Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2428
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: 35652
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1288 original size:50 final size:51
Alignment explanation
Indices: 1174--1317 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 51
1164 TTTTAACTAG
* * * *
1174 ATGTATCGATATATTGAAAAATATATTGATACATCTATGTAAAAGGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGGACAGA
* * * * * *
1225 ATGCATCGATACATTCATACATGTATCGATACATCTGGGTAAAA-GATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGGACAGA
* * *
1275 ATGTATCGATACATTGAGAAATGTATCAATACATCTCGGTAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAA
1318 TATGTGACTT
Statistics
Matches: 77, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 42 0.55
51 35 0.45
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGGACAGA
Found at i:3434 original size:155 final size:155
Alignment explanation
Indices: 2869--3535 Score: 466
Period size: 155 Copynumber: 4.3 Consensus size: 155
2859 AATAATGATG
* * ** *
2869 TTATGGTGCTCAATCATGAAGAGAATAGAGATTATTATGGGAATCTGTGTTT-T-T-ATTTGATG
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGAAAAT-TGTGTTTGTCTCATTTGAGG
** * * * * * *
2931 GACGAACTTTGATTCGAAGGAAAATGGTTG-AAGGAAAAGCTTTTCTTGGGAAACTAAAAAATCA
65 GATAAACTTTGATTCTAAGGAAAATGATGGAAAGG-AAAGCTTTTCTCGAGAAAC--CAAAA-CA
* * * * *
2995 ACACCATGTATCCT-TATGAAAAAACTTG-
126 ACAACATGTATCCTAAAAGGAAGAACTTGT
* * *** * *
3023 TTATGGTGCCCAACCGTGAAAAGAATAGTCTTTTATTATGAGAATTTGTGTTTGTCTTATTTGAG
1 TTATGGTGCCCAATCATGAAAAGAATAG-AGATTATTATGA-AAATTGTGTTTGTCTCATTTGAG
* * * * * * * *
3088 GGATAAACTTTGATTATAAGGAAAAT-AGTGGAAAGAAAAGTTTGTTTTTGTG-AACCAAAGCAT
64 GGATAAACTTTGATTCTAAGGAAAATGA-TGGAAAGGAAAGCTT-TTCTCGAGAAACCAAAACAA
* ** *
3151 TAATTTTGTGTATCCCAATAAGGAAG-ACTTGT
127 CAA---CATGTATCCTAA-AAGGAAGAACTTGT
* * ** * * * *
3183 TTATGGTGCCCAATCACGAAAAGACTAGAGATTATTATGGGAATTCATGTTTATCTCATTTAATG
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGAAAATT-GTGTTTGTCTCATTTGAGG
* * *
3248 GATAAACTTTGACTT-TAAGAAAAATGGTGGAAAGGAAAGCTTTTCTCAAGAAACCAAAACAACA
65 GATAAACTTTGA-TTCTAAGGAAAATGATGGAAAGGAAAGCTTTTCTCGAGAAACCAAAACAACA
* *
3312 ACATGTATCCTAAAGGGCAGAACTTGT
129 ACATGTATCCTAAAAGGAAGAACTTGT
*
3339 TTATGGTGCCCAATCATGAAAA-AATGGCA-ATTATTATGAAAGATTGTGTTTGTCTCATTTGAG
1 TTATGGTGCCCAATCATGAAAAGAATAG-AGATTATTATGAAA-ATTGTGTTTGTCTCATTTGAG
* *
3402 GGATGAACTTTGATTCTAAGGAAAATGATGGAAA-GAAAGGCTTTTCCTC-ATAAACCAAAGCAT
64 GGATAAACTTTGATTCTAAGGAAAATGATGGAAAGGAAA-GCTTTT-CTCGAGAAACCAAA--A-
* * * *
3465 TAACACCATCTATCCCAAGAA-GAA-AACTTGT
124 CAACAACATGTATCCTAA-AAGGAAGAACTTGT
* * * *
3496 TTATGTTGCCTAATCATGAAAGGAATTGAGATTATTATGA
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGA
3536 GAATCCATAT
Statistics
Matches: 396, Mismatches: 87, Indels: 56
0.73 0.16 0.10
Matches are distributed among these distances:
154 30 0.08
155 93 0.23
156 49 0.12
157 29 0.07
158 83 0.21
159 82 0.21
160 30 0.08
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (155 bp):
TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGAAAATTGTGTTTGTCTCATTTGAGGG
ATAAACTTTGATTCTAAGGAAAATGATGGAAAGGAAAGCTTTTCTCGAGAAACCAAAACAACAAC
ATGTATCCTAAAAGGAAGAACTTGT
Found at i:3460 original size:314 final size:313
Alignment explanation
Indices: 2869--3539 Score: 716
Period size: 314 Copynumber: 2.1 Consensus size: 313
2859 AATAATGATG
* * * *
2869 TTATGGTGCTCAATCATGAAGAGAATAGAGATTATTATGGGAA-TCTGTGTTTTTATTTGATGGA
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGGGAATTCTGTGTTTTCATTTAATGGA
* * * ***
2933 CGAACTTTGATTCGAAGGAAAATGGTTGAAGGAAAAGCTTTTCTTGGGAAACTAAAAAATCAACA
66 CAAACTTTGATTCGAAGAAAAATGGTGGAAGGAAAAGCTTTTCTCAAGAAAC-AAAAAATCAACA
* * * * * **
2998 CCATGTATCCTTATGAAAAAACTTGTTATGGTGCCCAACCGTGAAAAGAATAGTCTTTTATTATG
130 ACATGTATCCTAAGGAAAAAACTTGTTATGGTGCCCAACCATGAAAAGAATAGGCAATTATTATG
* *
3063 AGAATTTGTGTTTGTCTTATTTGAGGGATAAACTTTGATTATAAGGAAAATAGTGGAAAGAAAAG
195 AGAAATTGTGTTTGTCTCATTTGAGGGATAAACTTTGATTATAAGGAAAATAGTGGAAAGAAAAG
** ** * ***** * * *
3128 TTTGTTTTTGTGAACCAAAGCATTAATTTTGTGTATCCCAATAAGGAAGACTTGT
260 TTTGTCCTCATAAACCAAAGCATTAACACCATCTATCCCAAGAA-GAAAACTTGT
* *
3183 TTATGGTGCCCAATCACGAAAAGACTAGAGATTATTATGGGAATTCATGT-TTATCTCATTTAAT
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGGGAATTC-TGTGTT-T-TCATTTAAT
* * *
3247 GGATAAACTTTGACTT-TAAGAAAAATGGTGGAAAGG-AAAGCTTTTCTCAAGAAAC-CAAAA-C
63 GGACAAACTTTGA-TTCGAAGAAAAATGGTGG-AAGGAAAAGCTTTTCTCAAGAAACAAAAAATC
** * *
3308 AACAACATGTATCCTAAAGGGCAGAACTTGTTTATGGTGCCCAATCATGAAAA-AAT-GGCAATT
126 AACAACATGTATCCT-AAGGAAAAAACTTG-TTATGGTGCCCAACCATGAAAAGAATAGGCAATT
* *
3371 ATTATGA-AAGATTGTGTTTGTCTCATTTGAGGGATGAACTTTGATTCTAAGGAAAAT-GATGGA
189 ATTATGAGAA-ATTGTGTTTGTCTCATTTGAGGGATAAACTTTGATTATAAGGAAAATAG-TGGA
*
3434 AAGAAAGGCTTT-TCCTCATAAACCAAAGCATTAACACCATCTATCCCAAGAAGAAAACTTGT
252 AAGAAAAG-TTTGTCCTCATAAACCAAAGCATTAACACCATCTATCCCAAGAAGAAAACTTGT
* * * * *
3496 TTATGTTGCCTAATCATGAAAGGAATTGAGATTATTATGAGAAT
1 TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGGGAAT
3540 CCATATTTGC
Statistics
Matches: 295, Mismatches: 51, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
313 49 0.17
314 147 0.50
315 23 0.08
316 24 0.08
317 46 0.16
318 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (313 bp):
TTATGGTGCCCAATCATGAAAAGAATAGAGATTATTATGGGAATTCTGTGTTTTCATTTAATGGA
CAAACTTTGATTCGAAGAAAAATGGTGGAAGGAAAAGCTTTTCTCAAGAAACAAAAAATCAACAA
CATGTATCCTAAGGAAAAAACTTGTTATGGTGCCCAACCATGAAAAGAATAGGCAATTATTATGA
GAAATTGTGTTTGTCTCATTTGAGGGATAAACTTTGATTATAAGGAAAATAGTGGAAAGAAAAGT
TTGTCCTCATAAACCAAAGCATTAACACCATCTATCCCAAGAAGAAAACTTGT
Found at i:3925 original size:158 final size:155
Alignment explanation
Indices: 2934--3947 Score: 500
Period size: 158 Copynumber: 6.4 Consensus size: 155
2924 TTTGATGGAC
* * * * * * *** *
2934 GAACTTTGATTCGAAGGAAAATGGTTGAAGGAAAAGCTTTTCTTGGGAAACTAAAAAATCAACAC
1 GAACTTTGATTCTAA-GAAAATGATGGAAAGAAAAGCTTTTCCTGGGAAACCAAAGCTTCAACAT
* ** * * * * * *
2999 CATGTATCCTTATGAA-AAAACTTG-TTATGGTGCCCAACCGTGAAAAGAATAGTCTTTTATTAT
65 CATGCATCCCAAT-AAGAAAACTTGTTTATGGTGCCCAATCAT-AAAAAAATGGAC-ATTATTAT
*** * * *
3062 GAGAATTTGTGTTTGTCTTATTTGAGGGAT
127 GAGAATCCATATTTGTCTCATTT-AAGGAT
* * * ** *
3092 AAACTTTGATTATAAGGAAAAT-AGTGGAAAGAAAAGTTTGTTTTTGTG-AACCAAAGCATT-AA
1 GAACTTTGATTCTAA-GAAAATGA-TGGAAAGAAAAGCTT-TTCCTGGGAAACCAAAGC-TTCAA
** ** * * * * * * *
3154 TTTTGTGTATCCCAATAAGGAAGACTTGTTTATGGTGCCCAATCACGAAAAGACTAGAGATTATT
62 CATCATGCATCCCAATAA-GAAAACTTGTTTATGGTGCCCAATCA-TAAAAAAATGGACATTATT
* * * *
3219 ATGGGAATTCATGTTTATCTCATTTAATGGAT
125 ATGAGAATCCATATTTGTCTCATTTAA-GGAT
* * * ** *
3251 AAACTTTGACTT-TAAGAAAAATGGTGGAAAGGAAAGCTTTT-CTCAAGAAACCAAA---ACAAC
1 GAACTTTGA-TTCTAAG-AAAATGATGGAAAGAAAAGCTTTTCCT-GGGAAACCAAAGCTTCAAC
* * * * * *
3311 AACATGTATCCTAA-AGGGCAGAACTTGTTTATGGTGCCCAATCATGAAAAAATGG-CAATTATT
63 ATCATGCATCCCAATA-AG-AAAACTTGTTTATGGTGCCCAATCATAAAAAAATGGAC-ATTATT
* ** * *
3374 ATGAAAGAT-TGTGTTTGTCTCATTTGAGGGAT
125 ATGAGA-ATCCATATTTGTCTCATTT-AAGGAT
* ***
3406 GAACTTTGATTCTAAGGAAAATGATGGAAAGAAAGGCTTTTCCTCATAAACCAAAGCATT-AACA
1 GAACTTTGATTCTAA-GAAAATGATGGAAAGAAAAGCTTTTCCTGGGAAACCAAAGC-TTCAACA
* * * * ** * *
3470 CCAT-CTATCCCAAGAAGAAAACTTGTTTATGTTGCCTAATCATGAAAGGAATTGAGATTATTAT
64 TCATGC-ATCCCAATAAGAAAACTTGTTTATGGTGCCCAATCAT-AAAAAAATGGACATTATTAT
* **
3534 GAGAATCCATATTTGCCTTGTTTAAAGGAT
127 GAGAATCCATATTTGTCTCATTT-AAGGAT
* * * * * * *
3564 GAATTTTAATTATATAGAAAATGGTGGAAGGAAAAGCTTTTCCTAGGAAACCAAAGC-ACAACAT
1 GAACTTTGATTCTA-AGAAAATGATGGAAAGAAAAGCTTTTCCTGGGAAACCAAAGCTTCAACAT
* * * ** * * * * * *
3628 TATGTATCCCAATAAAGAGAACTTGTTTATTATGCCTAATCACAAAACAAATGAAGACTATTAGG
65 CATGCATCCCAAT-AAGAAAACTTGTTTATGGTGCCCAATCATAAAA-AAATGGACATTATTATG
** * * *
3693 AGAATTTATA-TTCTCTTATCTAAGTGAT
128 AGAATCCATATTTGTCTCATTTAAG-GAT
* * * * ** * *
3721 AAACTATGATTCTAAGAAAAATGGTGGAAA-AAATATCTTTTTTTGGGAAAGCAAAGCTTCAATA
1 GAACTTTGATTCTAAG-AAAATGATGGAAAGAAA-AGCTTTTCCTGGGAAACCAAAGCTTCAACA
* * *
3785 TCATGCATCCCAATAAGGATAACTTGTTTATGGTGCCCAACCATAAAAAGAATGGACATTATTAC
64 TCATGCATCCCAATAA-GAAAACTTGTTTATGGTGCCCAATCATAAAAA-AATGGACATTATTAT
*
3850 GAGAATCCATATTTGTCTCATTTGAGGAGT
127 GAGAATCCATATTTGTCTCATTTAAGGA-T
* * * * * * *
3880 GAACTTTCATTCTACA-AAAATGATAGAAAGAAAGGCTTTTCTTGGGAAACTAAAGCATCAAAAT
1 GAACTTTGATTCTA-AGAAAATGATGGAAAGAAAAGCTTTTCCTGGGAAACCAAAGCTTCAACAT
3944 CATG
65 CATG
3948 TATTCTGATG
Statistics
Matches: 647, Mismatches: 163, Indels: 92
0.72 0.18 0.10
Matches are distributed among these distances:
154 2 0.00
155 76 0.12
156 48 0.07
157 96 0.15
158 292 0.45
159 107 0.17
160 26 0.04
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (155 bp):
GAACTTTGATTCTAAGAAAATGATGGAAAGAAAAGCTTTTCCTGGGAAACCAAAGCTTCAACATC
ATGCATCCCAATAAGAAAACTTGTTTATGGTGCCCAATCATAAAAAAATGGACATTATTATGAGA
ATCCATATTTGTCTCATTTAAGGAT
Found at i:4736 original size:158 final size:159
Alignment explanation
Indices: 4535--4884 Score: 411
Period size: 158 Copynumber: 2.2 Consensus size: 159
4525 GATTTTACAA
* * * * * * *
4535 AAAATGGT-GAAAAGAAAACCTTTTATTAGGATACCAAA-GATCAATACCATATATTCCAGA-AA
1 AAAATGGTAG-AAAGAAAAGCTTTTCTCAGGAAACCAAATCATCAACACCATATATCCCA-ATAA
** *
4597 GGAGAACTTATTTATGGTGCCTGATCATGAAAAGAAAGGAGATTATTACGAGAATCTACATTTGT
64 GGAGAACTTATTTATGGTGCCCAATCATGAAAAGAAAGAAGATTATTACGAGAATCTACATTTGT
*
4662 CTAATTT-AAGGATAAACTTTGATTCAAAGG
129 CTAATTTGAAGGATAAACTTTGAGTCAAAGG
* * * * *
4692 AAAATTGTAGAAAGACAAGCTTTTCTCAGGAAACCAAATCATCAACATCATGTATCCCAATGAGG
1 AAAATGGTAGAAAGAAAAGCTTTTCTCAGGAAACCAAATCATCAACACCATATATCCCAATAAGG
* * * * ***
4757 AGAACTTGTTTTTGGTGCCCAATCATGAAAAGAACGAAGATTATTATGAGAATCTGGGTTTGTCT
66 AGAACTTATTTATGGTGCCCAATCATGAAAAGAAAGAAGATTATTACGAGAATCTACATTTGTCT
* * *
4822 CATTTGAGGGATAAACTTTGAGTCTAAGG
131 AATTTGAAGGATAAACTTTGAGTCAAAGG
*
4851 AAAATGGTAGAAAGAAAAGCTTTTCTTAGGAAAC
1 AAAATGGTAGAAAGAAAAGCTTTTCTCAGGAAAC
4885 TAAAGTTTTA
Statistics
Matches: 160, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
157 31 0.19
158 78 0.49
159 51 0.32
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (159 bp):
AAAATGGTAGAAAGAAAAGCTTTTCTCAGGAAACCAAATCATCAACACCATATATCCCAATAAGG
AGAACTTATTTATGGTGCCCAATCATGAAAAGAAAGAAGATTATTACGAGAATCTACATTTGTCT
AATTTGAAGGATAAACTTTGAGTCAAAGG
Found at i:10439 original size:28 final size:29
Alignment explanation
Indices: 10370--10441 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
10360 TTCTTCTTTA
* *
10370 TTGATTTCTTTTCCTTTGAAATTTCTTGC
1 TTGATTTCATTTCCTTTCAAATTTCTTGC
* *
10399 TT-ATTTCGTTTCCTTTCATATTTCTTG-
1 TTGATTTCATTTCCTTTCAAATTTCTTGC
*
10426 TTGATTTCACTTCCTT
1 TTGATTTCATTTCCTT
10442 GATCTTTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.12, C:0.19, G:0.08, T:0.60
Consensus pattern (29 bp):
TTGATTTCATTTCCTTTCAAATTTCTTGC
Found at i:15736 original size:158 final size:157
Alignment explanation
Indices: 13852--18879 Score: 1592
Period size: 158 Copynumber: 32.2 Consensus size: 157
13842 ATCGGGTTTT
* * * * * * * **
13852 ATGAGAAGAAATGGACATTATTACGAGAATCCATATGTGTCTCATATGAGGGACAAAACTTTGAT
1 ATGAAAAG-AATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGA-TGAACTTTGAT
* * * * * * * *
13917 TGTAA-TAGAAATGGAGAAAAG-AAAGCTTTTTTTTGCAAAACTAAAGCATCAATATCATATATC
64 TCTAAGGA-AAATGGTGGAAAGAAAAGC-TTTTCTTGCTAAACCAAAGCATCAATATCATGTATC
* * *
13980 TCGATGAGGAGACTGTGTTTATGGTGCCTAATC
127 -CAATGAGGA-AATATGTTTATGGTGCCTAATC
* * ** *
14013 ATGAAACGAATGGAGATTTTTACT-AGAA-CTATGTTTGGTCTCA-TTGAGGGACAAAATTTGAT
1 ATGAAAAGAATGGAGATTATTA-TGAGAATCTATGTTT-GTCTCATTTGAGGGATGAACTTTGAT
* * * **
14075 TTTAAGCAAAAAGGTGGGAAA-AAAAG-TTTT-TGTGCTAAACC-AAGCATCAATATTGTGTTAT
64 TCTAAGGAAAATGGT-GGAAAGAAAAGCTTTTCT-TGCTAAACCAAAGCATCAATATCATG-TAT
* * *
14136 CTAAT-AGTAGAAT-TCG-TTATGGT-CCCAATTAC
126 CCAATGAGGA-AATAT-GTTTATGGTGCCTAA-T-C
* * * * * * ** ** *
14168 AT--AAAGAATGGAGATTATTA-CATGAATCCAAGTTTGTGTGATATGAACAGACAAACTTTTAT
1 ATGAAAAGAATGGAGATTATTATGA-GAATCTATGTTTGTCTCATTTG-AGGGATGAACTTTGAT
* ** * * *
14230 TTTAAACAGAATGGTGGAATAG-AAAGCTTTTCTTG-TGAAACCAAAGCGTCAATATTATGTACT
64 TCTAAGGAAAATGGTGGAA-AGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTA-T
* ** * * *
14293 CCTAGTTTGGAGAATGTGTCTTCAT-G-GCCAAATT
126 CC-AATGAGGA-AATATGT-TT-ATGGTGCCTAATC
* ** *
14327 AT-AGAAAGAATGGAGATTATTATGAGAA-CCATGTTTGTCTCATTTGAGGGACAAACTATGATT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * * * *
14390 CTAAGGAAAAT-GTTGAGAAGAAAACCCTTTCTT-TTGAAACTAAGAGGCAT-GACATCATATAT
65 CTAAGGAAAATGGTGGA-AAGAAAAGCTTTTCTTGCT-AAACCAA-A-GCATCAATATCATGTAT
* * * * *
14452 CCAATCAAGAAA-ACTTATTTATGATGCCCAATC
126 CCAATGAGGAAATA--TGTTTATGGTGCCTAATC
* * * * * * *
14485 ATCAAAAAAAATAGAGATTTTTATGAGATTC-A-GTTTTTCTCATTTGAGGGATG-ACTTTGGTT
1 AT-GAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * * *
14547 GTAAGAAAAATGGT-GAAAAAAAAGCTTTTCTTG-TGAAAACATAAGCAACAATAGCATGTAACC
65 CTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCA-AAGCATCAATATCATGTATCC
* * * * *
14610 TAATCAAGAGAACATGTGTATGG-GACCCAATC
128 -AATGAGGA-AATATGTTTATGGTG-CCTAATC
* * * ** * * * * * *
14642 CTAAAAATAATGG-GAATTATTACAAGAATCAAAGTTTGTCTTATTTGAGAGATGAATTTTGTTT
1 ATGAAAAGAATGGAG-ATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
** * * * *
14706 CTAAGGAAAATAATGG-AAGAAAAGTTTTTCTT-CGAAACTAAAGCATCAATGTCATGTATCCCA
65 CTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTAT-CCA
* * * *
14769 ATGA-GTAGTACGTGTTATGGTGCC-CATC
129 ATGAGGAAATATGT-TTATGGTGCCTAATC
* * * ** * *
14797 TAT-TAAAGAATGGACATTATT-TAGAGAGTCCCTGGTTGTCTCATTTGAGGGATAAACTTTGAT
1 -ATGAAAAGAATGGAGATTATTAT-GAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGAT
* * *** * * *
14860 TCTATA-AAAAATAGCAAAAAGAAAAGCTTTTCTTGCAAAAGCAAAGCATTAATATCATGTA-CC
64 TCTA-AGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCC
* * * * * * *
14923 AAATAAAGATA-ACGTGTTAAGGTGCCCAATG
128 -AATGAGGAAATATGT-TTATGGTGCCTAATC
* * * * * * * * * * * *
14954 GTGAAAAGAATGTACATTATTACGAGAATCCATATTTTTCCCATTTAAGAGATAAACTTTGATTA
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
* ** * * * * *
15019 TACA-AAAAATGGCAGATAGAAAATCTTTTCTTGC-ATAACCAAAGCATTAATATCATCTAGACC
66 TA-AGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTA-AACCAAAGCATCAATATCATGTA-TCC
* * * *
15082 AATGAAGAGAACATGTTAATGATG-CTCAATC
128 AATGAGGA-AATATGTTTATGGTGCCT-AATC
* * * * * * *
15113 AAGAAAAGAAAGGCGATTTTTATGAGAAT-TGATGGTTTGTCTCATTTGAAGGATAAACTTTCAT
1 ATGAAAAGAATGGAGATTATTATGAGAATCT-AT-GTTTGTCTCATTTGAGGGATGAACTTTGAT
* * * *
15177 TCTAAAGAAAAAGGTTGAAAGAAAAAGCTTTTCATGCT------AA--ATCAATATCATGTATCC
64 TCTAAGGAAAATGGTGGAAAG-AAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCC
** * *
15234 TAAACAAGAGAAA-ATGTTT-TGATGCCCAATC
128 --AATGAG-GAAATATGTTTATGGTGCCTAATC
* * * * ** * * *
15265 ATGAAAAGAATGGATATTAATATGAGAATCTGTG-TTGTCTGATTTGATAGATAAACTTTTATTT
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
* * * * **** * * *
15329 TGAGGAAACTAGTGGAAAAGGATTTTTTTTCTTG-AAAAACTAAGCATCAATATCA---A--C--
66 TAAGGAAAATGGTGG-AAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCCAA
* * *
15386 GGA-GAACACA---TT-TGTTG-CTCAATC
130 TGAGGAA-ATATGTTTATGGTGCCT-AATC
** * * * **
15410 ATG-AAAGAAATAAAGATTATTATAAGAATCCATGTTT-T-TCTTGTTGAGGTTTGAACTTTGAT
1 ATGAAAAG-AATGGAGATTATTATGAGAATCTATGTTTGTCTCAT-TTGAGGGATGAACTTTGAT
* * * * *
15472 TCAAAGGAAAGTGGTAGAAAG-AAA-CTTTTCTTG-TGAAACCCAAGCATCAATATCATGTATTT
64 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTA-TC
* * * *
15534 C-ATGTGAAGAATGTGTTTATGGTACCTAATC
127 CAATGAGGA-AATATGTTTATGGTGCCTAATC
* * * * *
15565 AGGAAAAAAAATGGAGATTATTATGAGAATCTATGTTTGTTTTCATTTGATGCATGAACTTTGAT
1 ATG-AAAAGAATGGAGATTATTATGAGAATCTATGTTTG-TCTCATTTGAGGGATGAACTTTGAT
15630 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCCA
64 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCCA
* * *
15695 ATGAGGAAATATATTTATGATGCCTAATA
129 ATGAGGAAATATGTTTATGGTGCCTAATC
* * * * * *
15724 ATGAGAAGAAT-G-GA-TATTATGAGAATCCATAG-TTGTCT-ATTTAAGGTA-CAAATCTTGAT
1 ATGAAAAGAATGGAGATTATTATGAGAATCTAT-GTTTGTCTCATTTGAGGGATGAACT-TTGAT
* * * **
15783 TGT-A-CAAAA-GGTGGAAAGGAAAGCTTTT-TGTG-TGAAAATAAAGCATCAATATCATGTATC
64 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCT-TGCT-AAACCAAAGCATCAATATCATGTAT-
* *
15843 CCAATGAAGGGAAA-ATGTTTATAGTGCCTGATC
126 CCAATG-A-GGAAATATGTTTATGGTGCCTAATC
* * * * * * * *
15876 ATGAAAACAATGGAGATTTTTATAAGAATCTAT-ATTGTCTTATTGGAGGGATGAAATTTAATTC
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
* * * * * *
15940 TAAGGAAAATGTTGGAGAGGAAAGCTTTTCATGCTAAACCAAAACATCAATAT-AGTGTGTCCCA
66 TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCA-TGTAT-CCA
* * *
16004 ATTAGG----A-G---A----CCCCAATC
129 ATGAGGAAATATGTTTATGGTGCCTAATC
* * ** * * * ** *
16021 A-CATAAAGAATGGGGATTATTACAAGAATCCAAGTTTGTCTGA--TGACAGATGAACTTTTGCT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAAC-TTTGAT
* * * * * *
16083 T-T-AGAGAGAATGGTGGACAGGAAAGCTTTTCTTG-TGAAGCCAACGCATCAATAT-TTGTATC
64 TCTAAG-GAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTATC
* * ** *
16144 TAATGTGGAGAATGGGTTT-T-GTGGCCAAATC
127 CAATGAGGA-AATATGTTTATGGT-GCCTAATC
* * * * *
16175 AT-AAAAGGAATGGAAATTATTATGAGAATCTATATTTCTCTGATTTGAGGGATAAACTATATGA
1 ATGAAAA-GAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACT-T-TGA
* ** * **
16239 TTTTAAGGAAAATGGTGGGTAG-AAAGCCTTTT-TTG-TGAAACTAAAGCATCAACGTCATGTAT
63 TTCTAAGGAAAATGGTGGAAAGAAAAG-CTTTTCTTGCT-AAACCAAAGCATCAATATCATGTAT
* * * ** *
16301 CCTAATCAAGAAA-ACTTGTTTGTGGTATCGAATC
126 CC-AATGAGGAAATA--TGTTTATGGTGCCTAATC
* * * * * * ** * * * *
16335 TTGAAAAAAATAGAGGTT-TCTAAGGGAAT-TCATGTTCATCTTATTTGAGAGATGAACATAGAT
1 ATGAAAAGAATGGAGATTAT-TATGAGAATCT-ATGTTTGTCTCATTTGAGGGATGAACTTTGAT
* * * *
16398 TTTAAGGAAAATGGTGAAAAGAAAAGCTTTTCTTG-TAAAACCTAAGCAACAATATCATGTATCC
64 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTAT-C
* * * *
16462 CAATCAGGAGA-ATGTGTTATTGT-CCACAATC
127 CAATGAGGAAATATGT-TTATGGTGCC-TAATC
* * * * * * * * *
16493 ATGTAAAGAATGGAGATTATT-TCAAGAATCCA-ATTTATCTGATATGATGGATGAACTTTTATT
1 ATGAAAAGAATGGAGATTATTAT-GAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * * *
16556 TTATA-GAGAATGGTGAAAAGAAAAACTTTTCTT-ATGAAACCAAAGTATCAATACCATGTATTC
65 CTA-AGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTA-TC
* * * * * **
16619 TAGTGTGGAAA-ATGTGTTTTTGTGGTTGAATC
127 CAATGAGGAAATATGT-TTATGGTGCCT-AATC
* ** ** * * *
16651 AT-AGAAGGAATGGAGATTACAACAAGAATCTATGTTTGTCTCATTTGAGGGTTAAACTATGATT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * *
16715 ATACGAAAAATGGTGGAAAGAAAAG-TTGTTTTTGC-AAGACCAAAGCATCGATATCATATATCC
65 CTAAGGAAAATGGTGGAAAGAAAAGCTT-TTCTTGCTAA-ACCAAAGCATCAATATCATGTAT-C
* * * * * *
16778 CAATCAAGAAA-ACTACTTTCTAGTGACTAATC
127 CAATGAGGAAATA-T-GTTTATGGTGCCTAATC
* ** * * *
16810 ATGAAAA-AATGGAGATTTTTACAAGGAT-TCATGTATGTCTCATTTGAGGGATAAACTTTGATT
1 ATGAAAAGAATGGAGATTATTATGAGAATCT-ATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * * * *
16873 GTAAGGAAAATGGTGAAAAGAAAAGCTTTTCTTG-TGATAGCTAAGAATCCATATCATTTATCAC
65 CTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTATC-C
* * * *
16937 AATCA-AAGAACATGTTTATGGTGCCCAATC
128 AATGAGGA-AATATGTTTATGGTGCCTAATC
* * ** * * * * **
16967 CTAAAAAGAATGGAGATTATTACAAGAATCCATATTTGTTTCATTTAAGCAATGAACTTTGATTC
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
* * ** ** *
17032 TAAGGAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATTGATGCCATTTATCCCAA
66 TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTAT-CCAA
* *
17097 TAAGAGG-AATGCAT-TTT-TGTTGCCCAATC
130 T--GAGGAAAT--ATGTTTATGGTGCCTAATC
* * **
17126 ATGAAAAGAATGGAGATTATTATGAGAAT-TCATGTTTGTCTCATTTGAAGG-TAAAAGATTGAT
1 ATGAAAAGAATGGAGATTATTATGAGAATCT-ATGTTTGTCTCATTTGAGGGAT-GAACTTTGA-
* * * * * *
17189 TTTTAAGGAAAATGGTGGTAAGAAAAGCTTTTATTGCAAAAGCAAAACATCAATATC-T-TATCC
63 TTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTAT-C
* * *
17252 CAAT-AGGAGATAATGCATTTATGATGCATAATC
127 CAATGAGGAAAT-ATG--TTTATGGTGCCTAATC
** * * ** * * * *
17285 ATGAATGGTATAGAGATTATTAAAAGAATCCATATTT-ACATCATTTGCA-GGATGAACTTTGGT
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTC-TCATTTG-AGGGATGAACTTTGAT
* * * **
17348 TGTAAGGAAAATGGTGGAAAGAAAAGCTTTTTTTGCTAAACCAATGCATCAGCATCATGTATCCC
64 TCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTAT-CC
* * * *
17413 AATGAGTAGTACATGTTTATGGTGCCCAATC
128 AATGAGGA-AATATGTTTATGGTGCCTAATC
* * * * * ** * * * * *
17444 A-AATAAAGAACGGAGCTTATAAAGAGGGTCCATGGTTGTCTCAATTGAGGAATGCACTTTGATT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * ** * * * *
17508 -TTATGAAAGATGAT-CAAA-AATGGCTTTTCTTAC-AAAACAAAGCTTTAATATCATGTATCCA
65 CTAAGGAAA-ATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCC-
* ** * **
17569 AATAAAAAGAATGTGTTTAAAGTGCCTAA-C
128 AATGAGGA-AATATGTTTATGGTGCCTAATC
** * * * * * * * * * *
17599 AACACAAAGAATGGACATTATTATAAGAGTCCATATGTGTTTCACTTAAAGGATGAAC-TTGATT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * **
17663 GTACA-AAAAATGGT-GAAACGAAAAGCTTTTCTTGCAAAACCAAAAAAATCAATATCATGTATC
65 CTA-AGGAAAATGGTGGAAA-GAAAAGCTTTTCTTGCTAAACC-AAAGCATCAATATCATGTATC
* * * * * * * *
17726 ATAATAAAGAGAACATATTGATGGTGTCTAATT
127 -CAATGAGGA-AATATGTTTATGGTGCCTAATC
** * * * * *
17759 ATGAAAAGAATAAAGCTTTTTATGAGAATCCT-TGTTTATCTCATTTGAAGGATGAACTTTTATT
1 ATGAAAAGAATGGAGATTATTATGAGAAT-CTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * * * * * *
17823 CTAA-GAAAAAGGTGAAAAGAAAAACTTTTCATG-T-TA--AAAGTATCACTATCATGTACCCAA
65 CTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCCAA
* * *
17883 TCAAGAGAAA-GTGTTTA-AGTGCCTAATC
130 T-GAG-GAAATATGTTTATGGTGCCTAATC
* *** * *** * *
17911 ATGAAAAGAATGGACATTATT-TCGAGAAT-TCATAACTGTCTGATTTGACAAACGAACTTTTAT
1 ATGAAAAGAATGGAGATTATTAT-GAGAATCT-ATGTTTGTCTCATTTGAGGGATGAACTTTGAT
* * * * * * * * *
17974 TTTATGAAAAATAG-CGAAA-AATGATATCTTTTCTTGC-AAAGCCAAAGCATTAGTATCATGCA
64 TCTAAGGAAAATGGTGGAAAGAA--A-AGCTTTTCTTGCTAAA-CCAAAGCATCAATATCATGTA
* *
18036 TCCAAGTGAGGAGAACGTA-CTTT-TGTTGCCTAATC
125 TCCAA-TGAGGA-AA--TATGTTTATGGTGCCTAATC
* * * * * * * *
18071 ATGAAAAGAACGGAAGCTTGTTATGAAAATGC-ATTTTTGTCAC-GTTGAGGGA-CACACTTTGA
1 ATGAAAAGAATGG-AGATTATTATGAGAAT-CTATGTTTGTCTCATTTGAGGGATGA-ACTTTGA
* * * * * *
18133 TTC--A--AAAGTGGTGG-GAGTAAAAGTTTTTCTTGCAAAACCAAAGCGTCAATATTATGTATC
63 TTCTAAGGAAAATGGTGGAAAG-AAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATC
* * * *
18193 TAGT-ATGGAGAACATGTTTATGGTGCC-AAAC
127 CAATGA-GGA-AATATGTTTATGGTGCCTAATC
* * * * * * *
18224 ATGAAAAGAATGCAGA-T-TTATGAGAATCTACGTTTTTCTTATTTAAGTGATGAACTTTGATTA
1 ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
* * * * * * *
18287 TAAAGAAAATGGTGGAAAGAAAAGCTTCTATTACAAAAACTAAAGCATCAATATCACGTATCGCA
66 TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGC-TAAACCAAAGCATCAATATCATGTATC-CA
* * *
18352 ATAAGG-AATGTGTTTATGGTGCCCAATC
129 ATGAGGAAATATGTTTATGGTGCCTAATC
* * * * *
18380 ATGAAATGAATGAAGACTT-TTATGAGAATCTATGTTTATCTCATTTGAGCGACT-AAATTTGA-
1 ATGAAAAGAATGGAGA-TTATTATGAGAATCTATGTTTGTCTCATTTGAGGGA-TGAACTTTGAT
* * * *
18442 TCTTAAGGAAAATGGTAGAAA-AGAAAGTTTTTCATGCTAAACCAAAGCATCATTATCATGTATC
64 TC-TAAGGAAAATGGTGGAAAGA-AAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTAT-
* * *
18506 CCAATCAGAAGAATATG-TTATAGT-CCTCAATCAC
126 CCAATGAGGA-AATATGTTTATGGTGCCT-AAT--C
* * * * * * *
18540 ATG--AAGAATGGAGATCATT-TCAAGAATCCGA-GCTTGTCTGATTTGACGGATGAACTTTTAT
1 ATGAAAAGAATGGAGATTATTAT-GAGAAT-CTATGTTTGTCTCATTTGAGGGATGAACTTTGAT
* * * * * * * **
18601 TTTAAAGAGAATAGTAGAAA-AGAAAG-TTTTCATG-TGAAACCAAAGCATCAATGTTGTGTATC
64 TCTAAGGAAAATGGTGGAAAGA-AAAGCTTTTCTTGCT-AAACCAAAGCATCAATATCATGTATC
* ** ** **
18663 CAAAT-ATGTAGAACGTGTTT-TTATGTTTGAATC
127 C-AATGA-GGA-AATATGTTTATGGTGCCT-AATC
* * * * * * * *
18696 AT-AGAAGGAATGGACATTATTATGAAAATCCATGTTTATCACATTTGAGGGATAAACTATGATT
1 ATGA-AAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATT
* * * *
18760 CTAAGGAAAATGGTGGGAA-AAAAGCCTTTCTTGC-AATGCAAAAGCATCAATATCATGTATCCC
65 CTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAA-ACCAAAGCATCAATATCATGTAT-CC
* * * * *
18823 AATCAAGAAA-ACTTGTTAATGGTACCCAATC
128 AATGAGGAAATA--TGTTTATGGTGCCTAATC
*
18854 AT-AAAA-AATAGAGATT-TTATGAGAAT
1 ATGAAAAGAATGGAGATTATTATGAGAAT
18880 TCATAATGCG
Statistics
Matches: 3595, Mismatches: 939, Indels: 672
0.69 0.18 0.13
Matches are distributed among these distances:
142 14 0.00
143 26 0.01
144 61 0.02
145 91 0.03
146 13 0.00
147 1 0.00
148 3 0.00
149 5 0.00
150 102 0.03
151 36 0.01
152 129 0.04
153 102 0.03
154 118 0.03
155 264 0.07
156 323 0.09
157 501 0.14
158 821 0.23
159 604 0.17
160 294 0.08
161 82 0.02
162 5 0.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (157 bp):
ATGAAAAGAATGGAGATTATTATGAGAATCTATGTTTGTCTCATTTGAGGGATGAACTTTGATTC
TAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCTAAACCAAAGCATCAATATCATGTATCCAAT
GAGGAAATATGTTTATGGTGCCTAATC
Found at i:22282 original size:12 final size:12
Alignment explanation
Indices: 22265--22298 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22255 TGAGTCAACT
*
22265 TCATCATTATTA
1 TCATCATCATTA
22277 TCATCATCATTA
1 TCATCATCATTA
*
22289 TCTTCATCAT
1 TCATCATCAT
22299 CTTTGATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (12 bp):
TCATCATCATTA
Found at i:22283 original size:15 final size:15
Alignment explanation
Indices: 22265--22299 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22255 TGAGTCAACT
22265 TCATCATTAT-TATCA
1 TCATCATTATCT-TCA
22280 TCATCATTATCTTCA
1 TCATCATTATCTTCA
22295 TCATC
1 TCATC
22300 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATCATTATCTTCA
Found at i:24003 original size:13 final size:13
Alignment explanation
Indices: 23985--24011 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23975 ACAATTGTGC
23985 ATGTATCGATACA
1 ATGTATCGATACA
23998 ATGTATCGATACA
1 ATGTATCGATACA
24011 A
1 A
24012 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24022 original size:20 final size:21
Alignment explanation
Indices: 23997--24052 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
23987 GTATCGATAC
23997 AATGTATCGATACA-AAGCAT
1 AATGTATCGATACATAAGCAT
* *
24017 AATGTATCGATACATTAGGAT
1 AATGTATCGATACATAAGCAT
24038 -ATGTATCGATACATA
1 AATGTATCGATACATA
24053 CAAAGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATAAGCAT
Found at i:27352 original size:21 final size:21
Alignment explanation
Indices: 27328--27367 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27318 GTGCTTAATT
27328 ATATG-TGAGTTTGATGTTTAG
1 ATATGTTG-GTTTGATGTTTAG
*
27349 ATATGTTGTTTTGATGTTT
1 ATATGTTGGTTTGATGTTT
27368 TTGAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
ATATGTTGGTTTGATGTTTAG
Found at i:28606 original size:15 final size:16
Alignment explanation
Indices: 28586--28615 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
28576 TTGACTTTTG
28586 TGCTTGTA-TTGAATA
1 TGCTTGTACTTGAATA
28601 TGCTTGTACTTGAAT
1 TGCTTGTACTTGAAT
28616 TTCTTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (16 bp):
TGCTTGTACTTGAATA
Found at i:28997 original size:25 final size:25
Alignment explanation
Indices: 28965--29012 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
28955 AGGGGGATAA
*
28965 TTTGTTAAGGGAGAGTATTAAATAT
1 TTTGTTAAGGGAGAGTACTAAATAT
*
28990 TTTGTTAAGGGGGAGTACTAAAT
1 TTTGTTAAGGGAGAGTACTAAAT
29013 TAAAATTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (25 bp):
TTTGTTAAGGGAGAGTACTAAATAT
Found at i:29675 original size:20 final size:19
Alignment explanation
Indices: 29652--29699 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
29642 ACACCTATAT
*
29652 GTATCGATAGATGTTGCTTA
1 GTATCGATACATGTT-CTTA
* *
29672 GTATCAATACATGTTCTTG
1 GTATCGATACATGTTCTTA
29691 GTATCGATA
1 GTATCGATA
29700 TGTATTGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (19 bp):
GTATCGATACATGTTCTTA
Found at i:30178 original size:16 final size:18
Alignment explanation
Indices: 30157--30191 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30147 TCTTAGAGGC
30157 ATTTC-TTGT-TTGTAAA
1 ATTTCTTTGTGTTGTAAA
30173 ATTTCTTTGTGTTGTAAA
1 ATTTCTTTGTGTTGTAAA
30191 A
1 A
30192 GGTTGTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 8 0.47
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTCTTTGTGTTGTAAA
Found at i:31194 original size:28 final size:29
Alignment explanation
Indices: 31151--31232 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
31141 ATTAATAATT
*
31151 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAGTGAAATCAAGC
* *
31178 AAGAAATATGAAAGGAAATGAAAT-AAGC
1 AAGAAATATCAAAGGAAGTGAAATCAAGC
* *
31206 AAGAAATATCTAAGGAAGAGAAATCAA
1 AAGAAATATCAAAGGAAGTGAAATCAA
31233 TGAAGAGGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 10 0.22
28 33 0.73
29 2 0.04
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.13
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAGTGAAATCAAGC
Found at i:33658 original size:13 final size:13
Alignment explanation
Indices: 33640--33665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33630 TACACACAAT
33640 ATGTATCCATACA
1 ATGTATCCATACA
33653 ATGTATCCATACA
1 ATGTATCCATACA
33666 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
ATGTATCCATACA
Found at i:33685 original size:33 final size:32
Alignment explanation
Indices: 33622--33685 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
33612 TTAACTGTTT
*
33622 TGTATCAATACACACAATATGTATCCATACAA
1 TGTATCAATACACACAAAATGTATCCATACAA
* * *
33654 TGTATCCATACATCCCAAAATGTATCGATACA
1 TGTATCAATACA-CACAAAATGTATCCATACA
33686 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (32 bp):
TGTATCAATACACACAAAATGTATCCATACAA
Done.