Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold117
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: 3231771
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 68836 characters in sequence are not A, C, G, or T
File 11 of 18
Found at i:1809664 original size:188 final size:187
Alignment explanation
Indices: 1809262--1809722 Score: 493
Period size: 188 Copynumber: 2.4 Consensus size: 187
1809252 GACCCTATAT
* * * *
1809262 GAAATAAATCGACTCTTTAAGTTAAAAATATCATTTTTAATCATATACACATTCTAGTTAAAGTC
1 GAAA-AAATCGACT-TTTAGGTAAAAAATATCATTTTTAATTATATATACATT-TAGTTAAAGTC
* * * * * * * *
1809327 ATATATACATTTAGTTACAGTCAAATCTATATTCAATTATAGTCACATATATATATTTAATTTTG
63 ATATAT-CACTCAGTTATAGTCAAATCTACATTCAATTATAAT-ACATATATAAATTCAATTTTA
* * * * * *
1809392 TTCGAGTGAACTAACCCTTCTTGAAAAAAACTGATTTTTTAAGCTAAAAAAACACAATTTAA
126 TTCAAATGAACTAACCCTTCATGAAAAAAACTGATTTCTTAAACTAAAAAAACACAAATTAA
*
1809454 GAAAAATATCGACTTTTTAGGTAAAAAACATCATTTTTAATTATATATACATTTAGTTAAAGTCA
1 GAAAAA-ATCGAC-TTTTAGGTAAAAAATATCATTTTTAATTATATATACATTTAGTTAAAGTCA
* * * * *
1809519 TACATGCACTCAGTTATATTCATATGTACATGT-AATTATAAT-CATATGTAAATTCAA-TTTAT
64 TATAT-CACTCAGTTATAGTCAAATCTACAT-TCAATTATAATACATATATAAATTCAATTTTAT
* * * *
1809581 TCAAATGAATTAACCTTTCATG-AAAAAATTGATTTCTTAAAC-AAAAAAATTACAAATTAA
127 TCAAATGAACTAACCCTTCATGAAAAAAACTGATTTCTTAAACTAAAAAAA-CACAAATTAA
* *
1809641 GAAAGAGAATCGACTTATTAGGTAAAAAATATCATTTTTAATTATATATACATTTAATTAAAATC
1 GAAA-A-AATCGACTT-TTAGGTAAAAAATATCATTTTTAATTATATATACATTTAGTTAAAGTC
1809706 ATATAT-ACTCAGTTATA
63 ATATATCACTCAGTTATA
1809723 ATTATATTCA
Statistics
Matches: 229, Mismatches: 33, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
186 18 0.08
187 31 0.14
188 78 0.34
189 13 0.06
191 44 0.19
192 44 0.19
193 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (187 bp):
GAAAAAATCGACTTTTAGGTAAAAAATATCATTTTTAATTATATATACATTTAGTTAAAGTCATA
TATCACTCAGTTATAGTCAAATCTACATTCAATTATAATACATATATAAATTCAATTTTATTCAA
ATGAACTAACCCTTCATGAAAAAAACTGATTTCTTAAACTAAAAAAACACAAATTAA
Found at i:1809883 original size:22 final size:22
Alignment explanation
Indices: 1809853--1809905 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1809843 TTTTAATTAT
*
1809853 TATACATATTTAATTAAAATCA
1 TATATATATTTAATTAAAATCA
* * * *
1809875 TATGTATATTTGATTATAATTA
1 TATATATATTTAATTAAAATCA
1809897 TATATATAT
1 TATATATAT
1809906 ATATTCAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TATATATATTTAATTAAAATCA
Found at i:1810113 original size:45 final size:44
Alignment explanation
Indices: 1810073--1810170 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
1810063 AAATATTTTT
* * *
1810073 TAGTTTTTATTATTTCTATATAATAATTTAAAATTTAATATAAAA
1 TAGTTTTTATTATTTCTAAATAATAA-TTAAAATTAAATATTAAA
* * *
1810118 TATTTTTTATTATTTTTAAATAATAATTAATATTAAATATTAAA
1 TAGTTTTTATTATTTCTAAATAATAATTAAAATTAAATATTAAA
1810162 TTA-TTTTTA
1 -TAGTTTTTA
1810171 ATTTTTATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 21 0.46
45 25 0.54
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (44 bp):
TAGTTTTTATTATTTCTAAATAATAATTAAAATTAAATATTAAA
Found at i:1810686 original size:9 final size:9
Alignment explanation
Indices: 1810672--1810704 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1810662 TTTCTCTCTT
*
1810672 TCTGCTATC
1 TCTGCTGTC
1810681 TCTGCTGTC
1 TCTGCTGTC
1810690 TCTGCTGTC
1 TCTGCTGTC
1810699 TCTGCT
1 TCTGCT
1810705 TGAGCCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.33, G:0.18, T:0.45
Consensus pattern (9 bp):
TCTGCTGTC
Found at i:1810816 original size:13 final size:12
Alignment explanation
Indices: 1810767--1810817 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
1810757 ACCTTCACTG
1810767 TTTCAAATTGAA
1 TTTCAAATTGAA
*
1810779 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
1810794 TTTCAAATTGAA
1 TTTCAAATTGAA
1810806 TTTCAAAATTGA
1 TTTC-AAATTGA
1810818 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:1815467 original size:9 final size:9
Alignment explanation
Indices: 1815453--1815485 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1815443 TTTCTCTCTT
*
1815453 TCTGCTATC
1 TCTGCTGTC
1815462 TCTGCTGTC
1 TCTGCTGTC
1815471 TCTGCTGTC
1 TCTGCTGTC
1815480 TCTGCT
1 TCTGCT
1815486 TGAGCCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.33, G:0.18, T:0.45
Consensus pattern (9 bp):
TCTGCTGTC
Found at i:1815597 original size:13 final size:12
Alignment explanation
Indices: 1815548--1815593 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
1815538 ACCTTCACTG
1815548 TTTCAAATTGAA
1 TTTCAAATTGAA
*
1815560 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
1815575 TTTCAAATTGAA
1 TTTCAAATTGAA
1815587 TTTCAAA
1 TTTCAAA
1815594 ATTGGCTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 14 0.48
13 4 0.14
14 4 0.14
15 7 0.24
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:1816574 original size:2 final size:2
Alignment explanation
Indices: 1816567--1816600 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1816557 TTAAAAGCAC
1816567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1816601 GATTTCAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1817084 original size:2 final size:2
Alignment explanation
Indices: 1817077--1817103 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1817067 TCTTCAAAGA
1817077 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 A
1817104 CATTTCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1818325 original size:27 final size:27
Alignment explanation
Indices: 1818295--1818374 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
1818285 AATAAAAATT
**
1818295 AACCACTAAATTTGACAAACACAAAGG
1 AACCACTATTTTTGACAAACACAAAGG
*
1818322 AACCACTATTTTTGACAAACACAAAAG
1 AACCACTATTTTTGACAAACACAAAGG
*
1818349 AAACACTATTTTTGACAAACACAAAG
1 AACCACTATTTTTGACAAACACAAAG
1818375 AGTGGCTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.20
Consensus pattern (27 bp):
AACCACTATTTTTGACAAACACAAAGG
Found at i:1822794 original size:27 final size:27
Alignment explanation
Indices: 1822762--1822840 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
1822752 AAATAACAAG
*
1822762 CCACCATTTTTGACAAACATAAAAGAA
1 CCACCATTTTTGACAAACACAAAAGAA
* *
1822789 CTACCATTTTTTACAAACACAAAAGAA
1 CCACCATTTTTGACAAACACAAAAGAA
1822816 CCACCATTTTTGACAAACACAAAAG
1 CCACCATTTTTGACAAACACAAAAG
1822841 GTGGCTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACACAAAAGAA
Found at i:1823002 original size:12 final size:14
Alignment explanation
Indices: 1822971--1823000 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1822961 AAAATTAATT
*
1822971 ATATAAATATATAA
1 ATATCAATATATAA
1822985 ATATCAATATATAA
1 ATATCAATATATAA
1822999 AT
1 AT
1823001 CATTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATCAATATATAA
Found at i:1823271 original size:20 final size:21
Alignment explanation
Indices: 1823236--1823280 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1823226 CCCTTTTCAT
*
1823236 ATTAATATTTAGATATTTTTA
1 ATTAATATTTAAATATTTTTA
*
1823257 ATTAA-ATTTAAATATTTTTT
1 ATTAATATTTAAATATTTTTA
1823277 ATTA
1 ATTA
1823281 TTAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAATATTTAAATATTTTTA
Found at i:1824288 original size:23 final size:23
Alignment explanation
Indices: 1824266--1824308 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1824256 CATATTTATA
1824266 ATTAAAT-TTTAAATAATAATAT
1 ATTAAATATTTAAATAATAATAT
* *
1824288 ATTAATTATTTAAATACTAAT
1 ATTAAATATTTAAATAATAAT
1824309 CGAATTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAAATATTTAAATAATAATAT
Found at i:1825296 original size:21 final size:22
Alignment explanation
Indices: 1825267--1825312 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1825257 TGTCCAGACA
* *
1825267 AGTAGTACTCCACAATAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1825289 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1825310 AGT
1 AGT
1825313 TTCAACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1826787 original size:13 final size:13
Alignment explanation
Indices: 1826769--1826826 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1826759 TTCAATGATT
1826769 TGTATCGATACAA
1 TGTATCGATACAA
1826782 TGTATCGATACAAAA
1 TGTATCGATAC--AA
1826797 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
1826814 TGTATCGATACAA
1 TGTATCGATACAA
1826827 AAGTTTTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1826806 original size:19 final size:19
Alignment explanation
Indices: 1826782--1826845 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
1826772 ATCGATACAA
1826782 TGTATCGATACAAAAGTTT
1 TGTATCGATACAAAAGTTT
1826801 TGTATCGATAC--AA----
1 TGTATCGATACAAAAGTTT
1826814 TGTATCGATACAAAAGTTT
1 TGTATCGATACAAAAGTTT
1826833 TGTATCGATACAA
1 TGTATCGATACAA
1826846 TGTATCGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAAGTTT
Found at i:1826808 original size:32 final size:32
Alignment explanation
Indices: 1826767--1826852 Score: 172
Period size: 32 Copynumber: 2.7 Consensus size: 32
1826757 ATTTCAATGA
1826767 TTTGTATCGATACAATGTATCGATACAAAAGT
1 TTTGTATCGATACAATGTATCGATACAAAAGT
1826799 TTTGTATCGATACAATGTATCGATACAAAAGT
1 TTTGTATCGATACAATGTATCGATACAAAAGT
1826831 TTTGTATCGATACAATGTATCG
1 TTTGTATCGATACAATGTATCG
1826853 CTACGAAGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACAAAAGT
Found at i:1826964 original size:52 final size:52
Alignment explanation
Indices: 1826927--1827055 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1826917 CACTGATCTT
* *
1826927 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1826979 TGTATCGATATATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1827031 TGTATCGATACATACAGGTAAATTT
1 TGTATCGATACATACAGGCAAATTT
1827056 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1829953 original size:27 final size:27
Alignment explanation
Indices: 1829922--1830003 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
1829912 AGCCACAATT
* *
1829922 TGTTTGTCAAAATTGGTGGTTACTTTG
1 TGTTTGTAAAAATTAGTGGTTACTTTG
* *
1829949 TGTTTGTAAAAATTAGTGGCTT-TTTTT
1 TGTTTGTAAAAATTAGTGG-TTACTTTG
*
1829976 TGTTTGTAAAAAATAGTGGTTACTTTG
1 TGTTTGTAAAAATTAGTGGTTACTTTG
1830003 T
1 T
1830004 TGAAAGCTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 42 0.91
28 2 0.04
ACGTcount: A:0.23, C:0.05, G:0.22, T:0.50
Consensus pattern (27 bp):
TGTTTGTAAAAATTAGTGGTTACTTTG
Found at i:1830774 original size:13 final size:13
Alignment explanation
Indices: 1830756--1830781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1830746 CAATTTTTTG
1830756 TGTATCGATACAT
1 TGTATCGATACAT
1830769 TGTATCGATACAT
1 TGTATCGATACAT
1830782 ACGTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1831521 original size:21 final size:21
Alignment explanation
Indices: 1831480--1831523 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1831470 CTCCCCTTTA
* *
1831480 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1831501 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1831522 TC
1 TC
1831524 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1833343 original size:13 final size:13
Alignment explanation
Indices: 1833325--1833363 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1833315 ATAATCACCC
1833325 TGTATCGATACAA
1 TGTATCGATACAA
1833338 TGTATCGATACAA
1 TGTATCGATACAA
1833351 TGTATCGATACAA
1 TGTATCGATACAA
1833364 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1835464 original size:15 final size:15
Alignment explanation
Indices: 1835444--1835474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1835434 ATTTCGTTTG
*
1835444 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1835459 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1835474 G
1 G
1835475 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1837326 original size:21 final size:21
Alignment explanation
Indices: 1837279--1837323 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1837269 AAGTTTTCAT
1837279 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
1837299 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
1837321 TTT
1 TTT
1837324 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:1839559 original size:13 final size:13
Alignment explanation
Indices: 1839541--1839565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1839531 CAATTTTTTG
1839541 TGTATCGATACAT
1 TGTATCGATACAT
1839554 TGTATCGATACA
1 TGTATCGATACA
1839566 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1840585 original size:16 final size:17
Alignment explanation
Indices: 1840566--1840610 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
1840556 TTATTTAATA
1840566 ATTAAAAATTT-TAAAT
1 ATTAAAAATTTATAAAT
*
1840582 ATTAAATATTTATAAAT
1 ATTAAAAATTTATAAAT
1840599 -TT-AAAATTTATA
1 ATTAAAAATTTATA
1840611 TTTACATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTTATAAAT
Found at i:1840589 original size:24 final size:24
Alignment explanation
Indices: 1840557--1840605 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1840547 TATACTTATT
* *
1840557 TATTTAATAATTAAAAATTTTAAA
1 TATTAAATAATTAAAAATTTAAAA
* *
1840581 TATTAAATATTTATAAATTTAAAA
1 TATTAAATAATTAAAAATTTAAAA
1840605 T
1 T
1840606 TTATATTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTAAATAATTAAAAATTTAAAA
Found at i:1840607 original size:15 final size:15
Alignment explanation
Indices: 1840565--1840610 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
1840555 TTTATTTAAT
*
1840565 AATTAAAAATTT-TA
1 AATTTAAAATTTATA
1840579 AATATTAAATATTTATA
1 AAT-TTAAA-ATTTATA
1840596 AATTTAAAATTTATA
1 AATTTAAAATTTATA
1840611 TTTACATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.11
15 11 0.39
16 9 0.32
17 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTAAAATTTATA
Found at i:1840711 original size:19 final size:20
Alignment explanation
Indices: 1840679--1840716 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1840669 AAAAGGTATT
1840679 TAAAAAATATTGAT-AAATC
1 TAAAAAATATTGATGAAATC
1840698 TAAAATAATA-TGATGAAAT
1 TAAAA-AATATTGATGAAAT
1840717 ATACTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAAATATTGATGAAATC
Found at i:1842055 original size:3 final size:3
Alignment explanation
Indices: 1842047--1842085 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1842037 AAGTTTGGCA
1842047 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1842086 TAAAAAATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1842368 original size:17 final size:16
Alignment explanation
Indices: 1842346--1842398 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
1842336 ATAATATTAA
1842346 ATTAAATGTATATTTTT
1 ATTAAAT-TATATTTTT
* *
1842363 ATTAAA-TATA-ATAT
1 ATTAAATTATATTTTT
1842377 ATTAAATATATATTTTT
1 ATTAAAT-TATATTTTT
1842394 ATTAA
1 ATTAA
1842399 TAATTAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 4 0.14
17 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTAAATTATATTTTT
Found at i:1843258 original size:23 final size:25
Alignment explanation
Indices: 1843224--1843269 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1843214 AATAAAAATT
1843224 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
1843248 AGCCA-CAATTTTTGACAAACAA
1 AGCCACCAATTTTTGACAAACAA
1843270 AAAAGGATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:1848861 original size:18 final size:18
Alignment explanation
Indices: 1848840--1848881 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1848830 TAATAATTTT
1848840 ATTAAATCAATCAATTCA
1 ATTAAATCAATCAATTCA
* * *
1848858 ATTAATTCAATCGATTGA
1 ATTAAATCAATCAATTCA
1848876 ATTAAA
1 ATTAAA
1848882 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTAAATCAATCAATTCA
Found at i:1850755 original size:2 final size:2
Alignment explanation
Indices: 1850750--1850783 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1850740 AAAACAACTA
1850750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1850784 CTTACCTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1851406 original size:27 final size:26
Alignment explanation
Indices: 1851368--1851419 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
1851358 TGCAACTTTT
1851368 ACTATTTCAAATTGAATTTCAAAATTA
1 ACTATTTCAAATTGAA-TTCAAAATTA
1851395 ACTATTTCAAATTGAATTCAAAATT
1 ACTATTTCAAATTGAATTCAAAATT
1851420 GGCTGCACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTATTTCAAATTGAATTCAAAATTA
Found at i:1851420 original size:12 final size:13
Alignment explanation
Indices: 1851371--1851420 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
1851361 AACTTTTACT
1851371 ATTTC-AAATTGA
1 ATTTCAAAATTGA
*
1851383 ATTTCAAAATTAA
1 ATTTCAAAATTGA
1851396 CTATTTC-AAATTGA
1 --ATTTCAAAATTGA
1851410 A-TTCAAAATTG
1 ATTTCAAAATTG
1851421 GCTGCACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.09
12 12 0.38
13 6 0.19
14 6 0.19
15 5 0.16
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (13 bp):
ATTTCAAAATTGA
Found at i:1856170 original size:27 final size:26
Alignment explanation
Indices: 1856132--1856183 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
1856122 TGCAACTTTT
1856132 ACTATTTCAAATTGAATTTCAAAATTA
1 ACTATTTCAAATTGAA-TTCAAAATTA
1856159 ACTATTTCAAATTGAATTCAAAATT
1 ACTATTTCAAATTGAATTCAAAATT
1856184 GGCTGCACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTATTTCAAATTGAATTCAAAATTA
Found at i:1856184 original size:12 final size:13
Alignment explanation
Indices: 1856135--1856184 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
1856125 AACTTTTACT
1856135 ATTTC-AAATTGA
1 ATTTCAAAATTGA
*
1856147 ATTTCAAAATTAA
1 ATTTCAAAATTGA
1856160 CTATTTC-AAATTGA
1 --ATTTCAAAATTGA
1856174 A-TTCAAAATTG
1 ATTTCAAAATTG
1856185 GCTGCACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.09
12 12 0.38
13 6 0.19
14 6 0.19
15 5 0.16
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (13 bp):
ATTTCAAAATTGA
Found at i:1858105 original size:3 final size:3
Alignment explanation
Indices: 1858097--1858149 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
1858087 GATTTGTAAA
1858097 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1858145 -AT AAT
1 AAT AAT
1858150 TTTAAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1858450 original size:22 final size:22
Alignment explanation
Indices: 1858425--1858470 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1858415 TTTTAAAAAT
*
1858425 TATTTTTGT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
1858447 TATTTTTATAATTAAATTTATA
1 TATTTTTATAATTAAATTTATA
1858469 TA
1 TA
1858471 AAATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:1858477 original size:22 final size:23
Alignment explanation
Indices: 1858434--1858478 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1858424 TTATTTTTGT
***
1858434 ATTAATATTTATATATTTTTATA
1 ATTAATATTTATATAAAATTATA
1858457 ATTAA-ATTTATATAAAATTATA
1 ATTAATATTTATATAAAATTATA
1858479 TTTTAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTAATATTTATATAAAATTATA
Found at i:1859758 original size:2 final size:2
Alignment explanation
Indices: 1859719--1859744 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1859709 GCATTTTCAA
1859719 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1859745 GCACACACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1860314 original size:15 final size:14
Alignment explanation
Indices: 1860278--1860321 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1860268 ATAATATCTG
**
1860278 TAAATTTTAAAATT
1 TAAATTTTATTATT
1860292 TAAATTTTATTATT
1 TAAATTTTATTATT
*
1860306 TATAATTTTTTTATT
1 TA-AATTTTATTATT
1860321 T
1 T
1860322 TTTATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TAAATTTTATTATT
Found at i:1860802 original size:28 final size:29
Alignment explanation
Indices: 1860771--1860831 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
1860761 CATATATATG
1860771 ATTAATA-ATATTAAATAATAAAATATAA
1 ATTAATACATATTAAATAATAAAATATAA
*
1860799 ATT-ATACATATTAAATAATAAAATATAT
1 ATTAATACATATTAAATAATAAAATATAA
1860827 ATTAA
1 ATTAA
1860832 AATTATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 3 0.10
28 26 0.87
29 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTAATACATATTAAATAATAAAATATAA
Found at i:1860813 original size:21 final size:20
Alignment explanation
Indices: 1860789--1860834 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
1860779 TATTAAATAA
1860789 TAAAAT-ATAAATTATACATAT
1 TAAAATAATAAA--ATACATAT
*
1860810 T-AAATAATAAAATATATAT
1 TAAAATAATAAAATACATAT
1860829 TAAAAT
1 TAAAAT
1860835 TATATCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATAAAATACATAT
Found at i:1863563 original size:26 final size:26
Alignment explanation
Indices: 1863500--1863568 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
1863490 ATATTATTAA
* *
1863500 AATA-TTAAATATTATT-TTTAAATT
1 AATATTTATATATTATTAATTAAATT
*
1863524 AATATTTATATATTTTTAATTAAATTT
1 AATATTTATATATTATTAATTAAA-TT
1863551 AAATATTT-T-TATTATTAA
1 -AATATTTATATATTATTAA
1863569 ATAATAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 4 0.11
25 10 0.27
26 13 0.35
27 3 0.08
28 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AATATTTATATATTATTAATTAAATT
Found at i:1863567 original size:22 final size:22
Alignment explanation
Indices: 1863491--1863570 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 22
1863481 CTTAGTTATA
1863491 TATTATTAAAATATTAAATATTATT
1 TATTATT-AAAT-TTAAATATT-TT
*
1863516 T-TTAAATTAATATTTATATATTTT
1 TATT--ATTAA-ATTTAAATATTTT
1863540 TA--ATTAAATTTAAATATTTT
1 TATTATTAAATTTAAATATTTT
1863560 TATTATTAAAT
1 TATTATTAAAT
1863571 AATAATTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
20 14 0.30
21 5 0.11
22 7 0.15
24 5 0.11
25 11 0.23
26 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTAAATTTAAATATTTT
Found at i:1863949 original size:16 final size:16
Alignment explanation
Indices: 1863924--1863971 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
1863914 AATTAATTTG
*
1863924 TAAATT-AATTATTAT
1 TAAATTAAATTATAAT
1863939 TAAATTAAATTATAAT
1 TAAATTAAATTATAAT
* *
1863955 TAAATTATATTTTAAT
1 TAAATTAAATTATAAT
1863971 T
1 T
1863972 CTAGTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATTAAATTATAAT
Found at i:1863971 original size:27 final size:27
Alignment explanation
Indices: 1863910--1863971 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
1863900 AATAATAAAA
* *
1863910 ATTTAATTAATTTGTAAATTAATTATT
1 ATTTAATTAAATTATAAATTAATTATT
*
1863937 ATTAAATTAAATTAT-AATTAAATTA-T
1 ATTTAATTAAATTATAAATT-AATTATT
1863963 ATTTTAATT
1 A-TTTAATT
1863972 CTAGTATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTAATTAAATTATAAATTAATTATT
Found at i:1871105 original size:28 final size:31
Alignment explanation
Indices: 1871042--1871107 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 31
1871032 TAAAGTATGT
1871042 ATAAATTATTCTATATTATAAAAAAAATAAA
1 ATAAATTATTCTATATTATAAAAAAAATAAA
* * *
1871073 A-AAATTA-TGTATATT-T-AAAATATTAAA
1 ATAAATTATTCTATATTATAAAAAAAATAAA
1871100 ATAAATTA
1 ATAAATTA
1871108 AATAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 10 0.32
28 7 0.23
29 7 0.23
30 6 0.19
31 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (31 bp):
ATAAATTATTCTATATTATAAAAAAAATAAA
Found at i:1872114 original size:20 final size:21
Alignment explanation
Indices: 1872075--1872130 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
1872065 TAATGTGAAT
1872075 TATAAATATAATAA-AATTT-A
1 TATAAATATAA-AATAATTTAA
*
1872095 TATAAATATAAAATATTTTAAA
1 TATAAATATAAAATAATTT-AA
*
1872117 TATAATTATAAAAT
1 TATAAATATAAAAT
1872131 CTAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 15 0.48
22 14 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAATATAAAATAATTTAA
Found at i:1875270 original size:14 final size:15
Alignment explanation
Indices: 1875231--1875275 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
1875221 AAAAATTATA
1875231 TATATTTAAA-AGTT
1 TATATTTAAATAGTT
*
1875245 TATATTTTAATA-TT
1 TATATTTAAATAGTT
1875259 TATATTTAAATAAGTT
1 TATATTTAAAT-AGTT
1875275 T
1 T
1875276 CAAATATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 21 0.81
15 2 0.08
16 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
TATATTTAAATAGTT
Found at i:1875815 original size:2 final size:2
Alignment explanation
Indices: 1875808--1875840 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1875798 CCAAAGTTAC
1875808 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 A
1875841 AAGTGAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1876465 original size:30 final size:30
Alignment explanation
Indices: 1876419--1876476 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1876409 ATTTATCAAT
*
1876419 AATTTGCTTCCTCTAAGATAAGAACAAAAG
1 AATTTGCTTCCCCTAAGATAAGAACAAAAG
* *
1876449 AATTTGTTTCCCCTAAGATATGAACAAA
1 AATTTGCTTCCCCTAAGATAAGAACAAA
1876477 TTTCACCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (30 bp):
AATTTGCTTCCCCTAAGATAAGAACAAAAG
Found at i:1893407 original size:28 final size:27
Alignment explanation
Indices: 1893352--1893422 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1893342 GCCACCCATT
1893352 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
1893379 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
1893407 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
1893423 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:1894099 original size:34 final size:35
Alignment explanation
Indices: 1894039--1894105 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
1894029 AAACACGAAA
1894039 TGATGGGCATGGAATAAAAAATTGAAGGCATGGAG
1 TGATGGGCATGGAATAAAAAATTGAAGGCATGGAG
1894074 TGATGGGCATGGAATAAAAAA-TGAAGGCATGG
1 TGATGGGCATGGAATAAAAAATTGAAGGCATGG
1894106 GCATGGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.19
Consensus pattern (35 bp):
TGATGGGCATGGAATAAAAAATTGAAGGCATGGAG
Found at i:1894130 original size:22 final size:22
Alignment explanation
Indices: 1894104--1894155 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1894094 ATGAAGGCAT
1894104 GGGCATGGAATAAAAAAATTGA
1 GGGCATGGAATAAAAAAATTGA
1894126 GGGCATGGAATAAAAAAATTGA
1 GGGCATGGAATAAAAAAATTGA
*
1894148 AGGCATGG
1 GGGCATGG
1894156 GATGATGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (22 bp):
GGGCATGGAATAAAAAAATTGA
Found at i:1894130 original size:28 final size:26
Alignment explanation
Indices: 1894076--1894216 Score: 119
Period size: 26 Copynumber: 5.2 Consensus size: 26
1894066 GCATGGAGTG
1894076 ATGGGCATGGAATAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
**
1894102 ATGGGCATGGAATAAAAAA--ATTG-
1 ATGGGCATGGAATAAAAAATGAAGGC
1894125 A-GGGCATGGAATAAAAAAATTGAAGGC
1 ATGGGCATGGAAT-AAAAAA-TGAAGGC
*
1894152 ATGGGATGATGGGTATGGAATAAAAAAATGAAGGC
1 --------ATGGGCATGGAATAAAA-AATGAAGGC
*
1894187 ATGGGCATGGAATAAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
1894213 ATGG
1 ATGG
1894217 AATGATGGAA
Statistics
Matches: 93, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
22 11 0.12
23 7 0.08
24 2 0.02
26 34 0.37
27 15 0.16
35 12 0.13
36 12 0.13
ACGTcount: A:0.45, C:0.06, G:0.32, T:0.18
Consensus pattern (26 bp):
ATGGGCATGGAATAAAAAATGAAGGC
Found at i:1894154 original size:84 final size:82
Alignment explanation
Indices: 1894036--1894219 Score: 282
Period size: 84 Copynumber: 2.2 Consensus size: 82
1894026 AAAAAACACG
1894036 AAATGATGGGCATGGAATAAAAAATTGAAGGCAT-GGAGTGATGGGCATGGAAT-AAAAAATGAA
1 AAATGA-GGGCATGGAATAAAAAATTGAAGGCATGGGA-TGATGGGCATGGAATAAAAAAATGAA
1894099 GGCATGGGCATGGAATAAAA
64 GGCATGGGCATGGAAT-AAA
*
1894119 AAATTGAGGGCATGGAATAAAAAAATTGAAGGCATGGGATGATGGGTATGGAATAAAAAAATGAA
1 AAA-TGAGGGCATGGAAT-AAAAAATTGAAGGCATGGGATGATGGGCATGGAATAAAAAAATGAA
*
1894184 GGCATGGGCATGGAATAAG
64 GGCATGGGCATGGAATAAA
*
1894203 AAATGAAGGCATGGAAT
1 AAATGAGGGCATGGAAT
1894220 GATGGAAAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 8
0.90 0.03 0.08
Matches are distributed among these distances:
83 27 0.29
84 38 0.40
85 29 0.31
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (82 bp):
AAATGAGGGCATGGAATAAAAAATTGAAGGCATGGGATGATGGGCATGGAATAAAAAAATGAAGG
CATGGGCATGGAATAAA
Found at i:1895499 original size:51 final size:50
Alignment explanation
Indices: 1895443--1895569 Score: 141
Period size: 53 Copynumber: 2.5 Consensus size: 50
1895433 TCAATTGCTC
*
1895443 ATAATCGGGGATACTCCAACCCCGGTTTTAT-TTTCAAAACACCAATTTCCTT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATCTCT-AAAACACCAATTT--TT
* **
1895495 -TAATCGAGGGGATACTCCAACTCCGGTTTTATCTCTAAAACATTAATTTTT
1 ATAATC--GGGGATACTCCAACCCCGGTTTTATCTCTAAAACACCAATTTTT
*
1895546 CACAATCGGGGATACTCCAACCCC
1 -ATAATCGGGGATACTCCAACCCC
1895570 ATTATTTCCG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
51 23 0.36
53 39 0.61
54 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (50 bp):
ATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACCAATTTTT
Found at i:1895630 original size:79 final size:79
Alignment explanation
Indices: 1895499--1895886 Score: 641
Period size: 79 Copynumber: 4.9 Consensus size: 79
1895489 TTCCTTTAAT
* *
1895499 CGAGGGGATACTCCAACTCCGGTTTTATCTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
*
1895564 AACCCCATTATTTC
66 AACCCCGTTATTTC
* *
1895578 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
*
1895643 AACCCCGTTATTTT
66 AACCCCGTTATTTC
*
1895657 CGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1895722 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* ** *
1895736 CGAGGGGATACTCCAACCCCTGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1895801 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * *
1895815 CGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1895880 AACCCCG
66 AACCCCG
1895887 ATTTTATTTT
Statistics
Matches: 290, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 290 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:1895926 original size:53 final size:51
Alignment explanation
Indices: 1895818--1895964 Score: 156
Period size: 51 Copynumber: 2.9 Consensus size: 51
1895808 TTATTTCCGA
* * *
1895818 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATC
* **
1895869 GGGGATACTCTAACCCCGATTTTATTTTTTTAAAACA-CCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTA--TTTCTAAAACATCAATTTTT-CATAATC
* * *
1895922 GGGGATACTCT-ACCCCG-TTGTTATCTCTAAAATACCAATTTTT
1 GGGGATACTCTAACCCCGATT-TTATTTCTAAAACATCAATTTTT
1895965 TTCTCGTCAG
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
50 8 0.10
51 29 0.36
52 15 0.19
53 28 0.35
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATC
Found at i:1895965 original size:52 final size:51
Alignment explanation
Indices: 1895818--1895964 Score: 165
Period size: 53 Copynumber: 2.9 Consensus size: 51
1895808 TTATTTCCGA
* * * *
1895818 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATC
* *
1895869 GGGGATACTCTAACCCCGATTTTATTTTTTTAAAACACC-GTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTA--TTTCTAAAACACCAATTTTT-CATAATC
* *
1895922 GGGGATACTCT-ACCCCG-TTGTTATCTCTAAAATACCAATTTTT
1 GGGGATACTCTAACCCCGATT-TTATTTCTAAAACACCAATTTTT
1895965 TTCTCGTCAG
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
50 10 0.12
51 28 0.35
52 14 0.17
53 29 0.36
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATC
Found at i:1902156 original size:61 final size:61
Alignment explanation
Indices: 1902016--1902158 Score: 234
Period size: 60 Copynumber: 2.4 Consensus size: 61
1902006 TTAGCCATTC
* *
1902016 CAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1902077 -AGTTCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1902137 CAGTCCTCAAAGAGCAGGACGC
1 CAGTCCTCAAAGAGCAGGACGC
1902159 TCTCTCCTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
60 55 0.73
61 20 0.27
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (61 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1902240 original size:60 final size:61
Alignment explanation
Indices: 1902172--1902500 Score: 495
Period size: 60 Copynumber: 5.4 Consensus size: 61
1902162 CTCCTTTCAC
* *
1902172 CCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1902232 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1902292 CCCTCTAGTCCTCAAAGAGGAGGATGCCTTTTT-CTTTCAAAGCCCACAAAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1902353 CCTTTAGTCCTCAAAGAGCATGATG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1902413 CCTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902474 CTTTTCAGTCCTCAAAGAGCAGGACGC
1 CCTTT-AGTCCTCAAAGAGCAGGACGC
1902501 TCTCTCCTTT
Statistics
Matches: 246, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
59 6 0.02
60 122 0.50
61 99 0.40
62 19 0.08
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1902281 original size:160 final size:160
Alignment explanation
Indices: 1902017--1902315 Score: 519
Period size: 160 Copynumber: 1.9 Consensus size: 160
1902007 TAGCCATTCC
*
1902017 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
* *
1902082 TCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCA
66 TCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCT-AGTCCTCA
1902146 AAGAGCAGGACGCTCTCTCCTTTCACCCTTT
130 AAGAGCAGGACGCTCTCTCCTTTCACCCTTT
* * *
1902177 AGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCACCTTTAGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
1902242 TCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAA
66 TCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAA
*
1902307 AGAGGAGGA
131 AGAGCAGGA
1902316 TGCCTTTTTC
Statistics
Matches: 131, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
160 128 0.98
161 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (160 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCCTCAA
AGAGCAGGACGCTCTCTCCTTTCACCCTTT
Found at i:1902394 original size:121 final size:121
Alignment explanation
Indices: 1902169--1902500 Score: 508
Period size: 121 Copynumber: 2.7 Consensus size: 121
1902159 TCTCTCCTTT
* * *
1902169 CACCCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCAC
1 CACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCAC
1902233 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGG
65 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGG
* * *
1902290 CACCCTCTAGTCCTCAAAGAGGAGGATGCCTTTTTCTTTCAAAGCCCACAAAAGTTGGTGGCACC
1 CACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * *
1902355 TTTAGTCCTCAAAGAGCATGATG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
66 TTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGG
*
1902411 CA-CCTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CACCCTTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1902475 TTTTCAGTCCTCAAAGAGCAGGACGC
65 CTTT-AGTCCTCAAAGAGCAGGACGC
1902501 TCTCTCCTTT
Statistics
Matches: 190, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
120 30 0.16
121 136 0.72
122 24 0.13
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (121 bp):
CACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC
TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:1902654 original size:60 final size:60
Alignment explanation
Indices: 1902514--1902896 Score: 591
Period size: 60 Copynumber: 6.4 Consensus size: 60
1902504 CTCCTTTCAC
*
1902514 CCTTTACTCCTCAAAGAGCAGGACGCC----T-TTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902568 CCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1902629 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1902689 CCCTCTAGTCCTCAAAGAGGAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1902750 CCTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1902810 CCTTTTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902870 CTTTTCAGTCCTCAAAGAGCAGGACGC
1 CCTTT-AGTCCTCAAAGAGCAGGACGC
1902897 TCTCTCCTTT
Statistics
Matches: 304, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
55 25 0.08
59 7 0.02
60 167 0.55
61 105 0.35
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1902690 original size:121 final size:120
Alignment explanation
Indices: 1902514--1902896 Score: 618
Period size: 121 Copynumber: 3.2 Consensus size: 120
1902504 CTCCTTTCAC
*
1902514 CCTTTACTCCTCAAAGAGCAGGACGCC----T-TTTAAAGCCCACACAAGTTGGTGGCACCCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
*
1902574 TGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902629 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCCTC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTT-AAAGCCCACACAAGTTGGTGGCACCCTT
* *
1902694 TAGTCCTCAAAGAGGAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
65 TTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902750 CCTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-C-TTTAAAGCCCACACAAGTTGGTGGCACCCT
1902813 TTTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
64 TTTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902870 CTTTTCAGTCCTCAAAGAGCAGGACGC
1 CCTTT-AGTCCTCAAAGAGCAGGACGC
1902897 TCTCTCCTTT
Statistics
Matches: 247, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
115 26 0.11
119 1 0.00
120 70 0.28
121 147 0.60
122 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (120 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
TGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1902822 original size:181 final size:182
Alignment explanation
Indices: 1902540--1902893 Score: 588
Period size: 181 Copynumber: 2.0 Consensus size: 182
1902530 AGCAGGACGC
* *
1902540 CTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTT
1902605 CAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAG
66 CAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAG
*
1902670 CCCACACAAGTTGGTGGCACC-CTCTAGTCCTCAAAGAGGAGGATGCCTTTTT
131 CCCACACAAGTTGGTGGCACCTCTC-AGTCCTCAAAGAGCAGGATGCCTTTTT
*
1902722 CTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGATG-CTTTTTCCTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTT
* * *
1902785 TTAAAGCCCACACAAGTTGGTGGCACCTTTTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAA
65 TCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAA
* *
1902850 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
130 GCCCACACAAGTTGGTGGCACCTCTCAGTCCTCAAAGAGCAGGA
1902894 CGCTCTCTCC
Statistics
Matches: 161, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
180 6 0.04
181 126 0.78
182 29 0.18
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (182 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTT
CAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAG
CCCACACAAGTTGGTGGCACCTCTCAGTCCTCAAAGAGCAGGATGCCTTTTT
Found at i:1902951 original size:154 final size:154
Alignment explanation
Indices: 1902781--1903060 Score: 508
Period size: 155 Copynumber: 1.8 Consensus size: 154
1902771 GATGCTTTTT
*
1902781 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTTGTCCTCAAAGAGCAGGATGCCTTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTT
*
1902845 TCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
66 TCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
1902910 CCTTTACTCCTCAAAGAGCAGGACG
130 CCTTTACTCCTCAAAGAGCAGGACG
1902935 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTT
* *
1903000 TCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTT
66 TCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
1903061 TAAAGCCCAC
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
154 58 0.48
155 63 0.52
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (154 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTT
TCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACC
CTTTACTCCTCAAAGAGCAGGACG
Found at i:1903050 original size:60 final size:60
Alignment explanation
Indices: 1902910--1903530 Score: 886
Period size: 60 Copynumber: 10.4 Consensus size: 60
1902900 CTCCTTTCAC
*
1902910 CCTTTACTCCTCAAAGAGCAGGACGCC----T-TTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1902964 CCCTTTTGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1903025 CCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1903085 CCTTTAGTCCTCAAAGAGTAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCA
*
1903145 CCTTTAGTCGTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1903205 CCTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1903265 CCTTTAGTCCTCAAAGAGCATGACGCCTTTTTCTTTCAAAGCCCACACAAATTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1903325 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1903386 CCCTCTAGTCCTCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1903447 CCCTCTAGTCCTCAAAGAGCAGGATG-CTTTCTT-TTTGCAAATCCCACACTAGTTAGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTT-TTCTTT-CAAAGCCCACACAAGTTGGTGGCA
*
1903508 CTTTTCAGTCCTCAAAGAGCAGG
1 CCTTT-AGTCCTCAAAGAGCAGG
1903531 GCACATTTCT
Statistics
Matches: 522, Mismatches: 30, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
55 25 0.05
59 13 0.02
60 273 0.52
61 211 0.40
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1903600 original size:40 final size:42
Alignment explanation
Indices: 1903515--1903658 Score: 141
Period size: 45 Copynumber: 3.4 Consensus size: 42
1903505 GCACTTTTCA
* *
1903515 GTCCTCAAAGAGCAGGGCACA-TTTCTTTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCCTTC---T-TCTTTT
*
1903560 GTCCTCAAAGGGCAGGACACACTTT-TTTCCCTTCTT-TTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCCTTCTTCTTTT
* * * * *
1903600 GTCCTTAAAGAACAGGACGCACTTTATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCCTTCTTCTTTT
* *
1903642 GTCCTTAGAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
1903659 AGTATTTCGT
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
40 25 0.29
41 10 0.12
42 20 0.23
45 28 0.33
46 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCCCTTCTTCTTTT
Found at i:1903643 original size:42 final size:41
Alignment explanation
Indices: 1903515--1903658 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 41
1903505 GCACTTTTCA
* *
1903515 GTCCTCAAAGAGCAGGGCACA-TTTCTTTCCCTTCTTTTCTCTTTT
1 GTCCTTAAAGAGCAGGACACACTTT-TTT-CC--CTTTT-TCTTTT
* * *
1903560 GTCCTCAAAGGGCAGGACACACTTTTTTCCCTTCTT-TTTT
1 GTCCTTAAAGAGCAGGACACACTTTTTTCCCTTTTTCTTTT
* * *
1903600 GTCCTTAAAGAACAGGACGCACTTTATTTTCCTTTTTCTTTT
1 GTCCTTAAAGAGCAGGACACACTTT-TTTCCCTTTTTCTTTT
*
1903642 GTCCTTAGAGAGCAGGA
1 GTCCTTAAAGAGCAGGA
1903659 AGTATTTCGT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 25 0.29
41 10 0.12
42 23 0.27
44 2 0.02
45 22 0.26
46 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (41 bp):
GTCCTTAAAGAGCAGGACACACTTTTTTCCCTTTTTCTTTT
Found at i:1903676 original size:42 final size:41
Alignment explanation
Indices: 1903556--1903679 Score: 110
Period size: 42 Copynumber: 3.0 Consensus size: 41
1903546 TTCTTTTCTC
* ** *
1903556 TTTTGTCCTCAAAGGGCAGGACA-CACTTT-TTTCCCTTCTT
1 TTTTGTCCTTAAAGAACAGGA-AGCACTTTATTTCCCTTTTT
* *
1903596 TTTTGTCCTTAAAGAACAGGACGCACTTTATTTTCCTTTTT
1 TTTTGTCCTTAAAGAACAGGAAGCACTTTATTTCCCTTTTT
* * * *
1903637 CTTTTGTCCTTAGAGAGCAGGAAGTA-TTTCGTTTCCCTTTTT
1 -TTTTGTCCTTAAAGAACAGGAAGCACTTT-ATTTCCCTTTTT
1903679 T
1 T
1903680 CCTTTATCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
40 24 0.35
41 13 0.19
42 31 0.46
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTTGTCCTTAAAGAACAGGAAGCACTTTATTTCCCTTTTT
Found at i:1904462 original size:30 final size:32
Alignment explanation
Indices: 1904426--1904500 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 32
1904416 AAAATCAAGA
1904426 AATAAAAAA-AA-CACGGAATGATGGGCATGG
1 AATAAAAAATAAGCACGGAATGATGGGCATGG
* *
1904456 AATAAAAAATTGAAGGCATGGAGTGATGGGCATGG
1 AATAAAAAA-T-AA-GCACGGAATGATGGGCATGG
1904491 AATAAAAAAT
1 AATAAAAAAT
1904501 GAAGGCATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 9 0.24
33 2 0.05
34 1 0.03
35 26 0.68
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.17
Consensus pattern (32 bp):
AATAAAAAATAAGCACGGAATGATGGGCATGG
Found at i:1904483 original size:35 final size:34
Alignment explanation
Indices: 1904444--1904574 Score: 152
Period size: 35 Copynumber: 4.0 Consensus size: 34
1904434 AAACACGGAA
1904444 TGATGGGCATGGAATAAAAAATTGAAGGCATGGAG
1 TGATGGGCATGGAATAAAAAATTGAAGGCATGG-G
1904479 TGATGGGCATGGAATAAAAAA-TGAAGGC-----
1 TGATGGGCATGGAATAAAAAATTGAAGGCATGGG
1904507 --ATGGGCATGGAATAAAAAAATTGAAGGCATGGG
1 TGATGGGCATGGAAT-AAAAAATTGAAGGCATGGG
* * *
1904540 ATAATAGGCATGGAATAAAAAAATGAAGGCATGGG
1 -TGATGGGCATGGAATAAAAAATTGAAGGCATGGG
1904575 CATGGAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
26 13 0.15
27 6 0.07
28 7 0.08
34 7 0.08
35 39 0.46
36 12 0.14
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (34 bp):
TGATGGGCATGGAATAAAAAATTGAAGGCATGGG
Found at i:1904510 original size:26 final size:26
Alignment explanation
Indices: 1904481--1904599 Score: 130
Period size: 26 Copynumber: 4.2 Consensus size: 26
1904471 GCATGGAGTG
1904481 ATGGGCATGGAATAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
1904507 ATGGGCATGGAATAAAAAAATTGAAGGC
1 ATGGGCATGGAAT-AAAAAA-TGAAGGC
1904535 ATGGGATAATAGGCATGGAATAAAAAAATGAAGGC
1 AT--G------GGCATGGAATAAA-AAATGAAGGC
*
1904570 ATGGGCATGGAATAAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAATGAAGGC
1904596 ATGG
1 ATGG
1904600 AATGATGGAA
Statistics
Matches: 81, Mismatches: 1, Indels: 22
0.78 0.01 0.21
Matches are distributed among these distances:
26 27 0.33
27 18 0.22
28 9 0.11
30 1 0.01
33 1 0.01
35 12 0.15
36 13 0.16
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (26 bp):
ATGGGCATGGAATAAAAAATGAAGGC
Found at i:1904534 original size:62 final size:62
Alignment explanation
Indices: 1904446--1904607 Score: 249
Period size: 62 Copynumber: 2.6 Consensus size: 62
1904436 ACACGGAATG
1904446 ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTGATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTGATGGGCATGGAATAAAAAAATGAAGGC
* *
1904507 ATGGGCATGGAATAAAAAAATTGAAGGCATGG-GATAATAGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAAT-AAAAAATTGAAGGCATGGAG-TGATGGGCATGGAATAAAAAAATGAAGGC
* *
1904570 ATGGGCATGGAATAAGAAA-TGAAGGCATGGAATGATGG
1 ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTGATGG
1904608 AAAAAGAAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
61 29 0.32
62 36 0.40
63 26 0.29
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (62 bp):
ATGGGCATGGAATAAAAAATTGAAGGCATGGAGTGATGGGCATGGAATAAAAAAATGAAGGC
Found at i:1904616 original size:28 final size:26
Alignment explanation
Indices: 1904546--1904616 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 26
1904536 TGGGATAATA
*
1904546 GGCATGGAATAAAAAAATGAAGGCATG
1 GGCATGGAA-AAAGAAATGAAGGCATG
*
1904573 GGCATGGAATAAGAAATGAAGGCATG
1 GGCATGGAAAAAGAAATGAAGGCATG
1904599 GAATG-ATGGAAAAAGAAA
1 G---GCATGGAAAAAGAAA
1904617 AGGAAATTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 16 0.42
27 9 0.24
28 12 0.32
29 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.31, T:0.14
Consensus pattern (26 bp):
GGCATGGAAAAAGAAATGAAGGCATG
Found at i:1905882 original size:51 final size:50
Alignment explanation
Indices: 1905826--1905952 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 50
1905816 TCAATTGCTC
*
1905826 ATAATCGGGGATACTCCAACCCCGGTTTTAT-TTTCAAAACACCAATTTCCTT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATCTCT-AAAACACCAATTT--TT
**
1905878 -TAATCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATTAATTTTT
1 ATAATC--GGGGATACTCCAACCCCGGTTTTATCTCTAAAACACCAATTTTT
*
1905929 CACAATCGGGGATACTCCAACCCC
1 -ATAATCGGGGATACTCCAACCCC
1905953 ATTATTTCCG
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
51 24 0.36
53 40 0.61
54 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (50 bp):
ATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACCAATTTTT
Found at i:1906013 original size:79 final size:79
Alignment explanation
Indices: 1905882--1906268 Score: 621
Period size: 79 Copynumber: 4.9 Consensus size: 79
1905872 TTCCTTTAAT
*
1905882 CGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1905947 AACCCCATTATTTC
66 AACCCCATTATTTC
* * *
1905961 CGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
*
1906026 AACCCCATTATTTT
66 AACCCCATTATTTC
*
1906040 CGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
*
1906105 AACCCCGTTATTTC
66 AACCCCATTATTTC
* * ** *
1906119 TGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1906184 AACCCCATTATTTC
66 AACCCCATTATTTC
* * * * *
1906198 CGAGGGGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
1906263 AACCCC
66 AACCCC
1906269 GATTTTATTT
Statistics
Matches: 284, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 284 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCC
AACCCCATTATTTC
Found at i:1906277 original size:51 final size:50
Alignment explanation
Indices: 1906201--1906348 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 50
1906191 TTATTTCCGA
*
1906201 GGGGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACC-CCGTTTTATTTCTAAAACA-CAATTTTTCCATAATC
* * *
1906252 GGGGATACTCTAACCCCGATTTTATTTATTTAGAACACCATTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA-TT-TCTAAAACACAATTTTTCCATAATC
* * *
1906305 GGGGATACTCTAGCCCCGTTGTTATCTCTAAAATACTAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAACAC-AATTTTT
1906349 TTCTCGTCAG
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 27 0.33
52 18 0.22
53 34 0.42
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAACACAATTTTTCCATAATC
Found at i:1908492 original size:2 final size:2
Alignment explanation
Indices: 1908487--1908531 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1908477 ATGTGTGGCG
1908487 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1908529 TC T
1 TC T
1908532 ATTTTTGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1914750 original size:27 final size:27
Alignment explanation
Indices: 1914690--1914742 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1914680 TTTAAATAAT
* * *
1914690 CACAACACTTGATAAATAATCAAGTGA
1 CACAACTCTTAATAAATAATCAAGAGA
*
1914717 CACAACTCTTAATAAATAATTAAGAG
1 CACAACTCTTAATAAATAATCAAGAG
1914743 TTACAACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (27 bp):
CACAACTCTTAATAAATAATCAAGAGA
Found at i:1917543 original size:25 final size:24
Alignment explanation
Indices: 1917495--1917550 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
1917485 GTTAAGTATT
*
1917495 TTAGGT-AAACATATTAGGTGGTGTG
1 TTAGGTGAAACATACTA-G-GGTGTG
*
1917520 TTAGGTGAAGCATACTA-GGTGTG
1 TTAGGTGAAACATACTAGGGTGTG
1917543 TTAGGTGA
1 TTAGGTGA
1917551 TGTATTTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 14 0.50
25 6 0.21
26 8 0.29
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (24 bp):
TTAGGTGAAACATACTAGGGTGTG
Found at i:1917578 original size:34 final size:34
Alignment explanation
Indices: 1917535--1917655 Score: 215
Period size: 34 Copynumber: 3.6 Consensus size: 34
1917525 TGAAGCATAC
*
1917535 TAGGTGTGTTAGGTGATGTATTTGGTGAGAATAT
1 TAGGTGTGTTAGGTAATGTATTTGGTGAGAATAT
1917569 TAGGTGTGTTAGGTAATGTATTTGGTGAGAATAT
1 TAGGTGTGTTAGGTAATGTATTTGGTGAGAATAT
* *
1917603 TAGATGTGTTAGGTAATGTATTTGGTGAAAATAT
1 TAGGTGTGTTAGGTAATGTATTTGGTGAGAATAT
1917637 TAGGTGTGTTAGGTAATGT
1 TAGGTGTGTTAGGTAATGT
1917656 GTTAAGTGAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 83 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (34 bp):
TAGGTGTGTTAGGTAATGTATTTGGTGAGAATAT
Found at i:1917665 original size:68 final size:68
Alignment explanation
Indices: 1917516--1917665 Score: 219
Period size: 68 Copynumber: 2.2 Consensus size: 68
1917506 TATTAGGTGG
* * * *
1917516 TGTGTTAGGTGAAGCATACTAGGTGTGTTAGGTGATGTATTTGGTGAGAATATTAGGTGTGTTAG
1 TGTGTTAGGTG-AGAATACTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAG
1917581 GTAA
65 GTAA
* * *
1917585 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
1 TGTGTTAGGTGAGAATACTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
1917650 TAA
66 TAA
*
1917653 TGTGTTAAGTGAG
1 TGTGTTAGGTGAG
1917666 TAAGATATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 62 0.87
69 9 0.13
ACGTcount: A:0.27, C:0.01, G:0.33, T:0.39
Consensus pattern (68 bp):
TGTGTTAGGTGAGAATACTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
TAA
Found at i:1922398 original size:25 final size:25
Alignment explanation
Indices: 1922370--1922424 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1922360 TCTTTGTTAA
*
1922370 GTGTTTTAGGT-AAATATATTAGGT
1 GTGTTTTAGGTGAAACATATTAGGT
* *
1922394 GGTGTGTTAGGTGAAGCATATTAGGT
1 -GTGTTTTAGGTGAAACATATTAGGT
1922420 GTGTT
1 GTGTT
1922425 AGGTGATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.42
Consensus pattern (25 bp):
GTGTTTTAGGTGAAACATATTAGGT
Found at i:1922441 original size:21 final size:22
Alignment explanation
Indices: 1922393--1922441 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1922383 ATATATTAGG
1922393 TGGTGTGTTAGGTGAAGCATATT
1 TGGTGTGTTAGGTGAAG-ATATT
* *
1922416 AGGTGTGTTAGGTGATG-TATT
1 TGGTGTGTTAGGTGAAGATATT
1922437 TGGTG
1 TGGTG
1922442 AGAATATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (22 bp):
TGGTGTGTTAGGTGAAGATATT
Found at i:1922454 original size:34 final size:34
Alignment explanation
Indices: 1922411--1922535 Score: 205
Period size: 34 Copynumber: 3.7 Consensus size: 34
1922401 TAGGTGAAGC
*
1922411 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
*
1922445 ATATTAGGTGTGTTAGGTAATGTATTTTGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
* *
1922479 ATATTAGATGTGTTAGGTAATGTATTTGGTGAAA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
*
1922513 ATATTAAGTGTGTTAGGTAATGT
1 ATATTAGGTGTGTTAGGTAATGT
1922536 GTTAAGTGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 84 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (34 bp):
ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
Found at i:1922545 original size:68 final size:68
Alignment explanation
Indices: 1922396--1922545 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
1922386 TATTAGGTGG
* * * * * *
1922396 TGTGTTAGGTGAAGCATATTAGGTGTGTTAGGTGATGTATTTGGTGAGAATATTAGGTGTGTTAG
1 TGTGTTAAGTG-AGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAG
1922461 GTAA
65 GTAA
* **
1922465 TGTATTTTGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
1 TGTGTTAAGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
1922530 TAA
66 TAA
1922533 TGTGTTAAGTGAG
1 TGTGTTAAGTGAG
1922546 TAAGATATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 62 0.89
69 8 0.11
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.41
Consensus pattern (68 bp):
TGTGTTAAGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
TAA
Found at i:1928434 original size:3 final size:3
Alignment explanation
Indices: 1928426--1928468 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1928416 TAATGTCGTA
1928426 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1928469 CAATTTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1928550 original size:23 final size:23
Alignment explanation
Indices: 1928503--1928549 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1928493 ATCTTGGAGT
*
1928503 AATTATAAAAATTTTCCTTTAAA
1 AATTATAAAAATTTTCATTTAAA
*
1928526 AATTATTAAAATTTT-ATTTAAA
1 AATTATAAAAATTTTCATTTAAA
1928548 AA
1 AA
1928550 ACATTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTATAAAAATTTTCATTTAAA
Found at i:1928555 original size:22 final size:23
Alignment explanation
Indices: 1928510--1928555 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1928500 AGTAATTATA
* **
1928510 AAAATTTTCCTTTAAAAATTATT
1 AAAATTTTCATTTAAAAAACATT
1928533 AAAATTTT-ATTTAAAAAACATT
1 AAAATTTTCATTTAAAAAACATT
1928555 A
1 A
1928556 TCAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATTTTCATTTAAAAAACATT
Found at i:1929477 original size:6 final size:6
Alignment explanation
Indices: 1929468--1929493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1929458 TGTGAATCTG
1929468 AATTAC AATTAC AATTAC AATTAC AA
1 AATTAC AATTAC AATTAC AATTAC AA
1929494 GTAATAAGCT
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAC
Found at i:1931805 original size:20 final size:20
Alignment explanation
Indices: 1931777--1931827 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1931767 AATTTTCTGG
* * *
1931777 ATTGGTAAAAATTTAATTGA
1 ATTGATAAAAATTAAATTAA
1931797 ATTGATAAAAATTAAATTAA
1 ATTGATAAAAATTAAATTAA
1931817 ATTGATAAAAA
1 ATTGATAAAAA
1931828 AATTGATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
ATTGATAAAAATTAAATTAA
Found at i:1936237 original size:27 final size:27
Alignment explanation
Indices: 1936206--1936278 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
1936196 AAAATCACCT
1936206 TTTGTGTTTGTCAAAAATAGT-AGTTAC
1 TTTGTGTTTGTCAAAAATAGTGA-TTAC
* * * *
1936233 TTTGTATTTTTCAAAAAATGGTGATTCC
1 TTTGTGTTTGTC-AAAAATAGTGATTAC
*
1936261 TTTTTGTTTGTCAAAAAT
1 TTTGTGTTTGTCAAAAAT
1936279 TATGGCTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 16 0.43
28 20 0.54
29 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATAGTGATTAC
Found at i:1938491 original size:21 final size:22
Alignment explanation
Indices: 1938462--1938507 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1938452 TGTTCAGACA
**
1938462 AGTAGTACTCCGCAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1938484 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1938505 AGT
1 AGT
1938508 TTTAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1943598 original size:27 final size:27
Alignment explanation
Indices: 1943538--1943590 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1943528 TTTAAATAAT
* * *
1943538 CACAACACTTGATAAATAATCAAGTGA
1 CACAACTCTTAATAAATAATCAAGAGA
*
1943565 CACAACTCTTAATAAATAATTAAGAG
1 CACAACTCTTAATAAATAATCAAGAG
1943591 TTACAACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (27 bp):
CACAACTCTTAATAAATAATCAAGAGA
Found at i:1946391 original size:25 final size:24
Alignment explanation
Indices: 1946343--1946398 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
1946333 GTTAAGTATT
1946343 TTAGGT-AAACATATTAGGTGGTGTG
1 TTAGGTGAAACATATTA-G-GGTGTG
*
1946368 TTAGGTGAAGCATATTA-GGTGTG
1 TTAGGTGAAACATATTAGGGTGTG
1946391 TTAGGTGA
1 TTAGGTGA
1946399 TGTATTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.48
25 6 0.21
26 9 0.31
ACGTcount: A:0.27, C:0.04, G:0.34, T:0.36
Consensus pattern (24 bp):
TTAGGTGAAACATATTAGGGTGTG
Found at i:1946409 original size:21 final size:22
Alignment explanation
Indices: 1946361--1946409 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1946351 ACATATTAGG
1946361 TGGTGTGTTAGGTGAAGCATATT
1 TGGTGTGTTAGGTGAAG-ATATT
* *
1946384 AGGTGTGTTAGGTGATG-TATT
1 TGGTGTGTTAGGTGAAGATATT
1946405 TGGTG
1 TGGTG
1946410 AGAATATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (22 bp):
TGGTGTGTTAGGTGAAGATATT
Found at i:1946422 original size:34 final size:34
Alignment explanation
Indices: 1946379--1946503 Score: 223
Period size: 34 Copynumber: 3.7 Consensus size: 34
1946369 TAGGTGAAGC
*
1946379 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
1946413 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
* *
1946447 ATATTAGATGTGTTAGGTAATGTATTTGGTGAAA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
1946481 ATATTAGGTGTGTTAGGTAATGT
1 ATATTAGGTGTGTTAGGTAATGT
1946504 GTTAAGTGAG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 87 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (34 bp):
ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
Found at i:1946513 original size:68 final size:68
Alignment explanation
Indices: 1946364--1946513 Score: 228
Period size: 68 Copynumber: 2.2 Consensus size: 68
1946354 TATTAGGTGG
* * * *
1946364 TGTGTTAGGTGAAGCATATTAGGTGTGTTAGGTGATGTATTTGGTGAGAATATTAGGTGTGTTAG
1 TGTGTTAGGTG-AGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAG
1946429 GTAA
65 GTAA
* *
1946433 TGTATTTGGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
1 TGTGTTAGGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
1946498 TAA
66 TAA
*
1946501 TGTGTTAAGTGAG
1 TGTGTTAGGTGAG
1946514 TAAGATATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
68 63 0.88
69 9 0.12
ACGTcount: A:0.27, C:0.01, G:0.33, T:0.40
Consensus pattern (68 bp):
TGTGTTAGGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAGGTGTGTTAGG
TAA
Found at i:1951247 original size:25 final size:25
Alignment explanation
Indices: 1951219--1951273 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1951209 TCTTTGTTAA
*
1951219 GTGTTTTAGGT-AAATATATTAGGT
1 GTGTTTTAGGTGAAACATATTAGGT
* *
1951243 GGTGTGTTAGGTGAAGCATATTAGGT
1 -GTGTTTTAGGTGAAACATATTAGGT
1951269 GTGTT
1 GTGTT
1951274 AGGTGATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.42
Consensus pattern (25 bp):
GTGTTTTAGGTGAAACATATTAGGT
Found at i:1951290 original size:21 final size:22
Alignment explanation
Indices: 1951242--1951290 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1951232 ATATATTAGG
1951242 TGGTGTGTTAGGTGAAGCATATT
1 TGGTGTGTTAGGTGAAG-ATATT
* *
1951265 AGGTGTGTTAGGTGATG-TATT
1 TGGTGTGTTAGGTGAAGATATT
1951286 TGGTG
1 TGGTG
1951291 AGAATATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (22 bp):
TGGTGTGTTAGGTGAAGATATT
Found at i:1951303 original size:34 final size:34
Alignment explanation
Indices: 1951260--1951384 Score: 205
Period size: 34 Copynumber: 3.7 Consensus size: 34
1951250 TAGGTGAAGC
*
1951260 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
*
1951294 ATATTAGGTGTGTTAGGTAATGTATTTTGTGAGA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
* *
1951328 ATATTAGATGTGTTAGGTAATGTATTTGGTGAAA
1 ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
*
1951362 ATATTAAGTGTGTTAGGTAATGT
1 ATATTAGGTGTGTTAGGTAATGT
1951385 GTTAAGTGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 84 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (34 bp):
ATATTAGGTGTGTTAGGTAATGTATTTGGTGAGA
Found at i:1951394 original size:68 final size:68
Alignment explanation
Indices: 1951245--1951394 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
1951235 TATTAGGTGG
* * * * * *
1951245 TGTGTTAGGTGAAGCATATTAGGTGTGTTAGGTGATGTATTTGGTGAGAATATTAGGTGTGTTAG
1 TGTGTTAAGTG-AGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAG
1951310 GTAA
65 GTAA
* **
1951314 TGTATTTTGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
1 TGTGTTAAGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
1951379 TAA
66 TAA
1951382 TGTGTTAAGTGAG
1 TGTGTTAAGTGAG
1951395 TAAGATATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 62 0.89
69 8 0.11
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.41
Consensus pattern (68 bp):
TGTGTTAAGTGAGAATATTAGATGTGTTAGGTAATGTATTTGGTGAAAATATTAAGTGTGTTAGG
TAA
Found at i:1957328 original size:3 final size:3
Alignment explanation
Indices: 1957320--1957368 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1957310 TAATGTCGTA
1957320 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1957368 A
1 A
1957369 CAATTTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1957450 original size:23 final size:23
Alignment explanation
Indices: 1957403--1957449 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1957393 ATCTTGGAGT
*
1957403 AATTATAAAAATTTTCCTTTAAA
1 AATTATAAAAATTTTCATTTAAA
*
1957426 AATTATTAAAATTTT-ATTTAAA
1 AATTATAAAAATTTTCATTTAAA
1957448 AA
1 AA
1957450 ACATTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTATAAAAATTTTCATTTAAA
Found at i:1957455 original size:22 final size:23
Alignment explanation
Indices: 1957410--1957455 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1957400 AGTAATTATA
* **
1957410 AAAATTTTCCTTTAAAAATTATT
1 AAAATTTTCATTTAAAAAACATT
1957433 AAAATTTT-ATTTAAAAAACATT
1 AAAATTTTCATTTAAAAAACATT
1957455 A
1 A
1957456 TCAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATTTTCATTTAAAAAACATT
Found at i:1958374 original size:6 final size:6
Alignment explanation
Indices: 1958365--1958396 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
1958355 TGTGAATCTG
1958365 AATTAC AATTAC AATTAC AATTAC AATTAC AA
1 AATTAC AATTAC AATTAC AATTAC AATTAC AA
1958397 GTAATAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAC
Found at i:1960087 original size:50 final size:50
Alignment explanation
Indices: 1960027--1960186 Score: 277
Period size: 50 Copynumber: 3.2 Consensus size: 50
1960017 ATATACTTAG
1960027 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
* *
1960077 TGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
*
1960127 CGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAATG-AT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAAT
1960177 AGTCAACAAT
1 AGTCAACAAT
1960187 GACAACAACT
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 103 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
Found at i:1964639 original size:50 final size:50
Alignment explanation
Indices: 1964579--1964738 Score: 277
Period size: 50 Copynumber: 3.2 Consensus size: 50
1964569 ATATACTTAG
1964579 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
* *
1964629 TGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
*
1964679 CGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAATG-AT
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAAT
1964729 AGTCAACAAT
1 AGTCAACAAT
1964739 GACAACAACT
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 103 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
Found at i:1965677 original size:20 final size:20
Alignment explanation
Indices: 1965654--1965705 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1965644 ATTTTTCTGG
* * *
1965654 ATTGGTAAAAATTTAATTGA
1 ATTGATAAAAATTAAATTAA
*
1965674 ATTGATAAGAATTAAATTAA
1 ATTGATAAAAATTAAATTAA
1965694 ATTTGATAAAAA
1 A-TTGATAAAAA
1965706 AATTATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (20 bp):
ATTGATAAAAATTAAATTAA
Found at i:1976080 original size:1 final size:1
Alignment explanation
Indices: 1976070--1976153 Score: 60
Period size: 1 Copynumber: 84.0 Consensus size: 1
1976060 TGGCAATTGG
* * * ** * * * ** *
1976070 AAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAACAAACAAAAGGAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1976135 AAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
1976154 GTGAAGATTT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:1976117 original size:27 final size:27
Alignment explanation
Indices: 1976068--1976151 Score: 132
Period size: 27 Copynumber: 3.0 Consensus size: 27
1976058 CATGGCAATT
1976068 GGAAAAAGAAAAAAAACAAAACAAAAAAAA
1 GGAAAAAG--AAAAAA-AAAACAAAAAAAA
*
1976098 GGAAAAAGAAAAAAAAAACAAACAAAA
1 GGAAAAAGAAAAAAAAAACAAAAAAAA
1976125 GGAAAAAGAAAAAAAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAAAACAAAAAAAA
1976152 AAGTGAAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 38 0.73
28 6 0.12
30 8 0.15
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (27 bp):
GGAAAAAGAAAAAAAAAACAAAAAAAA
Found at i:1976160 original size:27 final size:25
Alignment explanation
Indices: 1976073--1976160 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 25
1976063 CAATTGGAAA
1976073 AAGAAAAAAAACAAAACAAAAAAAAGG
1 AAGAAAAAAAA-AAAA-AAAAAAAAGG
1976100 AA-AAAGAAAAAAAAAACAAACAAAAGG
1 AAGAAA-AAAAAAAAAA-AAA-AAAAGG
1976127 AAAAAGAAAAAAAAAACAAAAAAAAAAGTG
1 ---AAGAAAAAAAAAA-AAAAAAAAAAG-G
1976157 AAGA
1 AAGA
1976161 TTTGTTCCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
25 1 0.02
26 10 0.19
27 17 0.33
29 5 0.10
30 13 0.25
31 6 0.12
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (25 bp):
AAGAAAAAAAAAAAAAAAAAAAAGG
Found at i:1976994 original size:66 final size:66
Alignment explanation
Indices: 1976888--1977019 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
1976878 GGTATTATGT
1976888 TTGTTTTAATTTAGGTGGTGAATTGTCAAAGAATGGATGGAATCTGGCTTAAAAGCATGATTTTG
1 TTGTTTTAATTTAGGTGGTGAATTGTCAAAGAATGGATGGAATCTGGCTTAAAAGCATGATTTTG
1976953 G
66 G
1976954 TTGTTTTAATTTAGGTGGTGAATTGTCAAAGAATGGATGGAATCTGGCTTAAAAGCATGATTTTG
1 TTGTTTTAATTTAGGTGGTGAATTGTCAAAGAATGGATGGAATCTGGCTTAAAAGCATGATTTTG
1977019 G
66 G
1977020 CTTCTCATGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (66 bp):
TTGTTTTAATTTAGGTGGTGAATTGTCAAAGAATGGATGGAATCTGGCTTAAAAGCATGATTTTG
G
Done.