Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020876.1 Corchorus olitorius cultivar O-4 contig20909, 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: 152802
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:1283 original size:318 final size:321
Alignment explanation
Indices: 2--1564 Score: 2221
Period size: 318 Copynumber: 4.8 Consensus size: 321
1 C
* * **
2 TTAATGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTCATTCGGAGT
1 TTAA-GGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATTCGAAAA
* * * *
67 AAAATTGGAAAAATGATATTAGAAGCGTGAAATTTCCGTCAATATTTTTGGCGTTGAATTATATT
65 AAAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATA
132 TTTTTTCCTGAGTATTGTGGCAAAAAATT-GAGAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAA
130 TTTTTT-CTGAGTATTGTGGCAAAAAATTGGA-AAAAAACTTTTCGGGTCAGTTTTTAGCCGAAA
* * * **
196 TAGTGTACTAACCATCACGGTTTTTGGCTAAAAACGTGTTCCCGGGGTCCCGGCTCAGAATTGCA
193 TCGTGTACT-A-CATCACGGTTTTTGGCTAAAAACGCGTTCCC-GGGCCCCGGCTCAGTTTTGCA
** * * * * * * *
261 TGATTTTTTCCAGAAAGCCTCCGTGAAATATCTATATTCGTCGAACCGAATCTCAGCCACCTTAA
255 TGATTTTTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAA
326 AT
320 AT
* * * *
328 TTAAGAACTTGTTTTTACGAGCATCTGAATATTCTTCCGATTTAATTAGAAATTGGTTCGAGAAA
1 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATTCGA-AAA
*
393 AAAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCATTGAATTATATA
65 AAAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATA
* *
458 TTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAACATTTCAGGTCAGTTTTTAGCCGAAAT
130 TTTTTTCTGAGTATTGTGGCAAAAAATTG-GAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAAT
* ** * * *
523 CGTTTAC--CATCACAATTTTTGGCTAAAAACGCGTTCCTGGGCCCCTGCTCAGTTTTGCATCAT
194 CGTGTACTACATCACGGTTTTTGGCTAAAAACGCGTTCCCGGGCCCCGGCTCAGTTTTGCATGAT
* * * * * *
586 TTTTGGCAGAAAGACCCTGTGATATATCTATATTCGTCTAACCAAATCTCCGCCACCTTAAAT
259 TTTTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAAT
* *
649 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTCATTCGGAAAA
1 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATTCGAAAAA
*
714 AAATTGGAAAAATGATATAAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATAT
66 AAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATAT
* *
779 TTTTTTTGTA-TATTGTGGCAAAAAAATTGTAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAAT
131 TTTTTCTG-AGTATTGTGGC-AAAAAATTGGAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAAT
* * * *
843 CGTGTACTAACCA-CTATGGTTTTTGACTAAAAATGCGTTCCCGGGCCCCGGCTCAGTTTTGTAT
194 CGTGTACT-A-CATC-ACGGTTTTTGGCTAAAAACGCGTTCCCGGGCCCCGGCTCAGTTTTGCAT
*
907 GGTTTTTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAA
256 GATTTTTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAA
972 T
321 T
* *
973 TTAAGGA-TTGATTTTTACGAGCATCTGAATCTTGTTCCGATTTAATTATAAATTGATTCCGAAA
1 TTAAGGATTTG-TTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATT-CGAAA
* * *
1037 AAAAATTGGAAAAATGATATTAGAAGCGTAAAAATCCAGTCAATCTTTTTGACGTTGAATTATAT
64 AAAAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATAT
* * *
1102 ATTTTTTCTGA-TATTGTGGCAAAAAATTGTAAAAAAACTTTTCGGGTTAGTTTTTAGACGAAAT
129 ATTTTTTCTGAGTATTGTGGCAAAAAATTGGAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAAT
* * * *
1166 CGTGTACT-C-T-ACGGTTTTTGACTAAAAACGCGTTCCCGGGCCCGGGCTCAATTTTGCAAGAT
194 CGTGTACTACATCACGGTTTTTGGCTAAAAACGCGTTCCCGGGCCCCGGCTCAGTTTTGCATGAT
* *
1228 TATTGGCAAAAAGTCTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAAT
259 TTTTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAAT
*
1291 TTAAGGATTTGTTTTTACGAGCATCTAAATCTTCTTCCGATTTAATTAGAAATTGATTCG-AAAA
1 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATTCGAAAAA
* *
1355 AAATTGGAAAAATGATATTAGAAGCGTGAAATTCCCGTCAATCTTTTTGACGTTGAATTATATAT
66 AAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATAT
1420 TTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATC
131 TTTTTCTGAGTATTGTGGCAAAAAATTG-GAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATC
* * * *
1485 GTGTACTAACCATCACGGTTTTTGGCTAAAAACGTGTTCCCGTGGCCCTGACTCAGCTTTGCATG
195 GTGTACT-A-CATCACGGTTTTTGGCTAAAAACGCGTTCCCG-GGCCCCGGCTCAGTTTTGCATG
1550 ATTTTTGGCAGAAAA
257 ATTTTTGGCA-AAAA
1565 TATCTCAACT
Statistics
Matches: 1113, Mismatches: 101, Indels: 47
0.88 0.08 0.04
Matches are distributed among these distances:
316 75 0.07
317 20 0.02
318 197 0.18
319 3 0.00
320 122 0.11
321 140 0.13
322 28 0.03
323 80 0.07
324 188 0.17
325 151 0.14
326 107 0.10
327 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (321 bp):
TTAAGGATTTGTTTTTACGAGCATCTGAATCTTCTTCCGATTTAATTAGAAATTGATTCGAAAAA
AAATTGGAAAAATGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTTGGCGTTGAATTATATAT
TTTTTCTGAGTATTGTGGCAAAAAATTGGAAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCG
TGTACTACATCACGGTTTTTGGCTAAAAACGCGTTCCCGGGCCCCGGCTCAGTTTTGCATGATTT
TTGGCAAAAAGACTCTGTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAAT
Found at i:3855 original size:264 final size:268
Alignment explanation
Indices: 3370--3908 Score: 743
Period size: 264 Copynumber: 2.0 Consensus size: 268
3360 AAATCTAATA
*
3370 TTAGAATTGAAAAATTAAAATTATCATTGCCTTGAATTTAGAGAATTTTTATTCTTTATTTAATT
1 TTAGAATTGAAAAATTAAAATTATCATTGCCTTGAATTTAGAG-ATATTTATTCTTTATTT-ATT
* * *
3435 AGGAGAAGGGTTTAAAATCTTACTATTGAGTAGGATCATGTACCGATTAATGGACATCATATGGT
64 AGGAGAAGGGTCTAAAATCTTACTATTGAATAGGATCATGTACCGATTAATGGACATCATATAGT
* * *
3500 CGGACAAATGATATATATAGACACATCCACACACTATAACGTGCGTTGACGTCACATGAAAATTT
129 CGGACAAATGATATATATAGACACACCCACACACTATAACGTGCGTTGACGTCACATGAAAAATC
* * * * *
3565 TAACTTTCGTCATGCTAACGTCACCAAATATTTTCATCTAATGACTTT-TTTTTTTCTTTTTG-G
194 AAACTTTCGCCATGCTAACATCACCAAATATTTACATCTAATGACTTTCTTTCTTTCTTTTTGTG
3628 TTAAAAAAATT
259 TT-AAAAAATT
* *
3639 TTAGAATTGAAAAAATTAAATTTATCATTGCCTTGAATTTTGAG-TATTTATTCTTTA-TT-TT-
1 TTAGAATTG-AAAAATTAAAATTATCATTGCCTTGAATTTAGAGATATTTATTCTTTATTTATTA
* *
3700 GGAGAAGGGTCTACAATCTTATTATTGAATAGGATCATGTACCGATTAATGGACATCATATAGTC
65 GGAGAAGGGTCTAAAATCTTACTATTGAATAGGATCATGTACCGATTAATGGACATCATATAGTC
* * * *
3765 GGACGAATGTATATATATATAGACACCCACACACTGTAACGTGCGTTGACGTCACAT-AAAAATC
130 GGACAAATG-ATATATATAGACACACCCACACACTATAACGTGCGTTGACGTCACATGAAAAATC
* **
3829 AAAC-TTCTGCCATGCTAACATCACCAAATATTTACATCTACTTTCTTTCTTTCTTTCTTTTTGT
194 AAACTTTC-GCCATGCTAACATCACCAAATATTTACATCTAATGACTTTCTTTCTTTCTTTTTG-
3893 TTGTTAAAAAATT
257 -TGTTAAAAAATT
3906 TTA
1 TTA
3909 ATTTGTACAT
Statistics
Matches: 240, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
263 3 0.01
264 110 0.46
265 58 0.24
267 13 0.05
268 15 0.06
269 9 0.04
270 32 0.13
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (268 bp):
TTAGAATTGAAAAATTAAAATTATCATTGCCTTGAATTTAGAGATATTTATTCTTTATTTATTAG
GAGAAGGGTCTAAAATCTTACTATTGAATAGGATCATGTACCGATTAATGGACATCATATAGTCG
GACAAATGATATATATAGACACACCCACACACTATAACGTGCGTTGACGTCACATGAAAAATCAA
ACTTTCGCCATGCTAACATCACCAAATATTTACATCTAATGACTTTCTTTCTTTCTTTTTGTGTT
AAAAAATT
Found at i:12699 original size:25 final size:25
Alignment explanation
Indices: 12668--12718 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
12658 TTGTTCCTTA
*
12668 TCTTTCTTACAAGAGTGTTTGATTT
1 TCTTTCTCACAAGAGTGTTTGATTT
*
12693 TCTTTCTCACAAGTGTGTTTGATTT
1 TCTTTCTCACAAGAGTGTTTGATTT
12718 T
1 T
12719 GCCAGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.53
Consensus pattern (25 bp):
TCTTTCTCACAAGAGTGTTTGATTT
Found at i:22859 original size:12 final size:12
Alignment explanation
Indices: 22842--22866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22832 TTAGAATGAA
22842 TGTCCATCAGAC
1 TGTCCATCAGAC
22854 TGTCCATCAGAC
1 TGTCCATCAGAC
22866 T
1 T
22867 AATAAGAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TGTCCATCAGAC
Found at i:28833 original size:3 final size:3
Alignment explanation
Indices: 28825--28905 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
28815 AATTAATATA
28825 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28873 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28906 ATTTATAAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30101 original size:100 final size:102
Alignment explanation
Indices: 29985--30354 Score: 342
Period size: 106 Copynumber: 3.7 Consensus size: 102
29975 TCTTGATATA
* *
29985 TAATATAAATTAGCTTATATAATCTATAGGTTCCTATGGTTTAGTTA-TGGTAAACCCTTCAGTA
1 TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTATTGGTAAACCTTTCAGTA
* * *
30049 -CAACAGGAGTAGATCTTGATATATAAGTTTGAGGGC
66 TCAACAGGAGTAGATCTTGAGATACAACTTTGAGGGC
**
30085 TAATATAAATTAGCTTATGCAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAAACCTTTCA
1 TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTA---TTGGTAAACCTTTCA
* * * * ** * * *
30150 CTATCTA-A-TAGTCACATCAACAGGGATCCATCTTTGAGGGC
63 GTATCAACAGGAGT-AGATC--TTGAGATACAACTTTGAGGGC
30191 TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAAACCTTTCA
1 TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTA---TTGGTAAACCTTTCA
30256 GTATCTCAACA-G-G-AG----TG-GAT----C-TTGAGGGC
63 GTA--TCAACAGGAGTAGATCTTGAGATACAACTTTGAGGGC
*
30285 TAATATAAATTAGCTTATGTAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAAACCTTTCA
1 TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTA---TTGGTAAACCTTTCA
30350 GTATC
63 GTATC
30355 TAAGAGTCAC
Statistics
Matches: 235, Mismatches: 24, Indels: 30
0.81 0.08 0.10
Matches are distributed among these distances:
92 2 0.01
94 75 0.32
95 1 0.00
99 3 0.01
100 45 0.19
103 3 0.01
104 20 0.09
105 2 0.01
106 79 0.34
108 4 0.02
109 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (102 bp):
TAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTATTGGTAAACCTTTCAGTA
TCAACAGGAGTAGATCTTGAGATACAACTTTGAGGGC
Found at i:30323 original size:200 final size:205
Alignment explanation
Indices: 30077--30469 Score: 600
Period size: 200 Copynumber: 1.9 Consensus size: 205
30067 ATATATAAGT
30077 TTGAGGGCTAATATAAATTAGCTTATGCAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
1 TTGAGGGCTAATATAAATTAGCTTATGCAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
* ** *** *
30142 ACCTTTCACTATCTAATAGTCACATCAACA-GGGA-TC-CATCTTTGAGGGCT-A-AT-ATAAAT
66 ACCTTTCACTATCTAAGAGTCACATCAACATAAGAGTCACATC-AACAGGGATGATATCATAAAT
*
30201 TAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAAACCTTTCAGTATCTCAAC
130 TAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTCAAC
30266 AGGAGTGGATC
195 AGGAGTGGATC
*
30277 TTGAGGGCTAATATAAATTAGCTTATGTAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
1 TTGAGGGCTAATATAAATTAGCTTATGCAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
* *
30342 ACCTTTCAGTATCTAAGAGTCACATCAACATCTAAGAGTCACATCAACAGGGATGGATCTCATAA
66 ACCTTTCACTATCTAAGAGTCACATCAACA--TAAGAGTCACATCAACAGGGAT-GATATCATAA
*
30407 ATTAGCTTATGTAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCT
128 ATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCT
30470 AAGAGTCACA
Statistics
Matches: 172, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
200 92 0.53
203 2 0.01
204 7 0.04
205 4 0.02
206 1 0.01
207 1 0.01
208 65 0.38
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (205 bp):
TTGAGGGCTAATATAAATTAGCTTATGCAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
ACCTTTCACTATCTAAGAGTCACATCAACATAAGAGTCACATCAACAGGGATGATATCATAAATT
AGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTCAACA
GGAGTGGATC
Found at i:30328 original size:94 final size:94
Alignment explanation
Indices: 30183--30355 Score: 337
Period size: 94 Copynumber: 1.8 Consensus size: 94
30173 GGATCCATCT
30183 TTGAGGGCTAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
1 TTGAGGGCTAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
30248 ACCTTTCAGTATCTCAACAGGAGTGGATC
66 ACCTTTCAGTATCTCAACAGGAGTGGATC
*
30277 TTGAGGGCTAATATAAATTAGCTTATGTAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
1 TTGAGGGCTAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
30342 ACCTTTCAGTATCT
66 ACCTTTCAGTATCT
30356 AAGAGTCACA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (94 bp):
TTGAGGGCTAATATAAATTAGCTTATATAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGGTAA
ACCTTTCAGTATCTCAACAGGAGTGGATC
Found at i:30376 original size:19 final size:19
Alignment explanation
Indices: 30352--30390 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30342 ACCTTTCAGT
30352 ATCTAAGAGTCACATCAAC
1 ATCTAAGAGTCACATCAAC
30371 ATCTAAGAGTCACATCAAC
1 ATCTAAGAGTCACATCAAC
30390 A
1 A
30391 GGGATGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.21
Consensus pattern (19 bp):
ATCTAAGAGTCACATCAAC
Found at i:30550 original size:77 final size:77
Alignment explanation
Indices: 30418--30562 Score: 272
Period size: 77 Copynumber: 1.9 Consensus size: 77
30408 TTAGCTTATG
*
30418 TAATCTATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTAAGAGTCACATCT
1 TAATATATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTAAGAGTCACATCT
30483 TGAGGTGAGGGC
66 TGAGGTGAGGGC
*
30495 TAATATATAGGCTCCTATGGTTTAGTTAGTTTTGGTAAACCTTTCAGTATCTAAGAGTCACATCT
1 TAATATATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTAAGAGTCACATCT
30560 TGA
66 TGA
30563 AGGGTGGAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (77 bp):
TAATATATAGGCTCCTATGGTTTAGTTAGTTTTGATAAACCTTTCAGTATCTAAGAGTCACATCT
TGAGGTGAGGGC
Found at i:31208 original size:13 final size:13
Alignment explanation
Indices: 31190--31226 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
31180 ATCTCAACAC
31190 GAAACAATTCAGA
1 GAAACAATTCAGA
31203 GAAACAATTCAGA
1 GAAACAATTCAGA
31216 GAAACAATTCA
1 GAAACAATTCA
31227 TCGTTTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (13 bp):
GAAACAATTCAGA
Found at i:36241 original size:102 final size:101
Alignment explanation
Indices: 36065--36341 Score: 358
Period size: 102 Copynumber: 2.7 Consensus size: 101
36055 CTCCTTACTT
* * * * * *
36065 TCCTTAGGACTTCTTGTGGTAACCACACTGTCACAATTTCTACTTTGCCTCCGCTCTTTCATCTT
1 TCCTTAGG-CTTCTTGTGGTAACCACACTTTCAGAATTTCTGCTTCGCCTCCGCACTCTCATCTT
*
36130 GATCAAGGAGGCAATGACTTCATTATCGGAGTCATCC
65 GATCAAGGAGGCAATGACTTCATTATCAGAGTCATCC
* *
36167 TCCTTAGAGCTTCTTGTGGTAACCACACTTTCAGAATTTCTGCTTCGCCTCCGCACTCTCTTGTT
1 TCCTTAG-GCTTCTTGTGGTAACCACACTTTCAGAATTTCTGCTTCGCCTCCGCACTCTCATCTT
* * *
36232 GATGAAGGAGGCAATGACTTCATTATCAGATTTATCC
65 GATCAAGGAGGCAATGACTTCATTATCAGAGTCATCC
* ** * *
36269 TCCTTGGGGCTTCTTGTGGTAACCACA-TTGTCAGAATTTCTGCTTCGCCTCCGCTGTTTCATGT
1 TCCTT-AGGCTTCTTGTGGTAACCACACTT-TCAGAATTTCTGCTTCGCCTCCGCACTCTCATCT
36333 TGATCAAGG
64 TGATCAAGG
36342 CAATGATTTC
Statistics
Matches: 154, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
101 2 0.01
102 150 0.97
103 2 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (101 bp):
TCCTTAGGCTTCTTGTGGTAACCACACTTTCAGAATTTCTGCTTCGCCTCCGCACTCTCATCTTG
ATCAAGGAGGCAATGACTTCATTATCAGAGTCATCC
Found at i:39314 original size:24 final size:24
Alignment explanation
Indices: 39278--39328 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
39268 TATGTCGATT
39278 CGGTCTGAAAACGAAATCACT-GAC
1 CGGTCTGAAAACGAAATCA-TGGAC
*
39302 CGGTCTGATAACGAAATCATGGAC
1 CGGTCTGAAAACGAAATCATGGAC
39326 CGG
1 CGG
39329 GCCGAGACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (24 bp):
CGGTCTGAAAACGAAATCATGGAC
Found at i:45869 original size:31 final size:32
Alignment explanation
Indices: 45807--45870 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
45797 CTGTAAGCAG
*
45807 AAAAATCATAACAAAATCCTACCTTTTCTAGT
1 AAAAATCACAACAAAATCCTACCTTTTCTAGT
*
45839 AAAACTCACAACAAAATCCTACC-TTTCTAGT
1 AAAAATCACAACAAAATCCTACCTTTTCTAGT
45870 A
1 A
45871 TCTACCACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (32 bp):
AAAAATCACAACAAAATCCTACCTTTTCTAGT
Found at i:46225 original size:3 final size:3
Alignment explanation
Indices: 46219--46254 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
46209 GAAAACCTTG
46219 CTT CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CT
46255 CGATAATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:47973 original size:19 final size:19
Alignment explanation
Indices: 47949--47986 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47939 CTGTTTAGCA
47949 ACTGTACAGATGAGATTAT
1 ACTGTACAGATGAGATTAT
*
47968 ACTGTATAGATGAGATTAT
1 ACTGTACAGATGAGATTAT
47987 TAGAGCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAT
Found at i:48674 original size:13 final size:13
Alignment explanation
Indices: 48656--48682 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48646 AAACGGAAAA
48656 TCCAGAAGTGCTT
1 TCCAGAAGTGCTT
48669 TCCAGAAGTGCTT
1 TCCAGAAGTGCTT
48682 T
1 T
48683 TTCAGTTGTT
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:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
TCCAGAAGTGCTT
Found at i:62020 original size:13 final size:13
Alignment explanation
Indices: 62001--62032 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61991 ATTCTTTTTG
62001 ACCCTCCAATTTA
1 ACCCTCCAATTTA
*
62014 TCCCTCCAATTTA
1 ACCCTCCAATTTA
62027 ACCCTC
1 ACCCTC
62033 ATAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.25, C:0.44, G:0.00, T:0.31
Consensus pattern (13 bp):
ACCCTCCAATTTA
Found at i:65402 original size:2 final size:2
Alignment explanation
Indices: 65395--65421 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65385 AAGCTTCGAA
65395 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
65422 TTCCTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:71323 original size:1 final size:1
Alignment explanation
Indices: 71312--71345 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
71302 TTATGTCCGG
* *
71312 TTTTTTGTTTTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
71346 AAAGATAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:86660 original size:3 final size:3
Alignment explanation
Indices: 86614--86641 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
86604 AGGTATGCAT
86614 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
86642 GACATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94386 original size:28 final size:27
Alignment explanation
Indices: 94346--94408 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
94336 AATGTAAAAA
94346 AAAAAAAAAAAAGA-AAGCAAAGGAAAGG
1 AAAAAAAAAAAAGACAAG-AAA-GAAAGG
**
94374 AAAAAAATTAAAGAGCAAGAAAGAAAGG
1 AAAAAAAAAAAAGA-CAAGAAAGAAAGG
*
94402 AAGAAAA
1 AAAAAAA
94409 GAAACAGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 24 0.80
29 3 0.10
30 3 0.10
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAAAAGACAAGAAAGAAAGG
Found at i:106885 original size:6 final size:6
Alignment explanation
Indices: 106874--106917 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
106864 GCACAAACCT
*
106874 CATCAG CATCAG CATCAG CATCAG CATCAG CATCAG CATAAG CA
1 CATCAG CATCAG CATCAG CATCAG CATCAG CATCAG CATCAG CA
106918 GTTTCTATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
CATCAG
Found at i:109275 original size:19 final size:19
Alignment explanation
Indices: 109251--109294 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
109241 ATCTGTAACC
109251 GTTTCACCACCGTTTGACT
1 GTTTCACCACCGTTTGACT
109270 GTTTCACCACCGTTTGACT
1 GTTTCACCACCGTTTGACT
*
109289 GATTCA
1 GTTTCA
109295 TCACTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (19 bp):
GTTTCACCACCGTTTGACT
Found at i:109379 original size:21 final size:20
Alignment explanation
Indices: 109353--109407 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
109343 CGCTGCTCTA
109353 ATAATCTCATCTGTACGGTA-T
1 ATAATCTCATCTGTAC--TAGT
*
109374 ATAATCTAATCTGTA-TAGT
1 ATAATCTCATCTGTACTAGT
109393 ATAATCTCAT-TGTAC
1 ATAATCTCATCTGTAC
109408 AGTTGTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
21 14 0.47
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
ATAATCTCATCTGTACTAGT
Found at i:111407 original size:6 final size:6
Alignment explanation
Indices: 111388--111422 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
111378 ATTATCTACT
* *
111388 ATTATT ATTGTC ATTATC ATTATC ATTATC ATTAT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTAT
111423 ATATGTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (6 bp):
ATTATC
Found at i:138286 original size:38 final size:38
Alignment explanation
Indices: 138232--138310 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
138222 ACTATCTCAA
138232 TGCTTGCTTTCCTGTAATTGCTTGATGACATTGTTTGC
1 TGCTTGCTTTCCTGTAATTGCTTGATGACATTGTTTGC
*
138270 TGCTTGCTTTCTTGTAATTGCTTGATGACATTGTTTGC
1 TGCTTGCTTTCCTGTAATTGCTTGATGACATTGTTTGC
138308 TGC
1 TGC
138311 AATTAGGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.48
Consensus pattern (38 bp):
TGCTTGCTTTCCTGTAATTGCTTGATGACATTGTTTGC
Found at i:151795 original size:331 final size:329
Alignment explanation
Indices: 150398--152785 Score: 3162
Period size: 331 Copynumber: 7.2 Consensus size: 329
150388 TTTTTCCAAT
*
150398 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAGATACTCATAAAAAATATA
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
* * *
150463 TAATTCAAAGCCAAAAAGTTTGAAGGGCTTTTAATGTTTCTAATATCGTTTTTCCAATTTTTTCC
66 TAATTCAACG-CAAAAAATTTGAA-GGCGTTTAATGTTTCTAATATCG-TTTTCCAATTTTTTCC
* * * * *
150528 TAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTCAAATCCA
128 TAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCA
* *
150593 ATGTGGCTGAGATTTGGTCAGATGAATATAGATATATTAACGACTCTCGGCGCCAAAAATCATGC
193 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGC
* * *
150658 AAAACTGTGTCGGTG-CCCGAAACCCATTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTC
258 AAAACTGT-TCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
*
150722 AGCTAAAA
322 GGCTAAAA
* * *
150730 TTTTGCAAAAATGGACACGAAATATTTTTCCTCAATTTTTGGCCAAATTACTCA-AAAAAA-ATA
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
* *
150793 TTATTCAATGCAAAAAAGTTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCTA
66 TAATTCAACGCAAAAAA-TTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCTA
* * * *
150858 AAATAATTTCTGATTAAATCGAAACCATATATAAATGCTCATAAAAACTAATCATCAATTCCAAT
130 AATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAAT
* * * * *
150923 GTGGTTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTTGGCGCAAAAAAATGATGCA
195 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGC-CAAAAATCATGC-
* ** * * *
150988 AAAAATGTTCCGGTGCCCCTAAACACGCGTTTTTAGCCAAAAATCGTGATGGTTAATACACGATT
258 AAAACTGTT-CGGTGCCCC-GGA-ACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATT
151053 TCGGCTAAAA
320 TCGGCTAAAA
* * ** *
151063 TTTTGCAAAAATTGAGCCGAAATATTTTTTTCTCAATTTTTGGCCAAGTTACTCTTAAAAAATAT
1 TTTTGCAAAAATTGACCCGAAATA-TTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATAT
* * * * * *
151128 ATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATCGTTTTCCCAATTTTTTC
65 ATAATTCAACG-CAAAAAATTTGAA-GGCGTTTAATGTTTCTAATATCGTTTT-CCAATTTTTTC
* * * *
151193 CTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCCTCAAATCC
127 CTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCC
* * * * *
151258 AATTTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGTGCCAAAATTCATG
192 AATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATG
* *
151323 CAAAACTGTGTCGGTG-CCCGGAACACATTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTT
257 CAAAACTGT-TCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
151387 CGGCTAAAA
321 CGGCTAAAA
* *
151396 CTTTGC-AAAATTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAATATAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAA-ATAT
* * * *
151460 ATAATTCAACGCAAAAAATATTGAAGGCGTTTAATATTTCTAATATCATTTTCCAATTATTGCCT
65 ATAATTCAACGCAAAAAAT-TTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCT
*
151525 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAG
129 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAA
* ** *
151590 TGTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTTGCGCCAAAAATCATGCG
194 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGCA
** * * *
151655 AAACTGTTCTGGTGCCCCGGAACGCATTTTTAAACAAAAACCGTAATGGGTAGTGCACGATTTCG
259 AAACTGTTC-GGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
151720 GCTAAAA
323 GCTAAAA
* * *
151727 CTTTGC-AAAATTGACCTGGAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATGAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAAT-AT
* * * * *
151791 ATAATTCAACGCAAAAATTTTTGAAGGCGTTTAATATTTCTAATATCTTTTTCCAATTATTGCCT
65 ATAATTCAACGCAAAAA-ATTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCT
*
151856 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAAACCAA
129 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAA
* **
151921 GGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGTACCAAAAATCATGCA
194 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGCA
** * ** * *
151986 AAACTGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTTGTACACGATTT
259 AAACTG-TTCGGTGCCCC-GGA-ACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
152051 CGGCTAAAA
321 CGGCTAAAA
* *
152060 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGACCAAGATACTCATAAAAAAATAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAAAATAT
* * ** * * *
152125 ATAATTTAATGCAAAAGGTTTGAAGGGCTTTTGACGTTTCTAATATCGTTTTTCCAATTTTTTCC
65 ATAATTCAACGCAAAAAATTTGAA-GGCGTTTAATGTTTCTAATATCG-TTTTCCAATTTTTTCC
* * * * * * * *
152190 TAAATTAATTTTTGATTAAATCGAAACAAGATTTAGATGCTCGTAAAATCAAATCCTCGAATCCA
128 TAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCA
* *
152255 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATGTTAACGATTCTCGGCGCCAAAAATCATGC
193 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGC
* * * * *
152320 AAAACTGTGTCGGTG-CCCGGAACGTATTTTTAGGCAATAA--TTG-T-GAT-GTACACGATTTC
258 AAAACTGT-TCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
152379 GGCTAAAA
322 GGCTAAAA
* *
152387 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCGATATTTGGCCAAAATACTCATAAAAAAATAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAAAATAT
* *
152452 ATAATTCAACGCAAAAAATTTTGAAGGCGTTTAACGTTTCTAATATTGTTTTCCAATTTTTTCCT
65 ATAATTCAACGCAAAAAA-TTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCT
* *
152517 AAATTAATTTCTGATTAAATAGAAACCAGATATGGATGCTCATAAAAACTAATCATCAAATCCAA
129 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAA
* * * * *
152582 TGTGGCTGAGAATTGGTTAGATGAATATAGATATTGTAACGACTCTTGGCACAAAAAATCATGCA
194 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGCA
** * * * * * *
152647 AAACTGAACCGGTGCCTCTGAACGCATTTTTAGCCGAAAACCGTAATGGGTAGTGCACGATTTCG
259 AAACTG-TTCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
152712 GCTAAAA
323 GCTAAAA
* ** * *
152719 TTTTGCAAAAGTTGACCTTAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAATATATATA
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
152784 TA
66 TA
152786 TATATATATA
Statistics
Matches: 1801, Mismatches: 219, Indels: 73
0.86 0.10 0.03
Matches are distributed among these distances:
326 141 0.08
327 134 0.07
328 128 0.07
329 43 0.02
330 172 0.10
331 387 0.21
332 172 0.10
333 175 0.10
334 109 0.06
335 157 0.09
336 28 0.02
337 40 0.02
338 115 0.06
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (329 bp):
TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
TAATTCAACGCAAAAAATTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTTTTTCCTAA
ATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAATG
TGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGCGCCAAAAATCATGCAAA
ACTGTTCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
AAAA
Found at i:152310 original size:666 final size:660
Alignment explanation
Indices: 150398--152775 Score: 3246
Period size: 666 Copynumber: 3.6 Consensus size: 660
150388 TTTTTCCAAT
*
150398 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAGATACTCATAAAAAATATA
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
* *
150463 TAATTCAAAGCCAAAAAGTTTGAAGGGCTTTTAATGTTTCTAATATCGTTTTTCCAATTTTTTCC
66 TAATTCAAAGCCAAAAAGTTTGAAGGGCGTTTAACGTTTCTAATATCGTTTTTCCAATTTTTTCC
* * *
150528 TAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTCAAATCCA
131 TAAATTAATTTCTGATTAAATCGAAACAAGATATAGATGCTCATAAAAACAAATCATCAAATCCA
* *
150593 ATGTGGCTGAGATTTGGTCAGATGAATATAGATATATTAACGACTCTCGGCGCCAAAAATCATGC
196 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGCACCAAAAATCATGC
* * *
150658 AAAACTGTGTCGGTGCCCGAAAC-CCATTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTC
261 AAAACTGAGCCGGTGCCCGAAACACCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
* * * *
150722 AGCTAAAATTTTGCAAAAATGGACACGAAATATTTTTCCTCAATTTTTGGCCAAATTACTCA-AA
326 GGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAA
150786 AAAAATAT-T-ATTCAATGCAAAAAAGTTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAAT
391 AAAAATATATAATTCAATGC-AAAAAGTTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAAT
* * *
150849 TTTTTCCTAAAATAATTTCTGATTAAATCGAAACCATATATAAATGCTCATAAAAACTAATCATC
455 TTTTTCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATC
* * *
150914 AATTCCAATGTGGTTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTTGGCGCAAAAA
520 AA-TCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGC-CAAA
* * ** * * *
150979 AATGATGCAAAAAATGTTCCGGTGCCCCTAAACACGCGTTTTTAGCCAAAAATCGTGATGGTTAA
583 AATCATGC-AAAACTGTT-CGGTGCCCC-GGA-ACGCATTTTTAGACAAAAATCGTGATGGGT-A
151044 TACACGATTTCGGCTAAAA
643 T-CACGATTTCGGCTAAAA
* * ** *
151063 TTTTGCAAAAATTGAGCCGAAATATTTTTTTCTCAATTTTTGGCCAAGTTACTCTTAAAAAATAT
1 TTTTGCAAAAATTGACCCGAAATA-TTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATAT
* * * *
151128 ATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATCGTTTTCCCAATTTTTTC
65 ATAATTCAAAGCCAAAAAGTTTGAAGGGCGTTTAACGTTTCTAATATCGTTTTTCCAATTTTTTC
* *
151193 CTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAATCCTCAAATCC
130 CTAAATTAATTTCTGATTAAATCGAAACAAGATATAGATGCTCATAAAAACAAATCATCAAATCC
* * ** *
151258 AATTTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGTGCCAAAATTCATG
195 AATGTGGCTGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGCACCAAAAATCATG
* * * *
151323 CAAAACTGTGTCGGTGCCCGGAACA-CATTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTT
260 CAAAACTGAGCCGGTGCCCGAAACACCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
* *
151387 CGGCTAAAACTTTGC-AAAATTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATA
325 CGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATA
* * * * *
151451 AAAATATATATAATTCAACGCAAAAAATATTGAAGGCGTTTAATATTTCTAATATCATTTTCCAA
390 AAAAAATATATAATTCAATGCAAAAAGT-TTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAA
* *
151516 TTATTGCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCAT
454 TTTTTTCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCAT
* * *
151581 CAAATCCAGTGTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTTGCGCCAAA
519 C-AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAA
* * * *
151646 AATCATGCGAAACTGTTCTGGTGCCCCGGAACGCATTTTTAAACAAAAACCGTAATGGGTAGTGC
583 AATCATGCAAAACTGTTC-GGTGCCCCGGAACGCATTTTTAGACAAAAATCGTGATGGGTA-T-C
151711 ACGATTTCGGCTAAAA
645 ACGATTTCGGCTAAAA
* * *
151727 CTTTGC-AAAATTGACCTGGAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATGAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAAT-AT
* * ** * *
151791 ATAATTCAACG-CAAAAATTTTTGAA-GGCGTTTAATATTTCTAATATC-TTTTTCCAATTATTG
65 ATAATTCAAAGCCAAAAA-GTTTGAAGGGCGTTTAACGTTTCTAATATCGTTTTTCCAATTTTTT
* * *
151853 CCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAAAC
129 CCTAAATTAATTTCTGATTAAATCGAAACAAGATATAGATGCTCATAAAAACAAATCATCAAATC
* * *
151918 CAAGGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGTACCAAAAATCAT
194 CAATGTGGCTGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGCACCAAAAATCAT
* * * *
151983 GCAAAACTGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTTGTACACGA
259 GCAAAACTGAGCCGGTG-CCCGAAACAC-CATTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* *
152048 TTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGACCAAGATACTC
322 TTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTC
* * * * *
152113 ATAAAAAAATATATAATTTAATGCAAAAGGTTTGAAGGGCTTTTGACGTTTCTAATATCGTTTTT
387 ATAAAAAAATATATAATTCAATGCAAAAAGTTTGAA-GGCGTTTAATGTTTCTAATATCG-TTTT
* * * * * *
152178 CCAATTTTTTCCTAAATTAATTTTTGATTAAATCGAAACAAGATTTAGATGCTCGTAAAATCAAA
450 CCAATTTTTTCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAA
* * * *
152243 TCCTCGAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATGTTAACGATTCTCGGCGC
515 TCATC-AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGC
* * * *
152308 CAAAAATCATGCAAAACTGTGTCGGTG-CCCGGAACGTATTTTTAGGCAATAATTGTGAT--GTA
579 CAAAAATCATGCAAAACTGT-TCGGTGCCCCGGAACGCATTTTTAGACAAAAATCGTGATGGGTA
152370 -CACGATTTCGGCTAAAA
643 TCACGATTTCGGCTAAAA
* *
152387 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCGATATTTGGCCAAAATACTCATAAAAAAATAT
1 TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAAAATAT
* * * *
152452 ATAATTCAACGCAAAAAATTTTGAA-GGCGTTTAACGTTTCTAATATTG-TTTTCCAATTTTTTC
65 ATAATTCAAAGCCAAAAAGTTTGAAGGGCGTTTAACGTTTCTAATATCGTTTTTCCAATTTTTTC
* * * *
152515 CTAAATTAATTTCTGATTAAATAGAAACCAGATATGGATGCTCATAAAAACTAATCATCAAATCC
130 CTAAATTAATTTCTGATTAAATCGAAACAAGATATAGATGCTCATAAAAACAAATCATCAAATCC
* * *
152580 AATGTGGCTGAGAATTGGTTAGATGAATATAGATAT-TGTAACGACTCTTGGCACAAAAAATCAT
195 AATGTGGCTGAGATTTGGTTAGATGAATATAGATATAT-TAACGACTCTCGGCACCAAAAATCAT
* * * * * *
152644 GCAAAACTGAACCGGTGCCTCTG-AAC-GCATTTTTAGCCGAAAACCGTAATGGGTAGTGCACGA
259 GCAAAACTGAGCCGGTGCC-C-GAAACACCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGA
* **
152707 TTTCGGCTAAAATTTTGCAAAAGTTGACCTTAAATATTTTTCCTCAATTTTTGGCCAAAATACTC
322 TTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTC
152772 ATAA
387 ATAA
152776 TATATATATA
Statistics
Matches: 1528, Mismatches: 160, Indels: 56
0.88 0.09 0.03
Matches are distributed among these distances:
659 94 0.06
660 25 0.02
661 379 0.25
662 77 0.05
663 35 0.02
664 102 0.07
665 180 0.12
666 460 0.30
667 19 0.01
668 155 0.10
669 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (660 bp):
TTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATA
TAATTCAAAGCCAAAAAGTTTGAAGGGCGTTTAACGTTTCTAATATCGTTTTTCCAATTTTTTCC
TAAATTAATTTCTGATTAAATCGAAACAAGATATAGATGCTCATAAAAACAAATCATCAAATCCA
ATGTGGCTGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGCACCAAAAATCATGC
AAAACTGAGCCGGTGCCCGAAACACCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
GGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAA
AAAAATATATAATTCAATGCAAAAAGTTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATT
TTTTCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCA
ATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAAAAT
CATGCAAAACTGTTCGGTGCCCCGGAACGCATTTTTAGACAAAAATCGTGATGGGTATCACGATT
TCGGCTAAAA
Found at i:152338 original size:996 final size:990
Alignment explanation
Indices: 150399--152775 Score: 3591
Period size: 996 Copynumber: 2.4 Consensus size: 990
150389 TTTTCCAATT
*
150399 TTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAGATACTCATAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATAT
* * * *
150464 AATTCAAAGCCAAAAAGTTTGAAGGGCTTTTAATGTTTCTAATATCGTTTTTCCAATTTTTTCCT
66 AATTCAACG-CAAAAAATTTGAA-GGCGTTTAATGTTTCTAATATC-ATTTTCCAATTTTTTCCT
* * * * *
150529 AAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTCAAATCCAA
128 AAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAA
* * * *
150594 TGTGGCTGAGATTTGGTCAGATGAATATAGATATATTAACGACTCTCGGCGCCAAAAATCATGCA
193 TGTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAAAATCATGCA
* * * ** * *
150659 AAACTGTGTCGGTG-CCCGAAACCCATTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCA
258 AAACTGT-TCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTAATGGGTAGTGCACGATTTCG
* *
150723 GCTAAAATTTTGCAAAAATGGACAC-GAAATATTTTTCCTCAATTTTTGGCCAAATTACTCA-AA
322 GCTAAAATTTTGC-AAAATTGAC-CTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAA
* * * *
150786 AAAAATATTATTCAATGCAAAAAAGTTTGAAGGCGTTTAATGTTTCTAATATCGTTTTCCAATTT
385 AAAAATATAATTCAACGCAAAAAAGTTTGAAGGCGTTTAATATTTCTAATATCGTTTTCCAATTA
* *
150851 TTTCCTAAAATAATTTCTGATTAAATCGAAACCATATATAAATGCTCATAAAAACTAATCATCAA
450 TTGCCTAAAATAATTTCTGATTAAATCGAAACCAGATATAAATGCTCATAAAAACTAATCATCAA
** * * * *
150916 TTCCAATGTGGTTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTTGGCGCAAAAAAA
515 AACCAAGGTGGCTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTCGGCACAAAAAAA
* ** * *
150981 TGATGCAAAAAATGTTCCGGTGCCCCTAAACACGCGTTTTTAGCCAAAAATCGTGATGGTTAATA
580 TCATGCAAAAAATGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTAATA
* * *
151046 CACGATTTCGGCTAAAATTTTGCAAAAATTGAGCCGAAATATTTTTTTCTCAATTTTTGGCCAAG
645 CACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTTCCTCAATTTTTGACCAAG
* *
151111 TTACTCTTAAAAAATATATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATC
710 ATACTCTAAAAAAATATATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATC
151176 GTTTTCCCAATTTTTTCCTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAA
775 GTTTTCCCAATTTTTTCCTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAA
*
151241 AACAAATCCTCAAATCCAATTTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCT
840 AACAAATCCTCAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCT
* *
151306 CGGTGCCAAAATTCATGCAAAACTGTGTCGGTGCCCGGAACACATTTTTAGCCAAAAATCGTGAT
905 CGGCGCCAAAAATCATGCAAAACTGTGTCGGTGCCCGGAACACATTTTTAGCCAAAAAT--TG-T
*
151371 GGTTAGTACACGATTTCGGCTAAAAC
967 -GAT-GTACACGATTTCGGCTAAAAC
*
151397 TTTGC-AAAATTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAATATATA
1 TTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAA-ATATA
* * *
151461 TAATTCAACGCAAAAAATATTGAAGGCGTTTAATATTTCTAATATCATTTTCCAATTATTGCCTA
65 TAATTCAACGCAAAAAAT-TTGAAGGCGTTTAATGTTTCTAATATCATTTTCCAATTTTTTCCTA
*
151526 AATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAGT
129 AATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAAT
* *
151591 GTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTTGCGCCAAAAATCATGCGA
194 GTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAAAATCATGCAA
**
151656 AACTGTTCTGGTGCCCCGGAACGCATTTTTAAACAAAAACCGTAATGGGTAGTGCACGATTTCGG
259 AACTGTTC-GGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTAATGGGTAGTGCACGATTTCGG
* *
151721 CTAAAACTTTGCAAAATTGACCTGGAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAA
323 CTAAAATTTTGCAAAATTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAA
** *
151786 ATGATATAATTCAACGCAAAAATTTTTGAAGGCGTTTAATATTTCTAATATCTTTTTCCAATTAT
388 A--ATATAATTCAACGCAAAAAAGTTTGAAGGCGTTTAATATTTCTAATATCGTTTTCCAATTAT
* *
151851 TGCCTAAATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAA
451 TGCCTAAAATAATTTCTGATTAAATCGAAACCAGATATAAATGCTCATAAAAACTAATCATCAAA
* * *
151916 ACCAAGGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAACGACTCTCGGTAC-CAAAAAT
516 ACCAAGGTGGCTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTCGGCACAAAAAAAT
* **
151980 CATGC-AAAACTGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTTGTAC
581 CATGCAAAAAATGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTAATAC
152044 ACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATA-TTTTTCCTCAATTTTTGACCAAGA
646 ACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTTCCTCAATTTTTGACCAAGA
* *
152108 TACTCATAAAAAAATATATAATTTAATG-CAAAAGGTTTGAAGGGCTTTTGACGTTTCTAATATC
711 TACTC-TAAAAAAATATATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATC
* * *
152172 GTTTTTCCAATTTTTTCCTAAATTAATTTTTGATTAAATCGAAACAAGATTTAGATGCTCGTAAA
775 GTTTTCCCAATTTTTTCCTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAA
* * * * *
152237 ATCAAATCCTCGAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATGTTAACGATTCT
840 AACAAATCCTCAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCT
** * *
152302 CGGCGCCAAAAATCATGCAAAACTGTGTCGGTGCCCGGAACGTATTTTTAGGCAATAATTGTGAT
905 CGGCGCCAAAAATCATGCAAAACTGTGTCGGTGCCCGGAACACATTTTTAGCCAAAAATTGTGAT
*
152367 GTACACGATTTCGGCTAAAAT
970 GTACACGATTTCGGCTAAAAC
* *
152388 TTTGCAAAAATTGACCCGAAATATTTTTCCTCGATATTTGGCCAAAATACTCATAAAAAAATATA
1 TTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAAAATATA
* **
152453 TAATTCAACGCAAAAAATTTTGAAGGCGTTTAACGTTTCTAATATTGTTTTCCAATTTTTTCCTA
65 TAATTCAACGCAAAAAA-TTTGAAGGCGTTTAATGTTTCTAATATCATTTTCCAATTTTTTCCTA
* *
152518 AATTAATTTCTGATTAAATAGAAACCAGATATGGATGCTCATAAAAACTAATCATCAAATCCAAT
129 AATTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAAT
* * *
152583 GTGGCTGAGAATTGGTTAGATGAATATAGATATTGTAACGACTCTTGGCACAAAAAATCATGCAA
194 GTGGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAAAATCATGCAA
** * * *
152648 AACTGAACCGGTGCCTCTGAACGCATTTTTAGCCGAAAACCGTAATGGGTAGTGCACGATTTCGG
259 AACTG-TTCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTAATGGGTAGTGCACGATTTCGG
*
152713 CTAAAATTTTGCAAAAGTTGACCTTAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAA
323 CTAAAATTTTGCAAAA-TTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAA
152776 TATATATATA
Statistics
Matches: 1252, Mismatches: 113, Indels: 33
0.90 0.08 0.02
Matches are distributed among these distances:
991 25 0.02
992 302 0.24
993 52 0.04
994 2 0.00
995 3 0.00
996 421 0.34
997 248 0.20
998 34 0.03
999 165 0.13
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (990 bp):
TTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATAT
AATTCAACGCAAAAAATTTGAAGGCGTTTAATGTTTCTAATATCATTTTCCAATTTTTTCCTAAA
TTAATTTCTGATTAAATCGAAACCAGATATAGATGCTCATAAAAACTAATCATCAAATCCAATGT
GGCTGAGAATTGGTTAGATGAATATAGATATTTTAACGACTCTTGGCGCCAAAAATCATGCAAAA
CTGTTCGGTGCCCCGGAACGCATTTTTAGCCAAAAACCGTAATGGGTAGTGCACGATTTCGGCTA
AAATTTTGCAAAATTGACCTGAAATATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAAAT
ATAATTCAACGCAAAAAAGTTTGAAGGCGTTTAATATTTCTAATATCGTTTTCCAATTATTGCCT
AAAATAATTTCTGATTAAATCGAAACCAGATATAAATGCTCATAAAAACTAATCATCAAAACCAA
GGTGGCTGAGATTTGGCTAGATGAATATAGATATTTTAACGACTCTCGGCACAAAAAAATCATGC
AAAAAATGAGCCGATGCCCCTAAACACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACACGAT
TTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTTCCTCAATTTTTGACCAAGATACTC
TAAAAAAATATATAATTTAAAGCCAAAAAGTTTGAAGGGCTTTTGACGTTTCTAATATCGTTTTC
CCAATTTTTTCCTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCTCATAAAAACAAA
TCCTCAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATATTAACGACTCTCGGCGC
CAAAAATCATGCAAAACTGTGTCGGTGCCCGGAACACATTTTTAGCCAAAAATTGTGATGTACAC
GATTTCGGCTAAAAC
Found at i:152782 original size:2 final size:2
Alignment explanation
Indices: 152775--152802 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
152765 AATACTCATA
152775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.