Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1646
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: 18810
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Found at i:636 original size:193 final size:192
Alignment explanation
Indices: 271--647 Score: 492
Period size: 193 Copynumber: 2.0 Consensus size: 192
261 AGAACTCCGC
* *
271 AGTTAAGTGTACTTGGGCGAGATTAGTATAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGCA
1 AGTTAAGCGTACTTGGGCGAGAGTAGTATAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGCA
* * * *
336 CCCTCCTGTTTTATTTCATATAAACTTGTTTTCGTTGCATTTTCTACACGTGGTGTAACTAATTA
66 CCCTCCTATTTTACTTCATATAAACTTGTTTTCGTAGAATTTTCTACACGTGGTGTAACTAATTA
* * *
401 CTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTGCGCTAGAGT
131 CTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
* * *
463 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATT-GGTGACCTCCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTACTTGGGCGAGAGTAGTA-TAGG-TTGGGTGACCTCCAGGGAAGTCCTCGTATTG
** * * *
527 CACCCCTCC-ATTTTACTTCATATAATGTTTTTTTTAC-TAGAATTTTCTA-ACGTGGTTTAGCT
64 CA-CCCTCCTATTTTACTTCATATAA-ACTTGTTTT-CGTAGAATTTTCTACACGTGGTGTAACT
* * * *
589 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGC
126 AATTACTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGC
648 ATTCAATTCG
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
192 25 0.16
193 109 0.69
194 24 0.15
195 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (192 bp):
AGTTAAGCGTACTTGGGCGAGAGTAGTATAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGCA
CCCTCCTATTTTACTTCATATAAACTTGTTTTCGTAGAATTTTCTACACGTGGTGTAACTAATTA
CTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
Found at i:1009 original size:301 final size:290
Alignment explanation
Indices: 461--1789 Score: 1356
Period size: 301 Copynumber: 4.6 Consensus size: 290
451 TTGCGCTAGA
*
461 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * * *
526 GCACCCCT-CCATTTTACTTCATATAATGTTTTTTTT-ACTAGAATTTTCT-AACGTGGTTTAGC
66 GCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAATTA-AATTTTCTAAACGTGGTGTAAC
**
588 TAATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTC-
130 TAATTAGT-ATTTGCATTTTGCGAAATAAATAATTTG----G-----T---CGAATTTGCATTCA
* * **
652 AATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGG
182 AATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGG
* *
716 GTGTGA-CAATACCAGCAGTAATGCATAGGATCCCATCAGAACTCT
246 GTGTGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
761 GTAGTTTAGCGTGCTTGCGG-GATAGTAGTACTATGATGGGTGACCTTCTGGGAAGTCCTCGTTT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
** **
825 TGCACCTTTCTAATTTTATTTCATATAAAGTTTTTTTTAATTAAATTTTCTAAACGTGGTGTAAC
65 TGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAATTAAATTTTCTAAACGTGGTGTAAC
* *
890 TAAATAGTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCAA
130 TAATTAGTATTTGCATTTTGCGAAATAAATAATTTG----G--------TCGAATTTGCATTCAA
* *
955 ATTCGAGACGCAAGTGCGAT-AGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGGT
183 ATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGT
1019 GTGATCATA-CAGCAGTAATGCACAGGATCCCATCAGAACTCC
248 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
1061 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGT
* * * * *
1126 TGCAACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTG-AAC
65 TGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAATTAAATTTTCTAAACGTGGTGTAAC
* *
1190 TAATTAATAATTTGCATTTTGCG---T---T-ATTTGGTC-AATTTGCATTCATATTCGAGGCGC
130 TAATTAGT-ATTTGCATTTTGCGAAATAAATAATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
* *
1247 AAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGGGA-CGATAC
194 AAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGTGTGATC-ATAC
* * * ** *
1311 CAACACTAATGCACCGGATCATATCAAAACTCC
258 CAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * * *
1344 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCT-GTAATGGCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAA-GTCCTCGTGT
* * *
1408 TGCACCCCTCCCATTTTATTTCATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTGTAAC
65 TGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAATTAAATTTTCTAAACGTGGTGTAAC
* * *
1472 TAATTAGTTATTTACGTTTTGCG---T---T-ATTTGGTCGAATTTGCATTCATATTCGAGGCGC
130 TAATTAG-TATTTGCATTTTGCGAAATAAATAATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
* * * * *
1530 AAGTGCGATAAAGGGTAGCCTTTATATAAATAGA-TGCG-CAGAGTTGATGGGCT-CGATCATAC
194 AAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGG-TGTGATCATAC
*
1592 CAGC-GCTAATGCACCGGATCCCATCAGAACTCC
258 CAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * *
1625 GCAGTTAAGTGTGCTTGGGCGAGATTAGTACTAGGTTGGGAGACCTCCAGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * ** * *
1690 GCACCCCTCCCGTTTTATTTCATATAAAGTTGTTTTTT-TTTGCATTTTCTACATGTGGTGTAAC
66 GCACCCCTCCCATTTTATTTCATATAAAGTT-TTTTTTAATTAAATTTTCTAAACGTGGTGTAAC
* *
1754 TAATTACTTATTTTCATTTTGCGAAATAAATAATTT
130 TAATTA-GTATTTGCATTTTGCGAAATAAATAATTT
1790 AAAATATTAT
Statistics
Matches: 887, Mismatches: 109, Indels: 77
0.83 0.10 0.07
Matches are distributed among these distances:
281 182 0.21
282 171 0.19
283 125 0.14
285 1 0.00
288 1 0.00
289 4 0.00
290 1 0.00
294 5 0.01
295 1 0.00
298 1 0.00
299 1 0.00
300 141 0.16
301 204 0.23
302 44 0.05
304 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (290 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAATTAAATTTTCTAAACGTGGTGTAACT
AATTAGTATTTGCATTTTGCGAAATAAATAATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAA
GTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGTGTGATCATACCAG
CAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:1433 original size:282 final size:283
Alignment explanation
Indices: 929--1776 Score: 1088
Period size: 282 Copynumber: 3.0 Consensus size: 283
919 TAATTTGAAA
** * *
929 CGTTATTTTTTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGAT-AGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCATATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * *
993 AATAGATTGTGTAAGAGTTGACGGGTGTGATCATA-CAGCAGTAATGCACAGGATCCCATCAGAA
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
* * * * *
1057 CTCCGTAGTTAAGCGTGCTTGTG-AGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCT
131 CTCCGCAGTTAAGCGTGCTTGGGCA-AGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGG-CCT
* * * *
1121 CGTGTTGCAACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGT
193 CGTGTTGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGT
* *
1186 G-AACTAATTAATAATTTGCATTTTG
258 GTAACTAATTAATTATTTACATTTTG
1211 CGTTATTTGGTC-AATTTGCATTCATATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCATATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * ** *
1275 AATAGATTGCGCAAGAGTTGACGGGTGGGA-CGATACCAACACTAATGCACCGGATCATATCAAA
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATC-ATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * *
1339 ACTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAATGGCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAA-GGCCTC
* *
1404 GTGTTGCACCCCTCCCATTTTATTTCATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTG
194 GTGTTGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTG
* *
1468 TAACTAATTAGTTATTTACGTTTTG
259 TAACTAATTAATTATTTACATTTTG
* *
1493 CGTTATTTGGTCGAATTTGCATTCATATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCATATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* *
1558 AATAGA-TGCGC-AGAGTTGATGGGCT-CGATCATACCAGCGCTAATGCACCGGATCCCATCAGA
66 AATAGATTGCGCAAGAGTTGACGGG-TGCGATCATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * * *
1620 ACTCCGCAGTTAAGTGTGCTTGGGCGAGATTAGTACTAGGTTGGGAGACCTCCAGGGAAGTCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTC
* * * *
1685 GTGTTGCACCCCTCCCGTTTTATTTCATATAAAGTTGTTTTTT-TTTGCATTTTCTACATGTGGT
194 GTGTTGCACCCCTCCCATTTTATTTCATATAAAGTT-TTTTTTAGTTGAATTTTCTACACGTGGT
* *
1749 GTAACTAATTACTTATTTTCATTTTG
258 GTAACTAATTAATTATTTACATTTTG
1775 CG
1 CG
1777 AAATAAATAA
Statistics
Matches: 491, Mismatches: 63, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
281 181 0.37
282 183 0.37
283 126 0.26
284 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (283 bp):
CGTTATTTGGTCGAATTTGCATTCATATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
CTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGT
GTTGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTGTA
ACTAATTAATTATTTACATTTTG
Found at i:2910 original size:283 final size:288
Alignment explanation
Indices: 1825--3117 Score: 1374
Period size: 285 Copynumber: 4.4 Consensus size: 288
1815 CGAGAGTAGC
* *
1825 TAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTTGCACC
1 TAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCT-GGAAGGCCTCGTGTTGCACC
* * * * *
1890 CCTCCCATTTTA-TTCATATAATGTTTTTTTAGTAGAATTTTCTAAACGTGGTTTAGCTAATTAG
65 CCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAATTAG
*
1954 TCATTTTAATTTTGCGAAAAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAAATTCGAG
130 ----TTTAATTTTGCG-----AT-ATTTG--ACGTTATTTGGTCGAATTTGCATTCAAATTCGAG
* * ** * *
2019 GCACAA--GCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCG-TA-AGTTGACGGGTGTAATC
183 GCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATC
* * *
2079 ATACCAGCAGTAATGCATAAGATCCCATCAGAACTCCGTAGT
247 ATACCAGCACTAATGCACAAGATCCCATCAGAACTCCGCAGT
* * * *
2121 TAAGCGTGCTTGCGG-GATAGTAGTACTATGATGGGTGACCTTCCGGGAAGACCTCGTGTTGCAC
1 TAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGGCCTCGTGTTGCAC
* * * * *
2185 CTCTCAAATTTTATTTCATATAAAGTTTTTTTA-TTAAAGTTTGTAAACGTGGTGTAACTAATTA
64 CCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAATTA
* *
2249 GTTATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTTGAATTTGCATTCAAATTCG
129 G---TTT-AATTTTGCG------AT-ATTTG--ACGTTATTTGGTCGAATTTGCATTCAAATTCG
* *
2314 AGGCGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGTGTGAT
181 AGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGAT
* * *
2379 CATACCAGTAGTAATGCACAAGATCCCATCAGAACTCCGTAGT
246 CATACCAGCACTAATGCACAAGATCCCATCAGAACTCCGCAGT
* *
2422 TAAGCGTGCTTGTGG-GATAGTAGTACTAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGTTGCA
1 TAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGG-CCTCGTGTTGCA
* * * * *
2486 ACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAACTAAT
63 CCCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAAT
*
2551 TA--ATAA-TTTGC-AT-TTTG-CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTG
127 TAGTTTAATTTTGCGATATTTGACGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTG
* * * *
2610 CGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTGGGA-CGATACCAACA
192 CGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATC-ATACCAGCA
** ** * *
2674 CTAATGCACCGGATCATATCAAAACTCCACAGT
256 CTAATGCACAAGATCCCATCAGAACTCCGCAGT
* * * * *
2707 TAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAATGGCCTCGTGTTGCACC
1 TAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGAA-GGCCTCGTGTTGCACC
* *
2772 CCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGTAACTAATTAG
65 CCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAATTAG
2837 -TT-A-TTTGCG-T-TTTG-CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGA
130 TTTAATTTTGCGATATTTGACGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGA
* * * * *
2896 TAAAGGGTAGCCTTTATATAAATAGA-TGCGCAAGAGTTGATGGG-CTGATCATACCAGCGCTAA
195 TAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATCATACCAGCACTAA
* **
2959 TGTACCGGATCCCATCAGAACTCCGCAGT
260 TGCACAAGATCCCATCAGAACTCCGCAGT
* * * * * * *
2988 TAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGCACC
1 TAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTCGTGTTGCACC
** * * * *
3053 CCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTAATTA
65 CCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAATTA
3118 ATTTTCATTT
Statistics
Matches: 866, Mismatches: 110, Indels: 56
0.84 0.11 0.05
Matches are distributed among these distances:
281 109 0.13
282 54 0.06
283 115 0.13
284 45 0.05
285 155 0.18
288 4 0.00
290 2 0.00
295 3 0.00
296 96 0.11
297 79 0.09
298 1 0.00
299 29 0.03
300 3 0.00
301 102 0.12
302 34 0.04
303 8 0.01
304 27 0.03
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (288 bp):
TAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGTGTTGCACCC
CTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTAAACGTGGTGTAACTAATTAGT
TTAATTTTGCGATATTTGACGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGAT
AAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATCATACCAGCACTAAT
GCACAAGATCCCATCAGAACTCCGCAGT
Found at i:3767 original size:303 final size:289
Alignment explanation
Indices: 3176--4471 Score: 1250
Period size: 303 Copynumber: 4.4 Consensus size: 289
3166 TTGCGCTAGA
*
3176 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * * * * *
3241 GCACCCCTCCCATTTTACTTCATATAATGTTTTTTTA-CTAGAATTTTCTAAACGTGGTTTAGCT
66 GCA-CCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTA-AATTTTCTACACGTGGTGTAACT
* *
3305 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGAT-GAATTTGCATTCA
129 AAATAGTAATTTT-ATTTTGC---AT---T-ATTTG---CGTTATTT-G-TCGAATTTGCATTCA
* * ** *
3369 AATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGAC-G
181 AATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
* *
3432 GTGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
245 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
3477 GTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
3541 TGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAA
65 TGCACC-CTCCAATTTTATTTCATATAAAG--TTTTTTTAGTTAAATTTTCTACACGTGGTGTAA
* * * *
3606 CTAAATAGGAATTTGTGTTTGGCAAAATAAATTATTTGAAACGTTATTTTTCGAATTTGCATTCA
127 CTAAATAGTAATTT-TATTTTGC-------ATTATTTG---CGTTATTTGTCGAATTTGCATTCA
* * * *
3671 AATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGG
181 AATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG
3736 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
246 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
3780 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGT
*
3845 TGCAACCCTCCAA-TTTATTTCATATAAAG-TTTTTTAGTTAAATTTTCTACACGTGGTGAAACT
65 TGC-ACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACT
*
3908 -AAT--TAA---TAATTTGCA-T-TTTGCGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGC
129 AAATAGTAATTTTATTTTGCATTATTTGCGTTATTT-GTCGAATTTGCATTCAAATTCGAGGCGC
* * *
3965 AAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTGGGA-CGATAC
193 AAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATC-ATAC
* * * **
4029 CAACACTAATGCACCGGATCATATCA-AACTCC
257 CAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * * *
4061 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGAT-GCTGACCTCCT-GTAATGGCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAA-GTCCTCGTGT
* * ** * *
4124 TGCACCCTCCCATTTTATTTCATATAAAGTTTTTTCAGTTTGATTTTTTAAACGTGGTGTAACT-
65 TGCACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTA
* * *
4188 -AT--T-A-GTTA-TTTAC-GT-TTTGC-TTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCA
130 AATAGTAATTTTATTTTGCATTATTTGCGTTATTT-GTCGAATTTGCATTCAAATTCGAGGCGCA
* * * * *
4244 AGTGCGATAAAGGGTAGCCTTTATATAAATAGATGGCGCAAGAGTTGATGGGCT-CGATCATACC
194 AGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-TGTGATCATACC
* *
4308 AGC-GCTAATGTACCGGATCCCATCAGAACTCC
258 AGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * * * *
4340 GCAGTTAAGTGTACTTGGGCGAGATTAGTATTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
** * * * **
4405 GCACCCTTCCTGTTTTATTTCATATAAACTTATCTTTCGTTGCATTTTCTACACGTGGTGTAACT
66 GCACCC-TCCAATTTTATTTCATATAAAGTT-TTTTTAGTTAAATTTTCTACACGTGGTGTAACT
4470 AA
129 AA
4472 TTACTTATTT
Statistics
Matches: 851, Mismatches: 110, Indels: 85
0.81 0.11 0.08
Matches are distributed among these distances:
278 119 0.14
279 81 0.10
280 60 0.07
281 67 0.08
282 129 0.15
284 4 0.00
285 1 0.00
286 1 0.00
293 5 0.01
297 2 0.00
299 3 0.00
300 35 0.04
301 81 0.10
302 68 0.08
303 158 0.19
304 30 0.04
305 3 0.00
307 4 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (289 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
ATAGTAATTTTATTTTGCATTATTTGCGTTATTTGTCGAATTTGCATTCAAATTCGAGGCGCAAG
TGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGATCATACCAGC
AGTAATGCACAGGATCCCATCAGAACTCC
Found at i:4265 original size:278 final size:281
Alignment explanation
Indices: 3647--4488 Score: 1006
Period size: 282 Copynumber: 3.0 Consensus size: 281
3637 TTATTTGAAA
* * *
3647 CGTTATTT-TTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * *
3711 AATAGATTGTGTAAGAGTTGACGGGTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAA
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
* * * * *
3776 CTCCGTAGTTAAGCGTGCTTGTG-AGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCT
131 CTCCGCAGTTAAGCGTGCTTGGGCA-AGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGG-CCT
* **
3840 CGTGTTGCAACCCT-CCAATTTATTTCATATAAAGTTTTTT-AGTTAAATTTTCTACACGTGGTG
193 CGTGTTGC-ACCCTCCCATTTTATTTCATATAAAGTTTTTTCAGTTTGATTTTCTACACGTGGTG
* * *
3903 AAACTAATTAATAATTTGCATTTTG
257 TAACTAATTAATTATTTACATTTTG
3928 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * **
3993 AATAAATTGCGCAAGAGTTAACGGGTGGGA-CGATACCAACACTAATGCACCGGATCATATCA-A
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATC-ATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * *
4056 ACTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGAT-GCTGACCTCCTGTAATGGCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAA-GGCCTC
* *
4120 GTGTTGCACCCTCCCATTTTATTTCATATAAAGTTTTTTCAGTTTGATTTTTTAAACGTGGTGTA
194 GTGTTGCACCCTCCCATTTTATTTCATATAAAGTTTTTTCAGTTTGATTTTCTACACGTGGTGTA
* *
4185 ACT-ATTAGTTATTTACGTTTTG
259 ACTAATTAATTATTTACATTTTG
* *
4207 C-TTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * *
4271 AATAGATGGCGCAAGAGTTGATGGGCT-CGATCATACCAGCGCTAATGTACCGGATCCCATCAGA
66 AATAGATTGCGCAAGAGTTGACGGG-TGCGATCATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * * * *
4335 ACTCCGCAGTTAAGTGTACTTGGGCGAGATTAGTATTAGGTTGGGTGACCTCCAGGGAAGTCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTC
* ** *
4400 GTATTGCACCCTTCCTGTTTTATTTCATATAAACTTATCTTTC-G-TTGCATTTTCTACACGTGG
194 GTGTTGCACCC-TCCCATTTTATTTCATATAAAGTT-T-TTTCAGTTTG-ATTTTCTACACGTGG
* *
4463 TGTAACTAATTACTTATTTTCATTTT
255 TGTAACTAATTAATTATTTACATTTT
4489 ACGAAATATA
Statistics
Matches: 478, Mismatches: 67, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
278 114 0.24
279 94 0.20
280 55 0.12
281 70 0.15
282 126 0.26
283 19 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (281 bp):
CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
CTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGT
GTTGCACCCTCCCATTTTATTTCATATAAAGTTTTTTCAGTTTGATTTTCTACACGTGGTGTAAC
TAATTAATTATTTACATTTTG
Found at i:5512 original size:285 final size:283
Alignment explanation
Indices: 5002--5853 Score: 1019
Period size: 284 Copynumber: 3.0 Consensus size: 283
4992 TAATTTGAAA
** * *
5002 CGTTATTTTTTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * *
5067 AATAGATTGTGTAAGAGTTGACGGGTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAA
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
* * * * * *
5132 CTCCGTAGTTAAGCGTGCTTGTG-AGATAGTAGTACAAGGATGGGTAACCTTCCTGGGAGGTCCT
131 CTCCGCAGTTAAGCGTGCTTGGGCA-AGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGG-CCT
* * *
5196 CGTGTTGCAACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGT
193 CGTGTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGT
* * *
5261 GAAACTAATTAATAATTTGCATTTTG
258 GTAACTAATTAATTATTTACATTTTG
5287 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * ** *
5352 AATAAATTGCGCAAGAGTTAACAGGGTGGGA-CGATACCAACACTAATGCACCGGATCATATCAA
66 AATAGATTGCGCAAGAGTTGAC-GGGTGCGATC-ATACCAGCACTAATGCACCGGATCCCATCAG
* * * * *
5416 AACTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAATGGCCT
129 AACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAA-GGCCT
* * * *
5481 CGTGTTGCACCCCTCCCATTTTATTTCATATAAAG-TTTTTTCAGTTGATTTTTCTAAACGTGGT
193 CGTGTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGT
* *
5545 GTAACTAATTAGTTATTTACGTTTTG
258 GTAACTAATTAATTATTTACATTTTG
* * *
5571 CGTTATTTGGTCGAATTTGCTTTCAAATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * *
5636 AATAGATGGCGCAAGAGTTGATGGGCT-CGATCATACCAGCGCTAATGTACCGGATCCCATCAGA
66 AATAGATTGCGCAAGAGTTGACGGG-TGCGATCATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * * * *
5700 ACTCCGCAGTTAAGTGTACTTGGGCGAGATTAGTATTAGGTTGGGTGACCTCCAGGGAAGTCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTC
* * * ** * * * *
5765 GTATTACACCCTTCCTGTTTTATTTCATATAAACTTATTTTTCGTTGCATTTTCTACACGTGGTG
194 GTGTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTG
* *
5830 TAACTAATTACTTATTTTCATTTT
259 TAACTAATTAATTATTTACATTTT
5854 ACGAAATAAA
Statistics
Matches: 479, Mismatches: 80, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
283 107 0.22
284 176 0.37
285 121 0.25
286 74 0.15
287 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (283 bp):
CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
CTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGT
GTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTGTA
ACTAATTAATTATTTACATTTTG
Found at i:6085 original size:194 final size:195
Alignment explanation
Indices: 5707--6087 Score: 498
Period size: 195 Copynumber: 2.0 Consensus size: 195
5697 AGAACTCCGC
* * *
5707 AGTTAAGTGTACTTGGGCGAGATTAGTATTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTAC
1 AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTAC
* ** * * * *
5772 ACCCTTCCTGTTTTATTTCATATAAACTTATTTTTCGTTGCATTTTCTACACGTGGTGTAACTAA
66 ACCCCTCCCATTTTAATTCATATAAACTTATTTTTCGTAGAATTTTCTAAACGTGGTGTAACTAA
* * *
5837 TTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTGCGCTAGAGT
131 TTACTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
* * * *
5902 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATT-GGTGACCTCCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGG-TTGGGTGACCTCCAGGGAAGTCCTCGTATTA
** * *
5966 CACCCCTCCCATTTTAATTCATATAATGTT-TTTTTAC-TAGAATTTTCTAAACGTGGTTTAGCT
65 CACCCCTCCCATTTTAATTCATATAAACTTATTTTT-CGTAGAATTTTCTAAACGTGGTGTAACT
* * * *
6029 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGC
129 AATTACTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGC
6088 ATTCAAATTC
Statistics
Matches: 159, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
194 78 0.49
195 79 0.50
196 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (195 bp):
AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTAC
ACCCCTCCCATTTTAATTCATATAAACTTATTTTTCGTAGAATTTTCTAAACGTGGTGTAACTAA
TTACTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
Found at i:6451 original size:302 final size:300
Alignment explanation
Indices: 5900--7248 Score: 1429
Period size: 283 Copynumber: 4.6 Consensus size: 300
5890 TTGCGCTAGA
5900 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * * * * *
5965 GCACCCCTCCCATTTTAATTCATATAATG-TTTTTTTACTAGAATTTTCTAAACGTGGTTTAGCT
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTATTA-AATTTTCTACACGTGGTGTAACT
* ** *
6029 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAA
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT--TCGAATTTGCATTCAA
* * ** *
6094 ATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGGG
193 ATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG
* *
6158 TGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
257 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
6202 GTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGT
*
6266 TGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTCATTAAATTTTCTACACGTGGTGTAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTT-ATTAAATTTTCTACACGTGGTGTAAC
* *
6331 TAAATAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCA
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTCA
* *
6396 AATTCGAGGCGCAAGTGCGAT-AGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGG
192 AATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG
6460 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
257 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * * *
6504 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACC-TCCTGGGAAGTCCTCGTGT
* * *
6569 TGCAACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTA-TTAAATTTTCTACACGTGGTGTAAC
*
6634 TAATTAATAATTTGCATTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* *
6682 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTG
194 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTG
* * * * ** *
6747 GGA-CGATACCAACACTAATGCACCGGATCATATCAAAACTCC
259 TGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * *
6789 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGA-TGGCTGACCTCCT-GTAATGGCCTCGTG
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGG-TGACCTCCTGGGAA-GTCCTCGTG
* * * *
6852 TTGCACCCCTCCCATTTTATTTCATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTGTAA
64 TTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTA-TTAAATTTTCTACACGTGGTGTAA
* * *
6916 CTAATTAGTTATTTACGTTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAA
128 CTAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAA
* * * *
6964 ATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATGGCGCAAGAGTTGATGGGC
193 ATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-
* * *
7029 T-CGATCATACCAGC-GCTAATGTACCGGATCCCATCAGAACTCC
257 TGTGATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * * *
7072 GCAATTAAGTGTACTTGGGCGAGATTAGTACTAGG-TTGGATGACCTCCAGGGAAGTCCTCGTAT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGG-TGACCTCCTGGGAAGTCCTCGTGT
** * ** **
7136 TGCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTTATTAAATTTTCTACACGTGGTGTAAC
* * * * * *
7201 TAATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT
7249 GGCCGAATTT
Statistics
Matches: 896, Mismatches: 115, Indels: 73
0.83 0.11 0.07
Matches are distributed among these distances:
283 238 0.27
284 126 0.14
285 111 0.12
287 1 0.00
290 1 0.00
291 4 0.00
292 1 0.00
296 5 0.01
297 1 0.00
300 1 0.00
301 1 0.00
302 199 0.22
303 201 0.22
304 3 0.00
305 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (300 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTATTAAATTTTCTACACGTGGTGTAACTA
ATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATT
CGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTG
ATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:7818 original size:302 final size:300
Alignment explanation
Indices: 7267--8614 Score: 1423
Period size: 302 Copynumber: 4.6 Consensus size: 300
7257 TTGCGCTAGA
*
7267 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTAGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * ** * * *
7332 GCACCCCTCCCATTTTAATTCATATAATG-TTTTTTTACTAGAATTTTCTAAACGTGGTTTAGCT
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTA-AATTTTCTACACGTGGTGTAACT
* ** *
7396 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAA
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT--TCGAATTTGCATTCAA
* * ** *
7461 ATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGGG
193 ATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG
* *
7525 TGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
257 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
7569 GTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGT
* *
7633 TGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTTTTAAATTTTCTACACGTGGTGTAACT
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTACACGTGGTGTAACT
* *
7698 AAATAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCAA
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTCAA
* * * *
7763 ATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGGT
193 ATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGT
7828 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
258 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * * *
7871 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACC-TCCTGGGAAGTCCTCGTGT
* * *
7936 TGCAACCCTCCAATTCTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTT-GTTAAATTTTCTACACGTGGTGTAAC
*
8001 TAATTAATAATTTGCATTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* *
8049 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTG
194 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTG
* * * * ** *
8114 GGA-CGATACCAACACTAATGCACCGGATCATATCAAAACTCC
259 TGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * *
8156 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGA-TGGCTGACCTCCT-GTAATGGCCTCGTG
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGG-TGACCTCCTGGGAA-GTCCTCGTG
* * * * *
8219 TTGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGTAAC
64 TTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTACACGTGGTGTAAC
* * *
8284 TAATTAGTTATTTACGTTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* * * *
8332 TTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATGGCGCAAGAGTTGATGGGCT
194 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-T
* * *
8397 -CGATCATACCAGC-GCTAATGTACCGGATCCCATCAGAACTCC
258 GTGATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * * *
8439 GCAATTAAGTGTACTTGGGCGAGATTAGTACTAGG-TTGGTGACCTCCAGGGAAGTCCTCGTATT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
** * * **
8503 GCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACT
66 GCACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTTGTTAAATTTTCTACACGTGGTGTAACT
* * * * * *
8568 AATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT
8615 GGCCGAATTT
Statistics
Matches: 891, Mismatches: 121, Indels: 70
0.82 0.11 0.06
Matches are distributed among these distances:
282 45 0.05
283 237 0.27
284 52 0.06
285 141 0.16
286 1 0.00
289 1 0.00
290 4 0.00
293 1 0.00
297 5 0.01
298 1 0.00
301 2 0.00
302 289 0.32
303 65 0.07
304 47 0.05
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (300 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTACACGTGGTGTAACTA
ATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATT
CGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTG
ATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:8818 original size:194 final size:194
Alignment explanation
Indices: 8443--8808 Score: 511
Period size: 194 Copynumber: 1.9 Consensus size: 194
8433 AACTCCGCAA
* *
8443 TTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGTGACCTCCAGGGAAGTCCTCGTATTGCACC
1 TTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGTGACCTCCAGGGAAGTCCTCGTATTGCACC
** * * * *
8508 CCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTAATTA
66 CCTCCCATTTTACTTCATATAAACTTGTTTTTCGTAGAATTTTCTAAACGTGGTGTAACTAATTA
* *
8573 CTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTACGCTAGAGTAG
131 CTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTACGCTAGAGTAG
* * *
8637 TTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTTGCAC
1 TTAAGCGTACTTGGGCGAGAGTAGTACTAGG-TTGGTGACCTCCAGGGAAGTCCTCGTATTGCAC
** * *
8702 CCCTCCCATTTTACTTCATATAATGTT-TTTTTAC-TAGAATTTTCTAAACGTGGTTTAGCTAAT
65 CCCTCCCATTTTACTTCATATAAACTTGTTTTT-CGTAGAATTTTCTAAACGTGGTGTAACTAAT
* * * *
8765 TAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTT
129 TACTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTT
8809 TTTCGAATTT
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
194 95 0.64
195 54 0.36
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (194 bp):
TTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGTGACCTCCAGGGAAGTCCTCGTATTGCACC
CCTCCCATTTTACTTCATATAAACTTGTTTTTCGTAGAATTTTCTAAACGTGGTGTAACTAATTA
CTCATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTACGCTAGAGTAG
Found at i:9186 original size:304 final size:301
Alignment explanation
Indices: 8633--9983 Score: 1474
Period size: 304 Copynumber: 4.6 Consensus size: 301
8623 TTACGCTAGA
*
8633 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * * * * *
8698 GCACCCCTCCCATTTTACTTCATATAATG-TTTTTTTA-CTAGAATTTTCTAAACGTGGTTTAGC
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTA-AATTTTCTACACGTGGTGTAAC
* ***
8761 TAATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCA
130 TAATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTCA
* * ** *
8826 AATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGG
193 AATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
* *
8890 GTGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
257 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
8935 GTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
* *
8999 TGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTTTGTTAAATTTTCTACACGTGGTGTAA
65 TGCACCCCTCCAATTTTATTTCATATAAAG-TTTTTTTTAGTTAAATTTTCTACACGTGGTGTAA
*
9064 CTAAATAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTC
129 CTAATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTC
* * * *
9129 AAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGG
192 AAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
9194 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
257 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
9239 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGT
* *
9304 TGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAAC
9369 TAATTAGTAATTTGCGTTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
130 TAATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* *
9417 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTG
195 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTG
* * * * ** *
9482 GGA-CGATACCAACACTAATGCACCGGATCATATCAAAACTCC
260 TGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * * * *
9524 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGACGGCTGACCTCCT-GTAATGGCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAA-GTCCTCGTGT
* * * * *
9588 TGCACCCCTCCCATTTTATTTTATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTGTAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAAC
* *
9652 TAATTAGTTATTTACGTTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
130 TAATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* * *
9700 TTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGATGGGCT
195 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-T
* * *
9765 -CGATCATACCAGC-GCTAATGTACCGGATCCCATCAGAACTCC
259 GTGATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * * *
9807 GCAGTTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
** * * * **
9872 GCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACT
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACT
* * * * * * *
9937 AATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
131 AATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTT
9984 GGCCGAATTT
Statistics
Matches: 901, Mismatches: 117, Indels: 63
0.83 0.11 0.06
Matches are distributed among these distances:
283 240 0.27
284 94 0.10
285 143 0.16
287 1 0.00
290 1 0.00
291 4 0.00
293 1 0.00
297 5 0.01
298 1 0.00
301 1 0.00
302 82 0.09
303 3 0.00
304 276 0.31
305 49 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (301 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACT
AATTAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAAT
TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGT
GATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:9707 original size:283 final size:281
Alignment explanation
Indices: 8801--9948 Score: 1235
Period size: 283 Copynumber: 4.0 Consensus size: 281
8791 TAATTTGAAA
** * * **
8801 CGTTATTTTTTCGAATTTGCATTCAAATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATAT
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATAT
* ** * **
8865 AAATAGATTGCGTAAGAGTTGACGGGTGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGA
65 AAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * * * *
8930 ACTCCGTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCT
130 ACTCCGCAGTTAAGCGTGCTTG-GGCAAGAGTAGTACTAGGATGGGTGACCTCCT-GGAAGGCCT
* * *
8994 CGTGTTGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTTTGTTAAATTTTCTACACGTGG
193 CGTGTTGCACCCCTCCAATTTTATTTCATATAAAG--TTTTTTTAGTT-GATTTTCTACACGTGG
* * *
9059 TGTAACTAAATAGTAATTTGCGTTTTG
255 TGTAACTAATTAGTTATTTACGTTTTG
*
9086 CGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGAT
1 CG---T---T-ATTTG----G--------TCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGAT
* * * * *
9151 AGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGGTGTGATCATACCAGCAGTAAT
47 AAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAAT
* * * * *
9216 GCACAGGATCCCATCAGAACTCCGTAGTTAAGCGTGCTTGTG-AGATAGTAGTACAAGGATGGGT
112 GCACCGGATCCCATCAGAACTCCGCAGTTAAGCGTGCTTGGGCA-AGAGTAGTACTAGGATGGGT
* *
9280 GACCTTCCTGGGAGGTCCTCGTGTTGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGT
176 GACC-TCCTGGAAGG-CCTCGTGTTGCACCCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGT
* * * *
9345 TAAATTTTCTACACGTGGTGAAACTAATTAGTAATTTGCGTTTTG
238 T-GATTTTCTACACGTGGTGTAACTAATTAGTTATTTACGTTTTG
9390 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * ** *
9455 AATAAATTGCGCAAGAGTTAACGGGTGGGA-CGATACCAACACTAATGCACCGGATCATATCAAA
66 AATAGATTGCGCAAGAGTTGACGGGTGCGATC-ATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * *
9519 ACTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGACGGCTGACCTCCTGTAATGGCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAA-GGCCTC
* * *
9584 GTGTTGCACCCCTCCCATTTTATTTTATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGT
194 GTGTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGA-TTTTCTACACGTGGTGT
9649 AACTAATTAGTTATTTACGTTTTG
258 AACTAATTAGTTATTTACGTTTTG
* *
9673 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * *
9738 AATAGATTGCGCAAGAGTTGATGGGCT-CGATCATACCAGCGCTAATGTACCGGATCCCATCAGA
66 AATAGATTGCGCAAGAGTTGACGGG-TGCGATCATACCAGCACTAATGCACCGGATCCCATCAGA
* * * * * * *
9802 ACTCCGCAGTTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTC
130 ACTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTC
* ** * *
9867 GTATTGCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTG
194 GTGTTGCACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTG-ATTTTCTACACGTGGTG
*
9932 TAACTAATTACTTATTT
257 TAACTAATTAGTTATTT
9949 TCATTTTACG
Statistics
Matches: 741, Mismatches: 90, Indels: 65
0.83 0.10 0.07
Matches are distributed among these distances:
282 1 0.00
283 240 0.32
284 87 0.12
285 148 0.20
286 1 0.00
288 1 0.00
291 1 0.00
292 4 0.01
293 1 0.00
297 5 0.01
298 1 0.00
301 1 0.00
303 1 0.00
304 208 0.28
305 41 0.06
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (281 bp):
CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
AATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
CTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGT
GTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTCTACACGTGGTGTAAC
TAATTAGTTATTTACGTTTTG
Found at i:10561 original size:303 final size:301
Alignment explanation
Indices: 10002--11349 Score: 1395
Period size: 284 Copynumber: 4.6 Consensus size: 301
9992 TTGCGCTAGA
*
10002 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * * ** * *
10067 GCACCCCTCCCATTTTACTTCATATAATG-TTTTTTTACTAGAATTTTCTAAACGTGGTTTAGCT
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTA-AATTTTCTAAACGTGGTGTAACT
* ** *
10131 AATTAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAA
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT-GTCGAATTTGCATTCAA
* **
10196 ATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGGG
194 ATTCGAGGCACAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGG
* *
10260 TGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
258 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
10304 GTAGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGT
1 GTAGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
* *
10368 TGCACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTACACGTGGTGTAACT
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTAAACGTGGTGTAACT
* *
10433 AAATAGTAATTTGCGTTTTGCGAAAATAAATAATTTGAAACGTTATTTTGTCGAATTTGCATTCA
130 AATTAGTAATTTGCATTTTGCG-AAATAAATAATTTGAAACGTTA-TTTGTCGAATTTGCATTCA
* * * *
10498 AATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGG
193 AATTCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGG
10563 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
258 TGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * * *
10607 GTAGTTAAGCGTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCT-GGAGGTCCTCGTGT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGT
* * * *
10671 TGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAGATGTGGTGAAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTT-GTTAAATTTTCTAAACGTGGTGTAAC
* * * *
10736 AAATTAATAATTTGCATTTTGCG---T---T-A--T------TTA---GCCAAATTTGCATTCAA
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGTCGAATTTGCATTCAA
* * *
10783 ATTCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGT
194 ATTCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGT
* * * * * ** *
10848 GCGACCATACCAACACTAATGCACCGGATCATATCAAAACTCC
259 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * ** *
10891 ACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAAAGGCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
* * **
10956 GCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTTCTAAACGTGGTGTAACT
66 GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTT-AAATTTTCTAAACGTGGTGTAACT
11021 AATTAG----TT--A-TTTGCG-------T--TTTG---CGTTATTTGGTCGAATTTGCATTCAA
130 AATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTT-GTCGAATTTGCATTCAA
* * * * *
11067 ATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATTGCG-CAGAGTTGATGGGC
194 ATTCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGG-
* * *
11131 T-CGATCATACC-GC-GCTAATGTACCGGATCCC-TCAGAACTCC
258 TGTGATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * *
11172 GCAGTTAAGTGTAG-TTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTAT
1 GTAGTTAAGCGT-GCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
** * * ** *
11236 TGCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAAC
65 TGCACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTTGTTAAATTTTCTAAACGTGGTGTAAC
* * * * * *
11301 TAATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTG
129 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTG
11350 GCCAAATTTG
Statistics
Matches: 877, Mismatches: 127, Indels: 87
0.80 0.12 0.08
Matches are distributed among these distances:
276 1 0.00
277 7 0.01
278 1 0.00
280 5 0.01
281 112 0.13
282 23 0.03
283 26 0.03
284 273 0.31
285 2 0.00
287 1 0.00
288 8 0.01
294 1 0.00
295 1 0.00
296 1 0.00
297 4 0.00
299 1 0.00
300 8 0.01
302 120 0.14
303 232 0.26
304 50 0.06
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (301 bp):
GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTT
GCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTAAACGTGGTGTAACTA
ATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGTCGAATTTGCATTCAAAT
TCGAGGCACAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGTAAGAGTTGACGGGTGT
GATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:12070 original size:302 final size:299
Alignment explanation
Indices: 11367--12710 Score: 1405
Period size: 301 Copynumber: 4.6 Consensus size: 299
11357 TTGCGCTAGA
* *
11367 GTAGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTT
1 GTAGTTAAGCGTGCTTGGGAGAGAGTAGTACTAGGATGGGTGACCTCCT-GGAAGTCCTCGTGTT
* * * * * * * *
11432 GCACCCCTCCCATTTTACTTCATATAATGTTTTTTTA-CTAAATTTTCTAAACGTGGTTTAGCTA
65 GCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTA
*** * *
11496 ATTAGTTATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTTCATTCAAA
130 ATTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTT--TCGAATTTGCATTCAAA
* * ** *
11561 TTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGGGT
193 TTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGT
* *
11625 GTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCC
257 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * *
11668 GTTCTTAAGCGTGCTTGCGG-GA-ATGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTG
1 GTAGTTAAGCGTGCTTG-GGAGAGA-GTAGTACTAGGATGGGTGACCTCCT-GGAAGTCCTCGTG
11731 TTGC-ACCTCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAA
63 TTGCAACC-CTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAA
* *
11795 CTAAATAGTTATTTGCGTTTTTCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTC
127 CTAATTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTC
* * * *
11860 AAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAA-AGTTGACGG
190 AAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
*
11924 GTGTGATCATACCAGCAGTAATGCAGAGGATCCCATCAGAACT-C
255 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
* * * *
11968 GTAGTTAAGCGTTGCTTGTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGAGGTCCTCGTGT
1 GTAGTTAAGCG-TGCTTGGGAGAGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGTCCTCGTGT
*
12033 TGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAAC
64 TGCAACCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGTTAAATTTTCTACACGTGGTGTAAC
*
12098 TAATTAGTAATTTGCGTTTTGCG---T---T-ATTTG----G------TCGAATTTGCATTCAAA
128 TAATTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAA
* *
12146 TTCGAGGCGCAAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGT
193 TTCGAGGCGC-AAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGT
* * * ** *
12211 G-GA-CGATACCAACACTAATGCACCGGATCATATCAAAACTCC
257 GTGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
** * * * * *
12253 ACAGTTAAGCATGCTTGGGCA-AGAGTCGTACTA-GATGGCTGACCTCCTGTAAAGGCCTCGTGT
1 GTAGTTAAGCGTGCTTGGG-AGAGAGTAGTACTAGGATGGGTGACCTCCTG-GAAGTCCTCGTGT
* * * * *
12316 TGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGTAACT
64 TGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACT
*
12381 AATTAGTTATTTGCGTTTTGTG---T---T-ATTTG----G------TCGAATTTGCATTCAAAT
129 AATTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAAT
* ***
12429 TCGAGGCGCAAGTGCGATAAGGGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGCAC
194 TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGT
*
12494 GATCATACCAGC-GCTAATGCACCGGATCCCATCAGAACTCC
259 GATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCC
* * * * * * *
12535 GCAGTTAAGTGTGCTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATT
1 GTAGTTAAGCGTGCTTGGGAGAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGTCCTCGTGTT
** * * **
12600 GC-ACCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACT
65 GCAACCCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTAAATTTTCTACACGTGGTGTAACT
* * * * * *
12664 AATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
129 AATTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTT
12711 GGCCGAATTT
Statistics
Matches: 888, Mismatches: 112, Indels: 87
0.82 0.10 0.08
Matches are distributed among these distances:
281 50 0.06
282 174 0.20
283 147 0.17
284 85 0.10
285 21 0.02
286 1 0.00
289 1 0.00
290 4 0.00
291 1 0.00
295 5 0.01
296 1 0.00
299 1 0.00
300 14 0.02
301 198 0.22
302 180 0.20
303 2 0.00
304 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (299 bp):
GTAGTTAAGCGTGCTTGGGAGAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGTCCTCGTGTTG
CAACCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
TTAGTTATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATTC
GAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGA
TCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC
Found at i:12343 original size:283 final size:280
Alignment explanation
Indices: 11836--12668 Score: 1057
Period size: 282 Copynumber: 2.9 Consensus size: 280
11826 TAATTTGAAA
** * *
11836 CGTTATTTTTTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * **
11901 AATAGATTGTGTAA-AGTTGACGGGTGTGATCATACCAGCAGTAATGCAGAGGATCCCATCAGAA
66 AATAGATTGCGCAAGAGTTGACGGGTG-GATCATACCAGCACTAATGCACCGGATCCCATCAGAA
* * * * * *
11965 CT-CGTAGTTAAGCGTTGCTTGTG-AGATAGTAGTACAAGGATGGGTGACCTTCCTGGAGGTCCT
130 CTCCGCAGTTAAGC-ATGCTTGGGCA-AGAGTAGTACTAGGATGGGTGACC-TCCTGAAGG-CCT
*
12028 CGTGTTGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGT
191 CGTGTTGC-ACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGT
*
12093 GAAACTAATTAGTAATTTGCGTTTTG
255 GTAACTAATTAGTAATTTGCGTTTTG
12119 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAAGTGCGATAAGGGGCAGCCTTTATAT
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGC-AAGTGCGATAAGGGGCAGCCTTTATAT
* * * ** *
12184 AAATAAATTGCGCAAGAGTTAACGGGTGGA-CGATACCAACACTAATGCACCGGATCATATCAAA
65 AAATAGATTGCGCAAGAGTTGACGGGTGGATC-ATACCAGCACTAATGCACCGGATCCCATCAGA
* * *
12248 ACTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTA-GATGGCTGACCTCCTGTAAAGGCCTC
129 ACTCCGCAGTTAAGCATGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTG--AAGGCCTC
* * *
12312 GTGTTGCACCCCTCCCATTTTATTTCATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTG
192 GTGTTGCA-CCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTG
*
12376 TAACTAATTAGTTATTTGCGTTTTG
256 TAACTAATTAGTAATTTGCGTTTTG
* *
12401 TGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
** *
12466 AATAGATTGCGCAAGAGTTGACGGGCACGATCATACCAGCGCTAATGCACCGGATCCCATCAGAA
66 AATAGATTGCGCAAGAGTTGACGGG-TGGATCATACCAGCACTAATGCACCGGATCCCATCAGAA
** * * * * *
12531 CTCCGCAGTTAAGTGTGCTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCG
130 CTCCGCAGTTAAGCATGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC--TGAAGGCCTCG
* ** * * * *
12596 TATTGCACCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTA
193 TGTTGCACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTGTA
12661 ACTAATTA
258 ACTAATTA
12669 CTTATTTTCA
Statistics
Matches: 476, Mismatches: 60, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
281 50 0.11
282 175 0.37
283 142 0.30
284 87 0.18
285 22 0.05
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (280 bp):
CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATA
AATAGATTGCGCAAGAGTTGACGGGTGGATCATACCAGCACTAATGCACCGGATCCCATCAGAAC
TCCGCAGTTAAGCATGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGAAGGCCTCGTGT
TGCACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTGAATTTTCTACACGTGGTGTAACT
AATTAGTAATTTGCGTTTTG
Found at i:13282 original size:303 final size:299
Alignment explanation
Indices: 12731--14076 Score: 1409
Period size: 281 Copynumber: 4.6 Consensus size: 299
12721 GCGCTAGAGT
*
12731 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTTGC
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC
* * *
12796 ACCCCTCCCATTTTACTTCATATAATG-TTTTTTTAG-TAGAATTTTCTAAACGTGGTGTAACTA
66 ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTA-AATTTTCTAAACGTGGTGTAACTA
*** *
12859 ATTAGTTCATTT-TAATTTGCGAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAAA
130 ATTAGTT-ATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTT--TCGAATTTGCATTCAAA
* * ** *
12923 TTCGAGGCACAAGTGCGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGG
192 TTCGAGGCGCAAGT--GCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
*
12987 GTGTGA-CAATACCAGCAGTAATGCATAGGATCCCATCAGAACTCCG
254 GTGTGATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCG
* * * * * *
13033 TGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTG
*
13097 CACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAACTA
65 CACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAACTA
13162 ATTAGTTATTTGCGTTTTTGCGAAATAAATAATTTGAAACGTTATTTTCTCGAATTTGCATTCAA
130 ATTAGTTATTTGCG-TTTTGCG-AATAAATAATTTGAAACGTTA-TTT-TCGAATTTGCATTCAA
** * * *
13227 ATTCGAGATGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGGT
191 ATTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGT
*
13292 GTGATCATACCAGCAGTAATGCACAAGATCCCATCAGAACTCCG
256 GTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCG
* * *
13336 TAGTTAAGCGTGCTTGTGG-GATAGTAGTACAAGGATGGGTGACCTTCCT-GGAGGTCCTCGTGT
1 -AGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGT
* * *
13399 TGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAAC
63 TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAAC
*
13464 TAATTAGTAATTTGCGTTTTGCG--T---T-ATTTG----G------TCGAATTTGCATTCAAAT
128 TAATTAGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAAT
* * *
13513 TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTGG
193 TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGT
* * * ** * *
13578 GA-CGATA-CAACACTAATGCACCGGATCATATCAAAACTCCAC
258 GATC-ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCC-G
* * * * * *
13620 AGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCT-GTAATGGCCTCGTGTTG
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAA-GTCCTCGTGTTG
* * *
13684 CACCCCTCCCATTTTATTTCATATAAAG--TTTTTTAGTTGATTTTTCTAAACGTGGTGTAACTA
65 CACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAACTA
*
13747 ATTAGTTATTTACGTTTTGCG--T---T-ATTTG----G------TCGAATTTGCATTCAAATTC
130 ATTAGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATTC
* * * * *
13796 GAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATGGCGCAAGAGTTGATGGGCT-CG
195 GAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-TGTG
* * *
13860 ATCATACCAGC-GCTAATGTACCGGATTCCATCAGAACTCCG
259 ATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCCG
* * * * * * *
13901 CAATTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTG
1 -AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTG
** * * * ** *
13966 CACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTA
65 CACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAACTA
* * * * * *
14031 ATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
130 ATTAGTTATTTGCGTTTTGCG-AATAAATAATTTGAAACGTTATTT
14077 GGCCGAATTT
Statistics
Matches: 891, Mismatches: 113, Indels: 81
0.82 0.10 0.07
Matches are distributed among these distances:
281 137 0.15
282 107 0.12
283 101 0.11
284 127 0.14
287 1 0.00
290 1 0.00
291 4 0.00
292 1 0.00
296 5 0.01
297 1 0.00
300 1 0.00
302 83 0.09
303 131 0.15
304 137 0.15
305 51 0.06
306 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (299 bp):
AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC
ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAAACGTGGTGTAACTAA
TTAGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATTCG
AGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGAT
CATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCG
Found at i:15209 original size:283 final size:282
Alignment explanation
Indices: 14097--15408 Score: 1300
Period size: 302 Copynumber: 4.5 Consensus size: 282
14087 GCGCTAGAGT
*
14097 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATTGGTGACCTCCTGGGAATTCCTCGTGTTGC
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGA-TGGTGACCTCCTGGGAAGTCCTCGTGTTGC
* * * * * * * *
14162 ACCCCTCCCATTTTACTTCATATAATGTTTTTTTACTAGAATTTTCTAAACGTGGTTTAGCTAAT
65 ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTACACGTGGTGTAACTAAT
*
14227 TAGTCATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAAATT
130 TAG-----TT-A-TTTGCG-------T--TTTG---CGTTATTTGGTCGAATTTGCATTCAAATT
** * *
14292 CGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACGGGTGT
176 CGAGGCACAAGTGCGATAAGG-GGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGC
* * * * *
14356 AATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCCGT
240 GATCATACCAGCACTAATGCACAGGATCCCATCAAAACTCCGC
* * * *
14399 AGTTAAGCGTGCTTGCGG-GATAGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTGCTTG-GGCGAGAGTAGTACTAGGAT-GGTGACCTCCTGGGAAGTCCTCGTGTTG
* * *
14463 CACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTGTTAAATTTTCTACACGTGGTGTAACTAA
64 CACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTACACGTGGTGTAACTAA
* * * **
14528 ATAGTAATTTGCGTTTTGCGAAAGAAATAATTTGAAACGTTATATTTTTTAATTTGCATTCAAAT
129 TTAGTTATTTGCGTTTTGC----G---TTATTTG----G--------TCGAATTTGCATTCAAAT
* * * * * *
14593 TCGAGACGCAAGTGCGATAGGGGGTAGCCTTTATATAAATAGATTGTGTAAGAGTTGACGGGTGT
175 TCGAGGCACAAGTGCGATAAGGGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGC
* *
14658 GATCATACCAGCAGTAATGCACAGGATCCCATCAAAACTCCGT
240 GATCATACCAGCACTAATGCACAGGATCCCATCAAAACTCCGC
* * * * *
14701 AGTTAAGCGTGCTTGTGAGATAGTAGTACTAGGATGGGTGACCTTCCTGGGAGGTCCTCTTGTTG
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGAT-GGTGACC-TCCTGGGAAGTCCTCGTGTTG
* * * * * *
14766 CAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTAGATGTGGTGAAACAA
64 CACCCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGTTGAATTTTCTACACGTGGTGTAACTA
* * * * * *
14831 ATTAATAATTTGCATTTTGCGTTATTTAGCCAAATTTGCATTCAAATTCGAGGCACAAGTGCGAT
128 ATTAGTTATTTGCGTTTTGCGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCACAAGTGCGAT
* * * * *
14896 AAGGGGCAGCCTTTATATAAATAAATTGCGCAAGAGTTAACGGGTGCGACCATACCAACACTAAT
193 AAGGGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAAT
* ** *
14961 GCACCGGATCATATCAAAACTCCAC
258 GCACAGGATCCCATCAAAACTCCGC
* * * ** *
14986 AGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAAAGGCCTCGTGTTGC
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGG-TGACCTCCTGGGAAGTCCTCGTGTTGC
* *
15051 ACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTTA-ACGTGGTGTAACTAA
65 ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTC-TACACGTGGTGTAACTAA
*
15115 TTAGTTATTTGCGTTTTGCGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATA
129 TTAGTTATTTGCGTTTTGCGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCACAAGTGCGATA
* * * * *
15180 AAGGGTAGCCTTTATATAAATAGATTGCGCAGGAGTTGATGGGCT-CGATCATACCGGCGCTAAT
194 AGGGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-TGCGATCATACCAGCACTAAT
* * *
15244 GTACCGGATCCCATCAGAACTCCGC
258 GCACAGGATCCCATCAAAACTCCGC
* * * * * *
15269 AGTTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGC
1 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGAT-GGTGACCTCCTGGGAAGTCCTCGTGTTGC
** * * *
15334 ACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTAA
65 ACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTGAATTTTCTACACGTGGTGTAACTAA
*
15399 TTACTTATTT
129 TTAGTTATTT
15409 TCATTTTACG
Statistics
Matches: 850, Mismatches: 129, Indels: 80
0.80 0.12 0.08
Matches are distributed among these distances:
283 238 0.28
284 87 0.10
285 140 0.16
286 4 0.00
287 1 0.00
288 1 0.00
290 6 0.01
293 1 0.00
294 1 0.00
295 6 0.01
296 1 0.00
297 6 0.01
300 1 0.00
301 2 0.00
302 259 0.30
303 48 0.06
304 48 0.06
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (282 bp):
AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
CCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGAATTTTCTACACGTGGTGTAACTAATT
AGTTATTTGCGTTTTGCGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCACAAGTGCGATAAG
GGGTAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCA
CAGGATCCCATCAAAACTCCGC
Found at i:16018 original size:302 final size:299
Alignment explanation
Indices: 15464--16807 Score: 1345
Period size: 302 Copynumber: 4.6 Consensus size: 299
15454 GCGCTAGAGT
*
15464 AGTTAAGCGTGCTTGGGCGAGA-GTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTGCTTGGG-GA-ATGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTG
* * * * * * *
15528 CACCCCTCCCATTTTACTTCATATAATGTTTTTTTACTAAAATTTTCTACACGTGGTTTAGCTAA
64 CACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
*** *
15593 TTAGTTATTTTAATTTTGCGAATTAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCAAAT
129 TTAGTTATTTGCGTTTTGCGAA-TAAATAATTTGAAACGTTATTT--TCGAATTTGCATTCAAAT
* * * ** * *
15658 TCGAGGCACAAGCGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGACTGGTG
191 TCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTG
* * *
15722 T-AATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCCGT
255 TCGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
** * * * *
15766 TCTTAAGCGTGCTTGCGGGAATGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGTTGC
1 AGTTAAGCGTGCTTG-GGGAATGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC
* *
15831 ACCTCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAAA
65 ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAAT
*
15896 TAGTTATTTGCGTTTTTCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCAAATT
130 TAGTTATTTGCGTTTTGCG-AATAAATAATTTGAAACGTTA--TTTTCGAATTTGCATTCAAATT
* * * * *
15961 CGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAAAGTTGACGGGTGT-
192 CGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTC
* * *
16025 GATCATACCAGCAGTAATGCAGAGGATCCCATCAGATCTCCGT
257 GATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
* * *
16068 AGTTAAGCGTGCTT-GTGAGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCCTCGTGTT
1 AGTTAAGCGTGCTTGGGGA-AT-GTAGTACTAGGATGGGTGACC-TCCTGGGAAGTCCTCGTGTT
* *
16132 GCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAACT
63 GCACCCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGTTAAATTTTCTACACGTGGTGTAACT
* *
16197 AATTAGTAATTTGCGTTTTGCG--T---T-ATTTG----G------TCTAATTTGCATTCAAATT
127 AATTAGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATT
* * * * *
16246 CGACGCGCAAGTGCGATAAGGGGCAACCTTTATATAAATAAATTGTGCAAGAGTTAACGGGT-TC
192 CGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTC
* * * * ** * *
16310 GACCATACCAACACTAATGCACCGGATCATATCAAAACTCCAC
257 GATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
* * * * * ** *
16353 AGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAAAGGCCTCGTGTTGC
1 AGTTAAGCGTGCTTGGGGAA-TGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGC
* * * *
16418 ACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGTAACTAAT
65 ACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAAT
16483 TAGTTATTTGCGTTTTGCG--T---T-ATTTG----G------TCGAATTTGCATTCAAATTCGA
130 TAGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATTCGA
* * * *
16532 GGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGA-TGCGCAAGAGTTGATGGG-CTCGAT
195 GGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTCGAT
* * *
16595 CATACCGGC-GCTAATGTACCGGAT-CCATCAGAACT-CGC
260 CATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCCGC
* * * * *
16633 AGTTAAGTGTACTTGGGCGAGAT-TAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTG
1 AGTTAAGCGTGCTTGGG-GA-ATGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTG
** * * **
16697 CACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTA
64 CACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTAAATTTTCTACACGTGGTGTAACTA
* * * * * *
16762 ATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTT
128 ATTAGTTATTTGCGTTTTGCG-AATAAATAATTTGAAACGTTATTT
16808 GGCCGAATTT
Statistics
Matches: 877, Mismatches: 130, Indels: 74
0.81 0.12 0.07
Matches are distributed among these distances:
280 76 0.09
281 56 0.06
282 39 0.04
283 115 0.13
284 45 0.05
285 136 0.16
286 2 0.00
287 1 0.00
288 4 0.00
293 1 0.00
297 5 0.01
298 1 0.00
300 3 0.00
301 4 0.00
302 282 0.32
303 51 0.06
304 56 0.06
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (299 bp):
AGTTAAGCGTGCTTGGGGAATGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGTTGCA
CCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAATT
AGTTATTTGCGTTTTGCGAATAAATAATTTGAAACGTTATTTTCGAATTTGCATTCAAATTCGAG
GCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTCGATC
ATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
Found at i:16526 original size:283 final size:279
Alignment explanation
Indices: 15932--16772 Score: 1024
Period size: 285 Copynumber: 3.0 Consensus size: 279
15922 TAATTTGAAA
** *
15932 CGTTATTTTTTCGAATTTGCATTCAAATTCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGAG-CGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * **
15997 AATAGATTGTGTAAAAGTTGACGGGTGT-GATCATACCAGCAGTAATGCAGAGGATCCCATCAGA
65 AATAGATTGTGCAAGAGTTGACGGGT-TCGATCATACCAGCACTAATGCACCGGAT-CCATCAGA
* * * * * *
16061 TCTCCGTAGTTAAGCGTGCTTGTG-AGATAGTAGTACAAGGATGGGTGACCTTCCTGGGAGGTCC
128 ACTCCGCAGTTAAGCGTGCTTGGGCA-AGAGTAGTACTAGGATGGGTGACC-TCCTGGAAGG-CC
* *
16125 TCGTGTTGCAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGG
190 TCGTGTTGCACCCCTCCAATTTTATTTCATATAAAG-TTTTTTTAGTT-GATTTTCTACACGTGG
* *
16190 TGAAACTAATTAGTAATTTGCGTTTTG
253 TGTAACTAATTAGTTATTTGCGTTTTG
* *
16217 CGTTATTTGGTCTAATTTGCATTCAAATTCGACGCGCAAGTGCGATAAGGGGCAACCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGA-GCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * * *
16282 AATAAATTGTGCAAGAGTTAACGGGTTCGACCATACCAACACTAATGCACCGGATCATATCAAAA
65 AATAGATTGTGCAAGAGTTGACGGGTTCGATCATACCAGCACTAATGCACCGGATC-CATCAGAA
* * * * *
16347 CTCCACAGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAAAGGCCTCG
129 CTCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTG-GAAGGCCTCG
* *
16412 TGTTGCACCCCTCCCATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTTCTAAACGTGGTGTA
193 TGTTGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGA-TTTTCTACACGTGGTGTA
16477 ACTAATTAGTTATTTGCGTTTTG
257 ACTAATTAGTTATTTGCGTTTTG
* *
16500 CGTTATTTGGTCGAATTTGCATTCAAATTCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATA
1 CGTTATTTGGTCGAATTTGCATTCAAATTCGA-GCGCAAGTGCGATAAGGGGCAGCCTTTATATA
* * * * * *
16565 AATAGA-TGCGCAAGAGTTGATGGGCTCGATCATACCGGCGCTAATGTACCGGATCCATCAGAAC
65 AATAGATTGTGCAAGAGTTGACGGGTTCGATCATACCAGCACTAATGCACCGGATCCATCAGAAC
* * * * * * *
16629 T-CGCAGTTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGT
130 TCCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCC-TGGAAGGCCTCGT
* ** * *
16693 ATTGCACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTA
194 GTTGCACCCCTCCAATTTTATTTCATATAAAGTT-TTTTTAGTTG-ATTTTCTACACGTGGTGTA
*
16758 ACTAATTACTTATTT
257 ACTAATTAGTTATTT
16773 TCATTTTACG
Statistics
Matches: 478, Mismatches: 69, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
280 79 0.17
281 49 0.10
282 42 0.09
283 114 0.24
284 43 0.09
285 149 0.31
286 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (279 bp):
CGTTATTTGGTCGAATTTGCATTCAAATTCGAGCGCAAGTGCGATAAGGGGCAGCCTTTATATAA
ATAGATTGTGCAAGAGTTGACGGGTTCGATCATACCAGCACTAATGCACCGGATCCATCAGAACT
CCGCAGTTAAGCGTGCTTGGGCAAGAGTAGTACTAGGATGGGTGACCTCCTGGAAGGCCTCGTGT
TGCACCCCTCCAATTTTATTTCATATAAAGTTTTTTTAGTTGATTTTCTACACGTGGTGTAACTA
ATTAGTTATTTGCGTTTTG
Found at i:16968 original size:195 final size:195
Alignment explanation
Indices: 16633--17014 Score: 536
Period size: 195 Copynumber: 2.0 Consensus size: 195
16623 CAGAACTCGC
* *
16633 AGTTAAGTGTACTTGGGCGAGATTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGC
1 AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGC
** * * *
16698 ACCCCTCCTGTTTTATTTCATATAAACTTGTTTTTCGTTGCATTTTCTACACGTGGTGTAACTAA
66 ACCCCTCCCATTTTACTTCATATAAACTTGTTTTTCGTAGAATTTTCTACACGTGGTGTAACTAA
* *
16763 TTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAATTTGCGCTAGAGT
131 TTACTTATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
* * *
16828 AGTTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATT-GGTGACCTCCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGG-TTGGGTGACCTCCAGGGAAGTCCTCGTATTG
** * *
16892 CACCCCTCCCATTTTACTTCATATAATGTT-TTTTTAC-TAGAATTTTCTAACACGTGGTTTAGC
65 CACCCCTCCCATTTTACTTCATATAAACTTGTTTTT-CGTAGAATTTTCT-ACACGTGGTGTAAC
* * * *
16955 TAATTAGTTATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGC
128 TAATTACTTATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGC
17015 ATTCAAATTC
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
194 14 0.09
195 148 0.90
196 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (195 bp):
AGTTAAGCGTACTTGGGCGAGAGTAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTATTGC
ACCCCTCCCATTTTACTTCATATAAACTTGTTTTTCGTAGAATTTTCTACACGTGGTGTAACTAA
TTACTTATTTTAATTTTACGAAATAAATAATTTAAAACATTATTTGGACGAATTTGCGCTAGAGT
Found at i:17383 original size:302 final size:300
Alignment explanation
Indices: 16828--18179 Score: 1339
Period size: 282 Copynumber: 4.6 Consensus size: 300
16818 GCGCTAGAGT
16828 AGTTAAGCGTGCTTGGGCGAGA-GTAGTACTAGGATTGGTGACCTCCTGGGAAGTCCTCGTGTTG
1 AGTTAAGCGTGCTTGGG-GA-ATGTAGTACTAGGA-TGGTGACCTCCTGGGAAGTCCTCGTGTTG
* * * * * *
16892 CACCCCTCCCATTTTACTTCATATAATG-TTTTTTTA-CTAGAATTTTCTAACACGTGGTTTAGC
63 CA-CCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTA-AATTTTCT-ACACGTGGTGTAAC
* ** *
16955 TAATTAGTTATTTTAATTTTGCGAAATAAATAATTTGAAACGTTATTTGGACGAATTTGCATTCA
125 TAATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAATTTGCATTCA
* * ** *
17020 AATTCGAGGCACAAGTGCGAT-AGGAGGTAGGGTTTATATAAATAGATTGCGTAAGAGTTGAC-G
190 AATTCGAGGCGCAAGTGCGATAAGG-GGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGG
* * *
17083 GTGTAATCATACCAGCAGTAATGCATAGGATCCCATCAGAACTCCGT
254 GTGTGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
* * * *
17130 TGTTAAGCGTGCTTGCGGGAATGTAGTATTATGATAGGTGACCTTCTGGGAAGTCCTCGTGTTGC
1 AGTTAAGCGTGCTTG-GGGAATGTAGTACTAGGAT-GGTGACCTCCTGGGAAGTCCTCGTGTTGC
17195 ACCTCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
64 ACC-CTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
* * **
17260 ATAGTAATTTGCGTTTTGCGAAATAAATAATTTGAAACGTTATTTTTTCGAATTTGCATTCAAAT
128 TTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAATTTGCATTCAAAT
* * * * *
17325 TCGAGACGCAAGTGCGATAGGGGGCAGCCTTTATATAAATAGATTGTGTAAAAGTTGACGGGTGT
193 TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGT
*
17390 GATCATACCAGCAGTAATGCACAGGATCCCATCAG-ACTCCGT
258 GATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
* * *
17432 AGTTAAGCGTGCTT-GTGAGATAGTAGTACAAGGATGGTGACCTTCCTGGG-ATTCCTCGTGTTG
1 AGTTAAGCGTGCTTGGGGA-AT-GTAGTACTAGGATGGTGACC-TCCTGGGAAGTCCTCGTGTTG
*
17495 CAACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGAAACTA
63 C-ACCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTA
*
17560 ATTAGT-A-----A-TTTGCG-------T--TTTG---CATTATTTGGTCGAATTTGCATTCAAA
127 ATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAATTTGCATTCAAA
* * * *
17606 TTCGAGGCGCAAGTGCGATAAGGGGCAACCTTTATATAAATAAATTGTGCAAGAGTTAACGGGTG
192 TTCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTG
* * * * * ** * *
17671 CGACCATACCAACACTAATGCACCGGATCATATCAAAACTCCAC
257 TGATCATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
* * * * ** *
17715 AGTTAAGCATGCTTGGGCAAGAGTCGTACTAGGATGGCTGACCTCCTGTAAAG-GCTCGTGTTGC
1 AGTTAAGCGTGCTTGGGGAA-TGTAGTACTAGGATGG-TGACCTCCTGGGAAGTCCTCGTGTTGC
* * * *
17779 ACCCCTCCCATTTTATTTCATATAAAG-TTTTTTTAGTTGATTTTTCTAAACGTGGTGTAACTAA
64 A-CCCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAA
17843 TTAG----TT---TTTTGCG-------T--TTTG---CGTTATTTGGTCGAATTTGCATTCAAAT
128 TTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAATTTGCATTCAAAT
* * * *
17889 TCGAGGCGCAAGTGCGATAAAGGGTAGCCTTTATATAAATAGATTGCGCAGGAGTTGATGGGCT-
193 TCGAGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGG-TG
* * * * * *
17953 CGATCATACCGGC-GCTAATGTACCGGATCCTATCAGAACTTCGC
257 TGATCATACCAGCAG-TAATGCACAGGATCCCATCAGAACTCCGC
* * * *
17997 AGTTAAGTGTGCTTGGGCGAGAT-TAGTACTAGGTTGGGTGACCTCCAGGGAAGTCCTCGTTTTG
1 AGTTAAGCGTGCTTGGG-GA-ATGTAGTACTAGGAT-GGTGACCTCCTGGGAAGTCCTCGTGTTG
** * * * **
18061 CACACCTCCTGTTTTATTTCATATAAAGTTGTTTTTCGCTGCATTTTCTACACGTGGTGTAACTA
63 CAC-CCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTA
* * * * * * *
18126 ATTACTTATTTTCATTTTACGAAATAAATAATTTAAAACATTATTTGGCCGAAT
127 ATTAGTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAAT
18180 ATGCGCTAGA
Statistics
Matches: 887, Mismatches: 115, Indels: 95
0.81 0.10 0.09
Matches are distributed among these distances:
282 312 0.35
283 107 0.12
284 43 0.05
285 4 0.00
287 1 0.00
288 2 0.00
291 6 0.01
294 6 0.01
298 1 0.00
300 7 0.01
301 90 0.10
302 234 0.26
303 72 0.08
304 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (300 bp):
AGTTAAGCGTGCTTGGGGAATGTAGTACTAGGATGGTGACCTCCTGGGAAGTCCTCGTGTTGCAC
CCTCCAATTTTATTTCATATAAAGTTTTTTTTAGTTAAATTTTCTACACGTGGTGTAACTAATTA
GTAATTTGCATTTTGCGAAATAAATAATTTGAAACGTTATTTGGTCGAATTTGCATTCAAATTCG
AGGCGCAAGTGCGATAAGGGGCAGCCTTTATATAAATAGATTGCGCAAGAGTTGACGGGTGTGAT
CATACCAGCAGTAATGCACAGGATCCCATCAGAACTCCGC
Found at i:18711 original size:72 final size:72
Alignment explanation
Indices: 18591--18731 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
18581 TTAAGTTTTA
* **
18591 TTTAGTTAAATTTTTTACACGTGGTATAACTAAATAGTAATTTCCGTTTTGCGAAATAAATAATT
1 TTTAGTTAAATTTTCTACACGTGGTATAACTAAATAGTAAAATCCGTTTTGCGAAATAAATAATT
18656 TGAATTT
66 TGAATTT
* *
18663 TTTAGTTAAATTTTCTACACGTGGTGTAACTAAATAGTAAAATGCGTTTTGCGAAATAAATAATT
1 TTTAGTTAAATTTTCTACACGTGGTATAACTAAATAGTAAAATCCGTTTTGCGAAATAAATAATT
18728 TGAA
66 TGAA
18732 ATGTTATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (72 bp):
TTTAGTTAAATTTTCTACACGTGGTATAACTAAATAGTAAAATCCGTTTTGCGAAATAAATAATT
TGAATTT
Done.