Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 11 of 30
Found at i:1785574 original size:159 final size:156
Alignment explanation
Indices: 1783425--1786682 Score: 1022
Period size: 159 Copynumber: 20.9 Consensus size: 156
1783415 TTCTCCTCAT
* * * * * * * * * *
1783425 CGATATTGATGCTTTGGTTGCACAAGAAAAG-TTTTATTGACCTATTTTCC-TAGAGTTAAAGTT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTT
* * ** * * * * * * *
1783488 TATCCCACAAATGAGATAAACATGGATGCTTATAATAGTCTCAATTATTTTAATGATTGGGCA-C
66 CATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCA-GATTGGGCACC
*
1783552 -AAAA-A-A-TC-CTCATT-GCGATGCA
130 AAAAACACATTCTCTCATTAG-GATACA
* ** * * * * * * * *
1783574 TGACCTTGATGATTTGGCTTT-GCGAGGAAAACTTTTTTTACCATAATTTTTCATAGAATCATAG
1 CGATATTGATGATTT-GCTTTCGCAAGGAAAGCTTTTTTTGCCCT-ATTTTCCTTAAAATCAAAG
* * * * * *
1783638 TTCGTCTCTTAAATGAGACAAATATGGATTCTCATAATAATCCCTATTATTTTCAAGATTAGGCC
64 TTCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTC-AGATTGGGCA
* * ** *
1783703 CCATAAACACATTCTTTTTCATTAAAATACT
128 CCAAAAACACATTC--TCTCATTAGGATACA
* * ** * * * * * * **
1783734 TGATATTGAT-ACTTTGGTTTCATAA-GAAAGGCTTTTCTTCCCACCATTTT-TTGTAGAGTCTT
1 CGATATTGATGA-TTTGCTTTCGCAAGGAAA-GCTTTTTTTGCC-CTATTTTCCT-TAAAATCAA
* * * * * * * *
1783796 AGTTCATGC-CTCAAATAAGGCAGACATGGACTCT-ACTAA-AGATCTTTTTTCTTTTCATGATT
62 AGTTCAT-CTCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCTATTCTTTTCA-GATT
* * *
1783858 GGGCACCATAAACATA-T-TCTCATTAGAATACA
123 GGGCACCAAAAACACATTCTCTCATTAGGATACA
* * ** * * *
1783890 TGATATTGATGATTTGCTTTTGCAAGGAAAATTTTTTTCTACCCCATTTTCCTTAAAAACAAAGT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTTT-TGCCCTATTTTCCTTAAAATCAAAGT
* * * * * * * ****
1783955 TTATCGCTTAAATGAGACAAATATGGATTCT-TTAACACT-TTTCACT-TTTTCATGATTACAAA
65 TCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCT-ATTCTTTTCA-GATTGGGCA
* * ** *
1784017 CCAAAAACACGTTCCTTTTGTTGGGATACA
128 CCAAAAACACATT-CTCTCATTAGGATACA
* * * * * ** * * ** *
1784047 AGACATTGATGTTTTGGTGTCATAAGAAAAGCTTTTCTTT-CCAC-AATTTCGATACAATCAAAG
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTT-TTTGCC-CTATTTTCCTTAAAATCAAAG
** * * * ** * * *
1784110 TTTGTCGCTCAAATGAGACAAACT-TGGATTGTTGTAACAATCTCTA-TCTTTTCATGATTGGGT
64 TTCATCTCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCA-GATTGGGC
* *
1784173 ACCATAAACAC--TC-CTCATTGGGATACA
127 ACCAAAAACACATTCTCTCATTAGGATACA
** * * * *
1784200 ATATATTGATGCTTTGGC-TTC-CTAGGAAAAGCTTTTCTTTGACATATTTTCCTTAAAATCAAA
1 CGATATTGATGATTT-GCTTTCGCAAGG-AAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAA
* ** **
1784263 GTTCATCTCTTAAATGAGACAAGCT-TGGATTCTTGTAATAGTCT-TCATTCTTTTTGTGATTGG
63 GTTCATCTCTTAAATGAGACAA-ATATGGATTCTCATAATAGTCTCT-ATTC-TTTTCAGATTGG
* **
1784326 GCACC--AAA-A-A-TC-CTCATT-GCA-ATG
125 GCACCAAAAACACATTCTCTCATTAGGATACA
** * * * * * *
1784350 CTTTACGTTAACGGTTTGGCTTT-GCAAGGAAAGC-TTTTTTACCACAATTTT-TTATAAAATCA
1 CGATA--TTGATGATTT-GCTTTCGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCT-TAAAATCA
* * * * * * * *
1784412 AAGTTCATCTCTTAAATGAAAAAAAACACGAATTCTCATAATATTGC-CCATTATTTTCAAGATT
61 AAGTTCATCTCTTAAATG-AGACAAATATGGATTCTCATAATAGT-CTCTATTCTTTTC-AGATT
* * * *
1784476 AGGCACTATAAACACATTTTACTCATTAGGATACA
123 GGGCACCAAAAACACATTCT-CTCATTAGGATACA
* * * * * * * * * ***
1784511 TGATATTGATGCTTTGGTTTCACAA--AATAGGCCTTTCTTCCCACCATTTTCCATAATGCCTAA
1 CGATATTGATGATTTGCTTTCGCAAGGAA-A-GCTTTTTTTGCC-CTATTTTCCTTAAAATC-AA
* * * *
1784574 A-TTCGTGC-CTTAAATGAGACAAACATTGATTCT-AGTAAT-GATCT-TCA-T-TTTTAATGAT
62 AGTTCAT-CTCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCT-ATTCTTTTCA-GAT
** * * *
1784632 TGGGCAGTATAAACACGTTCTCCTCTTTAGTG-TACA
122 TGGGCACCAAAAACACATTCT-CTCATTAG-GATACA
* * * * * * * *
1784668 CGATATTGATGATTTGTTTTTGTAAGGAATGCTTTCTCTGCCCAATTTTCCTTAAAATAAAAGTT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTT
* * * * *
1784733 CATC-CTTTAAATGAGATAAATATGGATTCTCGTAATAGTCTCCATTCATTTTGAGATTGGGAAC
66 CATCTC-TTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTC-TTTTCAGATTGGGCAC
* * * *
1784797 CAAAAACACGTTCCCTTGATTGGGATACA
129 CAAAAACACATTCTC-TCATTAGGATACA
* * * * * * * * ** *
1784826 TGACATTGATGCTTTGGTGTT-GCAAGGAAAGTTTTTCTTTTCACTTTTTTCGATGAAATCAAAG
1 CGATATTGATGATTTGCT-TTCGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAG
** * * * * * ** * * *
1784890 TTTGTCCCTCAAATGAGACATACT-TGGGTTGTTGTAACAATCT-TCA-TCTTTTCATGATTAGG
64 TTCATCTCTTAAATGAGACA-AATATGGATTCTCATAATAGTCTCT-ATTCTTTTCA-GATTGGG
* *
1784952 CACCATAAACACATTTTCCTCATT-GAGATACA
126 CACCAAAAACACATTCT-CTCATTAG-GATACA
* * * ** **
1784984 CTATTATTGCT--TTTGCTTT-GCAAGAAAAGCTTTTCTTTAACCTATTTTCCTTTTAATCAAAG
1 CGA-TATTGATGATTTGCTTTCGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAG
** * * * * * * * *
1785046 TTGGTCTCTCAAATAAGATAAACTA-GGATTC-CTGTAACAGTCTCCATTATTTTCATGGTTGGG
64 TTCATCTCTTAAATGAGACAAA-TATGGATTCTC-ATAATAGTCTCTATTCTTTTCA-GATTGGG
* * *
1785109 CA-C-TAAA-A-A-TC-CTTATTAGGATATA
126 CACCAAAAACACATTCTCTCATTAGGATACA
* * * * * * * * * * * * *
1785134 TGACATTAATGGTTTGGCTTT-GTAAGTAAAGCTCTTTTTACCATAATTTTTCATAGAATCAAAA
1 CGATATTGATGATTT-GCTTTCGCAAGGAAAGCTTTTTTTGCCCT-ATTTTCCTTAAAATCAAAG
* * * * * * * *
1785198 TTTATCTCTTAAATGAGACAAACAT-GATTCTCATAATA-ACCCCATTCATTTCAAGATTAGGCT
64 TTCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTC-AGATTGGGCA
* * * *
1785261 CCATAAACATAGTCTATTCATTAGGATACA
128 CCAAAAACACATTCT-CTCATTAGGATACA
* * * * * * * * ** *
1785291 TGATATTGATGCTTTGGTTTCGCAA-GAAAGGCTTTTCTTCCCACCATTTTCCATAGAGCCTAAG
1 CGATATTGATGATTTGCTTTCGCAAGGAAA-GCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAG
* * * *
1785355 TTCATGC-CTTAACTGAGATAAACATGGATTCT-AGTAAT-GATCT-TCATTTTTTTCATGATTG
64 TTCAT-CTCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TCTCT-ATTCTTTTCA-GATTG
**
1785416 GGCACCAAAAACACATTCTCATCATTATTATACA
124 GGCACCAAAAACACATTCTC-TCATTAGGATACA
* * * * *
1785450 CAATATTAATGATTTGCTTTCGTAAGGAAAGCTTTTCTTTGCCCAAATTTCCTTAAAATCAAAGT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGT
* *
1785515 TCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTACGAGATTGGGAAC
65 TCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTC-AGATTGGGCAC
*** *
1785580 CAAAAACTTGTTCCCTTCATTAAGG-TACA
129 CAAAAACACATTCTC-TCATT-AGGATACA
* * * * * * * ** * *
1785609 TGACATTGATGCTTTACTGTCGCAAGGAAAGCTTTTCTTTTCACTATTTTCCACAGAACCAAAGT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAGT
** * * * * * *
1785674 TTGTCGCTCAAATGAGACAAACT-TGGATTGTCATAACAATCTCTA-TCATTTCATGATTGGGCA
65 TCATCTCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTCTTTTCA-GATTGGGCA
* ** ** * *
1785737 CCATAAACATGTTCTCCTTGTTGGGATATA
128 CCAAAAACACATTCT-CTCATTAGGATACA
* * ** * * *
1785767 CGATATTGATGCTTTTGCTTT-GTAATAAAAGCTTTCCTTTGACTTATTTTCCTTAAAATCAAAG
1 CGATATTGATG-ATTTGCTTTCGCAAGGAAAGCTTT-TTTTGCCCTATTTTCCTTAAAATCAAAG
* * ** ** * *
1785831 TTCATC-CTTCAAATGAGACAAAAATCGATTCTTGTAAGGGTCTCCAATT-TTTTCATGATTGGT
64 TTCATCTCTT-AAATGAGACAAATATGGATTCTCATAATAGTCT-CTATTCTTTTCA-GATTGGG
* *
1785894 CA--ACAAA-A-A-TC-CTCATTGGGATACA
126 CACCAAAAACACATTCTCTCATTAGGATACA
* * * ** * * * *
1785919 TGATATTGATGGTTTTGCTTT-GCAAGCAAAGCTTTTTTCACCACCATTTTCCATAGAATCAACG
1 CGATATTGAT-GATTTGCTTTCGCAAGGAAAGCTTTTTTTGCC-CTATTTTCCTTAAAATCAAAG
* * * * *
1785983 TTCATCTTTTAAATGAAACAAATATGGACTCTCATAATAATCTCTATTCTTTTCAAGATTAGGCA
64 TTCATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTC-AGATTGGGCA
* *
1786048 TCATAAACACATTCTTCTCATTAGGATACA
128 CCAAAAACACATTC-TCTCATTAGGATACA
* * * * * * * * *
1786078 TGATATTGGTGCTTTGGTTTCGCAA-GAAAGGTTTTTCTT-CACACCATTTT-CTGTACAGTCTA
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTT-TTGC-C-CTATTTTCCT-TAAAATCAA
* * *
1786140 AGTTCATGC-CTTAAATGAGACAAACAGGGATTCT-ATTAAT-GATCGTC-ATTTTTTTCAAGAT
62 AGTTCAT-CTCTTAAATGAGACAAATATGGATTCTCA-TAATAG-TC-TCTATTCTTTTC-AGAT
* ** * * *
1786201 TGGGCACCATAAACATGGTTCCCTTATTAGTATACA
122 TGGGCACCAAAAACA-CATTCTCTCATTAGGATACA
* * *
1786237 CAATATTGATGATTTGCTTTCGTAAGGAAAGCTTTTTTTGCTCTATTTTCCTTAAAATCAAAGTT
1 CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTT
* * * * * *
1786302 CATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCATTCTTTTCGAGATTAGGAAGC
66 CATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTC-AGATTGGGCACC
* * *
1786367 AAAAACACGTTCCCTTCATTAGGACACA
130 AAAAACACATTCTC-TCATTAGGATACA
* * * *
1786395 TG-TCATTGATGCTTTGGTGTT-GCAAGGAAAGCTTTTCTTT-CCACCATTTT--TTATAGAATC
1 CGAT-ATTGATGATTTGCT-TTCGCAAGGAAAGCTTTT-TTTGCC-CTATTTTCCTTA-A-AATC
* * * * * * * * * **
1786455 AAAGCTT-GTCCCTCAAATAAGACAAACT-TTGATTGTCATAACAATCTCCA-TCATTTTGTGAT
60 AAAG-TTCATCTCTTAAATGAGACAAA-TATGGATTCTCATAATAGTCTCTATTC-TTTTCAGAT
* *
1786517 TGGGCACCAAAAACACGTTCTCCTCATTAGGATATA
122 TGGGCACCAAAAACACATTCT-CTCATTAGGATACA
* * * * * **
1786553 CGATAATGATGCTTTGGC-TTCACAAGAAAATCTTTTCTTTAACCTATTTTCCTTAAAATCAAAG
1 CGATATTGATGATTT-GCTTTCGCAAGGAAAGCTTTT-TTTGCCCTATTTTCCTTAAAATCAAAG
* * * * *
1786617 TTCGTC-CTTCAAATGAGACAAACATGCAATCT--T-AT-CT-TC-ATTCTTTTCATGATTGGGC
64 TTCATCTCTT-AAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCA-GATTGGGC
1786675 ACCAAAAA
127 ACCAAAAA
1786683 TCCTTATTGG
Statistics
Matches: 2297, Mismatches: 611, Indels: 398
0.69 0.18 0.12
Matches are distributed among these distances:
149 21 0.01
150 47 0.02
151 75 0.03
152 267 0.12
153 77 0.03
154 91 0.04
155 36 0.02
156 245 0.11
157 271 0.12
158 429 0.19
159 562 0.24
160 168 0.07
161 8 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (156 bp):
CGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTTTTGCCCTATTTTCCTTAAAATCAAAGTT
CATCTCTTAAATGAGACAAATATGGATTCTCATAATAGTCTCTATTCTTTTCAGATTGGGCACCA
AAAACACATTCTCTCATTAGGATACA
Found at i:1786361 original size:317 final size:309
Alignment explanation
Indices: 1783844--1788012 Score: 1317
Period size: 317 Copynumber: 13.4 Consensus size: 309
1783834 AAGATCTTTT
* * *
1783844 TTCTTTTCATGATTGGGCACCATAAACATATT--CTCATTAGAATACATGATATTGATGATTTGC
1 TTCTTTTCA-GATTGGGCACCATAAACACATTCCCTCATTAGGATACATGATATTGATGCTTTG-
* * * * * *
1783907 TTTTGCAAGGAAA-ATTTTTTTCTACCCCATTTTCCTTAAAAACAAAGTTTATCGCTTAAATGAG
64 GTTTGCAA-GAAAGCTTTTCTTC-ACACCATTTT-CTT-AAATCAAAGTTCATC-CTTAAATGAG
* * * * * **** * *
1783971 ACAAATATGGATTCT-TTAA-CACTTTTCACT-TTTTCATGATTACAAACCAAAAACA-CGTTCC
124 ACAAACATGGATTCTATTAATGA--TCTCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCC
* * * * * * * * ** * *
1784032 TTTTGTTGGGATACAAGACATTGATGTTTTGGTGTCATAAGAAAAGCTTTTCTTTCCAC-AATTT
187 -CTTATT-AGATACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCACTATTTT
* * ** * * * * * * * *
1784096 CGATACAATCAAAGTTTGTCGCTCAAATGAGACAAACTTGGATTGTTGTAACAATCTCTA
250 CCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
* *
1784156 -TCTTTTCATGATTGGGTACCATAAACAC--T-CCTCATTGGGATACAAT-ATATTGATGCTTTG
1 TTCTTTTCA-GATTGGGCACCATAAACACATTCCCTCATTAGGATAC-ATGATATTGATGCTTTG
* * * * *
1784216 GCTTCCTAGGAAAAGCTTTTCTTTGACA-TATTTTCCTTAAAATCAAAGTTCATCTCTTAAATGA
64 GTTTGC-AAG-AAAGCTTTTC-TTCACACCATTTT-CTT-AAATCAAAGTTCATC-CTTAAATGA
* * ***
1784280 GACAAGCTTGGATTCT-TGTAAT-AGTCTTCATTCTTTTTGTGATTGGGCACC--AAA-A-A--T
123 GACAAACATGGATTCTAT-TAATGA-TC-TCATTCTTTTCAAGATTGGGCACCATAAACATAGTT
* ** ** * * * * *
1784337 -CCTCATT-GCA-ATGCTTTACGTTAACGGTTTGGCTTT-GCAAGGAAAGCTTTT-TTACCACAA
185 CCCTTATTAG-ATACACGATA--TTGATGATTT-GCTTTCGCAAGGAAAGCTTTTCTTTCCACTA
** * * * * * *
1784397 TTTTTTATAAAATCAAAGTTCATCTCTTAAATGAAAAAAAACACGAATTCTCATAATATTGC-CC
246 TTTTCCATAAAATCAAAGTTCATCTCTTAAATG-AGACAAACATGGATTCTCGTAATAGT-CTCC
1784461 A
309 A
* * * **
1784462 TTATTTTCAAGATTAGGCACTATAAACACATTTTACTCATTAGGATACATGATATTGATGCTTTG
1 TTCTTTTC-AGATTGGGCACCATAAACACA-TTCCCTCATTAGGATACATGATATTGATGCTTTG
* * * * *
1784527 GTTT-CACAAAATAGGCCTTTCTTCCCACCATTTTC-CATAATGCCTAAA-TTCGTGCCTTAAAT
64 GTTTGCA-AGAA-A-GCTTTTCTTCACACCATTTTCTTA-AAT--C-AAAGTTCAT-CCTTAAAT
* * ** *
1784589 GAGACAAACATTGATTCTAGTAATGATCTTCA-T-TTTT-AATGATTGGGCAGTATAAACA-CGT
121 GAGACAAACATGGATTCTATTAATGATC-TCATTCTTTTCAA-GATTGGGCACCATAAACATAGT
* * * * * * *
1784650 TCTCCTCT-TTAGTGTACACGATATTGATGATTTGTTTTTGTAAGGAATGC-TTTCTCTGCC-CA
184 TC-CCT-TATTAG-ATACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCT-TTCCACT
* * * *
1784712 ATTTTCCTTAAAATAAAAGTTCATC-CTTTAAATGAGATAAATATGGATTCTCGTAATAGTCTCC
245 ATTTTCCATAAAATCAAAGTTCATCTC-TTAAATGAGACAAACATGGATTCTCGTAATAGTCTCC
1784776 A
309 A
* * * * * * *
1784777 TTCATTTTGAGATTGGGAACCAAAAACACGTTCCCTTGATTGGGATACATGACATTGATGCTTTG
1 TTC-TTTTCAGATTGGGCACCATAAACACATTCCC-TCATTAGGATACATGATATTGATGCTTTG
* ** ** * ** *
1784842 GTGTTGCAAGGAAAGTTTTTCTTTTCACTTTTTTCGATGAAATCAAAGTTTGTCCCTCAAATGAG
64 GT-TTGCAA-GAAAGCTTTTCTTCACACCATTTTC--TTAAATCAAAGTTCAT-CCTTAAATGAG
* * * * ** * * * * *
1784907 ACATACTTGGGTTGT-TGTAACAATCTTCA-TCTTTTCATGATTAGGCACCATAAACACATTTTC
124 ACAAACATGGATTCTAT-TAATGATC-TCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCC
* * * * *
1784970 CTCATTGAGATACACTATTATTGCT--TTTGCTTT-GCAAGAAAAGCTTTTCTTT-AACCTATTT
187 CTTATT-AGATACACGA-TATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCA-CTATTT
* ** ** * * * *
1785031 TCCTTTTAATCAAAGTTGGTCTCTCAAATAAGATAAAC-TAGGATTC-CTGTAACAGTCTCCA
249 TCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACAT-GGATTCTC-GTAATAGTCTCCA
* * * * * * *
1785092 TTATTTTCATGGTTGGGCA-C-TAAA-A-A-T-CCTTATTAGGATATATGACATTAATGGTTTGG
1 TTCTTTTCA-GATTGGGCACCATAAACACATTCCCTCATTAGGATACATGATATTGATGCTTTGG
* ** * * *
1785151 CTTTGTAAGTAAAGCTCTTT-TT-ACCATAATTTTTCATAGAATCAAAATTTATCTCTTAAATGA
65 -TTTGCAAG-AAAGCT-TTTCTTCA-CACCA-TTTTCTTA-AATCAAAGTTCATC-CTTAAATGA
* * * * * * *
1785214 GACAAACAT-GATTCTCA-TAATAACCCCATTCATTTCAAGATTAGGCTCCATAAACATAG-TCT
123 GACAAACATGGATTCT-ATTAATGATCTCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCC
* * * * * *
1785276 ATTCATTAGGATACATGATATTGATGCTTTGGTTTCGCAA-GAAAGGCTTTTCTTCCCACCATTT
187 CTT-ATTA-GATACACGATATTGATGATTTGCTTTCGCAAGGAAA-GCTTTTCTTTCCACTATTT
* ** * * * * *
1785340 TCCATAGAGCCTAAGTTCATGC-CTTAACTGAGATAAACATGGATTCTAGTAAT-GATCTTCA
249 TCCATAAAATCAAAGTTCAT-CTCTTAAATGAGACAAACATGGATTCTCGTAATAG-TCTCCA
* * * ** ** * *
1785401 TTTTTTTCATGATTGGGCACCAAAAACACATTCTCATCATTATTATACACAATATTAATGATTTG
1 TTCTTTTCA-GATTGGGCACCATAAACACATTC-CCTCATTAGGATACATGATATTGATGCTTTG
* * * * *
1785466 CTTTCGTAAGGAAAGCTTTTCTTTGCCCA-AATTTCCTTAAAATCAAAGTTCATCTCTTAAATGA
64 GTTT-GCAA-GAAAGCTTTTC-TT-CACACCATTTTCTT-AAATCAAAGTTCATC-CTTAAATGA
* * * * * *
1785530 GACAAATATGGATTCTCA-TAAT-AGTCTCTATTCTTTACGAGATTGGGAACCAAAAAC-TTGTT
123 GACAAACATGGATTCT-ATTAATGA-TCTC-ATTCTTTTCAAGATTGGGCACCATAAACATAGTT
* * * * * * *
1785592 CCCTTCATTAAGGTACATGACATTGATGCTTTACTGTCGCAAGGAAAGCTTTTCTTTTCACTATT
185 CCCTT-ATT-AGATACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCACTATT
* * * ** * * * * * * * *
1785657 TTCCACAGAACCAAAGTTTGTCGCTCAAATGAGACAAACTTGGATTGTCATAACAATCTCTA
248 TTCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
* ** ** * * *
1785719 -TCATTTCATGATTGGGCACCATAAACATGTTCTCCTTGTTGGGATATACGATATTGATGCTTTT
1 TTCTTTTCA-GATTGGGCACCATAAACACATTC-CCTCATTAGGATACATGATATTGATGC-TTT
* * * * * **
1785783 GCTTTGTAATAAAAGCTTTCCTTTGAC-TTATTTTCCTTAAAATCAAAGTTCATCCTTCAAATGA
63 GGTTTGCAA-GAAAGCTTTTC-TTCACACCATTTT-CTT-AAATCAAAGTTCATCCTT-AAATGA
* * * * * * *
1785847 GACAAAAATCGATTCT-TGTAAGGGTCTCCAATT-TTTTCATGATTGGTCA--ACAAA-A-A--T
123 GACAAACATGGATTCTAT-TAATGATCT-C-ATTCTTTTCAAGATTGGGCACCATAAACATAGTT
* * * * * * *
1785904 -CCTCATTGGGATACATGATATTGATGGTTTTGCTTT-GCAAGCAAAGCTTTT-TTCACCACCAT
185 CCCTTATT-AGATACACGATATTGAT-GATTTGCTTTCGCAAGGAAAGCTTTTCTT-TCCACTAT
* * * * * * * * *
1785966 TTTCCATAGAATCAACGTTCATCTTTTAAATGAAACAAATATGGACTCTCATAATAATCTCTA
247 TTTCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
* * * *
1786029 TTCTTTTCAAGATTAGGCATCATAAACACATTCTTCTCATTAGGATACATGATATTGGTGCTTTG
1 TTCTTTTC-AGATTGGGCACCATAAACACATTC-CCTCATTAGGATACATGATATTGATGCTTTG
* * *
1786094 GTTTCGCAAGAAAGGTTTTTCTTCACACCATTTTCTGTACAGTCTAAGTTCATGCCTTAAATGAG
64 GTTT-GCAAGAAA-GCTTTTCTTCACACCATTTTCT-TA-AATCAAAGTTCAT-CCTTAAATGAG
* * *
1786159 ACAAACAGGGATTCTATTAATGATCGTCATTTTTTTCAAGATTGGGCACCATAAACATGGTTCCC
124 ACAAACATGGATTCTATTAATGATC-TCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCCC
* * * *
1786224 TTATTAGTATACACAATATTGATGATTTGCTTTCGTAAGGAAAGCTTTT-TTTGCTCTATTTTCC
188 TTATTAG-ATACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCACTATTTTCC
*
1786288 TTAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
252 ATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
* * * * * *
1786346 TTCTTTTCGAGATTAGGAAGCAAAAACACGTTCCCTTCATTAGGACACATG-TCATTGATGCTTT
1 TTCTTTTC-AGATTGGGCACCATAAACACATTCCC-TCATTAGGATACATGAT-ATTGATGCTTT
* * *
1786410 GGTGTTGCAAGGAAAGCTTTTCTTTC-CACCATTTTTTATAGAATCAAAGCTT-GTCCCTCAAAT
63 GGT-TTGCAA-GAAAGCTTTTC-TTCACACCATTTTCT-TA-AATCAAAG-TTCAT-CCTTAAAT
* * * * ** ** * *
1786473 AAGACAAACTTTGATTGTCA-TAACAATCTCCA-TCATTTT-GTGATTGGGCACCAAAAACA-CG
121 GAGACAAACATGGATTCT-ATTAATGATCT-CATTC-TTTTCAAGATTGGGCACCATAAACATAG
* * * * * * * *
1786534 TTCTCCTCATTAGGATATACGATAATGATGCTTTGGC-TTCACAAGAAAATCTTTTCTTT-AACC
183 TTC-CCTTATTA-GATACACGATATTGATGATTT-GCTTTCGCAAGGAAAGCTTTTCTTTCCA-C
* * * * *
1786597 TATTTTCCTTAAAATCAAAGTTCGTC-CTTCAAATGAGACAAACATGCA--ATC-T--TA-TCTT
244 TATTTTCCATAAAATCAAAGTTCATCTCTT-AAATGAGACAAACATGGATTCTCGTAATAGTCTC
1786655 CA
308 CA
* * * * *
1786657 TTCTTTTCATGATTGGGCACC--AAA-A-A-T-CCTTATTGGGATACATGACATTAATGGTTTGG
1 TTCTTTTCA-GATTGGGCACCATAAACACATTCCCTCATTAGGATACATGATATTGATGCTTTGG
* * *
1786716 CTTTGGAAGAAAAGC---T-TT-------TTTT-TT--ACCAAAGTTCATCTTTTAAATGAGACA
65 -TTTGCAAG-AAAGCTTTTCTTCACACCATTTTCTTAAATCAAAGTTCATC-CTTAAATGAGACA
* * * * * **
1786767 AACAAGGATTCTCA-TAAT-ATTCCCCA-TCTTTTCAAGATTAGGCACCATAAACACATTTTTCT
127 AACATGGATTCT-ATTAATGA-T-CTCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCCCT
* * * * * * * * *
1786829 CACTAGGATACATGAAATTAATGCTTTGGTTTCACAA-GAAAGGCTTTT-TTTCTCAGTATTTTC
189 TATTA-GATACACGATATTGATGATTTGCTTTCGCAAGGAAA-GCTTTTCTTTC-CACTATTTTC
* * * * * * *
1786892 CATAGAGTCTAAGTTCATGC-CTCAAATGGGACAAACATGGATTCTAGTAAT-GATCTTCA
251 CATAAAATCAAAGTTCAT-CTCTTAAATGAGACAAACATGGATTCTCGTAATAG-TCTCCA
* * * * * *
1786951 TTCTTTTCGTGATTGGGCCCCATAAACACGTTATCCTTATTAGG-TACATGATATTGA-GATTTG
1 TTCTTTTC-AGATTGGGCACCATAAACACATT-CCCTCATTAGGATACATGATATTGATGCTTTG
* ** * * * * *
1787014 TTTTTGCAAGGAAAGCTTTTCTTTGCCCCATTTACCCTGAAATCAAAGTTCTTCCCTTTAATGAG
64 -GTTTGCAA-GAAAGCTTTTCTTCACACCATTT--TCTTAAATCAAAGTTCAT-CCTTAAATGAG
* * ** * ** * *
1787079 ACAAACACGAATTCTCGTAAT-AGCCTCCATTCTTTTCAAGATTGGAAACCAAAAACAT-GTTCG
124 ACAAACATGGATTCTATTAATGA-TCT-CATTCTTTTCAAGATTGGGCACCATAAACATAGTTCC
* * * * * * * * *
1787142 CTTCA-TAGGGACACATGACATTGATG-CTTGGTGTCGCAA-AAAAACTTTTCTTT-CAATCATT
187 CTT-ATTA--GATACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCACT-ATT
** * * * * * * *
1787203 TTTTATATAATCAAAGTTTATCCCTCAAATGAGACAAACTTGGATTGTCATAATAGTCTCCA
248 TTCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
* * **
1787265 -TCTTTTGATGATTGGGCACTATAAACATGTTCTCCTC------AT-C--GATATTGATGCTTTG
1 TTCTTTTCA-GATTGGGCACCATAAACACATTC-CCTCATTAGGATACATGATATTGATGCTTTG
* * * * * *
1787320 GCTTTGCAAGAAAAGTTTTTCTTTATC-CTATTTTCCTTAAAATCAAAGTTTATCCCTCAAATAA
64 G-TTTGCAAG-AAAGCTTTTCTTCA-CACCATTTT-CTT-AAATCAAAGTTCAT-CCTTAAATGA
* ** * ** *
1787384 GACAAACATGGATTCT-TGAAACAATCTCCACTCTTTTCTTGATTGGGCACC--CAA-A-A--T-
123 GACAAACATGGATTCTAT-TAATGATCT-CATTCTTTTCAAGATTGGGCACCATAAACATAGTTC
* * * * * * *
1787441 CCTCATT-GCAATGCATGACATTAATGGTTTGGCTTT-GCAAGGAAAGCTTTT-TTTACCACCAT
186 CCTTATTAG--ATACACGATATTGATGATTT-GCTTTCGCAAGGAAAGCTTTTCTTT-CCACTAT
** ** ** * * * **
1787503 TTTTTATAGCATCAAAGTTTGTCTCTTAAAT--G--AAACATTGATTCTCTTAATAATC-CTTG
247 TTTCCATAAAATCAAAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTC-CA
* * * * ** * *
1787562 TTCATTTCAAGATTAGGCACTATAAACACTTTTTTCTCCTTAGGATACACGATATTGATGCTTTG
1 TTCTTTTC-AGATTGGGCACCATAAACAC-ATTCCCTCATTAGGATACATGATATTGATGCTTTG
* * * ** *
1787627 GTTTTGCAAGAAAGGCTTTTCTTCCCACCATTTTTCATAGAGTCTTCA-TTCATGCTTTAAATGA
64 G-TTTGCAAGAAA-GCTTTTCTTCACACCA-TTTTCTTA-AATC-AAAGTTCAT-CCTTAAATGA
* * * ** * * * *
1787691 GACAAACATGGATTCTAGTAATGATATTTATTCTTTTCATTATTAGGCACCATAAACACA-TACT
123 GACAAACATGGATTCTATTAATGAT-CTCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCC
* * * * * *
1787755 CTTCATTGGGATACAAGATATTGATGCTTTGGC-TT-GACAAGAAAAGTTTTTCTTT-GACCTAT
187 CTT-ATT-AGATACACGATATTGATGATTT-GCTTTCG-CAAGGAAAGCTTTTCTTTCCA-CTAT
** * * * * * * * *
1787817 TTTCTTTAAAATCAAAATTCGTC-CTTCAAAAGAGATAAACATGGATTATTGTATTAGTTTCCA
247 TTTCCATAAAATCAAAGTTCATCTCTT-AAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
** * *
1787880 TTCTTTT-AGTGATTGGGTTCC--AAA-A-A-T-CCTCATTAGGATACATGACATTGATGGTTTG
1 TTCTTTTCA--GATTGGGCACCATAAACACATTCCCTCATTAGGATACATGATATTGATGCTTTG
* * * *
1787938 GCTTT---A-CAAGCTTTT-TTTACCACCATTTTTCATAGAATCAAAGTTCGTCTCTTAAATGAG
64 G-TTTGCAAGAAAGCTTTTCTTCA-CACCA-TTTTCTTA-AATCAAAGTTCATC-CTTAAATGAG
*
1787998 ACAAATATGGATTCT
124 ACAAACATGGATTCT
1788013 TATAGTAATC
Statistics
Matches: 2890, Mismatches: 683, Indels: 574
0.70 0.16 0.14
Matches are distributed among these distances:
287 15 0.01
288 122 0.04
289 7 0.00
290 1 0.00
291 2 0.00
292 1 0.00
293 5 0.00
294 24 0.01
296 4 0.00
297 20 0.01
298 25 0.01
299 37 0.01
300 24 0.01
301 50 0.02
302 3 0.00
303 7 0.00
304 44 0.02
305 67 0.02
306 176 0.06
307 165 0.06
308 87 0.03
309 118 0.04
310 204 0.07
311 298 0.10
312 33 0.01
313 50 0.02
314 139 0.05
315 280 0.10
316 274 0.09
317 395 0.14
318 207 0.07
319 6 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (309 bp):
TTCTTTTCAGATTGGGCACCATAAACACATTCCCTCATTAGGATACATGATATTGATGCTTTGGT
TTGCAAGAAAGCTTTTCTTCACACCATTTTCTTAAATCAAAGTTCATCCTTAAATGAGACAAACA
TGGATTCTATTAATGATCTCATTCTTTTCAAGATTGGGCACCATAAACATAGTTCCCTTATTAGA
TACACGATATTGATGATTTGCTTTCGCAAGGAAAGCTTTTCTTTCCACTATTTTCCATAAAATCA
AAGTTCATCTCTTAAATGAGACAAACATGGATTCTCGTAATAGTCTCCA
Found at i:1789609 original size:159 final size:156
Alignment explanation
Indices: 1788741--1789980 Score: 628
Period size: 159 Copynumber: 7.8 Consensus size: 156
1788731 ACGAACATGA
* * * ** *
1788741 ATTCTCATAATAATCCCCATTC-TTTCAAGATTAGGCACCATAAACACATTCTTCTCATTAGGAT
1 ATTCTCATAATAAT-CTCATTCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATT-GGAT
* * * * * * *
1788805 ACATGATAGTGATGCTTTGATTTTGCAAG-AAAGGCTTTTCTTCCCACCACTTTTC-ATAGAGTC
64 ACATGATATTGATGCTTTGGTTTTGCAAGAAAAGG-ATTTCTTTCCACCA-TTTTCTTTAAAATC
* * * * *
1788868 TAAA-TTCATGCATCAAATGAGACAAACCTGG
127 -AAAGTTCCT-CTTCAAATGAAACAAACTTAG
* * * ** *
1788899 ATT-TTAGTAATGATCTTCATTCTTTTTGA-GATTGGGCACCATAAACCCGTTCT-CTTCCTTAG
1 ATTCTCA-TAATAATC-TCATTC-TTTTCATGATTGGGCACCATAAACATGTTCTAC-TCATT-G
* * * *** * *
1788961 GATACATGATATTAATGTTTTGCTTTTGCAAGAAAATCTTTTCTTTGCC-CCATTATCCTTAAAA
61 GATACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTTT-CCACCATTTTCTTTAAAA
* ** ** *
1789025 TCAAAGTTCATCCCCTAAATGAGTCAAACATAG
125 TCAAAGTTCCTCTTC-AAATGAAACAAACTTAG
* * * * ** ** *
1789058 TTTCTCATAATAGTCTCCATTCTTTTCGA-GATTGGGAACCAAAAACACATTCCCCTCTTTGAGA
1 ATTCTCATAATAATCT-CATTCTTTTC-ATGATTGGGCACCATAAACATGTTCTACTCATTG-GA
* * * ** * ** * ** *
1789122 TAAATGACATTGATGCTTTGGTGTCACAAAAAAAGCTTTTCTTTGCACCATTTTCAATAGAATCA
63 TACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTTTCCACCATTTTCTTTAAAATCA
* * *
1789187 AAGTTTGTCC-CTT-GAATGAGACAAACCTAG
128 AAG--T-TCCTCTTCAAATGAAACAAACTTAG
* * * * * * *
1789217 ATTGTCATAACAATCTCCA-TCTTTTCTACGATTAGGCACCATTAACAAGTTCT-CTTTATTGCT
1 ATTCTCATAATAATCT-CATTCTTTTC-ATGATTGGGCACCATAAACATGTTCTAC-TCATTG--
* * * * * ** * * ** *
1789280 GGTAAATGATATTGTTGCTTTGATTTCATG-AAAAAAAGCTTTTTTTTCTAGTATTTT-TCTTAG
61 GATACATGATATTGATGCTTTGGTTT--TGCAAGAAAAGGATTTCTTTCCACCATTTTCT-TTAA
* * * * * * *
1789343 AATCGAAGCTCGTCCCTCAAATGAGATAAATTTAG
123 AATCAAAGTTCCT-CTTCAAATGAAACAAACTTAG
* ** * * * *
1789378 ATTGTCAT-A-AATCTGCATGT-TTTTTGTTATTGGGCACCATAAATATGTTATCCTCATTCGGA
1 ATTCTCATAATAATCT-CAT-TCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATT-GGA
** * * *
1789440 TACACAATATTGATGCTTTGGGTTTGCAAGAAAAGGATTTCTTTCCACTATTTTCTTTATAATCA
63 TACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTTTCCACCATTTTCTTTAAAATCA
**
1789505 AAGTTCCTCTATCAAATGAAAGGAACTTAG
128 AAGTTCCTCT-TCAAATGAAACAAACTTAG
* * * *
1789535 ATTCTCATAATAATCATCATTCATTTCCTAATTTGGCACCATAAACATGTTCTACTCATTAGGAT
1 ATTCTCATAATAATC-TCATTCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATT-GGAT
* * * * *
1789600 ACATGATATTGATGCTTCGATTTTACAA-AAAAAGCTTCTCTTTCCACCATTTT-TCTTAAAAT-
64 ACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATT-TCTTTCCACCATTTTCT-TTAAAATC
** * * *
1789662 TTA-TT-C-C-TCAAGTGAGACAAACTTGG
127 AAAGTTCCTCTTCAAATGAAACAAACTTAG
* * * *
1789688 ATTCTCATAAAAATCTCCATTCTTTTCATGATTGGGCTCCATAAACACGTTCTACTGATTGGAAT
1 ATTCTCATAATAATCT-CATTCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATTGG-AT
* * * * *
1789753 ACATGATATTAATTCTTTGCTTTTGCAAGAAAAGGATTTCTTTTCACCATTTTCTTTACAATCAA
64 ACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTTTCCACCATTTTCTTTAAAATCAA
* * *
1789818 AGTTCCTTTTGTCAAATGACATAAACTTAG
129 AGTTCC-TCT-TCAAATGAAACAAACTTAG
* * *
1789848 ATTCTCAGAATAATCTC-TATCTTTTCGTGATTGGGCACCATAAACATGTTCTTCTCATTGGGAT
1 ATTCTCATAATAATCTCAT-TCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATT-GGAT
* * * ** * ** *
1789912 ACATGATGTTGATGTTTTGGCTTCCCAAGAAAA-GCTTT-TTGTTGACCTATTTTCCTTAAAATC
64 ACATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTT-TCCACC-ATTTTCTTTAAAATC
1789975 AAAGTT
127 AAAGTT
1789981 TGTCCCACAA
Statistics
Matches: 830, Mismatches: 196, Indels: 111
0.73 0.17 0.10
Matches are distributed among these distances:
152 3 0.00
153 109 0.13
154 9 0.01
155 3 0.00
156 5 0.01
157 63 0.08
158 83 0.10
159 423 0.51
160 74 0.09
161 56 0.07
162 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (156 bp):
ATTCTCATAATAATCTCATTCTTTTCATGATTGGGCACCATAAACATGTTCTACTCATTGGATAC
ATGATATTGATGCTTTGGTTTTGCAAGAAAAGGATTTCTTTCCACCATTTTCTTTAAAATCAAAG
TTCCTCTTCAAATGAAACAAACTTAG
Found at i:1789786 original size:153 final size:153
Alignment explanation
Indices: 1789528--1789805 Score: 355
Period size: 153 Copynumber: 1.8 Consensus size: 153
1789518 AAATGAAAGG
* * * *
1789528 AACTTAGATTCTCATAATAATCATCATTCATTTCCTAATTTGGCACCATAAACATGTTCTACTCA
1 AACTTAGATTCTCATAAAAATCATCATTCATTTCATAATTGGGCACCATAAACACGTTCTACTCA
* *
1789593 TTAGGATACATGATATTGATGCTTCGATTTTACAAAAAAA-GCTTCTCTTTCCACCATTTTTCTT
66 TTAGGATACATGATATTAATGCTTCGATTTTACAAAAAAAGGATT-TCTTTCCACCATTTTTCTT
1789657 AAAATTTATTCCTCAAGTGAGACA
130 AAAATTTATTCCTCAAGTGAGACA
* * * * *
1789681 AACTTGGATTCTCATAAAAATC-TCCATTCTTTTCATGATTGGGCTCCATAAACACGTTCTACTG
1 AACTTAGATTCTCATAAAAATCAT-CATTCATTTCATAATTGGGCACCATAAACACGTTCTACTC
* * * * * *
1789745 ATT-GGAATACATGATATTAATTCTTTGCTTTTGCAAGAAAAGGATTTCTTTTCACCATTTT
65 ATTAGG-ATACATGATATTAATGCTTCGATTTTACAAAAAAAGGATTTCTTTCCACCATTTT
1789806 CTTTACAATC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
152 3 0.03
153 99 0.94
154 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (153 bp):
AACTTAGATTCTCATAAAAATCATCATTCATTTCATAATTGGGCACCATAAACACGTTCTACTCA
TTAGGATACATGATATTAATGCTTCGATTTTACAAAAAAAGGATTTCTTTCCACCATTTTTCTTA
AAATTTATTCCTCAAGTGAGACA
Found at i:1791894 original size:29 final size:29
Alignment explanation
Indices: 1791858--1791936 Score: 158
Period size: 29 Copynumber: 2.7 Consensus size: 29
1791848 AAAATATAAT
1791858 GGAATTAAAAGTCAACTAAAATGCAAAAA
1 GGAATTAAAAGTCAACTAAAATGCAAAAA
1791887 GGAATTAAAAGTCAACTAAAATGCAAAAA
1 GGAATTAAAAGTCAACTAAAATGCAAAAA
1791916 GGAATTAAAAGTCAACTAAAA
1 GGAATTAAAAGTCAACTAAAA
1791937 CATTGGAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.18
Consensus pattern (29 bp):
GGAATTAAAAGTCAACTAAAATGCAAAAA
Found at i:1792796 original size:10 final size:10
Alignment explanation
Indices: 1792777--1792807 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1792767 ATCTCATTTT
1792777 TCACTGTTCA
1 TCACTGTTCA
*
1792787 TCACTATTCA
1 TCACTGTTCA
1792797 TCACTGTTCA
1 TCACTGTTCA
1792807 T
1 T
1792808 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1792829 original size:21 final size:22
Alignment explanation
Indices: 1792795--1792850 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1792785 CATCACTATT
1792795 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1792817 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1792838 CATCACTGTTCAT
1 CATCACTGTTCAT
1792851 CATTGTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1792850 original size:53 final size:54
Alignment explanation
Indices: 1792785--1792968 Score: 164
Period size: 53 Copynumber: 3.3 Consensus size: 54
1792775 TTTCACTGTT
*
1792785 CATCACTATTCATCACTGTTCATGTATCGATACATCACT-TTCATGTATCGATA
1 CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCATGTATCGATA
* *
1792838 CATCACTGTTCATCATTGTT-ACTGTTCATACTATTCACGTATCACTATTCATGTATCGATAA
1 CATCACTGTTCATCACTGTTCA-TG-T-AT-CGA-T-AC--ATCACTATTCATGTATCGAT-A
* * **
1792900 TAATCACTGTTCATCACTATTCATGTATCGAT--A-CACTATAAATAGTATCGATA
1 -CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCAT-GTATCGATA
1792953 CATCACTGTTCA-CACT
1 CATCACTGTTCATCACT
1792969 ATTTAATAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
51 4 0.04
52 12 0.11
53 29 0.27
54 10 0.09
55 2 0.02
56 2 0.02
57 1 0.01
58 2 0.02
59 1 0.01
60 8 0.07
61 15 0.14
62 2 0.02
63 19 0.18
64 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCATGTATCGATA
Found at i:1792921 original size:34 final size:34
Alignment explanation
Indices: 1792817--1792932 Score: 115
Period size: 34 Copynumber: 3.6 Consensus size: 34
1792807 TGTATCGATA
*
1792817 CATCACT-TTCATGTATCGAT-A-CATCACTGTT
1 CATCACTATTCATGTATCGATAATAATCACTGTT
* * * *
1792848 CATCATTGTT-ACTGT-TC-ATACTATTCAC-G-T
1 CATCACTATTCA-TGTATCGATAATAATCACTGTT
1792878 -ATCACTATTCATGTATCGATAATAATCACTGTT
1 CATCACTATTCATGTATCGATAATAATCACTGTT
1792911 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
1792933 CACTATAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
29 10 0.15
30 6 0.09
31 19 0.28
32 10 0.15
33 1 0.01
34 21 0.31
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (34 bp):
CATCACTATTCATGTATCGATAATAATCACTGTT
Found at i:1795158 original size:84 final size:84
Alignment explanation
Indices: 1794998--1795158 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
1794988 ACTCAAAGAA
* * *
1794998 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAAAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTGAAAAAAAAATAAATGAATTAGAGAAGAG
* *
1795063 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* * *
1795082 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC-TTGAAAAA-AAAATAAATGAATTAGAGAAG
1795143 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
1795159 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 13 0.20
84 41 0.63
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTGAAAAAAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:1796689 original size:13 final size:13
Alignment explanation
Indices: 1796671--1796695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1796661 TTTTCCAGAT
1796671 TGTATCGATACAA
1 TGTATCGATACAA
1796684 TGTATCGATACA
1 TGTATCGATACA
1796696 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1798488 original size:10 final size:10
Alignment explanation
Indices: 1798469--1798499 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1798459 ATCTCATTTT
1798469 TCACTGTTCA
1 TCACTGTTCA
*
1798479 TCACTATTCA
1 TCACTGTTCA
1798489 TCACTGTTCA
1 TCACTGTTCA
1798499 T
1 T
1798500 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1798521 original size:21 final size:22
Alignment explanation
Indices: 1798487--1798542 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1798477 CATCACTATT
1798487 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1798509 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1798530 CATCACTGTTCAT
1 CATCACTGTTCAT
1798543 CATTGTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1798542 original size:53 final size:54
Alignment explanation
Indices: 1798477--1798660 Score: 164
Period size: 53 Copynumber: 3.3 Consensus size: 54
1798467 TTTCACTGTT
*
1798477 CATCACTATTCATCACTGTTCATGTATCGATACATCACT-TTCATGTATCGATA
1 CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCATGTATCGATA
* *
1798530 CATCACTGTTCATCATTGTT-ACTGTTCATACTATTCACGTATCACTATTCATGTATCGATAA
1 CATCACTGTTCATCACTGTTCA-TG-T-AT-CGA-T-AC--ATCACTATTCATGTATCGAT-A
* * **
1798592 TAATCACTGTTCATCACTATTCATGTATCGAT--A-CACTATAAATAGTATCGATA
1 -CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCAT-GTATCGATA
1798645 CATCACTGTTCA-CACT
1 CATCACTGTTCATCACT
1798661 ATTTAATAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
51 4 0.04
52 12 0.11
53 29 0.27
54 10 0.09
55 2 0.02
56 2 0.02
57 1 0.01
58 2 0.02
59 1 0.01
60 8 0.07
61 15 0.14
62 2 0.02
63 19 0.18
64 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
CATCACTGTTCATCACTGTTCATGTATCGATACATCACTATTCATGTATCGATA
Found at i:1798613 original size:34 final size:34
Alignment explanation
Indices: 1798509--1798624 Score: 115
Period size: 34 Copynumber: 3.6 Consensus size: 34
1798499 TGTATCGATA
*
1798509 CATCACT-TTCATGTATCGAT-A-CATCACTGTT
1 CATCACTATTCATGTATCGATAATAATCACTGTT
* * * *
1798540 CATCATTGTT-ACTGT-TC-ATACTATTCAC-G-T
1 CATCACTATTCA-TGTATCGATAATAATCACTGTT
1798570 -ATCACTATTCATGTATCGATAATAATCACTGTT
1 CATCACTATTCATGTATCGATAATAATCACTGTT
1798603 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
1798625 CACTATAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
29 10 0.15
30 6 0.09
31 19 0.28
32 10 0.15
33 1 0.01
34 21 0.31
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (34 bp):
CATCACTATTCATGTATCGATAATAATCACTGTT
Found at i:1804964 original size:20 final size:20
Alignment explanation
Indices: 1804916--1804965 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1804906 ATGGTCTAGG
*
1804916 ATCAATACATGAACTCATGT
1 ATCAATACATAAACTCATGT
**
1804936 ATCGCTACATAAACTCATGT
1 ATCAATACATAAACTCATGT
1804956 A-CTAATACAT
1 ATC-AATACAT
1804966 TTACACATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (20 bp):
ATCAATACATAAACTCATGT
Found at i:1808111 original size:29 final size:29
Alignment explanation
Indices: 1808064--1808122 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1808054 ATATAAAGGT
* *
1808064 AAGGAATTAAAAATGAACTAAAACACTAA
1 AAGGAATTAAAAATCAACTAAAAAACTAA
*
1808093 AAGGAATTAAAAGTCAACTAAAAAACTAA
1 AAGGAATTAAAAATCAACTAAAAAACTAA
1808122 A
1 A
1808123 CATCCCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (29 bp):
AAGGAATTAAAAATCAACTAAAAAACTAA
Found at i:1810482 original size:30 final size:30
Alignment explanation
Indices: 1810446--1810525 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
1810436 GAGGAGGGAT
*
1810446 GATAGGAGGAGAGACAGGAGAGATAGTAGA
1 GATAGGAGGAGAGACAGGAGAGATAATAGA
1810476 GATAGGAGGAGAGACAGGAGAGATAATAGA
1 GATAGGAGGAGAGACAGGAGAGATAATAGA
*
1810506 GAGAGGAGG-GATGACAGGAG
1 GATAGGAGGAGA-GACAGGAG
1810526 GAGGAGAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 2 0.04
30 45 0.96
ACGTcount: A:0.42, C:0.04, G:0.45, T:0.09
Consensus pattern (30 bp):
GATAGGAGGAGAGACAGGAGAGATAATAGA
Found at i:1810485 original size:21 final size:21
Alignment explanation
Indices: 1810461--1810500 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1810451 GAGGAGAGAC
* *
1810461 AGGAGAGATAGTAGAGATAGG
1 AGGAGAGACAGGAGAGATAGG
1810482 AGGAGAGACAGGAGAGATA
1 AGGAGAGACAGGAGAGATA
1810501 ATAGAGAGAG
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:0.45, C:0.03, G:0.42, T:0.10
Consensus pattern (21 bp):
AGGAGAGACAGGAGAGATAGG
Found at i:1816788 original size:9 final size:9
Alignment explanation
Indices: 1816762--1816822 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1816752 GGATGATATG
1816762 AGGAGAGAT
1 AGGAGAGAT
*
1816771 AGGAAAGAT
1 AGGAGAGAT
*
1816780 AGTAGAGAT
1 AGGAGAGAT
* *
1816789 AGAAGGGAT
1 AGGAGAGAT
*
1816798 --GACAGA-
1 AGGAGAGAT
1816804 AGGAGAGAT
1 AGGAGAGAT
1816813 AGGAGAGAT
1 AGGAGAGAT
1816822 A
1 A
1816823 ATAGAGAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 5 0.12
9 32 0.80
ACGTcount: A:0.48, C:0.02, G:0.39, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1816790 original size:42 final size:41
Alignment explanation
Indices: 1816741--1816853 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 41
1816731 AAGAGAAAGA
* *
1816741 AGAGATAGGAGGGATGATATGAGGAGAGATAGGAAAGATAGT
1 AGAGATAGAAGGGATGATA-GAGGAGAGATAGGAAAGATAAT
* *
1816783 AGAGATAGAAGGGATGACAGAAGGAGAGATAGGAGAGATAAT
1 AGAGATAGAAGGGATGATAG-AGGAGAGATAGGAAAGATAAT
*
1816825 AGAGAGAGAAGGGATGATAGGAGGAGAGA
1 AGAGATAGAAGGGATGATA-GAGGAGAGA
1816854 AGAAGATGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.42, T:0.12
Consensus pattern (41 bp):
AGAGATAGAAGGGATGATAGAGGAGAGATAGGAAAGATAAT
Found at i:1825652 original size:30 final size:30
Alignment explanation
Indices: 1825618--1825697 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
1825608 TTCTCTCCTC
* *
1825618 CTCCTGTCATC-CCTCCTCTCTCTATTATCT
1 CTCCTGTC-TCTCCTCCTATCTCTACTATCT
1825648 CTCCTGTCTCTCCTCCTATCTCTACTATCT
1 CTCCTGTCTCTCCTCCTATCTCTACTATCT
1825678 CTCCTGTCTCTCCTCCTATC
1 CTCCTGTCTCTCCTCCTATC
1825698 ATCCCTCCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 2 0.04
30 45 0.96
ACGTcount: A:0.09, C:0.45, G:0.04, T:0.42
Consensus pattern (30 bp):
CTCCTGTCTCTCCTCCTATCTCTACTATCT
Found at i:1825669 original size:21 final size:21
Alignment explanation
Indices: 1825643--1825682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1825633 CTCTCTCTAT
* *
1825643 TATCTCTCCTGTCTCTCCTCC
1 TATCTCTACTATCTCTCCTCC
1825664 TATCTCTACTATCTCTCCT
1 TATCTCTACTATCTCTCCT
1825683 GTCTCTCCTC
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:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (21 bp):
TATCTCTACTATCTCTCCTCC
Found at i:1832101 original size:21 final size:21
Alignment explanation
Indices: 1832073--1832120 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1832063 GAAACTATCA
*
1832073 AAGAAAGATGAGGATTGCTGG
1 AAGAAAGATGAGGATTACTGG
*
1832094 AGGAAAGATGAGGATTACTGG
1 AAGAAAGATGAGGATTACTGG
1832115 AAGAAA
1 AAGAAA
1832121 TAGTGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.35, T:0.17
Consensus pattern (21 bp):
AAGAAAGATGAGGATTACTGG
Found at i:1832442 original size:13 final size:14
Alignment explanation
Indices: 1832412--1832444 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1832402 ATGATTAGAG
1832412 TTTGA-ATTTGAAA
1 TTTGACATTTGAAA
1832425 TTTGACATTTGAAA
1 TTTGACATTTGAAA
1832439 -TTGACA
1 TTTGACA
1832445 GGAATTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (14 bp):
TTTGACATTTGAAA
Found at i:1832766 original size:21 final size:20
Alignment explanation
Indices: 1832717--1832772 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1832707 TACAATAAGC
**
1832717 CTTA-GTATCGATATGTTCA
1 CTTATGTATCGATACATTCA
1832736 CTTATGTATCGATACATTCA
1 CTTATGTATCGATACATTCA
* *
1832756 CTTGTTGTATCAATACA
1 CTT-ATGTATCGATACA
1832773 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.13
20 16 0.52
21 11 0.35
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (20 bp):
CTTATGTATCGATACATTCA
Found at i:1833317 original size:44 final size:44
Alignment explanation
Indices: 1833268--1833404 Score: 238
Period size: 44 Copynumber: 3.1 Consensus size: 44
1833258 CTGTTATTTT
*
1833268 GGTTTAATTAAGAATTGAGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1833312 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
* * *
1833356 GGTTTAATTAAAAATTGGGCTTGTTAGCACAATAAGTTCATTAA
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1833400 GGTTT
1 GGTTT
1833405 GTGTTAATGT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
Found at i:1833999 original size:24 final size:21
Alignment explanation
Indices: 1833975--1834018 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1833965 GAAGAAGAAG
*
1833975 AAGAAGAAAGAATATAAAAAA
1 AAGAAGAAAGAATACAAAAAA
1833996 AAGAAGAAAGAATACAAAAAA
1 AAGAAGAAAGAATACAAAAAA
1834017 AA
1 AA
1834019 CCAGCATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAGAAGAAAGAATACAAAAAA
Found at i:1834003 original size:3 final size:3
Alignment explanation
Indices: 1833946--1833982 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1833936 TTTTCACCAA
1833946 AAG AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1833983 AGAATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1834725 original size:42 final size:42
Alignment explanation
Indices: 1834666--1834760 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
1834656 CTGAAAGGAA
* **
1834666 GGATGATAAGAGGAGAGATAGGAGTGATAATAGAGAAAAGAG
1 GGATGATAGGAGGAGAGATAGGACAGATAATAGAGAAAAGAG
* *
1834708 GGATGATAGGAGGAGAGATAGGACAGATAATAGAGAGAGGAG
1 GGATGATAGGAGGAGAGATAGGACAGATAATAGAGAAAAGAG
1834750 GGATGATAGGA
1 GGATGATAGGA
1834761 AGAGGAGAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.44, C:0.01, G:0.41, T:0.14
Consensus pattern (42 bp):
GGATGATAGGAGGAGAGATAGGACAGATAATAGAGAAAAGAG
Found at i:1840768 original size:12 final size:11
Alignment explanation
Indices: 1840746--1840821 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1840736 AGAGAAAGAA
*
1840746 GAGAGAGGAGG
1 GAGATAGGAGG
1840757 GATGATAGGAGG
1 GA-GATAGGAGG
*
1840769 AGAGACAGGA--
1 -GAGATAGGAGG
*
1840779 GAGATAGTA--
1 GAGATAGGAGG
1840788 GAGATAGGAGG
1 GAGATAGGAGG
1840799 GATGATAGGAGG
1 GA-GATAGGAGG
*
1840811 AGAGACAGGAG
1 -GAGATAGGAG
1840822 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1840778 original size:24 final size:24
Alignment explanation
Indices: 1840745--1840830 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1840735 AAGAGAAAGA
*
1840745 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1840769 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1840787 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1840811 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1840831 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1840797 original size:42 final size:42
Alignment explanation
Indices: 1840736--1840854 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1840726 TAGCCCTCAA
* *
1840736 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1840778 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1840820 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1840855 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1847515 original size:42 final size:42
Alignment explanation
Indices: 1847459--1847577 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1847449 TTCTTCTCTC
* * *
1847459 CTCCTTCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1847501 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1847543 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1847578 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1847518 original size:12 final size:11
Alignment explanation
Indices: 1847492--1847567 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1847482 TCTATTATCT
*
1847492 CTCCTGTCTCTC
1 CTCCTATCTC-C
1847504 CTCCTATCATCC
1 CTCCTATC-TCC
1847516 CTCCTATCT--
1 CTCCTATCTCC
*
1847525 CTACTATCT--
1 CTCCTATCTCC
*
1847534 CTCCTGTCTCTC
1 CTCCTATCTC-C
1847546 CTCCTATCATCC
1 CTCCTATC-TCC
*
1847558 CTCCTCTCTC
1 CTCCTATCTC
1847568 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1847519 original size:24 final size:24
Alignment explanation
Indices: 1847483--1847568 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1847473 CCTCCTCTCT
* *
1847483 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1847507 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1847528 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1847549 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1847569 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1847543 original size:18 final size:18
Alignment explanation
Indices: 1847474--1847544 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1847464 TCTGTCATCC
* *
1847474 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1847492 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1847514 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1847534 CTCCTGTCTCT
1 CTCCTGTCTCT
1847545 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1864193 original size:29 final size:28
Alignment explanation
Indices: 1864112--1864243 Score: 120
Period size: 28 Copynumber: 4.6 Consensus size: 28
1864102 ACAGCTATTG
* * *
1864112 TGGGCTTTAAAGAGGTGCCATTGACTCA
1 TGGGCTTTAAAAAGGTGCCACTGACTTA
* * * *
1864140 TGGGCTTTAAAAGGGTGCTAGTGACTTT
1 TGGGCTTTAAAAAGGTGCCACTGACTTA
*
1864168 TGGGCTTTGAAAAAGGTGCCACTGACTTG
1 TGGGCTTT-AAAAAGGTGCCACTGACTTA
* **
1864197 TGGGCTTTGAAAAGGTTGCCACCAACTTA
1 TGGGCTTTAAAAAGG-TGCCACTGACTTA
*
1864226 TGTGGACTTCAAAAAGGT
1 TG-GG-CTTTAAAAAGGT
1864244 TGTCACCAAC
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 36 0.43
29 36 0.43
30 3 0.04
31 9 0.11
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGGGCTTTAAAAAGGTGCCACTGACTTA
Found at i:1864241 original size:31 final size:31
Alignment explanation
Indices: 1864206--1864265 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1864196 GTGGGCTTTG
1864206 AAAAGGTTGCCACCAACTTATGTGGACTTCA
1 AAAAGGTTGCCACCAACTTATGTGGACTTCA
* *
1864237 AAAAGGTTGTCACCAACTTGTGTGGACTT
1 AAAAGGTTGCCACCAACTTATGTGGACTT
1864266 TGACTGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAAGGTTGCCACCAACTTATGTGGACTTCA
Found at i:1869002 original size:28 final size:28
Alignment explanation
Indices: 1868924--1869005 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
1868914 ATTAAAAAAT
* * *
1868924 AAGAAAGATC-AAGGTAGTGAAATCAAC
1 AAGAAATATCAAAGGAAGAGAAATCAAC
* * *
1868951 AAGAAATATGAAGAGAAACA-AAAT-AAGC
1 AAGAAATATCAA-AGGAAGAGAAATCAA-C
1868979 AAGAAATATCAAAGGAAGAGAAATCAA
1 AAGAAATATCAAAGGAAGAGAAATCAA
1869006 TGAAGGGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
27 15 0.37
28 21 0.51
29 5 0.12
ACGTcount: A:0.60, C:0.09, G:0.20, T:0.12
Consensus pattern (28 bp):
AAGAAATATCAAAGGAAGAGAAATCAAC
Found at i:1869083 original size:15 final size:14
Alignment explanation
Indices: 1869063--1869093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1869053 AATAACTATC
1869063 TTTTTTTCTTTTCTT
1 TTTTTTTCTTTT-TT
1869078 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
1869092 TT
1 TT
1869094 GGAAGATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:1870218 original size:67 final size:67
Alignment explanation
Indices: 1870105--1870426 Score: 254
Period size: 67 Copynumber: 4.9 Consensus size: 67
1870095 AACTGGGTTA
* * * * * *
1870105 CCACCAACTTATGTAGATTTTGAAAAGGTTT-GATTGCCACTAACTTGTGTAGACTTTGACTGGA
1 CCACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTG-CACTAACTTGTGTGGACTTTGACTGGA
1870169 GTG
65 GTG
* * *
1870172 CCACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTGCACTGACTTGTGTGGACTCTGAAT-GAG
1 CCACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTGCACTAACTTGTGTGGACTTTGACTGGA-
1870236 GTG
65 GTG
* * * * *
1870239 CCACCAACTCGTGTGAACTTTGAAAAAGTTTGG-TTCCTATTGACTTGTGTGGACTTTGACTAGG
1 CCACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTGC-ACTAACTTGTGTGGACTTTGACT-GG
1870303 -GTG
64 AGTG
* * * * ** * *
1870306 CTC-GCAACTCGTGT-GACTTTG-AAAA----GGTTGGCACCAACTCATGTGGACTTTAACTGGG
1 C-CACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTGCACTAACTTGTGTGGACTTTGACTGGA
1870364 GTG
65 GTG
* * * * *
1870367 CCACTAACTTGTGTCGACTTTGGAAAAGGTTTGG-TTGCCACCAACTTATGTGGACTTTGA
1 CCACCAACTTGTGTGGACTTT-GAAAAAGTTTGGTTTG-CACTAACTTGTGTGGACTTTGA
1870427 AAAAGGTTTA
Statistics
Matches: 206, Mismatches: 32, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
60 3 0.01
61 31 0.15
62 8 0.04
63 1 0.00
64 3 0.01
65 4 0.02
66 11 0.05
67 117 0.57
68 27 0.13
69 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (67 bp):
CCACCAACTTGTGTGGACTTTGAAAAAGTTTGGTTTGCACTAACTTGTGTGGACTTTGACTGGAG
TG
Found at i:1870296 original size:36 final size:35
Alignment explanation
Indices: 1870178--1870297 Score: 104
Period size: 36 Copynumber: 3.5 Consensus size: 35
1870168 AGTGCCACCA
*
1870178 ACTTGTGTGGACTTTGAAAAAGTTTGGTTTGCACTG
1 ACTTGTGTGGACTTTGAAAAAGTTTGG-TTCCACTG
* ** * **
1870214 ACTTGTGTGGACTCTG---AA-TGAGGTGCCACCA
1 ACTTGTGTGGACTTTGAAAAAGTTTGGTTCCACTG
* * *
1870245 ACTCGTGTGAACTTTGAAAAAGTTTGGTTCCTATTG
1 ACTTGTGTGGACTTTGAAAAAGTTTGGTTCC-ACTG
1870281 ACTTGTGTGGACTTTGA
1 ACTTGTGTGGACTTTGA
1870298 CTAGGGTGCT
Statistics
Matches: 61, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
31 17 0.28
32 3 0.05
33 2 0.03
34 2 0.03
35 6 0.10
36 31 0.51
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (35 bp):
ACTTGTGTGGACTTTGAAAAAGTTTGGTTCCACTG
Found at i:1870423 original size:37 final size:37
Alignment explanation
Indices: 1870365--1870604 Score: 150
Period size: 37 Copynumber: 6.9 Consensus size: 37
1870355 TTAACTGGGG
*
1870365 TGCCACTAACTTGTGTCGACTTTGGAAAAGGTTTGGT
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* * * *
1870402 TGCCACCAACTTATGTGGACTTTGAAAAAGGTTTAGT
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* * * *
1870439 TGCCACTGATTTGTGTGGACTTT----AA--TTGGGG
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* ** **
1870470 TGCCACCAACTCATGTGGACTTT--AACTGG---GG-
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* ** * *
1870501 TGCCACCAACTCATGTGGACTTT-GAAAATGATT-G-
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* *
1870535 TGCGACTGACTTGTGTGGACTTTGGAAAAGGTTTGGT
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
* * * *
1870572 TGCCACTGACTTGTATGGACTATGAAAAAGGTT
1 TGCCACTAACTTGTGTGGACTTTGGAAAAGGTT
1870605 CTGACTTGTG
Statistics
Matches: 159, Mismatches: 33, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
31 44 0.28
32 5 0.03
33 2 0.01
34 19 0.12
35 8 0.05
36 1 0.01
37 80 0.50
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (37 bp):
TGCCACTAACTTGTGTGGACTTTGGAAAAGGTTTGGT
Found at i:1870487 original size:31 final size:31
Alignment explanation
Indices: 1870452--1870523 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
1870442 CACTGATTTG
*
1870452 TGTGGACTTTAATTGGGGTGCCACCAACTCA
1 TGTGGACTTTAACTGGGGTGCCACCAACTCA
1870483 TGTGGACTTTAACTGGGGTGCCACCAACTCA
1 TGTGGACTTTAACTGGGGTGCCACCAACTCA
1870514 TGTGGACTTT
1 TGTGGACTTT
1870524 GAAAATGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (31 bp):
TGTGGACTTTAACTGGGGTGCCACCAACTCA
Found at i:1870762 original size:55 final size:55
Alignment explanation
Indices: 1870694--1870865 Score: 236
Period size: 55 Copynumber: 3.1 Consensus size: 55
1870684 ATTGAAAAGG
** * * *
1870694 TTTGACATGGGTGTCGATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGAT
1 TTTGACAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACACTGGACTTAAAGAT
* *
1870749 TTTGACAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACACTAGATTTAAAGAT
1 TTTGACAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACACTGGACTTAAAGAT
* * * * *
1870804 TTTGACAAAGGTATCAATATGCTGATTCAAGGCCAGTGACACTGGACTTGAAGAT
1 TTTGACAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACACTGGACTTAAAGAT
1870859 TTTGACA
1 TTTGACA
1870866 GATTTTGACA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 103 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (55 bp):
TTTGACAAAGGTGTCAATGTGCTGATTCAAGGCTAGCGACACTGGACTTAAAGAT
Found at i:1875697 original size:12 final size:12
Alignment explanation
Indices: 1875678--1875745 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 12
1875668 TTCTCTATTA
1875678 TCTC-TCCTATC
1 TCTCTTCCTATC
1875689 TCTCTTCCTATC
1 TCTCTTCCTATC
1875701 TCTACTATCCCTCTTATC
1 TCT-CT-T--C-C-TATC
*
1875719 TCTCCTCCTATC
1 TCTCTTCCTATC
1875731 ATC-CTTCCTATC
1 -TCTCTTCCTATC
1875743 TCT
1 TCT
1875746 TCTTTCTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
11 6 0.13
12 22 0.48
13 5 0.11
14 2 0.04
16 2 0.04
17 2 0.04
18 7 0.15
ACGTcount: A:0.12, C:0.43, G:0.00, T:0.46
Consensus pattern (12 bp):
TCTCTTCCTATC
Found at i:1875701 original size:21 final size:21
Alignment explanation
Indices: 1875676--1875754 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
1875666 TTTTCTCTAT
1875676 TATCTCTCCTATCTCTCTTCC
1 TATCTCTCCTATCTCTCTTCC
* * *
1875697 TATCTCTACTATCCCTCTT-A
1 TATCTCTCCTATCTCTCTTCC
*
1875717 TCTCTCCTCCTATCATC-CTTCC
1 TATCT-CTCCTATC-TCTCTTCC
* *
1875739 TATCTCTTCTTTCTCT
1 TATCTCTCCTATCTCT
1875755 TTGAGGGCTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
20 6 0.14
21 33 0.75
22 5 0.11
ACGTcount: A:0.11, C:0.41, G:0.00, T:0.48
Consensus pattern (21 bp):
TATCTCTCCTATCTCTCTTCC
Found at i:1875703 original size:30 final size:30
Alignment explanation
Indices: 1875650--1875730 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
1875640 CTTCTCTCCT
* * *
1875650 CCTCCTATCATC-CCTCTTTTCTCTATTATC
1 CCTCCTATC-TCTCCTCCTATCTCTACTATC
* *
1875680 TCTCCTATCTCTCTTCCTATCTCTACTATC
1 CCTCCTATCTCTCCTCCTATCTCTACTATC
*
1875710 CCTCTTATCTCTCCTCCTATC
1 CCTCCTATCTCTCCTCCTATC
1875731 ATCCTTCCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 2 0.05
30 40 0.95
ACGTcount: A:0.12, C:0.42, G:0.00, T:0.46
Consensus pattern (30 bp):
CCTCCTATCTCTCCTCCTATCTCTACTATC
Found at i:1877575 original size:44 final size:44
Alignment explanation
Indices: 1877526--1877618 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
1877516 TTGTTAATTT
*
1877526 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATATGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
*
1877570 GGTTTAATTAAGAATTGGGGTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1877614 GGTTT
1 GGTTT
1877619 GTGTTAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
Found at i:1884060 original size:103 final size:106
Alignment explanation
Indices: 1883942--1884137 Score: 258
Period size: 103 Copynumber: 1.9 Consensus size: 106
1883932 AAAATTATGA
*
1883942 AAATATTTAGAAACAAAAAGAAAATTTGA-TTTTTTTGTGAAGAA-TAGGATT-G-G-ATCCCCT
1 AAATATTTAGAAACAAAAAGAAAATTTGATTTTTTTTGTGAAGAACAAGG-TTGGTGTATCCCCT
*
1884002 CGTAGTAGTGGGATTAGAGTTTCCCCAAAGCCAAAGATTTTAG
65 CGGAGTAGTGGGATTAGAGTTT-CCCAAAGCCAAAGATTTTAG
* ** * * *
1884045 AAATATTTAGGAACAAGGAGAAAATTTGATTTTTTTTTTTAAGAACAAGGTTGGTGTATCCCCTT
1 AAATATTTAGAAACAAAAAGAAAATTTGATTTTTTTTGTGAAGAACAAGGTTGGTGTATCCCCTC
*
1884110 GGAGTAGTGGGGTTAGAGTTTCCCAAAG
66 GGAGTAGTGGGATTAGAGTTTCCCAAAG
1884138 TGTTGAATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
103 26 0.33
104 15 0.19
105 4 0.05
106 8 0.10
107 26 0.33
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (106 bp):
AAATATTTAGAAACAAAAAGAAAATTTGATTTTTTTTGTGAAGAACAAGGTTGGTGTATCCCCTC
GGAGTAGTGGGATTAGAGTTTCCCAAAGCCAAAGATTTTAG
Found at i:1884535 original size:66 final size:65
Alignment explanation
Indices: 1884405--1884527 Score: 192
Period size: 66 Copynumber: 1.9 Consensus size: 65
1884395 TCATCCAAAG
* *
1884405 GCTTTATGTGGTGATGAGGTACTGTTGGAACTTGACAACGTTCAATGTAAAAATATTCCAAAAAT
1 GCTTTATGTGGTGATGAGGTACTATTAGAACTTGACAACGTTCAATGTAAAAATATTCCAAAAAT
* * *
1884470 GCTTTATGTGGTGGATGAGGTACTATTAGAACTTGACAAGGTTCAGTGTTAAAATATT
1 GCTTTATGTGGT-GATGAGGTACTATTAGAACTTGACAACGTTCAATGTAAAAATATT
1884528 TTAAAAATCC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
65 12 0.23
66 40 0.77
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (65 bp):
GCTTTATGTGGTGATGAGGTACTATTAGAACTTGACAACGTTCAATGTAAAAATATTCCAAAAAT
Found at i:1884580 original size:69 final size:69
Alignment explanation
Indices: 1884481--1884619 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
1884471 CTTTATGTGG
* * * *
1884481 TGGATGAGGTACTATTAGAACTTGACAAGGTTCAGTGTTAAAATATTTTAAAAATCCTAAAAAAT
1 TGGATGAGGTACTATTAGAACTTGACAAGGTTCAATATAAAAATATTTCAAAAATCCTAAAAAAT
1884546 CACC
66 CACC
* * * *
1884550 TGGATGAGGTATTATTGGAATTTGACAAGGTTCAATATAAAAATATTTCAAAAATCTTAAAAAAT
1 TGGATGAGGTACTATTAGAACTTGACAAGGTTCAATATAAAAATATTTCAAAAATCCTAAAAAAT
1884615 CACC
66 CACC
1884619 T
1 T
1884620 TTTAGGTAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (69 bp):
TGGATGAGGTACTATTAGAACTTGACAAGGTTCAATATAAAAATATTTCAAAAATCCTAAAAAAT
CACC
Found at i:1887546 original size:144 final size:141
Alignment explanation
Indices: 1887317--1887850 Score: 413
Period size: 146 Copynumber: 3.7 Consensus size: 141
1887307 AGACGGACGT
* ** * * * *
1887317 GGTGCCACAAGCTTGTGTGGGCTTTGGGATAAGTAAGAAAAAGAGTCCAGTTCTTTATGGACTCC
1 GGTGCCACTAGCTTGTG-CAGCTTTGAG-TAGGTAAGAAAAAGAGTCCAGCTCTTTGTGGACT-C
** * ** * * * * *
1887382 AATA-GCCAGGCACCACTAGCTTTTATGGGCTTTGAAGTAGGTAAGAAAAAGTATCTTTCTCTTT
63 AGGAGGCTAGGTGCCATTAGCTTGTGTGGGCTTTGAAGTAGGCAAGAAAAAGT-TC-TACTCTTT
1887446 GAGTACTAGAATAGATA
126 GAG-ACTAGAATAGATA
* *
1887463 GGTGCCACTAGCTTGTGCATGCTTTGAGTAGGTAAGAAAAGGAGTCCATCTCTTTGT-GACTCA-
1 GGTGCCACTAGCTTGTGCA-GCTTTGAGTAGGTAAGAAAAAGAGTCCAGCTCTTTGTGGACTCAG
* * *
1887526 GATGGCTGGGTGCTATTAGCTTGTGTGGGCTTAGAAGTAGGCCAA-AAAAAGGGTTCTACTCTTT
65 GA-GGCTAGGTGCCATTAGCTTGTGTGGGCTTTGAAGTAGG-CAAGAAAAA--GTTCTACTCTTT
*
1887590 GAAGACTAGAGTAGATA
126 G-AGACTAGAATAGATA
* *
1887607 GGTGCCA-TCAGTTTGTGTGAGCTTT-AGGATAGGTAAGAAAAAGAGTCCAGCTCTTTGTGGACT
1 GGTGCCACT-AGCTTGTG-CAGCTTTGA-G-TAGGTAAGAAAAAGAGTCCAGCTCTTTGTGGACT
* * * * * *
1887670 GAGGAGGCTAGGTGCCATCAGCTTGTGTGGGCTTTAAAATAGGCAAGCAAAAGTGTCCTACTTTT
62 CAGGAGGCTAGGTGCCATTAGCTTGTGTGGGCTTTGAAGTAGGCAAGAAAAAGT-T-CTACTCTT
*
1887735 TGAGGATTA-AAGTAGATA
125 TGA-GACTAGAA-TAGATA
* * * * * *
1887753 GGTGCTACCAGCCTGTGCAGGCTTTGTAGTAGGTAAGAAAATGCA-TCAAGCTCTTTGTGGACTA
1 GGTGCCACTAGCTTGTGCA-GCTTTG-AGTAGGTAAGAAAAAG-AGTCCAGCTCTTTGTGGACTC
* * *
1887817 AGGTA-GATAAGTGCCACTAG-TTGTGTGGGCTTTG
63 AGG-AGGCTAGGTGCCATTAGCTTGTGTGGGCTTTG
1887851 TGGCAAGTAA
Statistics
Matches: 314, Mismatches: 50, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
142 1 0.00
143 4 0.01
144 79 0.25
145 78 0.25
146 146 0.46
147 5 0.02
148 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (141 bp):
GGTGCCACTAGCTTGTGCAGCTTTGAGTAGGTAAGAAAAAGAGTCCAGCTCTTTGTGGACTCAGG
AGGCTAGGTGCCATTAGCTTGTGTGGGCTTTGAAGTAGGCAAGAAAAAGTTCTACTCTTTGAGAC
TAGAATAGATA
Found at i:1887623 original size:73 final size:73
Alignment explanation
Indices: 1887407--1887757 Score: 222
Period size: 73 Copynumber: 4.8 Consensus size: 73
1887397 CTAGCTTTTA
* * * *
1887407 TGGGCTTT-GAAGTAGGTAAG-AAAA-AGTATCTTTCTCTTTGAGTACTAGAATAGATAGGTGCC
1 TGGGCTTTAGAA-TAGGCAAGAAAAAGAGT-TC-TACTCTTTGAGGACTAGAGTAGATAGGTGCC
1887469 A-CTAGCTTGTG
63 ATC-AGCTTGTG
*** * * * * * * * * *
1887480 CATGCTTT-GAGTAGGTAAGAAAAGGAG-TCCATCTCTTTG-TGACTCAGA-TGGCTGGGTGCTA
1 TGGGCTTTAGAATAGGCAAGAAAAAGAGTTCTA-CTCTTTGAGGACT-AGAGTAGATAGGTGCCA
*
1887541 TTAGCTTGTG
64 TCAGCTTGTG
* *
1887551 TGGGC-TTAGAAGTAGGCCAA-AAAAAGGGTTCTACTCTTTGAAGACTAGAGTAGATAGGTGCCA
1 TGGGCTTTAGAA-TAGG-CAAGAAAAAGAGTTCTACTCTTTGAGGACTAGAGTAGATAGGTGCCA
*
1887614 TCAGTTTGTG
64 TCAGCTTGTG
* * * * * * *
1887624 TGAGCTTTAGGATAGGTAAGAAAAAGAG-TCCAGCTCTTTGTGGACT-GAGGAGGCTAGGTGCCA
1 TGGGCTTTAGAATAGGCAAGAAAAAGAGTTCTA-CTCTTTGAGGACTAGAGTA-GATAGGTGCCA
1887687 TCAGCTTGTG
64 TCAGCTTGTG
* * * * * * *
1887697 TGGGCTTTAAAATAGGCAAGCAAAAGTGTCCTACTTTTTGAGGATTAAAGTAGATAGGTGC
1 TGGGCTTTAGAATAGGCAAGAAAAAGAGTTCTACTCTTTGAGGACTAGAGTAGATAGGTGC
1887758 TACCAGCCTG
Statistics
Matches: 208, Mismatches: 53, Indels: 34
0.71 0.18 0.12
Matches are distributed among these distances:
70 2 0.01
71 24 0.12
72 49 0.24
73 121 0.58
74 12 0.06
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (73 bp):
TGGGCTTTAGAATAGGCAAGAAAAAGAGTTCTACTCTTTGAGGACTAGAGTAGATAGGTGCCATC
AGCTTGTG
Found at i:1890384 original size:14 final size:14
Alignment explanation
Indices: 1890362--1890394 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1890352 AAAGCTAATA
*
1890362 TTTGCCATTCTCCT
1 TTTGGCATTCTCCT
1890376 TTTGGCATTCTCCT
1 TTTGGCATTCTCCT
1890390 TTTGG
1 TTTGG
1890395 TTGATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.15, T:0.52
Consensus pattern (14 bp):
TTTGGCATTCTCCT
Found at i:1891442 original size:44 final size:44
Alignment explanation
Indices: 1891393--1891485 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
1891383 TTGTTATTTT
*
1891393 GGTTTAATTAAGAATTAGGCTTATTAGCACAATAAGTCCATTAA
1 GGTTTAATTAAGAATTAGGCTTATTAGCACAATAAATCCATTAA
* * *
1891437 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAATCCATTAG
1 GGTTTAATTAAGAATTAGGCTTATTAGCACAATAAATCCATTAA
1891481 GGTTT
1 GGTTT
1891486 GTGTTAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (44 bp):
GGTTTAATTAAGAATTAGGCTTATTAGCACAATAAATCCATTAA
Found at i:1892070 original size:18 final size:19
Alignment explanation
Indices: 1892033--1892078 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1892023 GAAGAAGAAG
1892033 AAAAAGAAAGAATACAAAA
1 AAAAAGAAAGAATACAAAA
*
1892052 AAAAAGTAAGAATAC-AAA
1 AAAAAGAAAGAATACAAAA
1892070 AAAAAGAAA
1 AAAAAGAAA
1892079 AAAAACTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (19 bp):
AAAAAGAAAGAATACAAAA
Found at i:1892739 original size:22 final size:22
Alignment explanation
Indices: 1892714--1892783 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
1892704 AGAGAAAGAA
1892714 GAGAGAGGAGGGATGATAAAAG
1 GAGAGAGGAGGGATGATAAAAG
*
1892736 GAGAGA-TAGGAGA-GATAATAA-
1 GAGAGAGGAGG-GATGATAA-AAG
* * *
1892757 -AGAGAGGAAGGATGACAAGAG
1 GAGAGAGGAGGGATGATAAAAG
1892778 GAGAGA
1 GAGAGA
1892784 AGAAGATGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 8 0.22
21 14 0.38
22 15 0.41
ACGTcount: A:0.49, C:0.01, G:0.41, T:0.09
Consensus pattern (22 bp):
GAGAGAGGAGGGATGATAAAAG
Found at i:1892740 original size:24 final size:24
Alignment explanation
Indices: 1892708--1892757 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1892698 CCTCAAAGAG
* *
1892708 AAAGAAGAGAGAGGAGGGATGATA
1 AAAGAAGAGAGAGGAGAGATAATA
* *
1892732 AAAGGAGAGATAGGAGAGATAATA
1 AAAGAAGAGAGAGGAGAGATAATA
1892756 AA
1 AA
1892758 GAGAGGAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.10
Consensus pattern (24 bp):
AAAGAAGAGAGAGGAGAGATAATA
Found at i:1898172 original size:42 final size:42
Alignment explanation
Indices: 1898113--1898195 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
1898103 ATGACGAGCA
* *
1898113 TGCATTGGTGCCACATCAGAAAGAATCTCATCCTTGTAGTTT
1 TGCATTGGTGCCACATCACAAAGAACCTCATCCTTGTAGTTT
1898155 TGCATTGGTGCCACATCACAAAGAACCTCATCCTTGTAGTT
1 TGCATTGGTGCCACATCACAAAGAACCTCATCCTTGTAGTT
1898196 GCCAATAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (42 bp):
TGCATTGGTGCCACATCACAAAGAACCTCATCCTTGTAGTTT
Found at i:1901660 original size:13 final size:13
Alignment explanation
Indices: 1901642--1901668 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1901632 ACATTATGCT
1901642 TTGTATCGATACA
1 TTGTATCGATACA
1901655 TTGTATCGATACA
1 TTGTATCGATACA
1901668 T
1 T
1901669 GAAGCTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1901731 original size:12 final size:13
Alignment explanation
Indices: 1901714--1901743 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1901704 CGATACATTG
1901714 TACATTGTAT-GA
1 TACATTGTATCGA
1901726 TACATTGTATCGA
1 TACATTGTATCGA
1901739 TACAT
1 TACAT
1901744 AATGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1901739 original size:32 final size:32
Alignment explanation
Indices: 1901698--1901765 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
1901688 CTACCACTGT
1901698 TTGTATCGATACAT-TGTACATTGTAT-GATACA
1 TTGTATCGATACATATG-A-ATTGTATCGATACA
1901730 TTGTATCGATACATAATGAATTGTATCGATACA
1 TTGTATCGATACAT-ATGAATTGTATCGATACA
1901763 TTG
1 TTG
1901766 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
32 21 0.64
33 10 0.30
34 2 0.06
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (32 bp):
TTGTATCGATACATATGAATTGTATCGATACA
Found at i:1905777 original size:52 final size:52
Alignment explanation
Indices: 1905707--1905827 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1905697 GAAAATTTAT
*
1905707 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1905759 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1905811 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1905828 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1905840 original size:52 final size:51
Alignment explanation
Indices: 1905707--1905847 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1905697 GAAAATTTAT
1905707 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1905759 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1905811 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1905848 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1905854 original size:13 final size:13
Alignment explanation
Indices: 1905836--1905860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1905826 CAAAGATCAG
1905836 TGTATCGATACAA
1 TGTATCGATACAA
1905849 TGTATCGATACA
1 TGTATCGATACA
1905861 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1905944 original size:13 final size:13
Alignment explanation
Indices: 1905926--1905950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1905916 CAAAAAAATA
1905926 TGTATCGATACAT
1 TGTATCGATACAT
1905939 TGTATCGATACA
1 TGTATCGATACA
1905951 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1905946 original size:33 final size:33
Alignment explanation
Indices: 1905904--1905970 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1905894 AGTAGCTTAA
1905904 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1905937 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1905970 A
1 A
1905971 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1907012 original size:49 final size:49
Alignment explanation
Indices: 1906896--1907457 Score: 700
Period size: 49 Copynumber: 11.7 Consensus size: 49
1906886 AGATGTCAAC
* * *
1906896 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
1906948 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
1906997 GTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATGAAGATGCCCAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1907046 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
1907095 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1907144 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1907193 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1907242 ATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1907285 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1907334 ATGCTGATTCAGGGCCAGCTATATTGGGCTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1907377 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA-
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1907425 GATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 G-TGCTGATTCAAGGCCAGCTATATTGGACTTA
1907458 GAAGGGTTGC
Statistics
Matches: 438, Mismatches: 59, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
43 76 0.17
45 1 0.00
47 1 0.00
48 1 0.00
49 324 0.74
51 1 0.00
52 34 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:1907079 original size:98 final size:98
Alignment explanation
Indices: 1906830--1907457 Score: 839
Period size: 98 Copynumber: 6.4 Consensus size: 98
1906820 AAAAGTGATA
* * * * * * *
1906830 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTGAAGATGAGAAAAAAGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G----AAGGTGCCAA
* * *
1906895 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
1906935 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
1907000 CTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1907035 AAGATGCCCATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1907100 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
1907133 ATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1907198 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
1907231 AAGATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* * * *
1907290 GATTCAAGGCCAGCGATATTGGACTTAAAGGTG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1907323 AAGATGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
1907382 GATTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1907415 AAGATGCCAAGATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1907458 GAAGGGTTGC
Statistics
Matches: 484, Mismatches: 36, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
92 170 0.35
98 226 0.47
100 4 0.01
101 42 0.09
105 4 0.01
107 38 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:1907501 original size:33 final size:35
Alignment explanation
Indices: 1907457--1907526 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1907447 TATTGGGCTT
1907457 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1907491 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1907525 AG
1 AG
1907527 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1907550 original size:38 final size:36
Alignment explanation
Indices: 1907511--1908464 Score: 675
Period size: 34 Copynumber: 28.3 Consensus size: 36
1907501 CACCGACTTG
* *
1907511 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
1907547 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1907582 TGTGGGCTTTAAAAGAAAGAAAAAAAAAAAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAG---G--------GAAAAAGA-GTGCCACGGAGT
* * * *
1907630 TATGGAC--TCAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
*
1907664 TATGGGC-TTAAAA--G-----GA-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1907691 TGTGGGC-TTAAAA--G-----GA-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1907718 TGTGGGC-TTAGAA-GGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
** *
1907752 TGTGGGC-TTAGGA-GGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1907786 TGTGGGCTTT-------AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1907815 CGTGGGCTTTGAACA--GAAGAAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* *
1907849 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1907883 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1907917 TGTGGGCTTT---------AAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1907944 CGTGGGCTTTGAACA--GAAGAAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* *
1907978 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1908012 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1908046 TGTGGGCTTT---------AAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1908073 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1908110 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
1908144 TGTGGGCTTTGAAAA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1908178 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1908215 TGTGGGCTTTAAAA-AGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1908250 TGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1908283 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1908320 TGTGGGCTTTAAAA-AGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1908355 TGTGGGCTTTAAGA-TGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1908389 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1908423 TGTGGGCTTT-AAA-GG-AAAAG-GTGCCACGAAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1908455 TGTGGGCTTT
1 TGTGGGCTTT
1908465 GAAGAAAAAA
Statistics
Matches: 807, Mismatches: 49, Indels: 128
0.82 0.05 0.13
Matches are distributed among these distances:
26 6 0.01
27 91 0.11
28 2 0.00
29 27 0.03
32 29 0.04
33 24 0.03
34 367 0.45
35 117 0.14
36 43 0.05
37 71 0.09
39 1 0.00
44 1 0.00
46 5 0.01
47 6 0.01
48 17 0.02
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:1907569 original size:34 final size:36
Alignment explanation
Indices: 1907524--1907596 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
1907514 GGGCTTTAGG
*
1907524 AAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
*
1907558 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
1907594 AAG
1 AAG
1907597 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 11 0.31
35 17 0.49
36 7 0.20
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.18
Consensus pattern (36 bp):
AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
Found at i:1907745 original size:34 final size:33
Alignment explanation
Indices: 1907700--1908490 Score: 717
Period size: 34 Copynumber: 23.7 Consensus size: 33
1907690 TTGTGGGCTT
*
1907700 AAAAGGATGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAAGG-TGCCACGGAGTTGTGGGCTTAGAAAGA
* * *
1907734 AAAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGA
1 AAAAG-GTGCCACGGAGTTGTGGGCTTAGAAAGA
* *
1907768 AAAAGAGTGCCACAGAGTTGTGGGCTT--TAA-A
1 AAAAG-GTGCCACGGAGTTGTGGGCTTAGAAAGA
* * *
1907799 AAGA-GTGCCACGGAGTCGTGGGCTTTGAACAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAA-AGA
* * *
1907832 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
* * *
1907866 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
* *
1907900 AGAAGGTGCCACGGAGTTGTGGGCTT-TAAAG-
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGA
* *
1907931 ---A-GTGCCACGGAGTCGTGGGCTTTGAACAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAA-AGA
* * *
1907961 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
* * *
1907995 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
* *
1908029 AGAAGGTGCCACGGAGTTGTGGGCTT-TAAAG-
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGA
* *
1908060 ---A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGA
1 AAAAGGTGCCACGGAGTTGTGGGC-TT-AGAA-AGA
1908092 AAAAGAGTGCCACGGAGTTGTGGGCTTTA-AACAGA
1 AAAAG-GTGCCACGGAGTTGTGGGC-TTAGAA-AGA
*
1908127 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
*
1908161 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAA--GA
*
1908197 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAG-GTGCCACGGAGTTGTGGGC-TTAGAAAGA
*
1908232 AAAAGTGTGCCACAGAGTTGTGGGCTTTA-AAAGA
1 AAAAG-GTGCCACGGAGTTGTGGGC-TTAGAAAGA
*
1908266 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAA--GA
*
1908302 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAG-GTGCCACGGAGTTGTGGGC-TTAGAAAGA
* *
1908337 AAAAGTGTGCCACAGAGTTGTGGGCTTTA-AGATGA
1 AAAAG-GTGCCACGGAGTTGTGGGC-TTAGA-AAGA
* *
1908372 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAG-AAAGA
* * *
1908406 AGAAGGTGCCACGGAGTTGTGGGCTT-TAAAGG
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGA
* *
1908438 AAAAGGTGCCACGAAGTTGTGGGCTTTG-AAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGA
* * *
1908470 AAAA-ATGCCACTGAGTCGTGG
1 AAAAGGTGCCACGGAGTTGTGG
1908491 ACTTTGAGAA
Statistics
Matches: 664, Mismatches: 52, Indels: 85
0.83 0.06 0.11
Matches are distributed among these distances:
27 38 0.06
28 6 0.01
29 21 0.03
30 2 0.00
31 20 0.03
32 47 0.07
33 26 0.04
34 336 0.51
35 84 0.13
36 15 0.02
37 65 0.10
38 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (33 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGA
Found at i:1907905 original size:68 final size:68
Alignment explanation
Indices: 1907700--1908467 Score: 913
Period size: 68 Copynumber: 11.4 Consensus size: 68
1907690 TTGTGGGCTT
* * * * *
1907700 AAAAGGATGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAG-
1 AAAAGG-TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTGA
* *
1907763 GAGGA
64 AAAGA
* *
1907768 AAAAGAGTGCCACAGAGTTGTGGGCTTT--AAA-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAA
1 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAA
*
1907828 CAGA
65 AAGA
* * *
1907832 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1907897 AGA
66 AGA
* * *
1907900 AGAAGGTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAC
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1907958 AGA
66 AGA
* * *
1907961 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1908026 AGA
66 AGA
* *
1908029 AGAAGGTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG-AA
1908087 AGAGA
65 A-AGA
*
1908092 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
1908156 AAAGA
64 AAAGA
* *
1908161 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTG
1908226 AAAAGA
63 AAAAGA
* *
1908232 AAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAA
1908296 AAGGGA
65 AA--GA
* * *
1908302 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-A
1 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTGA
*
1908366 AGATGA
64 A-AAGA
*
1908372 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
*
1908435 AGG
66 AGA
*
1908438 AAAAGGTGCCACGAAGTTGTGGGCTTTGAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1908468 GAAAAAATGC
Statistics
Matches: 623, Mismatches: 43, Indels: 70
0.85 0.06 0.10
Matches are distributed among these distances:
61 73 0.12
62 5 0.01
63 55 0.09
64 30 0.05
65 5 0.01
66 38 0.06
67 5 0.01
68 199 0.32
69 53 0.09
70 45 0.07
71 72 0.12
72 43 0.07
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (68 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
AGA
Found at i:1908211 original size:105 final size:105
Alignment explanation
Indices: 1907927--1908497 Score: 750
Period size: 105 Copynumber: 5.6 Consensus size: 105
1907917 TGTGGGCTTT
* * * * * *
1907927 AAAGAGTGCCACGGAGTCGTGGGCTTTGAACAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
1 AAAGTGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
* * *
1907992 A--GAAGAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGAA
65 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1908030 GAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG----A-GTGCCACGGAGTCGTGGGCTTTGAAAA
1 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* *
1908088 GAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
66 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
1908128 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGTGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1908192 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
65 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1908233 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1908298 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
66 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
1908338 AAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGTGTGCCACAGAGTTGTGGGCTTTAA-AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
* *
1908403 A--GAAGAAG-GTGCCACGGAGTTGTGGGCTTT--AAAGGA
65 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * * * *
1908439 AAAG-GTGCCAC-GAAGTTGTGGGCTTT-GAAGAAAAA-ATGCCACTGAGTCGTGGACTTTGA
1 AAAGTGTGCCACAG-AGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1908498 GAAGAGATTG
Statistics
Matches: 431, Mismatches: 24, Indels: 32
0.89 0.05 0.07
Matches are distributed among these distances:
95 25 0.06
96 1 0.00
97 26 0.06
98 59 0.14
99 1 0.00
100 27 0.06
101 9 0.02
102 21 0.05
103 25 0.06
104 7 0.02
105 175 0.41
106 55 0.13
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (105 bp):
AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:1908474 original size:140 final size:137
Alignment explanation
Indices: 1908056--1908472 Score: 590
Period size: 140 Copynumber: 3.0 Consensus size: 137
1908046 TGTGGGCTTT
*
1908056 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT---AAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
*
1908121 AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCT
63 AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAGGTGCCACGGAGTTGTGGGCT
**
1908186 TTGAAAAGGGAA
126 TTGAAAAAAGAA
* * *
1908198 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1908263 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
65 AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-GG-AAAAG-GTGCCACGGAGTTGTGGGCT
1908328 TT--AAAAAGAA
126 TTGAAAAAAGAA
* *
1908338 AAAGTGTGCCACAGAGTTGTGGGCTTTAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAGA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
* *
1908402 AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACGAAGTTGTGGGCTTTG
64 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTG
1908466 AAGAAAA
129 AA-AAAA
1908473 AATGCCACTG
Statistics
Matches: 253, Mismatches: 14, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
135 21 0.08
136 5 0.02
137 3 0.01
138 7 0.03
139 59 0.23
140 105 0.42
141 5 0.02
142 48 0.19
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (137 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
AAAAGAA
Found at i:1908510 original size:31 final size:31
Alignment explanation
Indices: 1908475--1908557 Score: 157
Period size: 31 Copynumber: 2.7 Consensus size: 31
1908465 GAAGAAAAAA
1908475 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1908506 TGCCACTGAGTCGTGGACTTTGAGAAGATAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1908537 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1908558 AAAAAGGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1909877 original size:14 final size:14
Alignment explanation
Indices: 1909859--1909913 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 14
1909849 CCTTTGCACT
1909859 TTTTTTTTTGTTTTG
1 TTTTTTTTT-TTTTG
1909874 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
1909888 TGTTTTTTTTTGTTTG
1 T-TTTTTTTTT-TTTG
1909904 TTTTTTTTTT
1 TTTTTTTTTT
1909914 CATCATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.16
15 27 0.71
16 5 0.13
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:1909928 original size:1 final size:1
Alignment explanation
Indices: 1909858--1909913 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
1909848 GCCTTTGCAC
* * * * * *
1909858 TTTTTTTTTTGTTTTGTTTTTTTTTTTTTGTGTTTTTTTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1909914 CATCATTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:1916877 original size:52 final size:52
Alignment explanation
Indices: 1916807--1916927 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1916797 GAAAATTTAT
*
1916807 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1916859 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1916911 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1916928 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1916940 original size:52 final size:51
Alignment explanation
Indices: 1916807--1916947 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1916797 GAAAATTTAT
1916807 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1916859 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1916911 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1916948 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1916954 original size:13 final size:13
Alignment explanation
Indices: 1916936--1916960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1916926 CAAAGATCAG
1916936 TGTATCGATACAA
1 TGTATCGATACAA
1916949 TGTATCGATACA
1 TGTATCGATACA
1916961 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1917044 original size:13 final size:13
Alignment explanation
Indices: 1917026--1917050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1917016 CAAAAAAATA
1917026 TGTATCGATACAT
1 TGTATCGATACAT
1917039 TGTATCGATACA
1 TGTATCGATACA
1917051 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1917046 original size:33 final size:33
Alignment explanation
Indices: 1917004--1917070 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1916994 AGTAGCTTAA
1917004 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1917037 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1917070 A
1 A
1917071 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1917403 original size:20 final size:19
Alignment explanation
Indices: 1917403--1917514 Score: 81
Period size: 20 Copynumber: 5.9 Consensus size: 19
1917393 TGTATCAATA
*
1917403 CATTGTATCAATACATTTT
1 CATTGTATCAATACATTCT
1917422 GCATTGTATCAATACATTGCT
1 -CATTGTATCAATACATT-CT
* *
1917443 CATTATATCGATACA----
1 CATTGTATCAATACATTCT
* *
1917458 -AATGTATCGATACATTGCT
1 CATTGTATCAATACATT-CT
* *
1917477 CATTGTATCGATACATTTT
1 CATTGTATCAATACATTCT
*
1917496 ACAATGTATCAATACATTC
1 -CATTGTATCAATACATTC
1917515 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
14 12 0.16
19 1 0.01
20 60 0.81
21 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (19 bp):
CATTGTATCAATACATTCT
Found at i:1917408 original size:13 final size:13
Alignment explanation
Indices: 1917390--1917419 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1917380 ATACATTGTT
1917390 CATTGTATCAATA
1 CATTGTATCAATA
1917403 CATTGTATCAATA
1 CATTGTATCAATA
1917416 CATT
1 CATT
1917420 TTGCATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:1917417 original size:33 final size:33
Alignment explanation
Indices: 1917374--1917440 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1917364 AGTGTCTACA
*
1917374 GTATCGATACATTGTT-CATTGTATCAATACATT
1 GTATCAATACATT-TTGCATTGTATCAATACATT
1917407 GTATCAATACATTTTGCATTGTATCAATACATT
1 GTATCAATACATTTTGCATTGTATCAATACATT
1917440 G
1 G
1917441 CTCATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (33 bp):
GTATCAATACATTTTGCATTGTATCAATACATT
Found at i:1917471 original size:34 final size:34
Alignment explanation
Indices: 1917426--1917491 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
1917416 CATTTTGCAT
1917426 TGTATCAATACATTGCTCATTATATCGATACAAA
1 TGTATCAATACATTGCTCATTATATCGATACAAA
* *
1917460 TGTATCGATACATTGCTCATTGTATCGATACA
1 TGTATCAATACATTGCTCATTATATCGATACA
1917492 TTTTACAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (34 bp):
TGTATCAATACATTGCTCATTATATCGATACAAA
Found at i:1917511 original size:54 final size:54
Alignment explanation
Indices: 1917374--1917511 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
1917364 AGTGTCTACA
* *
1917374 GTATCGATACATTGTTCATTGTATCAATAC-ATTGTATCAATACATTTTGCATT
1 GTATCGATACATTGTTCATTGTATCAATACAAATGTATCAATACATTCTGCATT
* * * * *
1917427 GTATCAATACATTGCTCATTATATCGATACAAATGTATCGATACATTGCT-CATT
1 GTATCGATACATTGTTCATTGTATCAATACAAATGTATCAATACATT-CTGCATT
*
1917481 GTATCGATACATT-TTACAATGTATCAATACA
1 GTATCGATACATTGTT-CATTGTATCAATACA
1917512 TTCAGGCATT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 27 0.39
54 42 0.60
55 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (54 bp):
GTATCGATACATTGTTCATTGTATCAATACAAATGTATCAATACATTCTGCATT
Found at i:1918647 original size:13 final size:13
Alignment explanation
Indices: 1918629--1918654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1918619 CAATTTTTTG
1918629 TGTATCGATACAT
1 TGTATCGATACAT
1918642 TGTATCGATACAT
1 TGTATCGATACAT
1918655 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1919392 original size:21 final size:21
Alignment explanation
Indices: 1919351--1919394 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1919341 CTCCCCTTTA
* *
1919351 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1919372 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1919393 TC
1 TC
1919395 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1921213 original size:13 final size:13
Alignment explanation
Indices: 1921195--1921220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1921185 ATAATCACCC
1921195 TGTATCGATACAA
1 TGTATCGATACAA
1921208 TGTATCGATACAA
1 TGTATCGATACAA
1921221 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1921426 original size:8 final size:8
Alignment explanation
Indices: 1921413--1921438 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1921403 TATTAACAGC
1921413 ATCACAAA
1 ATCACAAA
1921421 ATCACAAA
1 ATCACAAA
1921429 ATCACAAA
1 ATCACAAA
1921437 AT
1 AT
1921439 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1923313 original size:15 final size:15
Alignment explanation
Indices: 1923293--1923322 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1923283 ATTTCTTGTG
*
1923293 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1923308 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1923323 AGACATTTTT
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:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1927400 original size:13 final size:13
Alignment explanation
Indices: 1927382--1927407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1927372 CAATTTTTTG
1927382 TGTATCGATACAT
1 TGTATCGATACAT
1927395 TGTATCGATACAT
1 TGTATCGATACAT
1927408 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1929792 original size:28 final size:27
Alignment explanation
Indices: 1929732--1929803 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
1929722 TTTCACAATT
1929732 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTT-ATC
**
1929760 GGGGATACTCCAACCGGGTTATTT-TC
1 GGGGATACTCCAACCCCGTTATTTATC
*
1929786 GAAGGGATACTCTAACCC
1 G--GGGATACTCCAACCC
1929804 GGGCTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
28 35 0.92
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTATC
Found at i:1929876 original size:28 final size:28
Alignment explanation
Indices: 1929836--1929911 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
1929826 ATTTTTCATA
*
1929836 ATCGAGGGTACTCCAACCCCGTTATGTC
1 ATCGAGGATACTCCAACCCCGTTATGTC
* * *
1929864 ATCGAGGATACTCCAATCCTGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATGTC
1929892 --CGAGGGGATACTCCAACCCC
1 ATCGA--GGATACTCCAACCCC
1929912 AATTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.08
28 37 0.93
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATGTC
Found at i:1929925 original size:107 final size:107
Alignment explanation
Indices: 1929718--1929959 Score: 281
Period size: 107 Copynumber: 2.3 Consensus size: 107
1929708 TAAATTTCTA
* * * *
1929718 AATTTTTCACAATTG-GGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCGGGTTAT
1 AATTTTTCATAATCGAGGG-TACTCCAACCCCGTTATGTCATCGAGGATACTCCAACCGGGTTAT
* * *** * **
1929782 TTTCGAAGGGATACTCTAACCCGGGCTTTGTATCTAAAATATT
65 TTCCGAAGGGATACTCCAACCCCAACTTTATATCTAAAATACC
* *
1929825 GATTTTTCATAATCGAGGGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAATCC-TGTTAT
1 AATTTTTCATAATCGAGGGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAA-CCGGGTTAT
* * *
1929889 TTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAATACC
65 TTCCGAAGGGATACTCCAACCCCAACTTTATATCTAAAATACC
* *
1929932 AATTTTCCATAATCGAGGATACTCCAAC
1 AATTTTTCATAATCGAGGGTACTCCAAC
1929960 TCCGATTTTA
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
107 108 0.96
108 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (107 bp):
AATTTTTCATAATCGAGGGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAACCGGGTTATT
TCCGAAGGGATACTCCAACCCCAACTTTATATCTAAAATACC
Found at i:1929959 original size:51 final size:51
Alignment explanation
Indices: 1929897--1930065 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
1929887 ATTTCCGAGG
* * *
1929897 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCATAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
* *
1929948 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTC-CACAATCGA
*** * * * *
1929999 GGATACTCCAACCCCGGCCTTATTTCTAAAGCATCTATTTTCCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
*
1930050 GGATACTCCAGCCCCG
1 GGATACTCCAACCCCG
1930066 TTGTCATCTC
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
50 4 0.04
51 93 0.92
52 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
Found at i:1930078 original size:102 final size:102
Alignment explanation
Indices: 1929897--1930080 Score: 226
Period size: 102 Copynumber: 1.8 Consensus size: 102
1929887 ATTTCCGAGG
** * * *
1929897 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCATAATCGAGGATACTCCAACTC
1 GGATACTCCAACCCCAACCTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCC
* *
1929962 CGATTTTATTTCCAAAACACCAATTTCTCACAATCGA
66 CGATTTCATCTCCAAAACACCAATTTCTCACAATCGA
** * * * * *
1929999 GGATACTCCAACCCCGGCCTTATTTCTAAAGCATCTATTTTCCACAATCGGGGATACTCCAGCCC
1 GGATACTCCAACCCCAACCTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCC
1930064 CG-TTGTCATCTCCAAAA
66 CGATT-TCATCTCCAAAA
1930081 TATTAAACTT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
101 2 0.03
102 65 0.97
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.29
Consensus pattern (102 bp):
GGATACTCCAACCCCAACCTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAACCC
CGATTTCATCTCCAAAACACCAATTTCTCACAATCGA
Found at i:1931049 original size:9 final size:9
Alignment explanation
Indices: 1931037--1931072 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
1931027 AGCGACACTA
1931037 TCAAAATTC
1 TCAAAATTC
1931046 TCAAAATTC
1 TCAAAATTC
1931055 TCAAAATTC
1 TCAAAATTC
1931064 TCAAAATTC
1 TCAAAATTC
1931073 AAAAAGAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
TCAAAATTC
Found at i:1939980 original size:9 final size:9
Alignment explanation
Indices: 1939966--1940000 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
1939956 CTTTCTTTAA
1939966 AAAAAAAAC
1 AAAAAAAAC
1939975 AAAAAAACAAC
1 -AAAAAA-AAC
1939986 AAAAAAAAC
1 AAAAAAAAC
1939995 AAAAAA
1 AAAAAA
1940001 GAAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 12 0.50
11 3 0.12
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1939980 original size:11 final size:11
Alignment explanation
Indices: 1939964--1940007 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
1939954 TTCTTTCTTT
1939964 AAAAAAAAAAC
1 AAAAAAAAAAC
*
1939975 AAAAAAACAAC
1 AAAAAAAAAAC
1939986 AAAAAAAACAA-
1 AAAAAAAA-AAC
1939997 AAAAGAAAAAA
1 AAAA-AAAAAA
1940008 GAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:1939981 original size:12 final size:12
Alignment explanation
Indices: 1939964--1940006 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1939954 TTCTTTCTTT
*
1939964 AAAAAAA-AAAC
1 AAAAAAACAAAA
*
1939975 AAAAAAACAACA
1 AAAAAAACAAAA
1939987 AAAAAAACAAAA
1 AAAAAAACAAAA
1939999 AAGAAAAA
1 AA-AAAAA
1940007 AGAAAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 7 0.26
12 15 0.56
13 5 0.19
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1941082 original size:62 final size:61
Alignment explanation
Indices: 1940986--1941314 Score: 372
Period size: 55 Copynumber: 5.7 Consensus size: 61
1940976 TTTCTCCTTT
*
1940986 CACTTTTC-AGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGG
1941047 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
1941109 CA-TTTTCTAGTCCTTAAAGAGCAGGATGCCTTT-C----AAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
1941164 CA-TTTTCCAATCCTCAAAGAGCAGGATGCCTTT-C----AAAGCCCACACAAGTTGGTAG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
1941219 CATTTTTTTAGTCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
1941275 CAC-TTCCCAATCCTTAAAGAGCAGGACGCTCTCTCCTTTT
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGC-CTTTCCTTTT
1941315 GCCCTTTAGT
Statistics
Matches: 237, Mismatches: 18, Indels: 26
0.84 0.06 0.09
Matches are distributed among these distances:
52 1 0.00
55 94 0.40
56 44 0.19
59 1 0.00
60 3 0.01
61 40 0.17
62 54 0.23
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:1941260 original size:111 final size:113
Alignment explanation
Indices: 1941020--1941303 Score: 403
Period size: 111 Copynumber: 2.5 Consensus size: 113
1941010 GACGCCTTTT
* *
1941020 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCC-
* * *
1941085 TTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGATG
64 --TAAAGCCCACACAAGTTGGTAGCATTTTCTAGTCCTCAAAGAGCAGGACG
* *
1941137 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGATGCC-TTT-C-A
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTA
*
1941199 AAGCCCACACAAGTTGGTAGCATTTTTTTAGTCCTCAAAGAGCAGGACG
66 AAGCCCACACAAGTTGGTAGCA-TTTTCTAGTCCTCAAAGAGCAGGACG
* * *
1941248 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTTAAAGAGCAGGACGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGC
1941304 TCTCTCCTTT
Statistics
Matches: 153, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
110 22 0.14
111 74 0.48
114 1 0.01
115 3 0.02
116 25 0.16
117 28 0.18
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (113 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTA
AAGCCCACACAAGTTGGTAGCATTTTCTAGTCCTCAAAGAGCAGGACG
Found at i:1941388 original size:94 final size:94
Alignment explanation
Indices: 1941225--1941397 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 94
1941215 GTAGCATTTT
* * *
1941225 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTT
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTC
*
1941290 AAAGAGCAGGACGCTCTCTCCTTTTGCCC
66 AAAGAGCAAGACGCTCTCTCCTTTTGCCC
* * * *
1941319 TTTAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAATTTGGTGGCACCTT-TCAGTCCT
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAATCCT
1941383 CAAAGAGCAAGACGC
65 CAAAGAGCAAGACGC
1941398 CTTTCAAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
94 67 0.96
95 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (94 bp):
TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTC
AAAGAGCAAGACGCTCTCTCCTTTTGCCC
Found at i:1941462 original size:56 final size:55
Alignment explanation
Indices: 1941319--1941569 Score: 369
Period size: 55 Copynumber: 4.5 Consensus size: 55
1941309 CCTTTTGCCC
* * * *
1941319 TTTAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAATTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
1941374 TTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
*
1941430 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTT
*
1941487 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
**
1941542 CCTAGTCCTCAAAGAGCAGGACG-CTTTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTC
1941570 TCCTTTCACC
Statistics
Matches: 182, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
54 4 0.02
55 72 0.40
56 51 0.28
57 55 0.30
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:1941558 original size:262 final size:258
Alignment explanation
Indices: 1941082--1941874 Score: 987
Period size: 262 Copynumber: 3.0 Consensus size: 258
1941072 GACGCCTTTT
* * *
1941082 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGATGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTTAAAGAGCAAGACGCCTTTCAAAG
* *
1941147 CCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG
65 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
*
1941212 TTGGTAGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
130 TTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1941277 CTTCCCAATCCTTAAAGAGCAGGACGCTCTCTCCTTTTGCCCTTTAGTCCTCAAAGAGCAAGATG
195 CTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTT-CCCTTTAGTCCTCAAAGAGCAAGATG
* * *
1941342 CCTTTCAAAGCCCACACAATTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTTAAAGAGCAAGACGCCTTTCAAAG
**
1941407 CCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAA
65 CCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAA
1941472 GTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
129 GTTGGTGGCA-TTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* *
1941537 CACTTCCTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAAGA
193 CACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT-TCCCTTTAGTCCTCAAAGAGCAAGA
1941602 TG
257 TG
* * *
1941604 CCTTTCAAAGCCTACACAAGTCGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGATTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTTAAAGAGCA--A-GA---CGCCTT
* * *** ** * * *
1941669 TTAAAGACCACTTGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCTTTCTCTTTGAAA
59 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAA
** * *
1941734 AGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGC
118 AGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACG-C----CTTTT-AAAGC
** ** * *
1941798 CCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCCTTTCCTTTTCTCCTTT-G
177 CCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTTC-CCTTTAG
1941862 TCCTCAAAGAGCA
241 TCCTCAAAGAGCA
1941875 GCATACACTT
Statistics
Matches: 463, Mismatches: 46, Indels: 32
0.86 0.09 0.06
Matches are distributed among these distances:
260 73 0.16
261 57 0.12
262 156 0.34
264 1 0.00
265 2 0.00
267 19 0.04
268 25 0.05
269 1 0.00
271 23 0.05
272 5 0.01
273 23 0.05
276 20 0.04
277 58 0.13
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (258 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTTAAAGAGCAAGACGCCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
TGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC
TTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTTCCCTTTAGTCCTCAAAGAGCAAGATG
Found at i:1941650 original size:94 final size:94
Alignment explanation
Indices: 1941487--1941669 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
1941477 TGGCATTTTT
* * *
1941487 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTCGGTGGCACTTCCTAGTCCTC
*
1941552 AAAGAGCAGGACGCTTTCTCCTTTCACCC
66 AAAGAGCAGGACGATTTCTCCTTTCACCC
* * *
1941581 TTTAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCTACACAAGTCGGTGGCATTTTCC-AGTCCT
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTCGGTGGCA-CTTCCTAGTCCT
* *
1941645 TAAAGAGCAGGATGATTTCTCCTTT
65 CAAAGAGCAGGACGATTTCTCCTTT
1941670 TAAAGACCAC
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 75 0.95
95 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTCGGTGGCACTTCCTAGTCCTC
AAAGAGCAGGACGATTTCTCCTTTCACCC
Found at i:1941703 original size:61 final size:60
Alignment explanation
Indices: 1941626--1941839 Score: 259
Period size: 61 Copynumber: 3.5 Consensus size: 60
1941616 TACACAAGTC
** * * * *
1941626 GGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGATTTCTCCTTTTAAAGACCACTTGAGTT
1 GGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCT-CTTTTAAAGCCCACATGAGTT
* * **
1941687 GGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCTTTCTCTTTGAAAAGCCCACACAAGTT
1 GGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTT-TAAAGCCCACATGAGTT
*
1941748 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCTTTTCAAAGCCCACATGAGTT
1 GGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCTTTT-AAAGCCCACATGAGTT
* **
1941809 GGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 GGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1941840 CGCCCTTTCC
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
60 4 0.03
61 125 0.94
62 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (60 bp):
GGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTTAAAGCCCACATGAGTT
Found at i:1941807 original size:122 final size:122
Alignment explanation
Indices: 1941610--1941836 Score: 314
Period size: 122 Copynumber: 1.9 Consensus size: 122
1941600 GATGCCTTTC
* ** *
1941610 AAAGCCTACACAAGTCGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGATTTCTCCTTTTAAAG
1 AAAGCCCACACAAGTCGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGATTTCTCCTTTTAAAG
*
1941675 ACCACTTGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCTTTCTCTTTGA
66 ACCACATGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCTTTCTCTTTGA
* * *
1941732 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-T-CTTTTCAA
1 AAAGCCCACACAAGTCGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-ATTTCTCCTTTT-AA
* * **
1941795 AGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
64 AGACCACATGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCA
1941837 GGACGCCCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 5 0.05
122 83 0.91
123 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (122 bp):
AAAGCCCACACAAGTCGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGATTTCTCCTTTTAAAG
ACCACATGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCTTTCTCTTTGA
Found at i:1942637 original size:20 final size:20
Alignment explanation
Indices: 1942612--1942701 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
1942602 TTTTCATAAT
1942612 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
1942632 TTGTATC---A-A---TACA
1 TTGTATCGATACATTGTTCA
1942645 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
1942665 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1942685 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
1942702 ATCGACACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
13 10 0.17
16 2 0.03
17 2 0.03
19 1 0.02
20 42 0.72
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1942646 original size:13 final size:13
Alignment explanation
Indices: 1942630--1942659 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1942620 ATACATTGTT
1942630 CATTGTATCAATA
1 CATTGTATCAATA
*
1942643 CATTGTATCGATA
1 CATTGTATCAATA
1942656 CATT
1 CATT
1942660 TTGCATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:1942654 original size:33 final size:33
Alignment explanation
Indices: 1942612--1942680 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1942602 TTTTCATAAT
1942612 TTGTATCGATACATTGTT-CATTGTATCAATACA
1 TTGTATCGATACATT-TTGCATTGTATCAATACA
*
1942645 TTGTATCGATACATTTTGCATTGTATCGATACA
1 TTGTATCGATACATTTTGCATTGTATCAATACA
1942678 TTG
1 TTG
1942681 CTCATTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (33 bp):
TTGTATCGATACATTTTGCATTGTATCAATACA
Found at i:1942686 original size:53 final size:53
Alignment explanation
Indices: 1942612--1942752 Score: 185
Period size: 53 Copynumber: 2.7 Consensus size: 53
1942602 TTTTCATAAT
* * *
1942612 TTGTATCGATACATTGTTCATTGTATCAATACATTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGATCATTGTATCAATACATTGTATCGACACATTGCT-CA
* *
1942665 TTGTATCGATACATTGCTCATTGTATCGATACATTGTATCGACACATTGCTCA
1 TTGTATCGATACATTGATCATTGTATCAATACATTGTATCGACACATTGCTCA
* ** *
1942718 TTGTATTGATACATTGAAAAATGTATCAATACATT
1 TTGTATCGATACATTGATCATTGTATCAATACATT
1942753 CAGGCATTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 76 0.99
54 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (53 bp):
TTGTATCGATACATTGATCATTGTATCAATACATTGTATCGACACATTGCTCA
Found at i:1942699 original size:13 final size:13
Alignment explanation
Indices: 1942683--1942713 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1942673 ATACATTGCT
*
1942683 CATTGTATCGATA
1 CATTGTATCGACA
1942696 CATTGTATCGACA
1 CATTGTATCGACA
1942709 CATTG
1 CATTG
1942714 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (13 bp):
CATTGTATCGACA
Found at i:1942700 original size:33 final size:33
Alignment explanation
Indices: 1942663--1942733 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1942653 ATACATTTTG
*
1942663 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGACACATTGCTCATTGTATCGATA
*
1942696 CATTGTATCGACACATTGCTCATTGTATTGATA
1 CATTGTATCGACACATTGCTCATTGTATCGATA
1942729 CATTG
1 CATTG
1942734 AAAAATGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
CATTGTATCGACACATTGCTCATTGTATCGATA
Done.