCGAATGAG
125969 CAGATTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (19 bp):
TTTTTAGTTTCGAATGAGA
Found at i:128997 original size:30 final size:29
Alignment explanation
Indices: 128950--129018 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
128940 TTAAATTCAT
* *
128950 AATATTTTATATATATTAACTTAATTTATTA
1 AATATTTT-TATATATTAAATTAATTT-TAA
128981 AATATATTTTAT-TATTAAATTAATTTTAA
1 AATAT-TTTTATATATTAAATTAATTTTAA
129010 AATATTTTT
1 AATATTTTT
129019 TTTTAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 4 0.11
29 7 0.20
30 13 0.37
31 8 0.23
32 3 0.09
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
AATATTTTTATATATTAAATTAATTTTAA
Found at i:129001 original size:26 final size:24
Alignment explanation
Indices: 128972--129037 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 24
128962 ATATTAACTT
128972 AATTTATTAAATATATTTTATTATTA
1 AATTTATTAAA-ATATTTT-TTATTA
* *
128998 AATTAATTTTAAAATATTTTTTTTTA
1 AATT--TATTAAAATATTTTTTATTA
*
129024 ATTTTATTTAAAAT
1 AATTTA-TTAAAAT
129038 TATATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 7 0.21
26 12 0.36
27 7 0.21
28 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATTTATTAAAATATTTTTTATTA
Found at i:129033 original size:25 final size:25
Alignment explanation
Indices: 128970--129037 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 25
128960 ATATATTAAC
128970 TTAATTTA-TTAAATATATTTTATTA
1 TTAATTTATTTAAA-ATATTTTATTA
* *
128995 TTAAATTAATTTTAAAATATTTT-TTT
1 TT-AATTTA-TTTAAAATATTTTATTA
129021 TTAATTTTATTTAAAAT
1 TTAA-TTTATTTAAAAT
129038 TATATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 12 0.33
26 12 0.33
27 7 0.19
28 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAATTTATTTAAAATATTTTATTA
Found at i:129216 original size:31 final size:31
Alignment explanation
Indices: 129181--129247 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
129171 TGATGAACAC
129181 ATCTTAATTAAATAAAAACGAAAGTGATCAT
1 ATCTTAATTAAATAAAAACGAAAGTGATCAT
* *
129212 ATCTTAATTAAATAAAAATGAGAGTGATCAT
1 ATCTTAATTAAATAAAAACGAAAGTGATCAT
129243 ATCTT
1 ATCTT
129248 TTTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGTGATCAT
Found at i:129759 original size:16 final size:17
Alignment explanation
Indices: 129709--129760 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
129699 AAAAAAATTA
129709 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
129726 GA-TT-AAA-TTATGAGT
1 AATTTGAAAGTTA-GAGT
129741 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
129757 AATT
1 AATT
129761 GAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:135808 original size:15 final size:16
Alignment explanation
Indices: 135781--135810 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
135771 TGATTTTAAT
135781 TTTTTTAAGAAATATA
1 TTTTTTAAGAAATATA
135797 TTTTTTAA-AAATAT
1 TTTTTTAAGAAATAT
135811 TTTCATATAT
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:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTTAAGAAATATA
Found at i:137471 original size:29 final size:29
Alignment explanation
Indices: 137439--137524 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
137429 ATCATAAATA
137439 TTTTAAAAATTATAAAATAATCATTAAAC
1 TTTTAAAAATTATAAAATAATCATTAAAC
* *
137468 TTTTAAGAATTATAAAACAATCATTAAAC
1 TTTTAAAAATTATAAAATAATCATTAAAC
* *
137497 TTTCAAAAATTATAAAATAATCGTTAAA
1 TTTTAAAAATTATAAAATAATCATTAAA
137525 TATTTTGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTTAAAAATTATAAAATAATCATTAAAC
Found at i:138396 original size:3 final size:3
Alignment explanation
Indices: 138388--138413 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
138378 CCTTGATTGC
138388 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
138414 ATCATCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:138418 original size:3 final size:3
Alignment explanation
Indices: 138412--138440 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
138402 TTCTTCTTCT
138412 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
138441 GATCTGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:148624 original size:21 final size:21
Alignment explanation
Indices: 148573--148625 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
148563 AATAGGACTA
148573 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
148594 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
148615 TCGCAATGCGA
1 TCGCAATGCGA
148626 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:148640 original size:20 final size:21
Alignment explanation
Indices: 148615--148666 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
148605 TTTTCCCAAT
*
148615 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
**
148635 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGAATAAGAAAAA
148656 TCGCAATGCGA
1 TCGCAATGCGA
148667 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:148701 original size:41 final size:41
Alignment explanation
Indices: 148612--148748 Score: 111
Period size: 41 Copynumber: 3.3 Consensus size: 41
148602 CGATTTTCCC
* * * * *
148612 AATTCGCAATGCGAAT-AAGTAAATCGCAATGCGAA-TTTGAA
1 AATTCGCAATGCGATTGACGT-ATTCGCAATGC-AATTTTCAT
* *
148653 AAATCGCAATGCGATACTGAC-TA-TCGCAATGCAATTTTCCT
1 AATTCGCAATGCGAT--TGACGTATTCGCAATGCAATTTTCAT
* * **
148694 AATTCGCATTGCGATTTACGTATTCGCGTTGCAATTTTCAT
1 AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
148735 AATTCGCAATGCGA
1 AATTCGCAATGCGA
148749 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 66 0.86
42 1 0.01
43 2 0.03
44 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (41 bp):
AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
Found at i:148710 original size:21 final size:21
Alignment explanation
Indices: 148676--148751 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
148666 ATACTGACTA
*
148676 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCAATTTTCATAAT
* * * *
148697 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCAATTTTCATAAT
**
148717 TCGCGTTGCAATTTTCATAAT
1 TCGCAATGCAATTTTCATAAT
148738 TCGCAATGCGAATT
1 TCGCAATGC-AATT
148752 AGGAAAAATC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.37
21 23 0.53
22 4 0.09
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCAATGCAATTTTCATAAT
Found at i:148763 original size:22 final size:21
Alignment explanation
Indices: 148738--148793 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
148728 TTTTCATAAT
*
148738 TCGCAATGCGAATTAGGAAAAA
1 TCGCAATGCGAATTACG-AAAA
* *
148760 TCGCAAAGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
148780 TCGCAATGCGAATT
1 TCGCAATGCGAATT
148794 TTACTATCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 14 0.48
21 4 0.14
22 11 0.38
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:149370 original size:19 final size:19
Alignment explanation
Indices: 149332--149398 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
149322 TTCGAGAATG
*
149332 AAAATCGCAAAGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
149352 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
149371 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
149390 AAAATCGCA
1 AAAATCGCA
149399 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:149416 original size:19 final size:19
Alignment explanation
Indices: 149394--149591 Score: 174
Period size: 19 Copynumber: 11.1 Consensus size: 19
149384 GAAACCAAAA
*
149394 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
149413 TCGCGTTGCGATTCTC--T
1 TCGCGTTGCGATTTTCATT
149430 T---GTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
149446 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
149465 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
149484 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
149498 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
149517 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
149531 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
149550 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
149570 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
149590 TC
1 TC
149592 AACCAAAAGA
Statistics
Matches: 146, Mismatches: 16, Indels: 34
0.74 0.08 0.17
Matches are distributed among these distances:
14 31 0.21
16 6 0.04
17 7 0.05
19 70 0.48
20 31 0.21
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:149441 original size:33 final size:33
Alignment explanation
Indices: 149399--149566 Score: 219
Period size: 33 Copynumber: 4.9 Consensus size: 33
149389 CAAAATCGCA
*
149399 TTGCGATTTTCATTTCGCGTTGCGATTCTCTTG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
149432 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA----T-TCTCTCG
149470 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
149503 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
149536 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATTTTCATTT-CGCGTTGCGATTCTC
149567 ATTATCTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
33 76 0.62
34 16 0.13
37 1 0.01
38 29 0.24
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:149506 original size:14 final size:14
Alignment explanation
Indices: 149487--149542 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
149477 TTTCATTTCG
149487 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
149501 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
149520 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
149534 CGTTGCGAT
1 CGTTGCGAT
149543 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:149516 original size:71 final size:71
Alignment explanation
Indices: 149394--149529 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
149384 GAAACCAAAA
* **
149394 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTTGTTGCGATTTTCATTTCGCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATT
149459 TTTATT
66 TTTATT
*
149465 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATT
149530 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGATT
TTTATT
Found at i:150500 original size:15 final size:15
Alignment explanation
Indices: 150480--150516 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
150470 CAATTACTAA
150480 TGTTTGTTATTATAT
1 TGTTTGTTATTATAT
150495 TGTTTGTTATTATAT
1 TGTTTGTTATTATAT
150510 TGTTTGT
1 TGTTTGT
150517 AGATTTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (15 bp):
TGTTTGTTATTATAT
Found at i:153198 original size:14 final size:14
Alignment explanation
Indices: 153176--153212 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
153166 GATTGTTTAA
153176 TTGATTTGTAAAAGG
1 TTGATTTGTAAAA-G
153191 TT-ATTTGTAAAAG
1 TTGATTTGTAAAAG
153204 TTGATTTGT
1 TTGATTTGT
153213 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:153356 original size:14 final size:14
Alignment explanation
Indices: 153337--153393 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
153327 GTGAAATGAA
153337 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
153351 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
153370 AATCGCAACGAGAG
1 AATCGCAACGAGAG
153384 AATCGCAACG
1 AATCGCAACG
153394 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:153371 original size:33 final size:33
Alignment explanation
Indices: 153329--153408 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
153319 ATTGCAATGT
153329 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
153362 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
153395 GAAATTAAATTCGC
1 GAAATGAAAATCGC
153409 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:153426 original size:19 final size:19
Alignment explanation
Indices: 153404--153534 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
153394 CGAAATTAAA
*
153404 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
153423 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
153439 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
153456 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
153470 TTCGCGTTACGATTTTCAT
1 TTCGCATTGCGATTTTCAT
153489 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
153505 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
153522 TTCGCATTGCGAT
1 TTCGCATTGCGAT
153535 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 23 0.27
16 13 0.15
17 13 0.15
19 35 0.42
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:153450 original size:33 final size:32
Alignment explanation
Indices: 153408--153534 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
153398 ATTAAATTCG
153408 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
153441 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
153474 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
153507 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
153535 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:153485 original size:66 final size:66
Alignment explanation
Indices: 153401--153533 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
153391 ACGCGAAATT
*
153401 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
153466 G
66 G
*
153467 AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
153532 G
66 G
153533 A
1 A
153534 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:154779 original size:21 final size:21
Alignment explanation
Indices: 154753--154797 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
154743 GATTTCTGGG
* *
154753 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
154774 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
154795 CAA
1 CAA
154798 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:155405 original size:18 final size:18
Alignment explanation
Indices: 155382--155416 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
155372 CTAGGATATT
155382 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
155400 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
155417 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:156483 original size:149 final size:149
Alignment explanation
Indices: 156303--156606 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
156293 GAGTCGAGGG
*
156303 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAGGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
156368 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
156433 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
156452 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
156517 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
156582 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
156601 TCTACG
1 TCTACG
156607 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:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:156629 original size:23 final size:23
Alignment explanation
Indices: 156585--156629 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
156575 ATCATTATAT
*
156585 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
156608 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
156630 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:159083 original size:12 final size:12
Alignment explanation
Indices: 159066--159102 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
159056 TCTTCGGGGA
159066 CTTTTTCTTCTT
1 CTTTTTCTTCTT
159078 CTTTTTCTTCTT
1 CTTTTTCTTCTT
159090 CTTTTTCTTCTT
1 CTTTTTCTTCTT
159102 C
1 C
159103 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:159311 original size:24 final size:24
Alignment explanation
Indices: 159277--159330 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
159267 CTGAAACATC
*
159277 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
159301 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
159325 ATCAAA
1 ATCAAA
159331 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:160135 original size:20 final size:21
Alignment explanation
Indices: 160110--160161 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
160100 TTTTCCTAAT
*
160110 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
160130 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
160151 TCGCAATGCGA
1 TCGCAATGCGA
160162 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:160235 original size:20 final size:20
Alignment explanation
Indices: 160146--160237 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
160136 TGCGAATTTG
* *
160146 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
160166 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
160186 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
160207 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
160227 GAAAATCGCAA
1 GAAAATCGCAA
160238 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:160546 original size:20 final size:20
Alignment explanation
Indices: 160451--160538 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
160441 CAACGGGGAA
160451 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
160471 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
160491 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
160511 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
160531 ATCGCAAC
1 ATCGCAAC
160539 TAGAAAATCG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 5 0.09
20 46 0.82
21 5 0.09
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:160589 original size:14 final size:16
Alignment explanation
Indices: 160569--160642 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
160559 AGAAAATCGC
160569 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
160584 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
160601 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
160620 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
160636 -TTGCGAT
1 ATTGCGAT
160643 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:160606 original size:19 final size:19
Alignment explanation
Indices: 160565--160632 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
160555 GAAAAGAAAA
160565 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
160581 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
160598 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
160617 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
160633 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:162694 original size:20 final size:20
Alignment explanation
Indices: 162671--162724 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
162661 GAAACTTAAA
*
162671 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
162691 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGCGAAAATGACT
162711 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
162725 TGCAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:162747 original size:14 final size:14
Alignment explanation
Indices: 162728--162815 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
162718 TGCGAAATGC
*
162728 AAATCGCAACGACA
1 AAATCGCAACGAAA
162742 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG-AA--A
*
162761 AAATCGCAACGACA
1 AAATCGCAACGAAA
*
162775 AAATCGCAATGCAAAA
1 AAATCGCAA--CGAAA
162791 TGAAATCGCAACGAAA
1 --AAATCGCAACGAAA
162807 AAATCGCAA
1 AAATCGCAA
162816 TGCGAAACAC
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
14 28 0.47
16 10 0.17
17 3 0.05
18 9 0.15
19 10 0.17
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGAAA
Found at i:162753 original size:33 final size:33
Alignment explanation
Indices: 162711--162833 Score: 194
Period size: 33 Copynumber: 3.8 Consensus size: 33
162701 GGAAATGGCT
162711 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
162744 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* *
162777 ATCGCAATGCAAAATG-AAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
**
162809 ATCGCAATGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
162834 TTGTGACTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 28 0.34
33 55 0.66
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:162830 original size:65 final size:66
Alignment explanation
Indices: 162711--162833 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
162701 GGAAATGGCT
* * *
162711 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCAAAATGCAAATCGCAACGAAAAAATCGCAATGCGAAATCAAAATCGCAACGACAA
162776 A
66 A
162777 ATCGCAATGCAAAATG-AAATCGCAACGAAAAAATCGCAATGCGAAA-CACAAATCGCA
1 ATCGCAATGCAAAATGCAAATCGCAACGAAAAAATCGCAATGCGAAATCA-AAATCGCA
162834 TTGTGACTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.70
66 15 0.28
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCAAAATGCAAATCGCAACGAAAAAATCGCAATGCGAAATCAAAATCGCAACGACAA
A
Found at i:162891 original size:19 final size:19
Alignment explanation
Indices: 162829--162892 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
162819 GAAACACAAA
* *
162829 TCGCATTGTGACTTTCATT
1 TCGCATTGCGATTTTCATT
*
162848 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
162864 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
162881 TCGCATTGCGAT
1 TCGCATTGCGAT
162893 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:162911 original size:20 final size:20
Alignment explanation
Indices: 162877--162960 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
162867 TTGCGATTTT
*
162877 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
162896 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
* **
162916 CATTTTCATGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
* *
162936 CATTTCTGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
162956 CATTT
1 CATTT
162961 TCATGTTGCG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
19 5 0.09
20 48 0.91
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:162940 original size:40 final size:40
Alignment explanation
Indices: 162886--162971 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
162876 TCATTTCGCA
162886 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCATG
*
162926 TTGCGATAGCCATTTCTGCGTTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCATG
162966 TTGCGA
1 TTGCGA
162972 AAGTAAACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCATG
Found at i:162968 original size:20 final size:20
Alignment explanation
Indices: 162886--162971 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
162876 TCATTTCGCA
* **
162886 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTTCATG
*
162906 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTTCATG
162926 TTGCGATAGCCA-TTTC-TGCG
1 TTGCGATAGCCATTTTCAT--G
*
162946 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTTCATG
162966 TTGCGA
1 TTGCGA
162972 AAGTAAACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 4 0.07
20 46 0.82
21 4 0.07
22 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCATG
Found at i:163479 original size:18 final size:18
Alignment explanation
Indices: 163453--163497 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
163443 GTCGATCAGA
*
163453 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
163471 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
163489 TGATGGCTC
1 TGATGGCTC
163498 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:164865 original size:20 final size:20
Alignment explanation
Indices: 164817--164875 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
164807 GATAGTTTCT
** *
164817 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
164837 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
164857 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
164876 AGAGAAGCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:165167 original size:22 final size:22
Alignment explanation
Indices: 165137--165180 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
165127 GATGGAGATA
*
165137 GACGAATTTCGCCGGAGATGGG
1 GACGAATTTCGCCAGAGATGGG
* *
165159 GACGGATTTCGTCAGAGATGGG
1 GACGAATTTCGCCAGAGATGGG
165181 TGAGAGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCAGAGATGGG
Found at i:165394 original size:20 final size:20
Alignment explanation
Indices: 165369--165420 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
165359 ATTATGTATT
165369 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
165389 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
165409 ATCTCGTTGCGA
1 ATCGCGTTGCGA
165421 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:165454 original size:20 final size:19
Alignment explanation
Indices: 165348--165462 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 19
165338 CGCTTTGAAA
*
165348 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* * *
165369 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGT-AGT
* *
165389 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
165409 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
165430 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
165450 ATCGCATTGCGAT
1 ATCGCATTGCGAT
165463 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
19 5 0.06
20 47 0.61
21 23 0.30
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:165481 original size:41 final size:41
Alignment explanation
Indices: 165389--165483 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
165379 GAAAGTCAGA
* * * * ** *
165389 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
165430 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
165472 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
165484 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:167625 original size:24 final size:21
Alignment explanation
Indices: 167582--167625 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
167572 TTTAAGTCTC
*
167582 AATGTTTCATTTTAGGTTAAA
1 AATGATTCATTTTAGGTTAAA
167603 AATGATTCTATTTTGAGCGTTAA
1 AATGATTC-ATTTT-AG-GTTAA
167626 TCATGTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 2 0.11
24 5 0.26
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (21 bp):
AATGATTCATTTTAGGTTAAA
Found at i:187183 original size:40 final size:40
Alignment explanation
Indices: 187128--187209 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
187118 TGCAGGTTTA
187128 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187168 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187208 TA
1 TA
187210 GCATTACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:187405 original size:24 final size:24
Alignment explanation
Indices: 187378--187452 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
187368 ACGAGCTTAT
187378 GTAATTTAAATGGTAAGTATTTTG
1 GTAATTTAAATGGTAAGTATTTTG
** * *
187402 GTAAAATAAACT--TACGAG-CTTATG
1 GTAATTTAAA-TGGTA--AGTATTTTG
187426 G-AATTTAAATGGTAAGTATTTTG
1 GTAATTTAAATGGTAAGTATTTTG
187449 GTAA
1 GTAA
187453 AATAAGCTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (24 bp):
GTAATTTAAATGGTAAGTATTTTG
Found at i:187407 original size:47 final size:47
Alignment explanation
Indices: 187314--187486 Score: 248
Period size: 47 Copynumber: 3.8 Consensus size: 47
187304 GTAAGCATAC
* * * *
187314 AAATAAGCTTACGAGCTTTTGGAA--T-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
*
187358 AAATAAGCTTACGAGCTTATGTAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
*
187405 AAATAAACTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
*
187452 AAATAAGCTTACGAGCTTATGGGA--TAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAG
187487 GGATTTTATA
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 22 0.19
45 11 0.09
46 1 0.01
47 83 0.71
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (47 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
Done.