Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001095.1 Hibiscus syriacus cultivar Beakdansim tig00002169_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 842675
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 4
Found at i:798 original size:238 final size:240
Alignment explanation
Indices: 472--1819 Score: 1604
Period size: 238 Copynumber: 5.7 Consensus size: 240
462 GTAACAACAT
*
472 AAATAAAGAAAGGTTTAGA-TACATGATTAAATTATGTCAAATTAAAGTGT-GGGACTAGAGCTT
1 AAATAAAG-AAGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTT
** *
535 AAATTTTAGTGTAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTGT
65 AAATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTAT
* * *
600 AGCTAAAATTGCATGTAGTAGAAGAAATAAAGAATTAAAACTAGACATGGTGTTAAT-TT-TGAA
130 ACCTAAAATTGCATGAAGTAGAAGAAATAAAGAATTAAAACTAGACATGGTATTAATATTCTGAA
663 GTTC-TAATCACATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
195 GTTCATAAT-ACATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
* * ** *
709 AAATAAAGAAGGTTTAGATTACAGGGTTAAATTATACCAAATTAAAATGTGGGGACTAAAGCTTA
1 AAATAAAGAAGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTA
* * * * * *
774 AATTTCAACATAACAGATGGACTAATATCATAATTATGTTAATAAAAAATAATGTTATAATTA-A
66 AATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTATA
* * *
838 ACTAATATTGCATGAAGTAGATA-AAATAAAGAATTAAAACTAGAAATGGTATTAATACTTCTGA
131 CCTAAAATTGCATGAAGTAGA-AGAAATAAAGAATTAAAACTAGACATGGTATTAATA-TTCTGA
* *
902 AGTTCATAATAACATTAAAAGAGTACTTCGAAAATACATAAC-AAACA
194 AGTTCATAAT-ACATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
* *
949 AAATAAAGAAGGTTTAGACTACAAGATTAAATTATGTCAAATTAAA-TGTGGGGACTAAAGCTTA
1 AAATAAAGAAGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTA
* * * * *
1013 AA-TTCAGTATAGCA-ATGGGACAAATATCATAATTATATTAATTAAAAATTAATATC---ATTA
66 AATTTTAGCATAACAGA-GGGACTAATATCATAATTATATTAA-TAAAAAATAATATCATAATTA
* * * * * * *
1073 TACGTAAAATT-CATTGAAGTACAAGAAATAAAGAATCAAAGCTATACATTGTATTAATACTTAT
129 TACCTAAAATTGCA-TGAAGTAGAAGAAATAAAGAATTAAAACTAGACATGGTATTAATA-TTCT
* **
1137 GAAGTTCATAATAGCAACAAAAGAGTACTTTAAAAATACATAACAAAAGA
192 GAAGTTCATAATA-CATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
*
1187 AAATAAAGAATGGTTTAGATTACATCATTAAATTATGTCAAATTAAAGTG-GGGGACT-AAGCTT
1 AAATAAAGAA-GGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTT
* *
1250 AAA-TTTAGCGTAACAGAGGGACTATTATCATAATTATATTAAT-AAAAAT-ATATCATAATTAT
65 AAATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTAT
* * * * *
1312 ATCTAAAATTGCATGATGCT-GAAGAATATAAAGAATT-AAACTAGGCATGGAATTAAAACTTCT
130 ACCTAAAATTGCATGAAG-TAGAAGAA-ATAAAGAATTAAAACTAGACATGGTATTAATA-TTCT
* *
1375 GAAGTTCGTAATAGCATCAAAAGAGTACTTCGAAAAGT-CATAA-TAAAGA
192 GAAGTTCATAATA-CATCAAAAGAGTACTTCGAAAA-TACATAACAAAAGA
* * *
1424 AAATAAAAAAGGGTTTAAATTACAAGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTT
1 AAATAAAGAA-GGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTT
* * * * *
1489 AAATTTTAGC-TTA-ATAGGGA-TAATGTCATAATTATATTAATAAAAAATAATATCTTAATTTT
65 AAATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTAT
* ** * *
1551 ACCTAAAATTGCATGAAATATTAGAAAATAAAGAATTAAAACTAGACGTCGTATTAATACTTCTG
130 ACCTAAAATTGCATGAAGTAGAAG-AAATAAAGAATTAAAACTAGACATGGTATTAATA-TTCTG
* * * *
1616 ATGTTCGTAAT-CTAATCAAAA-AGTACCTCGAAAATACATAACCAAAGA
193 AAGTTCATAATAC--ATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
* * * *
1664 AAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCAAATTAAACTATGGGGACCAAACCTT
1 AAATAAAGAAG-GTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTT
* * **
1729 AAATTTTAGCATAATAGAGGGACTAATATCATAATTATATTAAT-AAAAATAATTTCATAACCAT
65 AAATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTAT
*
1793 ACCTAAAATTGCATGAGGTAGAAGAAA
130 ACCTAAAATTGCATGAAGTAGAAGAAA
1820 ATGAAAGTAT
Statistics
Matches: 949, Mismatches: 122, Indels: 76
0.83 0.11 0.07
Matches are distributed among these distances:
235 5 0.01
236 23 0.02
237 241 0.25
238 253 0.27
239 154 0.16
240 173 0.18
241 39 0.04
242 41 0.04
243 20 0.02
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (240 bp):
AAATAAAGAAGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTA
AATTTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAAATAATATCATAATTATA
CCTAAAATTGCATGAAGTAGAAGAAATAAAGAATTAAAACTAGACATGGTATTAATATTCTGAAG
TTCATAATACATCAAAAGAGTACTTCGAAAATACATAACAAAAGA
Found at i:1685 original size:477 final size:472
Alignment explanation
Indices: 431--1814 Score: 1646
Period size: 477 Copynumber: 2.9 Consensus size: 472
421 AGATATGGTA
* * * *
431 ATAATTAACAT-AAAA-AGTACATCAAAAACACGTAAC-AACATAAATAAAGAAAGGTTTAGATA
1 ATAA-TAACATCAAAAGAGTACTTCGAAAATACATAACAAACA-AAATAAA-AAAGGTTTAGATA
* * *
493 CATGATTAAATTATGTCAAATTAAAGTGT-GGGACTAGAGCTTAAATTTTAG-TGTAACAGAGGG
63 CAAGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTTAGCT-T-A-ATAGGG
* * * *
556 ACTAATATCATAATTATATTAATAAAAAATAATATCATAATTGTAGCTAAAATTGCATGTAGTAG
125 ACTAATATCATAATTATATTAATAAAAAATAATATC-TAATTATACCTAAAATTGCATGAAGTAC
* *
621 AAGAAATAAAGAATTAAAACTAGACATGGTGTTAAT--TTTGAAGTTCTAATCACATCAAAAGAG
189 AAGAAATAAAGAATTAAAACTAGACATCGTATTAATACTTTGAAGTTCTAATCA-ATCAAAAGAG
* * **
684 TACTTCGAAAATACATAACAAAAGAAAATAAAGAAGGTTTAGATTACAGGGTTAAATTATACCAA
253 TACTTCGAAAATACATAACAAAAGAAAATAAAGAAGGTTTAGATTACATGATTAAATTATGTCAA
* * *
749 ATTAAAATGTGGGGACTAAAGCTTAAATTTCAACATAACAGATGGACTAATATCATAATTATGTT
318 ATTAAAATG-GGGGACT-AAGCTTAAATTT-AGCATAACAGAGGGACTAATATCATAATTATATT
* * *
814 AATAAAAAATAATGTTATAATTA-AACTAATATTGCATGAAGTAGATAAAATAAAGAATTAAAAC
380 AAT-AAAAATAATATCATAATTATAACTAAAATTGCATGAAGTAGATAAAATAAAGAATTAAAAC
* *
878 TAGAAATGGTATTAATACTTCTGAAGTTC
444 TAGAAATGGAATTAAAACTTCTGAAGTTC
* *
907 ATAATAACATTAAAAGAGTACTTCGAAAATACATAACAAACAAAATAAAGAAGGTTTAGACTACA
1 ATAATAACATCAAAAGAGTACTTCGAAAATACATAACAAACAAAATAAAAAAGGTTTAGA-TACA
972 AGATTAAATTATGTCAAATTAAA-TGTGGGGACTAAAGCTTAAATTCAGTATAGC--AAT-GGGA
65 AGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATT---T-TAGCTTAATAGGGA
* * *
1033 CAAATATCATAATTATATTAATTAAAAATTAATATC--ATTATACGTAAAATT-CATTGAAGTAC
126 CTAATATCATAATTATATTAA-TAAAAAATAATATCTAATTATACCTAAAATTGCA-TGAAGTAC
* * * *
1095 AAGAAATAAAGAATCAAAGCTATACATTGTATTAATACTTATGAAGTTCATAATAGCAA-CAAAA
189 AAGAAATAAAGAATTAAAACTAGACATCGTATTAATACTT-TGAAGTTC-TAAT--CAATCAAAA
** *
1159 GAGTACTTTAAAAATACATAACAAAAGAAAATAAAGAATGGTTTAGATTACATCATTAAATTATG
250 GAGTACTTCGAAAATACATAACAAAAGAAAATAAAGAA-GGTTTAGATTACATGATTAAATTATG
* * *
1224 TCAAATTAAAGTGGGGGACTAAGCTTAAATTTAGCGTAACAGAGGGACTATTATCATAATTATAT
314 TCAAATTAAAATGGGGGACTAAGCTTAAATTTAGCATAACAGAGGGACTAATATCATAATTATAT
* *
1289 TAATAAAAAT-ATATCATAATTATATCTAAAATTGCATGATGCT-GA-AGAATATAAAGAATT-A
379 TAATAAAAATAATATCATAATTATAACTAAAATTGCATGAAG-TAGATA-AA-ATAAAGAATTAA
**
1350 AACTAGGCATGGAATTAAAACTTCTGAAGTTC
441 AACTAGAAATGGAATTAAAACTTCTGAAGTTC
* * * * *
1382 GTAATAGCATCAAAAGAGTACTTCGAAAAGT-CATAATAAAGAAAATAAAAAAGGGTTTAAATTA
1 ATAATAACATCAAAAGAGTACTTCGAAAA-TACATAACAAACAAAATAAAAAA-GGTTTAGA-TA
1446 CAAGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTTAGCTTAATAGGGA-T
63 CAAGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTTAGCTTAATAGGGACT
* * * **
1510 AATGTCATAATTATATTAATAAAAAATAATATCTTAATTTTACCTAAAATTGCATGAAATATTAG
128 AATATCATAATTATATTAATAAAAAATAATATC-TAATTATACCTAAAATTGCATGAAGTACAAG
* *
1575 AAAATAAAGAATTAAAACTAGACGTCGTATTAATACTTCTGATGTTCGTAATCTAATCAAAA-AG
192 -AAATAAAGAATTAAAACTAGACATCGTATTAATACTT-TGAAGTTC-TAATC-AATCAAAAGAG
* *
1639 TACCTCGAAAATACATAACCAAAGAAAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCA
253 TACTTCGAAAATACATAACAAAAGAAAATAAAGAAG-GTTTAGATTACATGATTAAATTATGTCA
* * *
1704 AATTAAACTAT-GGGGACCAAACCTTAAATTTTAGCATAATAGAGGGACTAATATCATAATTATA
317 AATTAAA--ATGGGGGA-CTAAGCTTAAA-TTTAGCATAACAGAGGGACTAATATCATAATTATA
* ** * *
1768 TTAATAAAAATAATTTCATAACCATACCTAAAATTGCATGAGGTAGA
378 TTAATAAAAATAATATCATAATTATAACTAAAATTGCATGAAGTAGA
1815 AGAAAATGAA
Statistics
Matches: 783, Mismatches: 82, Indels: 81
0.83 0.09 0.09
Matches are distributed among these distances:
473 6 0.01
474 74 0.09
475 125 0.16
476 131 0.17
477 213 0.27
478 112 0.14
479 44 0.06
480 47 0.06
481 31 0.04
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.30
Consensus pattern (472 bp):
ATAATAACATCAAAAGAGTACTTCGAAAATACATAACAAACAAAATAAAAAAGGTTTAGATACAA
GATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTTAGCTTAATAGGGACTAAT
ATCATAATTATATTAATAAAAAATAATATCTAATTATACCTAAAATTGCATGAAGTACAAGAAAT
AAAGAATTAAAACTAGACATCGTATTAATACTTTGAAGTTCTAATCAATCAAAAGAGTACTTCGA
AAATACATAACAAAAGAAAATAAAGAAGGTTTAGATTACATGATTAAATTATGTCAAATTAAAAT
GGGGGACTAAGCTTAAATTTAGCATAACAGAGGGACTAATATCATAATTATATTAATAAAAATAA
TATCATAATTATAACTAAAATTGCATGAAGTAGATAAAATAAAGAATTAAAACTAGAAATGGAAT
TAAAACTTCTGAAGTTC
Found at i:2139 original size:242 final size:241
Alignment explanation
Indices: 1818--3080 Score: 1424
Period size: 242 Copynumber: 5.2 Consensus size: 241
1808 AGGTAGAAGA
* * * * * *
1818 AAATGAAAGTATGGGGACTAAAGCTTAAATTTTAGCGTAATAGAGGGACTAATATCATAATTATA
1 AAATTAAAGTGTGGGGACAAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTATA
* * * * *
1883 ATATTAATAAATAATATCATAATTACACCTAAAATTGCATTAAATAGAAGAAAATAAAGAATTAA
66 TTAATAA-AAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTAA
* * * * *** * * *
1948 AACTATACGTTGTATTGATACTTCTGAAGTTCATAATCTAATTAAAAAGAGTACTTTGAAATTAC
130 AACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCA-TCAAAAGAGTACTTCGAAAATAC
*
2013 ATAACAAAGAAA-AAAGAAGGGTTTAGATTGCATGATTAAATTATGTT
194 ATAACAAAGAAATAAAGAAGGGTTTAGATTACATGATTAAATTATGTT
* * * * *
2060 AAATTAAACTATAGGGACAAAAGCTTAAATTTCAGTATAACAGAGGGACTAATATCATAATGATA
1 AAATTAAAGTGTGGGGACAAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTATA
* * * * * *
2125 TTAATAAAAAATAATTTCTTAATCATACCTAAAATTGCATGAGGTAGAAGAAAATGAAGAATCAA
66 TTAAT-AAAAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTAA
*
2190 AACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACG
130 AACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACA
* * * * *
2255 CAACAAAAGAAAATAAAGATGGATTTAGATTA-TTGGATTAAATATTATGTG
195 TAAC-AAAG-AAATAAAGAAGGGTTTAGATTACAT-GATT-AA-ATTATGTT
* * * * * *
2306 AAATTAAAGTGTGGGGACTAAATCTTAAATTTCAACATAACTGATGGACTAATATCATAATTATT
1 AAATTAAAGTGTGGGGACAAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTATA
* *
2371 TTAATAAAAATAATATCATAATTAGACCTAAAATTGCATGAAGTATAAG-AAATAAAGAATTAAA
66 TTAATAAAAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTAAA
* * * * *
2435 ACTAGACATGGTATTAATACTTTCTGAAGTTCATATTTGCATCAAAAGAGTTCTTCAAAAATACG
131 ACTAGACATGGTATTAATAC-TTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACA
* *
2500 TAACAAAAGAAAATAAAGAAGGGTTTAGAATACATTATTAAATTATGTT
195 TAAC-AAAG-AAATAAAGAAGGGTTTAGATTACATGATTAAATTATGTT
* * *
2549 AAATTAAAGTTTGGGGACTAAAA-CTTAAACTTCAGCATAACA-A-AGACTAATATCATAATTAT
1 AAATTAAAGTGTGGGGAC-AAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTAT
* * * * * *
2611 AATAATTAAAAAT-ATATGACAGTTATACCTAAAATTGCATGAAGTATAAGAAAATAAAAAATTA
65 ATTAA-TAAAAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTA
* * * * * * *
2675 CAAA-TAGACCTGATTTTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGCATTTCAAAAACA
129 -AAACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATA
* *
2739 CATAACAAATAAAATAAAGAAGGGTTTAGATTACATGATTGAA-TATG-T
193 CATAACAAA-GAAATAAAGAAGGGTTTAGATTACATGATTAAATTATGTT
* * * * * * *
2787 CAATTAAAGTGTCGGGACAAAAGCTTAAATTTCA-CATTAGATAAGGACTAATATCATAATTTTA
1 AAATTAAAGTGTGGGGACAAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTATA
* * *
2851 TTAATAAAAATAACATCATAATTATACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAA
66 TTAATAAAAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTAAA
* * * *
2916 ACTAGACATGGTAATAATACTTCTGAAGTTCAT-AGACCAT-TAAAGAGTACTTCGAAAATACAT
131 ACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACAT
* * * *
2979 ACCAAAAAAGAATAAA-AAGGGTTTAGATTACACGATTAAATTATGTC
196 AAC-AAAGA-AATAAAGAAGGGTTTAGATTACATGATTAAATTATGTT
*
3026 AAATTAAAGTGTGGGGA-ATAAAGATTAAATTTCAGCATAATC-GAGGGACTAATAT
1 AAATTAAAGTGTGGGGACA-AAAGCTTAAATTTCAGCATAA-CAGAGGGACTAATAT
3081 GTTACACGCC
Statistics
Matches: 864, Mismatches: 131, Indels: 54
0.82 0.12 0.05
Matches are distributed among these distances:
237 53 0.06
238 56 0.06
239 126 0.15
240 47 0.05
241 118 0.14
242 180 0.21
243 49 0.06
244 57 0.07
245 111 0.13
246 67 0.08
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (241 bp):
AAATTAAAGTGTGGGGACAAAAGCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATTATA
TTAATAAAAATAATATCATAATTATACCTAAAATTGCATGAAGTAGAAGAAAATAAAGAATTAAA
ACTAGACATGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACAT
AACAAAGAAATAAAGAAGGGTTTAGATTACATGATTAAATTATGTT
Found at i:2171 original size:358 final size:355
Alignment explanation
Indices: 1463--2182 Score: 1059
Period size: 358 Copynumber: 2.0 Consensus size: 355
1453 AAATTATGTC
* * * * *
1463 AAATTAAAGTGTGGGGACTAAAGCTTAAATTTTAGCTTAATAGGGATAATGTCATAATTATATTA
1 AAATGAAAGTATGGGGACTAAAGCTTAAATTTTAGCGTAATAGGGATAATATCATAATTATAATA
* ** **
1528 ATAAAAAATAATATCTTAATTTTACCTAAAATTGCATGAAATATTAGAAAATAAAGAATTAAAAC
66 ATAAAAAATAATATCATAATTACACCTAAAATTGCATGAAATAGAAGAAAATAAAGAATTAAAAC
* * *
1593 TAGACGTCGTATTAATACTTCTGATGTTCGTAATCTAATCAAAAAGTACCTCGAAAATACATAAC
131 TAGACGTCGTATTAATACTTCTGAAGTTCATAATCTAATAAAAAAGTACCTCGAAAATACATAAC
* *
1658 CAAAGAAAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCAAATTAAACTATGGGGACCA
196 CAAAGAAAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCAAATTAAACTATAGGGACAA
* * *
1723 AACCTTAAATTTTAGCATAATAGAGGGACTAATATCATAATTATATTAATAAAAATAATTTCATA
261 AACCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATGATATTAATAAAAATAATTTCATA
1788 ACCATACCTAAAATTGCATGAGGTAGAAGA
326 ACCATACCTAAAATTGCATGAGGTAGAAGA
1818 AAATGAAAGTATGGGGACTAAAGCTTAAATTTTAGCGTAATAGAGGGACTAATATCATAATTATA
1 AAATGAAAGTATGGGGACTAAAGCTTAAATTTTAGCGTAAT--AGGGA-TAATATCATAATTATA
* * *
1883 ATATTAATAAATAATATCATAATTACACCTAAAATTGCATTAAATAGAAGAAAATAAAGAATTAA
63 ATAATAAAAAATAATATCATAATTACACCTAAAATTGCATGAAATAGAAGAAAATAAAGAATTAA
* * * * * *
1948 AACTATACGTTGTATTGATACTTCTGAAGTTCATAATCTAATTAAAAAGAGTACTTTGAAATTAC
128 AACTAGACGTCGTATTAATACTTCTGAAGTTCATAATCTAA-TAAAAA-AGTACCTCGAAAATAC
* * *
2013 ATAA-CAAAG-AAA-AAAGAAGGGTTTAGATTGCATGATTAAATTATGTTAAATTAAACTATAGG
191 ATAACCAAAGAAAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCAAATTAAACTATAGG
* *
2075 GACAAAAGCTTAAATTTCAGTATAACAGAGGGACTAATATCATAATGATATTAATAAAAAATAAT
256 GACAAAACCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATGATATTAAT-AAAAATAAT
* *
2140 TTCTTAATCATACCTAAAATTGCATGAGGTAGAAGA
320 TTCATAACCATACCTAAAATTGCATGAGGTAGAAGA
2176 AAATGAA
1 AAATGAA
2183 GAATCAAAAC
Statistics
Matches: 325, Mismatches: 34, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
355 38 0.12
357 100 0.31
358 160 0.49
359 10 0.03
360 17 0.05
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.30
Consensus pattern (355 bp):
AAATGAAAGTATGGGGACTAAAGCTTAAATTTTAGCGTAATAGGGATAATATCATAATTATAATA
ATAAAAAATAATATCATAATTACACCTAAAATTGCATGAAATAGAAGAAAATAAAGAATTAAAAC
TAGACGTCGTATTAATACTTCTGAAGTTCATAATCTAATAAAAAAGTACCTCGAAAATACATAAC
CAAAGAAAATAAAGAAGAGTTTAGATTACATGATTAAATTATGTCAAATTAAACTATAGGGACAA
AACCTTAAATTTCAGCATAACAGAGGGACTAATATCATAATGATATTAATAAAAATAATTTCATA
ACCATACCTAAAATTGCATGAGGTAGAAGA
Found at i:3248 original size:311 final size:310
Alignment explanation
Indices: 2789--3392 Score: 756
Period size: 311 Copynumber: 1.9 Consensus size: 310
2779 GAATATGTCA
* *
2789 ATTAAAGTGTCGGGACAAAAGCTTAAATTTCACATTAGATAAGGACTAATATCATAATTTTATTA
1 ATTAAAGTGTCGGGACAAAAGCTTAAATTTAACATTAGATAAGGACTAATATCATAATTATATTA
* *
2854 ATAAAAATAACATCATAATTATACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAAACT
66 ATAAAAATAACATCACAATTATACCTAAAACTACATGAAGTAGAAGAAAATAAAAAATTAAAACT
* * * *
2919 AGACATGGTAATAATACTTCTGAAGTTCAT-AGACCAT-TAAAGAGTACTTC-GAAAATACATAC
131 AGACATGGTAATAATACTTCTCAAATTCATAAGACCATGAAAAGAGTACTTCAG-AAATACATAA
*
2981 CAAAAA-AGAATAAA-AAGGGTTTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGGAA
195 CAAAAAGA-AACAAAGAAGGGTTTAGATTACACGATTAAATTATGTCAAATTAAAGTGT-GGG-A
**
3044 TAAAGATTAAATTTCAGCATAATC-GAGGGACTAATATGTTACACGCCAATTTTT
257 TAAAGATTAAATTTCAAAATAA-CAGAGGGACTAATATGTTACACGCCAATTTTT
* * * *
3098 ATTAAATTGTGGGGACTAAAGCTTAAATTTAAGCA-TA-ATAAAGAGTCTAATATCATAATTATA
1 ATTAAAGTGTCGGGACAAAAGCTTAAATTTAA-CATTAGAT-AAG-GACTAATATCATAATTATA
* * * * * *
3161 TTAATTAAAAATAATATCACAATTATACTTAAAATTACATGAAGTTGAAGAAAATTAAGAATTAA
63 TTAA-TAAAAATAACATCACAATTATACCTAAAACTACATGAAGTAGAAGAAAATAAAAAATTAA
* * * ** * * *
3226 AACTCGACCTTGTTTTAATACTTCTCAAATTCATAATAGCATGAAAAGAGTACTTCAGAAATTCA
127 AACTAGACATGGTAATAATACTTCTCAAATTCATAAGACCATGAAAAGAGTACTTCAGAAATACA
* * * * *
3291 TAACATAATGAAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCGAATTAAAGTGTGGGT
192 TAACAAAAAGAAACAAAGAAGGGTTTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGA
*
3356 TAAAGCTTAAATTTCAAAATAACAGAGGGACTAATAT
257 TAAAGATTAAATTTCAAAATAACAGAGGGACTAATAT
3393 CATAATTATA
Statistics
Matches: 250, Mismatches: 35, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
308 2 0.01
309 33 0.13
310 23 0.09
311 80 0.32
312 37 0.15
313 32 0.13
314 43 0.17
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (310 bp):
ATTAAAGTGTCGGGACAAAAGCTTAAATTTAACATTAGATAAGGACTAATATCATAATTATATTA
ATAAAAATAACATCACAATTATACCTAAAACTACATGAAGTAGAAGAAAATAAAAAATTAAAACT
AGACATGGTAATAATACTTCTCAAATTCATAAGACCATGAAAAGAGTACTTCAGAAATACATAAC
AAAAAGAAACAAAGAAGGGTTTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGATAAA
GATTAAATTTCAAAATAACAGAGGGACTAATATGTTACACGCCAATTTTT
Found at i:3427 original size:550 final size:547
Alignment explanation
Indices: 2551--3629 Score: 1497
Period size: 550 Copynumber: 2.0 Consensus size: 547
2541 ATTATGTTAA
*
2551 ATTAAAGTTTGGGGACTAAAACTTAAACTTCAGCATAACAAAGACTAATATCATAATTATAATAA
1 ATTAAAGTTTGGGGACTAAAACTTAAACTTAAGCATAACAAAGACTAATATCATAATTATAATAA
* * *
2616 TTAAAAATATATGACAGTTATACCTAAAATTGCATGAAGTATAAGAAAATAAAAAATTACAAATA
66 TTAAAAATATATCACAATTATACCTAAAATTACATGAAGTATAAGAAAATAAAAAATTACAAATA
* * *
2681 GACCTGATTTTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGCATTTCAAAAACACATAACA
131 GACCTGATTTTAATACTTCTCAAATTCATAATAGCATCAAAAGAGCACTTCAAAAACACATAACA
* *
2746 AATAAAATAAAGAAGGGTTTAGATTACATGATTGAATATGTCAATTAAAGTGTCGGGACAAAAGC
196 AATAAAACAAAGAAGGGTTTAGATTACATGATTAAATATGTCAATTAAAGTGTCGGGACAAAAGC
* * * *
2811 TTAAATTTCACATTAGATAAGGACTAATATCATAATTTTATTAATAAAAATAACATCATAATTAT
261 TTAAATTTCAAAATAGACAAGGACTAATATCATAATTATATTAATAAAAATAACATCATAATTAT
2876 ACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAAACTAGACATGGTAATAATACTTCTG
326 ACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAAACTAGACATGG---TAATACTTCTG
* * *
2941 AAGTTCATAG-ACCATTAAA-GAGTACT-TCGAAAATACATACCAAAA-AAGAATAAA-AAGGGT
388 AAGTTCATAGTAACATCAAAGGAGTACTAT-GAAAATACATAACAAAAGAA-AATAAAGAAGGGT
3001 TTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGGAATAAAGA-TTAAATTTCAGCATA
451 TTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGGAATAAA-ACTTAAATTTCAGCATA
* * *
3065 ATCGAGGGACTAATATGTTACACGCCAATTTTT
515 ACCGAGAGACGAATATGTTACACGCCAATTTTT
* * * *
3098 ATTAAA-TTGTGGGGACTAAAGCTTAAATTTAAGCATAATAAAGAGTCTAATATCATAATTATAT
1 ATTAAAGTT-TGGGGACTAAAACTTAAACTTAAGCATAACAAAGA--CTAATATCATAATTATAA
* * *
3162 TAATTAAAAATAATATCACAATTATACTTAAAATTACATGAAGT-TGAAGAAAATTAAGAATTA-
63 TAATTAAAAAT-ATATCACAATTATACCTAAAATTACATGAAGTAT-AAGAAAATAAAAAATTAC
* * * * **
3225 AAACTCGACCTTG-TTTTAATACTTCTCAAATTCATAATAGCATGAAAAGAGTACTTCAGAAATT
126 AAA-TAGACC-TGATTTTAATACTTCTCAAATTCATAATAGCATCAAAAGAGCACTTCAAAAACA
*
3289 CATAACATAATGAAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCGAATTAAAGTGT-G
189 CATAACA-AATAAAACAAAGAAGGGTTTAGATTACATGATTAAA-TATGTC-AATTAAAGTGTCG
**
3353 GG-TTAAAGCTTAAATTTCAAAATA-ACAGAGGGACTAATATCATAATTATATTAATAAAAA-AT
251 GGACAAAAGCTTAAATTTCAAAATAGACA-A-GGACTAATATCATAATTATATTAATAAAAATA-
* * * *
3415 A-AT-ATCATTATACCTTAAATTGCATGAAGTAGAAGAAAATAAAGAATTAAAACTAGACATGGT
313 ACATCATAATTATACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAAACTAGACATGGT
* *
3478 AATACTTTTGAAGTTCATAGTAACATCAAAGGTGTACTATGAAAATACATAACAAAAGAAAATAA
378 AATACTTCTGAAGTTCATAGTAACATCAAAGGAGTACTATGAAAATACATAACAAAAGAAAATAA
*
3543 AGAAGGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGAATAAAACTTAAATTT
443 AGAAGGGTTTAGATTACACGATTAAATTATGTCAAATTAAAGTGTGGGGAATAAAACTTAAATTT
3608 CAGCATAACCGAGAGACGAATA
508 CAGCATAACCGAGAGACGAATA
3630 GGTCAAACCC
Statistics
Matches: 471, Mismatches: 42, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
546 2 0.00
547 57 0.12
548 7 0.01
549 61 0.13
550 237 0.50
551 57 0.12
552 39 0.08
553 11 0.02
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.29
Consensus pattern (547 bp):
ATTAAAGTTTGGGGACTAAAACTTAAACTTAAGCATAACAAAGACTAATATCATAATTATAATAA
TTAAAAATATATCACAATTATACCTAAAATTACATGAAGTATAAGAAAATAAAAAATTACAAATA
GACCTGATTTTAATACTTCTCAAATTCATAATAGCATCAAAAGAGCACTTCAAAAACACATAACA
AATAAAACAAAGAAGGGTTTAGATTACATGATTAAATATGTCAATTAAAGTGTCGGGACAAAAGC
TTAAATTTCAAAATAGACAAGGACTAATATCATAATTATATTAATAAAAATAACATCATAATTAT
ACCTAAAACTGCATGAAGTAGAAGAAAATAAAAAATTAAAACTAGACATGGTAATACTTCTGAAG
TTCATAGTAACATCAAAGGAGTACTATGAAAATACATAACAAAAGAAAATAAAGAAGGGTTTAGA
TTACACGATTAAATTATGTCAAATTAAAGTGTGGGGAATAAAACTTAAATTTCAGCATAACCGAG
AGACGAATATGTTACACGCCAATTTTT
Found at i:3574 original size:236 final size:242
Alignment explanation
Indices: 3098--3609 Score: 630
Period size: 236 Copynumber: 2.1 Consensus size: 242
3088 GCCAATTTTT
* * * * * * * *
3098 ATTAAATTGTGGGGACTAAAGCTTAAATTT-AAGCATAATAAAGAGTCTAATATCATAATTATAT
1 ATTAAAGTGTGGGGAATAAAACTTAAATTTCAA-AATAACAGAGGGACTAATATCATAATTATAT
* * *
3162 TAATTAAAAATAATATCACAATTATACTTAAAATTACATGAAGTTGAAGAAAATTAAGAATTAAA
65 TAATAAAAAATAATAT-ACAATTATACTTAAAATTACATGAAGTAGAAGAAAATAAAGAATTAAA
* * * * * *
3227 ACTCGACCTTGTTTTAATACTTCTCAAATTCATAATAGCATGAAAAGAGTACTTCAGAAATTCAT
129 ACTAGACCATG-TGTAATACTTCTCAAATTCATAATAACATCAAAAGAGTACTTCAGAAATACAT
* *
3292 AACATAATGAAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCGA
193 AACATAAAGAAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCAA
* *
3342 ATTAAAGTGT-GGG-TTAAAGCTTAAATTTCAAAATAACAGAGGGACTAATATCATAATTATATT
1 ATTAAAGTGTGGGGAATAAAACTTAAATTTCAAAATAACAGAGGGACTAATATCATAATTATATT
*
3405 AATAAAAAATAATAT-C-ATTATACCTT-AAATTGCATGAAGTAGAAGAAAATAAAGAATTAAAA
66 AATAAAAAATAATATACAATTATA-CTTAAAATTACATGAAGTAGAAGAAAATAAAGAATTAAAA
* * * * * * *
3467 CTAGA-CATG-GTAATACTTTTGAAGTTCATAGTAACATCAAAGGTGTACTATGA-AAATACATA
130 CTAGACCATGTGTAATACTTCTCAAATTCATAATAACATCAAAAGAGTACT-TCAGAAATACATA
*
3529 ACA-AAAGAAAATAAAGAAGGGTTTAGATTACATGATTAAATTATGTCAA
194 ACATAAAG-AAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCAA
3578 ATTAAAGTGTGGGGAATAAAACTTAAATTTCA
1 ATTAAAGTGTGGGGAATAAAACTTAAATTTCA
3610 GCATAACCGA
Statistics
Matches: 233, Mismatches: 29, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
235 3 0.01
236 91 0.39
237 5 0.02
238 18 0.08
239 43 0.18
240 4 0.02
242 55 0.24
243 5 0.02
244 9 0.04
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (242 bp):
ATTAAAGTGTGGGGAATAAAACTTAAATTTCAAAATAACAGAGGGACTAATATCATAATTATATT
AATAAAAAATAATATACAATTATACTTAAAATTACATGAAGTAGAAGAAAATAAAGAATTAAAAC
TAGACCATGTGTAATACTTCTCAAATTCATAATAACATCAAAAGAGTACTTCAGAAATACATAAC
ATAAAGAAACAAAGAAGGGTTTAGATTACATGATTAAATTATGTCAA
Found at i:4810 original size:29 final size:30
Alignment explanation
Indices: 4740--4816 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
4730 TGACTTTGAC
4740 TGACAGTTGACTTTGACCAAAGTTAATCGT
1 TGACAGTTGACTTTGACCAAAGTTAATCGT
* *
4770 TGACTGTTGACTTTGACCAGAGTTAAT-GT
1 TGACAGTTGACTTTGACCAAAGTTAATCGT
*
4799 TGGCAGTTGACTTTGACC
1 TGACAGTTGACTTTGACC
4817 CAAAAAGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 18 0.42
30 25 0.58
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (30 bp):
TGACAGTTGACTTTGACCAAAGTTAATCGT
Found at i:8042 original size:243 final size:239
Alignment explanation
Indices: 7592--8425 Score: 990
Period size: 240 Copynumber: 3.5 Consensus size: 239
7582 AAATCCCAAC
* * * *
7592 AAATATCGTAATTATACATAAAATTGCATCAAGTATAAGAAAATAAAGAATTAAAACTATACATG
1 AAATATCATAATTATACCTAAAATTGCATGAAGTATAAGAAAATAAAGAATTAAAACTAGACATG
* * * *
7657 GTATTAATATTTCT-AAATTCACAATAGCATCAAAAGAGTA-TTCGAAAATACATAAAAAAAGTA
66 GTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACATAACAAAA-TA
** * * *
7720 AATAAAGAAGCATTTAGATTACAAGATTAAATTATGTTAAATTAAAGTGTAGAGAATAAACCTTA
130 AATAAAGAAATATTTAGATTACAAGATTAAATTATGTCAAATTAAAGTGT-GAGACTAAAGCTTA
** * *
7785 AATTTCTGCATAACATAGGGAATAATATCATATTTATATTAATAAAA
194 AATTTCAACATAACA-AGGGACTAATATCATAATTATATTAATAAAA
* * * *
7832 ATAATATCATAATTACACCTAAAATTGCTTGAAGTAGAAGAAAATAAAGAATTAAAACTATACAT
1 A-AATATCATAATTATACCTAAAATTGCATGAAGTATAAGAAAATAAAGAATTAAAACTAGACAT
* * * *
7897 GGTATTAATACTTCTGAAGTTAATAATAGCATTAAAAGAGTACTTCAAAAATATATAACAAAATA
65 GGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACATAACAAAATA
* * * * * * *
7962 ACATAACGAAATGTTTAGATTACAATATTAAATTAAGTCGAATTAAAGTGTGTTGACTAAAGATT
130 A-ATAAAGAAATATTTAGATTACAAGATTAAATTATGTCAAATTAAAGTGTG-AGACTAAAGCTT
8027 AAATTTCAACATAACAATGGGACTAATATCATAATTATATTAATAAGAAA
193 AAATTTCAACATAACAA-GGGACTAATATCATAATTATATTAAT-A-AAA
8077 AGAATATCATAATTATACCTAAAATTGCATGAAGTAT----AAA-AAAGAATTAAATA-TAGACA
1 A-AATATCATAATTATACCTAAAATTGCATGAAGTATAAGAAAATAAAGAATTAAA-ACTAGACA
* * * * *
8136 TTGTATTAATACTTATGAAGTTCATAATAGAATCAAAAGGGTACTTCGAAAGTACATAACAAAAG
64 TGGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACATAACAAAA-
* * * * *
8201 AAAATAAAG-AATCTTTTAGATTATAGGATTAAATTATGTCAAATTAAAGTGTGGGACTAAAGCT
128 TAAATAAAGAAAT-ATTTAGATTACAAGATTAAATTATGTCAAATTAAAGTGTGAGACTAAAGCT
* * *
8265 TAAATTTCATCATAACAGAGGGACTAATACCATAATTATA-TATTAAAA
192 TAAATTTCAACATAACA-AGGGACTAATATCATAATTATATTAATAAAA
* * *
8313 AAATATTATAATTATTCCTAAGA-TGTCATGAAGTATAAGAAAATAAAGAATTAAAACTAGACAT
1 AAATATCATAATTATACCTAAAATTG-CATGAAGTATAAGAAAATAAAGAATTAAAACTAGACAT
* * *
8377 GATATTAATACTT-TTAAGTTCATAATAGCATCAAAAGAGTGCTTCGAAA
65 GGTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAA
8426 CAACACAACA
Statistics
Matches: 509, Mismatches: 66, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
234 2 0.00
235 29 0.06
236 4 0.01
237 1 0.00
238 3 0.01
239 84 0.17
240 141 0.28
241 77 0.15
242 27 0.05
243 104 0.20
244 1 0.00
245 36 0.07
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (239 bp):
AAATATCATAATTATACCTAAAATTGCATGAAGTATAAGAAAATAAAGAATTAAAACTAGACATG
GTATTAATACTTCTGAAGTTCATAATAGCATCAAAAGAGTACTTCGAAAATACATAACAAAATAA
ATAAAGAAATATTTAGATTACAAGATTAAATTATGTCAAATTAAAGTGTGAGACTAAAGCTTAAA
TTTCAACATAACAAGGGACTAATATCATAATTATATTAATAAAA
Found at i:9072 original size:15 final size:13
Alignment explanation
Indices: 9047--9080 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
9037 AAAAATAAAA
9047 TTTTAAAATATAT
1 TTTTAAAATATAT
9060 TTTTAAAATATAT
1 TTTTAAAATATAT
9073 TTTTAAAA
1 TTTTAAAA
9081 ACATAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTAAAATATAT
Found at i:11655 original size:14 final size:14
Alignment explanation
Indices: 11606--11642 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
11596 AAGTCAATGG
11606 GTTGACTCGAACGA
1 GTTGACTCGAACGA
*
11620 GTTGACTCGGACGA
1 GTTGACTCGAACGA
11634 GTTGACTCG
1 GTTGACTCG
11643 TATGGGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (14 bp):
GTTGACTCGAACGA
Found at i:20171 original size:23 final size:23
Alignment explanation
Indices: 20145--20192 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20135 ATAAAGTACA
*
20145 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
20168 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
20191 AT
1 AT
20193 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:20642 original size:23 final size:23
Alignment explanation
Indices: 20616--20678 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
20606 ATATAACCAC
20616 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
20639 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
20662 TACCTATTACATCATAT
1 TACCTATTACATTATAT
20679 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:21140 original size:34 final size:34
Alignment explanation
Indices: 21100--21165 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
21090 AAGTTGTAGA
* *
21100 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTAGCACCATATGAGAT
21134 TTTTGATTTCCTTTTGCTTAGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTAGCACCATATGAG
21166 CTTTAGATTT
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:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTAGCACCATATGAGAT
Found at i:21461 original size:18 final size:18
Alignment explanation
Indices: 21438--21474 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21428 CGAAATATAT
21438 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
21456 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
21474 A
1 A
21475 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:21935 original size:23 final size:23
Alignment explanation
Indices: 21909--21971 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
21899 ATATAACCAC
21909 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
21932 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
21955 TACCTATTACATCATAT
1 TACCTATTACATTATAT
21972 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:25001 original size:183 final size:183
Alignment explanation
Indices: 24686--25357 Score: 1188
Period size: 183 Copynumber: 3.7 Consensus size: 183
24676 TTAAAATTAC
*
24686 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
24750 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* *
24815 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
24869 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
24933 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACTGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
*
24998 TATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
25052 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
25117 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
25182 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
25235 CGACACTTTTTAACAATGTATCGACACA-TTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
25299 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
25358 ATATGTTGAA
Statistics
Matches: 472, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
182 94 0.20
183 375 0.79
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:26833 original size:3 final size:3
Alignment explanation
Indices: 26825--26905 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
26815 ACTTGTTTGG
* * * **
26825 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
26873 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
26906 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:26842 original size:12 final size:12
Alignment explanation
Indices: 26829--26917 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
26819 GTTTGGATCA
* *
26829 TCATCTTCATCA
1 TCATCGTCATCT
* *
26841 TCATCATCATCA
1 TCATCGTCATCT
* *
26853 TCGTCATCATCT
1 TCATCGTCATCT
* *
26865 TCATCGCCAGCT
1 TCATCGTCATCT
*
26877 TCATCGTCATCA
1 TCATCGTCATCT
26889 TCATCGTCATCT
1 TCATCGTCATCT
*
26901 TCATCGTCAGCT
1 TCATCGTCATCT
26913 TCATC
1 TCATC
26918 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:26848 original size:18 final size:18
Alignment explanation
Indices: 26829--26920 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
26819 GTTTGGATCA
* *
26829 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
26847 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
26865 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
26883 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
26901 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
26919 TC
1 TC
26921 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:26881 original size:36 final size:36
Alignment explanation
Indices: 26841--26917 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
26831 ATCTTCATCA
*
26841 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
26877 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
26913 TCATC
1 TCATC
26918 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:26920 original size:6 final size:6
Alignment explanation
Indices: 26829--26920 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
26819 GTTTGGATCA
* * * * * * * *
26829 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
26877 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
26921 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:29116 original size:198 final size:199
Alignment explanation
Indices: 28382--29936 Score: 2819
Period size: 199 Copynumber: 7.8 Consensus size: 199
28372 TTTAAATTAG
* * *
28382 TATCGACACAAACTATATTAGTGGCGACACATGATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
28447 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
28512 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
28577 AAAA
196 AAAA
* *
28581 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCCCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
28646 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGTAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
28711 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGCTTTCCATTCATTATGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
28776 AAAA
196 AAAA
*
28780 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
28845 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
28910 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
28974 AAAA
196 AAAA
*
28978 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
29043 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGTAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
29108 CAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTATGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
29173 AAAA
196 AAAA
*
29177 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAA-CGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
29241 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
29306 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
29370 AAAA
196 AAAA
*
29374 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
29439 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGAGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
29504 CGACACTTTTTATATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
29569 AAAA
196 AAAA
29573 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
29638 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
29703 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTAATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
29768 AAAA
196 AAAA
* * * *
29772 TAGCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
* * *
29837 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
29902 TTGACACTTTTTATATATGGATCGACACTTTATGG
130 TCGACACTTTTTATATATGGATCGACACTTTATGG
29937 TAAATTTGCC
Statistics
Matches: 1316, Mismatches: 36, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
197 64 0.05
198 456 0.35
199 748 0.57
200 48 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:30091 original size:19 final size:19
Alignment explanation
Indices: 30045--30093 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
30035 TTATATTCAC
*
30045 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
30064 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
30083 ATACAAAATTA
1 ATACAAAATTA
30094 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:31921 original size:33 final size:33
Alignment explanation
Indices: 31884--31949 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31874 CATCTTAATA
*
31884 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
31917 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
31950 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:32008 original size:21 final size:21
Alignment explanation
Indices: 31983--32047 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
31973 CCCCTTATGC
* *
31983 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
32004 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
32025 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
32046 CT
1 CT
32048 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:32150 original size:15 final size:15
Alignment explanation
Indices: 32130--32162 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32120 ACTCTGTTTT
*
32130 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
32145 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
32160 CCC
1 CCC
32163 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:34487 original size:20 final size:20
Alignment explanation
Indices: 34460--34506 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
34450 TCCGGTAACG
34460 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
34479 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
34500 TTTTACC
1 TTTTACC
34507 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:34733 original size:182 final size:180
Alignment explanation
Indices: 34247--34718 Score: 694
Period size: 180 Copynumber: 2.6 Consensus size: 180
34237 CGTACTTACG
* * * * *
34247 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGTTTTTATCATTTTGATACCGGTAT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
34312 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
* *
34377 GGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
34427 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
34492 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
34557 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
34609 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
34673 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
34719 AATTTGGATC
Statistics
Matches: 263, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
180 102 0.39
181 62 0.24
182 98 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:35186 original size:229 final size:228
Alignment explanation
Indices: 34785--35271 Score: 884
Period size: 229 Copynumber: 2.1 Consensus size: 228
34775 ACCTACTTTT
34785 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
34850 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
34915 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
34980 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
*
35014 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* *
35079 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
35144 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
35209 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
*
35242 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
35272 GATAATTTAC
Statistics
Matches: 249, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
228 37 0.15
229 212 0.85
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:42664 original size:55 final size:55
Alignment explanation
Indices: 42599--42820 Score: 309
Period size: 55 Copynumber: 4.0 Consensus size: 55
42589 CAAATAGGCG
* ** * *
42599 CTAAGTGTGCATATCATAGAATTCTTCCGATGTGGAATAAATAACCGTTTCGACA
1 CTAAGTGTGCATTTCACGGAATTCTTCCTATGTGGAATAAATAACCGTTTCGGCA
* * *
42654 CTAAGTGTGCATTTCATGGAATTCTTCCTATGTGGAATGAATAACCATTTCGGCA
1 CTAAGTGTGCATTTCACGGAATTCTTCCTATGTGGAATAAATAACCGTTTCGGCA
* *
42709 CTAAGTGTGCATTTCACGGAATTCTTCCAATGTGGAATAAATAACCGTTTTGGCA
1 CTAAGTGTGCATTTCACGGAATTCTTCCTATGTGGAATAAATAACCGTTTCGGCA
* * * * *
42764 CTAAGTGTGCATTTCACGGAATTTTTCCTATGTGGAATGAACAACAGTTTTGGCA
1 CTAAGTGTGCATTTCACGGAATTCTTCCTATGTGGAATAAATAACCGTTTCGGCA
42819 CT
1 CT
42821 GATGTAAGGC
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 151 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
CTAAGTGTGCATTTCACGGAATTCTTCCTATGTGGAATAAATAACCGTTTCGGCA
Found at i:42792 original size:110 final size:110
Alignment explanation
Indices: 42599--42804 Score: 340
Period size: 110 Copynumber: 1.9 Consensus size: 110
42589 CAAATAGGCG
* *
42599 CTAAGTGTGCATATCATAGAATTCTTCCGATGTGGAATAAATAACCGTTTCGACACTAAGTGTGC
1 CTAAGTGTGCATATCACAGAATTCTTCCAATGTGGAATAAATAACCGTTTCGACACTAAGTGTGC
*
42664 ATTTCATGGAATTCTTCCTATGTGGAATGAATAACCATTTCGGCA
66 ATTTCACGGAATTCTTCCTATGTGGAATGAATAACCATTTCGGCA
* * * *
42709 CTAAGTGTGCATTTCACGGAATTCTTCCAATGTGGAATAAATAACCGTTTTGGCACTAAGTGTGC
1 CTAAGTGTGCATATCACAGAATTCTTCCAATGTGGAATAAATAACCGTTTCGACACTAAGTGTGC
*
42774 ATTTCACGGAATTTTTCCTATGTGGAATGAA
66 ATTTCACGGAATTCTTCCTATGTGGAATGAA
42805 CAACAGTTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (110 bp):
CTAAGTGTGCATATCACAGAATTCTTCCAATGTGGAATAAATAACCGTTTCGACACTAAGTGTGC
ATTTCACGGAATTCTTCCTATGTGGAATGAATAACCATTTCGGCA
Found at i:42969 original size:13 final size:13
Alignment explanation
Indices: 42951--42981 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
42941 TTAATGGAAT
42951 AAGAAATGAATTA
1 AAGAAATGAATTA
*
42964 AAGAAATGAATTT
1 AAGAAATGAATTA
42977 AAGAA
1 AAGAA
42982 GATATAAAGG
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:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (13 bp):
AAGAAATGAATTA
Found at i:50186 original size:20 final size:20
Alignment explanation
Indices: 50161--50230 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
50151 AAACTTCTGA
*
50161 CTTGGCTAATTGATGTAGGT
1 CTTGGCCAATTGATGTAGGT
50181 CTTGGCCAATTGATGTAGGT
1 CTTGGCCAATTGATGTAGGT
**
50201 CTTAACCAATTGATGTAGGT
1 CTTGGCCAATTGATGTAGGT
50221 CTTGGCCAAT
1 CTTGGCCAAT
50231 CCTGTATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (20 bp):
CTTGGCCAATTGATGTAGGT
Found at i:51958 original size:17 final size:17
Alignment explanation
Indices: 51936--51980 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
51926 CTAAAAGAAG
51936 TGGTTATGGTATAAAAA
1 TGGTTATGGTATAAAAA
51953 TGGTTATGGTATAAAAA
1 TGGTTATGGTATAAAAA
*
51970 TGGATATGGTA
1 TGGTTATGGTA
51981 AAGGTAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.36
Consensus pattern (17 bp):
TGGTTATGGTATAAAAA
Found at i:52278 original size:6 final size:6
Alignment explanation
Indices: 52244--52281 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
52234 GTATGAGTTC
*
52244 TTTTC- TTTTCT TTTTAT TTTTCT TCTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TT
52282 GTTGCAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:52472 original size:19 final size:19
Alignment explanation
Indices: 52448--52507 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
52438 CAAGTAATGA
52448 AAGAAATGATTAATGGAAT
1 AAGAAATGATTAATGGAAT
52467 AAGAAATG---AAT-G-A-
1 AAGAAATGATTAATGGAAT
52480 AAGAAATGATTAATGGAAT
1 AAGAAATGATTAATGGAAT
52499 AAGAAATGA
1 AAGAAATGA
52508 ATGAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
15 1 0.03
16 6 0.17
17 1 0.03
18 1 0.03
19 17 0.49
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (19 bp):
AAGAAATGATTAATGGAAT
Found at i:52478 original size:16 final size:16
Alignment explanation
Indices: 52459--52510 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
52449 AGAAATGATT
52459 AATGGAATAAGAAATG
1 AATGGAATAAGAAATG
52475 AAT-G-A-AAGAAATG
1 AATGGAATAAGAAATG
52488 ATTAATGGAATAAGAAATG
1 ---AATGGAATAAGAAATG
52507 AATG
1 AATG
52511 AAAGAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
13 8 0.27
14 1 0.03
15 1 0.03
16 10 0.33
17 1 0.03
18 1 0.03
19 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (16 bp):
AATGGAATAAGAAATG
Found at i:52480 original size:32 final size:32
Alignment explanation
Indices: 52443--52518 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
52433 CTACACAAGT
52443 AATGAAAGAAATGATTAATGGAATAAGAAATG
1 AATGAAAGAAATGATTAATGGAATAAGAAATG
52475 AATGAAAGAAATGATTAATGGAATAAGAAATG
1 AATGAAAGAAATGATTAATGGAATAAGAAATG
52507 AATGAAAGAAAT
1 AATGAAAGAAAT
52519 AAATTTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (32 bp):
AATGAAAGAAATGATTAATGGAATAAGAAATG
Found at i:52485 original size:13 final size:13
Alignment explanation
Indices: 52467--52518 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
52457 TTAATGGAAT
52467 AAGAAATGAATGA
1 AAGAAATGAATGA
52480 AAGAAATGATTAATGGAA
1 AAGAAATG---AAT-G-A
52498 TAAGAAATGAATGA
1 -AAGAAATGAATGA
52512 AAGAAAT
1 AAGAAAT
52519 AAATTTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
14 1 0.03
15 1 0.03
16 6 0.18
17 1 0.03
18 1 0.03
19 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (13 bp):
AAGAAATGAATGA
Found at i:54155 original size:55 final size:55
Alignment explanation
Indices: 54089--54402 Score: 533
Period size: 55 Copynumber: 5.7 Consensus size: 55
54079 GCTCACATCA
54089 GGCACTAAGTGTGCATTTCAC-ATAATTCTTCCTATGTGGAACGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGA-AATTCTTCCTATGTGGAACGAATAACTGTTTC
* * *
54144 GGCACTAAGTGTACATTTCACGAAATTCTTCTTATGTGGAACGAATAACCGTTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTG-TTTC
*
54200 -GCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGAACGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTGTTTC
54254 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTGTTTC
* *
54309 GGCACTAAGTGTGTATTTCACGAAATTCTTCCTATGTGGAACGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTGTTTC
54364 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTAGTGTG
1 GGCACTAAGTGTGCATTTCACGAAATTCTTCCTA-TGTG
54403 CATTTCACTG
Statistics
Matches: 244, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
54 4 0.02
55 231 0.95
56 9 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (55 bp):
GGCACTAAGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACTGTTTC
Found at i:54407 original size:26 final size:26
Alignment explanation
Indices: 54371--54427 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
54361 TTCGGCACTA
54371 AGTGTGCATTTCAC-GAAATTCTTCCT
1 AGTGTGCATTTCACTG-AATTCTTCCT
54397 AGTGTGCATTTCACTGAATTCTTCCT
1 AGTGTGCATTTCACTGAATTCTTCCT
54423 A-TGTG
1 AGTGTG
54428 GAACGAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 4 0.13
26 25 0.83
27 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (26 bp):
AGTGTGCATTTCACTGAATTCTTCCT
Found at i:54472 original size:81 final size:81
Alignment explanation
Indices: 54316--54465 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
54306 TTCGGCACTA
* **
54316 AGTGTGTATTTCACGAAATTCTTCCTATGTGGAACGAATAACCGTTTCGGCACTAAGTGTGCATT
1 AGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACCGTTTCGGCACTAAGTGTGCAAA
*
54381 TCACGAAATTCTTCCT
66 ACACGAAATTCTTCCT
* *
54397 AGTGTGCATTTCACTG-AATTCTTCCTATGTGGAACGAATAACCGTTTCGTCACTATGTGTGCAA
1 AGTGTGCATTTCAC-GAAATTCTTCCTATGTGGAACGAATAACCGTTTCGGCACTAAGTGTGCAA
54461 AACAC
65 AACAC
54466 AGAATTCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 61 0.98
82 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (81 bp):
AGTGTGCATTTCACGAAATTCTTCCTATGTGGAACGAATAACCGTTTCGGCACTAAGTGTGCAAA
ACACGAAATTCTTCCT
Found at i:56283 original size:19 final size:19
Alignment explanation
Indices: 56232--56283 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
56222 AACTGAGTAA
*
56232 ACCCGACCCGTTAACTTTG
1 ACCCGACCCGTTGACTTTG
*
56251 ACCCGACCCATTGACTTTG
1 ACCCGACCCGTTGACTTTG
*
56270 ACCTGACCCGTTGA
1 ACCCGACCCGTTGA
56284 TCGTTGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (19 bp):
ACCCGACCCGTTGACTTTG
Found at i:59777 original size:217 final size:214
Alignment explanation
Indices: 59356--60182 Score: 924
Period size: 234 Copynumber: 3.7 Consensus size: 214
59346 TACGGAATTC
* * * *
59356 ATACTTCTGAAGTTCATAATAACATCAAAATAGTACTTCAAAAATACATAATAAAAGAAAATAAA
1 ATACTTTTGAAGTTCATAATAGCATCAAAAGAATACTTCAAAAATAC---ATAAAAGAAAATAAA
*
59421 GAAGGGTTTAGATTACATTATTAAATT-TGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTC
63 GAAGGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTC
* * * * * * * *
59485 ATCATAATAGA-GTACTTATATGATAATTATACCTAAAATTGCATGAAGTATAAGAAAATAAAGA
128 AGCATAATAGAGGGACTAATATCATAATTATTCCTAAATTTACATGAAGTAGAAGAAAATAAAGA
59549 ATTAAAACTAGACATGATATTA
193 ATTAAAACTAGACATGATATTA
* *
59571 ATAGTTTTGAAGTTCATAATAGCATCAAAAGAGTACTCTTCAAAAATACATAAAAGAAAATAAAG
1 ATACTTTTGAAGTTCATAATAGCATCAAAAGAATA--CTTCAAAAATACATAAAAGAAAATAAAG
* * *
59636 AAGGTTTTAAATTACATAATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAAGCTTAAATTTC
64 AAGGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACT-AAAGCTTAAATTTC
* * * *
59701 AGCATAATTGAGGGA-TGAATACCATAATTATTCCTAAATTTACATAAAGTAGAAGAAAAAAAAG
128 AGCATAATAGAGGGACT-AATATCATAATTATTCCTAAATTTACATGAAGTAGAAGAAAATAAAG
*
59765 AATTAAAACTAGACATGTTATTA
192 AATTAAAACTAGACATGATATTA
* * * * **
59788 ATACTTCTAAATTTCATAATAGCATCAAAACAATACTTCGGAAATACATAACAAAAGAAAATAAA
1 ATACTTTTGAAGTTCATAATAGCATCAAAAGAATACTTCAAAAATACAT---AAAAGAAAATAAA
*
59853 GAATGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGAC-TAAATTT
63 GAAGGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAG-CTTAAATTT
* * * ** *
59917 TAGCATAACAAAGGGACTAATATCATAATTATATTAATAAGAAAATAATACCGAAAATTTCTTGA
127 CAGCATAATAGAGGGACTAATATCATAA-T-TATTCCT----AAAT-TTA-C----A-----TGA
*
59982 AGTAGAAGAAAATAAAGAATTAAAACTAGACATGGTATTA
175 AGTAGAAGAAAATAAAGAATTAAAACTAGACATGATATTA
* * * *
60022 ATACTTTTGAAGTTCACAATAGCATCAAAAGAATACTTCGAAAAGATATAACAAGATAAAATAAA
1 ATACTTTTGAAGTTCATAATAGCATCAAAAGAATACTTCAAAAATACATAA-AAG--AAAATAAA
* * *
60087 GAAGGGATTAGATTACAGGATTAAATTATGTCAAATTAAAGTATGGGGACTAAAGCTTAAATTTC
63 GAAGGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTC
* * *
60152 AGCATAACAGAGGAACTAATATCTTAATTAT
128 AGCATAATAGAGGGACTAATATCATAATTAT
60183 ATTAATAAAA
Statistics
Matches: 521, Mismatches: 59, Indels: 47
0.83 0.09 0.07
Matches are distributed among these distances:
214 39 0.07
215 66 0.13
216 24 0.05
217 135 0.26
218 63 0.12
219 5 0.01
223 4 0.01
224 2 0.00
225 1 0.00
229 1 0.00
231 2 0.00
232 6 0.01
233 2 0.00
234 171 0.33
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (214 bp):
ATACTTTTGAAGTTCATAATAGCATCAAAAGAATACTTCAAAAATACATAAAAGAAAATAAAGAA
GGGTTTAGATTACATGATTAAATTATGTCAAATTAAAGTGTGGGGACTAAAGCTTAAATTTCAGC
ATAATAGAGGGACTAATATCATAATTATTCCTAAATTTACATGAAGTAGAAGAAAATAAAGAATT
AAAACTAGACATGATATTA
Found at i:60665 original size:17 final size:17
Alignment explanation
Indices: 60623--60694 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
60613 ATTCATGCAT
60623 CTAGTTCATTTAA-TAAA
1 CTAGTTCA-TTAATTAAA
* *
60640 GTTAATTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
60658 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
*
60675 ATAGTTCATCT-ATTAAA
1 CTAGTTCAT-TAATTAAA
60692 CTA
1 CTA
60695 ACTCTTAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 32 0.74
18 11 0.26
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:65345 original size:27 final size:26
Alignment explanation
Indices: 65315--65371 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
65305 CTTGGAAATA
*
65315 ATTTTGGTCATTTTACACTTTAGGGTC
1 ATTTTGATCATTTTACACTTTAGGG-C
* *
65342 ATTTTGATCATTTTACATTTTATGGC
1 ATTTTGATCATTTTACACTTTAGGGC
65368 ATTT
1 ATTT
65372 CTATAAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.53
Consensus pattern (26 bp):
ATTTTGATCATTTTACACTTTAGGGC
Found at i:66312 original size:94 final size:95
Alignment explanation
Indices: 66138--66321 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 95
66128 AGTATCGATA
* * * * *
66138 CCATGGTAAGGGTATCGATACCAGGTAACATCGAATCTAATTTTGGTATCGATACCATAAAGGAG
1 CCATGATAAGGGTATCGATACCAGGTAACATCGAATATAATTTTAGTATCGATACAAGAAAGGAG
* *
66203 TATTAGTACCATAGTAAAGTAATATTGATT
66 TATCAATACCATAGTAAAGTAATATTGATT
** * * * * *
66233 CCATGATAAGGG-ATCGATACTGGGTCAGATCGAATATAATTTTAGTATCGATATAAGAAGGGGG
1 CCATGATAAGGGTATCGATACCAGGTAACATCGAATATAATTTTAGTATCGATACAAGAAAGGAG
**
66297 TATCAATACCATAGTAGTGTAATAT
66 TATCAATACCATAGTAAAGTAATAT
66322 CGATACAATG
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
94 62 0.85
95 11 0.15
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (95 bp):
CCATGATAAGGGTATCGATACCAGGTAACATCGAATATAATTTTAGTATCGATACAAGAAAGGAG
TATCAATACCATAGTAAAGTAATATTGATT
Found at i:66765 original size:59 final size:59
Alignment explanation
Indices: 66668--66878 Score: 298
Period size: 59 Copynumber: 3.6 Consensus size: 59
66658 TGATTACCAA
* *
66668 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGGACTTCGTTTGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
66727 ATGATAAGGAATTCATAATAAGTGTATGAATTTTCATATAGGGCACTTCGTGCGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
66786 ATGATAAGGAATTCATACTAAGTGAATGAATTTCCATATTGGGCACCTT-GTGTGCTAAA
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
* *
66845 ATGATCATAAATTCATACTAAGTGTATGAATTTC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTC
66879 TGTATGAGAA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
59 132 0.98
60 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (59 bp):
ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:69865 original size:27 final size:27
Alignment explanation
Indices: 69835--69888 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
69825 CGTTAATGTG
69835 TTTAATGAACAGATTATTTCAACCGTA
1 TTTAATGAACAGATTATTTCAACCGTA
*
69862 TTTAATGAACATATTATTTCAACCGTA
1 TTTAATGAACAGATTATTTCAACCGTA
69889 GTTCGTGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (27 bp):
TTTAATGAACAGATTATTTCAACCGTA
Found at i:81177 original size:5 final size:5
Alignment explanation
Indices: 81169--81217 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
81159 CAAATTCTAA
*
81169 AAAAT AAAAGT AAAA- ATAA- AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
81218 ATATTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 6 0.15
5 23 0.59
6 10 0.26
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:81182 original size:6 final size:6
Alignment explanation
Indices: 81168--81220 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
81158 ACAAATTCTA
*
81168 AAAAAT AAAAGT AAAAAT AAAAA- ATAAAAT -AAAAT -AAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT
81214 AAAAAT A
1 AAAAAT A
81221 TTTATAAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 11 0.26
6 31 0.74
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:81184 original size:29 final size:29
Alignment explanation
Indices: 81133--81219 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 29
81123 ATATGAAAAG
*
81133 AAAATAAAATAAAACGAATAAAATAACAAATT
1 AAAATAAAATAAAA-GTA-AAAATAA-AAATT
** *
81165 CTAA-AAAATAAAAGTAAAAATAAAAAAT
1 AAAATAAAATAAAAGTAAAAATAAAAATT
81193 AAAATAAAATAAAA-TAAAAATAAAAAT
1 AAAATAAAATAAAAGTAAAAATAAAAAT
81220 ATTTATAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 18 0.38
29 16 0.34
30 2 0.04
31 9 0.19
32 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (29 bp):
AAAATAAAATAAAAGTAAAAATAAAAATT
Found at i:81185 original size:12 final size:11
Alignment explanation
Indices: 81169--81217 Score: 64
Period size: 10 Copynumber: 4.4 Consensus size: 11
81159 CAAATTCTAA
*
81169 AAAATAAAAGT
1 AAAATAAAAAT
81180 AAAAATAAAAAAT
1 -AAAAT-AAAAAT
81193 AAAAT-AAAAT
1 AAAATAAAAAT
81203 AAAATAAAAAT
1 AAAATAAAAAT
81214 AAAA
1 AAAA
81218 ATATTTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
10 10 0.29
11 9 0.26
12 10 0.29
13 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:83998 original size:36 final size:36
Alignment explanation
Indices: 83946--84017 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
83936 TTTTACATAT
*
83946 TCAAAGACTTGAACCTAAGACATTGCTTAAGTAATA
1 TCAAAGACTTGAACCTAAGACACTGCTTAAGTAATA
* *
83982 TCAAGGACTTGAACCTAAGGCACTGCTTAAGTAATA
1 TCAAAGACTTGAACCTAAGACACTGCTTAAGTAATA
84018 CCAATATGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (36 bp):
TCAAAGACTTGAACCTAAGACACTGCTTAAGTAATA
Found at i:85422 original size:59 final size:59
Alignment explanation
Indices: 85357--86429 Score: 1446
Period size: 59 Copynumber: 18.8 Consensus size: 59
85347 AAACTAAGTA
* * *
85357 TGCTAAAATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGTACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
85416 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCATG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
85475 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGATTTTTTCGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGA-ATTTCCGTATAGGGCACTTCGTG
* *
85535 TGCTAAAATGTTAAGAAAATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
** **
85594 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAATGCACTTTATG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
85653 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA--T---T-T---GCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
85703 TGCTAAAATGTTAAGAAATTCATACTAATTGTATGAA--T---T-T---GCACTTTGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
*
85753 TGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* * *
85812 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* * *
85871 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATAAATTTTCGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
85930 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCCTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
85989 TGCTAAAATGTTAAGAATTTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA-TTTCCGTATAGGGCACTTCGTG
* * *
86049 TGCTAAAGTGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACACTTCATG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
*
86108 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA-TT---T-T----CACTTTGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* *
86158 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAA--T---T-T---GCAATTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
*
86208 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* **
86267 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTTGTATAGGGCACTTCGTG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* ** * * **
86326 TGCTAAAATGTTAAGAAATTCGTGTTAAGTGTATGAATTTCCGAATTGGGCACTTTATG
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* * * *
86385 TGC-AAAAAGATAAGAAACTCATACTAAGTGTATGAATTTTCGTAT
1 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
86430 GGGAAATATA
Statistics
Matches: 919, Mismatches: 74, Indels: 43
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.00
50 177 0.19
52 2 0.00
53 1 0.00
54 2 0.00
55 3 0.00
56 2 0.00
57 1 0.00
58 36 0.04
59 584 0.64
60 108 0.12
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
Found at i:86211 original size:455 final size:455
Alignment explanation
Indices: 85357--86429 Score: 1735
Period size: 455 Copynumber: 2.4 Consensus size: 455
85347 AAACTAAGTA
* * * *
85357 TGCTAAAATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGT-ACTTCGTGTGCTA
1 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATA-GGTCACTTCGTGTGCTA
85421 AAATGTTAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATAGGGCACTTCATGTGCTAAAATG
65 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATAGGGCACTTCATGTGCTAAAATG
* * *
85485 TTAAGAAATTCATACTAAGTGTATGATTTTTTCGTATAGGGCACTTCGTGTGCTAAAATGTTAAG
129 TTAAGAAATTCATACTAAGTGTATGAATTTCTCGTATAGGGCACTTCCTGTGCTAAAATGTTAAG
85550 AAAATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATGTTAAGAAATTC
194 AAAATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATGTTAAGAAATTC
* *
85615 ATACTAAGTGTATGAATTTCCGTATAATGCACTTTATGTGCTAAAATGTTAAGAAATTCATACTA
259 ATACTAAGTGTATGAATTTCCGTATAAGGCACTTCATGTGCTAAAATGTTAAGAAATTCATACTA
*
85680 AGTGTATGAATTTGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAATTGTATGAATTTGC
324 AGTGTATGAATTTGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTGC
* * *
85745 ACTTTGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGCACTTCG
389 AATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
85810 TG
454 TG
85812 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTGTGCTAA
1 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTGTGCTAA
* * *
85877 AATGTTAAGAAATTTATACTAAGTGTATAAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGTT
66 AATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCATGTGCTAAAATGTT
85942 AAGAAATTCATACTAAGTGTATGAATTTCT-GTATAGGGCACTTCCTGTGCTAAAATGTTAAGAA
131 AAGAAATTCATACTAAGTGTATGAATTTCTCGTATAGGGCACTTCCTGTGCTAAAATGTTAAGAA
** * * *
86006 TTTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTGTGCTAAAGTGTTAAGAAATTCA
196 AATCATACTAAGTGTATGAA-TTTCCGTATAGGACACTTCGTGTGCTAAAATGTTAAGAAATTCA
86071 TACTAAGTGTATGAATTTCCGTAT-AGGACACTTCATGTGCTAAAATGTTAAGAAATTCATACTA
260 TACTAAGTGTATGAATTTCCGTATAAGG-CACTTCATGTGCTAAAATGTTAAGAAATTCATACTA
* * *
86135 AGTGTATGAATTTTCACTTTGTGTGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTGC
324 AGTGTATGAATTTGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTGC
*
86200 AATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCG
389 AATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCG
86265 TG
454 TG
* *
86267 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTTGTATAGGGCACTTCGTGTGCTAA
1 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTGTGCTAA
* ** * * * * * *
86332 AATGTTAAGAAATTCGTGTTAAGTGTATGAATTTCCGAATTGGGCACTTTATGTGC-AAAAAGAT
66 AATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCATGTGCTAAAATGTT
*
86396 AAGAAACTCATACTAAGTGTATGAATTT-TCGTAT
131 AAGAAATTCATACTAAGTGTATGAATTTCTCGTAT
86430 GGGAAATATA
Statistics
Matches: 573, Mismatches: 40, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
453 1 0.00
454 93 0.16
455 475 0.83
456 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (455 bp):
TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTGTGCTAA
AATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCATGTGCTAAAATGTT
AAGAAATTCATACTAAGTGTATGAATTTCTCGTATAGGGCACTTCCTGTGCTAAAATGTTAAGAA
AATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATGTTAAGAAATTCAT
ACTAAGTGTATGAATTTCCGTATAAGGCACTTCATGTGCTAAAATGTTAAGAAATTCATACTAAG
TGTATGAATTTGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTGCAA
TTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
Found at i:86270 original size:514 final size:510
Alignment explanation
Indices: 85357--86429 Score: 1690
Period size: 514 Copynumber: 2.1 Consensus size: 510
85347 AAACTAAGTA
* * *
85357 TGCTAAAATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGTACTTCGTGTGCTAA
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAA
85422 AATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCATGTGCTAAAATGTT
66 AATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCATGTGCTAAAATGTT
*
85487 AAGAAATTCATACTAAGTGTATGATTTTTTCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAA
131 AAGAAATTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAA
*
85552 AATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCGTGTGCTAAAATGTTAAGAAATTCAT
196 AATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCATGTGCTAAAATGTTAAGAAATTCAT
85617 ACTAAGTGTATGAATTTCCGTATAATGCACTTTATGTGCTAAAATGTTAAGAAATTCATACTAAG
261 ACTAAGTGTATGAA-TT-C-TAT-ATGCACTTTATGTGCTAAAATGTTAAGAAATTCATACTAAG
* *
85682 TGTATGAATTTGCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAATTGTATGAATTTGCAC
322 TGTATGAATTTGCAATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTGCAC
* *
85747 TTTGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
387 TTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTG
* * * * *
85812 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATAGGTCACTTCGTG
452 TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGAATAGGGCACTTCATG
* * *
85871 TGCTAAAATGTTAAGAAATTTATACTAAGTGTATAAATTTTCGTATAGGGCACTTCGTGTGCTAA
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAA
*
85936 AATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCCTGTGCTAAAATGTT
66 AATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCATGTGCTAAAATGTT
* *
86001 AAGAATTTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTGTGCTAAAGTGTTAAGAA
131 AAGAAATTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAA
*
86066 ATTCATACTAAGTGTATGAATTTCCGTATAGGACACTTCATGTGCTAAAATGTTAAGAAATTCAT
196 AATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCATGTGCTAAAATGTTAAGAAATTCAT
* *
86131 ACTAAGTGTATGAA-T-T-T-T-CACTTTGTGTGCTAAAATGTTAAGAAATTTATACTAAGTGTA
261 ACTAAGTGTATGAATTCTATATGCACTTTATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTA
86191 TGAATTTGCAATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAG
326 TGAATTTGCAATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA---T--T-T--
* **
86256 GGCACTTCGTGTGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTTGTATAGGGCACT
383 -GCACTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACT
* ** * *
86321 TCGTGTGCTAAAATGTTAAGAAATTCGTGTTAAGTGTATGAATTTCCGAATTGGGCACTTTATG
447 TCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGAATAGGGCACTTCATG
* *
86385 TGC-AAAAAGATAAGAAACTCATACTAAGTGTATGAATTTTCGTAT
1 TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
86430 GGGAAATATA
Statistics
Matches: 514, Mismatches: 36, Indels: 19
0.90 0.06 0.03
Matches are distributed among these distances:
505 92 0.18
506 1 0.00
508 2 0.00
509 1 0.00
510 1 0.00
511 1 0.00
512 1 0.00
513 37 0.07
514 378 0.74
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (510 bp):
TGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAA
AATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATAGGGCACTTCATGTGCTAAAATGTT
AAGAAATTCATACTAAGTGTATGAATTTTTCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGAA
AATCATACTAAGTGTATGAATTTCCGTATAGGACACTTCATGTGCTAAAATGTTAAGAAATTCAT
ACTAAGTGTATGAATTCTATATGCACTTTATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTA
TGAATTTGCAATTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTGCACTTCG
TGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCT
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGAATAGGGCACTTCATG
Found at i:86761 original size:69 final size:68
Alignment explanation
Indices: 86662--86789 Score: 175
Period size: 69 Copynumber: 1.9 Consensus size: 68
86652 ACTGTGCTTT
* * * *
86662 TGACATAAAGGTGTCATTTATGCCAGTTAGATGAAAAGGTTAAGTGCCTCTGAGGTCTAACTAAG
1 TGACAGAAAGGTGTCATTTATCCCAGTTAGAT-AAAAGGCTAAGTGCCTCTGAGGCCTAACTAAG
86727 CATA
65 CATA
* * * *
86731 TGACAGAAAGGTTTCATTTATCCCAGTTAGATTAAAGGCTAAGTTCCTTTGAGGCCTAA
1 TGACAGAAAGGTGTCATTTATCCCAGTTAGATAAAAGGCTAAGTGCCTCTGAGGCCTAA
86790 ATGTGCAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
68 22 0.43
69 29 0.57
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (68 bp):
TGACAGAAAGGTGTCATTTATCCCAGTTAGATAAAAGGCTAAGTGCCTCTGAGGCCTAACTAAGC
ATA
Found at i:87022 original size:81 final size:82
Alignment explanation
Indices: 86807--87028 Score: 322
Period size: 83 Copynumber: 2.7 Consensus size: 82
86797 ATTGGCATGG
* * * *
86807 AGGTGTTAATTATGCCAGTTGGATGAACGGTTAAATATCGTTGAGTAAAATAATAATGGCCTAAT
1 AGGTGTTAATGATGTCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATAATGGCCTAAT
*
86872 TGTGCAAATGGAAAAAAA
66 TGTGAAAATGG-AAAAAA
*
86890 ATGTGTTAATGATGTCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATAATGGCCTAAT
1 AGGTGTTAATGATGTCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATAATGGCCTAAT
* *
86955 TGTGAAAATGG-CAGAA
66 TGTGAAAATGGAAAAAA
* *
86971 AGGTGTCAATGATGTCAGTTAGATGAACGGTTAAACA-CTGTTGAGTAAAAGAATAATG
1 AGGTGTTAATGATGTCAGTTAGATGAACGGTTAAATATC-GTTGAGTAAAAGAATAATG
87029 AACTAGTTGC
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 56 0.44
83 70 0.55
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (82 bp):
AGGTGTTAATGATGTCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATAATGGCCTAAT
TGTGAAAATGGAAAAAA
Found at i:90281 original size:33 final size:35
Alignment explanation
Indices: 90244--90320 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 35
90234 AACTTGTAGC
* *
90244 TGAGATAAAATCTGTTT-AAAAAAA-ATTCTCAAG
1 TGAGATAAAATCTGTTTAAAAAAAACAATATCAAG
90277 TGAGATAAAATCTGTTTAAAAAAAACAATATCAAG
1 TGAGATAAAATCTGTTTAAAAAAAACAATATCAAG
90312 TGAGATAAA
1 TGAGATAAA
90321 CTCTTGAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 17 0.43
34 7 0.17
35 16 0.40
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (35 bp):
TGAGATAAAATCTGTTTAAAAAAAACAATATCAAG
Found at i:90435 original size:36 final size:36
Alignment explanation
Indices: 90369--90478 Score: 159
Period size: 36 Copynumber: 3.0 Consensus size: 36
90359 AGGAAAACTT
* *
90369 TCTCAAGTGAGACAAAATTTGTTTTGAAGAAAAATAA
1 TCTCAAGTGAGATAAAATATGTTTT-AAGAAAAATAA
90406 TCTCAAGTGA-AGTAAAATATGTTTTAAGAAAAATAA
1 TCTCAAGTGAGA-TAAAATATGTTTTAAGAAAAATAA
**
90442 TCTCAAGTGAGATAAAATCGGTTTTAAGAAAAATAA
1 TCTCAAGTGAGATAAAATATGTTTTAAGAAAAATAA
90478 T
1 T
90479 GTTTACTGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
36 45 0.67
37 22 0.33
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (36 bp):
TCTCAAGTGAGATAAAATATGTTTTAAGAAAAATAA
Found at i:90489 original size:36 final size:36
Alignment explanation
Indices: 90369--90496 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 36
90359 AGGAAAACTT
* * **
90369 TCTCAAGTGAGACAAAATTTGTTTTGAAGAAAAATAA
1 TCTCAACTGAGATAAAATCGGTTTT-AAGAAAAATAA
* **
90406 TCTCAAGTGA-AGTAAAATATGTTTTAAGAAAAATAA
1 TCTCAACTGAGA-TAAAATCGGTTTTAAGAAAAATAA
*
90442 TCTCAAGTGAGATAAAATCGGTTTTAAGAAAAATAA
1 TCTCAACTGAGATAAAATCGGTTTTAAGAAAAATAA
* **
90478 TGTTTACTGAGATAAAATC
1 TCTCAACTGAGATAAAATC
90497 TTGAGTGAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
36 59 0.73
37 22 0.27
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (36 bp):
TCTCAACTGAGATAAAATCGGTTTTAAGAAAAATAA
Found at i:90566 original size:170 final size:169
Alignment explanation
Indices: 90244--90686 Score: 540
Period size: 170 Copynumber: 2.6 Consensus size: 169
90234 AACTTGTAGC
* * *
90244 TGAGATAAAATCTG-TTTAA-AAAAAATTCTCAAGTGAGATAAAATCTG-TTTAAAAAAAACAAT
1 TGAGATAAAATATGTTTTAAGAAAAAAATCTCAAGTGAGATAAAATCTGTTTTAAGAAAAACAAT
* *
90306 ATCAAGTGAGATAAACTCTTGAGTGGTCAATTGATTTTGAA-GTTTGAGATTCAAGGAAAACTTT
66 ATCAAGTGAGATAAAATCTTGAGT-G-AAATT-ATTTT-AAGGTTTGAGATTCAAGGAAAACTTT
* * * * * *
90370 CTCAAGTGAGACAAAATTTGTTTTGAAGAAAAATAATCTCAAG
127 CTCAAGTAAGACAAAATCTATTTTGAAGAAAAACAATATCAAA
* *
90413 TGA-AGTAAAATATGTTTTAAGAAAAATAATCTCAAGTGAGATAAAATCGGTTTTAAGAAAAATA
1 TGAGA-TAAAATATGTTTTAAGAAAAA-AATCTCAAGTGAGATAAAATCTGTTTTAAGAAAAACA
* ** * * * *
90477 ATGTTTACTGAGATAAAATCTTGAGTGAAATTATTTTAAGGTTTGAGTTTCGAGGGAAA-TTGTC
64 ATATCAAGTGAGATAAAATCTTGAGTGAAATTATTTTAAGGTTTGAGATTCAAGGAAAACTT-TC
*
90541 TTAAGTAAGACAAAATCTATTTTGAAGAAAAACAATATCAAA
128 TCAAGTAAGACAAAATCTATTTTGAAGAAAAACAATATCAAA
*
90583 TGAGATAAAATATGTTTTAAGAAAAACAATCTCAAGTGAGATAAAA-CATATTTTAAGAAAAACA
1 TGAGATAAAATATGTTTTAAGAAAAA-AATCTCAAGTGAGATAAAATC-TGTTTTAAGAAAAACA
* *
90647 ATCTCAAGTGAGATAAAATCTTGAGTGAAATGATTTTAAG
64 ATATCAAGTGAGATAAAATCTTGAGTGAAATTATTTTAAG
90687 TTTCAAGGGA
Statistics
Matches: 235, Mismatches: 30, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
168 1 0.00
169 16 0.07
170 154 0.66
171 10 0.04
172 22 0.09
173 32 0.14
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (169 bp):
TGAGATAAAATATGTTTTAAGAAAAAAATCTCAAGTGAGATAAAATCTGTTTTAAGAAAAACAAT
ATCAAGTGAGATAAAATCTTGAGTGAAATTATTTTAAGGTTTGAGATTCAAGGAAAACTTTCTCA
AGTAAGACAAAATCTATTTTGAAGAAAAACAATATCAAA
Found at i:90605 original size:36 final size:36
Alignment explanation
Indices: 90543--90665 Score: 174
Period size: 36 Copynumber: 3.4 Consensus size: 36
90533 AAATTGTCTT
* * * *
90543 AAGTAAGACAAAATCTATTTTGAAGAAAAACAATATC
1 AAGTGAGATAAAATATATTTT-AAGAAAAACAATCTC
* *
90580 AAATGAGATAAAATATGTTTTAAGAAAAACAATCTC
1 AAGTGAGATAAAATATATTTTAAGAAAAACAATCTC
*
90616 AAGTGAGATAAAACATATTTTAAGAAAAACAATCTC
1 AAGTGAGATAAAATATATTTTAAGAAAAACAATCTC
90652 AAGTGAGATAAAAT
1 AAGTGAGATAAAAT
90666 CTTGAGTGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
36 60 0.79
37 16 0.21
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (36 bp):
AAGTGAGATAAAATATATTTTAAGAAAAACAATCTC
Found at i:93485 original size:15 final size:15
Alignment explanation
Indices: 93465--93547 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
93455 TTACTTTAAG
**
93465 ATGATTAAGCGTTGA
1 ATGATTAAATGTTGA
*
93480 ATGATTCAAATATTGA
1 ATGATT-AAATGTTGA
*
93496 ATGATTAAATGCTGA
1 ATGATTAAATGTTGA
*
93511 ATGATTAAATGCTGA
1 ATGATTAAATGTTGA
**
93526 ATGATTCAAATACTGA
1 ATGATT-AAATGTTGA
93542 ATGATT
1 ATGATT
93548 CAGAGGTTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
15 34 0.57
16 26 0.43
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (15 bp):
ATGATTAAATGTTGA
Found at i:93497 original size:16 final size:16
Alignment explanation
Indices: 93477--93549 Score: 105
Period size: 15 Copynumber: 4.7 Consensus size: 16
93467 GATTAAGCGT
*
93477 TGAATGATTCAAATAT
1 TGAATGATTCAAATAC
*
93493 TGAATGATT-AAATGC
1 TGAATGATTCAAATAC
*
93508 TGAATGATT-AAATGC
1 TGAATGATTCAAATAC
93523 TGAATGATTCAAATAC
1 TGAATGATTCAAATAC
93539 TGAATGATTCA
1 TGAATGATTCA
93550 GAGGTTCTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
15 28 0.53
16 25 0.47
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (16 bp):
TGAATGATTCAAATAC
Found at i:93500 original size:31 final size:30
Alignment explanation
Indices: 93465--93547 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
93455 TTACTTTAAG
* * *
93465 ATGATTAAGCGTTGAATGATTCAAATATTGA
1 ATGATTAAACGCTGAATGATT-AAATACTGA
* *
93496 ATGATTAAATGCTGAATGATTAAATGCTGA
1 ATGATTAAACGCTGAATGATTAAATACTGA
**
93526 ATGATTCAAATACTGAATGATT
1 ATGATT-AAACGCTGAATGATT
93548 CAGAGGTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 13 0.29
31 32 0.71
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (30 bp):
ATGATTAAACGCTGAATGATTAAATACTGA
Found at i:101030 original size:423 final size:423
Alignment explanation
Indices: 100244--101089 Score: 1602
Period size: 423 Copynumber: 2.0 Consensus size: 423
100234 TAGCACAAAA
100244 AGCAAGACAAGAGAACTTTGAGAGAATACTTTGTGATTTCTCAAAATGAAGAAGTGAGTAAAATT
1 AGCAAGACAAGAGAACTTTGAGAGAATACTTTGTGATTTCTCAAAATGAAGAAGTGAGTAAAATT
100309 GAGGAGGAGAAGCCTCTATTTATAGTTGAAGCTCTCCTCAATGAACGGCTAAGATCTAAATACAT
66 GAGGAGGAGAAGCCTCTATTTATAGTTGAAGCTCTCCTCAATGAACGGCTAAGATCTAAATACAT
100374 CGACGTCCTAGATTGAATACAATCTCCTAAATCCCACAAATCAAAGGATTGTGATTACAAAATCT
131 CGACGTCCTAGATTGAATACAATCTCCTAAATCCCACAAATCAAAGGATTGTGATTACAAAATCT
100439 CTCTTAACTAAAGAAACTCTATCAAGCTAGTTATATGTTGCCTTAGATAAAATATTTCAAGGTTT
196 CTCTTAACTAAAGAAACTCTATCAAGCTAGTTATATGTTGCCTTAGATAAAATATTTCAAGGTTT
*
100504 ATAGAAAGAATCAGGAGGATTTTGCATTAAACCAAGGATTCTCCGTCCATAAACGTGCAAGGCTC
261 ATAGAAAGAATAAGGAGGATTTTGCATTAAACCAAGGATTCTCCGTCCATAAACGTGCAAGGCTC
*
100569 TTCATCACCATGGAATGGGATAGTCTTCATAGGTCCAGGAAGGTCCAAAACGCCACATAAGTGTT
326 TTCATCACCATGGAATGGGACAGTCTTCATAGGTCCAGGAAGGTCCAAAACGCCACATAAGTGTT
100634 CTTGGCTTACTGCTTGTGTGCTGACCTCAGTTG
391 CTTGGCTTACTGCTTGTGTGCTGACCTCAGTTG
100667 AGCAAGACAAGAGAACTTTGAGAGAATACTTTGTGATTTCTCAAAATGAAGAAGTGAGTAAAATT
1 AGCAAGACAAGAGAACTTTGAGAGAATACTTTGTGATTTCTCAAAATGAAGAAGTGAGTAAAATT
* *
100732 GAGGAGGAGAGGCCTCTATTTATAGTTGAAGCTCTCCTCAATGAACGGCTAAGATCTAAGTACAT
66 GAGGAGGAGAAGCCTCTATTTATAGTTGAAGCTCTCCTCAATGAACGGCTAAGATCTAAATACAT
100797 CGACGTCCTAGATTGAATACAATCTCCTAAATCCCACAAATCAAAGGATTGTGATTACAAAATCT
131 CGACGTCCTAGATTGAATACAATCTCCTAAATCCCACAAATCAAAGGATTGTGATTACAAAATCT
*
100862 CTCTTAACTAAGGAAACTCTATCAAGCTAGTTATATGTTGCCTTAGATAAAATATTTCAAGGTTT
196 CTCTTAACTAAAGAAACTCTATCAAGCTAGTTATATGTTGCCTTAGATAAAATATTTCAAGGTTT
100927 ATAGAAAGAATAAGGAGGATTTTGCATTAAACCAAGGATTCTCCGTCCATAAACGTGCAAGGCTC
261 ATAGAAAGAATAAGGAGGATTTTGCATTAAACCAAGGATTCTCCGTCCATAAACGTGCAAGGCTC
* * *
100992 TTCATTACCATGGAATTGGACAGTCTTCATGGGTCCAGGAAGGTCCAAAACGCCACATAAGTGTT
326 TTCATCACCATGGAATGGGACAGTCTTCATAGGTCCAGGAAGGTCCAAAACGCCACATAAGTGTT
* *
101057 CTTGGCTTATTGCTTGTGTGTTGACCTCAGTTG
391 CTTGGCTTACTGCTTGTGTGCTGACCTCAGTTG
101090 TGGGCTCGCG
Statistics
Matches: 413, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
423 413 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (423 bp):
AGCAAGACAAGAGAACTTTGAGAGAATACTTTGTGATTTCTCAAAATGAAGAAGTGAGTAAAATT
GAGGAGGAGAAGCCTCTATTTATAGTTGAAGCTCTCCTCAATGAACGGCTAAGATCTAAATACAT
CGACGTCCTAGATTGAATACAATCTCCTAAATCCCACAAATCAAAGGATTGTGATTACAAAATCT
CTCTTAACTAAAGAAACTCTATCAAGCTAGTTATATGTTGCCTTAGATAAAATATTTCAAGGTTT
ATAGAAAGAATAAGGAGGATTTTGCATTAAACCAAGGATTCTCCGTCCATAAACGTGCAAGGCTC
TTCATCACCATGGAATGGGACAGTCTTCATAGGTCCAGGAAGGTCCAAAACGCCACATAAGTGTT
CTTGGCTTACTGCTTGTGTGCTGACCTCAGTTG
Found at i:105173 original size:15 final size:15
Alignment explanation
Indices: 105153--105182 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
105143 GTTATATGAG
105153 AAATAATAAATAAAT
1 AAATAATAAATAAAT
105168 AAATAATAAATAAAT
1 AAATAATAAATAAAT
105183 CAAAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAATAAATAAAT
Found at i:105247 original size:15 final size:15
Alignment explanation
Indices: 105238--105297 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 15
105228 TAAAAGTAAT
105238 AAAATAAAAAATAATA
1 AAAATAAAAAATAA-A
*
105254 AGAAGTAAAAAATATAA
1 A-AAATAAAAAATA-AA
* *
105271 AAAATAATAATTAAA
1 AAAATAAAAAATAAA
105286 AAAATAAAAAAT
1 AAAATAAAAAAT
105298 GCTAAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
15 12 0.33
16 10 0.28
17 13 0.36
18 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:105264 original size:17 final size:15
Alignment explanation
Indices: 105229--105297 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
105219 GTTAAATTTT
*
105229 AAAAGTAATAAAATA
1 AAAAATAATAAAATA
105244 AAAAATAATAAGAAGTA
1 AAAAATAATAA-AA-TA
*
105261 AAAAATATAAAAAATA
1 AAAAATA-ATAAAATA
* * *
105277 ATAATTAAAAAAATA
1 AAAAATAATAAAATA
105292 AAAAAT
1 AAAAAT
105298 GCTAAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 22 0.49
16 9 0.20
17 11 0.24
18 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (15 bp):
AAAAATAATAAAATA
Found at i:105277 original size:26 final size:25
Alignment explanation
Indices: 105231--105297 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
105221 TAAATTTTAA
*
105231 AAGTAATAAAATAAAAAATAATAAG
1 AAGTAAAAAAATAAAAAATAATAAG
105256 AAGTAAAAAATATAAAAAATAAT---
1 AAGTAAAAAA-ATAAAAAATAATAAG
*
105279 AATTAAAAAAATAAAAAAT
1 AAGTAAAAAAATAAAAAAT
105298 GCTAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.23
23 9 0.23
25 9 0.23
26 12 0.31
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AAGTAAAAAAATAAAAAATAATAAG
Found at i:105310 original size:24 final size:23
Alignment explanation
Indices: 105227--105297 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
105217 ATGTTAAATT
*
105227 TTAA-AAGTAATAAAATAAAAAA
1 TTAAGAAGTAAAAAAATAAAAAA
105249 TAATAAGAAGTAAAAAATATAAAAAA
1 T--TAAGAAGTAAAAAA-ATAAAAAA
* *
105275 -TAATAATTAAAAAAATAAAAAA
1 TTAAGAAGTAAAAAAATAAAAAA
105297 T
1 T
105298 GCTAAAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 9 0.22
23 12 0.29
24 3 0.07
25 9 0.22
26 8 0.20
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
TTAAGAAGTAAAAAAATAAAAAA
Found at i:106575 original size:37 final size:36
Alignment explanation
Indices: 106529--106598 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 36
106519 AAAAAATTCA
106529 AAATCATATATTATATATATTTTCGAAAATGTTTTCT
1 AAATCATATATTATATATATTTTC-AAAATGTTTTCT
* * *
106566 AAATTATATATTATATTTTTTTTCAAAATGTTT
1 AAATCATATATTATATATATTTTCAAAATGTTT
106599 CCAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (36 bp):
AAATCATATATTATATATATTTTCAAAATGTTTTCT
Found at i:106664 original size:36 final size:38
Alignment explanation
Indices: 106600--106677 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 38
106590 AAAATGTTTC
106600 CAAAAATATTTTTTCAAAACTATATAATATAT-ATTTT
1 CAAAAATATTTTTTCAAAACTATATAATATATGATTTT
*
106637 CAAAAAT-TATTTTT-AGAACTATATAATATATGATTTT
1 CAAAAATAT-TTTTTCAAAACTATATAATATATGATTTT
106674 CAAA
1 CAAA
106678 GCTATGTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 17 0.45
37 21 0.55
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (38 bp):
CAAAAATATTTTTTCAAAACTATATAATATATGATTTT
Found at i:106688 original size:60 final size:59
Alignment explanation
Indices: 106610--106737 Score: 152
Period size: 58 Copynumber: 2.2 Consensus size: 59
106600 CAAAAATATT
** **
106610 TTTTCAAAACTATATAATATATATTTTCAAAAA-TTATTTTTAGAACTATATAATATAT-GA
1 TTTTCAAAACTATAT-A-ATATATTTTCAAAAACCGATTTCGA-AACTATATAATATATAGA
* * *
106670 TTTTCAAAGCTATGTAATATATTTTCAAAAACCGATTTCGAAACTATATAATATATATA
1 TTTTCAAAACTATATAATATATTTTCAAAAACCGATTTCGAAACTATATAATATATAGA
106729 TTTTCAAAA
1 TTTTCAAAA
106738 ATTGTTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 30 0.52
59 15 0.26
60 13 0.22
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (59 bp):
TTTTCAAAACTATATAATATATTTTCAAAAACCGATTTCGAAACTATATAATATATAGA
Found at i:106731 original size:38 final size:38
Alignment explanation
Indices: 106686--106800 Score: 144
Period size: 38 Copynumber: 3.0 Consensus size: 38
106676 AAGCTATGTA
*
106686 ATATATTTTCAAAAACCGATTTCGAAACTATATAATAT
1 ATATATTTTCAAAAACCGATTTCAAAACTATATAATAT
** *
106724 ATATATTTTCAAAAATTGTTTTCAAAACTATATAATAT
1 ATATATTTTCAAAAACCGATTTCAAAACTATATAATAT
*
106762 ATATA-TTTCAAAAATCG-TCTTCTAAAAACTATATAATAT
1 ATATATTTTCAAAAACCGAT-TTC--AAAACTATATAATAT
106801 GTTTTCAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
36 1 0.01
37 14 0.20
38 39 0.57
39 15 0.22
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (38 bp):
ATATATTTTCAAAAACCGATTTCAAAACTATATAATAT
Found at i:118220 original size:20 final size:20
Alignment explanation
Indices: 118183--118246 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 20
118173 CTTAAATCAA
118183 AATAA-ATATAAAAT--TTT
1 AATAATATATAAAATAATTT
118200 AATAATATATAAAATAATTT
1 AATAATATATAAAATAATTT
118220 -AT-ATGATATAAAATAAATTT
1 AATAAT-ATATAAAAT-AATTT
118240 AAATAAT
1 -AATAAT
118247 TAATATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.13
18 11 0.28
19 11 0.28
20 8 0.21
22 2 0.05
23 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AATAATATATAAAATAATTT
Found at i:118256 original size:20 final size:20
Alignment explanation
Indices: 118233--118299 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
118223 TGATATAAAA
118233 TAAATTTAAATAATTAATAT
1 TAAATTTAAATAATTAATAT
* *
118253 TAAAATT-AAT-ATCT-ATAA
1 TAAATTTAAATAAT-TAATAT
118271 TATAATATTAAA-AATTAATAT
1 TA-AAT-TTAAATAATTAATAT
*
118292 TTAATTTA
1 TAAATTTA
118300 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
18 7 0.19
19 9 0.25
20 12 0.33
21 8 0.22
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTTAAATAATTAATAT
Found at i:118261 original size:12 final size:12
Alignment explanation
Indices: 118244--118347 Score: 72
Period size: 12 Copynumber: 8.5 Consensus size: 12
118234 AAATTTAAAT
118244 AATTAATATTAA
1 AATTAATATTAA
*
118256 AATTAATATCTAT
1 AATTAATAT-TAA
118269 AATATAATATTAAA
1 AAT-TAATATT-AA
*
118283 AATTAATATT-T
1 AATTAATATTAA
*
118294 AATTTAT-TTAAAA
1 AATTAATATT--AA
*
118307 AATTAATAATAA
1 AATTAATATTAA
* *
118319 AATTAA-AATCA
1 AATTAATATTAA
118330 AATATAATA-TAA
1 AAT-TAATATTAA
118342 AATTAA
1 AATTAA
118348 ATATAAAACC
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
10 2 0.03
11 16 0.22
12 25 0.34
13 20 0.27
14 11 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTAATATTAA
Found at i:118291 original size:27 final size:25
Alignment explanation
Indices: 118242--118324 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 25
118232 ATAAATTTAA
118242 ATAATTAATATT-AAAATTAATATCT
1 ATAATTAATATTAAAAATTAATAT-T
118267 ATAATATAATATTAAAAATTAATATT
1 ATAAT-TAATATTAAAAATTAATATT
* *
118293 -TAATTTAT-TTAAAAAATTAATAAT
1 ATAATTAATATT-AAAAATTAATATT
*
118317 AAAATTAA
1 ATAATTAA
118325 AATCAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 2 0.04
24 15 0.30
25 14 0.28
26 8 0.16
27 11 0.22
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATTAATATTAAAAATTAATATT
Found at i:118295 original size:14 final size:14
Alignment explanation
Indices: 118236--118295 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
118226 TATAAAATAA
118236 ATTTAAATAATTAAT
1 ATTTAAA-AATTAAT
118251 A-TT-AAAATTAAT
1 ATTTAAAAATTAAT
* *
118263 ATCT-ATAATATAAT
1 ATTTAAAAAT-TAAT
118277 A-TTAAAAATTAAT
1 ATTTAAAAATTAAT
118290 ATTTAA
1 ATTTAA
118296 TTTATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
12 8 0.22
13 13 0.35
14 15 0.41
15 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAAAAATTAAT
Found at i:118350 original size:12 final size:12
Alignment explanation
Indices: 118305--118355 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
118295 ATTTATTTAA
118305 AAAATT-AATAAT
1 AAAATTAAAT-AT
118317 AAAATTAAA-AT
1 AAAATTAAATAT
*
118328 CAAA-TATAATAT
1 AAAATTA-AATAT
118340 AAAATTAAATAT
1 AAAATTAAATAT
118352 AAAA
1 AAAA
118356 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 7 0.21
12 20 0.61
13 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:138274 original size:25 final size:25
Alignment explanation
Indices: 138224--138274 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
138214 CTCCATTTCG
* *
138224 ATATTATAGAAAAAGTTAAATGCTA
1 ATATCATAGAAAAAGTTAAATCCTA
138249 ATATCATAGAAAAAGTTAGAA-CCTA
1 ATATCATAGAAAAAGTTA-AATCCTA
138274 A
1 A
138275 ACATAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (25 bp):
ATATCATAGAAAAAGTTAAATCCTA
Found at i:140375 original size:42 final size:42
Alignment explanation
Indices: 140287--140375 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
140277 CGTTTATATT
* * *
140287 AAAAACGCCACTAAAGAAAAAAACTATTGCGGCGTTTATTAC
1 AAAAACGCCACTAAAGAAAAAAACTATTGCGACATTTAGTAC
* * **
140329 AAAAACGCCACTAAAGGAGAACTCTATTGCGACATTTACGTA-
1 AAAAACGCCACTAAAGAAAAAAACTATTGCGACATTTA-GTAC
140371 AAAAA
1 AAAAA
140376 TACCATAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAAAAAAACTATTGCGACATTTAGTAC
Found at i:142376 original size:42 final size:41
Alignment explanation
Indices: 142325--142418 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
142315 AACAACACTA
* * * *
142325 TTGCGGCGTTTTTTTAATAAAAGCCAGTAAATTACTACTCTT
1 TTGCGGCGTTTCTATAA-AAAAGCCAATAAATGACTACTCTT
* * *
142367 TTGTGGCGTTTCTATGAAAACGCCAATAAATGACTACTCTT
1 TTGCGGCGTTTCTATAAAAAAGCCAATAAATGACTACTCTT
142408 TTGCGGCGTTT
1 TTGCGGCGTTT
142419 GTTGATAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 31 0.70
42 13 0.30
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (41 bp):
TTGCGGCGTTTCTATAAAAAAGCCAATAAATGACTACTCTT
Found at i:145580 original size:25 final size:26
Alignment explanation
Indices: 145546--145598 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
145536 GAAAGAAGTG
* *
145546 AAAACGAATATAATAAAG-AAAATAA
1 AAAACAAATAAAATAAAGCAAAATAA
145571 AAAACAAATAAAATAAAGCAAAATAA
1 AAAACAAATAAAATAAAGCAAAATAA
145597 AA
1 AA
145599 GAAATAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (26 bp):
AAAACAAATAAAATAAAGCAAAATAA
Found at i:145685 original size:32 final size:32
Alignment explanation
Indices: 145632--145694 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
145622 TAAAATGTTA
145632 AAAAGGTATATAGAATATATAGTAATAATAAT
1 AAAAGGTATATAGAATATATAGTAATAATAAT
* * *
145664 AAAATGTATATAGTAA-CTATAGTTATAATAA
1 AAAAGGTATATAG-AATATATAGTAATAATAA
145695 AGAAGAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (32 bp):
AAAAGGTATATAGAATATATAGTAATAATAAT
Found at i:146275 original size:15 final size:14
Alignment explanation
Indices: 146230--146281 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
146220 TTATAATGGT
*
146230 AAAAATAGTAATAA
1 AAAAATAATAATAA
* *
146244 AATAATAATGATGAA
1 AAAAATAATAAT-AA
146259 AAAAATAATAATAA
1 AAAAATAATAATAA
146273 AAAAA-AATA
1 AAAAATAATA
146282 TATATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 4 0.12
14 16 0.50
15 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:146440 original size:17 final size:16
Alignment explanation
Indices: 146418--146449 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
146408 GCTAAAAAGG
146418 AAAAATATATATAATAA
1 AAAAATATATA-AATAA
146435 AAAAATATATAAATA
1 AAAAATATATAAATA
146450 TAAAGGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATATATAAATAA
Found at i:148174 original size:106 final size:103
Alignment explanation
Indices: 147982--148545 Score: 770
Period size: 98 Copynumber: 5.5 Consensus size: 103
147972 CAATGCAAGA
* * * * * * * *
147982 TGCGTTGTTTCGAGGCCAATATCCTTTGATGTGAAGTTGAAATTGGCTCTAAAACCGGGAAATTA
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA-TGGG-AATTG
* * *
148047 CTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACT
63 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * *
148088 TGTGTTGTCTGGGGCCCAATCTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AA-TGGGAA-TTG
*
148153 TTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACT
63 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
148194 TGCGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTC----T-GGAATTGTTT
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGGGAATTGTTT
148254 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
148292 TGCGTTGTCTGGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCCCTG-A----AATTGTTT
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGGGAATTGTTT
148352 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * *
148390 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGGAATTGAGAAATGT
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT-CTGAA-TGGGAATTGT
*
148455 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
64 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
148495 TACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
148546 GGTAAAACCT
Statistics
Matches: 414, Mismatches: 32, Indels: 26
0.88 0.07 0.06
Matches are distributed among these distances:
98 181 0.44
99 6 0.01
100 2 0.00
104 2 0.00
105 93 0.22
106 130 0.31
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (103 bp):
TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGGGAATTGTTT
ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
Found at i:148517 original size:105 final size:106
Alignment explanation
Indices: 148342--148543 Score: 379
Period size: 105 Copynumber: 1.9 Consensus size: 106
148332 AATTGGCCCT
*
148342 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
148407 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGGAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGGAATTGA
*
148448 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
1 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
148512 AATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTC
148544 TGGGTAAAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
105 90 0.96
106 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGGAATTGA
Found at i:149354 original size:1 final size:1
Alignment explanation
Indices: 149350--149410 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
149340 TTTTTTCCTC
* * ** * *
149350 TTTTTTTTTCTTTTTTTTTTCTTTTTTCCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
149411 CAACTTAGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:149399 original size:11 final size:11
Alignment explanation
Indices: 149340--149410 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
149330 ACCCCAAACG
*
149340 TTTTTTCCTCTT
1 TTTTTTTCT-TT
149352 TTTTTTTCTTT
1 TTTTTTTCTTT
149363 TTTTTTTCTTT
1 TTTTTTTCTTT
**
149374 TTTCCTTCTTCT
1 TTTTTTTCTT-T
149386 TTTTTTT-TTT
1 TTTTTTTCTTT
149396 TTTTTTT-TTT
1 TTTTTTTCTTT
149406 TTTTT
1 TTTTT
149411 CAACTTAGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
10 16 0.30
11 23 0.43
12 14 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:159812 original size:25 final size:26
Alignment explanation
Indices: 159778--159830 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
159768 GAAAGAAGTG
* *
159778 AAAACGAATATAATAAAG-AAAATAA
1 AAAACAAATAAAATAAAGCAAAATAA
159803 AAAACAAATAAAATAAAGCAAAATAA
1 AAAACAAATAAAATAAAGCAAAATAA
159829 AA
1 AA
159831 GAAATAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (26 bp):
AAAACAAATAAAATAAAGCAAAATAA
Found at i:160499 original size:15 final size:14
Alignment explanation
Indices: 160454--160505 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
160444 TTATAATGGT
*
160454 AAAAATAGTAATAA
1 AAAAATAATAATAA
* *
160468 AATAATAATGATGAA
1 AAAAATAATAAT-AA
160483 AAAAATAATAATAA
1 AAAAATAATAATAA
160497 AAAAA-AATA
1 AAAAATAATA
160506 TATATATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 4 0.12
14 16 0.50
15 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:160662 original size:17 final size:16
Alignment explanation
Indices: 160640--160671 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
160630 GCTAAAAAGG
160640 AAAAATATATATAATAA
1 AAAAATATATA-AATAA
160657 AAAAATATATAAATA
1 AAAAATATATAAATA
160672 TAAAGGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATATATAAATAA
Found at i:162423 original size:20 final size:20
Alignment explanation
Indices: 162398--162437 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
162388 TTTTGATGAG
162398 GTTCGAGTAATTAATTCATA
1 GTTCGAGTAATTAATTCATA
162418 GTTCGAGTAATTAATTCATA
1 GTTCGAGTAATTAATTCATA
162438 AGAGAGTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
GTTCGAGTAATTAATTCATA
Found at i:164769 original size:13 final size:13
Alignment explanation
Indices: 164751--164775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164741 GAGTCCTAGT
164751 TTTTAATTTTTAA
1 TTTTAATTTTTAA
164764 TTTTAATTTTTA
1 TTTTAATTTTTA
164776 TTTACTTTCC
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:167548 original size:166 final size:170
Alignment explanation
Indices: 167274--167612 Score: 632
Period size: 166 Copynumber: 2.0 Consensus size: 170
167264 AGATGAGGTA
167274 ACACACTATAAATCTTCCTTACTACTTGTAGTGCATAACATTTAGCTTTGCTTGCTTGTATGGGT
1 ACACACTATAAATCTTCCTTACTACTTGTAGTGCATAACATTTAGCTTTGCTTGCTTGTATGGGT
167339 ATGGTGAAGCATGTAGGGGTTGGGTGCTTTATTTGTTTTTTGGATATTATTTTAGTT-AAAA-AT
66 ATGGTGAAGCATGTAGGGGTTGGGTGCTTTATTTGTTTTTTGGATATTATTTTAGTTAAAAAGAT
167402 GTATGATGACCCCTAATAACTT-AACAAGC-TTAATAATC
131 GTATGATGACCCCTAATAACTTAAACAAGCTTTAATAATC
167440 ACACACTATAAATCTTCCTTACTACTTGTAGTGCATAACATTTAGCTTTGCTTGCTTGTATGGGT
1 ACACACTATAAATCTTCCTTACTACTTGTAGTGCATAACATTTAGCTTTGCTTGCTTGTATGGGT
167505 ATGGTGAAGCATGTAGGGGTTGGGTGCTTTATTTGTTTTTTGGATATTATTTTAGTTAAAAAATG
66 ATGGTGAAGCATGTAGGGGTTGGGTGCTTTATTTGTTTTTTGGATATTATTTTAGTT-AAAAA-G
167570 ATGTATGATGACCCCTAATAACTTAAACAAGCTTTAATAATC
129 ATGTATGATGACCCCTAATAACTTAAACAAGCTTTAATAATC
167612 A
1 A
167613 ACTTAGACCT
Statistics
Matches: 167, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
166 122 0.73
168 4 0.02
170 24 0.14
171 7 0.04
172 10 0.06
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (170 bp):
ACACACTATAAATCTTCCTTACTACTTGTAGTGCATAACATTTAGCTTTGCTTGCTTGTATGGGT
ATGGTGAAGCATGTAGGGGTTGGGTGCTTTATTTGTTTTTTGGATATTATTTTAGTTAAAAAGAT
GTATGATGACCCCTAATAACTTAAACAAGCTTTAATAATC
Found at i:168694 original size:20 final size:20
Alignment explanation
Indices: 168660--168711 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
168650 CTATTCATAG
*
168660 AGTATCAATACTGTTTGACA
1 AGTATCGATACTGTTTGACA
* * *
168680 TGTATCGATATTGTTTGAGA
1 AGTATCGATACTGTTTGACA
168700 AGTATCGATACT
1 AGTATCGATACT
168712 AAAAGGCGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
AGTATCGATACTGTTTGACA
Found at i:168777 original size:41 final size:41
Alignment explanation
Indices: 168731--168843 Score: 226
Period size: 41 Copynumber: 2.8 Consensus size: 41
168721 GGTATCAATG
168731 CCATTGTTAAGTCACAAATTCTAGTAGCCATTATATCGATA
1 CCATTGTTAAGTCACAAATTCTAGTAGCCATTATATCGATA
168772 CCATTGTTAAGTCACAAATTCTAGTAGCCATTATATCGATA
1 CCATTGTTAAGTCACAAATTCTAGTAGCCATTATATCGATA
168813 CCATTGTTAAGTCACAAATTCTAGTAGCCAT
1 CCATTGTTAAGTCACAAATTCTAGTAGCCAT
168844 ATTTTGGTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (41 bp):
CCATTGTTAAGTCACAAATTCTAGTAGCCATTATATCGATA
Found at i:176868 original size:19 final size:19
Alignment explanation
Indices: 176844--176887 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
176834 GACTTTAATC
176844 AAAAAATCAATATTTTTTG
1 AAAAAATCAATATTTTTTG
176863 AAAAAATCAATATTTTTTG
1 AAAAAATCAATATTTTTTG
176882 AAAAAA
1 AAAAAA
176888 AAATCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAAAATCAATATTTTTTG
Found at i:176899 original size:19 final size:19
Alignment explanation
Indices: 176844--176899 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
176834 GACTTTAATC
176844 AAAAAATCAATATTTTTTGAAA
1 AAAAAATC-ATA--TTTTGAAA
* *
176866 AAATCAAT-ATTTTTTGAAA
1 AAA-AAATCATATTTTGAAA
176885 AAAAAATCATATTTT
1 AAAAAATCATATTTT
176900 TGTGTTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
18 3 0.11
19 17 0.61
21 2 0.07
22 3 0.11
23 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (19 bp):
AAAAAATCATATTTTGAAA
Found at i:192558 original size:21 final size:23
Alignment explanation
Indices: 192534--192579 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
192524 TAATCGTTAC
*
192534 ATATGAT-GTTATCATTAAT-AT
1 ATATGATAGTTATCATGAATGAT
*
192555 ATATGATATTTATCATGAATGAT
1 ATATGATAGTTATCATGAATGAT
192578 AT
1 AT
192580 TTCGGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (23 bp):
ATATGATAGTTATCATGAATGAT
Found at i:196411 original size:657 final size:658
Alignment explanation
Indices: 195148--196470 Score: 2159
Period size: 657 Copynumber: 2.0 Consensus size: 658
195138 TCAAAGCAAC
*
195148 TATA-GAATCATGAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAATTGTGTTTACTTT
1 TATATGAATCATAAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAATTGTGTTTACTTT
*
195212 GTTGATATAACACCACTATGTACATGGTGAGTGACTTTATATCTATACGAATCTCAAAATTCAAA
66 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGAATCTCAAAATTCAAA
*
195277 AGTATTTGTTGGCTCGAATGAGTGAAAAGAATGGAAACAAATTGAATTCCTTAAAGAATGATGAC
131 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAACAAATTGAATTCCTTAAAGAATGATGAC
* * *
195342 GTGTTTATCAACTGCAAACAAGAAAGGTTAATGTGGTGGCTGATAAAGTCGAAATACATTTTTAT
196 GTGTTTATCAAATGCAAACAAGAAAGGTTAATGTGGTGGATGATAAAGTCGAAATACATTTCTAT
* ** * * *
195407 TCTTAGTGTTTTGAATAAATGATTGTCTTTAAAGAAATATGGTGTTTTGATTGTATAATTAAATT
261 TCTGAAAGTTTTGAATAAATGATTGTCCTTAAAGAAATATGGTCTTTTGATTGTAAAATTAAATT
*
195472 TAAAGACTATGTTGATGGATCGAATAAAGGATCTTAAAAGAAAATATGAAAATTGTGTGCTTGTC
326 TAAAGACTATGTTGATGGATCGAATAAAGGATCTTAAAAGAAAAGATGAAAATTGTGTGCTTGTC
* * * *
195537 AAAGATAAAACAAGCAAGACAATGAGAAACTAAAGACTTTAAGGTTAAGATTTATTAGTGTTTAT
391 AAAGATAAAACAAGCAAGAAAAGGAGAAACTAAAGACTTTAAGGTAAAGATTTATGAGTGTTTAT
*
195602 ATTATTGAAGAAAGAGTTTCGAAGCAGGTATAAAAAGAGTTATCTTCGAACTTATTTCTCAATGA
456 ATTATCGAAGAAAGAGTTTCGAAGCAGGTATAAAAAGAGTTATCTTCGAACTTATTTCTCAATGA
*
195667 TTATATTCCATTTGAAAAAGCTATTGAGGAAAGACATGTTATTCATTTGGACTGTTAAGTGCCAA
521 TTATATTCCATTTGAAAAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAGTGCCAA
* *
195732 GAAAACTTTGAGATGATAAAAATGAATACTGACACAAGCTCCAATGTCAATATAATTAGAATCTG
586 GAAAACTTTGAGATGATAAAAATGAATACTAACACAAGCTCCAAGGTCAATATAATTAGAATCTG
195797 GAAAAGAT
651 GAAAAGAT
*
195805 TATATGAATCATAAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTGTTTACTTT
1 TATATGAATCATAAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAATTGTGTTTACTTT
* *
195870 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATATGGATCTCAAAATTCAAA
66 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGAATCTCAAAATTCAAA
* * *
195935 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATTAC
131 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAACAAATTGAATTCCTTAAAGAATGATGAC
* * *
196000 GTGTTTATCAAATGCAAACAAG-AAGGTTAATGTGGTGGATTATAATGTTGAAATACATTTCTAT
196 GTGTTTATCAAATGCAAACAAGAAAGGTTAATGTGGTGGATGATAAAGTCGAAATACATTTCTAT
*
196064 TCTGAAAGTTTTGAATATATGATTGTCCTTAAAGAAATATGGTCTTTTGATTGTAAAATTAAATT
261 TCTGAAAGTTTTGAATAAATGATTGTCCTTAAAGAAATATGGTCTTTTGATTGTAAAATTAAATT
* * *
196129 TAAAG-CTTATGTTGATGGATCGAATAAATGATCTTAAGAGAAAAGATGAAAATTTTGTGCTTGT
326 TAAAGAC-TATGTTGATGGATCGAATAAAGGATCTTAAAAGAAAAGATGAAAATTGTGTGCTTGT
* *
196193 CAATGATAGAACAAGCAAGAAAAGGAGAAACTAAAGACTTTAAGGTAAAG-TTTGATGAGTGTTT
390 CAAAGATAAAACAAGCAAGAAAAGGAGAAACTAAAGACTTTAAGGTAAAGATTT-ATGAGTGTTT
* * *
196257 ATATTATCGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAAT
454 ATATTATCGAAGAAAGAGTTTCGAAGCAGGTATAAAAAGAGTTATCTTCGAACTTATTTCTCAAT
** * * *
196322 GATTATATTCCATTTGACTAAGCTATTGAGCAAAGACATGTTATTCATTTGGAGTGTTAATTGCT
519 GATTATATTCCATTTGAAAAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAGTGCC
* * * *
196387 AAGAAAACTTTGAGATGTTAAAAATGAATATTAACAGAAGCTCCAAGGTCAGTATAATTAGAATC
584 AAGAAAACTTTGAGATGATAAAAATGAATACTAACACAAGCTCCAAGGTCAATATAATTAGAATC
196452 TGGAAAAGAT
649 TGGAAAAGAT
*
196462 TATGTGAAT
1 TATATGAAT
196471 TATAGTAAAG
Statistics
Matches: 614, Mismatches: 49, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
656 4 0.01
657 408 0.66
658 202 0.33
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (658 bp):
TATATGAATCATAAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAATTGTGTTTACTTT
GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGAATCTCAAAATTCAAA
AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAACAAATTGAATTCCTTAAAGAATGATGAC
GTGTTTATCAAATGCAAACAAGAAAGGTTAATGTGGTGGATGATAAAGTCGAAATACATTTCTAT
TCTGAAAGTTTTGAATAAATGATTGTCCTTAAAGAAATATGGTCTTTTGATTGTAAAATTAAATT
TAAAGACTATGTTGATGGATCGAATAAAGGATCTTAAAAGAAAAGATGAAAATTGTGTGCTTGTC
AAAGATAAAACAAGCAAGAAAAGGAGAAACTAAAGACTTTAAGGTAAAGATTTATGAGTGTTTAT
ATTATCGAAGAAAGAGTTTCGAAGCAGGTATAAAAAGAGTTATCTTCGAACTTATTTCTCAATGA
TTATATTCCATTTGAAAAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAGTGCCAA
GAAAACTTTGAGATGATAAAAATGAATACTAACACAAGCTCCAAGGTCAATATAATTAGAATCTG
GAAAAGAT
Found at i:197351 original size:740 final size:740
Alignment explanation
Indices: 195805--197801 Score: 3140
Period size: 740 Copynumber: 2.7 Consensus size: 740
195795 TGGAAAAGAT
195805 TATATGAATCATAAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTGTTTACTTT
1 TATAT-AATCAT-AAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTGTTTACTTT
* *
195870 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATATGGATCTCAAAATTCAAA
64 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGGATCTCAAAAGTCAAA
* *
195935 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATTAC
129 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATAAT
* * * * *
196000 GTGTTTATCAAATGCAAACAAGAAGGTTAATGTGGTGGATTATAATGTTGAAATACATTTCTATT
194 GTGTTTATCAACTGCAAAC-A-AAGGTTAATGTGGTGGCTGATAAAGTTAAAATACATTTCTATT
* * * * *
196065 CTGAAAGTTTTGAATATATGATTGTCCTTAAAGAAATATGGTCTTTTGATTGTAAAATTAAATTT
257 ATGAAAGTTTTGAATACATGATTGTCTTTAAAGAAATATGGTGTTTTGATTGTATAATTAAATTT
* *
196130 AAAGCTTATGTTGATGGATCGAATAAATGATCTTAAGAGAAAAGATGAAAATTTTGTGCTTGTCA
322 AAAGCCTATGTTGATGGATCGAATAAAGGATCTTAAGAGAAAAGATGAAAATTTTGTGCTTGTCA
* * *
196195 ATGATAGAACAAGCAAGAAAAGGAGAAACTAAAGACTTTAAGGTAAAGTTTGATGAGTGTTTATA
387 AAGATAGAACAAGCAGGAAAAGGAGAAACTAAAGACTTTAAGGTTAAGTTTGATGAGTGTTTATA
196260 TTATCGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAATGAT
452 TTATCGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAATGAT
* * *
196325 TATATTCCATTTGACTAAGCTATTGAGCAAAGACATGTTATTCATTTGGAGTGTTAATTGCTAAG
517 TATATTCCATTTGACCAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAATGCTAAG
* *
196390 AAAACTTTGAGATGTTAAAAATGAATATTAACAGAAGCTCCAAGGTCAGTATAATTAGAATCTGG
582 AAAACTTTGAGATGTTAAAAATGAATACTAACACAAGCTCCAAGGTCAGTATAATTAGAATCTGG
* *
196455 AAAAGATTATGTGAATTATAGTAAAGCATCTCATAATGGTTTGGGAAGAATGTTCGTTCAAGATG
647 AAAAGATTATGTGAATTATAGTAAAGCATCTCATAATGGTTTGGGAAGAATGTTCATTCAAGAGG
*
196520 AAAAGTTTTGGTTTATGCTTCAAAGAAAC
712 AAAAGTTTTGGTTTATGATTCAAAGAAAC
* * * *
196549 TATAGAATCATGAAATAAATTATCTAACTTGTGATCTCGAGTTGACAACAGTTGTGTTTACTTTG
1 TATATAATCAT-AAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTGTTTACTTTG
* * *
196614 GTGTTATAATACCACTATCTACATGGTGAGTGACTTTATATCTATACGGATCTCAAAAGTCAAAA
65 TTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGGATCTCAAAAGTCAAAA
** *
196679 GTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATTTATTGAATTCCTTAAAGAATGATGATG
130 GTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATAATG
* *
196744 TGTTTATCAACTGTAAAC-AAGGTTAATGTGGTGGCGGATAAAGTTAAAATACATTTCTATTATG
195 TGTTTATCAACTGCAAACAAAGGTTAATGTGGTGGCTGATAAAGTTAAAATACATTTCTATTATG
*
196808 AAAGTTTTGAATACATGATTGTCTTTAAAGAAATATAGTGTTTTGATTGTATAATTAAATTTAAA
260 AAAGTTTTGAATACATGATTGTCTTTAAAGAAATATGGTGTTTTGATTGTATAATTAAATTTAAA
* * *
196873 GCCTGTGTTGATGGATCAAATAAAGGATCTTAAGAGAAAAGATGAAAATTTTGTTCTTGTCAAAG
325 GCCTATGTTGATGGATCGAATAAAGGATCTTAAGAGAAAAGATGAAAATTTTGTGCTTGTCAAAG
* * * *
196938 ATAGAACAAGTAGGAAAAGGATAAATTAAAGACTTTAAGGTTAAGTTTGATGAGTGTTTATAATA
390 ATAGAACAAGCAGGAAAAGGAGAAACTAAAGACTTTAAGGTTAAGTTTGATGAGTGTTTATATTA
* *
197003 TCGAGGATAGAGTTTCGAACCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAATGATTAT
455 TCGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAATGATTAT
* *
197068 ATTCCATTTGACCAAGCTATTGAGGAAAGACATGTTATTCATTTGGACTGTTAAATG-TCAAGAT
520 ATTCCATTTGACCAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAATGCT-AAGAA
* *
197132 AACTTTGAGATGTTAAAAATGAATACTGACACAAGCTCTAAGGTCAGTATAATTAGAATCTGGAA
584 AACTTTGAGATGTTAAAAATGAATACTAACACAAGCTCCAAGGTCAGTATAATTAGAATCTGGAA
**
197197 AAGATTATGTGAATTATAGTAAAGCA-CTCATAATGGTTTGGGAAGTGTGTTCATTCAAGAGGAA
649 AAGATTATGTGAATTATAGTAAAGCATCTCATAATGGTTTGGGAAGAATGTTCATTCAAGAGGAA
* * *
197261 AATTTTTGGTTTATGATTCAATGTAAC
714 AAGTTTTGGTTTATGATTCAAAGAAAC
* *
197288 TATATAATCATATAAGAAATTATCTGACTGGTTATCTCGAGTTGACAACAGTTGTGTTTTACTTT
1 TATATAATCATA-AAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTG-TTTACTTT
* *
197353 GTTGATATAACACCACTATCTACATGGTAAGTGACTTTATATCTATACGGATGTCAAAAGTCAAA
64 GTTGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGGATCTCAAAAGTCAAA
* *
197418 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCCTAAAAAATGATAAT
129 AGTATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATAAT
** *
197483 GTGTTTATCAACTGCAAACAAGAAAGGTTAATGTGGTGGCTGATAAAGCCAAAATACATTTC-AA
194 GTGTTTATCAACTGCAAAC---AAAGGTTAATGTGGTGGCTGATAAAGTTAAAATACATTTCTAT
* * *
197547 TATGAGAGTTTTGAATACATGATTATCTTTAAAGAAATATGGTGTTTTTATTGTATAATTAAATT
256 TATGAAAGTTTTGAATACATGATTGTCTTTAAAGAAATATGGTGTTTTGATTGTATAATTAAATT
* * *
197612 TAAAGCCTATGTTGATGAATCGAAT-AAGGATCTTAAGAGAAAAAAATGAAAATTTTGTGCTTTT
321 TAAAGCCTATGTTGATGGATCGAATAAAGGATCTTAAGAG-AAAAGATGAAAATTTTGTGCTTGT
* * *
197676 CAAAGATAGAACAAGCATGAAAAATGAGAAACTGAAGACTTTAAGGTTAAGTTTGATGAGTGTTT
385 CAAAGATAGAACAAGCA-GGAAAAGGAGAAACTAAAGACTTTAAGGTTAAGTTTGATGAGTGTTT
* *
197741 ATATTATCGAAGAAAGAGTTTCGAAGCAGGTATGAAAAGAGCTATCTTCGAACTTGTTTCT
449 ATATTATCGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCT
197802 AAATAACTAA
Statistics
Matches: 1145, Mismatches: 99, Indels: 18
0.91 0.08 0.01
Matches are distributed among these distances:
738 1 0.00
739 107 0.09
740 571 0.50
742 14 0.01
743 314 0.27
744 138 0.12
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (740 bp):
TATATAATCATAAAGAAATTATCTGACTCGTGATCTCGAGTTGACAACAGTTGTGTTTACTTTGT
TGATATAACACCACTATCTACATGGTGAGTGACTTTATATCTATACGGATCTCAAAAGTCAAAAG
TATTTGTTGGCTCGAATGAGTGAAAAGAAAGGAAATAGATTGAATTCCTTAAAGAATGATAATGT
GTTTATCAACTGCAAACAAAGGTTAATGTGGTGGCTGATAAAGTTAAAATACATTTCTATTATGA
AAGTTTTGAATACATGATTGTCTTTAAAGAAATATGGTGTTTTGATTGTATAATTAAATTTAAAG
CCTATGTTGATGGATCGAATAAAGGATCTTAAGAGAAAAGATGAAAATTTTGTGCTTGTCAAAGA
TAGAACAAGCAGGAAAAGGAGAAACTAAAGACTTTAAGGTTAAGTTTGATGAGTGTTTATATTAT
CGAGGAAAGAGTTTCGAAGCAGGTATGAAAAGAGTTATCTTCGAACTTGTTTCTCAATGATTATA
TTCCATTTGACCAAGCTATTGAGCAAAGACATGTTATTCATTTGGACTGTTAAATGCTAAGAAAA
CTTTGAGATGTTAAAAATGAATACTAACACAAGCTCCAAGGTCAGTATAATTAGAATCTGGAAAA
GATTATGTGAATTATAGTAAAGCATCTCATAATGGTTTGGGAAGAATGTTCATTCAAGAGGAAAA
GTTTTGGTTTATGATTCAAAGAAAC
Found at i:204145 original size:106 final size:106
Alignment explanation
Indices: 203960--204173 Score: 428
Period size: 106 Copynumber: 2.0 Consensus size: 106
203950 TTTGGTATTG
203960 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
1 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
204025 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
66 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
204066 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
1 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
204131 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
66 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
204172 AT
1 AT
204174 GAATTGATTG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (106 bp):
ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
Found at i:204231 original size:106 final size:106
Alignment explanation
Indices: 203960--204216 Score: 275
Period size: 106 Copynumber: 2.4 Consensus size: 106
203950 TTTGGTATTG
* ** ** * ***
203960 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
1 ATATATTCGATTCAGTTTAAACAAAGATTTAAAACAATAAAAACTTTGACCTTGATTTTTGGTTA
204025 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
66 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
* ** ** * ***
204066 ATATATTCGATTCAGTTTGATTAAAGATTTAATTCACTAGGTACTTTGACCTTGATTTTTGGTTA
1 ATATATTCGATTCAGTTTAAACAAAGATTTAAAACAATAAAAACTTTGACCTTGATTTTTGGTTA
204131 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
66 AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
***
204172 ATGA-ATT-GATTGCATGTTTAAACAATTCTTTAAAAACAATAAAAA
1 AT-ATATTCGATT-CA-GTTTAAACAAAGATTT-AAAACAATAAAAA
204217 ACTTGAGTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
105 4 0.03
106 113 0.84
107 11 0.08
108 7 0.05
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (106 bp):
ATATATTCGATTCAGTTTAAACAAAGATTTAAAACAATAAAAACTTTGACCTTGATTTTTGGTTA
AATGATGGTTGTCCAGTTTGTCTATGATAATTTATGATGTT
Found at i:208055 original size:90 final size:88
Alignment explanation
Indices: 207941--208114 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 88
207931 TCCTGAATAT
* * *
207941 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAA-CCCTAATATGACTAG
208006 GGTAACTTAGATATAAAAGGATTA
65 GGTAACTTAGATATAAAAGGATTA
*
208030 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGACTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGACTAG
* *
208095 GGTAACTTGGCTATAAAAGG
65 GGTAACTTAGATATAAAAGG
208115 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 38 0.49
90 40 0.51
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGACTAGG
GTAACTTAGATATAAAAGGATTA
Found at i:214869 original size:90 final size:88
Alignment explanation
Indices: 214755--214928 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 88
214745 TCCCGAATAT
* * *
214755 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGACTAG
214820 GGTAACTTAGATATAAAAGGATTA
65 GGTAACTTAGATATAAAAGGATTA
214844 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGACTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGACTAG
* *
214909 GGTAACTTGGCTATAAAAGG
65 GGTAACTTAGATATAAAAGG
214929 GTGTGTTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 38 0.48
90 41 0.52
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGACTAGG
GTAACTTAGATATAAAAGGATTA
Found at i:215640 original size:118 final size:118
Alignment explanation
Indices: 215432--215788 Score: 606
Period size: 118 Copynumber: 3.0 Consensus size: 118
215422 TTCTTTCACA
* * * *
215432 TAACCTGCGAAACAATATTTAGTATGCCAAACATACCTATCAATCAATATTTCTCCAAATTATCC
1 TAACCTACGAAACAATATTTAGTATGCCCATCATACCTATCAATCAATATTTTTCCAAATTATCC
**
215497 TTTTATTTTCCCAATGTATGTTGAATGAGAATGCAAGGAACATGAATTGCACC
66 TTTTATTTTCCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACC
215550 TAACCTACGAAACAATATTTAGTATGCCCATCATACCTATCAATCAATATTTTTCCAAATTATCC
1 TAACCTACGAAACAATATTTAGTATGCCCATCATACCTATCAATCAATATTTTTCCAAATTATCC
* *
215615 TTTTATTTGCCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACA
66 TTTTATTTTCCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACC
* *
215668 TAACCTACGAAACAATATTTAGTATGCCCATCTTACCTATCAATCAGTATTTTTCCAAATTATCC
1 TAACCTACGAAACAATATTTAGTATGCCCATCATACCTATCAATCAATATTTTTCCAAATTATCC
* *
215733 TTATATTTTTCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACC
66 TTTTATTTTCCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACC
215786 TAA
1 TAA
215789 GTGCCAAAAT
Statistics
Matches: 225, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 225 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (118 bp):
TAACCTACGAAACAATATTTAGTATGCCCATCATACCTATCAATCAATATTTTTCCAAATTATCC
TTTTATTTTCCCAATGTATGTTGAATGAGAATGCAAGGTGCATGAATTGCACC
Found at i:215858 original size:53 final size:53
Alignment explanation
Indices: 215788--216003 Score: 317
Period size: 53 Copynumber: 4.1 Consensus size: 53
215778 ATTGCACCTA
* *
215788 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTCCAAGGTTGCACACAT
1 AGTGCTAAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
215841 AGTGCTGAAATGGTAATTCACAATCTCATTATGAATTCTATGGTTGCACACAT
1 AGTGCTAAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
215894 AGTG-TCAAAATGGTAATTCACAAACTCATTATAAATTTCATGGTTGCACATAT
1 AGTGCT-AAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
215947 AGTTCAAAAATGGTAATTCACAAACTCATTATGAATTTCATGGTTGCACACAT
1 AGTGCTAAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
216000 AGTG
1 AGTG
216004 ACGATAGTAC
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 144 0.99
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (53 bp):
AGTGCTAAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
Found at i:228083 original size:53 final size:53
Alignment explanation
Indices: 228013--228228 Score: 308
Period size: 53 Copynumber: 4.1 Consensus size: 53
228003 ATTGCACCTA
* * **
228013 AGTGTCGAAATAGTAATTCACAAATTCATTATGAATTTAATGGTTGCACACAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* *
228066 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTTCACATAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
228119 AGTGCCAAAATGGTAATTCACAAATTCATTATGAATTCCATGGTTGCACACAT
1 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
* * *
228172 ACT-ACTGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTACACACAT
1 AGTGTC-GAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
228225 AGTG
1 AGTG
228229 CCGATAGTAC
Statistics
Matches: 144, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 143 0.99
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (53 bp):
AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
Found at i:228210 original size:106 final size:106
Alignment explanation
Indices: 228020--228230 Score: 343
Period size: 106 Copynumber: 2.0 Consensus size: 106
228010 CTAAGTGTCG
* * *
228020 AAATAGTAATTCACAAATTCATTATGAATTTAATGGTTGCACACATAGTGTCGAAATGGTAATTC
1 AAATAGTAATTCACAAATTCATTATGAATTCAATGGTTGCACACATACTCTCGAAATGGTAATTC
* *
228085 ACAAACTCATTATGAATTCCATGGTTTCACATATAGTGCCA
66 ACAAACTCATTATGAATTCCATGGTTACACACATAGTGCCA
* *
228126 AAATGGTAATTCACAAATTCATTATGAATTCCATGGTTGCACACATACTACT-GAAATGGTAATT
1 AAATAGTAATTCACAAATTCATTATGAATTCAATGGTTGCACACATACT-CTCGAAATGGTAATT
228190 CACAAACTCATTATGAATTCCATGGTTACACACATAGTGCC
65 CACAAACTCATTATGAATTCCATGGTTACACACATAGTGCC
228231 GATAGTACAA
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
106 96 0.99
107 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (106 bp):
AAATAGTAATTCACAAATTCATTATGAATTCAATGGTTGCACACATACTCTCGAAATGGTAATTC
ACAAACTCATTATGAATTCCATGGTTACACACATAGTGCCA
Found at i:229111 original size:20 final size:21
Alignment explanation
Indices: 229068--229111 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
229058 AAACTAACTT
** *
229068 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
229089 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
229109 ACA
1 ACA
229112 CTTCAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:229375 original size:23 final size:24
Alignment explanation
Indices: 229334--229388 Score: 103
Period size: 23 Copynumber: 2.3 Consensus size: 24
229324 TAAGGCTTCT
229334 AAACCAACCCAAAAACGAAAGGAA
1 AAACCAACCCAAAAACGAAAGGAA
229358 AAACCAACCC-AAAACGAAAGGAA
1 AAACCAACCCAAAAACGAAAGGAA
229381 AAACCAAC
1 AAACCAAC
229389 TTGAAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.62, C:0.27, G:0.11, T:0.00
Consensus pattern (24 bp):
AAACCAACCCAAAAACGAAAGGAA
Found at i:229443 original size:12 final size:13
Alignment explanation
Indices: 229423--229456 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
229413 AGAGGTACGT
229423 ATATGAGAAGAAGA
1 ATAT-AGAAGAAGA
229437 ATA-AGAAGAAGA
1 ATATAGAAGAAGA
229449 ATATAGAA
1 ATATAGAA
229457 CCAAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
13 4 0.21
14 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (13 bp):
ATATAGAAGAAGA
Found at i:234371 original size:13 final size:14
Alignment explanation
Indices: 234355--234390 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
234345 TTAAGACATG
234355 CATTTATGACT-CA
1 CATTTATGACTGCA
234368 CATTTATGA-TGCA
1 CATTTATGACTGCA
234381 CATTTATGAC
1 CATTTATGAC
234391 GGTCATTGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (14 bp):
CATTTATGACTGCA
Done.