Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 46 of 190
Found at i:7801241 original size:2 final size:2
Alignment explanation
Indices: 7801234--7801264 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7801224 TTACTCTAAG
*
7801234 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7801265 TGTAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7801295 original size:8 final size:8
Alignment explanation
Indices: 7801236--7801296 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
7801226 ACTCTAAGTA
*
7801236 TATATATA
1 TATATATT
*
7801244 TATATATA
1 TATATATT
7801252 TATATATT
1 TATATATT
*
7801260 TATAT-TG
1 TATATATT
*
7801267 TAAATTATT
1 TATA-TATT
7801276 TATA-ATT
1 TATATATT
7801283 T-TATATT
1 TATATATT
7801290 TATATAT
1 TATATAT
7801297 ATGTATTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.05
7 12 0.27
8 26 0.59
9 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:7801519 original size:14 final size:15
Alignment explanation
Indices: 7801479--7801516 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
7801469 TTGTTCATTT
*
7801479 TTTTTAAACTTGTTTG
1 TTTTTAAA-TTTTTTG
7801495 TTTTTAAATTTTTTG
1 TTTTTAAATTTTTTG
7801510 TTTTTAA
1 TTTTTAA
7801517 TTTAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTTTAAATTTTTTG
Found at i:7802413 original size:21 final size:22
Alignment explanation
Indices: 7802382--7802422 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7802372 CCATATGAGC
*
7802382 TTTTATGCTTTTTTGTTTTTAT
1 TTTTATGCTTTTATGTTTTTAT
7802404 TTTTAT-CTTTTATGTTTTT
1 TTTTATGCTTTTATGTTTTT
7802423 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTATGCTTTTATGTTTTTAT
Found at i:7802892 original size:12 final size:12
Alignment explanation
Indices: 7802864--7802902 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
7802854 CATTAAAAAG
7802864 TTTTTTTTTTCAA
1 TTTTTTTTTTC-A
*
7802877 TTTTTTTTTTGCT
1 TTTTTTTTTT-CA
7802890 TTTTTTTTTTCA
1 TTTTTTTTTTCA
7802902 T
1 T
7802903 GTTTATCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 20 0.87
14 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTTCA
Found at i:7803339 original size:2 final size:2
Alignment explanation
Indices: 7803332--7803365 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7803322 TCCTAACCTA
*
7803332 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7803366 TTAATATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7804530 original size:24 final size:24
Alignment explanation
Indices: 7804458--7804531 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 24
7804448 TTAGAAAATA
7804458 AAATTATTCTTAATTT-AAT--TTT
1 AAATTATT-TTAATTTAAATAATTT
* * * *
7804480 AAATTATTTCAA-GTAAGTAATTC
1 AAATTATTTTAATTTAAATAATTT
7804503 AAATTATTTTAATTTAAATAATTT
1 AAATTATTTTAATTTAAATAATTT
7804527 AAATT
1 AAATT
7804532 TGGATCAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.03
21 5 0.12
22 8 0.20
23 13 0.32
24 13 0.32
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (24 bp):
AAATTATTTTAATTTAAATAATTT
Found at i:7804804 original size:2 final size:2
Alignment explanation
Indices: 7804797--7804829 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7804787 TAAGGATGGC
7804797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7804830 TGAAGAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7810482 original size:3 final size:3
Alignment explanation
Indices: 7810474--7810511 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7810464 CAAAAATCTC
* *
7810474 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7810512 CTATTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:7812304 original size:19 final size:19
Alignment explanation
Indices: 7812280--7812324 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7812270 AGAAATGAGT
* * *
7812280 AAAATAATAATTAAAGATG
1 AAAATAATAAGTAAAAATA
7812299 AAAATAATAAGTAAAAATA
1 AAAATAATAAGTAAAAATA
7812318 AAAATAA
1 AAAATAA
7812325 AAAATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAATAATAAGTAAAAATA
Found at i:7812317 original size:13 final size:12
Alignment explanation
Indices: 7812280--7812381 Score: 57
Period size: 13 Copynumber: 8.2 Consensus size: 12
7812270 AGAAATGAGT
*
7812280 AAAATAATAATTA
1 AAAATAA-AAATA
* *
7812293 AAGATGAAAATA
1 AAAATAAAAATA
*
7812305 ATAAGTAAAAATA
1 A-AAATAAAAATA
7812318 AAAATAAAAAATA
1 AAAAT-AAAAATA
* *
7812331 TAAA-AAATATA
1 AAAATAAAAATA
*
7812342 AAAAAAGTAAAAT-
1 AAAATA--AAAATA
7812355 AAAAT-AAAATA
1 AAAATAAAAATA
*
7812366 AAAACAGAAAATA
1 AAAATA-AAAATA
7812379 AAA
1 AAA
7812382 TGAAAGAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
10 5 0.07
11 13 0.19
12 9 0.13
13 37 0.54
14 4 0.06
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:7812352 original size:9 final size:8
Alignment explanation
Indices: 7812317--7812369 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 8
7812307 AAGTAAAAAT
7812317 AAAAATAA
1 AAAAATAA
7812325 AAAATATAA
1 AAAA-ATAA
7812334 AAAATATAA
1 AAAA-ATAA
7812343 AAAAAGTAA
1 AAAAA-TAA
*
7812352 AATAA-AA
1 AAAAATAA
*
7812359 TAAAATAA
1 AAAAATAA
7812367 AAA
1 AAA
7812370 CAGAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 5 0.13
8 9 0.24
9 24 0.63
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:7812352 original size:18 final size:17
Alignment explanation
Indices: 7812311--7812363 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
7812301 AATAATAAGT
7812311 AAAAAT-AAAAATA-AA
1 AAAAATAAAAAATATAA
*
7812326 AAATATAAAAAATATAA
1 AAAAATAAAAAATATAA
*
7812343 AAAAAGTAAAATAAAATAA
1 AAAAA-TAAAA-AATATAA
7812362 AA
1 AA
7812364 TAAAAACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 6 0.19
18 5 0.16
19 8 0.26
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAAATATAA
Found at i:7812379 original size:23 final size:23
Alignment explanation
Indices: 7812279--7812394 Score: 92
Period size: 23 Copynumber: 4.8 Consensus size: 23
7812269 AAGAAATGAG
* * *
7812279 TAAAATAATAATTAAAGATGAAAA
1 TAAAATAA-AATAAAAAAAGAAAA
7812303 TAATAAGTAAAAATAAAAATAA-AAAA
1 TAA-AA-T-AAAATAAAAA-AAGAAAA
7812329 TATAAA-AAATATAAAAAAAGTAAAA
1 TA-AAATAAA-ATAAAAAAAG-AAAA
*
7812354 TAAAATAAAATAAAAACAGAAAA
1 TAAAATAAAATAAAAAAAGAAAA
* *
7812377 TAAAATGAAAGAAAAAAA
1 TAAAATAAAATAAAAAAA
7812395 AAAGAAAAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
23 24 0.32
24 22 0.29
25 11 0.14
26 15 0.20
27 4 0.05
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (23 bp):
TAAAATAAAATAAAAAAAGAAAA
Found at i:7812648 original size:16 final size:15
Alignment explanation
Indices: 7812622--7812651 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7812612 TCAGAAATTA
7812622 AAACCAAAATTCAAG
1 AAACCAAAATTCAAG
7812637 AAACCTAAAATTCAA
1 AAACC-AAAATTCAA
7812652 ATCAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (15 bp):
AAACCAAAATTCAAG
Found at i:7814958 original size:15 final size:15
Alignment explanation
Indices: 7814935--7814973 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
7814925 CTTTTCTTGT
7814935 TTAGGCCATTATCAC
1 TTAGGCCATTATCAC
*
7814950 TTAGACCATTATCAC
1 TTAGGCCATTATCAC
7814965 TTAGGCCAT
1 TTAGGCCAT
7814974 CTTTAATGGC
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:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (15 bp):
TTAGGCCATTATCAC
Found at i:7815694 original size:106 final size:105
Alignment explanation
Indices: 7815489--7815708 Score: 244
Period size: 106 Copynumber: 2.1 Consensus size: 105
7815479 AAAGGTATTG
* * * * *
7815489 AAACTTTAAAAATTTAAAATATCTTGCCTAGAGTTCTTTAGAGATTATGTTTAGAAGTCATACAA
1 AAACTTTAAAAATTTAAAATATCTTACCTAAAGGTCTTTAGAGATTATGCTCAGAAGTCATACAA
* * *
7815554 ATGTTAAAACATATAACAGCTCCTCTTATCAGAGGCCTTA
66 ATCTTAAAACATATAACAGCTCATCTAATCAGAGGCCTTA
* * * *
7815594 AAACTTTTAAAAATTTAAAATGTTTTACTTAAAGGTCTTTAGAGATTATGCTCAGAAGTCTTACA
1 AAAC-TTTAAAAATTTAAAATATCTTACCTAAAGGTCTTTAGAGATTATGCTCAGAAGTCATACA
* ** * * *
7815659 AATCTTGAAATGTATGAA-AGTTCATCTAATTAGAGGCCTTG
65 AATCTTAAAACATAT-AACAGCTCATCTAATCAGAGGCCTTA
*
7815700 GAACTTTAA
1 AAACTTTAA
7815709 CGATCTTGTT
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
105 9 0.10
106 83 0.88
107 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (105 bp):
AAACTTTAAAAATTTAAAATATCTTACCTAAAGGTCTTTAGAGATTATGCTCAGAAGTCATACAA
ATCTTAAAACATATAACAGCTCATCTAATCAGAGGCCTTA
Found at i:7815814 original size:50 final size:50
Alignment explanation
Indices: 7815754--7816182 Score: 342
Period size: 50 Copynumber: 8.6 Consensus size: 50
7815744 GCTTTGATGT
* * * *
7815754 CTTTGAAACTTTAAAAATCTTATTTGAAAATGACTCCCTCTAAATAAAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATGACTTCCTCTAAACAGAGG
* * ** *
7815804 CTTTGGAACTTT-AAAATCTTGTTTGAAAATCG-TTTATTCTAAATAGAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAAT-GACTTCCTCTAAACAGAGG
* ** *
7815853 CTTTGAAACTTTAAAAATCCTGTTTGAAAATGGTTTCCTCTGAACAGAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATGACTTCCTCTAAACAGAGG
* * *
7815903 CTTTGAAATTTTAAAAATCTTGTCTGAAAATGGCTTTCCT-TAAACAGAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATGAC-TTCCTCTAAACAGAGG
* * * * *
7815953 CATTGAAACTTT-AAAATCTTATCTAAAAATGACTT-ATCATAAACAGAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATGACTTCCTC-TAAACAGAGG
** * * * *
7816002 CTCCGAAACTTAAAAAATCTTATTTGAAAATTG-GTTCCTCTAAA-TGAAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAA-TGACTTCCTCTAAACAG-AGG
* * * * *
7816052 CTTTAAAACTTAAAAAATCTTGTCTGAAAAT-AGTTCCCCTTAAAC-GAAGG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATGACTTCCTC-TAAACAG-AGG
* * * * * * *
7816102 CTTTGAAACTTTGACACA-CTTGTAT-AAAATTAGCTCCCT-TAAATAGAGA
1 CTTTGAAACTTT-AAAAATCTTGTTTGAAAATGA-CTTCCTCTAAACAGAGG
7816151 CTTTGAAACTTTAAAAATCTTGTTTGAAAATG
1 CTTTGAAACTTTAAAAATCTTGTTTGAAAATG
7816183 TTCCGTGATG
Statistics
Matches: 307, Mismatches: 53, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
47 1 0.00
48 5 0.02
49 114 0.37
50 172 0.56
51 15 0.05
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (50 bp):
CTTTGAAACTTTAAAAATCTTGTTTGAAAATGACTTCCTCTAAACAGAGG
Found at i:7815969 original size:99 final size:99
Alignment explanation
Indices: 7815756--7816113 Score: 260
Period size: 99 Copynumber: 3.6 Consensus size: 99
7815746 TTTGATGTCT
* * *
7815756 TTGAAACTTTAAAAATCTTATTTGAAAATGACTCCCTCTAAATAAAGGCTTTGGAACTTTAAAAT
1 TTGAAACTTTAAAAATCCTATTTGAAAATGACTCCCTCTAAACAAAGGCTTTGAAACTTTAAAAT
* * * *
7815821 CTTGTTTGAAAATCGTTTATTCTAAATAGAGGCT
66 CTTGTCTGAAAATCGTTTACTCTAAACAGAGGCA
* ** * * * *
7815855 TTGAAACTTTAAAAATCCTGTTTGAAAATGGTTTCCTCTGAACAGAGGCTTTGAAATTTTAAAAA
1 TTGAAACTTTAAAAATCCTATTTGAAAATGACTCCCTCTAAACAAAGGCTTTGAAACTTT-AAAA
* *
7815920 TCTTGTCTGAAAATGGCTTTCCT-TAAACAGAGGCA
65 TCTTGTCTGAAAATCG-TTTACTCTAAACAGAGGCA
* * * ** * ** *
7815955 TTGAAACTTT-AAAATCTTATCTAAAAATGACT-TATCATAAACAGAGGCTCCGAAACTTAAAAA
1 TTGAAACTTTAAAAATCCTATTTGAAAATGACTCCCTC-TAAACAAAGGCTTTGAAACTT-TAAA
* * * * * * *
7816018 ATCTTATTTGAAAATTGGTTCCTCTAAA-TGAAGGCT
64 ATCTTGTCTGAAAATCGTTTACTCTAAACAG-AGGCA
* * * * * * *
7816054 TTAAAACTTAAAAAATCTTGTCTGAAAAT-AGTTCCC-CTTAAACGAAGGCTTTGAAACTTT
1 TTGAAACTTTAAAAATCCTATTTGAAAATGA-CTCCCTC-TAAACAAAGGCTTTGAAACTTT
7816114 GACACACTTG
Statistics
Matches: 202, Mismatches: 48, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
98 8 0.04
99 117 0.58
100 73 0.36
101 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (99 bp):
TTGAAACTTTAAAAATCCTATTTGAAAATGACTCCCTCTAAACAAAGGCTTTGAAACTTTAAAAT
CTTGTCTGAAAATCGTTTACTCTAAACAGAGGCA
Found at i:7816028 original size:149 final size:149
Alignment explanation
Indices: 7815754--7816113 Score: 394
Period size: 149 Copynumber: 2.4 Consensus size: 149
7815744 GCTTTGATGT
* * * * * *
7815754 CTTTGAAACTTTAAAAATCTTATTTGAAAATGAC-TCCCTCTAAATAAAGGCTTTGGAACTTTAA
1 CTTTGAAACTTTAAAAATCTTGTCTGAAAATGGCTTCCCT-TAAACAGAGGCTTTGAAACTTTAA
* * * * * ** * *
7815818 AATCTTGTTTGAAAATCGTTTATTCTAAATAGAGGCTTTGAAACTTTAAAAATCCTGTTTGAAAA
65 AATCTTATCTAAAAATCGCTTATTCTAAACAGAGGCTCCGAAACTTAAAAAATCCTATTTGAAAA
7815883 -TGGTTTCCTCTGAACA-G-AGG
130 TTGG-TTCCTCT-AA-ATGAAGG
* * *
7815903 CTTTGAAATTTTAAAAATCTTGTCTGAAAATGGCTTTCCTTAAACAGAGGCATTGAAACTTTAAA
1 CTTTGAAACTTTAAAAATCTTGTCTGAAAATGGCTTCCCTTAAACAGAGGCTTTGAAACTTTAAA
*
7815968 ATCTTATCTAAAAAT-GACTTA-TCATAAACAGAGGCTCCGAAACTTAAAAAATCTTATTTGAAA
66 ATCTTATCTAAAAATCG-CTTATTC-TAAACAGAGGCTCCGAAACTTAAAAAATCCTATTTGAAA
7816031 ATTGGTTCCTCTAAATGAAGG
129 ATTGGTTCCTCTAAATGAAGG
* * *
7816052 CTTTAAAACTTAAAAAATCTTGTCTGAAAATAG-TTCCCCTTAAAC-GAAGGCTTTGAAACTTT
1 CTTTGAAACTTTAAAAATCTTGTCTGAAAATGGCTT-CCCTTAAACAG-AGGCTTTGAAACTTT
7816114 GACACACTTG
Statistics
Matches: 178, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
147 1 0.01
148 9 0.05
149 161 0.90
150 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (149 bp):
CTTTGAAACTTTAAAAATCTTGTCTGAAAATGGCTTCCCTTAAACAGAGGCTTTGAAACTTTAAA
ATCTTATCTAAAAATCGCTTATTCTAAACAGAGGCTCCGAAACTTAAAAAATCCTATTTGAAAAT
TGGTTCCTCTAAATGAAGG
Found at i:7816159 original size:149 final size:150
Alignment explanation
Indices: 7815843--7816181 Score: 372
Period size: 149 Copynumber: 2.3 Consensus size: 150
7815833 TCGTTTATTC
*
7815843 TAAATAGAGGCTTTGAAACTTTAAAAATCCTGTTTGAAAA-TGGTTTCCTCTGAACAGAGGCTTT
1 TAAATAGAGGCTTTGAAACTTTAAAAATCTTGTTTGAAAATTGGTTTCCTCTGAACAGAGGCTTT
* * * * *
7815907 GAAATTTTAAAAATCTTGTCTGAAAATGGCTTTCCTTAAACAGAGGCATTGAAACTTTAAAATCT
66 AAAACTTAAAAAATCTTGTCTGAAAATAGCTTCCCTTAAACAGAGGCATTGAAACTTTAAAATCT
* *
7815972 TATCTAAAAATGACTTATCA
131 TATATAAAAATGACTTACCA
* ** * *
7815992 TAAACAGAGGCTCCGAAACTTAAAAAATCTTATTTGAAAATTGG-TTCCTCT-AA-ATGAAGGCT
1 TAAATAGAGGCTTTGAAACTTTAAAAATCTTGTTTGAAAATTGGTTTCCTCTGAACA-G-AGGCT
*
7816054 TTAAAACTTAAAAAATCTTGTCTGAAAATAG-TTCCCCTTAAAC-GAAGGCTTTGAAACTTTGAC
64 TTAAAACTTAAAAAATCTTGTCTGAAAATAGCTT-CCCTTAAACAG-AGGCATTGAAACTTT-A-
* * * * *
7816117 ACA-CTTGTAT-AAAATTAGC-TCCCT
125 AAATCTTATATAAAAATGA-CTTACCA
*
7816141 TAAATAGAGACTTTGAAACTTTAAAAATCTTGTTTGAAAAT
1 TAAATAGAGGCTTTGAAACTTTAAAAATCTTGTTTGAAAAT
7816182 GTTCCGTGAT
Statistics
Matches: 157, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
147 1 0.01
148 6 0.04
149 138 0.88
150 10 0.06
151 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (150 bp):
TAAATAGAGGCTTTGAAACTTTAAAAATCTTGTTTGAAAATTGGTTTCCTCTGAACAGAGGCTTT
AAAACTTAAAAAATCTTGTCTGAAAATAGCTTCCCTTAAACAGAGGCATTGAAACTTTAAAATCT
TATATAAAAATGACTTACCA
Found at i:7820525 original size:19 final size:20
Alignment explanation
Indices: 7820503--7820541 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7820493 TATTTTAGTT
7820503 TTATCAT-TTTAAAGTTTTA
1 TTATCATGTTTAAAGTTTTA
*
7820522 TTATTATGTTTAAAGTTTTA
1 TTATCATGTTTAAAGTTTTA
7820542 AAATTTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
TTATCATGTTTAAAGTTTTA
Found at i:7820667 original size:3 final size:3
Alignment explanation
Indices: 7820659--7820716 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
7820649 AATAAACCTT
7820659 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7820707 ATA ATA ATA A
1 ATA ATA ATA A
7820717 ATGGTTTCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7828699 original size:25 final size:23
Alignment explanation
Indices: 7828639--7828699 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 23
7828629 TTATTTGTTT
* *
7828639 TCATTTTCATTTTCATTTATTTGA
1 TCATTTTC-TTTTCATTTACTTAA
7828663 TCCATTTCTCTTTTCATTCTACCTTAA
1 T-CATTT-TCTTTTCATT-TA-CTTAA
7828690 TCATTTTCTT
1 TCATTTTCTT
7828700 GCCATTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 17 0.55
26 9 0.29
27 4 0.13
ACGTcount: A:0.18, C:0.21, G:0.02, T:0.59
Consensus pattern (23 bp):
TCATTTTCTTTTCATTTACTTAA
Found at i:7832150 original size:15 final size:15
Alignment explanation
Indices: 7832132--7832162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7832122 GCTTTGCTTC
7832132 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
7832147 AAAAAAAGAGAAAAG
1 AAAAAAAGAAAAAAG
7832162 A
1 A
7832163 GGGATATATC
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:7833114 original size:106 final size:103
Alignment explanation
Indices: 7832991--7833279 Score: 270
Period size: 106 Copynumber: 2.8 Consensus size: 103
7832981 TCGAACAAAA
*
7832991 ATGAGATTTTTTTAAGTTGTTGAA-CCTTTACCTAGATAAGCCTTTTTCAAAATGAAGAATTTTT
1 ATGAGATTTTTTAAAGTTGTT-AAGCCTTTACCTAGATAAGCCTTTTTCAAAATGAAGAA-TTTT
* *
7833055 TTAAAAGTTATTAAGCCTTTATCTAGAAGAAG-TTTTTTCAAG
64 TT-AAAGTTATTAAGCCTCTACCTAG-AGAAGCTTTTTTC-AG
* * ** *** *
7833097 ATGAGATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCCTTGCCCAAGATG-AGAATTTTTT
1 ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGATAAGCCTTTTTCAAAATGAAGAATTTTTT
* **
7833161 AAAGTTGTTAAGCCTCTACCTAGAGGTGCCTTTTTTCAG
66 AAAGTTATTAAGCCTCTACCTAGAGAAG-CTTTTTTCAG
* * * *
7833200 ATGAGA-ATTTTAAAGTTGTTAAGCCTCTACTTAGATAAG-CTTTTTCTAATATG-A-AA-TTTT
1 ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGATAAGCCTTTTTC-AAAATGAAGAATTTTT
* **
7833260 TAAAATCGTTAAGCCTCTAC
65 TAAAGTTATTAAGCCTCTAC
7833280 TTAAAGGAGC
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
100 22 0.14
101 6 0.04
102 35 0.23
103 28 0.18
104 13 0.09
105 6 0.04
106 42 0.28
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (103 bp):
ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGATAAGCCTTTTTCAAAATGAAGAATTTTTT
AAAGTTATTAAGCCTCTACCTAGAGAAGCTTTTTTCAG
Found at i:7833122 original size:51 final size:51
Alignment explanation
Indices: 7832991--7833294 Score: 242
Period size: 50 Copynumber: 5.9 Consensus size: 51
7832981 TCGAACAAAA
* * *
7832991 ATGAGATTTTTTTAAGTTGTTGAA-CCTTTACCTAGATAAGCCTTTTTCAAA
1 ATGAGATTTTTTAAAGTTGTT-AAGCCTTTACCTAGAGAAGCCTTTTTCAAG
* * *
7833042 ATGAAGAATTTTTTTAAAAGTTATTAAGCCTTTATCTAGAAGAAG-TTTTTTCAAG
1 ATG-AG-A-TTTTTT-AAAGTTGTTAAGCCTTTACCTAG-AGAAGCCTTTTTCAAG
* * * ***
7833097 ATGAGATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCCTTGCCCAAG
1 ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGAGAAGCCTTTTTCAAG
* **
7833148 ATGAGAATTTTTTAAAGTTGTTAAGCCTCTACCTAGAGGTGCCTTTTTTC-AG
1 ATGAG-ATTTTTTAAAGTTGTTAAGCCTTTACCTAGAGAAGCC-TTTTTCAAG
* * * * *
7833200 ATGAGA-ATTTTAAAGTTGTTAAGCCTCTACTTAGATAAG-CTTTTTCTAAT
1 ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGAGAAGCCTTTTTC-AAG
* * * * * * *
7833250 ATGA-AATTTTTAAAATCGTTAAGCCTCTACTTAAAGGAGCCTTTT
1 ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGAGAAGCCTTTT
7833295 AAATTTTTAA
Statistics
Matches: 209, Mismatches: 31, Indels: 26
0.79 0.12 0.10
Matches are distributed among these distances:
48 6 0.03
49 2 0.01
50 64 0.31
51 42 0.20
52 48 0.23
53 5 0.02
54 10 0.05
55 28 0.13
56 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (51 bp):
ATGAGATTTTTTAAAGTTGTTAAGCCTTTACCTAGAGAAGCCTTTTTCAAG
Found at i:7833160 original size:52 final size:52
Alignment explanation
Indices: 7832991--7833225 Score: 214
Period size: 52 Copynumber: 4.5 Consensus size: 52
7832981 TCGAACAAAA
* * * ** *
7832991 ATGAG-ATTTTTTTAAGTTGTTGAA-CCTTTACCTAGATAAGCCTTTTTCAAA
1 ATGAGAATTTTTTAAAGTTATT-AAGCCTTTAACTAGAGGAGCCTTTTTCAAG
* * *
7833042 ATGAAGAATTTTTTTAAAAGTTATTAAGCCTTTATCTAGAAGAAG-TTTTTTCAAG
1 ATG-AGAA-TTTTTT-AAAGTTATTAAGCCTTTAACTAG-AGGAGCCTTTTTCAAG
***
7833097 ATGAG-ATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCCTTGCCCAAG
1 ATGAGAATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCCTTTTTCAAG
* * * *
7833148 ATGAGAATTTTTTAAAGTTGTTAAGCCTCTACCTAGAGGTGCCTTTTTTC-AG
1 ATGAGAATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCC-TTTTTCAAG
*
7833200 ATGAGAA--TTTTAAAGTTGTTAAGCCT
1 ATGAGAATTTTTTAAAGTTATTAAGCCT
7833226 CTACTTAGAT
Statistics
Matches: 156, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
50 23 0.15
51 36 0.23
52 50 0.32
53 5 0.03
54 10 0.06
55 28 0.18
56 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (52 bp):
ATGAGAATTTTTTAAAGTTATTAAGCCTTTAACTAGAGGAGCCTTTTTCAAG
Found at i:7834756 original size:3 final size:3
Alignment explanation
Indices: 7834743--7834803 Score: 113
Period size: 3 Copynumber: 20.0 Consensus size: 3
7834733 TACTAAAAAT
7834743 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7834789 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
7834804 ATGGTTTCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7840853 original size:9 final size:9
Alignment explanation
Indices: 7840841--7840867 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7840831 TCATGCCTTT
7840841 CATTAACTC
1 CATTAACTC
7840850 CATTAACTC
1 CATTAACTC
7840859 CATTAACTC
1 CATTAACTC
7840868 TATCATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (9 bp):
CATTAACTC
Found at i:7841135 original size:14 final size:16
Alignment explanation
Indices: 7841116--7841149 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
7841106 TTTTTTATTT
7841116 AAATTTTAA-AA-ATA
1 AAATTTTAATAAGATA
7841130 AAATTTTAATAAGATA
1 AAATTTTAATAAGATA
7841146 AAAT
1 AAAT
7841150 ATTGAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 2 0.11
16 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATTTTAATAAGATA
Found at i:7844511 original size:10 final size:10
Alignment explanation
Indices: 7844496--7844521 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7844486 TAATAAAATC
7844496 TTAAAATTTA
1 TTAAAATTTA
7844506 TTAAAATTTA
1 TTAAAATTTA
7844516 TTAAAA
1 TTAAAA
7844522 AGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:7844687 original size:20 final size:22
Alignment explanation
Indices: 7844662--7844702 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
7844652 AAAAAATGTC
7844662 TTAATTTTC-TTATT-TAAAAT
1 TTAATTTTCTTTATTATAAAAT
7844682 TTAATTTTCTTTATTATAAAA
1 TTAATTTTCTTTATTATAAAA
7844703 AACATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
TTAATTTTCTTTATTATAAAAT
Found at i:7845774 original size:3 final size:3
Alignment explanation
Indices: 7845760--7845791 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7845750 TGTTATATTA
*
7845760 ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
7845792 TATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:7845796 original size:3 final size:3
Alignment explanation
Indices: 7845790--7845825 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7845780 CATCATCATC
7845790 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7845826 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7847766 original size:27 final size:28
Alignment explanation
Indices: 7847734--7847806 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 28
7847724 ATATTGATTT
7847734 ATGATTTACGAAATG-TTTGACATAATG
1 ATGATTTACGAAATGTTTTGACATAATG
**
7847761 ATGATTTTGGAAATGTTTTGACAT--T-
1 ATGATTTACGAAATGTTTTGACATAATG
7847786 ATGATTTGA-GAAATGTTTTGA
1 ATGATTT-ACGAAATGTTTTGA
7847807 ATGATCTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.46
26 1 0.02
27 13 0.32
28 8 0.20
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (28 bp):
ATGATTTACGAAATGTTTTGACATAATG
Found at i:7847789 original size:28 final size:28
Alignment explanation
Indices: 7847716--7847806 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 28
7847706 ATGAATTGAC
* *
7847716 ATGTTTTGATATTGATTTATGATTTACGAA
1 ATGTTTTGACATT-A-TGATGATTTACGAA
* **
7847746 ATG-TTTGACATAATGATGATTTTGGAA
1 ATGTTTTGACATTATGATGATTTACGAA
*
7847773 ATGTTTTGACATTATGAT--TTGA-GAA
1 ATGTTTTGACATTATGATGATTTACGAA
7847798 ATGTTTTGA
1 ATGTTTTGA
7847807 ATGATCTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
25 12 0.23
26 2 0.04
27 14 0.27
28 14 0.27
29 7 0.13
30 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (28 bp):
ATGTTTTGACATTATGATGATTTACGAA
Found at i:7851543 original size:12 final size:13
Alignment explanation
Indices: 7851506--7851556 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
7851496 GAACATTAAT
7851506 TAATTAAATTATAA
1 TAATTAAA-TATAA
7851520 TATATATAAATATAA
1 TA-AT-TAAATATAA
7851535 -AATTAAATA-AA
1 TAATTAAATATAA
*
7851546 TAATAAAATAT
1 TAATTAAATAT
7851557 TTTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
11 2 0.06
12 14 0.44
13 2 0.06
14 3 0.09
15 7 0.22
16 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATTAAATATAA
Found at i:7851544 original size:16 final size:16
Alignment explanation
Indices: 7851503--7851554 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
7851493 GATGAACATT
* *
7851503 AATTAATTAAAT-TAT
1 AATTAAATAAATATAA
*
7851518 AATATATATAAATATAA
1 AAT-TAAATAAATATAA
7851535 AATTAAATAAATAATAA
1 AATTAAATAAAT-ATAA
7851552 AAT
1 AAT
7851555 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 3 0.10
16 15 0.50
17 12 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTAAATAAATATAA
Found at i:7851786 original size:20 final size:20
Alignment explanation
Indices: 7851757--7851833 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
7851747 TTATCTAATA
* *
7851757 AAAAGTAAAAAATAAAAGAG
1 AAAAGGAAAAAAAAAAAGAG
*
7851777 AAAAGGAAAAAAAAAAAG-C
1 AAAAGGAAAAAAAAAAAGAG
*
7851796 AAAAGTTAAAAAAAAAAATGAG
1 AAAAG-GAAAAAAAAAAA-GAG
* * *
7851818 GATATGAAAAAAAAAA
1 AAAAGGAAAAAAAAAA
7851834 GAAGAAATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
19 5 0.11
20 27 0.60
21 11 0.24
22 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAAGGAAAAAAAAAAAGAG
Found at i:7852059 original size:22 final size:23
Alignment explanation
Indices: 7852034--7852080 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
7852024 TCTTTTTTAC
* **
7852034 AAAATTTATTTAATTAAAAAATA
1 AAAATTTATTAAAACAAAAAATA
7852057 AAAATTT-TTAAAACAAAAAATA
1 AAAATTTATTAAAACAAAAAATA
7852079 AA
1 AA
7852081 TTTAATCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTTATTAAAACAAAAAATA
Found at i:7852107 original size:16 final size:16
Alignment explanation
Indices: 7852071--7852108 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7852061 TTTTTAAAAC
7852071 AAAAAATAAATTTAAT
1 AAAAAATAAATTTAAT
*
7852087 CAAAAATAAAATTTAA-
1 AAAAAAT-AAATTTAAT
7852103 AAAAAA
1 AAAAAA
7852109 AAGTATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAATTTAAT
Found at i:7852108 original size:17 final size:16
Alignment explanation
Indices: 7852071--7852109 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
7852061 TTTTTAAAAC
*
7852071 AAAAAATAAATTTAAT
1 AAAAAATAAATTTAAA
*
7852087 CAAAAATAAAATTTAAA
1 AAAAAAT-AAATTTAAA
7852104 AAAAAA
1 AAAAAA
7852110 AGTATAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAAATTTAAA
Found at i:7852180 original size:12 final size:12
Alignment explanation
Indices: 7852163--7852188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7852153 TTATTGATAT
7852163 TAATAATAGTAA
1 TAATAATAGTAA
7852175 TAATAATAGTAA
1 TAATAATAGTAA
7852187 TA
1 TA
7852189 TTTGCGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:7852504 original size:21 final size:22
Alignment explanation
Indices: 7852457--7852506 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
7852447 TGATCTTTTA
*
7852457 TAAAAT-ATTAAGATTTTAAAT
1 TAAAATAATTAAGAGTTTAAAT
*
7852478 T-TAATAATTAA-AGTTTAAAT
1 TAAAATAATTAAGAGTTTAAAT
7852498 TAAAATAAT
1 TAAAATAAT
7852507 ATTAAGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAAATAATTAAGAGTTTAAAT
Found at i:7859589 original size:27 final size:26
Alignment explanation
Indices: 7859538--7859600 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
7859528 ATAAGATAAA
*
7859538 ATAATATTATTTTATTTAATCTTATTC
1 ATAATATTATCTTATTTAATCTTA-TC
*
7859565 ATAATATTATCTTATTCT-ATTTTATC
1 ATAATATTATCTTATT-TAATCTTATC
*
7859591 ATAATCTTAT
1 ATAATATTAT
7859601 GTACCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.34
27 20 0.62
28 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATATTATCTTATTTAATCTTATC
Found at i:7870956 original size:8 final size:8
Alignment explanation
Indices: 7870943--7870972 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
7870933 AAATTAAATT
7870943 TTTTAAAA
1 TTTTAAAA
7870951 TTTTAAAA
1 TTTTAAAA
*
7870959 TTTTGAAA
1 TTTTAAAA
7870967 TTTTAA
1 TTTTAA
7870973 TTGCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:7871085 original size:20 final size:19
Alignment explanation
Indices: 7871048--7871085 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7871038 ATTTAAATGA
*
7871048 ATTTTTTTATTATTATTAG
1 ATTTTTTTATTATAATTAG
7871067 ATTTTTTTATATATAATTA
1 ATTTTTTTAT-TATAATTA
7871086 CACTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTTTTTATTATAATTAG
Found at i:7873586 original size:96 final size:96
Alignment explanation
Indices: 7873480--7873672 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
7873470 TCAAAACTTT
*
7873480 CAATCTTTCATAAGTAATTG-AGCTTCGCTAAAAAGTATGAAAATAAATACACT-TATCATTCAA
1 CAATCTTTCATAAGTAATTGTA-CTTCGCTAAAAAGTATGAAAATAAATACA-TGAATCATTCAA
* * *
7873543 TCAAATCATTAATAGAA-CTTATCTTAATATGTA
64 GCAAATAATTAATA-AAGCTTATCTTAATACGTA
* * * * * * *
7873576 CAATCTTTCATTAGTAATTGTATTTTGTTAACAAGTATGAAACTAAATACATGAATCATTTAAGC
1 CAATCTTTCATAAGTAATTGTACTTCGCTAAAAAGTATGAAAATAAATACATGAATCATTCAAGC
7873641 AAATAATTAATAAAGCTTATCTTAATACGTA
66 AAATAATTAATAAAGCTTATCTTAATACGTA
7873672 C
1 C
7873673 TATTTTATCA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.04
96 79 0.95
97 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (96 bp):
CAATCTTTCATAAGTAATTGTACTTCGCTAAAAAGTATGAAAATAAATACATGAATCATTCAAGC
AAATAATTAATAAAGCTTATCTTAATACGTA
Found at i:7874094 original size:22 final size:22
Alignment explanation
Indices: 7874047--7874208 Score: 89
Period size: 22 Copynumber: 7.4 Consensus size: 22
7874037 GCAATTATCA
* * *
7874047 ATAACTTAATAGTTAAAT-AGTA
1 ATAATTTAATAG-TAAATCAATG
* *
7874069 ATAATTTTATAGTAAATCATTG
1 ATAATTTAATAGTAAATCAATG
* * * *
7874091 ATAACTCAATAGTAAATTAATA
1 ATAATTTAATAGTAAATCAATG
* *
7874113 ATTATTTAATAGTAAATGAATG
1 ATAATTTAATAGTAAATCAATG
* *
7874135 ATAATTTAGTCA-TTAAT-AATTG
1 ATAATTTAAT-AGTAAATCAA-TG
* *
7874157 ATAAATTAATAGTAAATCAATA
1 ATAATTTAATAGTAAATCAATG
** * *
7874179 ATAACATAATAATAAAT-ACATA
1 ATAATTTAATAGTAAATCA-ATG
7874201 ATAATTTA
1 ATAATTTA
7874209 GTATTTAATC
Statistics
Matches: 107, Mismatches: 27, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
21 9 0.08
22 95 0.89
23 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATG
Found at i:7874102 original size:44 final size:44
Alignment explanation
Indices: 7874047--7874208 Score: 118
Period size: 44 Copynumber: 3.7 Consensus size: 44
7874037 GCAATTATCA
* * * *
7874047 ATAACTTAATAGTTAAA-TAGTAATAATTTTATAGTAAATCATTG
1 ATAACTCAATAG-TAAATTAATAATAATTTAATAGTAAATCAATG
* *
7874091 ATAACTCAATAGTAAATTAATAATTATTTAATAGTAAATGAATG
1 ATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATCAATG
* * * * * * *
7874135 ATAATTTAGTCA-TTAA-TAATTGATAAATTAATAGTAAATCAATA
1 ATAACTCAAT-AGTAAATTAA-TAATAATTTAATAGTAAATCAATG
*
7874179 ATAACAT-AATAATAAA-TACATAATAATTTA
1 ATAAC-TCAATAGTAAATTA-ATAATAATTTA
7874209 GTATTTAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
43 8 0.09
44 81 0.88
45 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (44 bp):
ATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATCAATG
Found at i:7874139 original size:66 final size:66
Alignment explanation
Indices: 7874052--7874210 Score: 155
Period size: 66 Copynumber: 2.4 Consensus size: 66
7874042 TATCAATAAC
* * * *
7874052 TTAATAGTTAAATAGTAATAATTTTA-T-AGTAAATCATTGATAACTCAATAGTAAATTAATAAT
1 TTAATAGTTAAATAATAATAA-TTTAGTCA-TAAATAATTGATAAATCAATAGTAAATCAATAAT
7874115 TAT
64 TAT
* * * *
7874118 TTAATAG-TAAATGAATGATAATTTAGTCATTAATAATTGATAAATTAATAGTAAATCAATAATA
1 TTAATAGTTAAAT-AATAATAATTTAGTCATAAATAATTGATAAATCAATAGTAAATCAATAATT
*
7874182 AC
65 AT
* *
7874184 ATAATA-ATAAATACATAATAATTTAGT
1 TTAATAGTTAAATA-ATAATAATTTAGT
7874211 ATTTAATCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
65 10 0.13
66 66 0.86
67 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (66 bp):
TTAATAGTTAAATAATAATAATTTAGTCATAAATAATTGATAAATCAATAGTAAATCAATAATTA
T
Found at i:7874189 original size:11 final size:10
Alignment explanation
Indices: 7874157--7874204 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
7874147 TTAATAATTG
7874157 ATAAATTAATA
1 ATAAA-TAATA
*
7874168 GTAAATCAATA
1 ATAAAT-AATA
7874179 ATAACATAATA
1 ATAA-ATAATA
7874190 ATAAATACATA
1 ATAAATA-ATA
7874201 ATAA
1 ATAA
7874205 TTTAGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 4 0.12
11 26 0.81
12 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (10 bp):
ATAAATAATA
Found at i:7874217 original size:66 final size:67
Alignment explanation
Indices: 7874083--7874222 Score: 162
Period size: 66 Copynumber: 2.1 Consensus size: 67
7874073 TTTTATAGTA
* * * ** * *
7874083 AATC-ATTGATAACTCAATAGTAAATTAATAATTATTTAATAGTAAATGAATGATAATTTAGTCA
1 AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGAATAATAATTTAGTCA
7874147 TT
66 TT
*
7874149 AAT-AATTGATAAATTAATAGTAAATCAATAATAACATAATAATAAAT-ACATAATAATTTAGT-
1 AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGA-ATAATAATTTAGTC
7874211 ATTT
65 A-TT
7874215 AATCAATT
1 AATCAATT
7874223 ATATTATATT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
65 2 0.03
66 56 0.90
67 4 0.06
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (67 bp):
AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGAATAATAATTTAGTCA
TT
Found at i:7874344 original size:16 final size:16
Alignment explanation
Indices: 7874323--7874357 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7874313 AACTTATTAA
*
7874323 TAAATTACTAATAATT
1 TAAATTAATAATAATT
7874339 TAAATTAATAATAATT
1 TAAATTAATAATAATT
7874355 TAA
1 TAA
7874358 TAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTAATAATAATT
Found at i:7874468 original size:22 final size:21
Alignment explanation
Indices: 7874434--7874723 Score: 115
Period size: 22 Copynumber: 13.3 Consensus size: 21
7874424 ATTGTAAACA
* *
7874434 ATAATATAGTAGTAAATAACTG
1 ATAATTTAATAGTAAATAA-TG
* *
7874456 ATAATTTAATAGTTAATCATTGG
1 ATAATTTAATAGTAAAT-AAT-G
* * *
7874479 A-AGTTTAAAAGTAAA-ACATT
1 ATAATTTAATAGTAAATA-ATG
* *
7874499 ATAATTTAATAGTAAATTATTA
1 ATAATTTAATAGTAAA-TAATG
* * * *
7874521 ATAACTTAATTGTTAAATGATA
1 ATAATTTAATAG-TAAATAATG
* *
7874543 ATAACTTAATAGTAAATTATAG
1 ATAATTTAATAGTAAATAAT-G
7874565 ATAATTTAATA-TAAATTAATG
1 ATAATTTAATAGTAAA-TAATG
* * * *
7874586 ATAACTTGATAGTATATTATGG
1 ATAATTTAATAGTAAATAAT-G
* *
7874608 ATAATTTAGTAGTAAATCAGTG
1 ATAATTTAATAGTAAAT-AATG
*
7874630 ATAAATTT-GTAGTAAATAATCG
1 AT-AATTTAATAGTAAATAAT-G
* *
7874652 --AATATTAAGTTGTAAATCAATT
1 ATAAT-TTAA-TAGTAAAT-AATG
** * *
7874674 ATAACATAGTAGTAAATATATA
1 ATAATTTAATAGTAAATA-ATG
* *
7874696 ATAATATAATAGTAAATCAATA
1 ATAATTTAATAGTAAAT-AATG
7874718 ATAATT
1 ATAATT
7874724 AAGTAATAAA
Statistics
Matches: 202, Mismatches: 44, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.01
20 4 0.02
21 40 0.20
22 133 0.66
23 20 0.10
24 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATG
Found at i:7874605 original size:43 final size:44
Alignment explanation
Indices: 7874434--7874750 Score: 170
Period size: 44 Copynumber: 7.2 Consensus size: 44
7874424 ATTGTAAACA
* * * * * *
7874434 ATAATATAGTAGTAAAT-AACTGATAATTTAATAGTTAATCATTGG
1 ATAATTTAATAGTAAATCAA-TGATAACTTAATAGTAAATTA-TAG
* * * * *
7874479 A-AGTTTAAAAGTAAAAC-ATTATAATTTAATAGTAAATTATTA-
1 ATAATTTAATAGTAAATCAATGATAACTTAATAGTAAATTA-TAG
* * * *
7874521 ATAACTTAATTGTTAAAT-GATAATAACTTAATAGTAAATTATAG
1 ATAATTTAATAG-TAAATCAATGATAACTTAATAGTAAATTATAG
* * * *
7874565 ATAATTTAATA-TAAATTAATGATAACTTGATAGTATATTATGG
1 ATAATTTAATAGTAAATCAATGATAACTTAATAGTAAATTATAG
* * * ** * *
7874608 ATAATTTAGTAGTAAATCAGTGATAAATTTGTAGTAAATAATCG
1 ATAATTTAATAGTAAATCAATGATAACTTAATAGTAAATTATAG
* * * *
7874652 --AATATTAAGTTGTAAATCAATTATAACATAGTAGTAAATATATA-
1 ATAAT-TTAA-TAGTAAATCAATGATAACTTAATAGTAAAT-TATAG
* * *
7874696 ATAATATAATAGTAAATCAATAATAA-TTAAGTAATAAATTATTA-
1 ATAATTTAATAGTAAATCAATGATAACTTAA-TAGTAAATTA-TAG
*
7874740 ATAACTTAATA
1 ATAATTTAATA
7874751 ACAAATCATT
Statistics
Matches: 209, Mismatches: 49, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
42 9 0.04
43 66 0.32
44 125 0.60
45 6 0.03
46 3 0.01
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.38
Consensus pattern (44 bp):
ATAATTTAATAGTAAATCAATGATAACTTAATAGTAAATTATAG
Found at i:7874621 original size:65 final size:66
Alignment explanation
Indices: 7874499--7874750 Score: 157
Period size: 66 Copynumber: 3.8 Consensus size: 66
7874489 GTAAAACATT
* *
7874499 ATAATTTAATAGTAAATTATTAATAACTTAATTGTTAAATGATAATAACTTAATAGTAAATTATA
1 ATAATTTAATAGTAAATTAATAATAACTTAATAGTTAAATGATAATAACTTAATAGTAAATTATA
7874564 G
66 G
* * * * * * * *
7874565 ATAATTTAATA-TAAATTAATGATAACTTGATAG-TATATTATGGATAATTTAGTAGTAAATCAG
1 ATAATTTAATAGTAAATTAATAATAACTTAATAGTTAAATGAT-AATAACTTAATAGTAAATTA-
7874628 T-G
64 TAG
* * * * * *
7874630 ATAAATTT-GTAGTAAA-TAATCGAAT-A-TTAAGTTG-TAAATCAATTATAACATAGTAGTAAA
1 AT-AATTTAATAGTAAATTAAT--AATAACTTAA-TAGTTAAAT-GATAATAACTTAATAGTAAA
7874690 TATATA-
61 T-TATAG
* * * *
7874696 ATAATATAATAGTAAATCAATAATAA-TTAAGTA-ATAAATTATTAATAACTTAATA
1 ATAATTTAATAGTAAATTAATAATAACTTAA-TAGTTAAATGA-TAATAACTTAATA
7874751 ACAAATCATT
Statistics
Matches: 143, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
64 6 0.04
65 54 0.38
66 75 0.52
67 8 0.06
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (66 bp):
ATAATTTAATAGTAAATTAATAATAACTTAATAGTTAAATGATAATAACTTAATAGTAAATTATA
G
Found at i:7874733 original size:22 final size:21
Alignment explanation
Indices: 7874693--7874758 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
7874683 TAGTAAATAT
*
7874693 ATAATAATATAATAGTAAATCA
1 ATAATAAT-TAATAATAAATCA
*
7874715 ATAATAATTAAGTAATAAATTA
1 ATAATAATTAA-TAATAAATCA
* *
7874737 TTAATAACTTAATAACAAATCA
1 ATAATAA-TTAATAATAAATCA
7874759 TTATTAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.08
22 30 0.81
23 4 0.11
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (21 bp):
ATAATAATTAATAATAAATCA
Found at i:7874750 original size:44 final size:43
Alignment explanation
Indices: 7874499--7874830 Score: 137
Period size: 44 Copynumber: 7.6 Consensus size: 43
7874489 GTAAAACATT
* *
7874499 ATAATTTAA-TAGTAAATTATTAATAACTTAATTGTTAAAT-GATA
1 ATAA-TTAAGTAGTAAATTATTAATAA-TTAATAG-TAAATCAATA
* *
7874543 ATAACTTAA-TAGTAAATTA-TAGATAATTTAATA-TAAATTAATG
1 ATAA-TTAAGTAGTAAATTATTA-ATAA-TTAATAGTAAATCAATA
* * ** * * *
7874586 ATAACTTGA-TAGTATATTATGGATAATTTAGTAGTAAATCAGTG
1 ATAA-TTAAGTAGTAAATTATTAATAA-TTAATAGTAAATCAATA
* * * * *
7874630 ATAAATT-TGTAGTAAATAATCGAAT-ATTAAGTTGTAAATCAATT
1 AT-AATTAAGTAGTAAATTAT-TAATAATTAA-TAGTAAATCAATA
*
7874674 ATAA-CATAGTAGTAAA-TATATAATAATATAATAGTAAATCAATA
1 ATAATTA-AGTAGTAAATTAT-TAATAAT-TAATAGTAAATCAATA
* ** *
7874718 ATAATTAAGTAATAAATTATTAATAACTTAATAACAAATCATTA
1 ATAATTAAGTAGTAAATTATTAATAA-TTAATAGTAAATCAATA
* * * ** * * * * *
7874762 TTAATGT-ATTAGTATATTACAAATAACTTAGTTGTAAATTAGTG
1 ATAAT-TAAGTAGTAAATTATTAATAA-TTAATAGTAAATCAATA
*
7874806 ATAATTTAGTAGTAAATTAGTTAAT
1 ATAATTAAGTAGTAAATTA-TTAAT
7874831 CACTGATAAT
Statistics
Matches: 220, Mismatches: 50, Indels: 35
0.72 0.16 0.11
Matches are distributed among these distances:
42 5 0.02
43 42 0.19
44 156 0.71
45 17 0.08
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (43 bp):
ATAATTAAGTAGTAAATTATTAATAATTAATAGTAAATCAATA
Found at i:7874761 original size:22 final size:22
Alignment explanation
Indices: 7874709--7874766 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7874699 ATATAATAGT
* *
7874709 AAATCAATAATAATTAAGTAAT
1 AAATCATTAATAATTAAGTAAC
*
7874731 AAATTATTAATAACTTAA-TAAC
1 AAATCATTAATAA-TTAAGTAAC
*
7874753 AAATCATTATTAAT
1 AAATCATTAATAAT
7874767 GTATTAGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 25 0.83
23 4 0.13
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATCATTAATAATTAAGTAAC
Found at i:7874809 original size:22 final size:22
Alignment explanation
Indices: 7874784--7874826 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7874774 TATATTACAA
*
7874784 ATAACTTAGTTGTAAATTAGTG
1 ATAACTTAGTAGTAAATTAGTG
*
7874806 ATAATTTAGTAGTAAATTAGT
1 ATAACTTAGTAGTAAATTAGT
7874827 TAATCACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATTAGTG
Found at i:7874883 original size:22 final size:21
Alignment explanation
Indices: 7874870--7874971 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 21
7874860 AACTTTATAA
7874870 TAAATCATCAATAACTTGATGG
1 TAAATCATC-ATAACTTGATGG
* * * * *
7874892 TAAATAAACAATAATTTAATAG
1 TAAATCATC-ATAACTTGATGG
*
7874914 TAAATCATTCATAACTTAATGG
1 TAAATCA-TCATAACTTGATGG
* *
7874936 TAAATTATTCATAACTTGATGA
1 TAAATCA-TCATAACTTGATGG
7874958 TAAATCATTCATAA
1 TAAATCA-TCATAA
7874972 ATTAGAGTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
22 65 0.98
23 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (21 bp):
TAAATCATCATAACTTGATGG
Found at i:7874896 original size:44 final size:43
Alignment explanation
Indices: 7874848--7874971 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 43
7874838 AATTTTGCAA
*
7874848 TAAATAAATTATAACTTTATAATAAATCATCAATAACTTGATGG
1 TAAATAAATTATAACTTTATAATAAATCATC-ATAACTTAATGG
** *
7874892 TAAATAAACAATAA-TTTAATAGTAAATCATTCATAACTTAATGG
1 TAAATAAATTATAACTTT-ATAATAAATCA-TCATAACTTAATGG
* * *
7874936 TAAAT-TATTCATAACTTGATGATAAATCATTCATAA
1 TAAATAAATT-ATAACTTTATAATAAATCA-TCATAA
7874972 ATTAGAGTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
43 4 0.06
44 58 0.88
45 4 0.06
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (43 bp):
TAAATAAATTATAACTTTATAATAAATCATCATAACTTAATGG
Found at i:7875193 original size:13 final size:13
Alignment explanation
Indices: 7875175--7875199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7875165 ACTTATTCAA
7875175 TAAAAAAATTTAG
1 TAAAAAAATTTAG
7875188 TAAAAAAATTTA
1 TAAAAAAATTTA
7875200 AATTTGAATA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAAAAATTTAG
Found at i:7875466 original size:22 final size:22
Alignment explanation
Indices: 7875436--7875529 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
7875426 TTGATAAATC
7875436 TAATAGTAAATCATAAATAACT
1 TAATAGTAAATCATAAATAACT
* *
7875458 TTATAGTAAAT--TAATGATAATT
1 TAATAGTAAATCATAA--ATAACT
* *
7875480 TAGTAGTTAATCAATAAA-AACT
1 TAATAGTAAATC-ATAAATAACT
* *
7875502 TAAAAGTAAATCA-ATATAACT
1 TAATAGTAAATCATAAATAACT
7875523 TAATAGT
1 TAATAGT
7875530 TTTTTAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 35 0.64
23 1 0.02
25 3 0.05
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATAGTAAATCATAAATAACT
Found at i:7875510 original size:44 final size:44
Alignment explanation
Indices: 7875357--7875530 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 44
7875347 TAGTAACTAT
* * * * * *
7875357 TCATATATAACTTAGTAATAAATTAATGACAACTTAATAGTAAA
1 TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
* * * *
7875401 T--TAATTTCACTTTAATAGT-AATTAATTGATAAATCTAATAGTAAA
1 TCATAA-ATAAC-TTAATAGTAAATTAA-TGAT-AATTTAATAGTTAA
* *
7875446 TCATAAATAACTTTATAGTAAATTAATGATAATTTAGTAGTTAA
1 TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
* * *
7875490 TCAATAAA-AACTTAAAAGTAAATCAAT-ATAACTTAATAGTT
1 TC-ATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTT
7875531 TTTTAATAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.02
43 21 0.20
44 39 0.38
45 29 0.28
46 9 0.09
47 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (44 bp):
TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
Found at i:7875706 original size:22 final size:22
Alignment explanation
Indices: 7875681--7875754 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
7875671 AAACTAAGTC
*
7875681 GTAAATCAATGTTAATATAATA
1 GTAAATCAATGATAATATAATA
*
7875703 GTAAATGC-AT-ACTAATGTAATA
1 GTAAAT-CAATGA-TAATATAATA
* * * *
7875725 GTAAATTATTGATAATTTAGTA
1 GTAAATCAATGATAATATAATA
7875747 GTAAATCA
1 GTAAATCA
7875755 CTAATACCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (22 bp):
GTAAATCAATGATAATATAATA
Found at i:7875840 original size:22 final size:22
Alignment explanation
Indices: 7875815--7875908 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 22
7875805 AGTAATAGAT
* *
7875815 TAGTTAATAATTGATAATTTTA
1 TAGTAAATAATCGATAATTTTA
*
7875837 TAGTAAATAATCGATAA-ATTA
1 TAGTAAATAATCGATAATTTTA
* *
7875858 GTAGTTAATCAAT-TATAATTTTA
1 -TAGTAAAT-AATCGATAATTTTA
* * *
7875881 TAATAAATAATCAATAATTTAA
1 TAGTAAATAATCGATAATTTTA
7875903 TAGTAA
1 TAGTAA
7875909 GTTATCAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
21 6 0.11
22 45 0.79
23 6 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (22 bp):
TAGTAAATAATCGATAATTTTA
Found at i:7875853 original size:52 final size:47
Alignment explanation
Indices: 7875815--7875917 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 47
7875805 AGTAATAGAT
7875815 TAGTTAAT-AATTGATAATTTTATAGTAAATAATCGATAA---ATTAG
1 TAGTTAATCAATT-ATAATTTTATAGTAAATAATCGATAATTTATTAG
* * *
7875859 TAGTTAATCAATTATAATTTTATAATAAATAATCAATAATTTAATAG
1 TAGTTAATCAATTATAATTTTATAGTAAATAATCGATAATTTATTAG
7875906 TAAGTT-ATCAAT
1 T-AGTTAATCAAT
7875918 ATTTTAATGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 32 0.63
45 4 0.08
47 11 0.22
48 4 0.08
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (47 bp):
TAGTTAATCAATTATAATTTTATAGTAAATAATCGATAATTTATTAG
Found at i:7875864 original size:44 final size:44
Alignment explanation
Indices: 7875815--7875906 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
7875805 AGTAATAGAT
* * *
7875815 TAGTTAAT-AATTGATAATTTTATAGTAAATAATCGATAAATTAG
1 TAGTTAATCAATT-ATAATTTTATAATAAATAATCAATAAATTAA
*
7875859 TAGTTAATCAATTATAATTTTATAATAAATAATCAATAATTTAA
1 TAGTTAATCAATTATAATTTTATAATAAATAATCAATAAATTAA
7875903 TAGT
1 TAGT
7875907 AAGTTATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 39 0.91
45 4 0.09
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (44 bp):
TAGTTAATCAATTATAATTTTATAATAAATAATCAATAAATTAA
Found at i:7875915 original size:22 final size:22
Alignment explanation
Indices: 7875828--7875925 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 22
7875818 TTAATAATTG
* * *
7875828 ATAATTTTATAGTAAATAATCG
1 ATAATTTAATAATAAATAATCA
* * * * *
7875850 ATAAATTAGTAGTTAATCAAT-T
1 ATAATTTAATAATAAAT-AATCA
*
7875872 ATAATTTTATAATAAATAATCA
1 ATAATTTAATAATAAATAATCA
* * *
7875894 ATAATTTAATAGTAAGTTATCA
1 ATAATTTAATAATAAATAATCA
*
7875916 ATATTTTAAT
1 ATAATTTAAT
7875926 GGTGACTTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 3 0.05
22 52 0.90
23 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAATTTAATAATAAATAATCA
Found at i:7875935 original size:22 final size:22
Alignment explanation
Indices: 7875872--7875935 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
7875862 TTAATCAATT
* * * *
7875872 ATAATTTTATAATAAATAATCA
1 ATAATTTAATAGTAACTTATCA
*
7875894 ATAATTTAATAGTAAGTTATCA
1 ATAATTTAATAGTAACTTATCA
* * *
7875916 ATATTTTAATGGTGACTTAT
1 ATAATTTAATAGTAACTTAT
7875936 TCATAAACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (22 bp):
ATAATTTAATAGTAACTTATCA
Found at i:7875996 original size:22 final size:22
Alignment explanation
Indices: 7875971--7876022 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7875961 CAAATTAGTT
7875971 GTAAATCAATGT-TAATTTAATA
1 GTAAATCAAT-TATAATTTAATA
7875993 GTAAAT-AATTAATAATTTAATA
1 GTAAATCAATT-ATAATTTAATA
*
7876015 ATAAATCA
1 GTAAATCA
7876023 CTGCTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 21 0.81
23 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
GTAAATCAATTATAATTTAATA
Found at i:7876582 original size:60 final size:57
Alignment explanation
Indices: 7876516--7876698 Score: 244
Period size: 59 Copynumber: 3.1 Consensus size: 57
7876506 TTGTGCAGGA
7876516 AAAATTGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTGAAATTTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTT--AATTTTATTTT-AAAG
*
7876576 AAAATTGATACTTTCAACTTTTCC-TAAAAAAACCCTTTTTTTTAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAAAA-CC-TTTTTTTAATTTTA-TTTTAAAG
* * ** *
7876635 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTATTTTTA-TTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTAATTTTATTTTAAAG
7876691 AAAATTGA
1 AAAATTGA
7876699 ATAATAAAAC
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
56 14 0.12
58 13 0.12
59 42 0.38
60 36 0.32
61 7 0.06
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTAATTTTATTTTAAAG
Found at i:7876724 original size:6 final size:5
Alignment explanation
Indices: 7876701--7876780 Score: 58
Period size: 5 Copynumber: 15.4 Consensus size: 5
7876691 AAAATTGAAT
*
7876701 AATAA AACAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* *
7876746 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
7876781 AGAATATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
4 6 0.10
5 29 0.48
6 25 0.42
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:7876724 original size:17 final size:15
Alignment explanation
Indices: 7876701--7876781 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 15
7876691 AAAATTGAAT
7876701 AATAAAACAAAATAAA
1 AATAAAA-AAAATAAA
* *
7876717 AATGAAAATAA-AAA
1 AATAAAAAAAATAAA
* *
7876731 AATAAAATAAAGAAA
1 AATAAAAAAAATAAA
*
7876746 AGTAAAACAAAAATAAA
1 AAT-AAA-AAAAATAAA
7876763 AATAAAATAAAGATAAA
1 AATAAAA-AAA-ATAAA
7876780 AA
1 AA
7876782 GAATATTAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.22
15 9 0.18
16 15 0.29
17 16 0.31
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AATAAAAAAAATAAA
Found at i:7876778 original size:11 final size:11
Alignment explanation
Indices: 7876704--7876780 Score: 68
Period size: 11 Copynumber: 6.8 Consensus size: 11
7876694 ATTGAATAAT
*
7876704 AAAACAAAATA
1 AAAATAAAATA
7876715 AAAATGAAAATAAA
1 AAAAT-AAAAT--A
7876729 AAAATAAAATA
1 AAAATAAAATA
* *
7876740 AAGA-AAAGTA
1 AAAATAAAATA
7876750 AAACA-AAAATA
1 AAA-ATAAAATA
7876761 AAAATAAAATA
1 AAAATAAAATA
*
7876772 AAGATAAAA
1 AAAATAAAA
7876781 AGAATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
10 8 0.15
11 31 0.56
12 5 0.09
13 5 0.09
14 6 0.11
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7876783 original size:40 final size:40
Alignment explanation
Indices: 7876709--7876784 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
7876699 ATAATAAAAC
* * *
7876709 AAAATAAAAATGAAAATAAAAAAATAAAATAAAGAAAAGT
1 AAAACAAAAATAAAAATAAAAAAAGAAAATAAAGAAAAGT
*
7876749 AAAACAAAAATAAAAATAAAATAAAGATAA-AAAGAA
1 AAAACAAAAATAAAAATAAAA-AAAGAAAATAAAGAA
7876785 TATTAACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (40 bp):
AAAACAAAAATAAAAATAAAAAAAGAAAATAAAGAAAAGT
Found at i:7876825 original size:18 final size:16
Alignment explanation
Indices: 7876804--7876851 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
7876794 AACCTAATCT
7876804 AATAAATAAAAATAAATA
1 AATAAA-AAAAAT-AATA
7876822 AATAAAAAACAAATAATA
1 AAT-AAAAA-AAATAATA
7876840 AATAAAAAAAAT
1 AATAAAAAAAAT
7876852 TCAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.14
17 5 0.18
18 12 0.43
19 7 0.25
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAAAAAATAATA
Found at i:7876839 original size:14 final size:15
Alignment explanation
Indices: 7876804--7876841 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7876794 AACCTAATCT
*
7876804 AATAAAT-AAAAATA
1 AATAAATAAAAAACA
7876818 AATAAATAAAAAACA
1 AATAAATAAAAAACA
7876833 AAT-AATAAA
1 AATAAATAAA
7876842 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
AATAAATAAAAAACA
Found at i:7877219 original size:20 final size:20
Alignment explanation
Indices: 7877194--7877233 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7877184 TTCATCGGAT
*
7877194 TCTGGGATTTATCGTCGAAA
1 TCTGGGATTTATCATCGAAA
* *
7877214 TCTGGGTTTTTTCATCGAAA
1 TCTGGGATTTATCATCGAAA
7877234 ATTCGTCGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (20 bp):
TCTGGGATTTATCATCGAAA
Found at i:7877772 original size:20 final size:22
Alignment explanation
Indices: 7877749--7877800 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
7877739 AGAAAAAAAG
7877749 AAAAAAAAATC-ATAAAAAT-A
1 AAAAAAAAATCGATAAAAATGA
* *
7877769 AAAATAAAATCGATAAATATGA
1 AAAAAAAAATCGATAAAAATGA
7877791 AATAAAAAAA
1 AA-AAAAAAA
7877801 ATCTAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.38
21 7 0.27
22 3 0.12
23 6 0.23
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (22 bp):
AAAAAAAAATCGATAAAAATGA
Found at i:7878155 original size:132 final size:133
Alignment explanation
Indices: 7877994--7878259 Score: 419
Period size: 132 Copynumber: 2.0 Consensus size: 133
7877984 TTTTTACCTT
* * *
7877994 TTTTTTTTAAAAAAAATCTTGATCAAAGCTCCTCTAAGCAGAGGTTCAATGATTTTGAGAAATAT
1 TTTTTTTTAAAAAAAATCTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
*
7878059 AAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTT-ATTATTTTCTTATTTTTTTGTAATTTGTT
66 AAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTTGATTATTTTCTTATTTTTTT-TAATTTATT
7878123 TTTA
130 TTTA
* *
7878127 TTTTTTTT-ATAAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
1 TTTTTTTTAAAAAAAATCTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
* * * *
7878191 AAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTTGTTTTTTTTTTTATTTTTTTTTATTTATTT
66 AAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTTGATTATTTTCTTATTTTTTTTAATTTATTT
7878256 TTA
131 TTA
7878259 T
1 T
7878260 CAAAGCTCCT
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 98 0.80
133 24 0.20
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (133 bp):
TTTTTTTTAAAAAAAATCTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
AAACAAAGCTCCTCTAAATAGAGGCAACCTTTTTTGATTATTTTCTTATTTTTTTTAATTTATTT
TTA
Found at i:7878244 original size:14 final size:14
Alignment explanation
Indices: 7878227--7878257 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7878217 ACCTTTTTTG
7878227 TTTTTTTT-TTTAT
1 TTTTTTTTATTTAT
7878240 TTTTTTTTATTTAT
1 TTTTTTTTATTTAT
7878254 TTTT
1 TTTT
7878258 ATCAAAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTTATTTAT
Found at i:7878245 original size:20 final size:20
Alignment explanation
Indices: 7878220--7878259 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7878210 AGAGGCAACC
7878220 TTTTTTGTTT-TTT-TTTTTA
1 TTTTTT-TTTATTTATTTTTA
7878239 TTTTTTTTTATTTATTTTTA
1 TTTTTTTTTATTTATTTTTA
7878259 T
1 T
7878260 CAAAGCTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 9 0.47
20 7 0.37
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTATTTATTTTTA
Found at i:7878246 original size:10 final size:10
Alignment explanation
Indices: 7878220--7878259 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
7878210 AGAGGCAACC
*
7878220 TTTTTTGTT-
1 TTTTTTTTTA
7878229 TTTTTTTTTA
1 TTTTTTTTTA
7878239 TTTTTTTTTA
1 TTTTTTTTTA
*
7878249 TTTATTTTTA
1 TTTTTTTTTA
7878259 T
1 T
7878260 CAAAGCTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:7878334 original size:111 final size:113
Alignment explanation
Indices: 7878107--7878323 Score: 257
Period size: 111 Copynumber: 2.0 Consensus size: 113
7878097 ATTTTCTTAT
*
7878107 TTTTTTGTAATTTGTTTTTATTTTTTTTATAAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCT
1 TTTTTTGTAATTTGTTTTTATTTTTTTTATAAAAATTTTGATCAAAGCTCCTCTAAACAGAGGCT
* * * *
7878172 CAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAATAGAGGCAACC
66 CAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAGGCAAAC
* * *** *
7878220 TTTTTTGT-TTTTTTTTTTATTTTTTTT-TATTTATTTTTATCAAAGCTCCTCTAAACAGAGGCT
1 TTTTTTGTAATTTGTTTTTATTTTTTTTATAAAAATTTTGATCAAAGCTCCTCTAAACAGAGGCT
* * **
7878283 TAACGACTTTGA-AAA-GT-AA-ATTGCTCCTCTAAACAAAGGCA
66 CAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAGGCA
7878324 CCATGACTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
107 18 0.20
108 2 0.02
109 1 0.01
110 3 0.03
111 41 0.46
112 17 0.19
113 8 0.09
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (113 bp):
TTTTTTGTAATTTGTTTTTATTTTTTTTATAAAAATTTTGATCAAAGCTCCTCTAAACAGAGGCT
CAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAGGCAAAC
Found at i:7878349 original size:42 final size:42
Alignment explanation
Indices: 7878264--7878892 Score: 943
Period size: 42 Copynumber: 15.1 Consensus size: 42
7878254 TTTTATCAAA
***
7878264 GCTCCTCTAAACAGAGGCTTAACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
7878305 GCTCCTCTAAACAAAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* * *
7878347 GCTCTTCTAAGCAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878389 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
7878431 GCTCCTCTAAGCAGAGGCACCACGA-TTTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAAGTAAATT
*
7878473 GCTCCTCTAAACAGAGGCACCACGACTTTCG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878514 ACTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878555 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878597 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* * **
7878639 GCTCCTCTAAACAGAGGCACTACGACTTTGGAAATTTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
7878681 GCTCCTCTAAACAGAGG---CACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
7878719 GCTCCTCTAAACAGAGGCACCATGAC-TTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878760 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
7878802 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
7878844 GATCCTCTAAACAGAGGCACCACGACTTTTAGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTT-G-AAAAGTAAATT
7878888 GCTCC
1 GCTCC
7878893 CTGACAATCA
Statistics
Matches: 536, Mismatches: 41, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
38 29 0.05
39 5 0.01
40 3 0.01
41 140 0.26
42 340 0.63
43 4 0.01
44 15 0.03
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
Found at i:7879217 original size:43 final size:42
Alignment explanation
Indices: 7879159--7879240 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
7879149 TTTGGCAAAC
* *
7879159 TTGGAATTCATATCC-AAAAGTCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
7879201 TTGGAAATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
1 TTGG-AATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
7879241 GTTCAAAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 4 0.11
43 26 0.72
44 6 0.17
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:7879472 original size:22 final size:22
Alignment explanation
Indices: 7879424--7879482 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7879414 GGTTTCACTC
7879424 CTCAAAGATTCTCATTTTGAAAT
1 CTCAAAGATTCTCA-TTTGAAAT
**
7879447 -TCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGAAAT
*
7879468 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
7879483 CGAAACATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAT
Found at i:7880592 original size:19 final size:18
Alignment explanation
Indices: 7880570--7880608 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
7880560 CATTCATTCA
7880570 TTTT-TTTTTTCATCATCTT
1 TTTTCTTTTTTC-TCAT-TT
7880589 TTTTCTTTTTTCTCATTT
1 TTTTCTTTTTTCTCATTT
7880607 TT
1 TT
7880609 CATCTATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTTCTCATTT
Found at i:7880957 original size:7 final size:8
Alignment explanation
Indices: 7880940--7880965 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7880930 ATGTGTGGCA
7880940 TTTATTTT
1 TTTATTTT
7880948 TTTATTTT
1 TTTATTTT
7880956 TTTATTTT
1 TTTATTTT
7880964 TT
1 TT
7880966 GAAACCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:7884560 original size:16 final size:16
Alignment explanation
Indices: 7884535--7884565 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7884525 TTTTCCCAAA
7884535 AAATTGATTTTTTTTT
1 AAATTGATTTTTTTTT
*
7884551 AAATTTATTTTTTTT
1 AAATTGATTTTTTTT
7884566 AGGAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AAATTGATTTTTTTTT
Found at i:7884686 original size:122 final size:121
Alignment explanation
Indices: 7884504--7884729 Score: 341
Period size: 122 Copynumber: 1.9 Consensus size: 121
7884494 GTTCTTGTGC
** * *
7884504 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATTGATTTTTTTTTAAATTTATTTTTTTTAGG
1 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATAAATTTTTTTTTAAATTTATATTTTTAAGG
7884569 AAAATTGATACTTTCAACTTTTCCACAAAAATAT-TTTTGGAAACTTTGATTTTCA
66 AAAATTGATACTTTCAACTTTTCCACAAAAATATATTTTGGAAACTTTGATTTTCA
*
7884624 AGGAAAATTGATACTTTCAACTTTTCCTAGAAAAA-AAACCTTGTTTTTTTAAATTT-TATTTTT
1 AGGAAAATTGATACTTTCAACTTTTCCCA-AAAAATAAA--TT-TTTTTTTAAATTTATATTTTT
*
7884687 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTT
62 AAGGAAAATTGATACTTTCAACTTTTCCACAAAAATATATTTT
7884730 TTTATTTTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
120 29 0.31
121 5 0.05
122 44 0.46
123 17 0.18
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (121 bp):
AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATAAATTTTTTTTTAAATTTATATTTTTAAGG
AAAATTGATACTTTCAACTTTTCCACAAAAATATATTTTGGAAACTTTGATTTTCA
Found at i:7888981 original size:15 final size:17
Alignment explanation
Indices: 7888950--7888981 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
7888940 ATTTAAAAGC
7888950 ATTCAATTTAGATAAAT
1 ATTCAATTTAGATAAAT
7888967 ATTC-ATTTA-ATAAAT
1 ATTCAATTTAGATAAAT
7888982 TTTTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTCAATTTAGATAAAT
Found at i:7890399 original size:96 final size:96
Alignment explanation
Indices: 7890293--7890480 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
7890283 TCAAAACTTT
*
7890293 CAATCTTTCATAAGTAATTG-AGCTTCGCTAAAAAGTATGAAAATAAATACACT-TATCATTCAA
1 CAATCTTTCATAAGTAATTGTA-CTTCGCTAAAAAGTATGAAAATAAATACA-TGAATCATTCAA
*
7890356 TCAAATCATTAATAGAA-CTTATCTTAATATGTA
64 GCAAATCATTAATA-AAGCTTATCTTAATATGTA
* * * * * *
7890389 CAATCTTTCATTAGTAATTGTATTTCGTTAACAAGTATGAAACTAAATACATGAATCATTTAAGC
1 CAATCTTTCATAAGTAATTGTACTTCGCTAAAAAGTATGAAAATAAATACATGAATCATTCAAGC
7890454 AAATCATTAATAAAGCTTATCTTAATA
66 AAATCATTAATAAAGCTTATCTTAATA
7890481 CTTACTATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
95 3 0.04
96 77 0.95
97 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (96 bp):
CAATCTTTCATAAGTAATTGTACTTCGCTAAAAAGTATGAAAATAAATACATGAATCATTCAAGC
AAATCATTAATAAAGCTTATCTTAATATGTA
Found at i:7890915 original size:44 final size:44
Alignment explanation
Indices: 7890860--7891021 Score: 118
Period size: 44 Copynumber: 3.7 Consensus size: 44
7890850 GCAATTATCA
* * * * *
7890860 ATAACTTAATAGTTAAA-TAGTAATGATTTTATAGTAAATCATTG
1 ATAACTCAATAG-TAAATTAATAATAATTTAATAGTAAATCAATG
*
7890904 ATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATGAATG
1 ATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATCAATG
* * * * * * *
7890948 ATAATTTAGTCA-TTAA-TAATTGATAAATTAATAGTAAATCAATA
1 ATAACTCAAT-AGTAAATTAA-TAATAATTTAATAGTAAATCAATG
*
7890992 ATAACAT-AATAATAAA-TACATAATAATTTA
1 ATAAC-TCAATAGTAAATTA-ATAATAATTTA
7891022 GTATTTAATC
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
43 8 0.09
44 82 0.88
45 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (44 bp):
ATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATCAATG
Found at i:7890929 original size:66 final size:65
Alignment explanation
Indices: 7890859--7891008 Score: 162
Period size: 66 Copynumber: 2.3 Consensus size: 65
7890849 AGCAATTATC
* *
7890859 AATAACTTAATAGTTAAATAGTAATGAT-TTTA-T-AGTAAATCATTGATAACTCAATAGTAAAT
1 AATAACTTAATAG-TAAAT-G-AATGATATTTAGTCA-TAAATAATTGATAAATCAATAGTAAAT
*
7890921 TAAT
62 CAAT
* * *
7890925 AATAATTTAATAGTAAATGAATGATAATTTAGTCATTAATAATTGATAAATTAATAGTAAATCAA
1 AATAACTTAATAGTAAATGAATGAT-ATTTAGTCATAAATAATTGATAAATCAATAGTAAATCAA
7890990 T
65 T
* *
7890991 AATAACATAATAATAAAT
1 AATAACTTAATAGTAAAT
7891009 ACATAATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 6 0.08
64 1 0.01
65 9 0.13
66 54 0.76
67 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (65 bp):
AATAACTTAATAGTAAATGAATGATATTTAGTCATAAATAATTGATAAATCAATAGTAAATCAAT
Found at i:7890952 original size:22 final size:21
Alignment explanation
Indices: 7890860--7891021 Score: 92
Period size: 22 Copynumber: 7.4 Consensus size: 21
7890850 GCAATTATCA
* * *
7890860 ATAACTTAATAGTTAAATAGTA
1 ATAATTTAATAG-TAAATAATG
* * *
7890882 ATGATTTTATAGTAAATCATTG
1 ATAATTTAATAGTAAAT-AATG
* * *
7890904 ATAACTCAATAGTAAATTAATA
1 ATAATTTAATAGTAAA-TAATG
7890926 ATAATTTAATAGTAAATGAATG
1 ATAATTTAATAGTAAAT-AATG
* *
7890948 ATAATTTAGTCA-TTAATAATTG
1 ATAATTTAAT-AGTAAATAA-TG
* *
7890970 ATAAATTAATAGTAAATCAATA
1 ATAATTTAATAGTAAAT-AATG
** * *
7890992 ATAACATAATAATAAATACATA
1 ATAATTTAATAGTAAATA-ATG
7891014 ATAATTTA
1 ATAATTTA
7891022 GTATTTAATC
Statistics
Matches: 107, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
21 10 0.09
22 93 0.87
23 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATG
Found at i:7891002 original size:11 final size:10
Alignment explanation
Indices: 7890970--7891017 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
7890960 TTAATAATTG
7890970 ATAAATTAATA
1 ATAAA-TAATA
*
7890981 GTAAATCAATA
1 ATAAAT-AATA
7890992 ATAACATAATA
1 ATAA-ATAATA
7891003 ATAAATACATA
1 ATAAATA-ATA
7891014 ATAA
1 ATAA
7891018 TTTAGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 4 0.12
11 26 0.81
12 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (10 bp):
ATAAATAATA
Found at i:7891030 original size:66 final size:67
Alignment explanation
Indices: 7890896--7891035 Score: 171
Period size: 66 Copynumber: 2.1 Consensus size: 67
7890886 TTTTATAGTA
* * ** * *
7890896 AATC-ATTGATAACTCAATAGTAAATTAATAATAATTTAATAGTAAATGAATGATAATTTAGTCA
1 AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGAATAATAATTTAGTCA
7890960 TT
66 TT
*
7890962 AAT-AATTGATAAATTAATAGTAAATCAATAATAACATAATAATAAAT-ACATAATAATTTAGT-
1 AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGA-ATAATAATTTAGTC
7891024 ATTT
65 A-TT
7891028 AATCAATT
1 AATCAATT
7891036 ATATTATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
65 2 0.03
66 57 0.90
67 4 0.06
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (67 bp):
AATCAATTGATAAATCAATAGTAAATCAATAATAACATAATAATAAATGAATAATAATTTAGTCA
TT
Found at i:7891274 original size:22 final size:21
Alignment explanation
Indices: 7891240--7891555 Score: 117
Period size: 22 Copynumber: 14.5 Consensus size: 21
7891230 ATTGTAAACA
* *
7891240 ATAATATAGTAGTAAATAACTG
1 ATAATTTAATAGTAAATAA-TG
* *
7891262 ATAATTTAATAGTTAATCATTGG
1 ATAATTTAATAGTAAAT-AAT-G
* * *
7891285 A-AGTTTAAAAGTAAA-ACATT
1 ATAATTTAATAGTAAATA-ATG
* *
7891305 ATAATTTAATAGTAAATTATTA
1 ATAATTTAATAGTAAA-TAATG
* * * *
7891327 ATAACTTAATTGTTAAATGATA
1 ATAATTTAATAG-TAAATAATG
*
7891349 ATAA-TTAATAGTAAATTATAG
1 ATAATTTAATAGTAAATAAT-G
7891370 ATAATTTAATA-TAAATTAATG
1 ATAATTTAATAGTAAA-TAATG
* * * *
7891391 ATAACTTGATAGTATATTATGG
1 ATAATTTAATAGTAAATAAT-G
* *
7891413 ATAATTTAGTAGTAAATCAGTG
1 ATAATTTAATAGTAAAT-AATG
*
7891435 ATAAATTT-GTAGTAAATAATCG
1 AT-AATTTAATAGTAAATAAT-G
* *
7891457 --AATATTAAGTTGTAAATCAATT
1 ATAAT-TTAA-TAGTAAAT-AATG
** * *
7891479 ATAACATAGTAGTAAATATATA
1 ATAATTTAATAGTAAATA-ATG
* *
7891501 ATAATATAATAGTAAATCAATA
1 ATAATTTAATAGTAAAT-AATG
* *
7891523 ATAA-TTAAGTAATAAATTATTG
1 ATAATTTAA-TAGTAAA-TAATG
*
7891545 ATAACTTAATA
1 ATAATTTAATA
7891556 ACAAATCATT
Statistics
Matches: 222, Mismatches: 46, Indels: 52
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.01
20 11 0.05
21 46 0.21
22 135 0.61
23 25 0.11
24 2 0.01
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATG
Found at i:7891555 original size:44 final size:43
Alignment explanation
Indices: 7891305--7891555 Score: 142
Period size: 44 Copynumber: 5.7 Consensus size: 43
7891295 GTAAAACATT
* * *
7891305 ATAATTTAA-TAGTAAATTATTAATAACTTAATTGTTAAAT-GATA
1 ATAA-TTAAGTAGTAAATTATTGATAA-TTAATAG-TAAATCAATA
* * *
7891349 ATAATTAA-TAGTAAATTATAGATAATTTAATA-TAAATTAATG
1 ATAATTAAGTAGTAAATTATTGATAA-TTAATAGTAAATCAATA
* * * * * *
7891391 ATAACTTGA-TAGTATATTATGGATAATTTAGTAGTAAATCAGTG
1 ATAA-TTAAGTAGTAAATTATTGATAA-TTAATAGTAAATCAATA
* * * * *
7891435 ATAAATT-TGTAGTAAATAATCGA-ATATTAAGTTGTAAATCAATT
1 AT-AATTAAGTAGTAAATTATTGATA-ATTAA-TAGTAAATCAATA
* *
7891479 ATAA-CATAGTAGTAAA-TATATAATAATATAATAGTAAATCAATA
1 ATAATTA-AGTAGTAAATTAT-TGATAAT-TAATAGTAAATCAATA
*
7891523 ATAATTAAGTAATAAATTATTGATAACTTAATA
1 ATAATTAAGTAGTAAATTATTGATAA-TTAATA
7891556 ACAAATCATT
Statistics
Matches: 162, Mismatches: 30, Indels: 30
0.73 0.14 0.14
Matches are distributed among these distances:
41 5 0.03
42 6 0.04
43 56 0.35
44 84 0.52
45 11 0.07
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (43 bp):
ATAATTAAGTAGTAAATTATTGATAATTAATAGTAAATCAATA
Found at i:7891614 original size:22 final size:22
Alignment explanation
Indices: 7891589--7891631 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7891579 TATATTACAA
*
7891589 ATAACTTAGTTGTAAATTAGTG
1 ATAACTTAGTAGTAAATTAGTG
*
7891611 ATAATTTAGTAGTAAATTAGT
1 ATAACTTAGTAGTAAATTAGT
7891632 TAATCACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATTAGTG
Found at i:7891688 original size:22 final size:22
Alignment explanation
Indices: 7891675--7891776 Score: 100
Period size: 22 Copynumber: 4.6 Consensus size: 22
7891665 AACTTTATAA
*
7891675 TAAATCATTAATAACTTGATGG
1 TAAATCATTCATAACTTGATGG
* * * *
7891697 TAAA--ATAACAATAATTTAATAG
1 TAAATCAT-TC-ATAACTTGATGG
*
7891719 TAAATCATTCATAACTTAATGG
1 TAAATCATTCATAACTTGATGG
* *
7891741 TAAATTATTCATAACTTGATGA
1 TAAATCATTCATAACTTGATGG
7891763 TAAATCATTCATAA
1 TAAATCATTCATAA
7891777 ATTAGAGTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
22 59 0.92
23 1 0.02
24 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATCATTCATAACTTGATGG
Found at i:7891767 original size:44 final size:43
Alignment explanation
Indices: 7891663--7891776 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 43
7891653 TAAATAAATT
* * *
7891663 ATAACTTTATAATAAATCATTAATAACTTGATGGTAAAATAACA
1 ATAACTTAAT-ATAAATCATTCATAACTTAATGGTAAAATAACA
* * *
7891707 ATAATTTAATAGTAAATCATTCATAACTTAATGGTAAATTATTC-
1 ATAACTTAATA-TAAATCATTCATAACTTAATGGTAAAATA-ACA
*
7891751 ATAACTTGATGATAAATCATTCATAA
1 ATAACTTAAT-ATAAATCATTCATAA
7891777 ATTAGAGTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 56 0.95
45 2 0.03
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (43 bp):
ATAACTTAATATAAATCATTCATAACTTAATGGTAAAATAACA
Found at i:7892002 original size:13 final size:13
Alignment explanation
Indices: 7891984--7892008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7891974 ACTTATTCAA
7891984 TAAAAAAATTTAG
1 TAAAAAAATTTAG
7891997 TAAAAAAATTTA
1 TAAAAAAATTTA
7892009 AATTTGAATA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAAAAATTTAG
Found at i:7892275 original size:22 final size:22
Alignment explanation
Indices: 7892245--7892338 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
7892235 TTGATAAATC
7892245 TAATAGTAAATCATAAATAACT
1 TAATAGTAAATCATAAATAACT
* *
7892267 TTATAGTAAAT--TAATGATAATT
1 TAATAGTAAATCATAA--ATAACT
* *
7892289 TAGTAGTTAATCAATAAA-AACT
1 TAATAGTAAATC-ATAAATAACT
* *
7892311 TAAAAGTAAATCA-ATATAACT
1 TAATAGTAAATCATAAATAACT
7892332 TAATAGT
1 TAATAGT
7892339 TTTTTAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 35 0.64
23 1 0.02
25 3 0.05
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATAGTAAATCATAAATAACT
Found at i:7892319 original size:44 final size:44
Alignment explanation
Indices: 7892166--7892339 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 44
7892156 TAGTAACTAT
* * * * * *
7892166 TCATATATAACTTAGTAATAAATTAATGACAACTTAATAGTAAA
1 TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
* * * *
7892210 T--TAATTCCACTTTAATAGT-AATTAATTGATAAATCTAATAGTAAA
1 TCATAAAT-AAC-TTAATAGTAAATTAA-TGAT-AATTTAATAGTTAA
* *
7892255 TCATAAATAACTTTATAGTAAATTAATGATAATTTAGTAGTTAA
1 TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
* * *
7892299 TCAATAAA-AACTTAAAAGTAAATCAAT-ATAACTTAATAGTT
1 TC-ATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTT
7892340 TTTTAATAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
42 3 0.03
43 20 0.19
44 39 0.38
45 29 0.28
46 8 0.08
47 4 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (44 bp):
TCATAAATAACTTAATAGTAAATTAATGATAATTTAATAGTTAA
Found at i:7892649 original size:22 final size:22
Alignment explanation
Indices: 7892624--7892717 Score: 84
Period size: 22 Copynumber: 4.3 Consensus size: 22
7892614 AGTAATAGAT
* *
7892624 TAGTTAATAATTGATAATTTTA
1 TAGTAAATAATCGATAATTTTA
*
7892646 TAGTAAATAATCGATAA-ATTA
1 TAGTAAATAATCGATAATTTTA
* *
7892667 GTAGTTAATCAAT-TATAATTTTA
1 -TAGTAAAT-AATCGATAATTTTA
* * *
7892690 TAATAAATAATCAATAATTTAA
1 TAGTAAATAATCGATAATTTTA
7892712 TAGTAA
1 TAGTAA
7892718 GTTATCAATA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
21 6 0.11
22 45 0.79
23 6 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (22 bp):
TAGTAAATAATCGATAATTTTA
Found at i:7892673 original size:44 final size:44
Alignment explanation
Indices: 7892624--7892715 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
7892614 AGTAATAGAT
* * *
7892624 TAGTTAAT-AATTGATAATTTTATAGTAAATAATCGATAAATTAG
1 TAGTTAATCAATT-ATAATTTTATAATAAATAATCAATAAATTAA
*
7892668 TAGTTAATCAATTATAATTTTATAATAAATAATCAATAATTTAA
1 TAGTTAATCAATTATAATTTTATAATAAATAATCAATAAATTAA
7892712 TAGT
1 TAGT
7892716 AAGTTATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 39 0.91
45 4 0.09
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (44 bp):
TAGTTAATCAATTATAATTTTATAATAAATAATCAATAAATTAA
Found at i:7892724 original size:22 final size:22
Alignment explanation
Indices: 7892637--7892734 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 22
7892627 TTAATAATTG
* * *
7892637 ATAATTTTATAGTAAATAATCG
1 ATAATTTAATAATAAATAATCA
* * * * *
7892659 ATAAATTAGTAGTTAATCAAT-T
1 ATAATTTAATAATAAAT-AATCA
*
7892681 ATAATTTTATAATAAATAATCA
1 ATAATTTAATAATAAATAATCA
* * *
7892703 ATAATTTAATAGTAAGTTATCA
1 ATAATTTAATAATAAATAATCA
*
7892725 ATATTTTAAT
1 ATAATTTAAT
7892735 GGTGACTTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 3 0.05
22 52 0.90
23 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAATTTAATAATAAATAATCA
Found at i:7892744 original size:22 final size:22
Alignment explanation
Indices: 7892681--7892744 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
7892671 TTAATCAATT
* * * *
7892681 ATAATTTTATAATAAATAATCA
1 ATAATTTAATAGTAACTTATCA
*
7892703 ATAATTTAATAGTAAGTTATCA
1 ATAATTTAATAGTAACTTATCA
* * *
7892725 ATATTTTAATGGTGACTTAT
1 ATAATTTAATAGTAACTTAT
7892745 TTACAAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (22 bp):
ATAATTTAATAGTAACTTATCA
Found at i:7892771 original size:22 final size:22
Alignment explanation
Indices: 7892743--7892787 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7892733 ATGGTGACTT
7892743 ATTTACAAATTAGTTGTAAATC
1 ATTTACAAATTAGTTGTAAATC
7892765 ATTTACAAATTAGTTGTAAATC
1 ATTTACAAATTAGTTGTAAATC
7892787 A
1 A
7892788 ATGTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTTACAAATTAGTTGTAAATC
Found at i:7892805 original size:22 final size:22
Alignment explanation
Indices: 7892780--7892854 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
7892770 CAAATTAGTT
7892780 GTAAATCAATGTTAATTTAATA
1 GTAAATCAATGTTAATTTAATA
7892802 GTAAAT-AAT-TAATAATTTAATA
1 GTAAATCAATGT--TAATTTAATA
* * * * * *
7892824 ATAGATCACTGATAATATAGTA
1 GTAAATCAATGTTAATTTAATA
7892846 GTAAA-CAAT
1 GTAAATCAAT
7892855 AATAACTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
22 31 0.77
23 2 0.05
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
GTAAATCAATGTTAATTTAATA
Found at i:7893165 original size:23 final size:22
Alignment explanation
Indices: 7893139--7893188 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7893129 TAATAATTCT
*
7893139 CAAAAGTATATCATAAAGGTTAC
1 CAAAAGTACATCA-AAAGGTTAC
* * *
7893162 CAAAATTACATCAATAGGTTAT
1 CAAAAGTACATCAAAAGGTTAC
7893184 CAAAA
1 CAAAA
7893189 TTTTTTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (22 bp):
CAAAAGTACATCAAAAGGTTAC
Found at i:7893574 original size:21 final size:21
Alignment explanation
Indices: 7893531--7893574 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7893521 AGTTGTATAG
* *
7893531 AAAGTTCTCAAAATTTTAGCA
1 AAAGTTCTCAAAATTCTAACA
*
7893552 AAAGTTGTCAAAATTCTAACA
1 AAAGTTCTCAAAATTCTAACA
7893573 AA
1 AA
7893575 TATTACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAGTTCTCAAAATTCTAACA
Found at i:7895871 original size:20 final size:20
Alignment explanation
Indices: 7895783--7895897 Score: 80
Period size: 20 Copynumber: 5.8 Consensus size: 20
7895773 TACAAGAATG
* *
7895783 TCATGCAAATATATTAATTA
1 TCATGCAAATATATAAAATA
* *
7895803 TCATG-TAATA-ATAACA-A
1 TCATGCAAATATATAAAATA
* *
7895820 CCATGTAAATATAT--AATA
1 TCATGCAAATATATAAAATA
7895838 TCATGC-AATAATATAAAATA
1 TCATGCAAAT-ATATAAAATA
*
7895858 CCATGCAAATATATTAATAATCA
1 TCATGCAAATATA-TAA-AAT-A
7895881 TTCATGCAAATATATAA
1 -TCATGCAAATATATAA
7895898 TCATGAAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
17 9 0.12
18 16 0.22
19 6 0.08
20 17 0.23
21 6 0.08
22 3 0.04
23 4 0.05
24 12 0.16
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
TCATGCAAATATATAAAATA
Found at i:7896076 original size:9 final size:8
Alignment explanation
Indices: 7896050--7896091 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
7896040 TGTAATAAAC
*
7896050 ATAAAATT
1 ATAAAATA
*
7896058 ATGAAATA
1 ATAAAATA
7896066 ATAATAATA
1 ATAA-AATA
7896075 ATAAAA-A
1 ATAAAATA
7896082 ATAAAATA
1 ATAAAATA
7896090 AT
1 AT
7896092 TATACAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 7 0.24
8 14 0.48
9 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (8 bp):
ATAAAATA
Done.