Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, 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: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:1762951 original size:16 final size:17
Alignment explanation
Indices: 1762922--1762957 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1762912 GAATTTTAGT
1762922 TGTTTTGTAAAAGTAAA
1 TGTTTTGTAAAAGTAAA
*
1762939 TGTTTTG-AAAAGTCAA
1 TGTTTTGTAAAAGTAAA
1762955 TGT
1 TGT
1762958 GATACATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTTTTGTAAAAGTAAA
Found at i:1763533 original size:67 final size:67
Alignment explanation
Indices: 1763407--1763534 Score: 154
Period size: 67 Copynumber: 1.9 Consensus size: 67
1763397 ATTTATCTCA
* * * * *
1763407 TTTGAGATTGTTTCTCTCCAAACAAAGTTTTGTTTCGCTTAAGACATTTTCTTTGGAAACATAAG
1 TTTGAGATTGTTTCTCTCAAAACAAAGTTTCGTATCGCTTAAGAAATTTTCCTTGGAAACATAAG
1763472 CC
66 CC
*
1763474 TTTGAGATTGTTT-TCCTCAAAACAAA-TTTCGTATCGCTTGAGATAATTTTACCTT-GAAACA
1 TTTGAGATTGTTTCT-CTCAAAACAAAGTTTCGTATCGCTTAAGA-AATTTT-CCTTGGAAACA
1763535 CAAATTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
66 15 0.29
67 34 0.65
68 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (67 bp):
TTTGAGATTGTTTCTCTCAAAACAAAGTTTCGTATCGCTTAAGAAATTTTCCTTGGAAACATAAG
CC
Found at i:1763721 original size:102 final size:102
Alignment explanation
Indices: 1763475--1763785 Score: 409
Period size: 102 Copynumber: 3.1 Consensus size: 102
1763465 ACATAAGCCT
* *
1763475 TTGAGATTGTTTTCCTCAAAACAAATTTCGTATCGCTTGAGATAATTTTACCTTGAAACACAAAT
1 TTGAGATTGTTTTCCTCAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCCTTGAAACACAAAT
* *
1763540 TTT---ATTGTTTCACTTGAAACAAAATTGATCTCAC
66 TTTGAAATTGTTTCACTTGAAAAAAAATTAATCTCAC
*
1763574 TTGGGATTGTTTTCCTCAAAACAATTATTT--TCTCGCTTGAGATAATTTTCCCTTGAAACACAA
1 TTGAGATTGTTTTCCTCAAAACAA--ATTTCGTCTCGCTTGAGATAATTTTCCCTTGAAACACAA
*
1763637 ATTTTGAAATTGTTTTACTTGGAAAAAAAATTAATCTCAC
64 ATTTTGAAATTGTTTCACTT-GAAAAAAAATTAATCTCAC
* * * **
1763677 TTGATATTGTTTTCCT-TAATCAAATTTCGTCTCGCTTGAGATAATTTTCCCTTGAAATGCAAAT
1 TTGAGATTGTTTTCCTCAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCCTTGAAACACAAAT
* * *
1763741 TTTGAAATTGTTTCACTCGAAACAAAATTTTATCTCAC
66 TTTGAAATTGTTTCACTTGAAA-AAAAATTAATCTCAC
*
1763779 CTGAGAT
1 TTGAGAT
1763786 AGCTTCCCTG
Statistics
Matches: 185, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
99 59 0.32
100 4 0.02
101 8 0.04
102 83 0.45
103 31 0.17
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (102 bp):
TTGAGATTGTTTTCCTCAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCCTTGAAACACAAAT
TTTGAAATTGTTTCACTTGAAAAAAAATTAATCTCAC
Found at i:1767766 original size:22 final size:21
Alignment explanation
Indices: 1767740--1767792 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 21
1767730 AAAATCTCAA
*
1767740 TTTTTCAAATAAAGTCATAATTG
1 TTTTTCAAAT-AA-TAATAATTG
*
1767763 TTTTTTTAAATAATAATAATTG
1 -TTTTTCAAATAATAATAATTG
1767785 -TTTTCAAA
1 TTTTTCAAA
1767793 AATGGTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.27
22 8 0.31
23 2 0.08
24 9 0.35
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTTTCAAATAATAATAATTG
Found at i:1767773 original size:24 final size:22
Alignment explanation
Indices: 1767740--1767788 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
1767730 AAAATCTCAA
*
1767740 TTTTTCAAATAAAGTCATAATTGT
1 TTTTTCAAAT-AA-TAATAATTGT
*
1767764 TTTTTTAAATAATAATAATTGT
1 TTTTTCAAATAATAATAATTGT
1767786 TTT
1 TTT
1767789 CAAAAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 9 0.39
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (22 bp):
TTTTTCAAATAATAATAATTGT
Found at i:1768420 original size:14 final size:15
Alignment explanation
Indices: 1768401--1768430 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1768391 AAATCTAATA
1768401 AATTAATAA-TTAGT
1 AATTAATAATTTAGT
1768415 AATTAATAATTTAGT
1 AATTAATAATTTAGT
1768430 A
1 A
1768431 TCTTTCGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
AATTAATAATTTAGT
Found at i:1769977 original size:19 final size:20
Alignment explanation
Indices: 1769953--1770005 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
1769943 CTCAATATTA
1769953 TTTTTTGTTATTTTGAT-AT
1 TTTTTTGTTATTTTGATAAT
* * *
1769972 TTTTTTATCATTTTTATAAT
1 TTTTTTGTTATTTTGATAAT
* *
1769992 TTCTATGTTATTTT
1 TTTTTTGTTATTTT
1770006 CTCTCTCCTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (20 bp):
TTTTTTGTTATTTTGATAAT
Found at i:1770693 original size:18 final size:18
Alignment explanation
Indices: 1770670--1770715 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
1770660 TATCCAAAAG
**
1770670 ATTTATTATTTTAATAAA
1 ATTTATTATTAGAATAAA
1770688 ATTTATT-TTAGAATAAA
1 ATTTATTATTAGAATAAA
*
1770705 AATTATTATTA
1 ATTTATTATTA
1770716 AAATTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTATTATTAGAATAAA
Found at i:1773981 original size:44 final size:44
Alignment explanation
Indices: 1773870--1773982 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 44
1773860 ATGGATCAAA
* * * *
1773870 ATGTCGATCCAACTCCTTTTGTGATGAAATCGAACGAGATGTTG
1 ATGTTGATCCAACTCCTTTTGTGATGAAATCGAACAAAAAGTTG
* * * * * *
1773914 GTGTTGGTCTATCT-CTTTCTGTGATGGAATCGAGCAAAAAGTTG
1 ATGTTGATCCAACTCCTTT-TGTGATGAAATCGAACAAAAAGTTG
*
1773958 ATGTTGATCCAGCTCCTTTTGTGAT
1 ATGTTGATCCAACTCCTTTTGTGAT
1773983 AGATTAAGAT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
43 4 0.08
44 45 0.85
45 4 0.08
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (44 bp):
ATGTTGATCCAACTCCTTTTGTGATGAAATCGAACAAAAAGTTG
Found at i:1774014 original size:33 final size:32
Alignment explanation
Indices: 1773958--1774064 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 32
1773948 CAAAAAGTTG
* *
1773958 ATGTTGATCCAGCTCCTTTTGTGATAGATTA-A
1 ATGTCGATCCACCT-CTTTTGTGATAGATTAGA
* * * *
1773990 GATGTCGATCTATCTCTTTCTGTGATGGATTTGA
1 -ATGTCGATCCACCTCTTT-TGTGATAGATTAGA
*
1774024 ATGTCGATCCACCTCTTTATGTGAT-GAATTTGA
1 ATGTCGATCCACCTCTTT-TGTGATAG-ATTAGA
1774057 ATGTCGAT
1 ATGTCGAT
1774065 GTTGATCTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 5 0.08
33 57 0.90
34 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (32 bp):
ATGTCGATCCACCTCTTTTGTGATAGATTAGA
Found at i:1774217 original size:44 final size:44
Alignment explanation
Indices: 1774152--1774890 Score: 214
Period size: 44 Copynumber: 16.8 Consensus size: 44
1774142 GAAAATAAAA
* * *
1774152 ATGTCGATTCACCTCTTTCTGTGATGGAATCGAACGAGATGTTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * ** * * * *
1774196 ATGTTGATCTACCTACTTCTGTGACAGAATCGAGCTAAAAGTTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * * * * * ****
1774240 -TCGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAA
1 AT-GTTGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTTG
* * * *
1774285 ATGTCGATCCACCTCTTTCTGTGATGGAATTGAACGAGATGTCG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * * **
1774329 ATGTTGATCTACCTCCTTCTGTGATTGAATCGAGA-AAAAAATTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGA-ACGAGATGTTG
* * * * * * * ***
1774373 ACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGAT-AAA
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTTG
* * * * *
1774417 ATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTCG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * ** * * **
1774461 ATGCTGATCTACCTCCTTCTATGATATAATCGAGC-AAAACTTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * * * * * * * * * ****
1774504 ACGCTAATTCAACTCCTTCTGCGAT-AAATTTGAGCAAAAATAAAA
1 ATGTTGATCCACCTCCTTCTGTGATGGAA-TCGAAC-GAGATGTTG
** * * *
1774549 ATGGCGATCCACCTCTTTCTATGATGGAATCGAACGAGATGTCG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
** * * * * * * *
1774593 ATGTTGATCTTCCTCCTTATGTGATAGAATCGAGCAAAAAGTTT
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * ** * * * **
1774637 ACGTTGATCCAACTCCTTCTGCGATGGGTTTGAGCGA-ATATAAAA
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGT--TG
* * * * * *
1774682 ATGTCGATTCACCTCTTTCTATGATGGAATCAAACAAGATGTTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * * * * *
1774726 ATGTTAATCTACCTCCTTCTGTGATAGAATCGAGC-AAAAGTTG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
** * * * * * * ****
1774769 ACATTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAA
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACG-AGATGTTG
* * * *
1774814 ATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCG
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
* * *
1774858 ATGTTGATCTACCTCCTTCTGTAATAGAATCGA
1 ATGTTGATCCACCTCCTTCTGTGATGGAATCGA
1774891 GCAAAAAGTT
Statistics
Matches: 467, Mismatches: 212, Indels: 32
0.66 0.30 0.05
Matches are distributed among these distances:
42 2 0.00
43 66 0.14
44 285 0.61
45 108 0.23
46 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTG
Found at i:1774260 original size:133 final size:133
Alignment explanation
Indices: 1774023--1774902 Score: 1263
Period size: 133 Copynumber: 6.7 Consensus size: 133
1774013 GATGGATTTG
* **
1774023 AATGTCGATCCACCTCTTTATGTGAT-GAAT---TTGA-ATGTCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * *
1774083 GTGATAGAATTGAGCAAAAATTTGACGCTGATCCAACTCTTTCTGCGATGGATTTGAGCGAAAAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774148 AAA
131 AAA
* * *
1774151 AATGTCGATTCACCTCTTTCTGTGATGGAATCGAACGAGATGTTGATGTTGATCTACCTACTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * * * *
1774216 GTGACAGAATCGAGCTAAAAGTTGTCGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAGAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774281 AAA
131 AAA
*
1774284 AATGTCGATCCACCTCTTTCTGTGATGGAATTGAACGAGATGTCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * * *
1774349 GTGATTGAATCGAGAAAAAAATTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774414 -AA
131 AAA
* * *
1774416 AATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * * * * ** *
1774481 ATGATATAATCGAGC-AAAACTTGACGCTAATTCAACTCCTTCTGCGATAAATTTGAGCAAAAAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774545 AAA
131 AAA
* * * *
1774548 AATGGCGATCCACCTCTTTCTATGATGGAATCGAACGAGATGTCGATGTTGATCTTCCTCCTTAT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * * *
1774613 GTGATAGAATCGAGCAAAAAGTTTACGTTGATCCAACTCCTTCTGCGATGGGTTTGAGCGAATAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774678 AAA
131 AAA
* * * * * *
1774681 AATGTCGATTCACCTCTTTCTATGATGGAATCAAACAAGATGTTGATGTTAATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
**
1774746 GTGATAGAATCGAGC-AAAAGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
66 GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
1774810 AAA
131 AAA
* *
1774813 AATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
*
1774878 GTAATAGAATCGAGCAAAAAGTTGA
66 GTGATAGAATCGAGCAAAAAGTTGA
1774903 ACAATCTCTT
Statistics
Matches: 664, Mismatches: 80, Indels: 11
0.88 0.11 0.01
Matches are distributed among these distances:
128 24 0.04
129 4 0.01
131 42 0.06
132 268 0.40
133 326 0.49
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (133 bp):
AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
GTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
AAA
Found at i:1774467 original size:88 final size:88
Alignment explanation
Indices: 1774073--1774480 Score: 224
Period size: 88 Copynumber: 4.6 Consensus size: 88
1774063 ATGTTGATCT
* * * * * * * * *
1774073 ACCTCCTTCTGTGATAGAATTGAGCAAAAATTTGACGCTGATCCAACTCTTTCTGCGATGGATTT
1 ACCTCCTTCTGTGATGGAATCGAAC-AAGATGTGATGCTGATCCACCTCCTTCTGCGATGGAATT
*
1774138 GAGCGAAAATAAAAATGTCGATTC
65 GAGCGAAGATAAAAATGTCGATTC
* * * * * * **
1774162 ACCTCTTTCTGTGATGGAATCGAACGAGATGTTGATGTTGATCTACCTACTTCTGTGACAGAA-T
1 ACCTCCTTCTGTGATGGAATCGAACAAGATG-TGATGCTGATCCACCTCCTTCTGCGATGGAATT
* * *
1774226 ---CG-AGCTAAAAGTTGTCGCTAATCC
65 GAGCGAAGATAAAA-ATGTCG---ATTC
* * * * * *** * *
1774250 AACTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATG-TCGATCCACCTCTTTCTGTGATGGAA
1 ACCTCCTTCTGTGATGGAATCGAAC-AAGAT-GTGATGCT-GATCCACCTCCTTCTGCGATGGAA
* **** *
1774314 TTGAACG-AGATGTCGATGTTGA-TC
63 TTGAGCGAAGATAAAAATGTCGATTC
* * * * * *
1774338 TACCTCCTTCTGTGATTGAATCGAGAAAAAAAT-TGACGCTGATCCAACTCCTTCTGCGATGGAT
1 -ACCTCCTTCTGTGATGGAATC--GAACAAGATGTGATGCTGATCCACCTCCTTCTGCGATGGAA
1774402 TTGAGCGAAGAT-AAAATGTCGATTC
63 TTGAGCGAAGATAAAAATGTCGATTC
* *
1774427 ACCTCTTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCTTCT
1 ACCTCCTTCTGTGATGGAATCGAACAAGATGT-GATGCTGATCCACCTCCTTCT
1774481 ATGATATAAT
Statistics
Matches: 228, Mismatches: 71, Indels: 41
0.67 0.21 0.12
Matches are distributed among these distances:
84 6 0.03
85 7 0.03
86 7 0.03
87 1 0.00
88 99 0.43
89 92 0.40
90 5 0.02
91 2 0.01
92 4 0.02
93 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (88 bp):
ACCTCCTTCTGTGATGGAATCGAACAAGATGTGATGCTGATCCACCTCCTTCTGCGATGGAATTG
AGCGAAGATAAAAATGTCGATTC
Found at i:1774709 original size:265 final size:265
Alignment explanation
Indices: 1774023--1774900 Score: 1320
Period size: 265 Copynumber: 3.3 Consensus size: 265
1774013 GATGGATTTG
* **
1774023 AATGTCGATCCACCTCTTTATGTGAT-GAAT---TTGA-ATGTCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* *
1774083 GTGATAGAATTGAGCAAAAA-TTTGACGCTGATCCAACTCTTTCTGCGATGGATTTGAGCGAAAA
66 GTGATAGAATCGAGCAAAAAGTTT-ACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* *
1774147 TAAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACGAGATGTTGATGTTGATCTACCTAC
130 TAAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTTGATGTTGATCTACCTCC
* *
1774212 TTCTGTGACAGAATCGAGCTAAAAGTTGTCGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGA
195 TTCTGTGATAGAATCGAGC-AAAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGA
*
1774277 AGATAAA
259 AAATAAA
*
1774284 AATGTCGATCCACCTCTTTCTGTGATGGAATTGAACGAGATGTCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * * * *
1774349 GTGATTGAATCGAGAAAAAAATTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAGAT
66 GTGATAGAATCGAGCAAAAAGTTTACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
* *
1774414 -AAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
131 AAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTTGATGTTGATCTACCTCCT
* * * * ** *
1774478 TCTATGATATAATCGAGCAAAACTTGACGCTAATTCAACTCCTTCTGCGATAAATTTGAGCAAAA
196 TCTGTGATAGAATCGAGCAAAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
1774543 ATAAA
261 ATAAA
* * * *
1774548 AATGGCGATCCACCTCTTTCTATGATGGAATCGAACGAGATGTCGATGTTGATCTTCCTCCTTAT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
* * *
1774613 GTGATAGAATCGAGCAAAAAGTTTACGTTGATCCAACTCCTTCTGCGATGGGTTTGAGCGAATAT
66 GTGATAGAATCGAGCAAAAAGTTTACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
* * *
1774678 AAAAATGTCGATTCACCTCTTTCTATGATGGAATCAAACAAGATGTTGATGTTAATCTACCTCCT
131 AAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTTGATGTTGATCTACCTCCT
** *
1774743 TCTGTGATAGAATCGAGCAAAAGTTGACATTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
196 TCTGTGATAGAATCGAGCAAAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
1774808 ATAAA
261 ATAAA
* *
1774813 AATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGATGTTGATCTACCTCCTTCT
1 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
*
1774878 GTAATAGAATCGAGCAAAAAGTT
66 GTGATAGAATCGAGCAAAAAGTT
1774901 GAACAATCTC
Statistics
Matches: 553, Mismatches: 57, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
261 25 0.05
262 4 0.01
264 163 0.29
265 277 0.50
266 82 0.15
267 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (265 bp):
AATGTCGATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCT
GTGATAGAATCGAGCAAAAAGTTTACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT
AAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAACAAGATGTTGATGTTGATCTACCTCCT
TCTGTGATAGAATCGAGCAAAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
ATAAA
Found at i:1774837 original size:397 final size:397
Alignment explanation
Indices: 1774057--1774896 Score: 1261
Period size: 397 Copynumber: 2.1 Consensus size: 397
1774047 ATGAATTTGA
* * *
1774057 ATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATTGAGCAAAAATTTGACGCTGATCCAACTC
1 ATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGC-AAAACTTGACGCTAATCCAACTC
* ** * * * *
1774122 TTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATTCACCTCTTTCTGTGATGGAATCGAAC
65 CTTCTGCGATAAATTTGAGCAAAAATAAAAATGGCGATCCACCTCTTTCTATGATGGAATCGAAC
* * *
1774187 GAGATGTTGATGTTGATCTACCTACTTCTGTGACAGAATCGAGCTAAAAGTTGTCGCTAATCCAA
130 GAGATGTCGATGTTGATCTACCTACTTATGTGACAGAATCGAGCAAAAAGTTGTCGCTAATCCAA
* **
1774252 CTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGTCGATCCACCTCTTTCTGTGATGGAATTG
195 CTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGTCGATCCACCTCTTTCTATGATGGAATCA
* * * *
1774317 AACGAGATGTCGATGTTGATCTACCTCCTTCTGTGATTGAATCGAGAAAAAAATTGACGCTGATC
260 AACAAGATGTCGATGTTAATCTACCTCCTTCTGTGATAGAATCGAGAAAAAAATTGACACTGATC
* * *
1774382 CAACTCCTTCTGCGATGGATTTGAGCGAAGATAAAATGTCGATTCACCTCTTTCTGTGATGGAAT
325 CAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAATGTCGATCCACCTCATTCTGTGATGGAAT
1774447 CGAACAAG
390 CGAACAAG
* * * *
1774455 ATGTCGATGCTGATCTACCTCCTTCTATGATATAATCGAGCAAAACTTGACGCTAATTCAACTCC
1 ATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAACTTGACGCTAATCCAACTCC
1774520 TTCTGCGATAAATTTGAGCAAAAATAAAAATGGCGATCCACCTCTTTCTATGATGGAATCGAACG
66 TTCTGCGATAAATTTGAGCAAAAATAAAAATGGCGATCCACCTCTTTCTATGATGGAATCGAACG
* * * * *
1774585 AGATGTCGATGTTGATCTTCCTCCTTATGTGATAGAATCGAGCAAAAAGTT-TACGTTGATCCAA
131 AGATGTCGATGTTGATCTACCTACTTATGTGACAGAATCGAGCAAAAAGTTGT-CGCTAATCCAA
* * *
1774649 CTCCTTCTGCGATGGGTTTGAGCGAATATAAAAATGTCGATTCACCTCTTTCTATGATGGAATCA
195 CTCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGTCGATCCACCTCTTTCTATGATGGAATCA
* * * *
1774714 AACAAGATGTTGATGTTAATCTACCTCCTTCTGTGATAGAATCGAG-CAAAAGTTGACATTGATC
260 AACAAGATGTCGATGTTAATCTACCTCCTTCTGTGATAGAATCGAGAAAAAAATTGACACTGATC
1774778 CAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCATTCTGTGATGGAA
325 CAACTCCTTCTGCGATGGATTTGAGCGAAAAT-AAAATGTCGATCCACCTCATTCTGTGATGGAA
*
1774843 TCGAACGAG
389 TCGAACAAG
* *
1774852 ATATCGATGTTGATCTACCTCCTTCTGTAATAGAATCGAGCAAAA
1 ATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAA
1774897 AGTTGAACAA
Statistics
Matches: 395, Mismatches: 45, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
396 46 0.12
397 312 0.79
398 37 0.09
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (397 bp):
ATGTCGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAACTTGACGCTAATCCAACTCC
TTCTGCGATAAATTTGAGCAAAAATAAAAATGGCGATCCACCTCTTTCTATGATGGAATCGAACG
AGATGTCGATGTTGATCTACCTACTTATGTGACAGAATCGAGCAAAAAGTTGTCGCTAATCCAAC
TCCTTCTGCGATGGATTTGAGCGAAGATAAAAATGTCGATCCACCTCTTTCTATGATGGAATCAA
ACAAGATGTCGATGTTAATCTACCTCCTTCTGTGATAGAATCGAGAAAAAAATTGACACTGATCC
AACTCCTTCTGCGATGGATTTGAGCGAAAATAAAATGTCGATCCACCTCATTCTGTGATGGAATC
GAACAAG
Found at i:1775728 original size:6 final size:6
Alignment explanation
Indices: 1775717--1775749 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1775707 ATCTCTCTTT
1775717 TTTTTC TTTTTC -TTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1775750 CAGGCGTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:1775739 original size:17 final size:17
Alignment explanation
Indices: 1775717--1775750 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1775707 ATCTCTCTTT
1775717 TTTTTCTTTTTCTTTTC
1 TTTTTCTTTTTCTTTTC
1775734 TTTTTCTTTTTCTTTTC
1 TTTTTCTTTTTCTTTTC
1775751 AGGCGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTC
Found at i:1775750 original size:11 final size:11
Alignment explanation
Indices: 1775714--1775749 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1775704 CGAATCTCTC
1775714 TTTT-TTTTCT
1 TTTTCTTTTCT
1775724 TTTTCTTTTCT
1 TTTTCTTTTCT
1775735 TTTTCTTTTTCT
1 TTTTC-TTTTCT
1775747 TTT
1 TTT
1775750 CAGGCGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 11 0.46
12 9 0.38
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:1789668 original size:5 final size:5
Alignment explanation
Indices: 1789652--1789806 Score: 301
Period size: 5 Copynumber: 30.8 Consensus size: 5
1789642 TGTGCACATG
1789652 TATAA TTATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA -TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1789703 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1789753 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1789803 TATA
1 TATA
1789807 TACACATAAT
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 144 0.97
6 5 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:1790560 original size:49 final size:49
Alignment explanation
Indices: 1790494--1790591 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
1790484 CATTGGTTCA
*
1790494 CTCCTAAAACACATAATTTCATCTCCACACTCTGTTCTTTCACCATTGC
1 CTCCTAAAACACATAATTTCATCTCCACACTATGTTCTTTCACCATTGC
* * *
1790543 CTCCTAAAACGCTTAATTTCCTCTCCACACTATGTTCTTTCACCATTGC
1 CTCCTAAAACACATAATTTCATCTCCACACTATGTTCTTTCACCATTGC
1790592 TTATTCCTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.24, C:0.35, G:0.05, T:0.36
Consensus pattern (49 bp):
CTCCTAAAACACATAATTTCATCTCCACACTATGTTCTTTCACCATTGC
Found at i:1799089 original size:6 final size:6
Alignment explanation
Indices: 1799078--1799107 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1799068 AAACTAGAAA
1799078 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1799108 GAAGGACCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:1800670 original size:54 final size:53
Alignment explanation
Indices: 1800596--1801551 Score: 728
Period size: 54 Copynumber: 17.6 Consensus size: 53
1800586 CTCCATATTC
* * * *
1800596 TTTCAGAGAGTGTAGGACTCG-ATCAATCTTCGATC-AACGGGTTTGCTCCC-CATT
1 TTTCAGGGAGTATAGAACTCGAAT-AATCTTC--TCAAACGGGTTCGCTCCCTC-TT
* *
1800650 TTTCAGGGAGTATAGAACTCGGA-CATCTTCTTCAAACGGGTTCGCTCCCTCTT
1 TTTCAGGGAGTATAGAACTCGAATAATCTTC-TCAAACGGGTTCGCTCCCTCTT
* * * * * * *
1800703 TCTCTAGGGAATATGGAACTCGGA-CATCTTCTTCAAACGAGTTTGCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTC-TCAAACGGGTTCGCTCCCTCTT
* * **
1800757 TCTCTAGGGAGTATGGAACTC-AA-ACATCTTCTTCTTACGGGTTCGCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATA-ATCTTC-TCAAACGGGTTCGCTCCCTCTT
*
1800811 TCTCTAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTCTT
* * *
1800866 TCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCAAACTGGTTCACTCCCTCTTT
1 T-TTCAGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTC-TT
* *
1800922 CTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCACTCCCTCTTT
1 -TTTCAGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTC-TT
* * *
1800978 CTTTCAGGAAGTATAAAACTCGAATAATCTTCTGTAAACGGGTTCGCTCCCTCTTT
1 -TTTCAGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTC-TT
* *
1801034 CTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCTCTCCCTCTTT
1 -TTTCAGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTC-TT
* ** *
1801090 CTTTCA-GGAGTATGGAACTCGAATAATCTTCTTCTTACGGGTTCACTCCCTCTT
1 -TTTCAGGGAGTATAGAACTCGAATAATCTTC-TCAAACGGGTTCGCTCCCTCTT
* * *** * *
1801144 TCTCTAGGGAGTATGGAACTC-AA-ACATCTTCTTTTTACGGGTTCCCCCCCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATA-ATCTTC-TCAAACGGGTT--CGCTCCCTCTT
* * * * ** *
1801200 TCTCTAGGGAGTATGGAACTCGAA-CATTTTCTTCTTACGGGCTCGCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTC-TCAAACGGGTTCGCTCCCTCTT
* * * * *
1801254 TCTCTAAGGAGTATAGAACTCGAATAATCTGCTACAAACCGGTTCACTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTCTT
* *
1801309 TCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGTTCCCTCTT
1 T-TTCAGGGAGTATAGAACTCGAATAATCTTCT-CAAACGGGTTCGCTCCCTCTT
* * * * ** *
1801364 TCTCTAGGGAGTATAGAACTTGGA-CATCTTCT--TTCGGGTTCACTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTCTCAAACGGGTTCGCTCCCTCTT
* * * *
1801415 TCTCTAGGGAGTATGGAACTCGAAT-ATCTTCT--TACGGGTTCTCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTCTCAAACGGGTTCGCTCCCTCTT
* * * * *
1801466 TCTCTAGAGAGTATGGAACTC-AGA-CATCTCCTTCAAACGGGTTCGCTCCCTCTT
1 TTTC-AGGGAGTATAGAACTCGA-ATAATCTTC-TCAAACGGGTTCGCTCCCTCTT
* * * *
1801520 TCTCTAGGAAGTATGGAACTCGAA-CATCTTCT
1 TTTC-AGGGAGTATAGAACTCGAATAATCTTCT
1801552 TCGCTTCACT
Statistics
Matches: 785, Mismatches: 88, Indels: 59
0.84 0.09 0.06
Matches are distributed among these distances:
50 1 0.00
51 86 0.11
52 3 0.00
53 31 0.04
54 235 0.30
55 212 0.27
56 214 0.27
57 3 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (53 bp):
TTTCAGGGAGTATAGAACTCGAATAATCTTCTCAAACGGGTTCGCTCCCTCTT
Found at i:1800959 original size:56 final size:55
Alignment explanation
Indices: 1800631--1801553 Score: 981
Period size: 55 Copynumber: 17.0 Consensus size: 55
1800621 ATCTTCGATC
* * * *
1800631 AACGGGTTTGCTCCC-CATTTTTC-AGGGAGTATAGAACTCGGA-CATCTTCTTCA
1 AACGGGTTCGCTCCCTC-TTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1800684 AACGGGTTCGCTCCCTCTTTCTCTAGGGAATATGGAACTCGGA-CATCTTCTTCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1800738 AACGAGTTTGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AA-ACATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATA-ATCTTCTTCA
* *
1800792 TACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* *
1800847 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * * *
1800902 AACTGGTTCACTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1800958 AACGGGTTCACTCCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTGT-A
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAATAATCTTCT-TCA
* * *
1801014 AACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1801070 AACGGGTTCTCTCCCTCTTTCTTTCA-GGAGTATGGAACTCGAATAATCTTCTTCT
1 AACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * **
1801125 TACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTC-AA-ACATCTTCTTTT
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATA-ATCTTCTTCA
* * * * * * *
1801179 TACGGGTTCCCCCCCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-CATTTTCTTCT
1 AACGGGTT--CGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * * *
1801235 TACGGGCTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAATAATCTGCTACA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1801290 AACCGGTTCACTCCCTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTGCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * *
1801345 AACGGGTTCGTTCCCTCTTTCTCTAGGGAGTATAGAACTTGGA-CATCTTCTT--
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * *
1801397 -TCGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAT-ATCTTCTT--
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
* * * * *
1801448 -ACGGGTTCTCTCCCTCTTTCTCTAGAGAGTATGGAACTC-AGA-CATCTCCTTCA
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGA-ATAATCTTCTTCA
* * *
1801501 AACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAA-CATCTTCTTC
1 AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTC
1801554 GCTTCACTAC
Statistics
Matches: 768, Mismatches: 81, Indels: 41
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.00
51 88 0.11
53 21 0.03
54 215 0.28
55 236 0.31
56 205 0.27
57 2 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (55 bp):
AACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAATAATCTTCTTCA
Found at i:1802067 original size:37 final size:36
Alignment explanation
Indices: 1801857--1802059 Score: 193
Period size: 37 Copynumber: 5.6 Consensus size: 36
1801847 TTCTCTACTT
*
1801857 TTCT-TGGTGAAGGCTTAAG-GTGAACTTGCTTCACTA
1 TTCTCTGGTGAAGGCTTAAGATTG-A-TTGCTTCACTA
** *
1801893 GTT-TCTAATGAAGGCTTCAGATTGATTGCTTCACTA
1 -TTCTCTGGTGAAGGCTTAAGATTGATTGCTTCACTA
*
1801929 --CT-TAGGTGAAGGCTTCAGATTGATTTGCTTCACTA
1 TTCTCT-GGTGAAGGCTTAAGATTGA-TTGCTTCACTA
* * * *
1801964 TTCTCAGGTGAAGGCTTACGATGGTTTGCTTCACTA
1 TTCTCTGGTGAAGGCTTAAGATTGATTGCTTCACTA
* * * *
1802000 TTCTTTCAGTGAAGGCTGAAGATGGATTGCTTCACTA
1 TTCTCT-GGTGAAGGCTTAAGATTGATTGCTTCACTA
1802037 TTCTCTGGTGAAGGCTTAAGATT
1 TTCTCTGGTGAAGGCTTAAGATT
1802060 AACTTGCTCC
Statistics
Matches: 136, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
33 1 0.01
34 18 0.13
35 11 0.08
36 41 0.30
37 63 0.46
38 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (36 bp):
TTCTCTGGTGAAGGCTTAAGATTGATTGCTTCACTA
Found at i:1807511 original size:21 final size:21
Alignment explanation
Indices: 1807496--1807557 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
1807486 AGTCTTCATG
*
1807496 TCTTTGTGAATGGTCTTCTCA
1 TCTTTATGAATGGTCTTCTCA
1807517 TCTTTATGAATGGTCTTCTCA
1 TCTTTATGAATGGTCTTCTCA
1807538 TCTTTATGAATGGTCTTCTC
1 TCTTTATGAATGGTCTTCTC
1807558 GTCCTTGTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (21 bp):
TCTTTATGAATGGTCTTCTCA
Found at i:1807571 original size:21 final size:21
Alignment explanation
Indices: 1807499--1807585 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
1807489 CTTCATGTCT
*
1807499 TTGTGAATGGTCTTCTCATCT
1 TTGTGAATGGTCTTCTCATCC
* *
1807520 TTATGAATGGTCTTCTCATCT
1 TTGTGAATGGTCTTCTCATCC
* *
1807541 TTATGAATGGTCTTCTCGTCC
1 TTGTGAATGGTCTTCTCATCC
* * *
1807562 TTGTGCATGGTCTACTCGTCC
1 TTGTGAATGGTCTTCTCATCC
1807583 TTG
1 TTG
1807586 GTATGGCTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGTGAATGGTCTTCTCATCC
Found at i:1815203 original size:15 final size:15
Alignment explanation
Indices: 1815183--1815211 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1815173 ACTTGTAATT
1815183 ATTAAATAATAAATA
1 ATTAAATAATAAATA
1815198 ATTAAATAATAAAT
1 ATTAAATAATAAAT
1815212 GTTATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAAATAATAAATA
Found at i:1815649 original size:18 final size:18
Alignment explanation
Indices: 1815626--1815660 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1815616 ATTTTTATTG
1815626 AATAAAAATAATATTTTT
1 AATAAAAATAATATTTTT
* *
1815644 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
1815661 GGGTCGGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAAATAATATTTTT
Found at i:1818600 original size:14 final size:14
Alignment explanation
Indices: 1818583--1818740 Score: 70
Period size: 14 Copynumber: 10.6 Consensus size: 14
1818573 AAAATGAATG
1818583 AAAAAATAAAAATA
1 AAAAAATAAAAATA
*
1818597 AAAATAA-AAGAAGTA
1 AAAA-AATAA-AAATA
* *
1818612 AACAAAT-TAAATAA
1 AAAAAATAAAAAT-A
1818626 AAAAAATGAATAAATA
1 AAAAAAT-AA-AAATA
* *
1818642 AATAAATACAAATA
1 AAAAAATAAAAATA
* **
1818656 AAAAATTAAATCTTA
1 AAAAAATAAA-AATA
1818671 AAAATAAT-AAAATA
1 AAAA-AATAAAAATA
*
1818685 AAACAACTAAAAATA
1 AAA-AAATAAAAATA
* *
1818700 AACATAAATAATACTAA
1 AA-A-AAATAAAAAT-A
**
1818717 ATAAAAATAATGATA
1 A-AAAAATAAAAATA
1818732 AAAAAATAA
1 AAAAAATAA
1818741 TAAAGTGAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 28
0.68 0.15 0.18
Matches are distributed among these distances:
13 3 0.03
14 42 0.39
15 29 0.27
16 25 0.23
17 7 0.07
18 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:1818625 original size:22 final size:21
Alignment explanation
Indices: 1818583--1818666 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 21
1818573 AAAATGAATG
*
1818583 AAAAAAT-AAAAATAAAAATAA
1 AAAAAATAAAAAAT-TAAATAA
* *
1818604 AAGAAGTAAACAAATTAAATAA
1 AAAAAATAAA-AAATTAAATAA
*
1818626 AAAAAATGAATAAA-TAAATAA
1 AAAAAAT-AAAAAATTAAATAA
*
1818647 ATACAAATAAAAAATTAAAT
1 A-AAAAATAAAAAATTAAAT
1818667 CTTAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
21 18 0.36
22 26 0.52
23 6 0.12
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAAATAAAAAATTAAATAA
Found at i:1818732 original size:26 final size:24
Alignment explanation
Indices: 1818669--1818737 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
1818659 AATTAAATCT
*
1818669 TAAAAATAATA-AAATAAAACAAC
1 TAAAAATAATATAAATAAAACAAA
* *
1818692 TAAAAATAAACATAAATAATACTAAA
1 TAAAAAT-AATATAAATAAAAC-AAA
1818718 TAAAAATAATGATAAA-AAAA
1 TAAAAATAAT-ATAAATAAAA
1818738 TAATAAAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 7 0.19
24 3 0.08
25 13 0.35
26 14 0.38
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.20
Consensus pattern (24 bp):
TAAAAATAATATAAATAAAACAAA
Found at i:1818743 original size:11 final size:12
Alignment explanation
Indices: 1818669--1818744 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
1818659 AATTAAATCT
1818669 TAAAAATAATAA
1 TAAAAATAATAA
* *
1818681 -AATAA-AACAA
1 TAAAAATAATAA
1818691 CTAAAAATAA-ACA
1 -TAAAAATAATA-A
*
1818704 TAAATAATACTAAA
1 TAAA-AATAAT-AA
*
1818718 TAAAAATAATGA
1 TAAAAATAATAA
1818730 TAAAAA-AATAA
1 TAAAAATAATAA
1818741 TAAA
1 TAAA
1818745 GTGAAAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.08
11 12 0.24
12 16 0.32
13 12 0.24
14 5 0.10
15 1 0.02
ACGTcount: A:0.72, C:0.05, G:0.01, T:0.21
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:1819997 original size:15 final size:15
Alignment explanation
Indices: 1819974--1820005 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1819964 TTTTTGTGTT
*
1819974 TCAAGAGAAACTGTC
1 TCAAAAGAAACTGTC
1819989 TCAAAAGAAACTGTC
1 TCAAAAGAAACTGTC
1820004 TC
1 TC
1820006 GAGTGAGACG
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:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (15 bp):
TCAAAAGAAACTGTC
Found at i:1820110 original size:37 final size:36
Alignment explanation
Indices: 1820060--1820534 Score: 288
Period size: 37 Copynumber: 13.7 Consensus size: 36
1820050 TGTTTCAAGG
**
1820060 GAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTT-GTTTTAAAA
* * *
1820097 GAAACTGTCTCAAGAGAGACACAATTTG-TTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* * *
1820132 GAAAACAGAT-TC---AGAG----ATTTTGTTTTAAGA
1 G-AAACTG-TCTCAAGAGAGACAAAATTTGTTTTAAAA
**
1820162 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTTACGA
1 GAAACTGTCTCAAGAGAGACAAAATTTG-TTTTAAAA
* *
1820199 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTT-GTTTTAAAA
* * * *
1820236 GAAATTGTCTCAAGAGAGACGAAACTTG-TTTAAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* * * **
1820271 GAAAACAGAT-TC-----A-AC-AATTTTGTTTCAAGG
1 G-AAACTG-TCTCAAGAGAGACAAAATTTGTTTTAAAA
**
1820301 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTACGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* * *
1820337 GAAAATGTCTAAAGAGAGACAAAATTTAGTTCTAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTT-GTTTTAAAA
1820374 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAGGGAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTA---AAA
* ** * **
1820414 -AAA--AT-TC-A-A-AG----TTTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* *
1820439 GAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* * *
1820475 GAAAATGTCTCAAGAGATACAAAATTTGTTTTAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
* *
1820511 GAAACTGTTTCAAGGGAGACAAAA
1 GAAACTGTCTCAAGAGAGACAAAA
1820535 CTGTATTTTG
Statistics
Matches: 339, Mismatches: 59, Indels: 81
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
28 11 0.03
29 26 0.08
30 14 0.04
31 2 0.01
32 6 0.02
33 6 0.02
34 2 0.01
35 13 0.04
36 121 0.36
37 124 0.37
38 4 0.01
39 3 0.01
40 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
Found at i:1820190 original size:36 final size:36
Alignment explanation
Indices: 1820150--1820534 Score: 313
Period size: 36 Copynumber: 11.0 Consensus size: 36
1820140 ATTCAGAGAT
1820150 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1820186 TTTGTTTTTACGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTG-TTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
1820223 TTTAGTTCTAAAAGAAATTGTCTCAAGAGAGACGAAA
1 TTT-GTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
1820260 CTTGTTTAAAG-GAAAACAGAT-TC-----A-AC-AAT
1 TTTGTTTTAAGAG-AAACTG-TCTCAAGAGAGACAAAA
* *
1820289 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
1820325 TTTGTTTTACGAGAAAATGTCTAAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1820361 TTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTT-GTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* ** *
1820398 CTTTGTTTT-AGGGAAA-------AA-A-ATTCAAAGTT
1 -TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAA--A
* * *
1820427 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1820463 TTTGTTTTAAGAGAAAATGTCTCAAGAGATACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1820499 TTTGTTTTAAGAGAAACTGTTTCAAGGGAGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1820535 CTGTATTTTG
Statistics
Matches: 275, Mismatches: 47, Indels: 54
0.73 0.12 0.14
Matches are distributed among these distances:
27 5 0.02
28 9 0.03
29 27 0.10
30 3 0.01
31 1 0.00
34 1 0.00
35 3 0.01
36 121 0.44
37 96 0.35
38 9 0.03
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:1820225 original size:102 final size:102
Alignment explanation
Indices: 1819990--1820225 Score: 323
Period size: 102 Copynumber: 2.3 Consensus size: 102
1819980 GAAACTGTCT
* * *
1819990 CAAAAGAAACTGTCTCGAGTGAGACGAAATTTGTTTAATGGAAAACAAATTCAAAGATTTTGTTT
1 CAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAATGGAAAACAAATTCAAAGATTTTGTTT
*
1820055 CAAGGGAAACTGTCTCAAGAGAGACAAAATTTAGTTC
66 CAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTC
* * *
1820092 CAAAAGAAACTGTCTCAAGAGAGACACAATTTGTTTCAA-GGAAAACAGATTCAGAGATTTTGTT
1 CAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AATGGAAAACAAATTCAAAGATTTTGTT
* *
1820156 TTAAGAGAAACTGTCTCAAGAGAGACAAAATTT-GTTTT
65 TCAAGAGAAACTGTCTCAAGAGAGACAAAATTTAG-TTC
* ** *
1820194 TACGAGAAAATGTCTCAAGAGAGACAAAATTT
1 CAAAAGAAACTGTCTCAAGAGAGACAAAATTT
1820226 AGTTCTAAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
101 1 0.01
102 115 0.97
103 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (102 bp):
CAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAATGGAAAACAAATTCAAAGATTTTGTTT
CAAGAGAAACTGTCTCAAGAGAGACAAAATTTAGTTC
Found at i:1820330 original size:65 final size:65
Alignment explanation
Indices: 1820236--1820479 Score: 226
Period size: 65 Copynumber: 3.6 Consensus size: 65
1820226 AGTTCTAAAA
* * * *
1820236 GAAATTGTCTCAAGAGAGACGAAACTTGTTTAAAG-GAAAACAGATTCAACAATTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAACAGATTCAA-AATTTTGTTTCAAG
1820300 G
65 G
* ** *
1820301 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTACGAGAAAATGTCTAAAGAGAGACAAAATTTAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA---C-----AGATTCAAAATTTTG
**
1820366 -TTCTAAAA
58 TTTC-AAGG
* * *
1820374 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTT-AGGGAAAA-AAATTCAAAGTTTTTGTTTCAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGAGAAAACAGATTCAAA-ATTTTGTTTCAA
1820437 GG
64 GG
*
1820439 GAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA
1820480 TGTCTCAAGA
Statistics
Matches: 144, Mismatches: 21, Indels: 28
0.75 0.11 0.15
Matches are distributed among these distances:
64 14 0.10
65 66 0.46
66 8 0.06
69 1 0.01
72 3 0.02
73 38 0.26
74 14 0.10
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (65 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAACAGATTCAAAATTTTGTTTCAAGG
Found at i:1820399 original size:138 final size:137
Alignment explanation
Indices: 1820060--1820536 Score: 697
Period size: 138 Copynumber: 3.5 Consensus size: 137
1820050 TGTTTCAAGG
* * * *
1820060 GAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACACAATTTG
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTG
* * * *
1820125 TTTCAAGGAAAACAGATTCAGAGATTTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
66 TTTAAAGGAAAACAGATTCA-AAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1820190 TTTTTACGA
130 -TTTTACGA
* *
1820199 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAATTGTCTCAAGAGAGACGAAACTTG
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTG
1820264 TTTAAAGGAAAACAGATTCAACAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
66 TTTAAAGGAAAACAGATTCAA-AATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1820329 TTTTACGA
130 TTTTACGA
*
1820337 GAAAATGTCTAAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTT
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAAC-TT
* * * * *
1820402 GTTTTAGGGAAAA-AAATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTT
65 GTTTAAAGGAAAACAGATTCAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
1820466 GTTTTAAGA
129 GTTTTACGA
* * * * *
1820475 GAAAATGTCTCAAGAGATACAAAATTT-GTTTTAAGAGAAACTGTTTCAAGGGAGACAAAACT
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACT
1820537 GTATTTTGAG
Statistics
Matches: 310, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
136 1 0.00
137 31 0.10
138 147 0.47
139 131 0.42
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (137 bp):
GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTG
TTTAAAGGAAAACAGATTCAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
TTTACGA
Found at i:1820476 original size:21 final size:21
Alignment explanation
Indices: 1820450--1820512 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
1820440 AAACCGTCTC
1820450 AAGAGAGACAAAATTTGTTTT
1 AAGAGAGACAAAATTTGTTTT
* *
1820471 -A-AGAG--AAAA--TGTCTC
1 AAGAGAGACAAAATTTGTTTT
*
1820486 AAGAGATACAAAATTTGTTTT
1 AAGAGAGACAAAATTTGTTTT
1820507 AAGAGA
1 AAGAGA
1820513 AACTGTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 12
0.65 0.10 0.25
Matches are distributed among these distances:
15 4 0.13
16 1 0.03
17 7 0.23
19 8 0.26
20 1 0.03
21 10 0.32
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGAGAGACAAAATTTGTTTT
Found at i:1821186 original size:32 final size:32
Alignment explanation
Indices: 1821142--1821219 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
1821132 CATCAGGATA
* *
1821142 TTGAATCCCCAAAGATG-CCCTAATATTCGATG
1 TTGAATCTCCAAAGATGACCC-AACATTCGATG
* *
1821174 TTGAATCTCCAAAAATGACCCAACATTTGATG
1 TTGAATCTCCAAAGATGACCCAACATTCGATG
*
1821206 TTGAATCTTCAAAG
1 TTGAATCTCCAAAG
1821220 GTTCCCCCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 36 0.92
33 3 0.08
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (32 bp):
TTGAATCTCCAAAGATGACCCAACATTCGATG
Found at i:1822321 original size:25 final size:25
Alignment explanation
Indices: 1822293--1822341 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1822283 CTTTGTTTTT
*
1822293 GTTTCTCTT-TTTTATTTTCTCTTTG
1 GTTTCTCTTCATTT-TTTTCTCTTTG
*
1822318 GTTTTTCTTCATTTTTTTCTCTTT
1 GTTTCTCTTCATTTTTTTCTCTTT
1822342 TTTCTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.73
Consensus pattern (25 bp):
GTTTCTCTTCATTTTTTTCTCTTTG
Found at i:1822349 original size:14 final size:13
Alignment explanation
Indices: 1822288--1822349 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
1822278 TTTTCCTTTG
*
1822288 TTTTTGTTTCTCT
1 TTTTTTTTTCTCT
1822301 TTTTTATTTTCTCT
1 TTTTT-TTTTCTCT
**
1822315 TTGGTTTTTCT-T
1 TTTTTTTTTCTCT
**
1822327 CATTTTTTTCTCT
1 TTTTTTTTTCTCT
1822340 TTTTTCTTTT
1 TTTTT-TTTT
1822350 TGTTCTGATT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
12 8 0.22
13 15 0.41
14 14 0.38
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:1824829 original size:6 final size:6
Alignment explanation
Indices: 1824818--1824843 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1824808 ATCGAATAAA
1824818 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
1824844 CCATTTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:1825309 original size:16 final size:16
Alignment explanation
Indices: 1825285--1825356 Score: 65
Period size: 16 Copynumber: 4.5 Consensus size: 16
1825275 TGAATCAAAA
* *
1825285 GAAAGAAAAAATGAAT
1 GAAATAAAAAATAAAT
*
1825301 GAAATAAAAAAATAAAA
1 GAAAT-AAAAAATAAAT
* *
1825318 GAAGTAAAAAAAAAAT
1 GAAATAAAAAATAAAT
* *
1825334 TAAATAAAAAATGAAT
1 GAAATAAAAAATAAAT
1825350 -AAATAAA
1 GAAATAAA
1825357 TACAAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
15 7 0.16
16 25 0.56
17 13 0.29
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
GAAATAAAAAATAAAT
Found at i:1825327 original size:33 final size:33
Alignment explanation
Indices: 1825281--1825344 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1825271 TAAATGAATC
**
1825281 AAAAGAAAGAAAAAATGAATGAAATAAAAAAAT
1 AAAAGAAAGAAAAAAAAAATGAAATAAAAAAAT
*
1825314 AAAAG-AAGTAAAAAAAAAATTAAATAAAAAA
1 AAAAGAAAG-AAAAAAAAAATGAAATAAAAAA
1825345 TGAATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (33 bp):
AAAAGAAAGAAAAAAAAAATGAAATAAAAAAAT
Found at i:1825363 original size:25 final size:24
Alignment explanation
Indices: 1825290--1825368 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
1825280 CAAAAGAAAG
1825290 AAAAAATGAATGAAATAAA-AAAAT
1 AAAAAATGAAT-AAATAAATAAAAT
* * *
1825314 AAAAGAA-GTAAAAAAAAAATTAAAT
1 AAAA-AATG-AATAAATAAATAAAAT
1825339 AAAAAATGAATAAATAAATACAAAT
1 AAAAAATGAATAAATAAATA-AAAT
1825364 AAAAA
1 AAAAA
1825369 GTTAAATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAAAATGAATAAATAAATAAAAT
Found at i:1831277 original size:19 final size:19
Alignment explanation
Indices: 1831248--1831302 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1831238 CAAAATCATA
*
1831248 TTACTTTTAGATTCGTAACT
1 TTAC-TTTAGATTCATAACT
1831268 TTACTTTAGATTCATAACT
1 TTACTTTAGATTCATAACT
*
1831287 TTACTTTAAATTCATA
1 TTACTTTAGATTCATA
1831303 GCCCAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 29 0.88
20 4 0.12
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TTACTTTAGATTCATAACT
Found at i:1832685 original size:22 final size:22
Alignment explanation
Indices: 1832636--1832685 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1832626 TTTACGACAC
* *
1832636 ATTCAAGTCCTCTTTTATCCAA
1 ATTCACGTCCCCTTTTATCCAA
1832658 ATTCACGTCCCCTTTTATCCAA
1 ATTCACGTCCCCTTTTATCCAA
1832680 ATTCAC
1 ATTCAC
1832686 TCAAACTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTCACGTCCCCTTTTATCCAA
Found at i:1837475 original size:44 final size:44
Alignment explanation
Indices: 1837409--1837515 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
1837399 GTGCAATATT
* *
1837409 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTT-AT-CCATAAGCTCATAAGCTTATTTTACCAATACAC
1837455 TTACCATTTATCCATAAGCTCATAAGCTTATTTTACCAATACAC
1 TTACCATTTATCCATAAGCTCATAAGCTTATTTTACCAATACAC
*
1837499 TTGCCA-TTATTCCATAA
1 TTACCATTTA-TCCATAA
1837516 CCATATACCA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 3 0.05
44 43 0.75
45 2 0.04
46 9 0.16
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (44 bp):
TTACCATTTATCCATAAGCTCATAAGCTTATTTTACCAATACAC
Found at i:1842339 original size:20 final size:21
Alignment explanation
Indices: 1842316--1842355 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1842306 AATTTCACAT
1842316 TCTAACATCAAATT-CATCAC
1 TCTAACATCAAATTCCATCAC
*
1842336 TCTAACATTAAATTCCATCA
1 TCTAACATCAAATTCCATCA
1842356 TAGAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (21 bp):
TCTAACATCAAATTCCATCAC
Found at i:1842787 original size:3 final size:3
Alignment explanation
Indices: 1842781--1842806 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1842771 TTTGGAAAAA
1842781 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
1842807 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1844415 original size:19 final size:20
Alignment explanation
Indices: 1844372--1844417 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1844362 GACTATGCTA
* *
1844372 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
1844392 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
1844411 GAAATTG
1 GAAATTG
1844418 GATTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:1848323 original size:21 final size:22
Alignment explanation
Indices: 1848300--1848348 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
1848290 AAAATCCTAA
1848300 AAAATAAAAATAAAATAAATAA
1 AAAATAAAAATAAAATAAATAA
* *
1848322 AAAATGAAAAAGTTAAACAAATAA
1 AAAAT-AAAAA-TAAAATAAATAA
1848346 AAA
1 AAA
1848349 CAAGTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 13 0.57
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAATAA
Found at i:1856896 original size:78 final size:77
Alignment explanation
Indices: 1856755--1856897 Score: 180
Period size: 78 Copynumber: 1.8 Consensus size: 77
1856745 TTAAAATTCA
* *
1856755 AATTAAATATCCATTAAAGACTTATAATTCAAATTACACTCTTTAATATTTATTTAAGCTATTAT
1 AATTAAATATCCATTAAAGACTTATAATTCAAATTACACTCTTTAATATTTACTTAAGATATTAT
1856820 TTAATTATTTTG
66 TTAATTATTTTG
* * * * * **
1856832 AATTAAATATCCATTAAAAGATTTGTAA-TCAGAATTACATTTTTTAATGTTTACTTACTATATT
1 AATTAAATATCCATT-AAAGACTTATAATTCA-AATTACACTCTTTAATATTTACTTAAGATATT
1856896 AT
64 AT
1856898 GGATTATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
77 18 0.33
78 37 0.67
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (77 bp):
AATTAAATATCCATTAAAGACTTATAATTCAAATTACACTCTTTAATATTTACTTAAGATATTAT
TTAATTATTTTG
Found at i:1858581 original size:26 final size:26
Alignment explanation
Indices: 1858525--1858582 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
1858515 TCTTAACTGG
* * *
1858525 AATAAAAGAGGTAATAATTCTCTTTT
1 AATAAAAGAGGTAATAAATATCATTT
1858551 AATAAAAGAGGTAATAAATATCATTT
1 AATAAAAGAGGTAATAAATATCATTT
*
1858577 GATAAA
1 AATAAA
1858583 GAAAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (26 bp):
AATAAAAGAGGTAATAAATATCATTT
Found at i:1859512 original size:16 final size:17
Alignment explanation
Indices: 1859493--1859525 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1859483 TATCTAATTG
1859493 TCATAAAAAACA-GATT
1 TCATAAAAAACATGATT
*
1859509 TCATAGAAAACATGATT
1 TCATAAAAAACATGATT
1859526 AAATAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (17 bp):
TCATAAAAAACATGATT
Found at i:1860157 original size:21 final size:20
Alignment explanation
Indices: 1860120--1860160 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1860110 CAACTTAAAT
**
1860120 ATAAAAATAATCCTAAAAAA
1 ATAAAAATAATAATAAAAAA
1860140 ATAAAAATAAATAATAAAAAA
1 ATAAAAAT-AATAATAAAAAA
1860161 TGAAAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
ATAAAAATAATAATAAAAAA
Found at i:1863977 original size:18 final size:18
Alignment explanation
Indices: 1863954--1863992 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1863944 TGGCCATCTC
1863954 TTCTTCTTCATTATCATA
1 TTCTTCTTCATTATCATA
1863972 TTCTTCTTCATTATCATA
1 TTCTTCTTCATTATCATA
1863990 TTC
1 TTC
1863993 ATCCACCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCTTCTTCATTATCATA
Found at i:1870828 original size:26 final size:26
Alignment explanation
Indices: 1870772--1870829 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
1870762 TCTTAACTGG
* * *
1870772 AATAAAAGAGGTAATAATTCTCTTTT
1 AATAAAAGAGGTAATAAATATCATTT
1870798 AATAAAAGAGGTAATAAATATCATTT
1 AATAAAAGAGGTAATAAATATCATTT
*
1870824 GATAAA
1 AATAAA
1870830 GAAAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (26 bp):
AATAAAAGAGGTAATAAATATCATTT
Found at i:1877815 original size:32 final size:31
Alignment explanation
Indices: 1877760--1877835 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
1877750 TTTATCACTA
*
1877760 TATAGTATATTATTTATTATTGTAGTATTATT
1 TATAGTATATTATTTAGTATTGTAGTATT-TT
* *
1877792 TATATTATA-TATTTAGTACTTGTATTATTTT
1 TATAGTATATTATTTAGTA-TTGTAGTATTTT
*
1877823 TATTACTATATTA
1 TA-TAGTATATTA
1877836 ACTAATGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 12 0.32
32 23 0.62
33 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.59
Consensus pattern (31 bp):
TATAGTATATTATTTAGTATTGTAGTATTTT
Found at i:1879558 original size:179 final size:183
Alignment explanation
Indices: 1879366--1879720 Score: 682
Period size: 179 Copynumber: 2.0 Consensus size: 183
1879356 TTTAATGTAT
1879366 CTATTTTCTTTTCTTTTGTTTTAGGTTCCCTCTAATCAAGGCTACACTTTTTATTTCTCATTTTG
1 CTATTTTCTTTTCTTTTGTTTTAGGTTCCCTCTAATCAAGGCTACACTTTTTATTTCTCATTTTG
1879431 TATGTTTTTATTTATTTCA-TA-TTTTCA-TTATTTTTTTTCTTAATTTTAGG-TTTATTTTTTA
66 TATGTTTTTATTTATTTCATTATTTTTCATTTATTTTTTTTCTTAATTTTAGGTTTTATTTTTTA
1879492 GGGAATCCAATTAAATTTCAAACGATTGTCAAAGGTAAGAAATTCACAATAAA
131 GGGAATCCAATTAAATTTCAAACGATTGTCAAAGGTAAGAAATTCACAATAAA
1879545 CTATTTTCTTTTCTTTTGTTTTAGGTTCCCTCTAATCAAGGCTACACTTTTTATTTCTCATTTTG
1 CTATTTTCTTTTCTTTTGTTTTAGGTTCCCTCTAATCAAGGCTACACTTTTTATTTCTCATTTTG
1879610 TATGTTTTTATTTATTTCATTATTTTTCATTTATTTTTTTTCTTAATTTTAGGTTTTATTTTTTA
66 TATGTTTTTATTTATTTCATTATTTTTCATTTATTTTTTTTCTTAATTTTAGGTTTTATTTTTTA
1879675 GGGAATCCAATTAAATTTCAAACGATTGTCAAAGGTAAGAAATTCA
131 GGGAATCCAATTAAATTTCAAACGATTGTCAAAGGTAAGAAATTCA
1879721 GATAAAATTT
Statistics
Matches: 172, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
179 84 0.49
180 2 0.01
181 6 0.03
182 23 0.13
183 57 0.33
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.53
Consensus pattern (183 bp):
CTATTTTCTTTTCTTTTGTTTTAGGTTCCCTCTAATCAAGGCTACACTTTTTATTTCTCATTTTG
TATGTTTTTATTTATTTCATTATTTTTCATTTATTTTTTTTCTTAATTTTAGGTTTTATTTTTTA
GGGAATCCAATTAAATTTCAAACGATTGTCAAAGGTAAGAAATTCACAATAAA
Found at i:1879659 original size:23 final size:23
Alignment explanation
Indices: 1879616--1879659 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1879606 TTTGTATGTT
*
1879616 TTTATTTATTTCATTATTTTTCA
1 TTTATTTATTTCATTAATTTTCA
*
1879639 TTTATTTTTTTTC-TTAATTTT
1 TTTA-TTTATTTCATTAATTTT
1879660 AGGTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTATTTCATTAATTTTCA
Found at i:1881344 original size:697 final size:699
Alignment explanation
Indices: 1879996--1881379 Score: 2603
Period size: 697 Copynumber: 2.0 Consensus size: 699
1879986 ATTTGGGTTG
1879996 CCAAATGGATCAACGAGTTAGTCTCTCATTATTGCTCATTGTATTCTTCTTCTATGAAAAATTTG
1 CCAAATGGATCAACGAGTTAGTCTCTCATTATTGCTCATTGTATTCTTCTTCTATGAAAAATTTG
1880061 CTCGATTTTGGGTTGAAATGGATATTTCGATGAAGTCGGTCTCGATCTAGTCATACACAGATGTA
66 CTCGATTTTGGGTTGAAATGGATATTTCGATGAAGTCGGTCTCGATCTAGTCATACACAGATGTA
*
1880126 AAACCACCAATTGTAAGGCCCTTGAATCCAAAAAGAAAGAAGAAAAAAACCAAAATAATACTAAT
131 AAACCACCAATTGTAAGGCCCTTGAATCCAAAAAGAAAGAAG-AAAAAACAAAAATAATACTAAT
*
1880191 AATGCAAGAAATAAAAATCAAAGTCATTATTGCTAGTCCCCGACAATGGCACCAAAAACTTGTTG
195 AATGCAAGAAATAAAAATCAAAGTCATTATTGCTAGTCCCCAACAATGGCACCAAAAACTTGTTG
1880256 CTTGATATAAATGTTTCACAATTGATGCAAGTGTACACGTCGCATGTTATAGTATAGAAAAGTTA
260 CTTGATATAAATGTTTCACAATTGATGCAAGTGTACACGTCGCATGTTATAGTATAGAAAAGTTA
1880321 TCGTCTCCACAGGGATTTGTGTAACTATATATTCTAACTTCTTGTACTATAAAAAAATATAAATT
325 TCGTCTCCACAGGGATTTGTGTAACTATATATTCTAACTTCTTGTACTATAAAAAAATATAAATT
1880386 GGTGATGGTAGGGTTAGAATTAACAATAAAATAAGTCAATTAGTAAATAGAAGTAGAGTATGATA
390 GGTGATGGTAGGGTTAGAATTAACAATAAAATAAGTCAATTAGTAAATAGAAGTAGAGTATGATA
1880451 AGATAAGAGATCATGTCAGGTTGTCGTGATTAGTGGTGTGACAACTGTATAGAAAGTCTAAGTAA
455 AGATAAGAGATCATGTCAGGTTGTCGTGATTAGTGGTGTGACAACTGTATAGAAAGTCTAAGTAA
1880516 TTTATTTCCACGGCAACTGAAAATAATATTATTGTCTTAGAAACTGGGTTCCTTCTTTCAAAGCT
520 TTTATTTCCACGGCAACTGAAAATAATATTATTGTCTTAGAAACTGGGTTCCTTCTTTCAAAGCT
1880581 CGACAAAGTGTTCTTCAATTCCTTCTTGTTATTCGTAAATCGAAGGACTAGTAAAATTTCTATGC
585 CGACAAAGTGTTCTTCAATTCCTTCTTGTTATTCGTAAATCGAAGGACTAGTAAAATTTCTATGC
1880646 CTTGGTGATATATCCCTGTGTTAACCATGCGTGAACAGCAATTGTGTTAA
650 CTTGGTGATATATCCCTGTGTTAACCATGCGTGAACAGCAATTGTGTTAA
*
1880696 CCAAATGGATCAACGAGTTAGTCTCTCATTATTGCTCATTGTATTCTTCTTCTATGAAATATTTG
1 CCAAATGGATCAACGAGTTAGTCTCTCATTATTGCTCATTGTATTCTTCTTCTATGAAAAATTTG
*
1880761 CTCGATTTTGGGTTGAAATGGATATTTCGATGAAGTCGGTCTCGATCTGGTCATACACAGATGTA
66 CTCGATTTTGGGTTGAAATGGATATTTCGATGAAGTCGGTCTCGATCTAGTCATACACAGATGTA
1880826 AAACCACCAATTGTAAGGCCCTTGAATCCAAAAAGAAA-AAG-AAAAACAAAAATAATACTAATA
131 AAACCACCAATTGTAAGGCCCTTGAATCCAAAAAGAAAGAAGAAAAAACAAAAATAATACTAATA
* * *
1880889 GTGTAAGAAATAAAAATCAAAGTCATTATTGCTAGTCCCCAATAATGGCACCAAAAACTTGTTGC
196 ATGCAAGAAATAAAAATCAAAGTCATTATTGCTAGTCCCCAACAATGGCACCAAAAACTTGTTGC
* *
1880954 TTGATATAAGTGTTTCGCAATTGATGCAAGTGTACACGTCGCATGTTATAGTATAGAAAAGTTAT
261 TTGATATAAATGTTTCACAATTGATGCAAGTGTACACGTCGCATGTTATAGTATAGAAAAGTTAT
* *
1881019 TGTCTCCACAGGGATTTGTGTAACTATATATTCTAACTTCTTTTACTAT-AAAAAATATAAATTG
326 CGTCTCCACAGGGATTTGTGTAACTATATATTCTAACTTCTTGTACTATAAAAAAATATAAATTG
1881083 GTGATGGTAGGGTTAGAATTAACAATTAAAATAAGTCAATTAGTAAATAGAAGTAGAGTATGATA
391 GTGATGGTAGGGTTAGAATTAACAA-TAAAATAAGTCAATTAGTAAATAGAAGTAGAGTATGATA
1881148 AGATAAGAGATCATGTCAGGTTGTCGTGATTAGTGGTGTGACAACTGTATAGAAAGTCTAAGTAA
455 AGATAAGAGATCATGTCAGGTTGTCGTGATTAGTGGTGTGACAACTGTATAGAAAGTCTAAGTAA
*
1881213 TTTATTTCCATGGCAACTGAAAATAATATTATTGTCTTAGAAACTGGGTTCCTTCTTTCAAAGCT
520 TTTATTTCCACGGCAACTGAAAATAATATTATTGTCTTAGAAACTGGGTTCCTTCTTTCAAAGCT
* *
1881278 CGACAAAGTGTTCTTCAATTCCTTCTTGTTATTCGTAAATCGAAGGACTAGTAAATTTTGTATGC
585 CGACAAAGTGTTCTTCAATTCCTTCTTGTTATTCGTAAATCGAAGGACTAGTAAAATTTCTATGC
1881343 CTTGGTGATATATCCCTGTGTTAACCATGCGTGAACA
650 CTTGGTGATATATCCCTGTGTTAACCATGCGTGAACA
1881380 ACAACCGATC
Statistics
Matches: 669, Mismatches: 14, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
696 40 0.06
697 460 0.69
699 3 0.00
700 166 0.25
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (699 bp):
CCAAATGGATCAACGAGTTAGTCTCTCATTATTGCTCATTGTATTCTTCTTCTATGAAAAATTTG
CTCGATTTTGGGTTGAAATGGATATTTCGATGAAGTCGGTCTCGATCTAGTCATACACAGATGTA
AAACCACCAATTGTAAGGCCCTTGAATCCAAAAAGAAAGAAGAAAAAACAAAAATAATACTAATA
ATGCAAGAAATAAAAATCAAAGTCATTATTGCTAGTCCCCAACAATGGCACCAAAAACTTGTTGC
TTGATATAAATGTTTCACAATTGATGCAAGTGTACACGTCGCATGTTATAGTATAGAAAAGTTAT
CGTCTCCACAGGGATTTGTGTAACTATATATTCTAACTTCTTGTACTATAAAAAAATATAAATTG
GTGATGGTAGGGTTAGAATTAACAATAAAATAAGTCAATTAGTAAATAGAAGTAGAGTATGATAA
GATAAGAGATCATGTCAGGTTGTCGTGATTAGTGGTGTGACAACTGTATAGAAAGTCTAAGTAAT
TTATTTCCACGGCAACTGAAAATAATATTATTGTCTTAGAAACTGGGTTCCTTCTTTCAAAGCTC
GACAAAGTGTTCTTCAATTCCTTCTTGTTATTCGTAAATCGAAGGACTAGTAAAATTTCTATGCC
TTGGTGATATATCCCTGTGTTAACCATGCGTGAACAGCAATTGTGTTAA
Found at i:1881898 original size:25 final size:26
Alignment explanation
Indices: 1881858--1881916 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
1881848 TTTTAATTGG
*
1881858 AATAAAAGAGGGAATAATTATC-TTT
1 AATAAAAGAGGGAATAAATATCTTTT
* * *
1881883 AATAAAAGTGGTAATAAATCTCTTTT
1 AATAAAAGAGGGAATAAATATCTTTT
1881909 AATAAAAG
1 AATAAAAG
1881917 GAGTAAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (26 bp):
AATAAAAGAGGGAATAAATATCTTTT
Found at i:1881915 original size:26 final size:24
Alignment explanation
Indices: 1881866--1881932 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
1881856 GGAATAAAAG
* *
1881866 AGGGAATAATTATC-TTTAATAAA
1 AGGGAATAAATCTCTTTTAATAAA
1881889 AGTGGTAATAAATCTCTTTTAATAAA
1 AG-GG-AATAAATCTCTTTTAATAAA
*
1881915 A-GGAGTAAATCTCTTTTA
1 AGGGAATAAATCTCTTTTA
1881933 TCTTTATGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 16 0.42
24 4 0.11
25 8 0.21
26 10 0.26
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.37
Consensus pattern (24 bp):
AGGGAATAAATCTCTTTTAATAAA
Found at i:1884177 original size:20 final size:20
Alignment explanation
Indices: 1884152--1884199 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1884142 TGGATTATGT
*
1884152 TTGAAATT-AGTGTTAGAGTG
1 TTGAAATTGA-TGTTAGAATG
1884172 TTGAAATTGATGTTAGAATG
1 TTGAAATTGATGTTAGAATG
1884192 -TGAAATTG
1 TTGAAATTG
1884200 GATTATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.31
20 17 0.65
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
TTGAAATTGATGTTAGAATG
Found at i:1887377 original size:13 final size:13
Alignment explanation
Indices: 1887359--1887393 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1887349 CATTAAAAAC
* *
1887359 ATCATTCTTTAGA
1 ATCATTCTGTAAA
1887372 ATCATTCTGTAAA
1 ATCATTCTGTAAA
1887385 ATCATTCTG
1 ATCATTCTG
1887394 ATATCATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (13 bp):
ATCATTCTGTAAA
Found at i:1891210 original size:15 final size:15
Alignment explanation
Indices: 1891190--1891226 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1891180 GTTGACCGGT
1891190 TCGGGTCAGATCGGG
1 TCGGGTCAGATCGGG
1891205 TCGGGTCAGATCGGG
1 TCGGGTCAGATCGGG
1891220 TCGGGTC
1 TCGGGTC
1891227 TAGTTGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.46, T:0.22
Consensus pattern (15 bp):
TCGGGTCAGATCGGG
Found at i:1897005 original size:53 final size:53
Alignment explanation
Indices: 1896925--1897030 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
1896915 TTGAAAACTT
1896925 TATCTTCCTCACCCTCTCACACGCCGACGACAAAAGAGACAATGTGGACACCA
1 TATCTTCCTCACCCTCTCACACGCCGACGACAAAAGAGACAATGTGGACACCA
1896978 TATCTTCCTCACCCTCTCACACGCCGACGACAAAAGAGACAATGTGGACACCA
1 TATCTTCCTCACCCTCTCACACGCCGACGACAAAAGAGACAATGTGGACACCA
1897031 ATGGACTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.36, G:0.15, T:0.17
Consensus pattern (53 bp):
TATCTTCCTCACCCTCTCACACGCCGACGACAAAAGAGACAATGTGGACACCA
Found at i:1900709 original size:15 final size:16
Alignment explanation
Indices: 1900689--1900721 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1900679 TGGAGTACTC
1900689 TTGAATAT-CTTTATA
1 TTGAATATACTTTATA
*
1900704 TTGAATTTACTTTATA
1 TTGAATATACTTTATA
1900720 TT
1 TT
1900722 AGTTATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TTGAATATACTTTATA
Found at i:1908137 original size:5 final size:5
Alignment explanation
Indices: 1908127--1908157 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1908117 TCTTTTCAAT
*
1908127 TTTTA TTTTA TTTTA TTTTA TATTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1908158 ACTATTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:1908158 original size:10 final size:10
Alignment explanation
Indices: 1908129--1908163 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1908119 TTTTCAATTT
*
1908129 TTATTTTATT
1 TTATTTTATA
1908139 TTATTTTATA
1 TTATTTTATA
1908149 TTATTTTATA
1 TTATTTTATA
*
1908159 CTATT
1 TTATT
1908164 GTTTGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTTTATA
Found at i:1911336 original size:162 final size:164
Alignment explanation
Indices: 1910736--1911317 Score: 669
Period size: 162 Copynumber: 3.6 Consensus size: 164
1910726 TAGAATGAGA
* * *
1910736 TGGATCAACATTTCAAATGGAAGGGTTCATAATGAGAAGAACTCATCTAAAG-AGGAATAAGAAG
1 TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGG-AGAAGAAG
* ** * *
1910800 TTCATAATAAGAAGAACTTGTTTACCCTTTTGCTTGACTCTATCACATAA-GAAGATAGATCAGC
65 TTCATAATAAGAAGAACTTGTTCACCCTTTTGCTCAATTCTATCACAGAATG-AGATAGATCAGC
1910864 ATCAACATTTTGA-TCAAATCCATCACAG-AATGAGG
129 ATCAACATTTTGATTCAAATCCATCACAGAAAT-AGG
* * *
1910899 TGGATCAGCATTTCGAATGG-AGAGTTCATAATGAGAAGAACTCATCCTAAA-AAGGAGAAGAAG
1 TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCC-AAAGAAGGAGAAGAAG
* * * * *
1910962 TTCATAATAAGAAGAATTTGTTCACCCTTTTTCTCGATTCTATTACAGAATGAGATAGATTAGCA
65 TTCATAATAAGAAGAACTTGTTCACCCTTTTGCTCAATTCTATCACAGAATGAGATAGATCAGCA
* * * *
1911027 TCAACGTTTTGCTT-AAATCCATCATAGAAAAAGG
130 TCAACATTTTGATTCAAATCCATCACAGAAATAGG
* * * * ** * *
1911061 TGAATCATCATTTCCAATGGAAGGCTTCATAATGAGAATAACTCATCTGAAGAGGGAAAAGAAGT
1 TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAGAAGT
* * * * * *
1911126 TCATAATGAGAAGAACTTGTTCACCCTTTTGCTCGATTCTATCACAGAATGAGCTACATCAACGT
66 TCATAATAAGAAGAACTTGTTCACCCTTTTGCTCAATTCTATCACAGAATGAGATAGATCAGCAT
* * * *
1911191 -AACATTCT-ATTCGATTCCATCACAGAAATATG
131 CAACATTTTGATTCAAATCCATCACAGAAATAGG
* * * *
1911223 TGGATCAACATTTCCAATGGAGGGGTTCATAATAAGAAGAACCCATCCAAAGAATGAGAAGAAGT
1 TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAGAAGT
* *
1911288 TCATAATAAGAAGAACTTGTTAAACCTTTT
66 TCATAATAAGAAGAACTTGTTCACCCTTTT
1911318 ACTTAAATCC
Statistics
Matches: 352, Mismatches: 59, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
161 2 0.01
162 232 0.66
163 118 0.34
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (164 bp):
TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAGAAGT
TCATAATAAGAAGAACTTGTTCACCCTTTTGCTCAATTCTATCACAGAATGAGATAGATCAGCAT
CAACATTTTGATTCAAATCCATCACAGAAATAGG
Found at i:1914318 original size:160 final size:160
Alignment explanation
Indices: 1914054--1914373 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
1914044 ACACTGAGCA
1914054 GAGACACACCTCAACAAACAACTAAGAATGATAATAACATTTTCCACGATTAACCCGAGCAGTGG
1 GAGACACACCTCAACAAACAACTAAGAATGATAATAACATTTTCCACGATTAACCCGAGCAGTGG
1914119 ATCGGAACGAATCAAAACCTTTGAAATAATTTAATAATTAAAATAATAATCTAAATATCCAACAA
66 ATCGGAACGAATCAAAACCTTTGAAATAATTTAATAATTAAAATAATAATCTAAATATCCAACAA
1914184 AACCTTACGGTTAAAAATAACAACTACCAC
131 AACCTTACGGTTAAAAATAACAACTACCAC
1914214 GAGACACACCTCAACAAACAACTAAGAATGATAATAACATTTTCCACGATTAACCCGAGCAGTGG
1 GAGACACACCTCAACAAACAACTAAGAATGATAATAACATTTTCCACGATTAACCCGAGCAGTGG
1914279 ATCGGAACGAATCAAAACCTTTGAAATAATTTAATAATTAAAATAATAATCTAAATATCCAACAA
66 ATCGGAACGAATCAAAACCTTTGAAATAATTTAATAATTAAAATAATAATCTAAATATCCAACAA
1914344 AACCTTACGGTTAAAAATAACAACTACCAC
131 AACCTTACGGTTAAAAATAACAACTACCAC
1914374 TCACGGTCAA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.23
Consensus pattern (160 bp):
GAGACACACCTCAACAAACAACTAAGAATGATAATAACATTTTCCACGATTAACCCGAGCAGTGG
ATCGGAACGAATCAAAACCTTTGAAATAATTTAATAATTAAAATAATAATCTAAATATCCAACAA
AACCTTACGGTTAAAAATAACAACTACCAC
Found at i:1916424 original size:24 final size:24
Alignment explanation
Indices: 1916392--1916439 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1916382 GCATATGTCT
1916392 TGGATTATTATGTGATAGTCATAA
1 TGGATTATTATGTGATAGTCATAA
1916416 TGGATTATTATGTGATAGTCATAA
1 TGGATTATTATGTGATAGTCATAA
1916440 CATTGCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
TGGATTATTATGTGATAGTCATAA
Found at i:1918720 original size:22 final size:21
Alignment explanation
Indices: 1918670--1918722 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
1918660 GGGAGGGTAA
1918670 TATTGATACTCCTAGATTGAG
1 TATTGATACTCCTAGATTGAG
*
1918691 TATCGATACT-CTATTG-TTGAGG
1 TATTGATACTCCTA--GATTGA-G
1918713 TATTGATACT
1 TATTGATACT
1918723 GCCCTGAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (21 bp):
TATTGATACTCCTAGATTGAG
Found at i:1918904 original size:20 final size:20
Alignment explanation
Indices: 1918879--1918929 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1918869 TGACCCTTGA
1918879 GTATAGATACCCACCTTCTG
1 GTATAGATACCCACCTTCTG
1918899 GTATAGATACCCACCTTCTG
1 GTATAGATACCCACCTTCTG
*
1918919 GTATCGATACC
1 GTATAGATACC
1918930 TACTAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATAGATACCCACCTTCTG
Found at i:1925098 original size:20 final size:19
Alignment explanation
Indices: 1925056--1925100 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1925046 TGTTGGTACT
* *
1925056 GATACTAACCCTTTGTATC
1 GATACTAACCCTTAGTATA
*
1925075 GATACTGACCCTTGAGTATA
1 GATACTAACCCTT-AGTATA
1925095 GATACT
1 GATACT
1925101 CCCTTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (19 bp):
GATACTAACCCTTAGTATA
Found at i:1948315 original size:57 final size:57
Alignment explanation
Indices: 1948246--1948386 Score: 201
Period size: 58 Copynumber: 2.5 Consensus size: 57
1948236 GAGTGTATAG
* * *
1948246 AAAGTTAGGAAATTCATAATTTGTTTATGAATTTCCGTATGGTAACTTTTTGCGCAA
1 AAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGCGCAA
* * * *
1948303 AAAGTTAAGAAATTCATAATTTTTTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
1 AAAGTTAAGAAATTCATAA-TTTGTTTATGAATTTCCGTATGGGAACTTTGTGCGCAA
*
1948361 AAAGTTAAGAAATTCATAAGTTGTTT
1 AAAGTTAAGAAATTCATAATTTGTTT
1948387 TTCGGGTGCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.31
58 51 0.69
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (57 bp):
AAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGCGCAA
Found at i:1949526 original size:68 final size:68
Alignment explanation
Indices: 1948643--1949509 Score: 1189
Period size: 68 Copynumber: 12.8 Consensus size: 68
1948633 AAAGATTAAT
* * * * *
1948643 GGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTAGGCCAGATGGATTAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1948708 TGA
66 TGA
* * ** * *
1948711 GGCCTAGCTGTGCTTTTGACACAAATATATCAATTATGCCAGTTAAATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1948776 TGA
66 TGA
* *
1948779 GGCCTAGCTGCGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTATA-TGCCT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA-AGTGCCT
1948843 TTGA
65 TTGA
* * * * * * *
1948847 GGCCTATCTGTTCATTTGACATAAAGGTGTAAATTATGCTAGTTAGATGAAAGACTAAGTGCCTC
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1948912 TGA
66 TGA
* * * * * * *
1948915 GGCCTAGCTTTGCATTTAACAAAAAGGTTTCAATTATGTCAGTTA-ATTGAAAGGCCAAATGCCT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGA-TGAAAGGCTAAGTGCCT
*
1948979 TTAA
65 TTGA
* * *
1948983 GGCCTAGCTGTGCATGTCACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
1949048 TAA
66 TGA
* * *
1949051 GGCCTAGCTGTGAATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGACTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949116 TGA
66 TGA
* *
1949119 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTACGCCAGTTGGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949184 TGA
66 TGA
* *
1949187 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGACTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949252 TGA
66 TGA
* * * * *
1949255 GGCCTAGCTGTGTATTTGATAGAAAGGTGTCAGTTATTCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949320 TGA
66 TGA
* * * *
1949323 GGCCTAGTTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTG
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949388 TGA
66 TGA
* * * *
1949391 GGCCTAACTGTGCATTTGACATAAAGGTGTCAATTAAGCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1949456 TGA
66 TGA
* * * * *
1949459 TGCCTAACTCTGCACTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1949510 TGGTTAAATT
Statistics
Matches: 702, Mismatches: 93, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
67 2 0.00
68 698 0.99
69 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:1949702 original size:44 final size:44
Alignment explanation
Indices: 1949641--1949806 Score: 191
Period size: 44 Copynumber: 3.8 Consensus size: 44
1949631 TGCATAACAT
* * *
1949641 TTTATAAAAGGCATGAAAAGATACCATAAATGAAATATATAATA
1 TTTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATA
* *
1949685 TTGTATAAAA-CCATGAAAGGATGTCATAAATGAAATGTATAATA
1 TT-TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATA
*
1949729 GTTTATAAAAGGAATGAAAGGATGCCATAAATGAAATGTAT-A-A
1 -TTTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATA
* *
1949772 --TAT-AAAGGACATGAAAGGATGCTATAAAGGAAATG
1 TTTATAAAAGG-CATGAAAGGATGCCATAAATGAAATG
1949807 CATATGGGTG
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
39 5 0.05
40 26 0.24
43 1 0.01
44 39 0.36
45 36 0.34
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (44 bp):
TTTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATA
Found at i:1949834 original size:45 final size:45
Alignment explanation
Indices: 1949785--1949900 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
1949775 AAAGGACATG
*
1949785 AAAGGATGCTATAAAGGAAATGCATATGGGTGCATTATCGGCACA
1 AAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCACA
* ** * **
1949830 AAAGGATTCCATAATTGAAATGCATATGGGTGCATTATTGGCATG
1 AAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCACA
* *
1949875 AAAGAATGCCATAAATGAAAATGCAT
1 AAAGGATGCCATAAA-GGAAATGCAT
1949901 TATAAGTTGC
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
45 50 0.86
46 8 0.14
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (45 bp):
AAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCACA
Found at i:1950360 original size:2 final size:2
Alignment explanation
Indices: 1950353--1950387 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1950343 GATGTCAGAA
1950353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1950388 GCTTTTATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1953062 original size:57 final size:57
Alignment explanation
Indices: 1952970--1953215 Score: 339
Period size: 57 Copynumber: 4.3 Consensus size: 57
1952960 ACTGAGCGTA
*
1952970 CAAAAAGTTAGGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
1 CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
* * * *
1953027 CAAAAAGTTAAGAAATCCATAATTTGTTTACGAATTTCTGTATGGGTACTTTGTGTG
1 CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
** * * *
1953084 CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCAATATGGGCACTTCGGGTG
1 CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
* * ** *
1953141 TAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGAATAAGAACTTTATGTG
1 CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
*
1953198 CAAAAAAATTAAGAAATT
1 C-AAAAAGTTAAGAAATT
1953216 ATATGAATTA
Statistics
Matches: 164, Mismatches: 24, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
57 149 0.91
58 15 0.09
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (57 bp):
CAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTGTGTG
Found at i:1953518 original size:68 final size:68
Alignment explanation
Indices: 1953434--1954048 Score: 774
Period size: 68 Copynumber: 9.1 Consensus size: 68
1953424 ATTTGATGAA
* * * *** * * * * *
1953434 TTAGATGAAATGCTAAGTGGCTTTAAGGCCTCTTTATGCATTTTACATAAAGGTCTCAATTATGT
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953499 CAG
66 CAG
* *
1953502 TTAGATGAAAGGCTAAGTGCCTTTGAGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953567 CAG
66 CAG
* * * * *
1953570 TTAGGTGGAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGATAG--A--TATCTATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953631 CAG
66 CAG
*
1953634 TTAGATTAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953699 CAG
66 CAG
* * * * * ** *
1953702 CTAGATGAAAGGTTAAGTGACTTTAAGGCCTAGCTGTGCATTTGACATAAATATGTCAATTATGA
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953767 CAG
66 CAG
* * * * *
1953770 TTAGATGAAAAGCTAAATGCCTTTGAGGCCTAGTTGTGCATTTGATAGAAAGGTGCCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
*
1953835 CAA
66 CAG
* * * * *
1953838 TTAGATGAAAGGCTAAGTGCCTTTGAGACCTAGCTGTGCATTTGATATAAAGATCTCAATTATAG
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTAT-G
1953903 -CAG
65 CCAG
* * *
1953906 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCCGTGCATTTGATAGAAAGGTATCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
1953971 CAG
66 CAG
* * *
1953974 TTAGATGAAAGGCTAAGTGCCTTTGAGGGCTAACTGTGCATTTGACAAAAAGGTGTCAATTATG-
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
*
1954038 AAG
66 CAG
1954041 TTAGATGA
1 TTAGATGA
1954049 CAAGTTAAAT
Statistics
Matches: 473, Mismatches: 68, Indels: 13
0.85 0.12 0.02
Matches are distributed among these distances:
64 57 0.12
66 2 0.00
67 11 0.02
68 402 0.85
69 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (68 bp):
TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGC
CAG
Found at i:1954147 original size:81 final size:80
Alignment explanation
Indices: 1954008--1954158 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
1953998 GAGGGCTAAC
* * *
1954008 TGTGCATTTGACAAAAAGGTGTCAATTATGAAGTTAGATGACAAGTTAAATACCTTTGAGTAAAC
1 TGTGAATTTGACAAAAAGGTGTCAATCATGAAGTTAGATGACAAGTTAAATACCTTTGAGTAAAA
1954073 GATTAATGGCCTAGT
66 GATTAATGGCCTAGT
* * ** * *
1954088 TGTGAATTTGTCAAAAATGTGTCAATCATGCTTGTTAGATTA-AAGGTTAAATTCCTTTGAGTAA
1 TGTGAATTTGACAAAAAGGTGTCAATCATG-AAGTTAGATGACAA-GTTAAATACCTTTGAGTAA
1954152 AAGATTA
64 AAGATTA
1954159 GATGCATAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
80 28 0.47
81 32 0.53
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (80 bp):
TGTGAATTTGACAAAAAGGTGTCAATCATGAAGTTAGATGACAAGTTAAATACCTTTGAGTAAAA
GATTAATGGCCTAGT
Found at i:1954175 original size:10 final size:10
Alignment explanation
Indices: 1954160--1954194 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1954150 AAAAGATTAG
1954160 ATGCATAACA
1 ATGCATAACA
1954170 ATGCATAACA
1 ATGCATAACA
*
1954180 ATGTATAA-A
1 ATGCATAACA
1954189 ATGCAT
1 ATGCAT
1954195 GAAAGGATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (10 bp):
ATGCATAACA
Found at i:1954232 original size:45 final size:44
Alignment explanation
Indices: 1954181--1954307 Score: 200
Period size: 45 Copynumber: 2.8 Consensus size: 44
1954171 TGCATAACAA
1954181 TGTATAAAATGCATGAAAGGATGTCATAAATGAAATGTATAATAG
1 TGTATAAAA-GCATGAAAGGATGTCATAAATGAAATGTATAATAG
* *
1954226 TGTATAAAAGGCATGAAAGGATGCCATACATGAAATGTATAATAG
1 TGTATAAAA-GCATGAAAGGATGTCATAAATGAAATGTATAATAG
*
1954271 TGTATAAAAGACATGAAAGGATGTCATAAAGGAAATG
1 TGTATAAAAG-CATGAAAGGATGTCATAAATGAAATG
1954308 CATATGGGTG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 74 0.99
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.25
Consensus pattern (44 bp):
TGTATAAAAGCATGAAAGGATGTCATAAATGAAATGTATAATAG
Found at i:1954331 original size:45 final size:44
Alignment explanation
Indices: 1954191--1954415 Score: 155
Period size: 45 Copynumber: 5.0 Consensus size: 44
1954181 TGTATAAAAT
* * * * * * **
1954191 GCATGAAAGGATGTCATAAATGAAATGTATAATAGTGTATAAAAG
1 GCATGAAAGGATGCCATAAAGGAAATGCAT-ATGGTGCATTATCG
* * * * * * **
1954236 GCATGAAAGGATGCCATACATGAAATGTATAATAGTGTATAAAAG
1 GCATGAAAGGATGCCATAAAGGAAATGCAT-ATGGTGCATTATCG
* *
1954281 ACATGAAAGGATGTCATAAAGGAAATGCATATGGGTGCATTATCG
1 GCATGAAAGGATGCCATAAAGGAAATGCATAT-GGTGCATTATCG
** *
1954326 GCATGAAAGGATGCCATAATTGAAACT-CATATAGGTGCATTATTG
1 GCATGAAAGGATGCCATAAAGGAAA-TGCATAT-GGTGCATTATCG
** *
1954371 GCATGAAAAAATGCCATAAATGAAAAATGCATAATGGTGCATTAT
1 GCATGAAAGGATGCCATAAA-G-GAAATGCAT-ATGGTGCATTAT
1954416 AAGTACGAAG
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
44 2 0.01
45 129 0.85
46 2 0.01
47 16 0.11
48 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (44 bp):
GCATGAAAGGATGCCATAAAGGAAATGCATATGGTGCATTATCG
Found at i:1954376 original size:90 final size:90
Alignment explanation
Indices: 1954169--1954416 Score: 225
Period size: 90 Copynumber: 2.7 Consensus size: 90
1954159 GATGCATAAC
* * * * * * * * * *
1954169 AATGCATAACAATGTATAAAATGCATGAAAGGATGTCATAAATGAAATGTATAATAGTGTATAAA
1 AATGCATAATAGTGCATAAAAGGCATGAAAGGATGTCATAAAGGAAATGCATAATGGTGCATTAT
1954234 AGGCATGAAAGGATGCCATACATGA
66 AGGCATGAAAGGATGCCATACATGA
* * *
1954259 AATGTATAATAGTGTATAAAAGACATGAAAGGATGTCATAAAGGAAATGCAT-ATGGGTGCATTA
1 AATGCATAATAGTGCATAAAAGGCATGAAAGGATGTCATAAAGGAAATGCATAAT-GGTGCATTA
*
1954323 TCGGCATGAAAGGATGCCATA-ATTGA
65 TAGGCATGAAAGGATGCCATACA-TGA
* ** ** * *
1954349 AACT-CAT-ATAGGTGCATTATTGGCATGAAAAAATGCCATAAATGAAAAATGCATAATGGTGCA
1 AA-TGCATAATA-GTGCATAAAAGGCATGAAAGGATGTCATAAA-G-GAAATGCATAATGGTGCA
1954412 TTATA
62 TTATA
1954417 AGTACGAAGT
Statistics
Matches: 128, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
89 6 0.05
90 100 0.78
91 2 0.02
92 18 0.14
93 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (90 bp):
AATGCATAATAGTGCATAAAAGGCATGAAAGGATGTCATAAAGGAAATGCATAATGGTGCATTAT
AGGCATGAAAGGATGCCATACATGA
Found at i:1958807 original size:57 final size:57
Alignment explanation
Indices: 1958735--1958866 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 57
1958725 ACTGAGTCTA
* * ** ** *
1958735 CAAAAAGTTAGGAAATTCATAATTTGTTTATGAATTTCTGTATGGGCACTTTAAGTG
1 CAAAAAATTAAGAAATTCATAATTTGTTTATGAATTTCCATATAAGAACTTTAAGTG
* *
1958792 CAAAAAATTAAGAAATCCATAATTTGTTTATGAATTTCCATATAAGAACTTTATGTG
1 CAAAAAATTAAGAAATTCATAATTTGTTTATGAATTTCCATATAAGAACTTTAAGTG
1958849 CAAAAAAATTAAGAAATT
1 C-AAAAAATTAAGAAATT
1958867 ATATGATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
57 49 0.77
58 15 0.23
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (57 bp):
CAAAAAATTAAGAAATTCATAATTTGTTTATGAATTTCCATATAAGAACTTTAAGTG
Found at i:1959723 original size:68 final size:68
Alignment explanation
Indices: 1959085--1959706 Score: 800
Period size: 68 Copynumber: 9.1 Consensus size: 68
1959075 ATTTCATGAA
* * * * * * * *
1959085 TTAGATGAAAGGGTAAGTGGCTTTGAGGTCTAGTTGTGCATTTAACATAAATGTCTCAATTAT-T
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
*
1959149 CCAA
66 -CAG
* *
1959153 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACATAAAGGTGTTAATTAT-T
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959217 CTAG
66 C-AG
* * *
1959221 TTAGATGTAAGGCTAAGTACCTTTGAGGCCTAGATGTGCATTTGACAGAAAGGTGTCAATTATGT
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959286 CAG
66 CAG
**
1959289 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAATATGTCAATTAT-T
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959353 CCAG
66 -CAG
* * * * * *
1959357 TTAGATGAAAGGTTAAGGGACTTTGAGGCTTAGCTGTGCATTTGACAGAAAGATGTCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959422 CAG
66 CAG
** * * *
1959425 TTAGATGAAAGATTAAATGCCTTTGAGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959490 CAG
66 CAG
* * * * * * * * *
1959493 TAAGATGAAAAGCTAAGTTCCTTTGAGACCTAGCTGTGCATTTCAGATAAAGGTGCCAATTATGG
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
*
1959558 CTG
66 CAG
* * * * * *
1959561 TTAGAGGAAAGGCTAAGTGTCTTTGAGGCCTAGCTATGCATTTGACAGAAATGTATCAATTATGC
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959626 CAG
66 CAG
*
1959629 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGT
1 TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
1959694 CAG
66 CAG
1959697 TTAGATGAAA
1 TTAGATGAAA
1959707 AGTTAAATAC
Statistics
Matches: 482, Mismatches: 68, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
67 2 0.00
68 478 0.99
69 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (68 bp):
TTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGT
CAG
Found at i:1959886 original size:45 final size:44
Alignment explanation
Indices: 1959825--1959963 Score: 197
Period size: 45 Copynumber: 3.1 Consensus size: 44
1959815 GATGTATAAC
* * *
1959825 AATGCATAACATTGTATAAAATGCATGAAAGGATGTCATAAATGA
1 AATGTATAATATTGTATAAAA-GCATGAAAGGATGCCATAAATGA
*
1959870 AATGTATAATATTGTATAAAAGGCATGAAAGGACGCCATAAATGA
1 AATGTATAATATTGTATAAAA-GCATGAAAGGATGCCATAAATGA
* *
1959915 AATGTATAATAGTGTATAAAAGACATGAAAGGATGCCATAAAGGA
1 AATGTATAATATTGTATAAAAG-CATGAAAGGATGCCATAAATGA
1959960 AATG
1 AATG
1959964 CATATGGGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 84 0.99
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.24
Consensus pattern (44 bp):
AATGTATAATATTGTATAAAAGCATGAAAGGATGCCATAAATGA
Found at i:1959990 original size:45 final size:45
Alignment explanation
Indices: 1959941--1960070 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
1959931 TAAAAGACAT
1959941 GAAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCAC
1 GAAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCAC
** * * * *
1959986 GAAAGGATGCCATAATTGAAACGCATATGGCTGCATTATTGGCAT
1 GAAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCAC
** *
1960031 GAAATAATGCCATAAATGAAAATGCATAAT-GGTGCATTAT
1 GAAAGGATGCCATAAA-GGAAATGCAT-ATGGGTGCATTAT
1960071 AAATATGAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
45 52 0.74
46 16 0.23
47 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (45 bp):
GAAAGGATGCCATAAAGGAAATGCATATGGGTGCATTATCGGCAC
Found at i:1961104 original size:34 final size:34
Alignment explanation
Indices: 1961061--1961128 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1961051 TGCTATTAAA
1961061 GGTTACAAAATTGTCACTTAATTATTCATTTGTT
1 GGTTACAAAATTGTCACTTAATTATTCATTTGTT
1961095 GGTTACAAAATTGTCACTTAATTATTCATTTGTT
1 GGTTACAAAATTGTCACTTAATTATTCATTTGTT
1961129 TCAAACTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (34 bp):
GGTTACAAAATTGTCACTTAATTATTCATTTGTT
Found at i:1961305 original size:28 final size:28
Alignment explanation
Indices: 1961256--1961312 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
1961246 CTCTCCATTT
*
1961256 ACATTATGTCATTGAACTAGTGTTTGAA
1 ACATTATGTCATTGAACTAGTGCTTGAA
* *
1961284 ACATTATGTCGTTG-ATTCAGTGCTTGAA
1 ACATTATGTCATTGAACT-AGTGCTTGAA
1961312 A
1 A
1961313 GCAACGACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (28 bp):
ACATTATGTCATTGAACTAGTGCTTGAA
Found at i:1962552 original size:20 final size:20
Alignment explanation
Indices: 1962523--1962560 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1962513 TTTCAAAGGA
1962523 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1962543 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1962561 GAATAAATTG
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:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1962730 original size:64 final size:65
Alignment explanation
Indices: 1962571--1962730 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 65
1962561 GAATAAATTG
* * *
1962571 AACATCGAATGCATTTTATGCATCAATGCACATACCATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTAT-AA
1962636 A
65 A
* *
1962637 AACATCGAATGCATTTGATGCATCGATGCACA-AGTCATGCATCGATGCACTCAGGCTATTT-T-
1 AACATCGAATGCATTTCATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGCT-TTTATA
*
1962699 GA
64 AA
*
1962701 AACATCGAATGCACTTCATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
1962731 ATCTTAGTGC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
64 29 0.34
65 1 0.01
66 52 0.61
67 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATAAA
Found at i:1962747 original size:64 final size:65
Alignment explanation
Indices: 1962571--1962751 Score: 208
Period size: 66 Copynumber: 2.8 Consensus size: 65
1962561 GAATAAATTG
* * *
1962571 AACATCGAATGCATTTTATGCATCAATGCACATAC-CATGCATCGATGCACTCAGGGTTTTATAA
1 AACATCGAATGCATTTCATGCATCGATGCACAT-CTCATGCATCGATGCACTCAGGCTTTTAT-A
1962635 AA
64 AA
* ** *
1962637 AACATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATGCACTCAGGCTATTT-T-G
1 AACATCGAATGCATTTCATGCATCGATGCACATCTCATGCATCGATGCACTCAGGCT-TTTATAA
1962700 A
65 A
* * *
1962701 AACATCGAATGCACTTCATGCATCGATGCA-ATCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACATCTCA-TGCATCGATGCACT
1962752 ATGGGTCCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
63 3 0.03
64 42 0.42
66 52 0.52
67 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACATCTCATGCATCGATGCACTCAGGCTTTTATAAA
Found at i:1968293 original size:90 final size:90
Alignment explanation
Indices: 1968109--1968285 Score: 311
Period size: 90 Copynumber: 2.0 Consensus size: 90
1968099 TAATCCTGAA
* *
1968109 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
*
1968174 TAGGGTAACTTGGATATAATAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
1968199 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAT-CCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
*
1968263 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
1968286 GTGTATTAGG
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 32 0.39
90 51 0.61
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:1976442 original size:21 final size:21
Alignment explanation
Indices: 1976416--1976479 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 21
1976406 TTGTGCATAA
1976416 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
1976437 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
*
1976461 TGCATCGATACATTATGAA
1 TGCATCGATACACTATGAA
1976480 GATGCACCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 15 0.44
22 1 0.03
23 1 0.03
24 17 0.50
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:1976485 original size:21 final size:21
Alignment explanation
Indices: 1976415--1976490 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
1976405 TTTGTGCATA
*
1976415 ATGCATCGATACACTATGAA-
1 ATGCATCGATACATTATGAAG
* *
1976435 AGTGCATCGATGCATCCCTTTGAATG
1 A-TGCATCGATACAT---TATGAA-G
1976461 -TGCATCGATACATTATGAAG
1 ATGCATCGATACATTATGAAG
*
1976481 ATGCACCGAT
1 ATGCATCGAT
1976491 GCACGCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.05
21 24 0.56
24 17 0.40
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (21 bp):
ATGCATCGATACATTATGAAG
Found at i:1976491 original size:45 final size:44
Alignment explanation
Indices: 1976416--1976513 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 44
1976406 TTGTGCATAA
*
1976416 TGCATCGATACACTATGAAAGTGCATCGATGCATC-CCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCA-CGCC-TTGAATG
*
1976461 TGCATCGATACATTATG-AAGATGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACTATGAAAG-TGCACCGATGCACGCCTTGAATG
1976505 TGCATCGAT
1 TGCATCGAT
1976514 GCACAAGGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
44 20 0.41
45 29 0.59
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:1978394 original size:14 final size:14
Alignment explanation
Indices: 1978375--1978414 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
1978365 AACAAAAAGG
1978375 GGGAGAAAGTGTAA
1 GGGAGAAAGTGTAA
1978389 GGGAGAAAGTGTAA
1 GGGAGAAAGTGTAA
1978403 GGGAGAAAGTGT
1 GGGAGAAAGTGT
1978415 TAAAGTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.15
Consensus pattern (14 bp):
GGGAGAAAGTGTAA
Found at i:1978895 original size:45 final size:46
Alignment explanation
Indices: 1978797--1978904 Score: 130
Period size: 45 Copynumber: 2.3 Consensus size: 46
1978787 ATGCACATAC
* * *
1978797 CATGCATCGATGCACTCAGAGTTTTATGAAAAACATCGAATGCATTT
1 CATGCATCGATGCACTAAGACTTTTATG-AAAACATCGAATGCACTT
**
1978844 GTTGCATCGATGCACTAAGACTATTT-TG-AAACATCGAATGCACTT
1 CATGCATCGATGCACTAAGACT-TTTATGAAAACATCGAATGCACTT
*
1978889 CATGCATCGGTGCACT
1 CATGCATCGATGCACT
1978905 CTTAGTGCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 29 0.56
47 20 0.38
48 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTAAGACTTTTATGAAAACATCGAATGCACTT
Found at i:1979948 original size:23 final size:23
Alignment explanation
Indices: 1979922--1979968 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1979912 AACCATAAGC
*
1979922 TACCAAAAAGGCAGAGAAAAACG
1 TACCAAAAAGACAGAGAAAAACG
* * *
1979945 TACCACAAAGACAGTGATAAACG
1 TACCAAAAAGACAGAGAAAAACG
1979968 T
1 T
1979969 GTCATAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.11
Consensus pattern (23 bp):
TACCAAAAAGACAGAGAAAAACG
Found at i:1980165 original size:10 final size:10
Alignment explanation
Indices: 1980148--1980187 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
1980138 AGAAGTTGTA
1980148 AAAAAGAGGG
1 AAAAAGAGGG
* *
1980158 AGAAAGAGAGA
1 AAAAAGAG-GG
1980169 AAAAAGAGGG
1 AAAAAGAGGG
1980179 AAAAAGAGG
1 AAAAAGAGG
1980188 TTAAAGCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AAAAAGAGGG
Found at i:1980173 original size:21 final size:21
Alignment explanation
Indices: 1980147--1980186 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1980137 CAGAAGTTGT
*
1980147 AAAAAAGAGGGAGAAAGAGAG
1 AAAAAAGAGGGAAAAAGAGAG
1980168 AAAAAAGAGGGAAAAAGAG
1 AAAAAAGAGGGAAAAAGAG
1980187 GTTAAAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
AAAAAAGAGGGAAAAAGAGAG
Found at i:1984944 original size:35 final size:36
Alignment explanation
Indices: 1984879--1984951 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
1984869 GCACCTGGTG
* * *
1984879 ATTATAGTGACACTGGGTGTTATTATTGTGATTGTA
1 ATTATAGTGACACCGGGTGTTATCACTGTGATTGTA
1984915 ATTATAGTGACACCGGG-GTTATCACTGTGATTGTA
1 ATTATAGTGACACCGGGTGTTATCACTGTGATTGTA
1984950 AT
1 AT
1984952 GATTTTGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.40
Consensus pattern (36 bp):
ATTATAGTGACACCGGGTGTTATCACTGTGATTGTA
Found at i:1987367 original size:20 final size:20
Alignment explanation
Indices: 1987344--1987411 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
1987334 GTTTCCAATT
1987344 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
** * *
1987364 TCGCATTGC-AAT-TTTCCAATT
1 TCGCAACGCGAATCTGT--AA-A
1987385 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
1987405 TCGCAAC
1 TCGCAAC
1987412 ACATAAGTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 16 0.46
21 9 0.26
22 3 0.09
23 2 0.06
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:1987428 original size:20 final size:19
Alignment explanation
Indices: 1987405--1987653 Score: 180
Period size: 20 Copynumber: 12.5 Consensus size: 19
1987395 AATCTGTAAA
*
1987405 TCGCAACACATAAGTCAAAT
1 TCGCAACGCAT-AGTCAAAT
1987425 TCGCAACGCGATAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
* *
1987445 TCGCAACACAAAAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
*
1987465 TCTCAACGCGATAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
*
1987485 TCGCAACACGATAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
* *
1987505 TCGCAACTCAAATTTGT-AAA-
1 TCGCAACGC--A-TAGTCAAAT
** * *
1987525 TCGCAATACAAAAGTCACAT
1 TCGCAACGC-ATAGTCAAAT
*
1987545 TCACAACGCGATAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
*
1987565 TCGCAACGTGATAGTCAAAT
1 TCGCAACG-CATAGTCAAAT
*
1987585 TCGCAACGTGATAGTCAAAT
1 TCGCAACG-CATAGTCAAAT
** *
1987605 TCGCATTGCGAAAGTCAAAT
1 TCGCAACGC-ATAGTCAAAT
*
1987625 TCGCAACGTGGA-AGTCAAAT
1 TCGCAAC--GCATAGTCAAAT
1987645 TCGCAACGC
1 TCGCAACGC
1987654 GAAACACAAT
Statistics
Matches: 186, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
18 3 0.02
19 4 0.02
20 168 0.90
21 7 0.04
22 4 0.02
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (19 bp):
TCGCAACGCATAGTCAAAT
Found at i:1987482 original size:60 final size:60
Alignment explanation
Indices: 1987417--1987655 Score: 257
Period size: 60 Copynumber: 4.0 Consensus size: 60
1987407 GCAACACATA
* *
1987417 AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCTCAACGCGAT
1 AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAACGCGAT
* * * ** * *
1987477 AGTCAAATTCGCAACACGATAGTCAAATTCGCAACTCAAATTTGT-AAA-TCGCAATACAAA
1 AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAAA--AGTCAAATTCGCAACGCGAT
* * ** * *
1987537 AGTCACATTCACAACGCGATAGTCAAATTCGCAACGTGATAGTCAAATTCGCAACGTGAT
1 AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAACGCGAT
** * ***
1987597 AGTCAAATTCGCATTGCGAAAGTCAAATTCGCAACGTGGAAGTCAAATTCGCAACGCGA
1 AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAACGCGA
1987656 AACACAATAT
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
58 2 0.01
59 3 0.02
60 136 0.93
61 3 0.02
62 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (60 bp):
AGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCAAAAGTCAAATTCGCAACGCGAT
Found at i:1987656 original size:40 final size:40
Alignment explanation
Indices: 1987384--1987657 Score: 272
Period size: 40 Copynumber: 6.8 Consensus size: 40
1987374 ATTTTCCAAT
*
1987384 TTCGCAACGCGAATCTGT-AAA-TCGCAACAC-ATAAGTCAAA
1 TTCGCAACGCG-AT-AGTCAAATTCGCAACACGA-AAGTCAAA
*
1987424 TTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAA
* *
1987464 TTCTCAACGCGATAGTCAAATTCGCAACACGATAGTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAA
* * * * * *
1987504 TTCGCAACTCAAATTTGT-AAA-TCGCAATACAAAAGTCACA
1 TTCGCAACGC-GA-TAGTCAAATTCGCAACACGAAAGTCAAA
* ** *
1987544 TTCACAACGCGATAGTCAAATTCGCAACGTGATAGTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAA
* ***
1987584 TTCGCAACGTGATAGTCAAATTCGCATTGCGAAAGTCAAA
1 TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAA
* *
1987624 TTCGCAACGTGGA-AGTCAAATTCGCAACGCGAAA
1 TTCGCAACG-CGATAGTCAAATTCGCAACACGAAA
1987658 CACAATATTA
Statistics
Matches: 195, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
38 5 0.03
39 9 0.05
40 171 0.88
41 7 0.04
42 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (40 bp):
TTCGCAACGCGATAGTCAAATTCGCAACACGAAAGTCAAA
Found at i:1987792 original size:22 final size:22
Alignment explanation
Indices: 1987767--1987817 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1987757 CTACGGCGAC
*
1987767 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATATCCGACGAA
*
1987789 ATCCGTCCCCATATCCGGCGAA
1 ATCCGTCCCCATATCCGACGAA
1987811 ATCCGTC
1 ATCCGTC
1987818 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATATCCGACGAA
Found at i:1988221 original size:20 final size:20
Alignment explanation
Indices: 1988196--1988248 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1988186 GTGATTTTAG
1988196 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
1988216 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
1988236 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
1988249 ATTTAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:1988259 original size:20 final size:20
Alignment explanation
Indices: 1988189--1988259 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1988179 TCGCAACGTG
*
1988189 ATTTTAGTTTCGCGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
* *
1988209 TTTTCATTTTCGCGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
* * *
1988229 TTTTCATTTTCGTGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
*
1988249 ATTTAAGTTTC
1 ATTTCAGTTTC
1988260 AGAAACTACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTCAGTTTCGCGTTGCGA
Found at i:1990426 original size:21 final size:21
Alignment explanation
Indices: 1990400--1990448 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1990390 GAAGCTCGAT
1990400 GCACCT-ATAATCATTCAAGAG
1 GCACCTCAT-ATCATTCAAGAG
*
1990421 GCACCTCCTATCATTCAAGAG
1 GCACCTCATATCATTCAAGAG
*
1990442 GCCCCTC
1 GCACCTC
1990449 TCATCATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (21 bp):
GCACCTCATATCATTCAAGAG
Found at i:1990454 original size:21 final size:21
Alignment explanation
Indices: 1990409--1990505 Score: 92
Period size: 21 Copynumber: 4.6 Consensus size: 21
1990399 TGCACCTATA
*
1990409 ATCATTCAAGAGGCACCTC-C
1 ATCATTCAAGAGGCCCCTCTC
1990429 TATCATTCAAGAGGCCCCTCTC
1 -ATCATTCAAGAGGCCCCTCTC
* *
1990451 ATCA-TCGAAGAAGCCCCTCCC
1 ATCATTC-AAGAGGCCCCTCTC
* *
1990472 A-CTGTTCAAGAGGCCCCTGTC
1 ATC-ATTCAAGAGGCCCCTCTC
*
1990493 ATCGTTCAAGAGG
1 ATCATTCAAGAGG
1990506 TATCGCCTGC
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.05
21 57 0.89
22 4 0.06
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTCTC
Found at i:1991343 original size:29 final size:30
Alignment explanation
Indices: 1991265--1991346 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 30
1991255 ACAGAGGCTG
* *
1991265 ACGCGAAAGGTAAATTCGCAATGCGAAATA
1 ACGCGAAAGTTAAATTCGCAACGCGAAATA
* *
1991295 AGCGTTGCGATAGTCAAATTCGCAACGCG-AATA
1 A-C---GCGAAAGTTAAATTCGCAACGCGAAATA
1991328 ACGCGAAAGTTAAATTCGC
1 ACGCGAAAGTTAAATTCGC
1991347 GTTGCGATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
29 15 0.36
30 1 0.02
31 1 0.02
32 1 0.02
33 5 0.12
34 19 0.45
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (30 bp):
ACGCGAAAGTTAAATTCGCAACGCGAAATA
Found at i:1991624 original size:15 final size:15
Alignment explanation
Indices: 1991604--1991641 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1991594 GTATGCATTC
1991604 ACACATAAAATAAAT
1 ACACATAAAATAAAT
1991619 ACACATAAAATAAAT
1 ACACATAAAATAAAT
1991634 ACACATAA
1 ACACATAA
1991642 TACAACGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (15 bp):
ACACATAAAATAAAT
Done.