Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018400230.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_344.0, 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: 52899
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.28
Warning! 13018 characters in sequence are not A, C, G, or T
Found at i:2773 original size:171 final size:170
Alignment explanation
Indices: 1--3312 Score: 1414
Period size: 171 Copynumber: 19.4 Consensus size: 170
** * * *
1 GTCTACCTTGAGAAACATGAAGAAAAATGCATTCATTGGCAAGAAAAGTCCATTCATAGTCACCC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* * * * * * **********
66 ATTTCTTCAAAAGTCTTATTGCTCACTTT-AAATTGTTTTATAATCTCATANNNNNNNNNNAGTT
66 AATCCTTCAAAAGCCTTATTACTC-GTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
* *
130 GAATGTTTTTACATTTTTGGTTAAAACAGACTATAATTCATT
130 GAAT-TTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * * * *
172 GTCTACCTCGAGAAACCT-AAAAAAAAAGCATTCATTGACAAGAAAAATCCATTTATAGTCACCT
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* ******** **
236 ATTCCTTCAAAAGCCNNNNNNNNNNC-TTTAAAA-GGTTTTATAATCTCATAATTGATTTTAAGT
66 AATCCTTCAAAAGCC--TTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGT
* * * *
299 TGGATTTTTT-TATATTTTGGTTAAAATACACTATAATTGAAT
129 TGAATTTTTTACAT-TTTTGGTTAAAACAGACTATAATTGAAT
* * * *
341 GTCTACCTTAAGAAACATGAAGAACAAGGTATTCATTGGCAAGAAAAGTTTATTTATAGTCACCC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* ********************* *
406 ATTCCTTCAAAAGCNNNNNNNNNNNNNNNNNNNNNTTTTATAAACTCATAATTGATTTTAAGTTG
66 AATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTTG
* ** *
471 AATTTTTTATATTTTTCTTTAAAACAGAATATAATTGAAT
131 AATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * ** * * * *
511 GCCTACCTCGAGAAAGTTGAAGTAAAAA-GTATTCATTGGTAAGAAAAGTCCATTTATAGTCGCC
1 GTCTACCTCAAGAAACATGAAG-AAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* * * * * * **********
575 TATTCCTTCAAAATCCTTATTAGTCCCTTTAAAA-TGTTTTNNNNNNNNNNAATTGATTTTAAGT
65 CAATCCTTCAAAAGCCTTATTACT-CGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGT
** * *
639 TGAATTGTTTTACATTTTTATTTAAAAAAGACTATAATTCAAT
129 TGAATT-TTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * *
682 GTCTATCTCAAGAAACCTGAACAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCT
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* ********** * ** *
747 ATTCCTNNNNNNNNNNTATTACTCACTTTAAAA-GGTTTTATAATCTCATAATTAATTTTAAGTT
66 AATCCTTCAAAAGCCTTATTACTC-GTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
* * * *
811 AAATTTTTTGATATTTTTGGTTCAAATAGACTATAATTGAAT
130 GAATTTTTT-ACATTTTTGGTTAAAACAGACTATAATTGAAT
*********** * *
853 GTCTACCTNNNNNNNNNNAAAGAAAAAGGCATTCATTGGTAAGAACAGTCTATTTATAGTCACCC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* * * * * *
918 ATTCCTTTAAAAGCCTTATTGCTCGTTTTAAATT-TTATTATAATATCATAATTGATTTTAAGTA
66 AATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATT-TTATAATCTCATAATTGATTTTAAGTT
* * *
982 GAATTTTTTAAAATTTTTGGGTAAAACAGACAATAATTGAAT
130 GAATTTTTT-ACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * *
1024 GTCGACCTCAAGAAACATCAAGAAAAAGGCATTAATTAGCAAGAAAAGT-TCATTTATAGTCACC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCT-ATTTATAGTCACC
* ** * * * *
1088 CATTATTTCAAAAGCCTTATTTCCCGCTTAAAATTGTTTTATAATCTCAT-A---ATTTTAAGTT
65 CAATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
******** *
1149 GAATTTTTTA-ANNNNNNNNNNTAAAACAGGCTATAATTGAAT
130 GAATTTTTTACA--TTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * * * **
1191 ATTTACCAT-GAGAAACATTAAGAAAAAGACATTCATTGGCAAGAAAAATCCATTTGGAGTCACC
1 GTCTACC-TCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* ***************
1255 CATTCCTTCAAAAGCCTTATTACAT-GCTTT-AAA-TAGTTTTATAATCTNNNNNNNNNNNNNNN
65 CAATCCTTCAAAAGCCTTATTAC-TCG-TTTAAAATTA-TTTTATAATCTCATAATTGATTTTAA
* **
1317 NTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAAT
127 GTTGAA-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * *
1362 G-CTTACCTTAAGAAACGT-ATAGAAAAAGTCATTTATTAAG-AAGAAAAGTCTATTTATAGTCA
1 GTC-TACCTCAAGAAACATGA-AGAAAAAGGCATTCATT-GGCAAGAAAAGTCTATTTATAGTCA
* ********** * * *
1424 CCCATTNNNNNNNNNNCCTTATTGCTCGCTTT-AAATTGTTTTATAGTCTCATAATTGATTTTAA
63 CCCAATCCTTCAAAAGCCTTATTACTCG-TTTAAAATTATTTTATAATCTCATAATTGATTTTAA
* * *
1488 GTT-AATTTTTTTTATATTTTTGGCTAAAAAAGACTATAATTGAAT
127 GTTGAA--TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * ********** * * * *
1533 GTCTACCTCAAGAAACATAAAGAAAAATGCATNNNNNNNNNNGAAAAATCCATTTATAGTTACCT
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* * * ** ******
1598 ATTCCTTGAAAAGCCTTATTACTCGCTTTCAAA-GGTTTTATAATCTCATAATTGATTNNNNNNN
66 AATCCTTCAAAAGCCTTATTACTCG-TTTAAAATTATTTTATAATCTCATAATTGATT-TTAAGT
**** * * *
1662 NNNTTTTTTTACATTTTTTGTTAAAACAAAATATAATTGAAT
129 TGAATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * * **
1704 GTCTATCTCGAGAAACATGAAGAACAAGGTATTCACTGGCAAGAAAAGTGTATTTATAGTCACTT
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* * ********* ** * * *
1769 ATTCTTTCAAAAGCCTTANNNNNNNNNNT-AAATGGTTTTACAATCTCACAATTGATTTTATGTT
66 AATCCTTCAAAAGCCTTA-TTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
* ** * *
1833 GAATTTTTTTATATTTTTTATTAAAACAGAATATAATTAAAT
130 GAA-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * *
1875 G-CTTGCCTCTAGAAATATGTAA-AAAAAGCCATTCATTAAG-AAGAAAAGT-TATTTATAGTCA
1 GTC-TACCTCAAGAAACATG-AAGAAAAAGGCATTCATT-GGCAAGAAAAGTCTATTTATAGTCA
* * **********
1936 CTCATTCCTTCAAAAGCCTTATTACTCGNNNNNNNNNNTTTTATAATCTCATAATTGATTTTAAG
63 CCCAATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAG
*** * * *
2001 TTGAATTTTTTTTGTTCTTT-GTTAAAACAAACTATAACTAAAT
128 TTGAATTTTTTACATT-TTTGGTTAAAACAGACTATAATTGAAT
*** * * *
2044 GTCTACCTCAAGAAACAT-AGAGAAAAACATATTTATTTGCAAGAAAAGTCCA-TTATAGTCACC
1 GTCTACCTCAAGAAACATGA-AGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* * * * * *
2107 TATTCCTTTCAAAAGGCTTATTGCTCGCTTT-AAATTGTTTTATAATCTCATAATTGATTTGAAG
65 CAATCC-TTCAAAAGCCTTATTACTCG-TTTAAAATTATTTTATAATCTCATAATTGATTTTAAG
*************************
2171 TTGAATTTTTTTANNNNNNNNNNNNNNNNNNNNNNNNNTTGAAT
128 TTGAA-TTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
** *
2215 GTCTACCTCAAGAAACATGAAGAAAAATACATTCATTGGCAAGAAAAGATC-ATTTATACTCACC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAG-TCTATTTATAGTCACC
* *********** * ***
2279 CATTCCTTCAAANNNNNNNNNNTTCAGTTT-AAATTGTTTTATAATCTTGGAATTGATTTTAAGT
65 CAATCCTTCAAAAGCCTTATTACTC-GTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGT
* * *
2343 TGAATTGTTTTACATTTTTAGTTCAAACAG-CTATAATTAAAT
129 TGAATT-TTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * ******
2385 GTCTACCTCAAGAGACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGT-TCATTTATANNNNNN
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCT-ATTTATAGTCACC
**** * * * *
2449 NNNNCCTTCAAAAGCCTTATTACTCGCTCT-AAA-TATTTTTATAATCTGACAATTTATTTTAAG
65 CAATCCTTCAAAAGCCTTATTACTCG-TTTAAAATTA-TTTTATAATCTCATAATTGATTTTAAG
* ** *
2512 TTAAATTTTCTTACATTTTTTATTAAAACATACTATAATTGAAT
128 TTGAATTTT-TTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * **** * * *
2556 G-CTTGCCTCTAGAAACATGCAGAAAAA-GCTATTCATACAAAAGAAAAGTGTATTTCTGGTCAC
1 GTC-TACCTCAAGAAACATGAAGAAAAAGGC-ATTCATTGGCAAGAAAAGTCTATTTATAGTCAC
* * *
2619 TCAATCCTTCAAAAGTCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGC
64 CCAATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGT
*
2684 TGAATTTTTATACATTTTCGGTTAAAACAGACTATAATTGAAT
129 TGAATTTTT-TACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * **
2727 GTCTACATCAAGAGACAGGAAGAAAAATGCATTCATTTGCAAGAAAAGTCTA-TTATAGTCACNN
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
******** ** * *
2791 NNNNNNNNAAAAGCCTTATTACTCGCTTTAAAA-GCTTTTATAATCTCAAAATTGATCTTAAGTT
66 AATCCTTCAAAAGCCTTATTACTCG-TTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
* * * *
2855 GAATTGTTTTACAGTTTTGGTTAAAATAAACTATAATTGAAC
130 GAATT-TTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * *
2897 ATCGACCTCAAGAAACATTAAGAAAAAGGCATTAATTGGCAAAAAAAGTCCATTTATAGTCACCC
1 GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
* ** * * * * * *
2962 ATTATTTCGAAAGCCTTATT-TTCCGCTTAAAATTGTTTTATAATCTCATAGTTAATTTTAAGTT
66 AATCCTTCAAAAGCCTTATTACT-CGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
******** *
3026 GAATTTTTTA-ANNNNNNNNNNTAAAACAGGCTATAATTGAAT
130 GAATTTTTTACA--TTTTTGGTTAAAACAGACTATAATTGAAT
* * * * * * * **
3068 ATCCACGAT-GAGAAACATTAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTGGAGTCACC
1 GTCTAC-CTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACC
* * ************* *
3132 TATTCCTTCAAAAGCCTTATTACANNNNNNNNNNGGTTTTATAATCTCGTAATTGATTTTAAGTT
65 CAATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTT
** **
3197 GAATTTGTTTATGTTTTTCATTAAAACAGACTATAATTGAAT
130 GAATTT-TTTACATTTTTGGTTAAAACAGACTATAATTGAAT
* * * * *
3239 G-CTTATCTCAAGAAACGT-ATAGAAAAAGTCATTCATTAAG-AAGAAAAGTCCATTTATAGTCA
1 GTC-TACCTCAAGAAACATGA-AGAAAAAGGCATTCATT-GGCAAGAAAAGTCTATTTATAGTCA
*
3301 CCCATTCCTTCA
63 CCCAATCCTTCA
3313 NNNNNNNNNN
Statistics
Matches: 2318, Mismatches: 728, Indels: 190
0.72 0.22 0.06
Matches are distributed among these distances:
165 1 0.00
166 2 0.00
167 122 0.05
168 15 0.01
169 128 0.06
170 682 0.29
171 1316 0.57
172 51 0.02
173 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.35
Consensus pattern (170 bp):
GTCTACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
AATCCTTCAAAAGCCTTATTACTCGTTTAAAATTATTTTATAATCTCATAATTGATTTTAAGTTG
AATTTTTTACATTTTTGGTTAAAACAGACTATAATTGAAT
Found at i:9964 original size:342 final size:342
Alignment explanation
Indices: 9330--10707 Score: 984
Period size: 341 Copynumber: 4.0 Consensus size: 342
9320 NNNNNNNNNN
* * * *
9330 TTCAAAAGCCTAATTACACGCTTTAAATGGTTT-TATAATCTCATAATTGATTTTTAGTTAAATG
1 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCT-TAATCTCATAATTGATTTTTAGTTAAATG
* * * **********
9394 TTTTTATATTTTTCATTAAAACAAACTATAATTGAAT-ATCTNNNNNNNNNNA-CATGAAG-AAA
65 -TTTTACATTTATCATTAAAACAGACTATAATTGAATGA-CTACCATGATAAATCATGAAGAAAA
*
9456 AGGAATTCATT-AGCATAAAAAGTCTATTTTTAGTCACCCATTCCTTCAAAAG-CTTATTACACG
128 AGGAATTCATTGA-CATGAAAAGTCTATTTTTAGTCACCCATTCCTTCAAAAGCCTTATTACACG
* *
9519 CCTTAAATGGTTTTATAATCTCATAATTAATTTTACATTGGATTTTTTTACATTTTTTATGAAAA
192 CCTTAAATGGTTTTATAATCTCATAATTAATTTTACATTGGATTTGTTTACATTTTTCATGAAAA
* *
9584 CAGACTATAATTGAATGCCTGCCTTCAGAACCCTATAGAAAAAGTCATTCATTGAAAAGAAAAGT
257 CAGACTATAATTAAATGCCTGCCTTCAGAAACCTATAGAAAAAGTCATTCATTGAAAAGAAAAGT
* **
9649 CGATTTATAGTCACTTATTCC
322 CGATTTATAATCACGCATTCC
* * * ********** *
9670 TTCAAAAGTCTTATTACATGCTTTAAATGGTTT-TATAATCTCATNNNNNNNNNNTAGTTGAATT
1 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCT-TAATCTCATAATTGATTTTTAGTT-AAAT
* ** *
9734 GTTTTACATTTTTCATTAAAACAGACTATAATTGAATGACTGTC-TCGA-GAATCATGAAGAAAA
64 GTTTTACATTTATCATTAAAACAGACTATAATTGAATGACTACCAT-GATAAATCATGAAGAAAA
* * ** * * *
9797 AGGTATTCATTGACATGAAAAGTCTATTTTTAATCGTCCATTTCTTCAAAGGCCTTATTACAGGC
128 AGGAATTCATTGACATGAAAAGTCTATTTTTAGTCACCCATTCCTTCAAAAGCCTTATTACACGC
* * * ********** * *
9862 CTTAAAAGATTTTATAATCTCATAATTGATTTTNNNNNNNNNNTGTTTACATTTTTCATTAAAAT
193 CTTAAATGGTTTTATAATCTCATAATTAATTTTACATTGGATTTGTTTACATTTTTCATGAAAAC
* *
9927 AGTCTATAATTAAATGCCTGCC-TCGAGAAACCTATAGAAAAAGTCATTCATTGAGAAGAAAAGT
258 AGACTATAATTAAATGCCTGCCTTC-AGAAACCTATAGAAAAAGTCATTCATTGAAAAGAAAAGT
*
9991 TGATTTATAATCACGCATTCC
322 CGATTTATAATCACGCATTCC
10012 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCTTAATCTCATAATTGATTTTTAGTTAAATGT
1 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCTTAATCTCATAATTGATTTTTAGTTAAATGT
*
10077 TTTACATTTATCATTAAAACAGACTATAATTGAATGTCTACCATGATAAAT-ATGAAGAAAAAGG
66 TTTACATTTATCATTAAAACAGACTATAATTGAATGACTACCATGATAAATCATGAAGAAAAAGG
* * *
10141 CATTCATTGGCATGAAAAGTCTATTTTTAGTCACCCATTCCTTAAAAAGCCTTATTACACGCCTT
131 AATTCATTGACATGAAAAGTCTATTTTTAGTCACCCATTCCTTCAAAAGCCTTATTACACGCCTT
***************** * ** * **
10206 AAATGGTTTTATANNNNNNNNNNNNNNNNNNA-GTTAAATTTTTTTACATTTTTCATTTAAACAG
196 AAATGGTTTTATA-ATCTCATAATTAATTTTACATTGGATTTGTTTACATTTTTCATGAAAACAG
* * ** * * * *
10270 AATATAATTAAATGTCTGCCTAGAGAAACCTGTAGAAAAAGTCATTCATTGAGAACAAAAGTCCA
260 ACTATAATTAAATGCCTGCCTTCAGAAACCTATAGAAAAAGTCATTCATTGAAAAGAAAAGTCGA
* ** *
10335 TTTATAGTCACTTATTCT
325 TTTATAATCACGCATTCC
* ********************** *
10353 TTTAAAAGCCTTATNNNNNNNNNNNNNNNNNNNNNNAATCTCATAATTGATTTTAAGTTGAATAT
1 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCTTAATCTCATAATTGATTTTTAGTT-AA-AT
* ** * * ** *
10418 -TTTTACATTTTTGGTTAAAACAGA-TATAATTAAATGTCTACC-TCGGGAAA-CATAAAGAAAA
64 GTTTTACATTTATCATTAAAACAGACTATAATTGAATGACTACCAT-GATAAATCATGAAGAAAA
* * ** * * *
10479 AGGCATTCATTGGCAAAAAAAGTCGATTTAT-GATCACCAATTCCTTCAAAAGCCTTATTACACG
128 AGGAATTCATTGACATGAAAAGTCTATTTTTAG-TCACCCATTCCTTCAAAAGCCTTATTACACG
* * *** * * *
10543 CTTTAAATAGTTTTATAATCTCATAA-TAGATTTTTGGTT-GAATTGTTTTACATTTTTAATTAA
192 CCTTAAATGGTTTTATAATCTCATAATTA-ATTTTACATTGGATTTG-TTTACATTTTTCATGAA
**
10606 AACAGACTATAATTAAATGCCTGCC-TCGAGAAA--TATGAAGAAAAAGAT-ATTCATTGGCAAG
255 AACAGACTATAATTAAATGCCTGCCTTC-AGAAACCTAT--AGAAAAAG-TCATTCATTGAAAAG
* * *
10667 AAAAGTCAATTTATAGTCACCCATTCC
316 AAAAGTCGATTTATAATCACGCATTCC
*
10694 TTCAAAAGTCTTAT
1 TTCAAAAGCCTTAT
10708 NNNNNNNNNN
Statistics
Matches: 809, Mismatches: 204, Indels: 49
0.76 0.19 0.05
Matches are distributed among these distances:
339 3 0.00
340 94 0.12
341 503 0.62
342 206 0.25
343 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.35
Consensus pattern (342 bp):
TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCTTAATCTCATAATTGATTTTTAGTTAAATGT
TTTACATTTATCATTAAAACAGACTATAATTGAATGACTACCATGATAAATCATGAAGAAAAAGG
AATTCATTGACATGAAAAGTCTATTTTTAGTCACCCATTCCTTCAAAAGCCTTATTACACGCCTT
AAATGGTTTTATAATCTCATAATTAATTTTACATTGGATTTGTTTACATTTTTCATGAAAACAGA
CTATAATTAAATGCCTGCCTTCAGAAACCTATAGAAAAAGTCATTCATTGAAAAGAAAAGTCGAT
TTATAATCACGCATTCC
Found at i:10699 original size:171 final size:170
Alignment explanation
Indices: 9330--10707 Score: 940
Period size: 171 Copynumber: 8.1 Consensus size: 170
9320 NNNNNNNNNN
* *
9330 TTCAAAAGCCTAATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTT-AAATG
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAATTG
* * * * ********** * *
9394 TTTTTATATTTTTCATTAAAACAAACTATAATTGAATATCTNNNNNNNNNNACATGAAGAAAAGG
66 -TTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAATATGAAGAAAAAG
* * * *
9459 AATTCATTAGCATA-AAAAGTCTATTTTTAGTCACCCATTCC
130 TATTCATTGGCA-AGAAAAGTCGATTTATAGTCACCCATTCC
* * * *
9500 TTCAAAAG-CTTATTACACGCCTTAAATGGTTTTATAATCTCATAATT-AATTTTACATTGGATT
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTA-GTTGAATT
* * * * * *
9563 TTTTTACATTTTTTATGAAAACAGACTATAATTGAATGCCTGCCTTC-AGAACCCTAT--AGAAA
65 GTTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCC-TCGAGAA--ATATGAAGAAA
** **
9625 AAGTCATTCATTGAAAAGAAAAGTCGATTTATAGTCACTTATTCC
127 AAGT-ATTCATTGGCAAGAAAAGTCGATTTATAGTCACCCATTCC
* * **********
9670 TTCAAAAGTCTTATTACATGCTTTAAATGGTTTTATAATCTCATNNNNNNNNNNTAGTTGAATTG
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAATTG
* * *
9735 TTTTACATTTTTCATTAAAACAGACTATAATTGAATGACTGTCTCGAG-AATCATGAAGAAAAAG
66 TTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAAT-ATGAAGAAAAA-
* * * * * ** *
9799 GTATTCATTGACATGAAAAGTCTATTTTTAATCGTCCATTTC
129 GTATTCATTGGCAAGAAAAGTCGATTTATAGTCACCCATTCC
* * * * * *********
9841 TTCAAAGGCCTTATTACAGGCCTTAAAAGATTTTATAATCTCATAATTGATTTTNNNNNNNNNNT
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTT-TAGTTGAATT
* * *
9906 G-TTTACATTTTTCATTAAAATAGTCTATAATTAAATGCCTGCCTCGAGAAACCTAT--AGAAAA
65 GTTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAA--TATGAAGAAAA
* * *
9968 AGTCATTCATTGAG-AAGAAAAGTTGATTTATAATCACGCATTCC
128 AGT-ATTCATTG-GCAAGAAAAGTCGATTTATAGTCACCCATTCC
* * * *
10012 TTCAAAAGCCTTATTAAATGCTTTAAATAGTTTCT-TAATCTCATAATTGATTTTTAGTT-AAAT
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTT-TATAATCTCATAATTGATTTTTAGTTGAATT
* * * *
10075 GTTTTACATTTATCATTAAAACAGACTATAATTGAATGTCTACCAT-GATAAATATGAAGAAAAA
65 GTTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCC-TCGAGAAATATGAAGAAAAA
* * * *
10139 GGCATTCATTGGCATGAAAAGTCTATTTTTAGTCACCCATTCC
129 -GTATTCATTGGCAAGAAAAGTCGATTTATAGTCACCCATTCC
* * ****************** * *
10182 TTAAAAAGCCTTATTACACGCCTTAAATGGTTTTATANNNNNNNNNNNNNNNNNNAGTTAAATTT
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAATTG
* * * ** *
10247 TTTTACATTTTTCATTTAAACAGAATATAATTAAATGTCTGCCTAGAGAAACCTGTAGAAAAAGT
66 TTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAATATGAAGAAAAAGT
* * ** *
10312 CATTCATTGAG-AACAAAAGTCCATTTATAGTCACTTATTCT
131 -ATTCATTG-GCAAGAAAAGTCGATTTATAGTCACCCATTCC
* ********************** *
10353 TTTAAAAGCCTTATNNNNNNNNNNNNNNNNNNNNNNAATCTCATAATTGATTTTAAGTTGAATAT
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAAT-T
** * * * *
10418 -TTTTACATTTTTGGTTAAAACAGA-TATAATTAAATGTCTACCTCGGGAAACATAAAGAAAAAG
65 GTTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAATATGAAGAAAAA-
* * *
10481 GCATTCATTGGCAAAAAAAGTCGATTTAT-GATCACCAATTCC
129 GTATTCATTGGCAAGAAAAGTCGATTTATAG-TCACCCATTCC
* * *
10523 TTCAAAAGCCTTATTACACGCTTTAAATAGTTTTATAATCTCATAATAGATTTTTGGTTGAATTG
1 TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAATTG
* *
10588 TTTTACATTTTTAATTAAAACAGACTATAATTAAATGCCTGCCTCGAGAAATATGAAGAAAAAGA
66 TTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAATATGAAGAAAAAG-
*
10653 TATTCATTGGCAAGAAAAGTCAATTTATAGTCACCCATTCC
130 TATTCATTGGCAAGAAAAGTCGATTTATAGTCACCCATTCC
*
10694 TTCAAAAGTCTTAT
1 TTCAAAAGCCTTAT
10708 NNNNNNNNNN
Statistics
Matches: 901, Mismatches: 267, Indels: 79
0.72 0.21 0.06
Matches are distributed among these distances:
168 10 0.01
169 90 0.10
170 293 0.33
171 493 0.55
172 12 0.01
173 2 0.00
174 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.35
Consensus pattern (170 bp):
TTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAGTTGAATTG
TTTTACATTTTTCATTAAAACAGACTATAATTAAATGTCTGCCTCGAGAAATATGAAGAAAAAGT
ATTCATTGGCAAGAAAAGTCGATTTATAGTCACCCATTCC
Found at i:11243 original size:171 final size:161
Alignment explanation
Indices: 11059--11384 Score: 375
Period size: 171 Copynumber: 2.0 Consensus size: 161
11049 NNNNNNNNNT
*
11059 AATTATAAGATTATAAAACCATTTAAAGCGTGTAATAAGACTTTTCAAGGAATGGGTGACAATAA
1 AATTATAAGATTATAAAACCATTTAAAGCGTGGAATAAGACTTTTCAAGGAATGGGTGACAATAA
* * *
11124 ATCGACTTTTCTTGCCAATGAATATCTTTTTCTTCATATTT-CTCAAGGCAGGCATTCAATTATA
66 ATCAACTTTTCTTACCAATGAATATCTTTTTCTTCATATTTCCT-AAGGCAGACATTCAATTATA
**
11188 GTCTGTTTTAATGAAAAATGTAAAANNNNNNNNNNAAAAATC
130 GTCTGTTTTAACCAAAAATGTAAAA----------AAAAATC
* * * * * *
11230 AATTATGAGATTATAAAACTATTTAAAGCGTGGAATAAGGCTTTTGAAGGAATTGGTGACCATAA
1 AATTATAAGATTATAAAACCATTTAAAGCGTGGAATAAGACTTTTCAAGGAATGGGTGACAATAA
* * * * * * *
11295 ATCAACTTTTCTTACCAATGAATGTCTTTTTCTTTATGTTTCCTGATGTAGACATTTAATTATAG
66 ATCAACTTTTCTTACCAATGAATATCTTTTTCTTCATATTTCCTAAGGCAGACATTCAATTATAG
11360 TCTGTTTTAACCAAAAATGTAAAAA
131 TCTGTTTTAACCAAAAATGTAAAAA
11385 TATTCAACTT
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
161 1 0.01
171 132 0.98
172 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (161 bp):
AATTATAAGATTATAAAACCATTTAAAGCGTGGAATAAGACTTTTCAAGGAATGGGTGACAATAA
ATCAACTTTTCTTACCAATGAATATCTTTTTCTTCATATTTCCTAAGGCAGACATTCAATTATAG
TCTGTTTTAACCAAAAATGTAAAAAAAAATC
Found at i:11971 original size:171 final size:169
Alignment explanation
Indices: 11686--12871 Score: 933
Period size: 171 Copynumber: 7.0 Consensus size: 169
11676 NNNNNNNNNN
* * * *
11686 TGTAATAAGGCTTTTTAAGGAATGGGTGACTA-AAATTAGACTTTTCATGC-CAATGAATGCCTT
1 TGTAATAAGGC-TTTGAAGGAATGAGTGACTATAAA-TAGACTTTTC-TTCTCAATGAATGACTT
** * * *
11749 TTTCTTCATATTTCTC-ATGG-TAGACATTTAATTATAGTATGTTTTAATGAAAAATGTAAAAAA
63 TTTCTT-AGGTTTCTCGA-GGCAAG-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAA
*
11812 ATTCAATTAAAAATCAATAATGAGATTATAAAACCATTTAAAGCA
125 ATTCAATTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
********* * * *
11857 TGTAATAAGGCTTNNNNNNNNNNGGGTGACTATAAATTGACTTTTGTTCTCAATGAATGACTTTT
1 TGTAATAAGGCTT-TGAAGGAATGAGTGACTATAAATAGACTTTTCTTCTCAATGAATGACTTTT
* * **
11922 CCTGTAGGTTTCTTGAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAGCAAATTC
65 TCT-TAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
* *
11987 AACTT-AAAATCAATTATGAGATTATAAAACTC-TTTAAGGCC
129 AA-TTAAAAATCAATTATGAGATTATAAAAC-CATTTAAAGCA
* *
12028 TGTAATAAGGCCTTTGAAGGAATGAGTGACTAAAAATAGACTTTTCATGC-CAATGAATG-CTTT
1 TGTAATAAGG-CTTTGAAGGAATGAGTGACTATAAATAGACTTTTC-TTCTCAATGAATGAC-TT
* * *
12091 TTTCTTCATGG-TTCTCCAGG-TAGTCATTCAATTATAGTCTATTTTAATGAAAAATGT-AAAAA
63 TTTCTT-A-GGTTTCTCGAGGCAAG-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAA
* * *
12153 ATTTAACTAAAAATCAATTATGAGATTATAAAACTATTTAAAG-A
125 ATTCAATTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * * *
12197 GTTTAATAAGGCTTTTGAAGGAATGTGTGATTATAAATCA-ACTTTTCTTCTCAATGAATGACAT
1 -TGTAATAAGGC-TTTGAAGGAATGAGTGACTATAAAT-AGACTTTTCTTCTCAATGAATGACTT
* * * * * * * **
12261 TTCCTATAGGTTTCTCAAGGCAGGCATTTAATTATAGGCTATTTTAATGAAAAATGTAAACAANN
63 TTTCT-TAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAAT
******** * ** *
12326 NNNNNNNNAAATCAATTATGAGATTATAAAACCTTTTAGGGCC
127 TCAATTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * * * * * *
12369 TGTAATAAGGCGTTGGAAGAAATGGGCGATTAAAAATAGACTTTT-TATGTCAATGAAT-ACCTT
1 TGTAATAAGGC-TTTGAAGGAATGAGTGACTATAAATAGACTTTTCT-TCTCAATGAATGA-CTT
** *
12432 TTTCTTCATATTTCTCGAGAC-AGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAA
63 TTTCTT-AGGTTTCTCGAGGCAAG-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAA
* * *
12496 TTCAACTACAAATCAATTATGAGATTATAAAACTATTTAAAGCA
126 TTCAATTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * *
12540 TGTAATAAGACTTTTGAAGGAATGAGTGACTATAAATCGACTTTTCTTTTCAATGAATGACTTTT
1 TGTAATAAGGC-TTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTCTCAATGAATGACTTTT
* * * * *
12605 TCTATAGGGTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTCATGAAAAATGTAAAAAAATCC
65 TCT-TAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
* * * * * *
12670 AATTTAAAATTAGA-TAAGAGATTATAAAATCATTTAAGGCG
129 AATTAAAAATCA-ATTATGAGATTATAAAACCATTTAAAGCA
* * * * * *
12711 TGTAATAA-GCTTTTAAAGGAATGGGTGACTAAAAATACACTTTT-TATGCT-AATGAAT-TCCT
1 TGTAATAAGGC-TTTGAAGGAATGAGTGACTATAAATAGACTTTTCT-T-CTCAATGAATGACTT
* ********** * *
12772 TTTCTTCATG-TNNNNNNNNNNAGATATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAAA
63 TTTCTT-AGGTTTCTCGAGGCAAG-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAA
*
12836 GTT-AACTAAAAATCAATTATGAGATTATAAAACCAT
126 -TTCAATTAAAAATCAATTATGAGATTATAAAACCAT
12872 NNNNNNNNNN
Statistics
Matches: 803, Mismatches: 170, Indels: 86
0.76 0.16 0.08
Matches are distributed among these distances:
168 4 0.00
169 79 0.10
170 183 0.23
171 515 0.64
172 22 0.03
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.35
Consensus pattern (169 bp):
TGTAATAAGGCTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTCTCAATGAATGACTTTTT
CTTAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTCAA
TTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
Found at i:12310 original size:341 final size:343
Alignment explanation
Indices: 11686--12868 Score: 1400
Period size: 341 Copynumber: 3.5 Consensus size: 343
11676 NNNNNNNNNN
* *
11686 TGTAATAAGGCTTTTTAAGGAATGGGTGACTAAAATTAGACTTTTCATGCCAATGAATGCCTTTT
1 TGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCATGCCAATGAATGCCTTTT
* * * *
11751 TCTTCATATTTCT-CATGGTAGACATTTAATTATAGTATGTTTTAATGAAAAATGTAAAAAAATT
66 TCTTCATAGTTCTCCA-GGTAGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATT
* * * **********
11815 CAATTAAAAATCAATAATGAGATTATAAAACCATTTAAAGCATGTAATAAGGCTTNNNNNNNNNN
130 CAACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGCATGTAATAAGGCTTTTGAAGGAAT
* * * * *
11880 GGGTGACTATAAATTGACTTTTGTTCTCAATGAATGACTTTTCCTGTAGGTTTCTTGAGGCAAGC
195 GAGTGACTATAAATCGACTTTTCTTCTCAATGAATGACTTTTCCTATAGGTTTCTTGAGGCAGGC
* *
11945 ATTCAATTATAGTCTGTTTTAATGAAAAATGTAAGCAAATTCAACTTAAAATCAATTATGAGATT
260 ATTCAATTATAGTCTGTTTTAATGAAAAATGTAAACAAATCCAACTTAAAATCAATTATGAGATT
12010 ATAAAACTC-TTTAAGGCC
325 ATAAAACTCATTTAAGGCC
* * *
12028 TGTAATAAGGCCTTTGAAGGAATGAGTGACTAAAAATAGACTTTTCATGCCAATGAATGCTTTTT
1 TGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCATGCCAATGAATGCCTTTT
* * *
12093 TCTTCATGGTTCTCCAGGTAGTCATTCAATTATAGTCTATTTTAATGAAAAATGT-AAAAAATTT
66 TCTTCATAGTTCTCCAGGTAGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
*
12157 AACTAAAAATCAATTATGAGATTATAAAACTATTTAAAG-AGTTTAATAAGGCTTTTGAAGGAAT
131 AACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGCA-TGTAATAAGGCTTTTGAAGGAAT
* * * * **
12221 GTGTGATTATAAATCAACTTTTCTTCTCAATGAATGACATTTCCTATAGGTTTCTCAAGGCAGGC
195 GAGTGACTATAAATCGACTTTTCTTCTCAATGAATGACTTTTCCTATAGGTTTCTTGAGGCAGGC
* * * **********
12286 ATTTAATTATAGGCTATTTTAATGAAAAATGTAAACAANNNNNNNNNNAAATCAATTATGAGATT
260 ATTCAATTATAGTCTGTTTTAATGAAAAATGTAAACAAATCCAACTTAAAATCAATTATGAGATT
* *
12351 ATAAAAC-CTTTTAGGGCC
325 ATAAAACTCATTTAAGGCC
* * * * * * * *
12369 TGTAATAAGGCGTTGGAAGAAATGGGCGATTAAAAATAGACTTTTTATGTCAATGAATACCTTTT
1 TGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCATGCCAATGAATGCCTTTT
* * **
12434 TCTTCATATTTCTCGAGACAGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
66 TCTTCATAGTTCTCCAGGTAGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
* *
12499 AACTACAAATCAATTATGAGATTATAAAACTATTTAAAGCATGTAATAAGACTTTTGAAGGAATG
131 AACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGCATGTAATAAGGCTTTTGAAGGAATG
* * *
12564 AGTGACTATAAATCGACTTTTCTTTTCAATGAATGACTTTTTCTATAGGGTTCTTGAGGCAGGCA
196 AGTGACTATAAATCGACTTTTCTTCTCAATGAATGACTTTTCCTATAGGTTTCTTGAGGCAGGCA
* * * * *
12629 TTCAATTATAGTCTGTTTTCATGAAAAATGTAAAAAAATCCAATTTAAAATTAGA-TAAGAGATT
261 TTCAATTATAGTCTGTTTTAATGAAAAATGTAAACAAATCCAACTTAAAATCA-ATTATGAGATT
*
12693 ATAAAA-TCATTTAAGGCG
325 ATAAAACTCATTTAAGGCC
* * * * *
12711 TGTAATAA-GCTTTTAAAGGAATGGGTGACTAAAAATACACTTTTTATGCTAATGAATTCC-TTT
1 TGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCATGCCAATGAATGCCTTTT
********* *
12774 TCTTCAT-GTNNNNNNNNNNAGAT-ATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAAAG
66 TCTTCATAGT-TCTCCAGGTAG-TCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAA-
12837 TT-AACTAAAAATCAATTATGAGATTATAAAAC
128 TTCAACTAAAAATCAATTATGAGATTATAAAAC
12869 CATNNNNNNN
Statistics
Matches: 709, Mismatches: 122, Indels: 22
0.83 0.14 0.03
Matches are distributed among these distances:
339 1 0.00
340 81 0.11
341 326 0.46
342 297 0.42
343 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.35
Consensus pattern (343 bp):
TGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCATGCCAATGAATGCCTTTT
TCTTCATAGTTCTCCAGGTAGTCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTC
AACTAAAAATCAATTATGAGATTATAAAACTATTTAAAGCATGTAATAAGGCTTTTGAAGGAATG
AGTGACTATAAATCGACTTTTCTTCTCAATGAATGACTTTTCCTATAGGTTTCTTGAGGCAGGCA
TTCAATTATAGTCTGTTTTAATGAAAAATGTAAACAAATCCAACTTAAAATCAATTATGAGATTA
TAAAACTCATTTAAGGCC
Found at i:14818 original size:169 final size:171
Alignment explanation
Indices: 14612--14945 Score: 424
Period size: 169 Copynumber: 2.0 Consensus size: 171
14602 TTAAAGCGAA
* * ** * *
14612 TAATAAGGCTTTTGAAGGAATGGGTAACTATAAATAGAC-TTTTCTTCTCAAAGAATGACTTTTT
1 TAATAAGGCTTTTAAAGAAATGGACAACTAAAAATAGACTTTTTCTGC-CAAAGAATGACTTTTT
* * ** *
14676 CTACAGGTTT-TTCGAGGTAGGCATTCAATCATAGTATGTTTAAATAAAAAATATAAAAA-ATT-
65 CTACACGTTTCTT-GAGGCAAACATTCAATCATAGTATATTTAAATAAAAAATATAAAAACATTG
* * *
14738 AATTTAAAAACTATTATGAGATTATAAAACCATTTAAGGCATT
129 AACTTAAAAACAATTATGAGATCATAAAACCATTTAAGGCATT
* *
14781 TAATAAGGCTTTTAAAGAAATGGACGACTAAAAATAGACTTTTTCTGCCAATGAATGACTTTTTC
1 TAATAAGGCTTTTAAAGAAATGGACAACTAAAAATAGACTTTTTCTGCCAAAGAATGACTTTTTC
* * * * *
14846 TACACGTTTCTTGAGGCAAACATTTAATTATAGTCTATTTTAATAAAAAATGTAAAAACATTGAA
66 TACACGTTTCTTGAGGCAAACATTCAATCATAGTATATTTAAATAAAAAATATAAAAACATTGAA
*
14911 CTTAAAATCAATTATGAGATCATAAAACCATTTAA
131 CTTAAAAACAATTATGAGATCATAAAACCATTTAA
14946 ANNNNNNNNN
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
169 94 0.68
170 12 0.09
171 33 0.24
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (171 bp):
TAATAAGGCTTTTAAAGAAATGGACAACTAAAAATAGACTTTTTCTGCCAAAGAATGACTTTTTC
TACACGTTTCTTGAGGCAAACATTCAATCATAGTATATTTAAATAAAAAATATAAAAACATTGAA
CTTAAAAACAATTATGAGATCATAAAACCATTTAAGGCATT
Found at i:14995 original size:171 final size:169
Alignment explanation
Indices: 14593--15248 Score: 517
Period size: 170 Copynumber: 3.9 Consensus size: 169
14583 NNNNNNNNNN
* * *
14593 TAAAACAATTTAAAGCGA-ATAATAAGGCTTTTGAAGGAATGGGTAACTATAAATAGACTTTTCT
1 TAAAACCATTTAAAGC-ATTTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGAC-TTT-T
* * * * * *
14657 TCTCA-AA-GAATGACTTTTTCTACAGGTTT-TTCGAGGTAGGCATTCAATCATAGTATGTTTAA
63 TCTCACAATGAATGACTTTTTCTACACGTTTCTT-GAGGCAAGCATTCAATTATAGTCTGTTTTA
* * * *
14719 ATAAAAAATATAAAAAATTAATTTAAAAACTATTATGAGATTA
127 ATAAAAAATGTAAAAAATTAACTTAAAAACAATTATGAGATCA
* * * ** *
14762 TAAAACCATTTAAGGCATTTAATAAGGCTTTTAAAGAAATGGACGACTAAAAATAGACTTTTTCT
1 TAAAACCATTTAAAGCATTTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTCT
* * *
14827 GC-CAATGAATGACTTTTTCTACACGTTTCTTGAGGCAAACATTTAATTATAGTCTATTTTAATA
66 -CACAATGAATGACTTTTTCTACACGTTTCTTGAGGCAAGCATTCAATTATAGTCTGTTTTAATA
*
14891 AAAAATGTAAAAACATTGAACTTAAAATCAATTATGAGATCA
130 AAAAATGTAAAAA-ATT-AACTTAAAAACAATTATGAGATCA
**********
14933 TAAAACCATTTAAANNNNNNNNNNAGGCTTTTGAAGGAATGGGTGACTATAAAT-GCACTTTTT-
1 TAAAACCATTTAAAGCATTTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTTC
* * *
14996 TCACAATGAATTA-TTGTTTCTAGATGTTTCTTGAGGCAAGCATTCAATTATAGTCTGTTTTAAT
65 TCACAATGAATGACTT-TTTCTACACGTTTCTTGAGGCAAGCATTCAATTATAGTCTGTTTTAAT
************** *
15060 AAAAAATGTAAAANNNNNNNNNNNNNNNNCAATTATGAGATTA
129 AAAAAATGTAAAA--AATTAACTTAAAAACAATTATGAGATCA
* * * * *
15103 TAAAACCATTT-AAGACGTGTAATAAGGCTTTTGAAGGAATAGTTGACTAAAAATAGAC-TTTTC
1 TAAAACCATTTAAAG-CATTTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTC
* * * * * *
15166 AT-ATCAATGAATGCCTTTTTCTTCATGTTT-TTCGAGGTAGGCATTCAATTATAGTCTATTTTA
65 -TCA-CAATGAATGACTTTTTCTACACGTTTCTT-GAGGCAAGCATTCAATTATAGTCTGTTTTA
*
15229 ATGAAAAATGTAAAACAATT
127 ATAAAAAATGTAAAA-AATT
15249 CAACNNNNNN
Statistics
Matches: 382, Mismatches: 86, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
167 4 0.01
168 7 0.02
169 114 0.30
170 128 0.34
171 127 0.33
172 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.34
Consensus pattern (169 bp):
TAAAACCATTTAAAGCATTTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTTCT
CACAATGAATGACTTTTTCTACACGTTTCTTGAGGCAAGCATTCAATTATAGTCTGTTTTAATAA
AAAATGTAAAAAATTAACTTAAAAACAATTATGAGATCA
Found at i:17457 original size:171 final size:171
Alignment explanation
Indices: 17143--19055 Score: 1826
Period size: 171 Copynumber: 11.2 Consensus size: 171
17133 NNNNNNNNNN
* * * *
17143 TTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTGTTCTCAATAA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCT-AATGA
* * * * ** * *
17208 ATGACTTTTT-TGACAAGTTTCTTGAGACAGGCATTCAATTATAGACTATTTTAA-TAAAAAATG
65 ATGCCTTTTTCT-TCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATG
* * *
17271 TAAAAAAATTCAACTTAAAATTAATTATGAGAATATAATATAA
129 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* ** *
17314 TTTAAAACGAGTAATAAGGCTTTTGAAGGAATAAGTGACTGTAAATGGACTTTTCTTACTAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTAATGA
* ** * * * * *
17379 GTGCCTTTTTCTTCATATTTTTTGAGGTAGACATTTAATTATAGTCTGTTTTAACT-TAAAATG-
65 ATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATGT
* * * *
17442 AAAAAAAGGTCAACTTAAAATTAATTATGAGTTTATAAAATCA
130 AAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * *
17485 TTTAAAGCGTGTAATAAGGCTTTTGAAGAAATGAGTGACTGTAAATGGACTTTTCTTGTCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCT-AATGA
** * * * * * * * *
17550 ATGCCCCTGTCTCCACGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTATAA-TGAAAAATGT
65 ATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATGT
* * **
17614 AAAAAAATCTCAACTTAAAATAAATTATGATATTATAAAA-CC
130 AAAAAAAT-TCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * * * * *
17656 TTTGAATGTGAGTAAGAAGGCTCTCGAAGGAATAGGTGACTATAAATGGACTTTTCTTATCAATA
1 TTT-AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCT-AATG
* * * * * * * *
17721 AAAGACTTTTTCTGCACGTTTCTCAAGGTA-ATCATTTAATTATAATATATTTTAA-TGAAAAAT
64 AATGCCTTTTTCTTCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTATTTTAACTAAAAAAT
* *
17784 GTAACAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAA
128 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * **
17828 TTTAAAGCGAGTAATAAGGTTTTTGAAGAAATGGGTGACTGCAAATGGACTTTTCTTGCTAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTAATGA
* * * *
17893 ATGCCCTTTTCTTCACGTTTCTCGAGGTTGACATTCAATTATAGTTTATTTTAAC-CAAAAATAG
65 ATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAAT-G
* * *
17957 -AAAAATATTCAACTTAAGATCAATTATGAGATTATAAAACAA
129 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * *
17999 TTTAAAGCGAGTAATAAAGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTAATGA
*** * * * * * ** *
18064 ATGCCTTTTTCTTTGTGTTTCTCGAGGGAGCCAATCAATTATAATTTGCTTTAAC-CAAAAATGT
65 ATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATGT
* * * **
18128 AAAACAATTCTACTTAAAATCAATTATCAGATTATAAAACCA
130 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * * * * * *
18170 TTTGAAGCGTGTAATAAGGCTTTCGAAAGAATAGATGAATATAAATGCACTTTTCTTGGC-AACG
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT--CTAATG
* * * * *
18234 AATACCTTTTTCTTCATGTTTTTCGATGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATG
64 AATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATG
* * * * *
18298 TTAAAAAATTTATCTTAAAATCAATTATAAAATTATAAAATAA
129 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * *
18341 TTTAAAGCGAGCAATAAGGCTTTTGAAGGAATGGGTGCCTATAAATAGACTTTTCTTACCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTAATGA
* * * * * * *
18406 AT-ACTTTTTTTTTATGTTTCTCGAGGTAGACATTCAATTATAGTTTGTTTTAA--ACAAAAATA
65 ATGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTA-AAAAATG
* * * *
18468 TAAAAATATTCAACCTAAAATCAATTACGAGATTATAAAACAA
129 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * *
18511 TTTAGAA-TGAGCAATAAGGCTTTTGAAGGAATGGGTGCCTATAAATAGACTTTTCTTCTCAATA
1 TTTA-AAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCT-AATG
* * * *
18575 AATG-ATATTTTCTACACGTTTCTCAAGGTAGGCATTCAATTATAGTCTATTTTAA-TAAAAAAA
64 AATGCCT-TTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACT-AAAAAA
* * *
18638 TGTAAAACAATTTAACTTAAAGTCAATTATGAGATTATAAAATAA
127 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * *
18683 TTTAAAGCGAGCAATAAGGCTTTTGAAGGACTCGGTGACTATAAATAGACTTTTCTTTTCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCT-AATGA
* * * * * *
18748 ATGACTTTTT-TGACACTTTTCTCGAGGCA-AGCATTTAATTATAGTCTATTTTAA-TGAAAAAT
65 ATGCCTTTTTCT-TCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTATTTTAACTAAAAAAT
* * * *
18810 ATAAAAAAATTTAACTTAAAATCGATTATGAGATTATAAAATCA
128 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
* * * * *
18854 TTTCAAGGGTGTAATAAGGCTTTTGAAGGAATGGGTAATTATAAATGGACTTTTCTTGCCT-ATG
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT--CTAATG
** * * * * * *
18918 AATATCGTTTTCTACACGTTCCTCAAGGTA-AGCATTCAATTATAGTCTCTTTTAACTATAAATA
64 AATGCCTTTTTCTTCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTATTTTAACTA-AAAAA
* *
18982 T-T-AAAAAATTTAACTTAAAATCAATTATGAGATTACAAAATAA
127 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
*
19025 TTTAAAGCGAGCAATAAGGCTTTTGAAGGAA
1 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
19056 NNNNNNNNNN
Statistics
Matches: 1448, Mismatches: 258, Indels: 72
0.81 0.15 0.04
Matches are distributed among these distances:
169 1 0.00
170 156 0.11
171 987 0.68
172 296 0.20
173 8 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (171 bp):
TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCTAATGAA
TGCCTTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACTAAAAAATGTA
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAA
Found at i:19667 original size:171 final size:168
Alignment explanation
Indices: 19433--19915 Score: 466
Period size: 171 Copynumber: 2.8 Consensus size: 168
19423 GTAGAGATTT
* * *
19433 AATTATAGTTTGCTTTAACCAAAAATGTAAAAATATTTAACTTAAAATTAATTATGT-GATTATA
1 AATTATAGTCTGTTTTAACCAAAAATGTAAAAA-ATTTAACTTAAAATCAATTAT-TAGATTATA
* *
19497 AAATAATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATGTGTGACTATAAATAAACTTTTCTTTT
64 AAATAA-TTAAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAAATAAACTTTTCTTCT
* * *
19562 TAATGAATGACTTTTTCTAAAGGTTTCTCAAGGGAGGCATTC
127 CAATGAATGACTTTTCCTAAAGGTTTCTCAAGAGAGGCATTC
** * *
19604 AATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAAATTAAAATCAATTATTAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTAAAA-AATTTAACTTAAAATCAATTATTAGATTATAA
* * * ** ** **
19669 AACTAATAAAAG-CACGTAATAAGGCTTCTGAAAAAATGGATGACTATAAATGGACTTTTCTTGN
65 AA-TAATTAAAGTGA-GTAATAAGGCTTTTGAAGGAATGG-TGACTATAAATAAACTTTTCTTCT
********** ** * *
19733 NNNNNNNNNCCTTTTCCTTCATGTTTCTCAAGATAGGCATTC
127 CAATGAATGACTTTTCCTAAAGGTTTCTCAAGAGAGGCATTC
* * * * *
19775 AATTACATTCTGTTTTAACCAAAAATATTAAAAAATTTAACTTATAATCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAAT-GTAAAAAATTTAACTTAAAATCAATTATTAGATTATAA
* *
19840 AACAACTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGCCTATAAATAAACTTTTCTTCTC
65 AATAA-TTAAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAAATAAACTTTTCTTCTC
*
19905 GATGAATGACT
128 AATGAATGACT
19916 CTTGAGGCAG
Statistics
Matches: 240, Mismatches: 63, Indels: 18
0.75 0.20 0.06
Matches are distributed among these distances:
170 5 0.02
171 224 0.93
172 11 0.05
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (168 bp):
AATTATAGTCTGTTTTAACCAAAAATGTAAAAAATTTAACTTAAAATCAATTATTAGATTATAAA
ATAATTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGTGACTATAAATAAACTTTTCTTCTCAAT
GAATGACTTTTCCTAAAGGTTTCTCAAGAGAGGCATTC
Found at i:23296 original size:171 final size:171
Alignment explanation
Indices: 22775--23520 Score: 562
Period size: 171 Copynumber: 4.4 Consensus size: 171
22765 NNNNNNNNNN
* * * * * * ** * *
22775 TTCATTAAAACAAACAATAATTGAATGCCTGC-CCTAGAAACTTTTAGAAAAAGTTATTCAATGA
1 TTCATTAAAACAGACTATAATTGAATGCTTGCTTCGAGAAACATAAAGAAAAAGGTATTC-ATTA
* * * * *
22839 G-AAGAAAAGTAC-ATTTATAATCACCAATTCCTTCAAAAGCCTTATTACACGCTTTAAATAGTT
65 GCAAGAAAAGT-CGATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATAGTT
* ********** * * *
22902 TTATAATCTTATANNNNNNNNNNAGTTGAATTTTTTTACACTT
129 TTATAATCTCATAATTAATTTTTAGCTGAATTATTTTACATTT
* * * ** *
22945 TTCATTAAAACAGACTATAATTTAATGCTTTCCAT-GAGAAATGTGTAA-AAAAA-GTCATTCAT
1 TTCATTAAAACAGACTATAATTGAATGC-TTGCTTCGAGAAACAT-AAAGAAAAAGGT-ATTCAT
* * * * * **
23007 TGAG-AAAAAAAGT-GCATTTATAGTCATCCATTCCTTCAAAAGTTTTATTACACGCTTTAAAT-
63 T-AGCAAGAAAAGTCG-ATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATA
* * * * ******
23069 GATTTTATAATCTTATAATTGATTTTTAGTTG-ATTTTTTTNNNNNNN
126 G-TTTTATAATCTCATAATTAATTTTTAGCTGAATTATTTT-ACATTT
*** * * *
23116 NNNATTAAAACAGACTATAATTGAATGTTTGCTTCAAGAAACATAAAGTAAAAGGTATTCATTAG
1 TTCATTAAAACAGACTATAATTGAATGCTTGCTTCGAGAAACATAAAGAAAAAGGTATTCATTAG
* * *
23181 TAAGAAAAGTCGATTTATAGTCGCCCATTCTTTTAGAAGCCTTATTACATGCTTTAAATAGTTTT
66 CAAGAAAAGTCGATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATAGTTTT
* *
23246 ATAATCTCATAATTAATTTTTGGCTGAATTGTTTTACATTT
131 ATAATCTCATAATTAATTTTTAGCTGAATTATTTTACATTT
* * * * * *
23287 TTCATTAAAACAGACTATGATTGAATGCCTTCCTT-GAGAAACATGAAGAAAAAGATATTAATTG
1 TTCATTAAAACAGACTATAATTGAATG-CTTGCTTCGAGAAACATAAAGAAAAAGGTATTCATTA
* * **
23351 GCAAGAAAAGTTGATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATGGTNN
65 GCAAGAAAAGTCGATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATAGTTT
********
23416 NNNNNNNNCATAATTAATTTTTAGCTGAATTATTTTACATTT
130 TATAATCTCATAATTAATTTTTAGCTGAATTATTTTACATTT
* *
23458 TTCATTAAAACAGACTATAATTGAATGCCTG-TCTCGAGAAACATAAAGAAAAAGGCATTCATT
1 TTCATTAAAACAGACTATAATTGAATGCTTGCT-TCGAGAAACATAAAGAAAAAGGTATTCATT
23521 GGNNNNNNNN
Statistics
Matches: 455, Mismatches: 102, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
169 1 0.00
170 48 0.11
171 388 0.85
172 18 0.04
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.36
Consensus pattern (171 bp):
TTCATTAAAACAGACTATAATTGAATGCTTGCTTCGAGAAACATAAAGAAAAAGGTATTCATTAG
CAAGAAAAGTCGATTTATAGTCACCCATTCTTTTAGAAGCCTTATTACACGCTTTAAATAGTTTT
ATAATCTCATAATTAATTTTTAGCTGAATTATTTTACATTT
Found at i:23928 original size:171 final size:170
Alignment explanation
Indices: 23728--24377 Score: 526
Period size: 171 Copynumber: 3.8 Consensus size: 170
23718 NNNNNTAACT
* * * *
23728 AAAAATGTAAAAAAATTGAACTAAAAATCAATTATGAGATTACAAAACCATTTAAAGCGAGTGAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACAATTTAAAGCGAGTAAT
*
23793 AAGGCTTTTGAAAGAATAAGTGACTATAAAT-GAAGTTTTCTCCTCAATGAATGACTTTTTTTAC
66 AAGGCTTTTGAAAGAATAAGTGACTATAAATAG-ACTTTTCT-CTCAATGAATGACTTTTTTTAC
* * ********** *
23857 ATGTTTCTTGAGGCAGGCATTCAATTANNNNNNNNNNTAATA
129 ATGTTTCTCGAGGTAGGCATTCAATTATAGTCTGTTTTAATG
* * *
23899 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGACATT-CTAAAACAAATTAAAGCGACTAA
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAC-AAAACAATTTAAAGCGAGTAA
* * ** * *
23963 AAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTAAC-CAATGAGTGCCTTTTTCTT
65 TAAGGCTTTTGAAAGAATAAGTGACTATAAATAGACTTTTCT--CTCAATGAATGACTTTTT-TT
* * **********
24027 -CATGTTTCTCGAGGTAGACATTTAATTATAGTNNNNNNNNNNG
127 ACATGTTTCTCGAGGTAGGCATTCAATTATAGTCTGTTTTAATG
* ** * ** *
24070 AAAAATGTAAAAAAATTCAACTTAAAATCAATTAAGAGAACACAAAAAAATTTAAAGTTAGCAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACAATTTAAAGCGAGTAAT
** **
24135 AAGG-TTCTT-AAAGGAATGGGTGACTA-AAATAGACTTTTCATGGCAATGAATGA-TTTTTTCT
66 AAGGCTT-TTGAAA-GAATAAGTGACTATAAATAGACTTTTC-TCTCAATGAATGACTTTTTT-T
* * *
24196 ATATGTTTCTCGAGGTAAGTATTCAATTATAGTCTGTTTTAATG
127 ACATGTTTCTCGAGGTAGGCATTCAATTATAGTCTGTTTTAATG
* * * ** * *
24240 AAAAATATAAAAAAATCTCAACTTAAAATCAATTATAAGATTATAAAACCGTTTAAAACGTGTAA
1 AAAAATGTAAAAAAAT-TCAACTTAAAATCAATTATGAGATTACAAAACAATTTAAAGCGAGTAA
* * * * *
24305 TTAGGCCTTTGAAGGAATAAGTGACTATAAAT-GAACTTTTCTTCTCAATGAATGAATTTTTCTA
65 TAAGGCTTTTGAAAGAATAAGTGACTATAAATAG-ACTTTTC-TCTCAATGAATGACTTTTTTTA
*
24369 CAAGTTTCT
128 CATGTTTCT
24378 NNNNNNNNNN
Statistics
Matches: 379, Mismatches: 83, Indels: 33
0.77 0.17 0.07
Matches are distributed among these distances:
168 1 0.00
169 6 0.02
170 69 0.18
171 259 0.68
172 39 0.10
173 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.32
Consensus pattern (170 bp):
AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACAATTTAAAGCGAGTAAT
AAGGCTTTTGAAAGAATAAGTGACTATAAATAGACTTTTCTCTCAATGAATGACTTTTTTTACAT
GTTTCTCGAGGTAGGCATTCAATTATAGTCTGTTTTAATG
Found at i:25048 original size:169 final size:160
Alignment explanation
Indices: 24833--25155 Score: 319
Period size: 169 Copynumber: 2.0 Consensus size: 160
24823 NNNNNNNNNN
* * * * *
24833 AAAATCAATTATGAGATTATAAAATCATTTAAAGGGTGTAATAAGGCTTTTAAAGGAATAAGTGA
1 AAAATCAATTATGAGATTATAAAACCACTTAAAGGATGTAATAAGGCTTTCAAAGGAATAAGCGA
*** * *
24898 CTGTAAATGGACTTTTCTTGCAAATGAATACCTTTTT-TTCATATTTCTTGA-GATAAACATTTA
66 CAAAAAATGGACTTTTCATGCAAATGAATACCTTTTTCTTCATATTTCTTGACG-TAAACATTCA
24961 ATTATAGTCTGTTTTAATGNNNNNNNNNNAAAAATCAACTT
130 ATTATAGTCTGTTTTAATG----------AAAAATCAACTT
* **
25002 AAAATCAATTATGAGATTATAAAACCACTT-AAGGCATGTAATAAGGCTTTCGAAGGAATGGGCG
1 AAAATCAATTATGAGATTATAAAACCACTTAAAGG-ATGTAATAAGGCTTTCAAAGGAATAAGCG
* * * * * **
25066 ACAAAAAATTGACTTTTCATGCCAATGAGTGCCTTTTTCTTCATGTTTCTTGACGTAGGCATTCA
65 ACAAAAAATGGACTTTTCATGCAAATGAATACCTTTTTCTTCATATTTCTTGACGTAAACATTCA
* *
25131 ATTATAGTTTGTTTTAATTAAAAAT
130 ATTATAGTCTGTTTTAATGAAAAAT
25156 ATAAAAAAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
160 6 0.05
168 4 0.03
169 81 0.63
170 37 0.29
171 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.36
Consensus pattern (160 bp):
AAAATCAATTATGAGATTATAAAACCACTTAAAGGATGTAATAAGGCTTTCAAAGGAATAAGCGA
CAAAAAATGGACTTTTCATGCAAATGAATACCTTTTTCTTCATATTTCTTGACGTAAACATTCAA
TTATAGTCTGTTTTAATGAAAAATCAACTT
Found at i:25220 original size:172 final size:171
Alignment explanation
Indices: 24990--25305 Score: 438
Period size: 172 Copynumber: 1.8 Consensus size: 171
24980 NNNNNNNNNN
*
24990 AAAAATCAACTTAAAATCAATTATGAGATTATAAAACCACTTAAGGCATGTAATAAGGCTTTCGA
1 AAAAATCAACTTAAAATCAATTATGAGATTATAAAACCACTTAAAGCATGTAATAAGGCTTTCGA
* * * *
25055 AGGAATGGGCGACAAAAAATTGACTTTTCATGCCAATGAGTGCCTTTTTCTTCATGTTTCTTGAC
66 AGGAATGGGCGACAAAAAATCGACATTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAC
*
25120 GTAGGCATTCAATTATAGTTTGTTTTAATTAAAAATATAAA
131 GTAGACATTCAATTATAGTTTGTTTTAATTAAAAATATAAA
* * *
25161 AAAAATTCAA-TTAAAAATTAATTATGAGATTATAAAA-TAGTTTAAAGCATGTAATAAGGCTTT
1 AAAAA-TCAACTT-AAAATCAATTATGAGATTATAAAACCA-CTTAAAGCATGTAATAAGGCTTT
* * * * * * *
25224 TGAAGGAATGGGTGACTATAAATCGACATTTCTTGCCAATGAATGTCTTTTTCTTTATGTTTCTC
63 CGAAGGAATGGGCGACAAAAAATCGACATTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTC
*
25289 GAGGTAGACATTCAATT
128 GACGTAGACATTCAATT
25306 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
171 8 0.06
172 117 0.94
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (171 bp):
AAAAATCAACTTAAAATCAATTATGAGATTATAAAACCACTTAAAGCATGTAATAAGGCTTTCGA
AGGAATGGGCGACAAAAAATCGACATTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAC
GTAGACATTCAATTATAGTTTGTTTTAATTAAAAATATAAA
Found at i:26912 original size:171 final size:171
Alignment explanation
Indices: 26612--27359 Score: 609
Period size: 171 Copynumber: 4.4 Consensus size: 171
26602 NNNNNNNNNN
* * *
26612 CCAATGAATGCCTTTTTCTTTATGTTTCTCGAGACAGGCATTCAATTATAGTCTATTTTAATGAA
1 CCAATGAATACCTTTTTCTTTATGTTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAA
* * * *
26677 AAATGTAAAATAATTCAGCTAAAAATTAATTAAGAGATTCTAAAACCATTTAAAGCGTGTAATAA
66 AAATGTAAAACAATTCAGCCAAAAATCAATTAAGAGATTATAAAACCATTTAAAGCGTGTAATAA
*
26742 GGCTTCTAAAGGAATGGGTGACTATAAATCAACTTTTCTTG
131 GGCTTCTAAAGGAATGGGTGACTATAAATCAACTTTTCTTA
* * * * *
26783 CCAATGAATATCTTTTTCTTCATGTTTCTCAAGGTAGGCATTCAATCATAGTCTGTTTTAATGAA
1 CCAATGAATACCTTTTTCTTTATGTTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAA
* * * **********
26848 AAATGTAAACCAATTCAGCCAAAAATCAATTATGAGATTATAAAACTANNNNNNNNNNGTAATAA
66 AAATGTAAAACAATTCAGCCAAAAATCAATTAAGAGATTATAAAACCATTTAAAGCGTGTAATAA
* *
26913 GGCTTTTAAAGGAATGGGTGACTATAAATCGACTTTTCTTA
131 GGCTTCTAAAGGAATGGGTGACTATAAATCAACTTTTCTTA
* *
26954 CCAATGAATACCTTTTACTTTATGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAAT-AN
1 CCAATGAATACCTTTTTCTTTATGTTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATGA-
******** * * *
27018 NNNNNNNNNAAA-AATTCAACTAAAAATCAATTATA-AGATTATAAAATCATTTAAAGCGTGTAA
65 -AAAATGTAAAACAATTCAGCCAAAAATCAATTA-AGAGATTATAAAACCATTTAAAGCGTGTAA
* * * * *
27081 TAAAGCTTTTGAAGGAATGGATGACTACAAATGC-ACTTTTCTT-
128 TAAGGCTTCTAAAGGAATGGGTGACTATAAAT-CAACTTTTCTTA
** * * *
27124 CTCAATGAATGA-CTTTTTCTACATGTTTCTC-ATGGAAAGCATTAAATTATAGTCTGTTTTAAT
1 C-CAATGAAT-ACCTTTTTCTTTATGTTTCTCGA-GGCAGGCATTCAATTATAGTCTGTTTTAAT
* * * * ** ********** * *
27187 GAAGAGTGTAAAAAAATTCAACTTAAAATCAATNNNNNNNNNNTAAAACTATTTAAAGCATGTAA
63 GAAAAATGTAAAACAATTCAGCCAAAAATCAATTAAGAGATTATAAAACCATTTAAAGCGTGTAA
* * * *
27252 TAAGGCTTTTGAAGGAATTGGTGATTATAAATGC-ACTTTTCTT-
128 TAAGGCTTCTAAAGGAATGGGTGACTATAAAT-CAACTTTTCTTA
* ** * * * *
27295 CTCATTGAATGA-CTTTTTCTAAAAGTTTCTAG-GGCAGGCATTCAATTATTGTTTGTTTTAATG
1 C-CAATGAAT-ACCTTTTTCTTTATGTTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATG
27358 AA
64 AA
27360 NNNNNNNNNN
Statistics
Matches: 461, Mismatches: 105, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
170 34 0.07
171 422 0.92
172 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.35
Consensus pattern (171 bp):
CCAATGAATACCTTTTTCTTTATGTTTCTCGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAA
AAATGTAAAACAATTCAGCCAAAAATCAATTAAGAGATTATAAAACCATTTAAAGCGTGTAATAA
GGCTTCTAAAGGAATGGGTGACTATAAATCAACTTTTCTTA
Found at i:27843 original size:171 final size:171
Alignment explanation
Indices: 27558--27865 Score: 424
Period size: 171 Copynumber: 1.8 Consensus size: 171
27548 TAAATGGACC
** * *
27558 TTTCTTGCCAACGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGGTATTCAATTATAGTTTGTTT
1 TTTCTTGCCAACGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTATTT
** * * * *
27623 TAATGAAAAATATAAAACAATTCAGCAAAAAATCAATTATGAGATTATAAAAATATTTAAATCGT
66 TAACCAAAAATAGAAAACAATTCAGCAAAAAATCAATTATGAGATTATAAAAACATTTAAAGCGA
27688 GTAATAAGGCTTTTGAAGGAATTGGTGACCATAAATCAACT
131 GTAATAAGGCTTTTGAAGGAATTGGTGACCATAAATCAACT
* *
27729 TTTCTTGCCAATGAATGCCTTTTTCTTTATGTTT-TATGAGGTAGACATTCAATTATAGTCTATT
1 TTTCTTGCCAACGAATGCCTTTTTCTTCATGTTTCT-TGAGGTAGACATTCAATTATAGTCTATT
* ** *
27793 TTAACCAAAAATGGAAAA-ATATT-AGACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
65 TTAACCAAAAATAGAAAACA-ATTCAG-CAAAAAATCAATTATGAGATTATAAAAACATTTAAAG
27856 CGAGTAATAA
128 CGAGTAATAA
27866 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
170 4 0.03
171 114 0.97
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (171 bp):
TTTCTTGCCAACGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTATTT
TAACCAAAAATAGAAAACAATTCAGCAAAAAATCAATTATGAGATTATAAAAACATTTAAAGCGA
GTAATAAGGCTTTTGAAGGAATTGGTGACCATAAATCAACT
Found at i:28299 original size:171 final size:172
Alignment explanation
Indices: 28003--29019 Score: 1006
Period size: 171 Copynumber: 6.0 Consensus size: 172
27993 NNNNNNNNNN
* **
28003 TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCTTTTGAAGGAATGGACGACTAA
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * * * ** * * * *
28068 AAATAGACTTTTCATGTCAATGAATGCCTTTTTCTACATATTTCTCAAAG-TAGACATTCAATTA
66 AAATAGACTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTTCTCGAGGCAAGTCATTCAATTA
* *
28132 TAGTCTAATTTAATTAAAATTGTAAAAAAATTCAACTAAAAA
131 TAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
* * *
28174 TCAATTATGAGATTATAAAACCATTTAAAGCGTCTAATAAGGCTTTTCAAGGAATGGGTGACTAT
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * * * * *
28239 AAATCGACTTTTGTTCTCAATCAATGACTTTTCCTATAGGTTCCTCAAGGCAAG-CATTCAATTA
66 AAATAGACTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTTCTCGAGGCAAGTCATTCAATTA
* * * ** *
28303 TAGTCTGTTTTAATGAAAAATGTAAAAAAGTTCAACTTTAAT
131 TAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
* *
28345 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCATTTGAAAGAATGGGTGACTAA
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * * * *
28410 AAATAGACTTTTCATGC-CAATCAATGCCTTTTTCT-TCATGTTTCTCGAGGC-AGCCATTCAAT
66 AAATAGACTTTTC-TTCTCAATGAATGACTTTTTCTAT-AGGTTTCTCGAGGCAAGTCATTCAAT
*
28472 TATAGTCTATTTTAATGAAAAA-GT-AAAAAATTCAACTAAAAA
129 TATAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
* * ********** * *
28514 TCAATTATGAGATCATAAAACTATTTAAAGCGTGTAATNNNNNNNNNNAAGGAATGAGTGACTAT
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * *
28579 AAATCA-ACTTTTCTTCTCAATGAATGACTTTTCCTATAGGTTTCTCGAGGCAGGTAATT-AATT
66 AAAT-AGACTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTTCTCGAGGCAAGTCATTCAATT
* * *
28642 ATAGTCTATTTTAATAAAAAATGTAAAAAAATTTAACTTAAAA
130 ATAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
*************** * * * * * **
28685 TCAATNNNNNNNNNNNNNNNCCTTTTAAGGCGTGTAATAAGGCCTTTGAAAGAATAGGCAACTAA
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * *
28750 AAATAGACTTTTCATGCT-AATGAAT-ACCTTTTTCT-TCATGTTTCTCGAGG-TAGTCATTCAA
66 AAATAGACTTTTC-TTCTCAATGAATGA-CTTTTTCTAT-AGGTTTCTCGAGGCAAGTCATTCAA
* *
28811 CTATAGTCTGTTTTAA-TAAAAATGTAAAAAAATTCAACTAAAAA
128 TTATAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
* * * * *
28855 TCAATTATGAGTTTATAAAACCATTTAAAGCATGTAATAAGACTTTTGAAGGAATGGGTCACTAT
1 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
* * *
28920 AAATCGACTTTTCCTCTCAATGAATGACTTTTTCTACAAGG-TTCTCGAGGCAAG-CATTCAATT
66 AAATAGACTTTTCTTCTCAATGAATGACTTTTTCTA-TAGGTTTCTCGAGGCAAGTCATTCAATT
*
28983 ATAGTCTATTTTAA-TAAAAATATAAAAAAATTCAACT
130 ATAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACT
29020 TAAANNNNNN
Statistics
Matches: 676, Mismatches: 150, Indels: 41
0.78 0.17 0.05
Matches are distributed among these distances:
168 2 0.00
169 129 0.19
170 165 0.24
171 373 0.55
172 7 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.33
Consensus pattern (172 bp):
TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTAA
AAATAGACTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTTCTCGAGGCAAGTCATTCAATTA
TAGTCTATTTTAATTAAAAATGTAAAAAAATTCAACTAAAAA
Found at i:28644 original size:340 final size:339
Alignment explanation
Indices: 28003--29023 Score: 1283
Period size: 340 Copynumber: 3.0 Consensus size: 339
27993 NNNNNNNNNN
* * *
28003 TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCTTTTGAAGGAATGGACGACTAA
1 TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCATTTGAAAGAATGGGCGACTAA
* * * * *
28068 AAATAGACTTTTCATGTCAATGAATGCCTTTTTCTACATATTTCTCAAAGTAGACATTCAATTAT
66 AAATAGACTTTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTAT
* *
28133 AGTCTAATTTAATTAAAATTGTAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCAT
131 AGTCTATTTTAA-TAAAA-AGTAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCAT
* * * *
28198 TTAAAGCGTCTAATAAGGCTTTTCAAGGAATGGGTGACTATAAATCGACTTTTGTTCTCAATCAA
194 TTAAAGCGTGTAATAAGACTTTTCAAGGAATGGGTGACTATAAATCGACTTTTCTTCTCAATGAA
* * *
28263 TGACTTTTCCTATAGGTTCCTCAAGGCAAGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAA
259 TGACTTTTCCTATAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAAT-AAAAATGTAA
* * *
28328 AAAAGTTCAACTTTAAT
323 AAAAATTCAACTTAAAA
* *
28345 TCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCATTTGAAAGAATGGGTGACTAA
1 TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCATTTGAAAGAATGGGCGACTAA
* * *
28410 AAATAGACTTTTCATGCCAATCAATGCCTTTTTCTTCATGTTTCTCGAGGCAGCCATTCAATTAT
66 AAATAGACTTTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTAT
* *
28475 AGTCTATTTTAATGAAAAAGT-AAAAAATTCAACTAAAAATCAATTATGAGATCATAAAACTATT
131 AGTCTATTTTAAT-AAAAAGTAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATT
********** * *
28539 TAAAGCGTGTAATNNNNNNNNNNAAGGAATGAGTGACTATAAATCAACTTTTCTTCTCAATGAAT
195 TAAAGCGTGTAATAAGACTTTTCAAGGAATGGGTGACTATAAATCGACTTTTCTTCTCAATGAAT
* *
28604 GACTTTTCCTATAGGTTTCTCGAGGCAGGTAATT-AATTATAGTCTATTTTAATAAAAAATGTAA
260 GACTTTTCCTATAGGTTTCTCGAGGCAAG-CATTCAATTATAGTCTATTTTAAT-AAAAATGTAA
*
28668 AAAAATTTAACTTAAAA
323 AAAAATTCAACTTAAAA
*************** * * * *
28685 TCAATNNNNNNNNNNNNNNNCCTTTTAAGGCGTGTAATAAGGCCTTTGAAAGAATAGGCAACTAA
1 TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCATTTGAAAGAATGGGCGACTAA
* * * *
28750 AAATAGACTTTTCATGCTAATGAATACCTTTTTCTTCATGTTTCTCGAGGTAGTCATTCAACTAT
66 AAATAGACTTTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTAT
* *
28815 AGTCTGTTTTAATAAAAATGTAAAAAAATTCAACTAAAAATCAATTATGAGTTTATAAAACCATT
131 AGTCTATTTTAATAAAAA-GTAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATT
* * * *
28880 TAAAGCATGTAATAAGACTTTTGAAGGAATGGGTCACTATAAATCGACTTTTCCTCTCAATGAAT
195 TAAAGCGTGTAATAAGACTTTTCAAGGAATGGGTGACTATAAATCGACTTTTCTTCTCAATGAAT
* * *
28945 GACTTTTTCTACAAGG-TTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATAAAAATATAAA
260 GACTTTTCCTA-TAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATAAAAATGTAAA
29009 AAAATTCAACTTAAA
324 AAAATTCAACTTAAA
29024 NNNNNNNNNN
Statistics
Matches: 579, Mismatches: 94, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
339 5 0.01
340 302 0.52
341 137 0.24
342 135 0.23
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.33
Consensus pattern (339 bp):
TCAATTATGAGATTATAAAACCATTTAAGGCGTGTAATAAGGCATTTGAAAGAATGGGCGACTAA
AAATAGACTTTTCATGCCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTAT
AGTCTATTTTAATAAAAAGTAAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATTT
AAAGCGTGTAATAAGACTTTTCAAGGAATGGGTGACTATAAATCGACTTTTCTTCTCAATGAATG
ACTTTTCCTATAGGTTTCTCGAGGCAAGCATTCAATTATAGTCTATTTTAATAAAAATGTAAAAA
AATTCAACTTAAAA
Found at i:30709 original size:171 final size:167
Alignment explanation
Indices: 30287--31065 Score: 620
Period size: 171 Copynumber: 4.6 Consensus size: 167
30277 ATGAAGAATG
* * * * **
30287 TAAAAAAATTTAACTTAAAATCAATTATGAGATTATACAACCGTTTAAAGCATGTAAT-ATGGCT
1 TAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGTGTGTAATGA-GGCT
* ** ** * * * **
30351 TTTAAAGGAACAGGTGACTCTAAATGGAC-TTTTCTTGCCAATGAATG-CTTTTTTGTTCATGTT
64 TTTGAAGGAATGGGTGACTAAAAAT-AACTTTTTC-TGTCAATGAATGTC-TTTTTCTTCACATT
* * **
30414 TCTCAAGGTAGGCATTCAAATATAGTCT-TTTTAATGAAAAATG
126 TCTCAAGGTAGACATTCAATTATAGTCTGTTTTAA--AAAAAAA
* * * * * * **********
30457 TAAAACAATTTAGC-TAAAAGTCAATTATGACATTATAAAACTATTTAAAGCGCGNNNNNNNNNN
1 TAAAACAATTCAACTTAAAA-TCAATTATGAGATTATAAAACCATTT-AAGTGTGTAATGAGGCT
* * ** **
30521 TTTGAAGGAATGGGTGACTATAAATCAACTTTTTCTGCCAATGAATACCTTTTTCTTCATGTTTC
64 TTTGAAGGAATGGGTGACTAAAAAT-AACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTC
* *******
30586 TCAAGGCA-ACCATTCAATTATAGTCTGTTTTAANNNNNNNNN
128 TCAAGGTAGA-CATTCAATTATAGTCTGTTTTAA--AAAAAAA
* * *
30628 NAAAACAATTCAACTTAAAATGAATTATGAGATTATAAAACCATTTAATGTGTGTAATGAGGGTT
1 TAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA-GTGTGTAATGAGGCTT
* *
30693 TTGAAGGAATGGGTGACTAAAAATAGACTTTTTATGTCAATAAATGTCTTTTTCTTCACATTTCT
65 TTGAAGGAATGGGTGACTAAAAATA-ACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTCT
* **
30758 TAAGGTAGACATTCAATTATAG-CTTGTTTTAATGAAAAATG
129 CAAGGTAGACATTCAATTATAGTC-TGTTTTAA--AAAAAAA
* * * * * *
30799 TAAAACAATTTAACTAAAAATCAATTATGAGAATATAAAATCATATAAAGTGTGTAATAAGGCTT
1 TAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT-TTAAGTGTGTAATGAGGCTT
** *
30864 TTGAAGGAATAAGTGACTATAAATTAACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTCT
65 TTGAAGGAATGGGTGACTA-AAAATAACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTCT
* * * *
30929 CGAGGTAGACATTCAATTACAGTTTGTTTTAATAAAAAA
129 CAAGGTAGACATTCAATTATAGTCTGTTTTAAAAAAAAA
* *
30968 TATAAACAAATTCAACTTGAAATCAATTAT-ATGATTATAAAACCATTTAAGACGTGTAATGAGG
1 TA-AAAC-AATTCAACTTAAAATCAATTATGA-GATTATAAAACCATTTAAG-TGTGTAATGAGG
31032 CTTTTGAAGGAATGGGTGACTAAAAATAGACTTT
62 CTTTTGAAGGAATGGGTGACTAAAAATA-ACTTT
31066 NNNNNNNNNN
Statistics
Matches: 484, Mismatches: 106, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
169 11 0.02
170 129 0.27
171 330 0.68
172 14 0.03
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (167 bp):
TAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAGTGTGTAATGAGGCTTT
TGAAGGAATGGGTGACTAAAAATAACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTCTCA
AGGTAGACATTCAATTATAGTCTGTTTTAAAAAAAAA
Found at i:30907 original size:342 final size:338
Alignment explanation
Indices: 30192--31065 Score: 839
Period size: 342 Copynumber: 2.6 Consensus size: 338
30182 NNNNNNNNTG
** * * * * ** *
30192 AGTGACTATAAATGGAC-TTTTCTTCTCAATGAATGA-CTTTTTCTACACGTTTTTTGAGGCAGG
1 AGTGACTATAAATCAACTTTTTCTGC-CAATGAAT-ACCTTTTTCTTCACATTTCTCAAGGCAGA
* * * * ** * *
30255 TATTCAATTATAGTGTGTTGTAATGAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGAT
64 CATTCAATTACAGTCTGTTTTAAT-AA-AAAATAAAACAATTCAACTTAAAATCAATTATGAGAT
* * * * ** ** *
30320 TATACAACCGTTTAAAGCATGTAAT-ATGGCTTTTAAAGGAACAGGTGACTCTAAATGGACTTTT
127 TATAAAACCATTT-AAGCGTGTAATGA-GGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTT
* * ** *
30384 CTTGCCAATGAATGCTTTTTTGTTCATGTTTCTCAAGGTAGGCATTCAAATATAGTCTTTTTAAT
190 CTTGCCAATAAATGCTTTTTTCTTCACATTTCTCAAGGTAGACATTCAAATATAGTCTTTTTAAT
* * * * ***
30449 GAAAAATGTAAAACAATTTAGCTAAAAGTCAATTATGACATTATAAAACTATTTAAAGCGCGNNN
255 GAAAAATGTAAAACAATTTAACTAAAAATCAATTATGACAATATAAAACTATATAAAGCGCGTAA
******* *
30514 NNNNNNNTTTGAAGGAATG
320 TAAGGCTTTTGAAGGAATA
* **
30533 GGTGACTATAAATCAACTTTTTCTGCCAATGAATACCTTTTTCTTCATGTTTCTCAAGGCA-ACC
1 AGTGACTATAAATCAACTTTTTCTGCCAATGAATACCTTTTTCTTCACATTTCTCAAGGCAGA-C
* ******** *
30597 ATTCAATTATAGTCTGTTTTAANNNNNNNNNNAAAACAATTCAACTTAAAATGAATTATGAGATT
65 ATTCAATTACAGTCTGTTTTAA--TAAAAAATAAAACAATTCAACTTAAAATCAATTATGAGATT
* *
30662 ATAAAACCATTTAATGTGTGTAATGAGGGTTTTGAAGGAATGGGTGACTAAAAATAGACTTTT-T
128 ATAAAACCATTTAA-GCGTGTAATGAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCT
* * *
30726 ATGTCAATAAATG-TCTTTTTCTTCACATTTCTTAAGGTAGACATTCAATTATAG-CTTGTTTTA
192 -TGCCAATAAATGCT-TTTTTCTTCACATTTCTCAAGGTAGACATTCAAATATAGTC-T-TTTTA
* * *
30789 ATGAAAAATGTAAAACAATTTAACTAAAAATCAATTATGAGAATATAAAA-TCATATAAAGTGTG
253 ATGAAAAATGTAAAACAATTTAACTAAAAATCAATTATGACAATATAAAACT-ATATAAAGCGCG
30853 TAATAAGGCTTTTGAAGGAATA
317 TAATAAGGCTTTTGAAGGAATA
* * ** * *
30875 AGTGACTATAAATTAACTTTTTCTGTCAATGAATGTCTTTTTCTTCACATTTCTCGAGGTAGACA
1 AGTGACTATAAATCAACTTTTTCTGCCAATGAATACCTTTTTCTTCACATTTCTCAAGGCAGACA
* *
30940 TTCAATTACAGTTTGTTTTAATAAAAAATATAAACAAATTCAACTTGAAATCAATTAT-ATGATT
66 TTCAATTACAGTCTGTTTTAATAAAAAATA-AAAC-AATTCAACTTAAAATCAATTATGA-GATT
31004 ATAAAACCATTTAAGACGTGTAATGAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTT
128 ATAAAACCATTTAAG-CGTGTAATGAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTT
31066 NNNNNNNNNN
Statistics
Matches: 432, Mismatches: 84, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
340 7 0.02
341 190 0.44
342 234 0.54
343 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.36
Consensus pattern (338 bp):
AGTGACTATAAATCAACTTTTTCTGCCAATGAATACCTTTTTCTTCACATTTCTCAAGGCAGACA
TTCAATTACAGTCTGTTTTAATAAAAAATAAAACAATTCAACTTAAAATCAATTATGAGATTATA
AAACCATTTAAGCGTGTAATGAGGCTTTTGAAGGAATGGGTGACTAAAAATAGACTTTTCTTGCC
AATAAATGCTTTTTTCTTCACATTTCTCAAGGTAGACATTCAAATATAGTCTTTTTAATGAAAAA
TGTAAAACAATTTAACTAAAAATCAATTATGACAATATAAAACTATATAAAGCGCGTAATAAGGC
TTTTGAAGGAATA
Found at i:33048 original size:171 final size:171
Alignment explanation
Indices: 32750--34047 Score: 703
Period size: 171 Copynumber: 7.6 Consensus size: 171
32740 NNNTAAATTA
* * *
32750 TTTTATGATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATCAAAACAGAGTATAA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAA
**
32815 TTGAATGTTGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGGTATGAAAAGTCTATTTTTAG
66 TTGAATGTTGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCTATTTTTAG
* *
32880 TCGTT-CATTCCTTCAAAAGCCGTATTGCACG-TTTTAAATGG
131 TC-TTGCATTCCTTCAAAAGCCGTATTACACGCCTTT-AATGG
* * *
32921 TTTTATAATCTCATAATTGATTTTTAGTTAAATGTTTTT-CTATTTTTCATTAAAACAGACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAC-ATTTTTCATTAAAACAGACTATA
** ********** *
32985 ATTGAATGTCT-ACCTTGAGAAATGTGAAGAANNNNNNNNNNATTGACATGAAAAGTTTATTTTT
65 ATTGAATGT-TGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCTATTTTT
*
33049 AGTCTTGCATTCCTTCAAAAGCCTTATTACACGCCTTTAATGG
129 AGTCTTGCATTCCTTCAAAAGCCGTATTACACGCCTTTAATGG
* * * * *
33092 TTTTATAATCTCATAATTAACTTTAAGTTGAATTTTTTTACATTTTTCATTAAAGCATACTATAG
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAA
* * * ** ** * * * * * *
33157 TTTATTGCTT-TCCTGGAGAAACCTGTAGAAAAA-GTCATTCTTTGAGAAGAAAAGTCCATTTAT
66 TTGAATG-TTGACCTCAAGAAATGTGAAGAAAAAGGT-ATTCATTGACATGAAAAGTCTATTTTT
** * *************
33220 AGTC-ACCAATTCCATCAAAAGCC-TNNNNNNNNNNNNNNAATGG
129 AGTCTTGC-ATTCCTTCAAAAGCCGT-ATTACACGCCTTTAATGG
* * *
33263 TTTTATAATCTCATAACTGATTTTAAGTTGAATTTTTTTACATTTTTTAATAAAATC-GACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAA-CAGACTATA
* * *
33327 ATT-AGATGTCT-ATCTCTAGAAATGTGAAGAAAAAGGTATTCATTGACAAGAAAAGT-TCATTT
65 ATTGA-ATGT-TGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCT-ATTT
** * * * *
33389 ACAGT-TAT-CTATTGCTTTAAAAGCCTTATTACAC-CCTTTAAATAG
127 TTAGTCT-TGC-ATTCCTTCAAAAGCCGTATTACACGCCTTT-AATGG
********** *
33434 TTTTATNNNNNNNNNNTTGATTTTAAGTT-AAGTTTTTTTACATTTTTCATTAAAACAAACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTTTTCATTAAAACAGACTATA
** * * * * *
33498 ATTGAATGGTTG-CCTCGTGAAACGT-ATAGAAAAA-GTCATTTATTGAGAAGAAAAGTCCATTT
65 ATTGAAT-GTTGACCTCAAGAAATGTGA-AGAAAAAGGT-ATTCATTGACATGAAAAGTCTATTT
* * * * * *
33560 ATAGTCACT-CAGTCCTTCAAAAGTCTTATTACAAG-CTTTAAATGG
127 TTAGTC-TTGCATTCCTTCAAAAGCCGTATTACACGCCTTT-AATGG
********** * ** *
33605 TTTTATAATCTCATNNNNNNNNNNATGTTGAATTTTTTTACATTTTTGGTTAAAATAGACTATAA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAA
* ** * ** * * * * *
33670 TTCAATGTCT-ACCTCAAGAAACATAAAGAAAAAGACATTCATTGGCAAGAAAATTCGATTTATA
66 TTGAATGT-TGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCTATTTTTA
*** * * *
33734 GTCACCCATTCCTTCAAAAACCTTATTACAC-ACTTTAAATGG
130 GTCTTGCATTCCTTCAAAAGCCGTATTACACGCCTTT-AATGG
* * * **
33776 TTTTATAATCTCATAATTAATTTTTAA-TTGAATTGTTTTTGCATTTTTCATTAAAACAAACTNN
1 TTTTATAATCTCATAATTGA-TTTTAAGTTGAATT-TTTTTACATTTTTCATTAAAACAGACTAT
******** * ** * * * * * *
33840 NNNNNNNNGCCT-ACCTCAAGAAACATGAAGAAAAAGGCATTCCTTGGCATAAAAAGTATAATTT
64 AATTGAATG-TTGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCTATTTT
* * * * *
33904 T-G--TTGCCCACTCTTTTAAAAGCCTTATTACACGCCTTAAATGG
128 TAGTCTTG--CATTCCTTCAAAAGCCGTATTACACGCCTTTAATGG
* *
33947 TTTTATAATCTCATAATTGATTTGAAGTT-AATTTTTTTTACATTTTCCATTAAAACAGACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTTTTCATTAAAACAGACTATA
* * * *
34011 ATTAAATGTTTATCTCGAGAAATGTGAA-AAAAAGGTA
65 ATTGAATGTTGACCTCAAGAAATGTGAAGAAAAAGGTA
34048 NNNNNNNNNN
Statistics
Matches: 840, Mismatches: 242, Indels: 92
0.72 0.21 0.08
Matches are distributed among these distances:
169 9 0.01
170 60 0.07
171 682 0.81
172 89 0.11
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.38
Consensus pattern (171 bp):
TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAA
TTGAATGTTGACCTCAAGAAATGTGAAGAAAAAGGTATTCATTGACATGAAAAGTCTATTTTTAG
TCTTGCATTCCTTCAAAAGCCGTATTACACGCCTTTAATGG
Found at i:33606 original size:342 final size:341
Alignment explanation
Indices: 32750--33837 Score: 921
Period size: 342 Copynumber: 3.2 Consensus size: 341
32740 NNNTAAATTA
* * * *
32750 TTTTATGATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATCAAAACAGAGTATAA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAAACTATAA
* * * * *
32815 TTGAAT-GTTGACCTCAAGAAATGTGA-AGAAAAAGGT-ATTCATTG-GTATGAAAAGTCTATTT
66 TTGAATGGTTG-CCTCGAGAAACGT-ATAGAAAAA-GTCATTTATTGAG-AAGAAAAGTCCATTT
* ** * * * * *
32876 TTAGTCGTTCATTCCTTCAAAAGCCGTATTGCACGTTTTAAATGGTTTTATAATCTCATAATTGA
127 ATAGTCACTCATTCCTTCAAAAGCCTTATTACAAGCTTTAAATGGTTTTATAATCTCATAACTGA
* * *
32941 TTTTTAGTTAAATGTTTTT-CTATTTTTCATTAAAA-CAGACTATAATT-GAATGTCTACCT-TG
192 TTTTAAGTTGAATTTTTTTAC-ATTTTTCATTAAAATC-GACTATAATTAG-ATGTCTACCTCT-
********** * * *
33002 AGAAATGTGAAGAANNNNNNNNNNATTGACATGAAAAGTTTATTTTTAGTCT-TGCATTCCTTCA
253 AGAAATGTGAAGAAAAAGACATTCATTGACAAGAAAAGTTCATTTATAGT-TAT-CATTCCTTCA
33066 AAAGCCTTATTACACGCCTTT-AATGG
316 AAAGCCTTATTACAC-CCTTTAAATGG
* * * * *
33092 TTTTATAATCTCATAATTAACTTTAAGTTGAATTTTTTTACATTTTTCATTAAAGCATACTATAG
1 TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAAACTATAA
* * * * * * *
33157 TTTATTGCTTTCCTGGAGAAACCTGTAGAAAAAGTCATTCT-TTGAGAAGAAAAGTCCATTTATA
66 TTGAATGGTTGCCTCGAGAAACGTATAGAAAAAGTCATT-TATTGAGAAGAAAAGTCCATTTATA
* **************
33221 GTCAC-CAATTCCATCAAAAGCCTNNNNNNNNNNNNNNAATGGTTTTATAATCTCATAACTGATT
130 GTCACTC-ATTCCTTCAAAAGCCTTATTACAAGCTTTAAATGGTTTTATAATCTCATAACTGATT
* * *
33285 TTAAGTTGAATTTTTTTACATTTTTTAATAAAATCGACTATAATTAGATGTCTATCTCTAGAAAT
194 TTAAGTTGAATTTTTTTACATTTTTCATTAAAATCGACTATAATTAGATGTCTACCTCTAGAAAT
** * * *
33350 GTGAAGAAAAAGGTATTCATTGACAAGAAAAGTTCATTTACAGTTATCTATTGCTTTAAAAGCCT
259 GTGAAGAAAAAGACATTCATTGACAAGAAAAGTTCATTTATAGTTATC-ATTCCTTCAAAAGCCT
*
33415 TATTACACCCTTTAAATAG
323 TATTACACCCTTTAAATGG
**********
33434 TTTTATNNNNNNNNNNTTGATTTTAAGTT-AAGTTTTTTTACATTTTTCATTAAAACAAACTATA
1 TTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTTTTCATTAAAACAAACTATA
*
33498 ATTGAATGGTTGCCTCGTGAAACGTATAGAAAAAGTCATTTATTGAGAAGAAAAGTCCATTTATA
65 ATTGAATGGTTGCCTCGAGAAACGTATAGAAAAAGTCATTTATTGAGAAGAAAAGTCCATTTATA
* * *********
33563 GTCACTCAGTCCTTCAAAAGTCTTATTACAAGCTTTAAATGGTTTTATAATCTCATNNNNNNNNN
130 GTCACTCATTCCTTCAAAAGCCTTATTACAAGCTTTAAATGGTTTTATAATCTCATAACTGATTT
* * ** * * *
33628 NATGTTGAATTTTTTTACATTTTTGGTTAAAATAGACTATAATTCA-ATGTCTACCTCAAGAAAC
195 TAAGTTGAATTTTTTTACATTTTTCATTAAAATCGACTATAATT-AGATGTCTACCTCTAGAAAT
* * * * * *
33692 ATAAAGAAAAAGACATTCATTGGCAAGAAAA-TTCGATTTATAGTCACCCATTCCTTCAAAAACC
259 GTGAAGAAAAAGACATTCATTGACAAGAAAAGTTC-ATTTATAGTTA-TCATTCCTTCAAAAGCC
*
33756 TTATTACACACTTTAAATGG
322 TTATTACACCCTTTAAATGG
* *
33776 TTTTATAATCTCATAATTAATTTTTAA-TTGAATTGTTTTTGCATTTTTCATTAAAACAAACT
1 TTTTATAATCTCATAATTGA-TTTTAAGTTGAATT-TTTTTACATTTTTCATTAAAACAAACT
33838 NNNNNNNNNN
Statistics
Matches: 578, Mismatches: 146, Indels: 43
0.75 0.19 0.06
Matches are distributed among these distances:
341 16 0.03
342 518 0.90
343 44 0.08
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.38
Consensus pattern (341 bp):
TTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTCATTAAAACAAACTATAA
TTGAATGGTTGCCTCGAGAAACGTATAGAAAAAGTCATTTATTGAGAAGAAAAGTCCATTTATAG
TCACTCATTCCTTCAAAAGCCTTATTACAAGCTTTAAATGGTTTTATAATCTCATAACTGATTTT
AAGTTGAATTTTTTTACATTTTTCATTAAAATCGACTATAATTAGATGTCTACCTCTAGAAATGT
GAAGAAAAAGACATTCATTGACAAGAAAAGTTCATTTATAGTTATCATTCCTTCAAAAGCCTTAT
TACACCCTTTAAATGG
Found at i:35123 original size:170 final size:170
Alignment explanation
Indices: 34676--35413 Score: 577
Period size: 171 Copynumber: 4.3 Consensus size: 170
34666 NNNNNNNNNN
* * * * * *
34676 TTATTACTCACTTTAAATTGTTTTATAAACTCATAACTGA-TTTTAAGTTGAATTTTTTTACATT
1 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAA-TTGAATTTTTTTATATT
* * * ** **
34740 TTTCAA-TAAAATC-GACTATAATTAAATGTCTATC-TCGAGAAATGTGAAGAAAAAGGTATTCA
65 TTT-AATTAAAA-CAAACAATAATTGAATG-C-ATCATCGAGAAACATGAAGAAAAAGACATTCA
* *
34802 TTGGCAAGAAAAGTCCATTTACACTCACAT-ATTCCTTT-AAAAGCC
126 TTGGCAAGAAAAGTCCATTTATAGTCAC-TCATT-CTTTCAAAAGCC
* ********** *
34847 TTATTACACCCTTTAAATGGTTTTATNNNNNNNNNNTTGA-TTTTAAGTTGAATTTTTTTACATT
1 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAA-TTGAATTTTTTTATATT
* * * * * * *
34911 TTTAATTAAAACAAATC-ATAATTAAATGCCTGCCTTGAGAAACGTGTAGAAAAAGTCATTCATT
65 TTTAATTAAAACAAA-CAATAATTGAATGCAT-CATCGAGAAACATGAAGAAAAAGACATTCATT
* *
34975 GAG-AAGAAACGTCCA-TTATAGTCACTCATTCTTTCAAAAGTC
128 G-GCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCC
**********
35017 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTNNNNNNNNNNTTTTTTATATTT
1 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAATTGAATTTTTTTATATTT
** * * * **
35082 TTGGTTAAAATAGACTATAATTGAATGTCTAT-ATCGAGAAACACAAAGAAAAAGACATTCATTG
66 TTAATTAAAACAAACAATAATTGAATG-C-ATCATCGAGAAACATGAAGAAAAAGACATTCATTG
** *
35146 GCAAGAAAAGTGGATTTATAGTCACCCATTCTTTCAAAAGCC
129 GCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCC
* * * *
35188 TTATTGCATGCTTTAAACGATTTTATAATCTCATAATT-AGTTTTTAATTGAATTTTTTTATATT
1 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGA-TTTTTAATTGAATTTTTTTATATT
* * ** * *
35252 TTTAATTAAAACAAACAATAATTGAATGCATGCCTCAAGAAACATGGCGAAAAAGGCATTCCTTG
65 TTTAATTAAAACAAACAATAATTGAATGCAT-CATCGAGAAACATGAAGAAAAAGACATTCATTG
* * * *
35317 GCATGAAAAGTCCATTTACAGTCACTTATTCCTTCAAAAGCC
129 GCAAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCC
* * *
35359 TTAGTACACGCCTTAAATGGTTTTATAATCTTATAATTGA--TTTAAGTTGAATTTT
1 TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAA-TTGAATTTT
35414 NNNNNNNNNN
Statistics
Matches: 442, Mismatches: 106, Indels: 39
0.75 0.18 0.07
Matches are distributed among these distances:
169 15 0.03
170 127 0.29
171 296 0.67
172 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (170 bp):
TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTTAATTGAATTTTTTTATATTT
TTAATTAAAACAAACAATAATTGAATGCATCATCGAGAAACATGAAGAAAAAGACATTCATTGGC
AAGAAAAGTCCATTTATAGTCACTCATTCTTTCAAAAGCC
Found at i:36495 original size:171 final size:167
Alignment explanation
Indices: 36058--36535 Score: 485
Period size: 171 Copynumber: 2.8 Consensus size: 167
36048 NNNNNNNNNN
* *
36058 AAAAACCTTATTGCTCGCTTTAAATTGTTTTATGATCTCATAATTGATTTTAAGCTGAATTTTTT
1 AAAAGCCTTATTGCTCGC-TTAAATTGTTTTATGATCTCATAATTGATTTTAAG-TGAATGTTTT
* * * *
36123 TATATTTTTCATTAAAAGAGACTAGAATTGAATGTCTACCTCAAGAAATGTTAAGAAAAAGGCAT
64 TACATTTTTCATTAAAAGAGACTATAATTGAATGTCTACCTGAA-AAATGTTAAGAAAAAGACAT
* * * * *
36188 TCATTGGTATAAAAAGTCTATTTTTAGTCGTCCATTCCTTC
128 TAATT-GTAAAAAAAGTCCATTTATAGTCCTCCATTCCTTC
* * * * * *
36229 AAAAGCCTTATTACACGCCTTTAATGGTTTTATAATCTTATAATTGATTTTAAGTTGAATGTTTT
1 AAAAGCCTTATTGCTCG-CTTAAATTGTTTTATGATCTCATAATTGATTTTAAG-TGAATGTTTT
* * * * ** *
36294 TACATTTTTCATAAAAACATACTGTAATTGAATACCTACCTTGAAAAATGTGT-AGAAAAAGTCA
64 TACATTTTTCATTAAAAGAGACTATAATTGAATGTCTACC-TGAAAAATGT-TAAGAAAAAGACA
*
36358 TTAATT-TAGAAGAAAAGTCCATTTATAGTCACT-CATTGCTTC
127 TTAATTGTA-AA-AAAAGTCCATTTATAGTC-CTCCATTCCTTC
*********
36400 AAAAGCCTTATTGCTCGCTTAAAATTGTTTTATGATCTCATAATTGATTTTAAGTNNNNNNNNNN
1 AAAAGCCTTATTGCTCGCTT-AAATTGTTTTATGATCTCATAATTGATTTTAAGT-GAATGTTTT
*
36465 TACATTTTTCATTAAAAGAGACTATAATTGAATGTCTACCATGAGAAATGTTAAGAAAAAGACAT
64 TACATTTTTCATTAAAAGAGACTATAATTGAATGTCTACC-TGAAAAATGTTAAGAAAAAGACAT
*
36530 TCATTG
128 TAATTG
36536 GCATGAAAAC
Statistics
Matches: 247, Mismatches: 50, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
169 2 0.01
170 6 0.02
171 233 0.94
172 6 0.02
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (167 bp):
AAAAGCCTTATTGCTCGCTTAAATTGTTTTATGATCTCATAATTGATTTTAAGTGAATGTTTTTA
CATTTTTCATTAAAAGAGACTATAATTGAATGTCTACCTGAAAAATGTTAAGAAAAAGACATTAA
TTGTAAAAAAAGTCCATTTATAGTCCTCCATTCCTTC
Found at i:37023 original size:171 final size:169
Alignment explanation
Indices: 36734--37934 Score: 715
Period size: 171 Copynumber: 7.1 Consensus size: 169
36724 AGAGTTATCA
* *
36734 TAGACATTCAAATATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAGC-TAAAAGTCAATTAT
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAA-TCAATTAT
* *
36798 GAGATTATAAAACTATTTAAAGCTTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATCAAC
65 GAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AAC
* **
36863 TTTTCTTGCCAATGAATGCATTTTTCTTCATGTTTCTCAAGG
129 TTTTCTTGTCAATGAATGC-TTTTTCTTCACATTTCTCAAGG
* ********** *
36905 CA-ACCATTCAATTATAGTCTGTTTTAANNNNNNNNNNAAAACAATTCAACTTAAAATGAATTAT
1 TAGA-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTAT
* * * * *
36969 GAGATTATAAAACCATTTAATGCGTGTAATGAGGGTTTTGAGGGAATGGGTGACTAAAAATAGAC
65 GAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATA-AC
* * * *
37034 TTTTCATGTCAATAAATGTCTTTTTCTTCACATTTCTTATGG
129 TTTTCTTGTCAATGAATG-CTTTTTCTTCACATTTCTCAAGG
* * * *
37076 TAGACATTCAATTATAGTTTGTTTTAATGAAAAATGTAAAAAAATTTAACTAAAAATCAATTATG
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
* * * ** *
37141 AGATTCTAAAATCATATAAAGCGTGTAATAAGGCTTTTGAAGGAATAAGTGATTATAAATTAACT
66 AGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAA-TAACT
* *
37206 TTT-TCTGTCAATGAATGTTTTTTTCTTCACATTTCTCGAGG
130 TTTCT-TGTCAATGAATG-CTTTTTCTTCACATTTCTCAAGG
* * * *
37247 TAGACATTCAATTACAGTCAGTTTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCAATTAT-
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
* ****************************** *
37310 ATGATTATAAAACTATTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGACTAAAAATAGAC
66 A-GATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATA-AC
*
37375 TTTTCATGTCAATGAATGTCTTTTTCTTCACATTTCT-AGAGG
129 TTTTCTTGTCAATGAATG-CTTTTTCTTCACATTTCTCA-AGG
* * * * * ***********
37417 TAGACATTTAATTATAGTCTATTTTAATAAAAAATGTAAAAAAATTTAACTTAANNNNNNNNNNN
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
* * * *
37482 AGATTATAAAACCATATAAAGCATGTAATAAGGCTTTTGAAGGAATGAGTGACTGTAAATGAACT
66 AGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AACT
* * * * **
37547 TTTCTTCTAAATTAATAACTTTTTCTAT-ATGTTTCTCAAGG
130 TTTCTTGTCAATGAAT-GCTTTTTCT-TCACATTTCTCAAGG
* ** * ************
37588 CAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAANNNNNNNNNNNNAAATCAATTATG
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
* * * ** ** * *
37653 AGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAACAATAAGTGACTATAAATGGAGT
66 AGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AACT
* **
37718 TTTCTTCTC-A--AA--CTTTTT-TT-ACATGTTTCTTGAGG
130 TTTCTTGTCAATGAATGCTTTTTCTTCACA--TTTCTCAAGG
* * * * * * *
37753 CAGGCATTTAATTATTGTCTGTTTT-ATAAAAAATGTAAAAAAATTCAACTTATAATCAATTATG
1 TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
* ** ** * * * * *
37817 AGGTTATAAAATAATTTAAAGCGACTAGTAAGGCTTTTGTAGAAATGGGTGACTGTAAATGGACT
66 AGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AACT
* ** **
37882 TTTCTTATCAAT-AAGTGCCTTTTTCTTCATGTTTCTTGAGG
130 TTTCTTGTCAATGAA-TG-CTTTTTCTTCACATTTCTCAAGG
37923 TAGACATTCAAT
1 TAGACATTCAAT
37935 NNNNNNNNNN
Statistics
Matches: 756, Mismatches: 247, Indels: 55
0.71 0.23 0.05
Matches are distributed among these distances:
163 2 0.00
164 83 0.11
165 37 0.05
166 2 0.00
168 2 0.00
169 3 0.00
170 145 0.19
171 468 0.62
172 14 0.02
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
TAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAACAATTCAACTTAAAATCAATTATG
AGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAACTT
TTCTTGTCAATGAATGCTTTTTCTTCACATTTCTCAAGG
Found at i:40933 original size:172 final size:173
Alignment explanation
Indices: 40639--41338 Score: 632
Period size: 172 Copynumber: 4.1 Consensus size: 173
40629 NNNNNNNNNN
* * **
40639 ATTACA-GCTTTAAATGGTTTTATAATCTCATAATTAATCTTAAGTT--GATTTTTTGTATTTTT
1 ATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAGATTTTTT-TACATTT
* * * * *
40701 TTCCATTAAAATAAACTATAATTGAAT-CTCTACCTAGAGAAACGTGTAGAAAAAGTCATTCATT
65 TT-CATTAAAACAGACTATAATTGAATGCTCTACCTCGAGAAACATATAGAAAAAGTCATTCATT
*
40765 GAGAAGAAAACTACATTTATAGTAACCCATTCCTTCAAAAGCCTT
129 GAGAAGAAAATTACATTTATAGTAACCCATTCCTTCAAAAGCCTT
* ** ** * *
40810 ATCACACATTTTAAATCATTTTATAATCTCATAATTGACTTTAAGTTGAGATTTTTTTATATTTT
1 ATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAGATTTTTTTACATTTT
*
40875 TCATTAAAACAGACTATAATTGAATGCT-TACCTCGAGAAACATATAGAAAAAGTCATTCATTTA
66 TCATTAAAACAGACTATAATTGAATGCTCTACCTCGAGAAACATATAGAAAAAGTCATTCATTGA
* * ** * *
40939 G-AGAAAATTCCATTTATAGTCACTTATTCTTTCAAAAGCTTT
131 GAAGAAAATTACATTTATAGTAACCCATTCCTTCAAAAGCCTT
* ********** *
40981 ATTACTCGCTTTAAATGGTNNNNNNNNNNCATAATTGATTTTAAGTTGA-ATCTTTTTACATTTT
1 ATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAGATTTTTTTACATTTT
** * * * * * *
41045 TGGTTCAAACAGACTATAATTGAATG-TTTACCTCAAGAAACATAAAGAAAAAGACATTTATTG-
66 TCATTAAAACAGACTATAATTGAATGCTCTACCTCGAGAAACATATAGAAAAAGTCATTCATTGA
41108 GCAAGAAAAGTTA-ATTTATAGTCAA-CCATTCCTTCAAAAGCCTT
131 G-AAGAAAA-TTACATTTATAGT-AACCCATTCCTTCAAAAGCCTT
********** ** *
41152 ATTACACGCTTTNNNNNNNNNNATAATCTCATAATTGATTTTAAGTTGATTTTTTTTTGCATTTT
1 ATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAGATTTTTTTACATTTT
* * * *
41217 TCATTAAAACAGACTATAATTGAATG-TCTGCCTCGAAAAACATGTAGAAAAAGTTATTCATTGA
66 TCATTAAAACAGACTATAATTGAATGCTCTACCTCGAGAAACATATAGAAAAAGTCATTCATTGA
* * * * ** * * *
41281 GAACAAAAGTCCATTTATAGTCACTTATTCTTTCTAAAGCCCT
131 GAAGAAAATTACATTTATAGTAACCCATTCCTTCAAAAGCCTT
*
41324 ATTACTCGCTTTAAA
1 ATTACACGCTTTAAA
41339 NNNNNNNNNN
Statistics
Matches: 418, Mismatches: 98, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
169 2 0.00
170 66 0.16
171 137 0.33
172 194 0.46
173 11 0.03
174 8 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.37
Consensus pattern (173 bp):
ATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAGATTTTTTTACATTTT
TCATTAAAACAGACTATAATTGAATGCTCTACCTCGAGAAACATATAGAAAAAGTCATTCATTGA
GAAGAAAATTACATTTATAGTAACCCATTCCTTCAAAAGCCTT
Found at i:42638 original size:171 final size:171
Alignment explanation
Indices: 41715--42648 Score: 716
Period size: 171 Copynumber: 5.5 Consensus size: 171
41705 NNNNNNNNNN
* * *
41715 CCCATTCCTTTAAAAGCTTTATTACACGCCTTAAATGGTTTTATAATTTCATAATTGATTTTAAG
1 CCCATTCCTTTAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
* * * * *
41780 TTAAATTCTTTTACATTTTTCATTAAAACAGACTATAATTGAAAGCCTGCCTCAAGAAACCTGTA
66 TTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACCTGAA
* *
41845 GAAAAAGTCATTCATTGAGAAGAAAAGTCCATTTATGGTCA
131 GAAAAAGTCATTCATTGAAAAGAAAAGTCCATTTATAGTCA
********** ** ** *
41886 CCCATTCCNNNNNNNNNNTTATTACTTGCTTTAAATTATTTTATAATCTCATAATTGATTGTAAG
1 CCCATTCCTTTAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
* * * * * ***
41951 TTGAATATTTTTACATTTTTTATTAAAATAGACTATAATTAAATGTCTACCTCAAGAATTGTGAA
66 TTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACCTGAA
** * * *
42016 GAAAAAGGT-ATTCATTGGCAAGAAAAGTTCATTTACAGTCT
131 GAAAAA-GTCATTCATTGAAAAGAAAAGTCCATTTATAGTCA
** * * *****
42057 CTTATTCTTTTAAAA-CCTTTATTACACCCTTTAAATGGTTTTATAATCTCATAATTGATNNNNN
1 CCCATTCCTTTAAAAGCC-TTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
***** * * * * *
42121 NNNNNA-TTTTTTACATTTTTCATTAAAACATACTATAATTGAATGCTTGCCTCAAGAAACATGT
65 GTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACCTGA
* * * *
42185 AGACAAAGTCATTCATTGAGAAA-AAAATTCTAATTATAGTCA
130 AGAAAAAGTCATTCATTGA-AAAGAAAAGTCCATTTATAGTCA
** * * * * **********
42227 GTCATT-CTTTCAAAAGCCTTATTGCTCGCTTTAAATTGTTTTATGATCTCATAANNNNNNNNNN
1 CCCATTCCTTT-AAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * * * ** * **
42291 GTTAAATATTTTTATATTTTTTATTAAAACAGACTATAATTGAATGTGTACCTCGAGAAATGTGA
65 GTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACCTGA
*** * * *
42356 AGAAAAAGAT-ATTCATTGGTTTA-AAAAGTCTATTTTTAGTCG
130 AGAAAAAG-TCATTCATT-GAAAAGAAAAGTCCATTTATAGTCA
* * **********
42398 CTCATTCCTTCAAAAGCCTTATTACACG-TCTTAAATGGTTTTATAATCTCATANNNNNNNNNNA
1 CCCATTCCTTTAAAAGCCTTATTACACGCT-TTAAATGGTTTTATAATCTCATAATTGATTTTAA
* * **
42462 GTTGAATTTTTTTACATTTTTCGTTAAAACAGACTATAATTAAAACCCTACCT-AGAGAAACCTG
65 GTTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCA-AGAAACCTG
*
42526 CAGAAAAAGTCATTCATTGAAAAGAAAAGTCCATTTATAGTCA
129 AAGAAAAAGTCATTCATTGAAAAGAAAAGTCCATTTATAGTCA
* * * *
42569 CCCATTTCTTTAAAAGTCTTATTACACGCTTTAAATAGTTTTATAATCTCATAATTGATTTTTAG
1 CCCATTCCTTTAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
42634 TTGAATTTTTTTACA
66 TTGAATTTTTTTACA
42649 NNNNNNNNNN
Statistics
Matches: 584, Mismatches: 164, Indels: 30
0.75 0.21 0.04
Matches are distributed among these distances:
169 5 0.01
170 122 0.21
171 449 0.77
172 8 0.01
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.38
Consensus pattern (171 bp):
CCCATTCCTTTAAAAGCCTTATTACACGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG
TTGAATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCCTACCTCAAGAAACCTGAA
GAAAAAGTCATTCATTGAAAAGAAAAGTCCATTTATAGTCA
Found at i:44134 original size:341 final size:325
Alignment explanation
Indices: 43497--44666 Score: 769
Period size: 341 Copynumber: 3.4 Consensus size: 325
43487 NNNNTGAAGG
* *
43497 AATGGGTGACTATAAATCGACTTTTCTTCTCAATGAATGACTTTTTCTGCAGGTTTCTCAAGGCA
1 AATGGGTGACTATAAATAGACTTTTCTTTTCAATGAATGAC-TTTTCTGCAGGTTTCTCAAGGCA
* * * * *****
43562 CGTATTTAATTATAGTCTATTTTATTGAAAAATATAAAAANNNNNNNNNNAAAATCAATTATGAG
65 GGT-TTTAATTATAGTCTGTTTTAATGAAAAATGTAAAAA-----AACTTAAAATCAATTATGAG
* * ** * * *
43627 ATTATAAAACCATTAAAGTA-GTGTAATAAGACTTTTGAAATAATGGACGACTAAAAATAAAATT
124 ATTATAAAACCATTTAAG-ACGTGTAATAAGGCTTTTGAAGGAATGGGCGACTAAAAATAGACTT
* * *
43691 TTCATA-CCAATGAATGTCTTTTTCTTCACATTTCTCGAGGTAGACCA-TCAATTATAGTCTNNN
188 TTTA-AGCCAATGAATATCTTTTTCTTCACATTTCTTGAGGTAGA-CATTCAATTATAGTCT---
* * * **
43754 NNNNNNNAAAATGTAAAAAAATTCAACTAAAAGTCAATTATAAGATTATAAAACTATTTAAAGTG
248 -------AAAATATAAAAAAATTCAACTAAAAGTCAATTATAAGATCATAAAACAATTTAAAGCA
* *
43819 TGTAATAAGACTTTTGAAAA
306 AGCAATAAGACTTTTGAAAA
* *
43839 AATGGGTGACTATAAATGGACTTTTCTTTTCAATGAATGACTTTTCTGCAGGTTTCTCCAGGCAG
1 AATGGGTGACTATAAATAGACTTTTCTTTTCAATGAATGACTTTTCTGCAGGTTTCTCAAGGCA-
* *****
43904 GGTTTTAATTATAGTCTGTTTTAACGAAAAATGTANNNNNNNNNNACTTAAAATCAATTATGAGA
65 GGTTTTAATTATAGTCTGTTTTAATGAAAAATGTA-----AAAAAACTTAAAATCAATTATGAGA
*
43969 TTATAAAATCATTTAAGACGTGTAATAAGGCTTTTGAAGGAATGGGCGACTAAAAATAGACTTTT
125 TTATAAAACCATTTAAGACGTGTAATAAGGCTTTTGAAGGAATGGGCGACTAAAAATAGACTTTT
44034 TAAGCCAATGAATATCTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCNNNNNNNN
190 TAAGCCAATGAATATCTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTC--------
**** * * *
44099 NNNNNNATATAAAAATATTTAACTTAAAA-TCAATTATGAGATCATAAAACAATTTAAAGCAAGC
247 --TAAAATATAAAAAAATTCAAC-TAAAAGTCAATTATAAGATCATAAAACAATTTAAAGCAAGC
*
44163 AATAAGACTTTTGAAAG
309 AATAAGACTTTTGAAAA
** * * * *
44180 AATGACTGACTATAAATAGAATTTT-TTTCTCAATGAATGACTTTTCCTACATGTTTCTTGAA-G
1 AATGGGTGACTATAAATAGACTTTTCTTT-TCAATGAATGACTTTT-CTGCAGGTTTC-TCAAGG
** * * *****
44243 CAAGCATTCAATTATAGTATGTTTTAATGAAAAATGTNNNNNNNNNNAACTTAAAATCAATTATG
63 C-AGGTTTTAATTATAGTCTGTTTTAATGAAAAATGT-----AAAAAAACTTAAAATCAATTATG
* * ** * **
44308 AGATTATAAAACCATTTGA-ACGGTGTAATAAAGG-TTTTAAAGGAATAAGAGACTGTAAAT-GA
122 AGATTATAAAACCATTTAAGAC-GTGTAAT-AAGGCTTTTGAAGGAATGGGCGACTAAAAATAG-
* * * *
44370 ACTTTTCT-TGCCAATGAATATCTTTTTTTTCACAATTCTTGAGGTAGACATTTAATTATAGTCT
184 ACTTTT-TAAGCCAATGAATATCTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTC-
* * * * *
44434 GTTTTAAAAAAAATGTAAAAATATTCAACTTACAA-TCAATTATGAGATTATAAAACAATTTAAA
247 ----T----AAAATATAAAAAAATTCAAC-TAAAAGTCAATTATAAGATCATAAAACAATTTAAA
********** * **
44498 GNNNNNNNNNNGGCTTTTGAAGG
303 GCAAGCAATAAGACTTTTGAAAA
* * ** ** *
44521 AATGGGTGACTATAAATAGATTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTTCTTGAGGTA
1 AATGGGTGACTATAAATAGACTTTTCTTTTCAATGAATGAC-TTTTCTGCAGGTTTCTCAAGGCA
* * *
44586 GGCTTTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTTAAAATCAGTTATGAA
65 GG-TTTTAATTATAGTCTGTTTTAATGAAAAATGT--AAAAA---AACTTAAAATCAATTATGAG
44651 ATTATAAAACCATTTA
124 ATTATAAAACCATTTA
44667 NNNNNNNNNN
Statistics
Matches: 668, Mismatches: 116, Indels: 89
0.77 0.13 0.10
Matches are distributed among these distances:
340 11 0.02
341 435 0.65
342 214 0.32
343 8 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (325 bp):
AATGGGTGACTATAAATAGACTTTTCTTTTCAATGAATGACTTTTCTGCAGGTTTCTCAAGGCAG
GTTTTAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAACTTAAAATCAATTATGAGATTATAA
AACCATTTAAGACGTGTAATAAGGCTTTTGAAGGAATGGGCGACTAAAAATAGACTTTTTAAGCC
AATGAATATCTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTAAAATATAAAAAA
ATTCAACTAAAAGTCAATTATAAGATCATAAAACAATTTAAAGCAAGCAATAAGACTTTTGAAAA
Found at i:44523 original size:170 final size:161
Alignment explanation
Indices: 44342--44666 Score: 311
Period size: 170 Copynumber: 2.0 Consensus size: 161
44332 GTAATAAAGG
* *
44342 TTTTAAAGGAATAAGAGACTGTAAAT-GAACTTTTCTTGC-CAATGAAT-ATCTTTTT-TTTCAC
1 TTTTAAAGGAATAAGAGACTATAAATAG-ACTTTTCTT-CTCAATGAATGA-CTTTTTCTAT-AC
*
44403 AATTCTTGAGGTAGACATTT-AATTATAGTCTGTTTTAA-AAAAAATGTAAAAATATTCAACTTA
62 AATTCTTGAGGTAGAC-TTTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTA
* *
44466 CAATCAATTATGAGATTATAAAACAATTTAAAGNNNNNNNNNNGGC
126 AAATCAATTATGAAATTATAAAACAATTTAAAG----------GGC
* ** * * ***
44512 TTTTGAAGGAATGGGTGACTATAAATAGATTTTTCTTCTCAATGAATGACTTTTTCTATAGGTTT
1 TTTTAAAGGAATAAGAGACTATAAATAGACTTTTCTTCTCAATGAATGACTTTTTCTATACAATT
* * *
44577 CTTGAGGTAGGCTTTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTTAAAATC
66 CTTGAGGTAGACTTTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATC
* *
44642 AGTTATGAAATTATAAAACCATTTA
131 AATTATGAAATTATAAAACAATTTA
44667 NNNNNNNNNN
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
169 4 0.03
170 75 0.57
171 52 0.40
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.37
Consensus pattern (161 bp):
TTTTAAAGGAATAAGAGACTATAAATAGACTTTTCTTCTCAATGAATGACTTTTTCTATACAATT
CTTGAGGTAGACTTTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATC
AATTATGAAATTATAAAACAATTTAAAGGGC
Found at i:45460 original size:171 final size:171
Alignment explanation
Indices: 45282--45645 Score: 471
Period size: 172 Copynumber: 2.1 Consensus size: 171
45272 NNNNNNNNNN
* *
45282 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAAGTGACTCTAAATGGAATT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAAGTGACTATAAACGGAATT
* *
45347 TTC-TCTGAATGAATGACTTTTTCTACACGTTTCTCGAAATAGACATTCAATTATAGTCTGTTTT
66 TTCTTCTCAATGAATGACTTTTTCTACACGTTTCTCGAAATAGACATTCAATTATAGTCTATTTT
*
45411 AAT-AAAAAATATAAAAAAATCTCAACTTAAAATCAATTATGA
131 AATGAAAAAA-ATAAAAAAA-ATCAACTTAAAATCAATTATGA
** * * * * ** * *
45453 GATTATAAAATGATTTAAAACGTGTGATAAGGCTTTTGAAGGAATGGGTGACTATAAACGTACTT
1 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAAGTGACTATAAACGGAATT
* **** * *
45518 TTCTTCTCAATGAATTACTTTTTCTACACGTTTCTCTTTGTAGAGATTCAATTATAGTTTATTTT
66 TTCTTCTCAATGAATGACTTTTTCTACACGTTTCTCGAAATAGACATTCAATTATAGTCTATTTT
* *
45583 AATGGAAAAAAATAAAAAAAATCAACTTAAGATTAATTATGA
131 AAT-GAAAAAAATAAAAAAAATCAACTTAAAATCAATTATGA
45625 GATTATAAAACCATTTAAAGC
1 GATTATAAAACCATTTAAAGC
45646 TGTAATNNNN
Statistics
Matches: 163, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
171 56 0.34
172 92 0.56
173 9 0.06
174 6 0.04
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (171 bp):
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAAGTGACTATAAACGGAATT
TTCTTCTCAATGAATGACTTTTTCTACACGTTTCTCGAAATAGACATTCAATTATAGTCTATTTT
AATGAAAAAAATAAAAAAAATCAACTTAAAATCAATTATGA
Found at i:46372 original size:171 final size:170
Alignment explanation
Indices: 46138--46875 Score: 576
Period size: 171 Copynumber: 4.3 Consensus size: 170
46128 TTGAAGCAGG
* * ** * *
46138 CATTCAATTATAGTCTGTTTTAATGAAAATTGTAAAGCAATTCAACTAAAAATCAATTATGAGAT
1 CATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATCAACTATGAGAT
*
46203 TATAAAACCATTTATAGC-AGGTAATAGGGTATTTTAAGGAATGAGTGACTATAAATCGACTTTT
66 TATAAAACCATTTA-AGCGA-GTAATAGGGTATTTGAAGGAATGAGTGACTATAAATCGACTTTT
* * *
46267 CTTGTCAACGAATAACTTGTTCATTATATTTCTCAAGGTAGA
129 CTTGTCAATGAATGACTTGTTCTTTATATTTCTCAAGGTAGA
* * * *
46309 CAGTCAATTATAGTCCGTTTTAATCAAAAATGTAAAAAAATTAAACTTAAAATTAACTATGAGAT
1 CATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATCAACTATGAGAT
* * * * * *
46374 TATAAAACCATTTAATGTGAGTAATAAGGCT-TTAGAAAGAATAAGTGACTATAAATGGACTTTT
66 TATAAAACCATTTAA-GCGAGTAAT-AGGGTATTTGAAGGAATGAGTGACTATAAATCGACTTTT
* * * * * *
46438 GTTCTCCATGAATGAGTT-TT-TTTACACGTTTCTCAAGGTAGG
129 CTTGTCAATGAATGACTTGTTCTTTATA--TTTCTCAAGGTAGA
* ** **********
46480 CATTCAATTATAGTCTGTTTTAATAAAAAACATAAAAAAATTCAACTTANNNNNNNNNNTGAGAT
1 CATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATCAACTATGAGAT
* * * * *
46545 TATAAAGCCATTTAAAGCGTGTAATAAGGCATTTGAAGGAATGGGTGACTATAAATCGACTTTTC
66 TATAAAACCATTT-AAGCGAGTAATAGGGTATTTGAAGGAATGAGTGACTATAAATCGACTTTTC
* * *
46610 TTGCCAATGAATGCCTTGTTCTTTATATTTCTCAAAGTAGA
130 TTGTCAATGAATGACTTGTTCTTTATATTTCTCAAGGTAGA
* * * *********
46651 TATTTAATTATAGTCTGTTTTAACCAAAAATGNNNNNNNNNNT-AACTTAAAATCAACTATGAGA
1 CATTCAATTATAGTCTGTTTTAATCAAAAATG-TAAAAAAATTCAACTTAAAATCAACTATGAGA
* * * * ** * * *
46715 TTATAAAACTATTTAATGTGAGTAATAAGGT-TTGAGAAAAAATAAGTGACTCTAAATGGACTTT
65 TTATAAAACCATTTAA-GCGAGTAATAGGGTATT-TGAAGGAATGAGTGACTATAAATCGACTTT
* * * ** ** * *
46779 TGC-TCTCCATGAATGACTTTTTCTACACGTTGCT-AGAGGCA-A
128 T-CTTGTCAATGAATGACTTGTTCTTTATATTTCTCA-AGGTAGA
* * *
46821 GCATTCAATTATAATCTTTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATC
1 -CATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATC
46876 NNNNNNNNNN
Statistics
Matches: 425, Mismatches: 126, Indels: 32
0.73 0.22 0.05
Matches are distributed among these distances:
169 4 0.01
170 12 0.03
171 393 0.92
172 11 0.03
173 5 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
CATTCAATTATAGTCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATCAACTATGAGAT
TATAAAACCATTTAAGCGAGTAATAGGGTATTTGAAGGAATGAGTGACTATAAATCGACTTTTCT
TGTCAATGAATGACTTGTTCTTTATATTTCTCAAGGTAGA
Found at i:46662 original size:342 final size:332
Alignment explanation
Indices: 46185--46870 Score: 826
Period size: 342 Copynumber: 2.0 Consensus size: 332
46175 CAATTCAACT
* * * *
46185 AAAAA-TCAA-TTATGAGATTATAAAACCATTTATAGCAGGTAATAGGGTATTTTAAGGAATGAG
1 AAAAATTCAACTTATGAGATTATAAAACCATTTAAAGCAGGTAATAAGGCATTTGAAGGAATGAG
* *
46248 TGACTATAAATCGACTTTTCTTGTCAACGAATAACTTGTTCATTATATTTCTCAAGGTAGACAGT
66 TGACTATAAATCGACTTTTCTTGCCAACGAATAACTTGTTCATTATATTTCTCAAAGTAGACAGT
* *
46313 CAATTATAGTCCGTTTTAATCAAAAATG-TAAAAAAATTAAACTTAAAATTAACTATGAGATTAT
131 CAATTATAGTCCGTTTTAACCAAAAATGATAAAAAAATT-AACTTAAAATCAACTATGAGATTAT
* *
46377 AAAACCATTTAATGTGAGTAATAAGGCTTT-AGAAAGAATAAGTGACTATAAATGGACTTTTGTT
195 AAAACCATTTAATGTGAGTAATAAGG-TTTGAGAAAAAATAAGTGACTATAAATGGACTTTTGCT
* * * * * *
46441 CTCCATGAATGAGTTTTTTTACACGTTTCTCA-AGGTAGGCATTCAATTATAGTCTGTTTTAATA
259 CTCCATGAATGACTTTTTCTACACGTTGCT-AGAGGCAAGCATTCAATTATAATCTGTTTTAATA
46505 AAAAACATAA
323 AAAAACATAA
*
46515 AAAAATTCAACTTANNNNNNNNNNTGAGATTATAAAGCCATTTAAAGC-GTGTAATAAGGCATTT
1 AAAAATTCAACTTA----------TGAGATTATAAAACCATTTAAAGCAG-GTAATAAGGCATTT
* * ** *
46579 GAAGGAATGGGTGACTATAAATCGACTTTTCTTGCCAATGAATGCCTTGTTCTTTATATTTCTCA
55 GAAGGAATGAGTGACTATAAATCGACTTTTCTTGCCAACGAATAACTTGTTCATTATATTTCTCA
* * * * **********
46644 AAGTAGATATTTAATTATAGTCTGTTTTAACCAAAAATGNNNNNNNNNNTAACTTAAAATCAACT
120 AAGTAGACAGTCAATTATAGTCCGTTTTAACCAAAAATGATAAAAAAATTAACTTAAAATCAACT
* *
46709 ATGAGATTATAAAACTATTTAATGTGAGTAATAAGGTTTGAGAAAAAATAAGTGACTCTAAATGG
185 ATGAGATTATAAAACCATTTAATGTGAGTAATAAGGTTTGAGAAAAAATAAGTGACTATAAATGG
*
46774 ACTTTTGCTCTCCATGAATGACTTTTTCTACACGTTGCTAGAGGCAAGCATTCAATTATAATCTT
250 ACTTTTGCTCTCCATGAATGACTTTTTCTACACGTTGCTAGAGGCAAGCATTCAATTATAATCTG
* **
46839 TTTTAATGAAAAATGTAA
315 TTTTAATAAAAAACATAA
46857 AAAAATTCAACTTA
1 AAAAATTCAACTTA
46871 AAATCNNNNN
Statistics
Matches: 299, Mismatches: 41, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
330 5 0.02
331 4 0.01
332 3 0.01
341 5 0.02
342 281 0.94
343 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.34
Consensus pattern (332 bp):
AAAAATTCAACTTATGAGATTATAAAACCATTTAAAGCAGGTAATAAGGCATTTGAAGGAATGAG
TGACTATAAATCGACTTTTCTTGCCAACGAATAACTTGTTCATTATATTTCTCAAAGTAGACAGT
CAATTATAGTCCGTTTTAACCAAAAATGATAAAAAAATTAACTTAAAATCAACTATGAGATTATA
AAACCATTTAATGTGAGTAATAAGGTTTGAGAAAAAATAAGTGACTATAAATGGACTTTTGCTCT
CCATGAATGACTTTTTCTACACGTTGCTAGAGGCAAGCATTCAATTATAATCTGTTTTAATAAAA
AACATAA
Found at i:47403 original size:171 final size:170
Alignment explanation
Indices: 47111--47618 Score: 511
Period size: 171 Copynumber: 3.0 Consensus size: 170
47101 NNNNNNNNTT
* ** *
47111 CAACTTAAAATCAATTAATAGATTATAAAACCATTTAAAGCGAGTAATAAGG-TTTTAGAAAGAA
1 CAACTAAAAATCAATTACGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTT-GAAGGAA
*** * * * * **
47175 TAAATGACTATAAATGGA-TTTTTGTTCTCCATGAATGACTTTTTCTACATGTTTCTCGTTGCAG
64 TGGGTGACTATAAATAGACTTTTT-TAC-CAATGAATGACTTTTTCTTCATGTTTCTCGAGGCAG
*
47239 ACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAC-ATT
127 ACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAACGATG
* * ************
47282 TAACTTAANNNNNNNNNNNNGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
1 CAACTAAAAATCAATTACGAGATTATAAAAC-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
* * * ** *
47347 GGGTGACTAAAAATAAACTTTTTATACCAATGAATGTCTTTTTCTTCACATTTCTCGAGGCAAAC
65 GGGTGACTATAAATAGACTTTTT-TACCAATGAATGACTTTTTCTTCATGTTTCTCGAGGCAGAC
* *
47412 ATTCAATTATAGTCTATTTTAATGAAAAATG-CAAAACGATG
129 ATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAACGATG
* * *
47453 CAGCTAAAAATCAATTACGAGATTATAAAAGCATTCAAAGCGTGTAATAAGGCTTTTGAAGGAAT
1 CAACTAAAAATCAATTACGAGATTATAAAA-CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
* * * * * *
47518 GGGTGACTATAAATCGACTTTCTTGCCAAAGAATGCCTTTTTCTTCATGTTTCTCGAGGCAGGCA
65 GGGTGACTATAAATAGACTTTTTTACCAATGAATGACTTTTTCTTCATGTTTCTCGAGGCAGACA
*
47583 TTCAATTATAATCTGTTTTAATGAAAAATGTAAAAA
130 TTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
47619 AATTCATAAA
Statistics
Matches: 267, Mismatches: 64, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
170 69 0.26
171 186 0.70
172 12 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.33
Consensus pattern (170 bp):
CAACTAAAAATCAATTACGAGATTATAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG
GGTGACTATAAATAGACTTTTTTACCAATGAATGACTTTTTCTTCATGTTTCTCGAGGCAGACAT
TCAATTATAGTCTGTTTTAATGAAAAATGTAAAAACGATG
Found at i:47753 original size:148 final size:147
Alignment explanation
Indices: 47498--47770 Score: 372
Period size: 148 Copynumber: 1.9 Consensus size: 147
47488 CAAAGCGTGT
* ** * *
47498 AATAAGGCTTTTGAAGGAATGGGTGACTATAAATCGACTTTCTTGCCAAAGAATGCCTTTTTCTT
1 AATAAGGCTTTTAAAGGAATAAGTGACTATAAATCGACTTTCTTCCCAAAGAATGCATTTTTCTT
* *
47563 CATGTTTCTCGAGGCAGGCATTCAATTATAATCTGTTTTAATGAAAAATGTAAAAAAATTCATAA
66 CATGTTTCTCAAGGCAGGCATTCAATTATAATCTGTTGTAATGAAAAATGTAAAAAAATTCATAA
47628 AATAATTTAAAACGAGC
131 AATAATTTAAAACGAGC
*
47645 AATAAGGCTTTTAAAGGAATAAGTGACTATAAAT-GAACTTTTCTTCCCAATGAATG-ATATTTT
1 AATAAGGCTTTTAAAGGAATAAGTGACTATAAATCG-AC-TTTCTTCCCAAAGAATGCAT-TTTT
* * * * *
47708 -TTATATGTTTCTCAAGGTAGGTATTTAATTATAGTCTGTTGTAATGAAAAATGTAAAAAAATT
63 CTT-CATGTTTCTCAAGGCAGGCATTCAATTATAATCTGTTGTAATGAAAAATGTAAAAAAATT
47771 TAACTTAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
146 1 0.01
147 36 0.33
148 72 0.66
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (147 bp):
AATAAGGCTTTTAAAGGAATAAGTGACTATAAATCGACTTTCTTCCCAAAGAATGCATTTTTCTT
CATGTTTCTCAAGGCAGGCATTCAATTATAATCTGTTGTAATGAAAAATGTAAAAAAATTCATAA
AATAATTTAAAACGAGC
Found at i:48203 original size:170 final size:171
Alignment explanation
Indices: 47915--48831 Score: 855
Period size: 170 Copynumber: 5.4 Consensus size: 171
47905 NNNNNNNATG
* **
47915 CCTTTTTCTTCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
1 CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
* * * ***********
47980 CAATGCAGCAAAAAATCAATTATGAGATTATAAAACNNNNNNNNNNATGTAATAAGGCTTTTGAA
66 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
* *
48045 GGAATGACG-GACTATAAATTGACTTTT-TTGTCAATGAAT
131 GGAATGAGGTGACTATAAATTGACTTTTCTTATCAATGAAT
* * * * * *
48084 CCCTTTTTTTTCATGTTTCTTGAGGCAGGCATTTAATTATAGTCTGTTTTAATGAAAAATATAAA
1 -CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAA
* *
48149 AAAATTCAGCTAAAAATCAATTATGAGATTATAAAACTATTTAAAACGTGTAATAAGGCTTTTGA
65 AAAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGA
* *
48214 AGGAAT-AGGTGACTATAAATCGACTTTTCTTACCAATGAAT
130 AGGAATGAGGTGACTATAAATTGACTTTTCTTATCAATGAAT
* * * * ** *
48255 GCTTTTTTTTTATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTATAA
1 CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
********** * * *
48320 ANNNNNNNNNNAAAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAGTGAGGCTTTTGAA
66 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
* * * *
48385 GGAATG-GGTGACTATAAATAT-ACTTTTCATCTTAATAAAT
131 GGAATGAGGTGACTATAAAT-TGACTTTTCTTATCAATGAAT
** * * * * *
48425 GATTTTTTTACACATTTCTCGAGGTATACATTAAATTATAGTTTGTTTTAATGAAAAATGTAAAA
1 CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
* * ********** * *
48490 AAATTCAACTTAAAATNNNNNNNNNNATTATAAAACCATTTAAAGGGTGTAATAAGGCTTTTAAA
66 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
* * * *
48555 GGAAT-AGGTGGCTGTACATGGACTTTTCTTATCAATGAAT
131 GGAATGAGGTGACTATAAATTGACTTTTCTTATCAATGAAT
* * * * * * **
48595 ACCTTTTTCTTCATATTTCTCAAGATAAACATTCAATTATAGCCTATTTTAAT-AAAAAAATACA
1 -CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTA-A
* *
48659 AACAAATTCAGCTAAAAATCAATTATGAGGTTATAAAACCATTTAAAGCGTGTAATAAGGTTTTT
64 AA-AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTT
* * *
48724 GAAGGAGTG-GGTGACTATGAATTAACTTTTCTTA-CAAATGAATT
128 GAAGGAATGAGGTGACTATAAATTGACTTTTCTTATC-AATGAA-T
* *
48768 CCTTTTTCTAT-ATATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAA
1 CCTTTTT-TTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAA
48832 NNNNNNNNNN
Statistics
Matches: 588, Mismatches: 145, Indels: 26
0.77 0.19 0.03
Matches are distributed among these distances:
169 2 0.00
170 401 0.68
171 54 0.09
172 122 0.21
173 9 0.02
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.36
Consensus pattern (171 bp):
CCTTTTTTTTCATATTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
GGAATGAGGTGACTATAAATTGACTTTTCTTATCAATGAAT
Found at i:49040 original size:171 final size:170
Alignment explanation
Indices: 47916--49058 Score: 832
Period size: 170 Copynumber: 6.7 Consensus size: 170
47906 NNNNNNATGC
*
47916 CTTTTTCT-TCATGCTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
1 CTTTTTCTAT-ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
* * * ***********
47980 CAATGCAGCAAAAAATCAATTATGAGATTATAAAACNNNNNNNNNNATGTAATAAGGCTTTTGAA
65 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
* * * **
48045 GGAATGACG-GACTATAAATTGACTTTT-TTGTCAATGAATCC
130 GGAAT-AGGTGACTATAAATGGACTTTTCTT-ACAATGAATGA
* * * * * *
48086 CTTTTT-TTTCATGTTTCTTGAGGCAGGCATTTAATTATAGTCTGTTTTAATGAAAAATATAAAA
1 CTTTTTCTAT-ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
* *
48150 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACTATTTAAAACGTGTAATAAGGCTTTTGAA
65 AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAA
*
48215 GGAATAGGTGACTATAAATCGACTTTTCTTACCAATGAATG-
130 GGAATAGGTGACTATAAATGGACTTTTCTTA-CAATGAATGA
* * * ** *
48256 CTTTTTTTTTATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATGTATAAA
1 CTTTTTCTATATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
********** * * *
48321 NNNNNNNNNNAAAATCAATTATGAGATTATAAAACTATTTAAAGCGTGTAGTGAGGCTTTTGAAG
66 AATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAG
* ** * *
48386 GAATGGGTGACTATAAATATACTTTTCATCT-TAATAAATGA
131 GAATAGGTGACTATAAATGGACTTTTC-T-TACAATGAATGA
* * ** * * *
48427 -TTTTTTTACACATTTCTCGAGGTATACATTAAATTATAGTTTGTTTTAATGAAAAATGTAAAAA
1 CTTTTTCTATATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
* * ********** * *
48491 AATTCAACTTAAAATNNNNNNNNNNATTATAAAACCATTTAAAGGGTGTAATAAGGCTTTTAAAG
66 AATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAG
* * *
48556 GAATAGGTGGCTGTACATGGACTTTTCTTATCAATGAAT-A
131 GAATAGGTGACTATAAATGGACTTTTCTTA-CAATGAATGA
* * * * * * **
48596 CCTTTTTCT-TCATATTTCTCAAGATAAACATTCAATTATAGCCTATTTTAAT-AAAAAAATACA
1 -CTTTTTCTAT-ATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTA-A
* *
48659 AACAAATTCAGCTAAAAATCAATTATGAGGTTATAAAACCATTTAAAGCGTGTAATAAGGTTTTT
63 AA-AAATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTT
* * * ** **
48724 GAAGGAGTGGGTGACTATGAATTAACTTTTCTTACAAATGAATTC
127 GAAGGAATAGGTGACTATAAATGGACTTTTCTTAC-AATGAATGA
* * **
48769 CTTTTTCTATATATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAANN
1 CTTTTTCTATATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
************************ * * *
48834 NNNNNNNNNNNNNNNNNNNNNNNNGATTCTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAG
66 AATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAG
* * *
48899 GAATTGGTGACTACAAATGGACTTTTGTTCACAATGAATGA
131 GAATAGGTGACTATAAATGGACTTTTCTT-ACAATGAATGA
* * * ** * *
48940 CTTTTTCTATAGGTTTCTCGAGGTAGGCATTCAATTATAGTCTATTTTAACCAAAAATGGAAAAC
1 CTTTTTCTATATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
* * *
49005 TATT-AGACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
66 AATTCAG-CTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAA
49059 NNNNNNNNNN
Statistics
Matches: 739, Mismatches: 213, Indels: 41
0.74 0.21 0.04
Matches are distributed among these distances:
168 1 0.00
169 5 0.01
170 393 0.53
171 205 0.28
172 127 0.17
173 8 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
CTTTTTCTATATGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
AATTCAGCTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGTGTAATAAGGCTTTTGAAG
GAATAGGTGACTATAAATGGACTTTTCTTACAATGAATGA
Found at i:49998 original size:171 final size:161
Alignment explanation
Indices: 49781--50113 Score: 298
Period size: 171 Copynumber: 2.0 Consensus size: 161
49771 AAATTCAACT
* * * **
49781 AAAATTCAA-TTATAAGATTATAAAACTATTTCAAGCGTGCAATAAGGCTTTTAAAGGAATGGGT
1 AAAATTCAATTTATGAGATTATAAAACTATTTCAAGCATGCAATAAGGATTTTAAAGGAATGGAC
** * * *
49845 GACTGTAAAT-CGACTTTTCAT-CTTAATGAATGACTATTTCTATAGGTGTCTCGAGGCAGGCAT
66 GACTAAAAATAC-ACTTTTCATGC-CAATGAATGACTATTTCTATAGGTGTCTCAAGGCAGACAT
*
49908 TCAATTATATTATATTTTAAGGAAAAATATAAA
129 TCAATTATAGTATATTTTAAGGAAAAATATAAA
*
49941 AAAATTCAATTNNNNNNNNNNTATGAGATTATAAAA-TCATTT-AAGGCATGTAATAAGGATTTT
1 AAAATTCAATT----------TATGAGATTATAAAACT-ATTTCAA-GCATGCAATAAGGATTTT
* * * * ** *
50004 GAAGGAATGGACGACTAAAAATACACTTTTCATGCCAATGAATGCCTTTTTCTTTATTTTTCTCA
54 AAAGGAATGGACGACTAAAAATACACTTTTCATGCCAATGAATGACTATTTCTATAGGTGTCTCA
* * * *
50069 AGGCATACATTCAATTATAGTCTGTTTTAATGAAAAATATAAA
119 AGGCAGACATTCAATTATAGTATATTTTAAGGAAAAATATAAA
50112 AA
1 AA
50114 TATTTTACTA
Statistics
Matches: 135, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
160 9 0.07
161 1 0.01
170 3 0.02
171 120 0.89
172 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.34
Consensus pattern (161 bp):
AAAATTCAATTTATGAGATTATAAAACTATTTCAAGCATGCAATAAGGATTTTAAAGGAATGGAC
GACTAAAAATACACTTTTCATGCCAATGAATGACTATTTCTATAGGTGTCTCAAGGCAGACATTC
AATTATAGTATATTTTAAGGAAAAATATAAA
Done.