Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 17
Found at i:1539110 original size:13 final size:13
Alignment explanation
Indices: 1539092--1539117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1539082 TACAGCATGT
1539092 ATGTATCGATACA
1 ATGTATCGATACA
1539105 ATGTATCGATACA
1 ATGTATCGATACA
1539118 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1541356 original size:21 final size:21
Alignment explanation
Indices: 1541323--1541367 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1541313 TTGCAAGTTG
*
1541323 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1541345 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1541365 AAA
1 AAA
1541368 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1543190 original size:15 final size:15
Alignment explanation
Indices: 1543170--1543201 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1543160 ATAAAAATGT
*
1543170 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
1543185 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
1543200 TC
1 TC
1543202 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1545445 original size:21 final size:21
Alignment explanation
Indices: 1545421--1545467 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1545411 AAATCTTTTG
1545421 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
1545442 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
1545462 CAAAAT
1 CAAAAT
1545468 CAACATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:1545464 original size:20 final size:19
Alignment explanation
Indices: 1545423--1545465 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1545413 ATCTTTTGCA
1545423 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1545443 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1545463 AAA
1 AAA
1545466 ATCAACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1547874 original size:13 final size:13
Alignment explanation
Indices: 1547856--1547881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1547846 TACAGCAAGT
1547856 ATGTATCGATACA
1 ATGTATCGATACA
1547869 ATGTATCGATACA
1 ATGTATCGATACA
1547882 CAAAAAATTT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1554484 original size:17 final size:17
Alignment explanation
Indices: 1554462--1554512 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
1554452 TTTTTTGTAT
*
1554462 TATTTATTTAAAATATA
1 TATTTATTTAAAATAAA
* *
1554479 TATTTAATTT-GAGTAAA
1 TATTT-ATTTAAAATAAA
*
1554496 TATTTATTTAAGATAAA
1 TATTTATTTAAAATAAA
1554513 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TATTTATTTAAAATAAA
Found at i:1557314 original size:20 final size:21
Alignment explanation
Indices: 1557273--1557327 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1557263 AAAAATAGTG
* *
1557273 AATGTATCGATACTTGAGT-A
1 AATGTATCGATACATGACTAA
1557293 AATGTATCGATACAT-ATCTAA
1 AATGTATCGATACATGA-CTAA
1557314 AATGTATCGATACA
1 AATGTATCGATACA
1557328 GGACCATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 15 0.48
21 15 0.48
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATGACTAA
Found at i:1557419 original size:51 final size:51
Alignment explanation
Indices: 1557364--1557501 Score: 170
Period size: 51 Copynumber: 2.7 Consensus size: 51
1557354 TTTGGAAAGA
* * *
1557364 AAATGTATCGATACATTTTTCACTGTATTGATACATTCT-GGATTTGGACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGG-TTTGCACCT
* * *
1557415 AAATGTATCAATACATTATTCATTGTATCGATACATTCTAGGTTTTCACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGGTTTGCACCT
* * * *
1557466 AAATGTATCGATACATTCTTTAATGTATCAATACAT
1 AAATGTATCGATACATTATTCACTGTATCGATACAT
1557502 GCAAGCTATT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 73 0.97
52 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGGTTTGCACCT
Found at i:1558214 original size:30 final size:30
Alignment explanation
Indices: 1558178--1558238 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1558168 AAAAAAAAAG
*
1558178 TTCAAATCTTCTAATATATCCTCTCCTCCT
1 TTCAAATCTTCTAATATATCCTCTCCACCT
*
1558208 TTCAAATCTTCTAGTATATCCTCTCCACCT
1 TTCAAATCTTCTAATATATCCTCTCCACCT
1558238 T
1 T
1558239 GATCCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.43
Consensus pattern (30 bp):
TTCAAATCTTCTAATATATCCTCTCCACCT
Found at i:1564510 original size:71 final size:68
Alignment explanation
Indices: 1564347--1564858 Score: 286
Period size: 69 Copynumber: 7.7 Consensus size: 68
1564337 GGTACCCTAT
* * * * * *
1564347 TTTTTTCTTTTAAAAGCCTACACAAGTT-GCTAGCACCTTTTAGTCCTCAAAAAGTAG-GACGC-
1 TTTTTCCTTTTAAAAGCC-ACACAAGTTAG-TGGCACCTTTTAGTCCTCAAAGAGCAGACACTCT
1564409 TTTTC
64 TTTTC
* * *
1564414 TTTTTTC-TTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAACACCT
1 TTTTTCCTTTTAAAA-G-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAG-ACA-CT
1564478 CTTTTTC
62 CTTTTTC
* * * * * * *
1564485 TTTTTCCTTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAG-GA--C--
1 TTTTTCC-TTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACTCTT
*
1564545 --GC
65 TTTC
* ** *
1564547 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGA-AGTCT
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG-CAGACACTC-
1564611 TTTTTC
63 TTTTTC
* * * * *
1564617 TTTTTCCTTTT-AAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGACTC-CT
1 TTTTTCCTTTTAAAAGC-CACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCA-GACACTC-
1564680 TTTTTC
63 TTTTTC
** * * * *
1564686 TTTTTTGTTTTAAAATG-CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGCAG-GA--C--
1 TTTTTCCTTTTAAAA-GCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACTCTT
*
1564745 --GC
65 TTTC
* * * * * *
1564747 ATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGC--ACGA-TAT
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGAC-ACTCT
1564809 TTTTC
64 TTTTC
* * * * *
1564814 TTTTT-CTTTT-AAAGCCCATATAAATTGGTGGCAACTTTTAGTCCT
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCT
1564859 TAACGAGTCA
Statistics
Matches: 346, Mismatches: 66, Indels: 68
0.72 0.14 0.14
Matches are distributed among these distances:
60 1 0.00
61 20 0.06
62 72 0.21
63 2 0.01
65 29 0.08
66 13 0.04
67 45 0.13
68 5 0.01
69 88 0.25
70 17 0.05
71 47 0.14
72 1 0.00
73 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (68 bp):
TTTTTCCTTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACTCTTT
TTC
Found at i:1564512 original size:138 final size:132
Alignment explanation
Indices: 1564347--1564858 Score: 372
Period size: 138 Copynumber: 3.8 Consensus size: 132
1564337 GGTACCCTAT
* * *
1564347 TTTTTTCTTTTAAAAGCCTACACAAGTTGCTAGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
1 TTTTTCCTTTTTAAAGCC-ACACAAGTTG-TGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
1564412 TCTTTTTTCTTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAACAC-
64 TCTTTTTT-TTTAAAA-GCCCACACAAGTTGGTGGCAC-TTTTAGTCCTCAAAGAGCAGAA-ACT
1564476 CTCTTTTTC
125 CT-TTTTTC
* * * * *
1564485 TTTTTCCTTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAGGACGC--T
1 TTTTTCC-TTTTTAAAGCCACACAAGTT-GTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
** * ** * *
1564548 T-TTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGAAGTCTT
64 TCTTTTTTTTTAAAAGCCCACACAAGTTGGTGGC-ACTTTTAGTCCTCAAAGAGCAGAAACTCTT
1564612 TTTTC
128 TTTTC
* ** * *
1564617 TTTTTCC-TTTTAAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGACTCCTT
1 TTTTTCCTTTTTAAAGC-CACACAAG-TTGTGGCACCTTTTAGTCCTCAAAAAGTAGGAC-GC--
* * *
1564681 TTTTCTTTTTTGTTTTAAAATG--CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGCAG-G
61 TTTTC-TTTTT-TTTTAAAA-GCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGAA
*
1564743 A--C-----GC
122 ACTCTTTTTTC
* ** * * * * ***
1564747 ATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGCACGATATTTT
1 TTTTTCCTTTTTAAAG-CCACACAAGTT-GTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
* * *
1564812 TCTTTTTCTTTT-AAAGCCCATATAAATTGGTGGCAACTTTTAGTCCT
64 TCTTTTT-TTTTAAAAGCCCACACAAGTTGGTGGC-ACTTTTAGTCCT
1564859 TAACGAGTCA
Statistics
Matches: 303, Mismatches: 49, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
125 1 0.00
126 3 0.01
127 32 0.11
128 6 0.02
130 18 0.06
131 70 0.23
132 18 0.06
133 39 0.13
134 9 0.03
135 5 0.02
136 4 0.01
137 2 0.01
138 77 0.25
139 18 0.06
140 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (132 bp):
TTTTTCCTTTTTAAAGCCACACAAGTTGTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTTTC
TTTTTTTTTAAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGAAACTCTTTTT
TC
Found at i:1564581 original size:62 final size:63
Alignment explanation
Indices: 1564484--1564802 Score: 218
Period size: 62 Copynumber: 4.9 Consensus size: 63
1564474 ACCTCTTTTT
* * * * * *
1564484 CTTTTTCCTTTTTTAAAG-CCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAGGAC-G
1 CTTTTTCC-TTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTG
* **
1564546 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGAAGTCT
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGG-A--C-
*
1564611 TTTTT
62 ---TG
* * * * * * *
1564616 CTTTTTCCTTTT-AAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGACTC
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTG
* * * *
1564678 CTTTTTTCTTTTTTGTTTTAAAATG--CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGCA
1 C-TTTTTC------CTTTTAAAA-GCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCA
1564741 GGAC-G
58 GGACTG
* * * * *
1564746 CATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGCA
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCA
1564803 CGATATTTTT
Statistics
Matches: 201, Mismatches: 36, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
60 1 0.00
61 15 0.07
62 77 0.38
63 7 0.03
65 1 0.00
66 1 0.00
67 5 0.02
68 2 0.01
69 76 0.38
70 15 0.07
71 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (63 bp):
CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACTG
Found at i:1564684 original size:133 final size:134
Alignment explanation
Indices: 1564347--1564690 Score: 324
Period size: 133 Copynumber: 2.5 Consensus size: 134
1564337 GGTACCCTAT
* * ** * * ** *
1564347 TTTTTTCTTTTAAAAGCCTACACAAGTTGCTAGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
1 TTTTTCCTTTTTAAAGCC-ACACAAGTTATTGGCACCTTTTAGTCCTGAAAAACCAGGAC-CCTT
** *
1564412 TCTTTTTTCTTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAACACC
64 T-TTTCCT-TTTAAAAGGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCAGAACACC
1564477 TCTTTTTC
127 TCTTTTTC
* * * ** *
1564485 TTTTTCCTTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAGGACGC-TT
1 TTTTTCC-TTTTTAAAGCCACACAAGTTATTGGCACCTTTTAGTCCTGAAAAACCAGGACCCTTT
** * *
1564549 TTTCCTTTTAAAA-GCCCACACAAGTTAGTGGCAAC-TTTTAGTCCTCAAAGAGTGGGA-A-GTC
65 TTTCCTTTTAAAAGGCCCACACAAGTTAGTGGC-ACTTTTTAGTCCTCAAAGAGCAGAACACCTC
1564610 TTTTTTC
129 -TTTTTC
* *
1564617 TTTTTCC-TTTTAAAGCACACACAAGTT-TGTGGCACCTTTTAGTCCTTAAAAACCATGACTCCT
1 TTTTTCCTTTTTAAAGC-CACACAAGTTAT-TGGCACCTTTTAGTCCTGAAAAACCAGGAC-CCT
*
1564680 TTTTTCTTTTT
63 TTTTTCCTTTT
1564691 TGTTTTAAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
130 10 0.06
131 35 0.20
132 15 0.09
133 47 0.27
134 9 0.05
135 4 0.02
136 2 0.01
138 40 0.23
139 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (134 bp):
TTTTTCCTTTTTAAAGCCACACAAGTTATTGGCACCTTTTAGTCCTGAAAAACCAGGACCCTTTT
TTCCTTTTAAAAGGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGCAGAACACCTCTT
TTTC
Found at i:1564712 original size:200 final size:199
Alignment explanation
Indices: 1564347--1564861 Score: 571
Period size: 200 Copynumber: 2.6 Consensus size: 199
1564337 GGTACCCTAT
* * * *
1564347 TTTTTTCTTTTAAAAGCCTACACAAGTT-GCTAGCACCTTTTAGTCCTCAAAAAGTAGGACG-C-
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAG-TGGCACCTTTTAGTCCTCAAAAAGTAGGAAGTCT
* * * * *
1564409 TTTTCTTTTTTCTTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAAC
65 TTTTC-TTTTTCTTTTAAA-GCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAAACCAGAAC
* * * * *
1564474 ACCTCTTTTTCTTTTTCCTTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAG
128 ACCTCTTTTTCTTTTT-CTTTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG
*
1564539 TAGGACGC
192 CAGGACGC
* * *
1564547 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGAAGTCTT
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGTAGGAAGTC-T
* *
1564612 TTTTCTTTTTCCTTTTAAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATG-AC
65 TTTTCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAAACCA-GAAC
* * * *
1564676 TCCT-TTTTTCTTTTT-TGTTTTAAAATG-CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGA
128 ACCTCTTTTTCTTTTTCT-TTTTAAAA-GCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGA
1564738 GCAGGACGC
191 GCAGGACGC
* * * * * * *
1564747 ATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGCACG-A-TATT
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGTAGGAAGTCTT
* * * *
1564810 TTTCTTTTTCTTTTAAAGCCCATATAAATTGGTGGCAACTTTTAGTCCTTAA
66 TTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAA
1564862 CGAGTCATAT
Statistics
Matches: 267, Mismatches: 40, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
196 37 0.14
197 11 0.04
198 1 0.00
199 2 0.01
200 144 0.54
201 14 0.05
202 45 0.17
203 13 0.05
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (199 bp):
TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGTAGGAAGTCTT
TTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAAACCAGAACACC
TCTTTTTCTTTTTCTTTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGG
ACGC
Found at i:1565732 original size:13 final size:13
Alignment explanation
Indices: 1565714--1565739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1565704 AACAGCAAGT
1565714 ATGTATCGATACA
1 ATGTATCGATACA
1565727 ATGTATCGATACA
1 ATGTATCGATACA
1565740 CAAAAATTTA
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1572192 original size:17 final size:17
Alignment explanation
Indices: 1572143--1572192 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
1572133 TTTTTTGTAT
*
1572143 TATTTATTTAA-ATATA
1 TATTTATTTAAGATAAA
*
1572159 TATTTAATTTGAG-TAAA
1 TATTT-ATTTAAGATAAA
1572176 TATTTATTTAAGATAAA
1 TATTTATTTAAGATAAA
1572193 ATAAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TATTTATTTAAGATAAA
Found at i:1575079 original size:50 final size:49
Alignment explanation
Indices: 1575002--1575136 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 49
1574992 TTTGGAAAGA
* * * *
1575002 AAATGTATCGATACATTTTTCACTGTATTGATACATTCTGGATTTGGACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAG-TTT-CACCT
*
1575053 AAATGTATC-ATACATTATTCATTGTATCGATACATTCTAGTTTCACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGTTTCACCT
* * * *
1575101 AAATGTATCGATACATTCTTTAATGTATCAATACAT
1 AAATGTATCGATACATTATTCACTGTATCGATACAT
1575137 GCAAGCTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 13 0.18
49 25 0.34
50 27 0.36
51 9 0.12
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (49 bp):
AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGTTTCACCT
Found at i:1575854 original size:30 final size:29
Alignment explanation
Indices: 1575804--1575863 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
1575794 AAAAAAAAAG
*
1575804 TTCAAATCTTCTAAATATCCTCTCCTCCT
1 TTCAAATCTTCTAAATATCCTCTCCACCT
*
1575833 TTCAAATCTTCTAGTATATCCTCTCCACCT
1 TTCAAATCTTCTA-AATATCCTCTCCACCT
1575863 T
1 T
1575864 GATCCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.42
Consensus pattern (29 bp):
TTCAAATCTTCTAAATATCCTCTCCACCT
Found at i:1583296 original size:13 final size:13
Alignment explanation
Indices: 1583278--1583303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1583268 TACAGCAAGT
1583278 ATGTATCGATACA
1 ATGTATCGATACA
1583291 ATGTATCGATACA
1 ATGTATCGATACA
1583304 CAAAAAATTT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1589893 original size:17 final size:17
Alignment explanation
Indices: 1589871--1589921 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
1589861 TTTTTTGTAT
*
1589871 TATTTATTTAAAATATA
1 TATTTATTTAAAATAAA
* *
1589888 TATTTAATTT-GAGTAAA
1 TATTT-ATTTAAAATAAA
*
1589905 TATTTATTTAAGATAAA
1 TATTTATTTAAAATAAA
1589922 AATAAGTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TATTTATTTAAAATAAA
Found at i:1592723 original size:20 final size:21
Alignment explanation
Indices: 1592682--1592736 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1592672 AAAAATAGTG
* *
1592682 AATGTATCGATACTTGAGT-A
1 AATGTATCGATACATGACTAA
1592702 AATGTATCGATACAT-ATCTAA
1 AATGTATCGATACATGA-CTAA
1592723 AATGTATCGATACA
1 AATGTATCGATACA
1592737 GGACCATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 15 0.48
21 15 0.48
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATGACTAA
Found at i:1592828 original size:51 final size:51
Alignment explanation
Indices: 1592773--1592910 Score: 170
Period size: 51 Copynumber: 2.7 Consensus size: 51
1592763 TTTGGAAAGA
* * *
1592773 AAATGTATCGATACATTTTTCACTGTATTGATACATTCT-GGATTTGGACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGG-TTTGCACCT
* * *
1592824 AAATGTATCAATACATTATTCATTGTATCGATACATTCTAGGTTTTCACCT
1 AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGGTTTGCACCT
* * * *
1592875 AAATGTATCGATACATTCTTTAATGTATCAATACAT
1 AAATGTATCGATACATTATTCACTGTATCGATACAT
1592911 GCAAGCTATT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 73 0.97
52 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCACTGTATCGATACATTCTAGGTTTGCACCT
Found at i:1593623 original size:30 final size:30
Alignment explanation
Indices: 1593587--1593647 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1593577 AAAAAAAAAG
*
1593587 TTCAAATCTTCTAATATATCCTCTCCTCCT
1 TTCAAATCTTCTAATATATCCTCTCCACCT
*
1593617 TTCAAATCTTCTAGTATATCCTCTCCACCT
1 TTCAAATCTTCTAATATATCCTCTCCACCT
1593647 T
1 T
1593648 GATCCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.43
Consensus pattern (30 bp):
TTCAAATCTTCTAATATATCCTCTCCACCT
Found at i:1599930 original size:70 final size:69
Alignment explanation
Indices: 1599769--1600475 Score: 336
Period size: 70 Copynumber: 10.6 Consensus size: 69
1599759 GTACCCTATT
* * * * * *
1599769 TTTTTTCTTTTAAAAGCCTACACAAGTT-GCTAGCACCTTTTAGTCCTCAAAAAGTAG-GA-CGC
1 TTTTTCCTTTTAAAAGCC-ACACAAGTTAG-TGGCACCTTTTAGTCCTCAAAGAGCAGACACCTC
1599831 -TTTTC
64 TTTTTC
* *
1599836 TTTTT-C-TTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAACACCT
1 TTTTTCCTTTTAAAA-G-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAG-ACACCT
1599899 CTTTTTC
63 CTTTTTC
* * * * * * *
1599906 TTTTTCCTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAG-GA---C--
1 TTTTTCCTTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACCTCTT
*
1599965 --GC
66 TTTC
* ** *
1599967 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGA-AGTCT
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG-CAGACA-CCT
*
1600031 TTTTTTC
63 CTTTTTC
* * * * * *
1600038 TTTTTCCTTTT-AAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGACTCCTT
1 TTTTTCCTTTTAAAAGC-CACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCA-GACACCTC
1600102 TTTTTC
64 TTTTTC
** * * * *
1600108 TTTTTTGTTTTAAAATG-CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGCAG-GA---C-
1 TTTTTCCTTTTAAAA-GCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACCTCT
*
1600167 ---GC
65 TTTTC
* * * * * *
1600169 ATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAA-A--AG-CACGATA
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACAC-CTC
1600230 TTTTTC
64 TTTTTC
* * * * * * * *
1600236 TTTTT-CTTTT-AAAGCCCATATAAATTGGTGGCAACTTTTAGTCCTTAACGAGTAGGACA----
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCA-GACACCTC
*
1600295 TTTTTA
64 TTTTTC
* * *
1600301 TTTTT-CTTTT-AAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAGAGCAG-GA--TGC
1 TTTTTCCTTTTAAAAG-CCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACCT-C
1600361 -----C
64 TTTTTC
* * * * * * *
1600362 -TTTTCCTTTTTAAAAGGCCACACAAGCTGGTGGCACTTTTTAGTTCTCAAAAAGTAAAACACCT
1 TTTTTCC-TTTTAAAA-GCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAG-CAGACACCT
*
1600426 TTTTTTC
63 CTTTTTC
* *
1600433 TTTTTCTTTTTAAAAGCCTACACAAGTTGGTGGCACCTATTTA
1 TTTTTCCTTTTAAAAGCC-ACACAAGTTAGTGGCACCT-TTTA
1600476 CTTCAACCTT
Statistics
Matches: 490, Mismatches: 91, Indels: 113
0.71 0.13 0.16
Matches are distributed among these distances:
59 3 0.01
60 5 0.01
61 30 0.06
62 64 0.13
63 38 0.08
64 3 0.01
65 90 0.18
66 39 0.08
67 14 0.03
68 3 0.01
69 5 0.01
70 137 0.28
71 43 0.09
72 16 0.03
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (69 bp):
TTTTTCCTTTTAAAAGCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGACACCTCTT
TTTC
Found at i:1600008 original size:62 final size:62
Alignment explanation
Indices: 1599905--1600412 Score: 251
Period size: 65 Copynumber: 7.8 Consensus size: 62
1599895 ACCTCTTTTT
* * * * *
1599905 CTTTTTCCTTTTTAAAG-CCATACAAGTTATTGGC-ACTTTTTAGTCCTGAAAGAGTAGGACG
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAAC-TTTTAGTCCTCAAAGAGCAGGACG
**
1599966 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGAAGTCT
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGG-A--C-
*
1600031 TTTTTT
62 -----G
* * * * * * * *
1600037 CTTTTTCCTTTT-AAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGACTC
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGAC-G
* * * * *
1600099 CTTTTTTTCTTTTTTGTTTTAAAATG--CACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGC
1 C--TTTTTC------CTTTTAAAA-GCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGC
1600162 AGGACG
57 AGGACG
* * * * * * * *
1600168 CATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGCACGA-T
1 CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * *
1600229 ATTTTTCTTTTTCTTTT-AAAGCCCATATAAATTGGTGGCAACTTTTAGTCCTTAACGAGTAGGA
1 CTTTTTC-----CTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGA
*
1600293 CATTT
61 C---G
* * * *
1600298 TTATTTTTCTTTT-AAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGATG
1 CT-TTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
1600360 CCTTTTCCTTTTTAAAAGGCCACACAAGCTGGTGGC-ACTTTTTAGTTCTCAAA
1 CTTTTTCC-TTTTAAAAGCCCACACAAGTTAGTGGCAAC-TTTTAGTCCTCAAA
1600413 AAGTAAAACA
Statistics
Matches: 342, Mismatches: 69, Indels: 70
0.71 0.14 0.15
Matches are distributed among these distances:
60 1 0.00
61 33 0.10
62 76 0.22
63 36 0.11
64 6 0.02
65 80 0.23
66 4 0.01
67 6 0.02
69 4 0.01
70 80 0.23
71 15 0.04
72 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (62 bp):
CTTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGACG
Found at i:1600016 original size:132 final size:135
Alignment explanation
Indices: 1599769--1600089 Score: 377
Period size: 132 Copynumber: 2.4 Consensus size: 135
1599759 GTACCCTATT
* * * *
1599769 TTTTTTCTTTTAAAAGCCTACACAAGTTGCTAGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
1 TTTTTCCTTTTTAAAGCC-ACACAAGTT-TTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTT
** *
1599834 TCTTTTTCTTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAG-CAGAACACC
64 TCTTCCTCTTTAAAAGGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGTCAGAA-ACC
1599898 TCTTTTTC
128 TCTTTTTC
* * * *
1599906 TTTTTCCTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGTAGGACGC-TTT
1 TTTTTCCTTTTTAAAGCCACACAAGTT-TTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTTT
** **
1599970 -TTCCT-TTTAAAA-GCCCACACAAGTTAGTGGCAAC-TTTTAGTCCTCAAAGAGTGGGAAGTCT
65 CTTCCTCTTTAAAAGGCCCACACAAGTTAGTGGC-ACTTTTTAGTCCTCAAAGAGTCAGAAACCT
*
1600031 TTTTTTC
129 CTTTTTC
*
1600038 TTTTTCC-TTTTAAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAA
1 TTTTTCCTTTTTAAAGC-CACACAAGTTT-TGGCACCTTTTAGTCCTCAAAAA
1600090 CCATGACTCC
Statistics
Matches: 159, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
131 10 0.06
132 79 0.50
133 12 0.08
134 3 0.02
135 3 0.02
136 36 0.23
137 16 0.10
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (135 bp):
TTTTTCCTTTTTAAAGCCACACAAGTTTTGGCACCTTTTAGTCCTCAAAAAGTAGGACGCTTTTC
TTCCTCTTTAAAAGGCCCACACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGTCAGAAACCTCT
TTTTC
Found at i:1600134 original size:202 final size:196
Alignment explanation
Indices: 1599769--1600475 Score: 657
Period size: 202 Copynumber: 3.6 Consensus size: 196
1599759 GTACCCTATT
* * * * *
1599769 TTTTTTCTTTTAAAAGCCTACACAAGTT-GCTAGCACCTTTTAGTCCTCAAAAAGTAGGACGC--
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAG-TGGCAACTTTTAGTCCTCAAAAAGTAGGAAGCTT
* * *
1599831 -TTTTCTTTTTCTTTAAAAGGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGAAC
65 TTTTTCTTTTTCTTTTAAA-GCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAG-AC
* * * * * * *
1599895 ACCTCTTTTTCTTTTTCCTTTTTAAAGCCATACAAGTTATTGGCACTTTTTAGTCCTGAAAGAGT
128 -CCTATTTTTCTTTTTTCTTTTAAAAG-CACACAAGTTAGTGGCAC-TTTTAGTCCTCAAAGAGC
1599960 AGGACGC
190 AGGACGC
* *
1599967 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAGAGTGGGAAGTCTT
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAAAGTAGGAAG-CTT
* * * *
1600032 TTTTTCTTTTTCCTTTTAAAGCACACACAAGTTTGTGGCACCTTTTAGTCCTTAAAAACCATGAC
65 TTTTTCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCA-GAC
* * * * *
1600097 TCCTTTTTTTCTTTTTTGTTTTAAAATGCACACAAGTTGGTGGCACCTTTTAGTCTTCACAGAGC
128 -CCTATTTTTCTTTTTTCTTTTAAAA-GCACACAAGTTAGTGGCA-CTTTTAGTCCTCAAAGAGC
1600162 AGGACGC
190 AGGACGC
* * * * * * * *
1600169 ATTTTCCTTTCAAAAGCCCACACAAGTTAGTGGTACCTTTTAGTTCTCAAAAAGCACG-A--TAT
1 TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAAAGTAGGAAGCTTT
* * * * * *
1600231 TTTTCTTTTTCTTTTAAAGCCCATATAAATTGGTGGCAACTTTTAGTCCTTAACGAGTAGGA--C
66 TTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCA-GACCC
* *
1600294 -ATTTTT-ATTTTTCTTTT-AAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAGAGCAG
130 TATTTTTCTTTTTTCTTTTAAAAG--CACACAAGTTAGTGGC-ACTTTTAGTCCTCAAAGAGCAG
*
1600356 GATGC
192 GACGC
* * * * * ** *
1600361 CTTTTCCTTTTTAAAAGGCCACACAAGCTGGTGGC-ACTTTTTAGTTCTCAAAAAGTAAAACACC
1 TTTTTCC-TTTTAAAAGCCCACACAAGTTAGTGGCAAC-TTTTAGTCCTCAAAAAGTAGGA-AGC
*
1600425 TTTTTTTCTTTTTCTTTTTAAAAGCCTACACAAGTTGGTGGCACCTATTTA
63 TTTTTTTCTTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCACCT-TTTA
1600476 CTTCAACCTT
Statistics
Matches: 417, Mismatches: 71, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
190 1 0.00
191 3 0.01
192 53 0.13
193 46 0.11
194 1 0.00
195 1 0.00
197 54 0.13
198 68 0.16
199 23 0.06
200 4 0.01
201 1 0.00
202 152 0.36
203 10 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (196 bp):
TTTTTCCTTTTAAAAGCCCACACAAGTTAGTGGCAACTTTTAGTCCTCAAAAAGTAGGAAGCTTT
TTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGACCCT
ATTTTTCTTTTTTCTTTTAAAAGCACACAAGTTAGTGGCACTTTTAGTCCTCAAAGAGCAGGACG
C
Found at i:1600427 original size:63 final size:62
Alignment explanation
Indices: 1600307--1600428 Score: 138
Period size: 63 Copynumber: 2.0 Consensus size: 62
1600297 TTTATTTTTC
* ** **
1600307 TTTTAAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCT
1 TTTTAAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAAAGCAAAACACCTTTTCCT
* * * *
1600369 TTTTAAAAGGCCACACAAGCTGGTGGC-ACTTTTTAGTTCTCAAAAAGTAAAACACCTTTT
1 TTTT-AAAGCCCACACAAGCTAGTGGCAAC-TTTTAGTCCTCAAAAAGCAAAACACCTTTT
1600429 TTTCTTTTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
62 6 0.12
63 43 0.88
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (62 bp):
TTTTAAAGCCCACACAAGCTAGTGGCAACTTTTAGTCCTCAAAAAGCAAAACACCTTTTCCT
Found at i:1601002 original size:20 final size:21
Alignment explanation
Indices: 1600977--1601031 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1600967 AGAAACAGTG
*
1600977 AATGTATCAATACATGAGT-A
1 AATGTATCAATACATGACTAA
* *
1600997 AATGTATCAATATATGTCTAA
1 AATGTATCAATACATGACTAA
*
1601018 AATGTATCGATACA
1 AATGTATCAATACA
1601032 AGACCATGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (21 bp):
AATGTATCAATACATGACTAA
Found at i:1603566 original size:79 final size:79
Alignment explanation
Indices: 1603449--1603855 Score: 387
Period size: 79 Copynumber: 5.1 Consensus size: 79
1603439 CAATTTTTCC
* * *
1603449 TTCCAAAAGCATTAAATTTTTAATC-TCGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
1 TTCCAAAA-TATTAAATTTTTCATCTTAG-GGATACTCCAACCCCGTTATTTTTGAGGGGATACT
**
1603513 TTAACCTCATTTTTAT
64 CCAACCTCATTTTTAT
* *
1603529 TTCCAAAATATTAAATTTTTCATCTTAGGGATGCTCCAACCCCGTTATTTCTGAGGGGATACTCC
1 TTCCAAAATATTAAATTTTTCATCTTAGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCC
1603594 AAACCT-ATTTTTAT
66 -AACCTCATTTTTAT
** * * ** * * * * * * *
1603608 TTTAAAAATATTAAAATTGTCATCTCGGGGATTCTCCAACTCCATCAATTTCGAGGGGATACCCC
1 TTCCAAAATATTAAATTTTTCATCTTAGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCC
*
1603673 AACCTCGTTTTTAT
66 AACCTCATTTTTAT
* * * * *
1603687 TTCAAAAATATTAAATTTTTCAGTGC--GGGGATACTCTAACCCCGCTATTTTTGAGGGGACACT
1 TTCCAAAATATTAAATTTTTCA-T-CTTAGGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
*
1603750 CGAACCTCATTTTTAT
64 CCAACCTCATTTTTAT
* * * ** * *
1603766 TTTCAAAATATTAAAATTTTCATCTCGTA--GATACTCCAGCCCTATTATTTCTAAGGGGATACT
1 TTCCAAAATATTAAATTTTTCATCT--TAGGGATACTCCAACCCCGTTATTTTTGAGGGGATACT
1603829 CCAACC-CTATTTTTAT
64 CCAACCTC-ATTTTTAT
1603845 TTCCAAAATAT
1 TTCCAAAATAT
1603856 CGATTCACTT
Statistics
Matches: 266, Mismatches: 51, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
77 1 0.00
78 7 0.03
79 241 0.91
80 16 0.06
81 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (79 bp):
TTCCAAAATATTAAATTTTTCATCTTAGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCC
AACCTCATTTTTAT
Found at i:1603803 original size:158 final size:154
Alignment explanation
Indices: 1603459--1603855 Score: 431
Period size: 158 Copynumber: 2.5 Consensus size: 154
1603449 TTCCAAAAGC
* * * * * **
1603459 ATTAAATTTTTAATCTCGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTTTAACCTCATT
1 ATTAAAATTTTCATCTCGA-GATACTCCAA-CCC-ATAATTTCGAGGGGATACTCCAACCTCATT
* * *
1603524 TTTATTTCCAAAATATTAAATTTTTCATCTTAGGGATGCTCCAACCCCGTTATTTCTGAGGGGAT
63 TTTATTTCCAAAATATTAAATTTTTCATC-TAGGGATACTCCAACCCCGCTATTTCTGAGGGGAC
1603589 ACTCCAAACCTATTTTTATTTTAAAAAT
127 ACTCCAAACCTATTTTTATTTTAAAAAT
* * * * *
1603617 ATTAAAATTGTCATCTCGGGGATTCTCCAACTCCATCAATTTCGAGGGGATACCCCAACCTCGTT
1 ATTAAAATTTTCATCTC-GAGATACTCCAAC-CCAT-AATTTCGAGGGGATACTCCAACCTCATT
* * * *
1603682 TTTATTTCAAAAATATTAAATTTTTCAGTGC-GGGGATACTCTAACCCCGCTATTTTTGAGGGGA
63 TTTATTTCCAAAATATTAAATTTTTCA-T-CTAGGGATACTCCAACCCCGCTATTTCTGAGGGGA
* *
1603746 CACT-CGAACCTCATTTTTATTTTCAAAAT
126 CACTCCAAACCT-ATTTTTATTTTAAAAAT
* * *
1603775 ATTAAAATTTTCATCTCGTAGATACTCCAGCCCTATTATTTCTAAGGGGATACTCCAACC-CTAT
1 ATTAAAATTTTCATCTCG-AGATACTCCAACCC-ATAATTTC-GAGGGGATACTCCAACCTC-AT
1603839 TTTTATTTCCAAAATAT
62 TTTTATTTCCAAAATAT
1603856 CGATTCACTT
Statistics
Matches: 199, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
157 17 0.09
158 179 0.90
159 2 0.01
160 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (154 bp):
ATTAAAATTTTCATCTCGAGATACTCCAACCCATAATTTCGAGGGGATACTCCAACCTCATTTTT
ATTTCCAAAATATTAAATTTTTCATCTAGGGATACTCCAACCCCGCTATTTCTGAGGGGACACTC
CAAACCTATTTTTATTTTAAAAAT
Found at i:1604977 original size:20 final size:20
Alignment explanation
Indices: 1604954--1605026 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1604944 ACAACTCAAA
1604954 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1604974 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1604995 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1605015 GTATCGATACAT
1 GTATCGATACAT
1605027 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1605005 original size:41 final size:42
Alignment explanation
Indices: 1604954--1605048 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1604944 ACAACTCAAA
*
1604954 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1604995 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1605037 GTATCGATACAT
1 GTATCGATACAT
1605049 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1605105 original size:13 final size:13
Alignment explanation
Indices: 1605087--1605112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1605077 TACAGCAAGT
1605087 ATGTATCGATACA
1 ATGTATCGATACA
1605100 ATGTATCGATACA
1 ATGTATCGATACA
1605113 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1609185 original size:15 final size:15
Alignment explanation
Indices: 1609165--1609203 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1609155 TAAAAATGTC
*
1609165 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1609180 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
1609195 CCAAATGAA
1 CAAAATGAA
1609204 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1611296 original size:20 final size:21
Alignment explanation
Indices: 1611218--1611295 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
1611208 ATGTCCAAAA
*
1611218 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
1611238 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
1611262 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
1611283 TGTATCGATACAT
1 TGTATCGATACAT
1611296 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:1611300 original size:13 final size:13
Alignment explanation
Indices: 1611282--1611320 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1611272 ACATTTTTTG
1611282 TTGTATCGATACA
1 TTGTATCGATACA
1611295 TTGTATCGATACA
1 TTGTATCGATACA
*
1611308 CTGTATCGATACA
1 TTGTATCGATACA
1611321 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1613167 original size:18 final size:16
Alignment explanation
Indices: 1613126--1613171 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1613116 AATTACTTGA
1613126 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
1613142 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
1613158 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
1613172 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:1613801 original size:20 final size:20
Alignment explanation
Indices: 1613778--1613850 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1613768 ACAACTCAAA
1613778 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1613798 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1613819 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1613839 GTATCGATACAT
1 GTATCGATACAT
1613851 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1613829 original size:41 final size:42
Alignment explanation
Indices: 1613778--1613872 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1613768 ACAACTCAAA
*
1613778 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1613819 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1613861 GTATCGATACAT
1 GTATCGATACAT
1613873 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1613929 original size:13 final size:13
Alignment explanation
Indices: 1613911--1613936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1613901 TACAGCAAGT
1613911 ATGTATCGATACA
1 ATGTATCGATACA
1613924 ATGTATCGATACA
1 ATGTATCGATACA
1613937 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1634137 original size:20 final size:20
Alignment explanation
Indices: 1634112--1634188 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1634102 GTAAAAAGAC
*
1634112 AGAATGTATCGACACATTGA
1 AGAATGTATCGATACATTGA
*
1634132 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1634152 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
1634172 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1634189 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1635398 original size:21 final size:21
Alignment explanation
Indices: 1635353--1635400 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
1635343 AAACCACTCT
1635353 AAAAACCTGTATTTCTTTTCC
1 AAAAACCTGTATTTCTTTTCC
1635374 -AAAACCTGTATTT-TCTTTCC
1 AAAAACCTGTATTTCT-TTTCC
1635394 AAAAACC
1 AAAAACC
1635401 CCCACTCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.72
21 6 0.24
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAAACCTGTATTTCTTTTCC
Found at i:1636194 original size:32 final size:33
Alignment explanation
Indices: 1636153--1636216 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1636143 TAGCCAAACT
**
1636153 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
*
1636185 TGTATCGATATACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1636217 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1638444 original size:21 final size:21
Alignment explanation
Indices: 1638411--1638460 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1638401 TTGCAAGTTG
*
1638411 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1638433 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1638454 AAATAAA
1 AAATAAA
1638461 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1640278 original size:15 final size:15
Alignment explanation
Indices: 1640258--1640288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1640248 TAAAAATGTC
*
1640258 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1640273 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1640288 C
1 C
1640289 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1642384 original size:13 final size:13
Alignment explanation
Indices: 1642366--1642391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1642356 ACATTTTTCT
1642366 TTGTATCGATACA
1 TTGTATCGATACA
1642379 TTGTATCGATACA
1 TTGTATCGATACA
1642392 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1642555 original size:20 final size:20
Alignment explanation
Indices: 1642512--1642557 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1642502 AAATCTTTTG
1642512 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1642533 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1642553 CAAAA
1 CAAAA
1642558 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1650088 original size:15 final size:15
Alignment explanation
Indices: 1650068--1650097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1650058 TTTTTGCATT
1650068 TTAACAAATTAATTG
1 TTAACAAATTAATTG
*
1650083 TTAACAGATTAATTG
1 TTAACAAATTAATTG
1650098 AAAAGAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (15 bp):
TTAACAAATTAATTG
Found at i:1650713 original size:34 final size:34
Alignment explanation
Indices: 1650602--1650831 Score: 258
Period size: 34 Copynumber: 6.9 Consensus size: 34
1650592 TCGAACTCAA
1650602 AGTCAAACTTGTAT-CTTTTCAAACAAGTTAAAA-
1 AGTCAAACTTGTATCCTTTT-AAACAAGTTAAAAG
** * *
1650635 AGTCAAACTTGTATCCTTCAAAACTAGTT-GAAG
1 AGTCAAACTTGTATCCTTTTAAACAAGTTAAAAG
*
1650668 AGT-AAACTTGTAT-CTTTTAAAACAAATTAAAAG
1 AGTCAAACTTGTATCCTTTT-AAACAAGTTAAAAG
*
1650701 AGTCAAACTTGTATCCTTTTGAACAAGTTAAAAG
1 AGTCAAACTTGTATCCTTTTAAACAAGTTAAAAG
* *
1650735 AGTCCAACTTGTATCCTTTTGAACAAGTTAAAAG
1 AGTCAAACTTGTATCCTTTTAAACAAGTTAAAAG
* *
1650769 AGTCCAACTTGTATCCTTTTGAACAAG-TAAAAG
1 AGTCAAACTTGTATCCTTTTAAACAAGTTAAAAG
* * * * *
1650802 TGT-TATCTTGTATCCTTCTAAACAGGTTAA
1 AGTCAAACTTGTATCCTTTTAAACAAGTTAA
1650832 GAGTTGAAGT
Statistics
Matches: 172, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
31 3 0.02
32 37 0.22
33 42 0.24
34 85 0.49
35 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (34 bp):
AGTCAAACTTGTATCCTTTTAAACAAGTTAAAAG
Found at i:1651725 original size:13 final size:14
Alignment explanation
Indices: 1651691--1651724 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1651681 TTTTTCCCAT
*
1651691 ATTTTTTTAATTAA
1 ATTTTTTCAATTAA
*
1651705 ATTTTTTCAATTTA
1 ATTTTTTCAATTAA
1651719 ATTTTT
1 ATTTTT
1651725 CCCAAGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTCAATTAA
Found at i:1653138 original size:20 final size:19
Alignment explanation
Indices: 1653113--1653165 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1653103 TATCACTATT
1653113 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1653133 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1653153 TGTATCGATACAT
1 TGTATCGATACAT
1653166 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1659435 original size:13 final size:13
Alignment explanation
Indices: 1659417--1659443 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1659407 ACATGCTGCC
1659417 TTGTATCGATACA
1 TTGTATCGATACA
1659430 TTGTATCGATACA
1 TTGTATCGATACA
1659443 T
1 T
1659444 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1659935 original size:13 final size:13
Alignment explanation
Indices: 1659917--1659943 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1659907 ACATGCTGCT
1659917 TTGTATCGATACA
1 TTGTATCGATACA
1659930 TTGTATCGATACA
1 TTGTATCGATACA
1659943 T
1 T
1659944 GTTTATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1659940 original size:33 final size:32
Alignment explanation
Indices: 1659898--1659962 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
1659888 CACACCCAGA
1659898 TGTATCGATACATGCTGCT-TTGTATCGATACAT
1 TGTATCGATACATG-T-CTATTGTATCGATACAT
*
1659931 TGTATCGATACATGTTTATTGTATCGATACAT
1 TGTATCGATACATGTCTATTGTATCGATACAT
1659963 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 15 0.50
33 14 0.47
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTCTATTGTATCGATACAT
Found at i:1668117 original size:13 final size:13
Alignment explanation
Indices: 1668099--1668125 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1668089 ACATGCTGCT
1668099 TTGTATCGATACA
1 TTGTATCGATACA
1668112 TTGTATCGATACA
1 TTGTATCGATACA
1668125 T
1 T
1668126 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1668122 original size:33 final size:32
Alignment explanation
Indices: 1668080--1668144 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1668070 CACACCTAGA
*
1668080 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
1668113 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
1668145 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:1668156 original size:21 final size:19
Alignment explanation
Indices: 1668110--1668166 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1668100 TGTATCGATA
**
1668110 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
1668129 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
1668148 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
1668167 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:1668293 original size:20 final size:20
Alignment explanation
Indices: 1668268--1668320 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1668258 TTCAAATCAA
1668268 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
1668288 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
1668308 TGTATCGATACAT
1 TGTATCGATACAT
1668321 GGCTACAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:1673964 original size:96 final size:97
Alignment explanation
Indices: 1673739--1673966 Score: 250
Period size: 96 Copynumber: 2.4 Consensus size: 97
1673729 TTATTCACTA
* * * *
1673739 GGATACTCCAACCACATT-CTTCTAAGGAGATACTCTAACCCCATTTTCAAATTTATCAATATTT
1 GGATATTCCAACC-CATTCCTTCGAAGGAGATACTCTAACCCCATTTTCAAACTTATCAATAATT
* * * * *
1673803 AAATCTTATTTTTGCTTAAATTGTTATCATTGT
65 AAATCTTATTTTTACCTAAATTATCATCATTGG
* * * * *
1673836 GGATATTCCAACCCTATTCTTTTG-AGGAGATACTCTAACTCCATTTTTAAACTTGTC-ATAATT
1 GGATATTCCAACCC-ATTCCTTCGAAGGAGATACTCTAACCCCATTTTCAAACTTATCAATAATT
1673899 AAATCTTATTTTTACCTAAATTATCATCATTGG
65 AAATCTTATTTTTACCTAAATTATCATCATTGG
*
1673932 GGATAATT-TAACCTCATTCCTTCGAAGG-GATACTC
1 GGAT-ATTCCAACC-CATTCCTTCGAAGGAGATACTC
1673967 CAGCCCTATT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
96 56 0.51
97 51 0.47
98 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (97 bp):
GGATATTCCAACCCATTCCTTCGAAGGAGATACTCTAACCCCATTTTCAAACTTATCAATAATTA
AATCTTATTTTTACCTAAATTATCATCATTGG
Found at i:1676002 original size:20 final size:20
Alignment explanation
Indices: 1675960--1676012 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1675950 CACACCCAGA
* *
1675960 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
1675979 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
1675999 TGTATCGATACATG
1 TGTATCGATACATG
1676013 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:1676069 original size:20 final size:21
Alignment explanation
Indices: 1676044--1676095 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
1676034 CCACTGTTTC
*
1676044 TATCGATACATGGT-ACAA-TG
1 TATCGATACATGATGA-AATTG
1676064 TATCGATACATGATGAAATTG
1 TATCGATACATGATGAAATTG
1676085 TATCGATACAT
1 TATCGATACAT
1676096 TGCTTGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TATCGATACATGATGAAATTG
Found at i:1682259 original size:13 final size:13
Alignment explanation
Indices: 1682241--1682282 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
1682231 ACAACATTCC
1682241 TTGTATCGATACA
1 TTGTATCGATACA
*
1682254 TTGTATTGATACA
1 TTGTATCGATACA
1682267 TTGTATCGATACA
1 TTGTATCGATACA
1682280 TTG
1 TTG
1682283 GGTACTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1684849 original size:20 final size:19
Alignment explanation
Indices: 1684797--1684851 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1684787 ACATTATGCT
**
1684797 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
1684816 TTGTATTC-ACTACATGGACAA
1 TTGTA-TCGA-TACATGGAC-A
1684837 TTGTATCGATACATG
1 TTGTATCGATACATG
1684852 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 17 0.57
21 7 0.23
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:1689815 original size:19 final size:19
Alignment explanation
Indices: 1689786--1689846 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
1689776 TGCTTTGTAT
1689786 TGATACATTGTATCGATACA
1 TGAT-CATTGTATCGATACA
*
1689806 TGATCATTGTATCAATACA
1 TGATCATTGTATCGATACA
1689825 TGCA-CAATT-TATCGATACA
1 TG-ATC-ATTGTATCGATACA
1689844 TGA
1 TGA
1689847 AACTGGCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 1 0.03
19 28 0.76
20 8 0.22
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGATCATTGTATCGATACA
Found at i:1696109 original size:13 final size:13
Alignment explanation
Indices: 1696091--1696130 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1696081 ACTATGTTCT
1696091 TTGTATCGATACA
1 TTGTATCGATACA
* *
1696104 TTGTATCAATAAA
1 TTGTATCGATACA
*
1696117 ATGTATCGATACA
1 TTGTATCGATACA
1696130 T
1 T
1696131 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1698467 original size:22 final size:21
Alignment explanation
Indices: 1698418--1698473 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
1698408 TTTCAATATC
* *
1698418 AATAAATGTTTTAGAGTTATG
1 AATAAATGTTTTTGAGTTATA
1698439 AATAAATGTTTTTGAGCTT-TA
1 AATAAATGTTTTTGAG-TTATA
1698460 AATCAAATGTTTTT
1 AAT-AAATGTTTTT
1698474 AAGTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (21 bp):
AATAAATGTTTTTGAGTTATA
Found at i:1698634 original size:19 final size:19
Alignment explanation
Indices: 1698607--1698666 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
1698597 TGCTTTGTAT
* *
1698607 TGATAATTGTATTGATACA
1 TGATCATTGTATCGATACA
1698626 TGATCATTGTATCGATACA
1 TGATCATTGTATCGATACA
*
1698645 TGCA-CAATGTATCGATACA
1 TG-ATCATTGTATCGATACA
1698664 TGA
1 TGA
1698667 AACTGGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.03
19 35 0.95
20 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TGATCATTGTATCGATACA
Found at i:1698719 original size:20 final size:19
Alignment explanation
Indices: 1698694--1698747 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
1698684 CTACCACTAT
1698694 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
1698714 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATG-AGAA
1698734 TTGTATCGATACAT
1 TTGTATCGATACAT
1698748 TGTCCCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:1700271 original size:17 final size:17
Alignment explanation
Indices: 1700249--1700281 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1700239 TAAACGAGTA
*
1700249 ACTATTATAATAATTAG
1 ACTATTATAAAAATTAG
1700266 ACTATTATAAAAATTA
1 ACTATTATAAAAATTA
1700282 TAGACATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
ACTATTATAAAAATTAG
Found at i:1701182 original size:19 final size:20
Alignment explanation
Indices: 1701137--1701182 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1701127 TGCCAGTTTT
*
1701137 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGC
*
1701157 ATATATCGATACAA-TGAGC
1 ATGTATCGATACAATTGAGC
1701176 ATGTATC
1 ATGTATC
1701183 AACACAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGC
Found at i:1701857 original size:21 final size:21
Alignment explanation
Indices: 1701827--1701875 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1701817 GCAAATTTTC
*
1701827 AATAAATCTCCCCCTTAATAA
1 AATAATTCTCCCCCTTAATAA
*
1701848 AATAATTCTCCCCCTTGATAA
1 AATAATTCTCCCCCTTAATAA
1701869 AATAATT
1 AATAATT
1701876 AAAGCTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATTCTCCCCCTTAATAA
Found at i:1707985 original size:3 final size:3
Alignment explanation
Indices: 1707971--1708013 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
1707961 CGAGTCAACT
* * *
1707971 TCA TCA TTA TCA TCA TTA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1708014 TGATGGTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (3 bp):
TCA
Found at i:1711575 original size:13 final size:13
Alignment explanation
Indices: 1711557--1711581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1711547 CATCATGCTT
1711557 TGTATCGATACAA
1 TGTATCGATACAA
1711570 TGTATCGATACA
1 TGTATCGATACA
1711582 TGCATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1711593 original size:33 final size:33
Alignment explanation
Indices: 1711536--1711601 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1711526 AAAGCCTTGC
** *
1711536 ATGTATCGATACATCATGCTTTGTATCGATACA
1 ATGTATCGATACATCATGAATTGTATCAATACA
1711569 ATGTATCGATACATGCAT-AATTGTATCAATACA
1 ATGTATCGATACAT-CATGAATTGTATCAATACA
1711602 TGAAACAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATCATGAATTGTATCAATACA
Found at i:1711666 original size:13 final size:13
Alignment explanation
Indices: 1711648--1711678 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1711638 CGATACATGG
*
1711648 TACATTGTATCGA
1 TACATTATATCGA
1711661 TACATTATATCGA
1 TACATTATATCGA
1711674 TACAT
1 TACAT
1711679 GAAGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:1711677 original size:33 final size:32
Alignment explanation
Indices: 1711635--1711699 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1711625 CTACTATTTG
1711635 TATCGATACATG-GTACATTGTATCGATACATTA
1 TATCGATACATGAG-A-ATTGTATCGATACATTA
1711668 TATCGATACATGAAGAATTGTATCGATACATT
1 TATCGATACATG-AGAATTGTATCGATACATT
1711700 GTCTTAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACATTA
Found at i:1713435 original size:13 final size:13
Alignment explanation
Indices: 1713417--1713443 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1713407 ACAATTGTCC
1713417 ATGTATCGATACA
1 ATGTATCGATACA
1713430 ATGTATCGATACA
1 ATGTATCGATACA
1713443 A
1 A
1713444 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:1720483 original size:3 final size:3
Alignment explanation
Indices: 1720475--1720511 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1720465 TCCGAGTCAC
*
1720475 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1720512 GTCTTTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:1722217 original size:13 final size:13
Alignment explanation
Indices: 1722199--1722225 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1722189 TACAATGAAT
1722199 ATGTATCGATACA
1 ATGTATCGATACA
1722212 ATGTATCGATACA
1 ATGTATCGATACA
1722225 A
1 A
1722226 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:1722221 original size:32 final size:33
Alignment explanation
Indices: 1722180--1722244 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1722170 TGCAAGTTTC
* *
1722180 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTACCGATACA
*
1722212 ATGTATCGATACAAAGCATAATGTACCGATACA
1 ATGTATCGATACAAAGAATAATGTACCGATACA
1722245 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTACCGATACA
Found at i:1725451 original size:66 final size:66
Alignment explanation
Indices: 1724953--1725670 Score: 330
Period size: 66 Copynumber: 11.0 Consensus size: 66
1724943 GTATCGAGCA
* * * * *
1724953 AGGT-GAAACCGATATAGTCAAGCGAAGGTGA-TAAGGATATAATCTTAGGTTTAAAGGGGTTAA
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACT-AGGATATAATCTTAGGTCTAAAAGGGTTGA
*
1725016 CCA
65 -CT
* * * * *
1725019 AGG-CAAAACCAATATAGTCAAACGAAGGTGACTAGGATATAATTTTGGGTCTAAAAGGGTTGAC
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGAC
1725083 T
66 T
* * *
1725084 AGGGT-GAAACTAATACAGTCAAGCAAAGGTGA-TCAAGATATAAT-TCTAGGTCTAAAAGGGTT
1 A-GGTCGAAACCAATACAGTCAAGCGAAGGTGACT-AGGATATAATCT-TAGGTCTAAAAGGGTT
1725146 GACT
63 GACT
* * * * * ** * * *
1725150 AGGGT-AAAACCAATATAGTTAAACAAAGACGACCAGGATGTAA-CTTAGGTCT-AGAGGGTTGA
1 A-GGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGA
1725212 CT
65 CT
* * ** *** ** * * * ** **
1725214 AGGGCAAAACTGATACAGTCAA-ATTAGGATGACTAGGATATAA-CCAAAGCCT-AGAGTATCAA
1 AGGTCGAAACCAATACAGTCAAGCGAAGG-TGACTAGGATATAATCTTAGGTCTAAAAGGGTTGA
1725276 CT
65 CT
* *** * * *
1725278 AGGGCGAAATTGATACA-ACTAAGTGAAGGTGACTAGGATATGATCTTAGGTCTAAAA-GGTTGA
1 AGGTCGAAACCAATACAGTC-AAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGA
*
1725341 CAA
65 C-T
* ** * * *
1725344 AGGT-AAAACTGATACAGTCAAAC-AAGGGTGATTAGGATATAATCTTGGGTCTAAAAGGGTTGA
1 AGGTCGAAACCAATACAGTCAAGCGAA-GGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGA
1725407 CT
65 CT
* * * ** *
1725409 AGGTCGAAACCAATACAGTCAAGCCAAGATGACTAAGG-TATAACCCCAAGTCTAAAAGGGTTGA
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACT-AGGATATAATCTTAGGTCTAAAAGGGTTGA
*
1725473 CC
65 CT
* * * * * * * * * * * *
1725475 AGGACGAAA-CTATACAATCAAGCAAAAGTAATTAGGATCTAATCTTATGTAT-AAAGGGCTAAC
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGA-
*
1725538 CA
65 CT
* * * ** * *
1725540 AGGT-GAAA-CTATACAGTCAAGCAAAAGTGACTAGGATATAATCCAAGATCT-AGAGGGTTGAC
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGAC
*
1725602 C
66 T
* * * * * * * * * * *
1725603 ATGT-TAAATCAATATAGTCTAGCTAAGTTGACCAAGATATAATCTTAGTTCTAAAAAGGTTGAC
1 AGGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGAC
1725667 T
66 T
1725668 AGG
1 AGG
1725671 ATAAAACTAC
Statistics
Matches: 493, Mismatches: 134, Indels: 51
0.73 0.20 0.08
Matches are distributed among these distances:
63 12 0.02
64 169 0.34
65 106 0.22
66 200 0.41
67 6 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (66 bp):
AGGTCGAAACCAATACAGTCAAGCGAAGGTGACTAGGATATAATCTTAGGTCTAAAAGGGTTGAC
T
Found at i:1725907 original size:66 final size:66
Alignment explanation
Indices: 1725837--1725998 Score: 175
Period size: 66 Copynumber: 2.5 Consensus size: 66
1725827 AAAACTAACC
* * *
1725837 AAGATATAATCGTAGGTTTAAAAGGGTTGACCAATGCAAAACTGACATAGTCAAGTGAAGGTGAC
1 AAGATATAATCTTAGGTTTAAAAGGGTTGACCAAGGCAAAACTGACATAGTCAAATGAAGGTGAC
1725902 T
66 T
* * * ** * *
1725903 AAGATATAATCTTAGGTTTACAAA-GGTTAACTAGGGTGAAACTGATATAGTTAAATGAAGGTGA
1 AAGATATAATCTTAGGTTTA-AAAGGGTTGACCAAGGCAAAACTGACATAGTCAAATGAAGGTGA
1725967 CT
65 CT
* * * *
1725969 AGGATGTAATCTTGGGTCT-AAAGGGTTGAC
1 AAGATATAATCTTAGGTTTAAAAGGGTTGAC
1725999 TAGGGCTAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 3 0.04
65 6 0.08
66 67 0.85
67 3 0.04
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (66 bp):
AAGATATAATCTTAGGTTTAAAAGGGTTGACCAAGGCAAAACTGACATAGTCAAATGAAGGTGAC
T
Found at i:1726297 original size:38 final size:40
Alignment explanation
Indices: 1726205--1726309 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 40
1726195 GGCAAAATTG
* * *
1726205 ACAAGTCAACAAG-TGAAAGGGTTGATTAAAATAAAACCT
1 ACAAGTCAACAAGTTTAAGGGGTTGATCAAAATAAAACCT
* * * *
1726244 ATAAGTCAACGAGTTTAAGGGGTTGA-CCAAA-AAACCCT
1 ACAAGTCAACAAGTTTAAGGGGTTGATCAAAATAAAACCT
1726282 ACAAGTCAACAAGTTTAA-GGG-TGATCAA
1 ACAAGTCAACAAGTTTAAGGGGTTGATCAA
1726310 GACCTATAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
36 3 0.06
37 5 0.09
38 22 0.41
39 14 0.26
40 10 0.19
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (40 bp):
ACAAGTCAACAAGTTTAAGGGGTTGATCAAAATAAAACCT
Found at i:1727306 original size:30 final size:30
Alignment explanation
Indices: 1727214--1727427 Score: 97
Period size: 30 Copynumber: 7.2 Consensus size: 30
1727204 GGTATGGATG
*
1727214 AAACC-GAAACCTAAACAATAACTTAGGCA
1 AAACCAGAAACCTAAACAATAACTTGGGCA
* * **
1727243 AAACCA-AGA-CTCAATGA-AATAGCTTGGATA
1 AAACCAGAAACCT-AA--ACAATAACTTGGGCA
*
1727273 AAACTAGAAACCTAAACAATAACTTGGGCA
1 AAACCAGAAACCTAAACAATAACTTGGGCA
* * * * * **
1727303 AAACCA-ACA-CTCAAGAAAATAGCCTAGATA
1 AAACCAGAAACCT-AA-ACAATAACTTGGGCA
1727333 AAACCA-AAAGCCTAAACAATAACTTGGGCA
1 AAACCAGAAA-CCTAAACAATAACTTGGGCA
* * * * * **
1727363 AAACCA-ACA-CTCAATATAATAGCCTAGATA
1 AAACCAGAAACCT-AA-ACAATAACTTGGGCA
1727393 AAACCA-AAAGCCTAAACAATAACTTGGGCA
1 AAACCAGAAA-CCTAAACAATAACTTGGGCA
1727423 AAACC
1 AAACC
1727428 TAAATAATCA
Statistics
Matches: 131, Mismatches: 39, Indels: 29
0.66 0.20 0.15
Matches are distributed among these distances:
28 6 0.05
29 16 0.12
30 94 0.72
31 9 0.07
32 6 0.05
ACGTcount: A:0.50, C:0.22, G:0.12, T:0.15
Consensus pattern (30 bp):
AAACCAGAAACCTAAACAATAACTTGGGCA
Found at i:1727315 original size:60 final size:60
Alignment explanation
Indices: 1727214--1727427 Score: 319
Period size: 60 Copynumber: 3.6 Consensus size: 60
1727204 GGTATGGATG
* * * * *
1727214 AAACCGAAA-CCTAAACAATAACTTAGGCAAAACCAAGACTCAATGAAATAGCTTGGATA
1 AAACCAAAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAATGAAATAGCCTAGATA
*
1727273 AAACTAGAAA-CCTAAACAATAACTTGGGCAAAACCAACACTCAA-GAAAATAGCCTAGATA
1 AAACCA-AAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAATG-AAATAGCCTAGATA
1727333 AAACCAAAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAAT-ATAATAGCCTAGATA
1 AAACCAAAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAATGA-AATAGCCTAGATA
1727393 AAACCAAAAGCCTAAACAATAACTTGGGCAAAACC
1 AAACCAAAAGCCTAAACAATAACTTGGGCAAAACC
1727428 TAAATAATCA
Statistics
Matches: 143, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
59 9 0.06
60 134 0.94
ACGTcount: A:0.50, C:0.22, G:0.12, T:0.15
Consensus pattern (60 bp):
AAACCAAAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAATGAAATAGCCTAGATA
Found at i:1727430 original size:23 final size:23
Alignment explanation
Indices: 1727397--1727450 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1727387 TAGATAAAAC
*
1727397 CAAAAGCCTAAACAATAACTTGGG
1 CAAAA-CCTAAACAATAACTTAGG
* *
1727421 CAAAACCTAAATAATCACTTAGG
1 CAAAACCTAAACAATAACTTAGG
*
1727444 TAAAACC
1 CAAAACC
1727451 AAGACTCAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (23 bp):
CAAAACCTAAACAATAACTTAGG
Found at i:1727449 original size:83 final size:83
Alignment explanation
Indices: 1727337--1727515 Score: 214
Period size: 83 Copynumber: 2.1 Consensus size: 83
1727327 TAGATAAAAC
* * *
1727337 CAAAAGCCTAAACAATAACTTGGGCAAAACCAACACTCAATATAATAGCCTAGATAAAACCAAAA
1 CAAAA-CCTAAACAATAACTTAGGCAAAACCAACACTCAACAAAATAGCCTAGATAAAACCAAAA
* * *
1727402 GCCTAAACAATAACTTGGG
65 ACCTAAACAATAACTTAGA
* * * * * * *
1727421 CAAAACCTAAATAATCACTTAGGTAAAACCAAGACTCAACAAAATGGTCTAGATGAAACCAAAAA
1 CAAAACCTAAACAATAACTTAGGCAAAACCAACACTCAACAAAATAGCCTAGATAAAACCAAAAA
*
1727486 CCTAAACAATGACTTAGA
66 CCTAAACAATAACTTAGA
*
1727504 CAAAACCAAAAC
1 CAAAACCTAAAC
1727516 TTAACAAAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
83 74 0.94
84 5 0.06
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (83 bp):
CAAAACCTAAACAATAACTTAGGCAAAACCAACACTCAACAAAATAGCCTAGATAAAACCAAAAA
CCTAAACAATAACTTAGA
Found at i:1727547 original size:60 final size:59
Alignment explanation
Indices: 1727422--1727899 Score: 166
Period size: 60 Copynumber: 8.2 Consensus size: 59
1727412 TAACTTGGGC
* ** * **
1727422 AAAACCTAAATAATCACTTAGGTAAAACCAAGACTCAACAAAATGGTCTAGATGAAACCA
1 AAAACCTAAA-AATGACTTAGACAAAACCAAAACTCAACAAAATGGTCTAGACAAAACCA
* * *
1727482 AAAACCTAAACAATGACTTAGACAAAACCAAAACTTAACAAAATGG-CTTGAACAAAACTA
1 AAAACCTAAA-AATGACTTAGACAAAACCAAAACTCAACAAAATGGTCTAG-ACAAAACCA
* * ** * *** * * * * *
1727542 GAAACCT-AAAATGACTTGGATGAAACTAAGGTTTAAAAAAAT-GACTTGGATC-GAACCA
1 AAAACCTAAAAATGACTTAGACAAAACCAAAACTCAACAAAATGGTC-TAGA-CAAAACCA
* ** * * ***
1727600 AAAACCTAAAAAT-ACTTGGATGAAACCAAAGCT-AAAAAAATGG-CTTAGATGGAACC-
1 AAAACCTAAAAATGACTTAGACAAAACCAAAACTCAACAAAATGGTC-TAGACAAAACCA
* * * * * *
1727656 AAAACCTAAAATTGACTTGGACACAACCAAAACT-AAAAAAATGG-CTTGGACAGAACCA
1 AAAACCTAAAAATGACTTAGACAAAACCAAAACTCAACAAAATGGTC-TAGACAAAACCA
* * * * ** * *
1727714 AAAATCTAAAAATGACTTTAGACAAGACCAAAATTCTATGAAAT-GAC-A-AC--AA-TA
1 AAAACCTAAAAATGAC-TTAGACAAAACCAAAACTCAACAAAATGGTCTAGACAAAACCA
* * * * * * * * * *
1727768 GAAACCTACAAAATGGCTTGGCCTAAACCAAGACTTAACAAAATGGTCTGGACGAAACTA
1 AAAACCTA-AAAATGACTTAGACAAAACCAAAACTCAACAAAATGGTCTAGACAAAACCA
* * * * **
1727828 AAAACCTAAACAATG-GTTGAGGCAAAA-CAAGACTCAACAAAATGG-CATGGATGAAACCA
1 AAAACCTAAA-AATGACTT-AGACAAAACCAAAACTCAACAAAATGGTC-TAGACAAAACCA
*
1727887 AAAACCTAGAAAT
1 AAAACCTAAAAAT
1727900 TACTATATAT
Statistics
Matches: 325, Mismatches: 71, Indels: 46
0.74 0.16 0.10
Matches are distributed among these distances:
54 24 0.07
55 11 0.03
56 12 0.04
57 59 0.18
58 73 0.22
59 70 0.22
60 76 0.23
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (59 bp):
AAAACCTAAAAATGACTTAGACAAAACCAAAACTCAACAAAATGGTCTAGACAAAACCA
Found at i:1727605 original size:58 final size:56
Alignment explanation
Indices: 1727543--1727731 Score: 186
Period size: 57 Copynumber: 3.3 Consensus size: 56
1727533 ACAAAACTAG
* * * *
1727543 AAACCTAAAATGACTTGGATGAAACTAAGGTTTAAAAAAATGACTTGGATCGAACCAA
1 AAACCTAAAATGACTTGGATGAAACCAAAG-CTAAAAAAATGACTTAGATCGAACC-A
* *
1727601 AAACCTAAAAAT-ACTTGGATGAAACCAAAGCTAAAAAAATGGCTTAGATGGAACCA
1 AAACCT-AAAATGACTTGGATGAAACCAAAGCTAAAAAAATGACTTAGATCGAACCA
* * * *
1727657 AAACCTAAAATTGACTTGGA-CACAACCAAAACTAAAAAAATGGCTTGGA-CAGAACCAA
1 AAACCTAAAA-TGACTTGGATGA-AACCAAAGCTAAAAAAATGACTTAGATC-GAACC-A
*
1727715 AAATCTAAAAATGACTT
1 AAACCT-AAAATGACTT
1727732 TAGACAAGAC
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
55 4 0.04
56 9 0.08
57 57 0.50
58 34 0.30
59 9 0.08
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (56 bp):
AAACCTAAAATGACTTGGATGAAACCAAAGCTAAAAAAATGACTTAGATCGAACCA
Found at i:1727666 original size:28 final size:28
Alignment explanation
Indices: 1727578--1727731 Score: 116
Period size: 29 Copynumber: 5.4 Consensus size: 28
1727568 TAAGGTTTAA
*
1727578 AAAAATGACTTGGATCGAACCAAAAACCT
1 AAAAATGACTTGGATGGAACC-AAAACCT
* *
1727607 AAAAAT-ACTTGGATGAAACC-AAAGCT
1 AAAAATGACTTGGATGGAACCAAAACCT
* *
1727633 AAAAAAATGGCTTAGATGGAACCAAAACCT
1 --AAAAATGACTTGGATGGAACCAAAACCT
* ***
1727663 AAAATTGACTTGGACACAACCAAAA-CT
1 AAAAATGACTTGGATGGAACCAAAACCT
* ** *
1727690 AAAAAAATGGCTTGGACAGAACCAAAAATCT
1 --AAAAATGACTTGGATGGAACC-AAAACCT
1727721 AAAAATGACTT
1 AAAAATGACTT
1727732 TAGACAAGAC
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
26 5 0.05
27 2 0.02
28 37 0.37
29 45 0.45
30 9 0.09
31 2 0.02
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAAATGACTTGGATGGAACCAAAACCT
Found at i:1727674 original size:57 final size:58
Alignment explanation
Indices: 1727477--1727731 Score: 248
Period size: 58 Copynumber: 4.4 Consensus size: 58
1727467 GTCTAGATGA
* ** * * * * *
1727477 AACCAAAAACCTAAACAATGACTTAGACAAAACCAAAACTTAACAAAATGGCTTGAACAA
1 AACCAAAAACCTAAA-AATGACTTGGATGAAACCAAAGC-TAAAAAAATGGCTTGGATAG
* * * * * * *
1727537 AACTAGAAACCT-AAAATGACTTGGATGAAACTAAGGTTTAAAAAAATGACTTGGATCG
1 AACCAAAAACCTAAAAATGACTTGGATGAAACCAAAG-CTAAAAAAATGGCTTGGATAG
* *
1727595 AACCAAAAACCTAAAAAT-ACTTGGATGAAACCAAAGCTAAAAAAATGGCTTAGATGG
1 AACCAAAAACCTAAAAATGACTTGGATGAAACCAAAGCTAAAAAAATGGCTTGGATAG
* * * *
1727652 AACC-AAAACCTAAAATTGACTTGGA-CACAACCAAAACTAAAAAAATGGCTTGGACAG
1 AACCAAAAACCTAAAAATGACTTGGATGA-AACCAAAGCTAAAAAAATGGCTTGGATAG
*
1727709 AACCAAAAATCTAAAAATGACTT
1 AACCAAAAACCTAAAAATGACTT
1727732 TAGACAAGAC
Statistics
Matches: 159, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
56 13 0.08
57 57 0.36
58 72 0.45
59 7 0.04
60 10 0.06
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (58 bp):
AACCAAAAACCTAAAAATGACTTGGATGAAACCAAAGCTAAAAAAATGGCTTGGATAG
Found at i:1728990 original size:25 final size:25
Alignment explanation
Indices: 1728962--1729010 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1728952 TATGATTATT
1728962 ATTTTTAATTTTATTTTAATTTTAG
1 ATTTTTAATTTTATTTTAATTTTAG
* *
1728987 ATTTTTTATTTTATTTTATTTTTA
1 ATTTTTAATTTTATTTTAATTTTA
1729011 ACTAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (25 bp):
ATTTTTAATTTTATTTTAATTTTAG
Found at i:1730314 original size:19 final size:20
Alignment explanation
Indices: 1730290--1730343 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1730280 ACATTATGCT
**
1730290 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
*
1730309 TTGTATCGATATATGGACAA
1 TTGTATCGATACATGGACAA
1730329 TTGTATCGATACATG
1 TTGTATCGATACATG
1730344 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:1730415 original size:33 final size:33
Alignment explanation
Indices: 1730373--1730435 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1730363 TATCACTAAT
*
1730373 TGTATCGATACATGGT-ACATTGTATCGATAAAA
1 TGTATCGATACATGATGA-ATTGTATCGATAAAA
1730406 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATGAATTGTATCGATA
1730436 CATTGCTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATAAAA
Found at i:1732370 original size:19 final size:19
Alignment explanation
Indices: 1732326--1732398 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
1732316 CTGCCAATCT
*
1732326 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
1732346 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
* *
1732365 CATGTATCGATACAAGGCAT
1 CATGTATCGATACAATG-AC
*
1732385 AATGTATCGATACA
1 CATGTATCGATACA
1732399 TTCAAGGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:1741083 original size:20 final size:20
Alignment explanation
Indices: 1741058--1741108 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1741048 CAATCTCATA
* *
1741058 TATCGACACAATTGTCCATG
1 TATCGATACAATTGACCATG
*
1741078 TATCGATACAA-TGAGCATG
1 TATCGATACAATTGACCATG
1741097 TATCGATACAAT
1 TATCGATACAAT
1741109 GTATCGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (20 bp):
TATCGATACAATTGACCATG
Found at i:1741112 original size:13 final size:13
Alignment explanation
Indices: 1741094--1741120 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1741084 TACAATGAGC
1741094 ATGTATCGATACA
1 ATGTATCGATACA
1741107 ATGTATCGATACA
1 ATGTATCGATACA
1741120 A
1 A
1741121 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:1742210 original size:155 final size:156
Alignment explanation
Indices: 1741841--1742228 Score: 401
Period size: 156 Copynumber: 2.5 Consensus size: 156
1741831 TTTAGAAGAG
* * * *
1741841 AGTCTTACGTTGTCACC-ATATTGCTTTTATGCCAAAGGTATGCATTTAGGAGAGGTTCATCTTT
1 AGTCTTAAGTAGTCACCGA-ATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTT
* * * * * * *
1741905 TTATGATTATTTTCTTTTCTTTTAGGGTCACTTATATACTTTTACATCAAATATATATACCTAAG
65 TTATGATCATTTTCATGTCCTTTAGGGTCACTTAGATACTTTTACATCAAAGATATATACCTAAA
* *
1741970 GATATTTTGGTAATATCTTTATAACTA
130 GACATTTTGGTAATATCTTTAAAACTA
** * *
1741997 AGTCTTAAGTAGTCACCGAATCACTTTTATGCCAAATGTGTGTATTTAGGATAGGTTCATCTTTT
1 AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
* * * * * *
1742062 TATGATCATTTTCATGTCCTTTATGTTTA-TTGGGATACTTTTACATCGAAGGTATAT-CCTACA
66 TATGATCATTTTCATGTCCTTTAGGGTCACTT-AGATACTTTTACATCAAAGATATATACCTA-A
1742125 AG-CATTTTGGTAAT-T-TTCCTAAAACTA
129 AGACATTTTGGTAATATCTT--TAAAACTA
** * * ** * * *
1742152 AGTCTTAAGTAGTCATTGGATTGCTTTTATGCTAAAGGTGTGCATTTATTATATGTTCATCATGT
1 AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
1742217 TATGATCATTTT
66 TATGATCATTTT
1742229 TTGGTCTTTT
Statistics
Matches: 191, Mismatches: 36, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
153 2 0.01
154 1 0.01
155 88 0.46
156 99 0.52
157 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (156 bp):
AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
TATGATCATTTTCATGTCCTTTAGGGTCACTTAGATACTTTTACATCAAAGATATATACCTAAAG
ACATTTTGGTAATATCTTTAAAACTA
Found at i:1742255 original size:155 final size:156
Alignment explanation
Indices: 1741841--1742451 Score: 439
Period size: 155 Copynumber: 4.0 Consensus size: 156
1741831 TTTAGAAGAG
* * * *
1741841 AGTCTTACGTTGTCACC-ATATTGCTTTTATGCCAAAGGTATGCATTTAGGAGAGGTTCATCTTT
1 AGTCTTAAGTAGTCACCGA-ATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTT
* * * * * *
1741905 TTATGATTATTTTCTTTTCTTTTAGGGTCA-CTTATATACTTTTACATCAAATATATATACCTAA
65 TTATGATCATTTTCTTGTCTTTTAGGGTTATC-GAGATACTTTTACATCAAAGATATATACCTAA
* * *
1741969 GGATATTTTGGTAATATCTTTATAACTA
129 AGACATTTTGGTAATATCTTTAAAACTA
** * *
1741997 AGTCTTAAGTAGTCACCGAATCACTTTTATGCCAAATGTGTGTATTTAGGATAGGTTCATCTTTT
1 AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
* * * * * * * *
1742062 TATGATCATTTTCATGTCCTTTATGTTTATTGGGATACTTTTACATCGAAGGTATAT-CCTACAA
66 TATGATCATTTTCTTGTCTTTTAGGGTTATCGAGATACTTTTACATCAAAGATATATACCTA-AA
1742126 G-CATTTTGGTAAT-T-TTCCTAAAACTA
130 GACATTTTGGTAATATCTT--TAAAACTA
** * * ** * * *
1742152 AGTCTTAAGTAGTCATTGGATTGCTTTTATGCTAAAGGTGTGCATTTATTATATGTTCATCATGT
1 AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
* * * *
1742217 TATGATCATTTT-TTGGTCTTTTAGGGTTATCGAGATAC-TTT-CTTGTAAA-A-GTACACCTTA
66 TATGATCATTTTCTT-GTCTTTTAGGGTTATCGAGATACTTTTACAT-CAAAGATATATACC-TA
* ** * * * *
1742277 ATGGTAATTTGGTAAT-T-TTTTAAATTG
128 AAGACATTTTGGTAATATCTTTAAAACTA
* * * * * ** *
1742304 AGTTTTAAGTAGTCA-CTAATTTGCTTTTATGCAAAAGGTGTGTATTTAGGATATGTTTGTCCTT
1 AGTCTTAAGTAGTCACCGAA-TTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTT
* * * * **
1742368 TTATGATCGTTTT-GTGCCTTTTAGGGTTAACGAGATA-TTTTCACATTGAAGATATAT-CCT-A
65 TTATGATCATTTTCTTGTCTTTTAGGGTTATCGAGATACTTTT-ACATCAAAGATATATACCTAA
* * *
1742429 GGAGCATTTTGCTAATTTCTTTA
129 AGA-CATTTTGGTAATATCTTTA
1742452 GAATCGAGTT
Statistics
Matches: 354, Mismatches: 82, Indels: 40
0.74 0.17 0.08
Matches are distributed among these distances:
151 26 0.07
152 83 0.23
153 14 0.04
154 27 0.08
155 104 0.29
156 99 0.28
157 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (156 bp):
AGTCTTAAGTAGTCACCGAATTGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATCTTTT
TATGATCATTTTCTTGTCTTTTAGGGTTATCGAGATACTTTTACATCAAAGATATATACCTAAAG
ACATTTTGGTAATATCTTTAAAACTA
Found at i:1747543 original size:14 final size:12
Alignment explanation
Indices: 1747516--1747582 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 12
1747506 ATGGGATTCA
*
1747516 TATTTTATTTAT
1 TATTTTTTTTAT
1747528 TATTTTGTTATTAT
1 TATTTT-TT-TTAT
1747542 TATTATTTTTTAT
1 TATT-TTTTTTAT
1747555 T-TTTGTTTTT-T
1 TATTT-TTTTTAT
1747566 TATTTTTATATTAT
1 TATTTTT-T-TTAT
1747580 TAT
1 TAT
1747583 ATATATGTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
11 5 0.11
12 17 0.37
13 8 0.17
14 14 0.30
15 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TATTTTTTTTAT
Found at i:1747546 original size:17 final size:16
Alignment explanation
Indices: 1747524--1747555 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1747514 CATATTTTAT
1747524 TTATTATTTTGTTATTA
1 TTATTATTTT-TTATTA
1747541 TTATTATTTTTTATT
1 TTATTATTTTTTATT
1747556 TTTGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTATTATTTTTTATTA
Found at i:1750161 original size:20 final size:20
Alignment explanation
Indices: 1750133--1750170 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1750123 TCGTTATGCT
*
1750133 TAATGTATCGATACAATTTA
1 TAATATATCGATACAATTTA
1750153 TAATATATCGATACAATT
1 TAATATATCGATACAATT
1750171 ATAGCAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
TAATATATCGATACAATTTA
Found at i:1750327 original size:33 final size:33
Alignment explanation
Indices: 1750286--1750364 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
1750276 GACAAAGAAT
1750286 ATATATCGATACAATGTACCGATACTAAACAAC
1 ATATATCGATACAATGTACCGATACTAAACAAC
* * * *
1750319 ATGTATCGATACAATGTATCGATACTAAGCAAT
1 ATATATCGATACAATGTACCGATACTAAACAAC
1750352 ATATATCGATACA
1 ATATATCGATACA
1750365 TCTGGGTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (33 bp):
ATATATCGATACAATGTACCGATACTAAACAAC
Found at i:1750337 original size:13 final size:13
Alignment explanation
Indices: 1750319--1750343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1750309 ACTAAACAAC
1750319 ATGTATCGATACA
1 ATGTATCGATACA
1750332 ATGTATCGATAC
1 ATGTATCGATAC
1750344 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1750974 original size:19 final size:19
Alignment explanation
Indices: 1750949--1751005 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1750939 TTGTATCGAT
*
1750949 ACATTGTACCGATACATGC
1 ACATTGTATCGATACATGC
* * *
1750968 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGC
1750987 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1751006 AGATAGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1751098 original size:34 final size:33
Alignment explanation
Indices: 1751034--1751103 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
1751024 CTATCACTAT
1751034 TTGTATCGATACATGGGATAATGTATCGATACA
1 TTGTATCGATACATGGGATAATGTATCGATACA
*
1751067 TTGTATTGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGATAA-TGTATCGATACA
1751101 TTG
1 TTG
1751104 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGGGATAATGTATCGATACA
Found at i:1754868 original size:20 final size:20
Alignment explanation
Indices: 1754843--1754892 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1754833 ATCCTGAAAA
*
1754843 GTATCGATACATATTTAATT
1 GTATCGATACATATTGAATT
* *
1754863 GTATCGATACATGTTGCATT
1 GTATCGATACATATTGAATT
1754883 GTATCGATAC
1 GTATCGATAC
1754893 TTGAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGAATT
Found at i:1754964 original size:13 final size:13
Alignment explanation
Indices: 1754946--1755004 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
1754936 GTAGCTAAAC
1754946 TTGTATCGATACA
1 TTGTATCGATACA
1754959 TTGTATCGATACACCA
1 TTGTATCGAT--A-CA
1754975 TAAAATGTATCGATACA
1 T----TGTATCGATACA
1754992 TTGTATCGATACA
1 TTGTATCGATACA
1755005 CCATAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 9 0.23
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1754985 original size:20 final size:20
Alignment explanation
Indices: 1754960--1755024 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1754950 ATCGATACAT
1754960 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
1754980 TGTATCGAT--A-CAT----
1 TGTATCGATACACCATAAAA
1754993 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
1755013 TGTATCGATACA
1 TGTATCGATACA
1755025 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 21 0.55
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:1754989 original size:33 final size:33
Alignment explanation
Indices: 1754947--1755027 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
1754937 TAGCTAAACT
1754947 TGTATCGATACATTGTATCGATACACCATAAAA
1 TGTATCGATACATTGTATCGATACACCATAAAA
1754980 TGTATCGATACATTGTATCGATACACCATAAAA
1 TGTATCGATACATTGTATCGATACACCATAAAA
1755013 TGTATCGATACATTG
1 TGTATCGATACATTG
1755028 GCTTGTAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACCATAAAA
Found at i:1760506 original size:13 final size:13
Alignment explanation
Indices: 1760488--1760513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1760478 CACACCCAGA
1760488 TGTATCGATACAT
1 TGTATCGATACAT
1760501 TGTATCGATACAT
1 TGTATCGATACAT
1760514 GCTCATTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1760522 original size:19 final size:19
Alignment explanation
Indices: 1760498--1760554 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1760488 TGTATCGATA
*
1760498 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGAT
*
1760517 CATTGTATCGATTCATGGAT
1 CATTGTATCGATACAT-GAT
*
1760537 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
1760555 GATTGGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:1760543 original size:20 final size:20
Alignment explanation
Indices: 1760494--1760553 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1760484 CAGATGTATC
1760494 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* * *
1760514 GCTCATTGTATCGATTCATG
1 GATAATTGTATCGATACATG
1760534 GATAATTGTATCGATACATG
1 GATAATTGTATCGATACATG
1760554 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:1760610 original size:20 final size:21
Alignment explanation
Indices: 1760585--1760636 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
1760575 TCACTATTTA
1760585 TATCGATACATG-GGACAA-TG
1 TATCGATACATGAGGA-AATTG
1760605 TATCGATACATGAGGAAATTG
1 TATCGATACATGAGGAAATTG
1760626 TATCGATACAT
1 TATCGATACAT
1760637 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (21 bp):
TATCGATACATGAGGAAATTG
Found at i:1763492 original size:31 final size:33
Alignment explanation
Indices: 1763411--1763497 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
1763401 TTCGGGTGAT
* *
1763411 TTTGAGTGGATG-ATTTGATGAAAAAGAAAGTAC
1 TTTGA-TGGATGAATTTGATGAAAAACAAAGTAA
*
1763444 TTTTATGGATGAATTTGATGAAAAACAAAG-AGA
1 TTTGATGGATGAATTTGATGAAAAACAAAGTA-A
1763477 TTTGAT-GA-GAATTTGATGAAA
1 TTTGATGGATGAATTTGATGAAA
1763498 TTTGAAAAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.27
32 9 0.19
33 26 0.54
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.32
Consensus pattern (33 bp):
TTTGATGGATGAATTTGATGAAAAACAAAGTAA
Found at i:1769495 original size:14 final size:15
Alignment explanation
Indices: 1769476--1769505 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1769466 AAATTTTATC
1769476 TTAATTTTTA-AATT
1 TTAATTTTTATAATT
1769490 TTAATTTTTATAATT
1 TTAATTTTTATAATT
1769505 T
1 T
1769506 AATCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTATAATT
Found at i:1770982 original size:167 final size:167
Alignment explanation
Indices: 1770626--1771004 Score: 412
Period size: 167 Copynumber: 2.3 Consensus size: 167
1770616 AAATATTTAG
* * *
1770626 AAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTATGAAATAGTATTTTTTAAAAATGAATAAA
1 AAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTTAAAAATG-ACAAA
* * *
1770691 TAAATAAAATAAAATTAATCCTTTCATAATTGAAATAAACATTAATCATATTTCTTAATCTTTTA
65 TAAATAAAATAAAATCAATACTTTCATAACTGAAATAAACATTAATCATATTTCTTAATCTTTTA
* *
1770756 AATTCATATAGGGGTCCATATAGGTATAAAAGATTTCA
130 AATTCATATAGGGATCCATAGAGGTATAAAAGATTTCA
* * *
1770794 AAAATGGTTT-GTATATTTTCGGGTTTCCATTAAGGTACGAAATGGTA-TTTTTCAAAA-G-CAA
1 AAACT--TTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTTAAAAATGACAA
* * * * *
1770855 ATAAATTTAAATTAAATCAATACTTTTATAACT-AATATAAA-ATTAAATC-TTTCTTTTCTAAT
64 ATAAA-TAAAATAAAATCAATACTTTCATAACTGAA-ATAAACATT-AATCATAT-TTCT-TAAT
* * * *
1770917 CTTTTATATTCCTATAGGGATCCGTAGGGGTATAAAAGATTTTCA
124 CTTTTAAATTCATATAGGGATCCATAGAGGTATAAAAGA-TTTCA
** * *
1770962 AAACTTTTCGTATCTTTTCGGAATTCTATTAAGGTACAAAATG
1 AAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATG
1771005 AATTTTTGTA
Statistics
Matches: 176, Mismatches: 26, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
165 14 0.08
166 36 0.20
167 67 0.38
168 22 0.12
169 34 0.19
170 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.40
Consensus pattern (167 bp):
AAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTTAAAAATGACAAAT
AAATAAAATAAAATCAATACTTTCATAACTGAAATAAACATTAATCATATTTCTTAATCTTTTAA
ATTCATATAGGGATCCATAGAGGTATAAAAGATTTCA
Found at i:1771720 original size:154 final size:153
Alignment explanation
Indices: 1771242--1771712 Score: 527
Period size: 154 Copynumber: 3.1 Consensus size: 153
1771232 TTCCTTTATG
* * * * * * * * *
1771242 TTTTTAAATCCCTTAGGGGCACCGAGTACTTTTACGTCAAAGGTATCCCCTAGA-GTATTTTCGT
1 TTTTTAAGTCCCTTAGGGGTATCG-GAAATTTTACATCAAAAGTATCCCTTAGAGGCATTTTCGT
* * * * *
1771306 AATTTTTTAGTACCAACTCCTAGGTCGTCGTCGGGTCTGCTTTTATGCCGAAGGTAGATATTTAG
65 AATTTTCTAGAACCAACTCCTAGGTCGTTGTCAGGTCTGCTTTTATGTCGAAGGTAGATATTTAG
*
1771371 GATAGATTCATCCCTTTTATGATAC
130 GATAGGTTCATCCCTTTTATGAT-C
* * * ** *
1771396 TTTTTAAGTCCCTTCGAGGTATTGGGTACTTTACATCAAAAGTATCCCTTAGAGGCATTTTCGTA
1 TTTTTAAGTCCCTTAGGGGTATCGGAAATTTTACATCAAAAGTATCCCTTAGAGGCATTTTCGTA
* * * * * *
1771461 CTTTTCTAGAACCAAGTCCTAAGTCATTG-CGAGGTCCGCTTTTATATCGAAGGTAGATATTTAG
66 ATTTTCTAGAACCAACTCCTAGGTCGTTGTC-AGGTCTGCTTTTATGTCGAAGGTAGATATTTAG
* *
1771525 GATATGTTCATCCCTTTTATGATT
130 GATAGGTTCATCCCTTTTATGATC
* *
1771549 TTTTTAAGTCCCTTAGGGGTATCGGAAAGTTTTACATCAAAAGCATCCCTTAGAGGCATTTTTGT
1 TTTTTAAGTCCCTTAGGGGTATCGGAAA-TTTTACATCAAAAGTATCCCTTAGAGGCATTTTCGT
* * *
1771614 AATTTTCTAGAACCAACTCCTAGGTCGTTGTCAGGTATGTTTTTATGTCGAAGGT-GAGCATTTA
65 AATTTTCTAGAACCAACTCCTAGGTCGTTGTCAGGTCTGCTTTTATGTCGAAGGTAGA-TATTTA
** *
1771678 TAATAGGTTCAT-CCTATCTATGATC
129 GGATAGGTTCATCCCT-TTTATGATC
1771703 TTTTTAAGTC
1 TTTTTAAGTC
1771713 TTTTAGGGTT
Statistics
Matches: 261, Mismatches: 50, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
153 51 0.20
154 209 0.80
155 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (153 bp):
TTTTTAAGTCCCTTAGGGGTATCGGAAATTTTACATCAAAAGTATCCCTTAGAGGCATTTTCGTA
ATTTTCTAGAACCAACTCCTAGGTCGTTGTCAGGTCTGCTTTTATGTCGAAGGTAGATATTTAGG
ATAGGTTCATCCCTTTTATGATC
Done.