Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 35 of 37
Found at i:6070287 original size:212 final size:212
Alignment explanation
Indices: 6070002--6070451 Score: 638
Period size: 212 Copynumber: 2.1 Consensus size: 212
6069992 TCGAAAATAA
* * * * * * *
6070002 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTAGAGTA
* * *
6070066 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCAATGAAATAAC-GAGGTTGGAGTATCCTCGAT
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG-AATAACAG-GGTTGGAGTATCCCCAAT
6070130 TGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAT
129 TGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAAT
*
6070193 TGGCGTTTTGAAAATAAAAC
193 TAGCGTTTTGAAAATAAAAC
* * * *
6070213 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTAGATTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTAGAGTA
* *
6070278 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTATCCCCAATTG
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAATAACAGGGTTGGAGTATCCCCAATTG
* *
6070343 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAG
131 TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
* *
6070408 TGTTTTGAAAATAAAAT
196 CGTTTTGAAAATAAAAC
* *
6070425 CGGAGTTGGAATATCCCCGATTGTGGA
1 CGGGGTTGGAGTATCCCCGATTGTGGA
6070452 GAATTGAGAA
Statistics
Matches: 212, Mismatches: 23, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
211 49 0.23
212 123 0.58
213 40 0.19
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTAGAGTA
TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAATAACAGGGTTGGAGTATCCCCAATTG
TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
CGTTTTGAAAATAAAAC
Found at i:6070386 original size:54 final size:51
Alignment explanation
Indices: 6070324--6070454 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
6070314 GATTAACAGG
* * *
6070324 GTTGGAGTATCCCCAATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCGGA
*
6070378 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGA
*
6070429 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
6070455 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 36 0.53
52 4 0.06
53 10 0.15
54 18 0.26
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:6072836 original size:13 final size:13
Alignment explanation
Indices: 6072818--6072843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6072808 ACAAAGATCC
6072818 ATGTATCGATACA
1 ATGTATCGATACA
6072831 ATGTATCGATACA
1 ATGTATCGATACA
6072844 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6072977 original size:21 final size:21
Alignment explanation
Indices: 6072953--6073094 Score: 284
Period size: 21 Copynumber: 6.8 Consensus size: 21
6072943 ACATTTGTAG
6072953 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6072974 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6072995 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6073016 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6073037 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6073058 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
6073079 AATGTATCGATACATT
1 AATGTATCGATACATT
6073095 TGGATAATTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 121 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:6073008 original size:63 final size:64
Alignment explanation
Indices: 6072934--6073094 Score: 274
Period size: 63 Copynumber: 2.6 Consensus size: 64
6072924 GTTGGGACCC
** *
6072934 TGTATCGATACATTTGTA-GAATGTATCGATACATTCCACAAATGTATCGATACATTCCACAAA
1 TGTATCGATACATTTCCACAAATGTATCGATACATTCCACAAATGTATCGATACATTCCACAAA
6072997 TGTATCGATACA-TTCCACAAATGTATCGATACATTCCACAAATGTATCGATACATTCCACAAA
1 TGTATCGATACATTTCCACAAATGTATCGATACATTCCACAAATGTATCGATACATTCCACAAA
6073060 TGTATCGATACA-TTCCACAAATGTATCGATACATT
1 TGTATCGATACATTTCCACAAATGTATCGATACATT
6073095 TGGATAATTT
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
62 3 0.03
63 91 0.97
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (64 bp):
TGTATCGATACATTTCCACAAATGTATCGATACATTCCACAAATGTATCGATACATTCCACAAA
Found at i:6073253 original size:13 final size:13
Alignment explanation
Indices: 6073235--6073260 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6073225 CATTTTTGGG
6073235 TGTATCGATACAT
1 TGTATCGATACAT
6073248 TGTATCGATACAT
1 TGTATCGATACAT
6073261 ATTGTGTGTA
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:6073275 original size:32 final size:33
Alignment explanation
Indices: 6073215--6073278 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
6073205 TACAAGCCAA
*
6073215 TGTATCGATACATTTTTGGGTGTATCGATACAT
1 TGTATCGATACATTATTGGGTGTATCGATACAT
*
6073248 TGTATCGATACA-TATTGTGTGTATCGATACA
1 TGTATCGATACATTATTGGGTGTATCGATACA
6073279 AATTTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTATTGGGTGTATCGATACAT
Found at i:6073337 original size:20 final size:20
Alignment explanation
Indices: 6073312--6073364 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6073302 CCAATGACTT
**
6073312 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
6073332 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
6073352 GTATCGATACATT
1 GTATCGATACATT
6073365 GTCTCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:6075722 original size:20 final size:21
Alignment explanation
Indices: 6075693--6075733 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6075683 TGTTTTTGTT
6075693 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
6075712 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
6075734 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:6075883 original size:13 final size:13
Alignment explanation
Indices: 6075865--6075902 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6075855 ATAAACCCCT
*
6075865 TGTATCGATACAC
1 TGTATCGATACAA
6075878 TGTATCGATACAA
1 TGTATCGATACAA
6075891 TGTATCGATACA
1 TGTATCGATACA
6075903 GATAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6082086 original size:19 final size:19
Alignment explanation
Indices: 6082043--6082093 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
6082033 TACAAGCCAA
*
6082043 TGTATCGATACATTTTTGGG
1 TGTATCGATACATTTAT-GG
6082063 TGTATCGATACATATTAT-G
1 TGTATCGATACAT-TTATGG
6082082 TGTATCGATACA
1 TGTATCGATACA
6082094 AATTTAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTATGG
Found at i:6082152 original size:20 final size:20
Alignment explanation
Indices: 6082127--6082179 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6082117 CCAATGACTT
**
6082127 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
6082147 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
6082167 GTATCGATACATT
1 GTATCGATACATT
6082180 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:6089049 original size:2 final size:2
Alignment explanation
Indices: 6089042--6089066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6089032 TTAAAGGCAT
6089042 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6089067 TCTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6091323 original size:20 final size:20
Alignment explanation
Indices: 6091276--6091333 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
6091266 ACAATGAGAA
6091276 ATATATCGATACAATTGTATGC
1 ATATATCGATAC-ATT-TATGC
*
6091298 ATATATCGATACATTTACT-T
1 ATATATCGATACATTTA-TGC
*
6091318 ATATATCGATGCATTT
1 ATATATCGATACATTT
6091334 CTTTTCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 17 0.52
21 4 0.12
22 12 0.36
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (20 bp):
ATATATCGATACATTTATGC
Found at i:6091403 original size:20 final size:21
Alignment explanation
Indices: 6091378--6091431 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
6091368 CATTTTAGGC
6091378 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
6091398 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
* *
6091419 TTATATCGATACA
1 ATGTATCGATACA
6091432 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:6102291 original size:193 final size:192
Alignment explanation
Indices: 6101947--6102326 Score: 647
Period size: 193 Copynumber: 2.0 Consensus size: 192
6101937 AGGTCAAGGG
* *
6101947 CAAACATGAAGGCCTCACTAAAATGACATGCTTATGTGACAATAACGGAAACAAGAAGAGAGGAA
1 CAAACATAAAGGCCTCACTAAAATGACATGCTTATGTGACAATAACGGAAACAACAAGAGAGGAA
* *
6102012 TGAAGGTTAGACCTTAAAGCTTTAGATTTTCTATTGCTTTCTTTTTTTTTTTTTCAAATTTTCCC
66 TAAAGGTTAGACCTTAAAGCTTTAGATTTTCTATTGCTTTC-TTTTATTTTTTTCAAATTTTCCC
*
6102077 TTGCTTTTTCTTTGCTTTTTTTTTGTTGGAATTTTTGCTAGATTTTTAAAGAGTAGGCATGGC
130 TTGCTTTTTCTTTACTTTTTTTTTGTTGGAATTTTTGCTAGATTTTTAAAGAGTAGGCATGGC
*
6102140 CAAACATAAAGGGCTCACTAAAATGACATGCTTATGTGACAATAACGGAAACAACAAGAGAGGAA
1 CAAACATAAAGGCCTCACTAAAATGACATGCTTATGTGACAATAACGGAAACAACAAGAGAGGAA
*
6102205 TAAAGGTT-GTACCTTAAAGCTTTAGATTTTCTCTTGCTTTC-TTTATTTTTTTCAAAATTTTCC
66 TAAAGGTTAG-ACCTTAAAGCTTTAGATTTTCTATTGCTTTCTTTTATTTTTTTC-AAATTTTCC
6102268 CTTGCTTTTTCTTTACTTTTTTTTTTGTTGGAATTTTTGCTAGATTTTTAAAGAGTAGG
129 CTTGCTTTTTCTTTAC-TTTTTTTTTGTTGGAATTTTTGCTAGATTTTTAAAGAGTAGG
6102327 TATGTGAGAA
Statistics
Matches: 177, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
191 11 0.06
192 25 0.14
193 141 0.80
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (192 bp):
CAAACATAAAGGCCTCACTAAAATGACATGCTTATGTGACAATAACGGAAACAACAAGAGAGGAA
TAAAGGTTAGACCTTAAAGCTTTAGATTTTCTATTGCTTTCTTTTATTTTTTTCAAATTTTCCCT
TGCTTTTTCTTTACTTTTTTTTTGTTGGAATTTTTGCTAGATTTTTAAAGAGTAGGCATGGC
Found at i:6111172 original size:16 final size:16
Alignment explanation
Indices: 6111118--6111174 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
6111108 GGTGACATGG
*
6111118 TGTGAATGCTTATGAA
1 TGTGAATGCTTGTGAA
* * * *
6111134 TGTAAATGCGTGAGAG
1 TGTGAATGCTTGTGAA
*
6111150 TGCGAATGCTTGTGAA
1 TGTGAATGCTTGTGAA
6111166 TGTGAATGC
1 TGTGAATGC
6111175 CTAAGAGTGT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.32
Consensus pattern (16 bp):
TGTGAATGCTTGTGAA
Found at i:6111193 original size:32 final size:32
Alignment explanation
Indices: 6111117--6111195 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
6111107 GGGTGACATG
* * *
6111117 GTGTGAATGCTTATGAATGTAAATGCGTGAGA
1 GTGTGAATGCTTGTGAATGTAAATGCCTAAGA
* *
6111149 GTGCGAATGCTTGTGAATGTGAATGCCTAAGA
1 GTGTGAATGCTTGTGAATGTAAATGCCTAAGA
*
6111181 GTGTAAATGCTTGTG
1 GTGTGAATGCTTGTG
6111196 CATGCAATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.32
Consensus pattern (32 bp):
GTGTGAATGCTTGTGAATGTAAATGCCTAAGA
Found at i:6111242 original size:32 final size:31
Alignment explanation
Indices: 6111179--6111243 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
6111169 GAATGCCTAA
*
6111179 GAGTGTAAATGCTTGTGCATGCAATTCACGT
1 GAGTGTAAATGCTTGAGCATGCAATTCACGT
*
6111210 GAGTGTGAATGCATATGAGCATG-AATTCACGT
1 GAGTGTAAATGC-T-TGAGCATGCAATTCACGT
6111242 GA
1 GA
6111244 ATGCAGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 11 0.37
32 12 0.40
33 7 0.23
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (31 bp):
GAGTGTAAATGCTTGAGCATGCAATTCACGT
Found at i:6114466 original size:43 final size:43
Alignment explanation
Indices: 6114338--6114469 Score: 237
Period size: 43 Copynumber: 3.1 Consensus size: 43
6114328 GATGAGAAAG
* *
6114338 AAATTATACCTTCTCCAAGCTTTTCTTTTTCAAGAAAAAGAGG
1 AAATTATACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
6114381 AAATTATACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
1 AAATTATACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
*
6114424 AAATTACACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
1 AAATTATACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
6114467 AAA
1 AAA
6114470 GAATAAGAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (43 bp):
AAATTATACCTTCTCCAAGCTTTTCTTTTCCAAGAAAAAGAGA
Found at i:6115951 original size:63 final size:63
Alignment explanation
Indices: 6115849--6116005 Score: 190
Period size: 63 Copynumber: 2.5 Consensus size: 63
6115839 ACTCCATTGT
* * * * * * * * *
6115849 TCTTTTATCTAACCAATTAGAGTGGACTTAATAAGGAAAATTAAAAGGTGCCAG-CTTTATTTA
1 TCTTTTACCTAACCAAATAAAATGGACTTAACAAAGAAAATTAAAAGGTG-CAGACGTTACTGA
* *
6115912 TTTTTTACCTAACCAAATAAAATGGACTTAACAAAGAAAATTAAAAGGTGCTGACGTTACTGA
1 TCTTTTACCTAACCAAATAAAATGGACTTAACAAAGAAAATTAAAAGGTGCAGACGTTACTGA
*
6115975 TCTTTTACCTAACCAAATAAAATGGATTTAA
1 TCTTTTACCTAACCAAATAAAATGGACTTAA
6116006 GAAAAACTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 2 0.03
63 78 0.98
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (63 bp):
TCTTTTACCTAACCAAATAAAATGGACTTAACAAAGAAAATTAAAAGGTGCAGACGTTACTGA
Found at i:6116332 original size:38 final size:38
Alignment explanation
Indices: 6116290--6116366 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
6116280 CACTATTCTT
*
6116290 TTGCCTAATTGGATGAAGCTAGCAAAAGAAAATCTTTA
1 TTGCCTAATTGGATAAAGCTAGCAAAAGAAAATCTTTA
6116328 TTGCCTAATTGGATAAAGCTAGCAAAAGAAAATCTTTA
1 TTGCCTAATTGGATAAAGCTAGCAAAAGAAAATCTTTA
6116366 T
1 T
6116367 CGATCTTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (38 bp):
TTGCCTAATTGGATAAAGCTAGCAAAAGAAAATCTTTA
Found at i:6118046 original size:70 final size:69
Alignment explanation
Indices: 6117920--6118137 Score: 178
Period size: 69 Copynumber: 3.2 Consensus size: 69
6117910 ATACTTTTGT
* * * * *
6117920 AATCTCTAAAAATGTCCT-AAAGAAAGACTTTTAAAATCATTAAAAAAATTTTCAAGAGAGGCTT
1 AATCTCTGAAAATATCCTCAAAAAAAGACTTTTAAAATCATTAAAAAAATTTTCAAGAAAAGCTT
6117984 ATAA
66 ATAA
* * * *
6117988 AATCTCTGGAAAATATCTTCAAAAAAAGA-TTTTAAAATCTTTGAAATATATTTTCAAGAAAAGC
1 AATCTCT-GAAAATATCCTCAAAAAAAGACTTTTAAAATCATT-AAAAAAATTTTCAAGAAAAGC
* *
6118052 TTGTGA
64 TTATAA
* * * * * * *
6118058 AATCTCTTAAAATATCCTC-AAGAGAGGCTTATAAAATC-TCTAAAAAAA--TCCATAAAAGAAG
1 AATCTCTGAAAATATCCTCAAAAAAAGACTTTTAAAATCAT-TAAAAAAATTTTCA-AGAA-AAG
*
6118119 CTTTTAA
63 CTTATAA
6118126 AATCTCTGAAAA
1 AATCTCTGAAAA
6118138 GTGTCCTTAA
Statistics
Matches: 119, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
66 3 0.03
67 3 0.03
68 37 0.31
69 40 0.34
70 36 0.30
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (69 bp):
AATCTCTGAAAATATCCTCAAAAAAAGACTTTTAAAATCATTAAAAAAATTTTCAAGAAAAGCTT
ATAA
Found at i:6118095 original size:34 final size:34
Alignment explanation
Indices: 6117971--6118156 Score: 133
Period size: 34 Copynumber: 5.4 Consensus size: 34
6117961 AAAAAAATTT
* * *
6117971 TCAAGAGAGGCTTATAAAATCTCTGGAAAATATCT
1 TCAAAAGAAGCTTATAAAATCTCT-GAAAATATCC
* * * * **
6118006 TCAAAAAAAGATTTTAAAATCTTTGAAATATATTT
1 TCAAAAGAAGCTTATAAAATCTCTGAAA-ATATCC
* * *
6118041 TCAAGAA-AAGCTTGTGAAATCTCTTAAAATATCC
1 TCAA-AAGAAGCTTATAAAATCTCTGAAAATATCC
* * * *
6118075 TCAAGAGAGGCTTATAAAATCTCTAAAAAAATCC
1 TCAAAAGAAGCTTATAAAATCTCTGAAAATATCC
* *
6118109 AT-AAAAGAAGCTTTTAAAATCTCTGAAAAGTGTCC
1 -TCAAAAGAAGCTTATAAAATCTCTGAAAA-TATCC
* *
6118144 TTAAAAGAGGCTT
1 TCAAAAGAAGCTT
6118157 TTGACATTTT
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
33 1 0.01
34 58 0.49
35 57 0.48
36 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (34 bp):
TCAAAAGAAGCTTATAAAATCTCTGAAAATATCC
Found at i:6119468 original size:19 final size:20
Alignment explanation
Indices: 6119446--6119491 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6119436 TGCCTCTAGA
6119446 TTTTTTTCTTCT-TTCTTT-T
1 TTTTTTTCTT-TATTCTTTGT
*
6119465 TTTTATTCTTTATTCTTTGT
1 TTTTTTTCTTTATTCTTTGT
6119485 TTTTTTT
1 TTTTTTT
6119492 TTTCACCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTTCTTTATTCTTTGT
Found at i:6120372 original size:53 final size:54
Alignment explanation
Indices: 6120291--6120394 Score: 165
Period size: 53 Copynumber: 1.9 Consensus size: 54
6120281 ATTTATTAGC
* *
6120291 GTGTCTTTTTTTTTGGTTCATCACTAATGAGAAATTATGGGATATCAAGATGGT
1 GTGTCTTTTTTTTTGGTTCATCACTAATGAAAAATTATGAGATATCAAGATGGT
* *
6120345 GTGTC-TTTTTTTTGGTTCATTATTAATGAAAAATTATGAGATATCAAGAT
1 GTGTCTTTTTTTTTGGTTCATCACTAATGAAAAATTATGAGATATCAAGAT
6120395 CTAAGTCTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 41 0.89
54 5 0.11
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (54 bp):
GTGTCTTTTTTTTTGGTTCATCACTAATGAAAAATTATGAGATATCAAGATGGT
Found at i:6125486 original size:21 final size:21
Alignment explanation
Indices: 6125462--6125520 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6125452 ATCTTGCAAA
6125462 TCATTTATTTTCTTTTCCAAC
1 TCATTTATTTTCTTTTCCAAC
* * * **
6125483 TCATTCATTTTCTCTTCTAGT
1 TCATTTATTTTCTTTTCCAAC
*
6125504 TCATTTAATTTCTTTTC
1 TCATTTATTTTCTTTTC
6125521 AAGAATATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (21 bp):
TCATTTATTTTCTTTTCCAAC
Found at i:6127074 original size:30 final size:31
Alignment explanation
Indices: 6127038--6127167 Score: 109
Period size: 35 Copynumber: 3.9 Consensus size: 31
6127028 CTTACAACAC
*
6127038 TATCTTTTGA-AGGCTAAGATAAAACCTCCT
1 TATCTTTTCACAGGCTAAGATAAAACCTCCT
* *
6127068 TATCTTTTCACAGGCTAAGATAGAACCTTTCTCCC
1 TATCTTTTCACAGGCTAAGATA-AAAC---CTCCT
* *
6127103 TATCTTTTCTCAGGCTAAGATAAAACTTTTCTCCC
1 TATCTTTTCACAGGCTAAGATAAAAC----CTCCT
* *
6127138 TATCTTTTTCAAAGGCTAAGATAGAACCTC
1 TATC-TTTTCACAGGCTAAGATAAAACCTC
6127168 TCGATCACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
30 9 0.11
31 11 0.13
32 6 0.07
34 3 0.04
35 37 0.44
36 19 0.22
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (31 bp):
TATCTTTTCACAGGCTAAGATAAAACCTCCT
Found at i:6127117 original size:35 final size:35
Alignment explanation
Indices: 6127063--6127166 Score: 147
Period size: 35 Copynumber: 2.9 Consensus size: 35
6127053 AAGATAAAAC
* *
6127063 CTCCTTATCTTTTCACAGGCTAAGATAGAACCTTT
1 CTCCCTATCTTTTCTCAGGCTAAGATAGAACCTTT
* *
6127098 CTCCCTATCTTTTCTCAGGCTAAGATAAAACTTTT
1 CTCCCTATCTTTTCTCAGGCTAAGATAGAACCTTT
6127133 CTCCCTATCTTTT-TCAAAGGCTAAGATAGAACCT
1 CTCCCTATCTTTTCTC--AGGCTAAGATAGAACCT
6127167 CTCGATCACT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 2 0.03
35 44 0.72
36 15 0.25
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (35 bp):
CTCCCTATCTTTTCTCAGGCTAAGATAGAACCTTT
Found at i:6127119 original size:66 final size:68
Alignment explanation
Indices: 6127013--6127166 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 68
6127003 GTTACCTTTG
* *
6127013 AGGCTAAGATATAACCTTACAACACTATCTTTTGAAGGCTAAGATAAAAC-CTCCTTATC-TTTT
1 AGGCTAAGATAGAACCTTACAACACTATCTTTTGAAGGCTAAGATAAAACTCTCCCTATCTTTTT
*
6127076 CAC
66 CAA
* * * **
6127079 AGGCTAAGATAGAACCTTTC-TCCCTATCTTTTCTCAGGCTAAGATAAAACTTTTCTCCCTATCT
1 AGGCTAAGATAGAACCTTACAACACTATCTTTT-GAAGGCTAAGATAAAAC---TCTCCCTATCT
6127143 TTTTCAA
62 TTTTCAA
6127150 AGGCTAAGATAGAACCT
1 AGGCTAAGATAGAACCT
6127167 CTCGATCACT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
65 10 0.14
66 33 0.45
70 8 0.11
71 23 0.31
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (68 bp):
AGGCTAAGATAGAACCTTACAACACTATCTTTTGAAGGCTAAGATAAAACTCTCCCTATCTTTTT
CAA
Found at i:6127154 original size:36 final size:35
Alignment explanation
Indices: 6127047--6127160 Score: 132
Period size: 35 Copynumber: 3.3 Consensus size: 35
6127037 CTATCTTTTG
*
6127047 AAGGCTAAGATAAAAC---CTCCTTATC-TTTTCA
1 AAGGCTAAGATAAAACTTTCTCCCTATCTTTTTCA
* *
6127078 CAGGCTAAGATAGAACCTTTCTCCCTATCTTTTCTC-
1 AAGGCTAAGATA-AAACTTTCTCCCTATCTTTT-TCA
6127114 -AGGCTAAGATAAAACTTTTCTCCCTATCTTTTTCA
1 AAGGCTAAGATAAAAC-TTTCTCCCTATCTTTTTCA
6127149 AAGGCTAAGATA
1 AAGGCTAAGATA
6127161 GAACCTCTCG
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
31 11 0.16
32 3 0.04
34 5 0.07
35 35 0.50
36 14 0.20
37 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (35 bp):
AAGGCTAAGATAAAACTTTCTCCCTATCTTTTTCA
Found at i:6130781 original size:33 final size:33
Alignment explanation
Indices: 6130741--6130809 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
6130731 CCGTTACAAG
*
6130741 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
* *
6130774 CAATGTATTGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
6130807 CAA
1 CAA
6130810 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:6131426 original size:22 final size:22
Alignment explanation
Indices: 6131398--6131453 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
6131388 AGTTTTCGTT
*
6131398 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAGAA
* *
6131420 TTTCTCCCCCTTAATCAAGGCA
1 TTTCTCCCCCTTAATCAAAGAA
6131442 TTTCTCCCCCTT
1 TTTCTCCCCCTT
6131454 TGTCAAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAGAA
Found at i:6142091 original size:20 final size:21
Alignment explanation
Indices: 6142066--6142109 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6142056 ATTATTTTGA
6142066 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
*
6142086 ATTATTTTTATGCTTGGAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
6142108 AT
1 AT
6142110 CTATACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:6144031 original size:44 final size:44
Alignment explanation
Indices: 6143979--6144062 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
6143969 AAAAGAATAG
6143979 GTTAGGATCTTGGTTTTGATATAACAAAG-TATGAATAAAAACAT
1 GTTAGGATCTTGGTTTTGATATAACAAAGAT-TGAATAAAAACAT
*
6144023 GTTAGGATCTTGGTTTTGATATAATAAAGATTGAATAAAA
1 GTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAA
6144063 CCGAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (44 bp):
GTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAAACAT
Found at i:6150753 original size:20 final size:20
Alignment explanation
Indices: 6150715--6150754 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6150705 TTATAAATTT
6150715 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
6150736 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
6150755 TATCAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:6153135 original size:20 final size:19
Alignment explanation
Indices: 6153092--6153145 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
6153082 ACATTATGCT
* **
6153092 TTGTATCAATACATGTTCA
1 TTGTATCGATACATGGACA
6153111 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
6153131 TTGTATCGATACATG
1 TTGTATCGATACATG
6153146 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:6153199 original size:20 final size:19
Alignment explanation
Indices: 6153174--6153227 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
6153164 GTACCACTGT
6153174 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
6153194 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
6153214 TTGTATCGATACAT
1 TTGTATCGATACAT
6153228 TGTATCGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:6153231 original size:13 final size:13
Alignment explanation
Indices: 6153191--6153253 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
6153181 GATACATGGC
6153191 ACATTGTATCGAT
1 ACATTGTATCGAT
6153204 ACA-TG-AT-G--
1 ACATTGTATCGAT
6153212 A-ATTGTATCGAT
1 ACATTGTATCGAT
6153224 ACATTGTATCGAT
1 ACATTGTATCGAT
*
6153237 ACA-TGTATCGAC
1 ACATTGTATCGAT
6153249 ACATT
1 ACATT
6153254 ATGAATTGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
7 1 0.02
8 3 0.07
9 2 0.05
10 2 0.05
11 2 0.05
12 14 0.33
13 18 0.43
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:6153265 original size:20 final size:20
Alignment explanation
Indices: 6153193--6153272 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
6153183 TACATGGCAC
*
6153193 ATTGTATCGATACATGATGA
1 ATTGTATCGATACATTATGA
6153213 ATTGTATCGATACATTGTATCGA
1 ATTGTATCGATACA-T-TAT-GA
* *
6153236 TACATGTATCGACACATTATGA
1 -A-TTGTATCGATACATTATGA
6153258 ATTGTATCGATACAT
1 ATTGTATCGATACAT
6153273 AGCTACGGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 26 0.52
21 2 0.04
22 4 0.08
23 5 0.10
24 2 0.04
25 11 0.22
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATTATGA
Found at i:6154761 original size:23 final size:23
Alignment explanation
Indices: 6154731--6154774 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6154721 GTATTCAACC
6154731 TTGGGGTACAATCTCTT-AAGAAT
1 TTGGGGTACAAT-TCTTGAAGAAT
*
6154754 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTACAATTCTTGAAGA
6154775 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (23 bp):
TTGGGGTACAATTCTTGAAGAAT
Found at i:6161768 original size:12 final size:12
Alignment explanation
Indices: 6161751--6161784 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6161741 TTAAGTGACA
6161751 ATTAGTCATAGG
1 ATTAGTCATAGG
6161763 ATTAGTCATAGG
1 ATTAGTCATAGG
*
6161775 AGTAGTCATA
1 ATTAGTCATA
6161785 TGCTAGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (12 bp):
ATTAGTCATAGG
Found at i:6163877 original size:37 final size:37
Alignment explanation
Indices: 6163827--6163938 Score: 224
Period size: 37 Copynumber: 3.0 Consensus size: 37
6163817 TAGAAGCTCT
6163827 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
1 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
6163864 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
1 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
6163901 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
1 TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
6163938 T
1 T
6163939 TCAATGATTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (37 bp):
TATTTATAGGCTAGAATGTTGGTATGTCCATTAGAGG
Found at i:6164126 original size:52 final size:52
Alignment explanation
Indices: 6164027--6164134 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
6164017 ATGCATTTGA
* * * *
6164027 AATTTTAGCCATTAGACTCAATGTATTGATACAATTTATAATGTATCGATAT
1 AATTATAGCCATTAGACTCAATGTATCGATACAATTTACAATGTATCGATAC
* * * *
6164079 AATTATAGCCATTGGGCTCAATGTATCGATACTAA-TTACCATTTATCGATAC
1 AATTATAGCCATTAGACTCAATGTATCGATAC-AATTTACAATGTATCGATAC
6164131 AATT
1 AATT
6164135 CACTTAGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 45 0.96
53 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (52 bp):
AATTATAGCCATTAGACTCAATGTATCGATACAATTTACAATGTATCGATAC
Found at i:6165286 original size:78 final size:79
Alignment explanation
Indices: 6165180--6165563 Score: 364
Period size: 79 Copynumber: 4.9 Consensus size: 79
6165170 ATGGGGTCAA
* * * * ** * *
6165180 AGTATCTCCTCGACAATAACTGGGTTGGAGTATCCCCAATGGTGGAAAATCAATGTTTTGGAAAT
1 AGTATC-CCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAAT
*
6165245 AAAA-CAGACGTTGG
65 AAAACCAGAGGTTGG
* * * *
6165259 AGTATCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATA
1 AGTATCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATA
** * *
6165324 AAGTC-GGGGTTAG
66 AAACCAGAGGTTGG
* * *** * *
6165337 AGTATCCCCTTAAAAATAACGGGGATGGAGTATCTTTGAATATGAAAAATCGATGTTTTAGAAAT
1 AGTAT-CCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAAT
6165402 AAAACCAG-GGTTGG
65 AAAACCAGAGGTTGG
* * * * * *
6165416 AGTATCCTCTCAAAAATAATGAGATTGGAGTATCTCCGATTATAGAAAATC-AGTGTTTTGGAAA
1 AGTATCC-CTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGA-TGTTTTAGAAA
6165480 TAAAACCA-AGGTTGG
64 TAAAACCAGAGGTTGG
* * * * * *
6165495 AGTATCTTCTCAGAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAAAAAT
1 AGTATC-CCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAAT
6165560 AAAA
65 AAAA
6165564 ATATGAATGA
Statistics
Matches: 251, Mismatches: 46, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
78 63 0.25
79 186 0.74
80 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (79 bp):
AGTATCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATA
AAACCAGAGGTTGG
Found at i:6168428 original size:120 final size:120
Alignment explanation
Indices: 6168205--6169119 Score: 778
Period size: 120 Copynumber: 7.5 Consensus size: 120
6168195 ATGAGAGAGG
* * * * * *
6168205 CGTCCTGCTCTTTGAGGGCTAG-AAGGTGCCACCAGCTTGCGTAGGCTTTAAAA-AAGAAGTGTC
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGCGTC
* * * *
6168268 ATGCTCTTTGGGGACT-AGAAGTTGCCACCAATTTGTGTGGGCTTTAAAAGGGAAACA
65 TTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAACA
* * * * * * *
6168325 CGTCTTGCTTTTTGAGGACTAGAAA-GTGCCACCAGCTTATGTGGGCTTTGAAAGGAAAGTGTTT
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTCT
* * * *
6168389 TGCTCTTTAAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAGAAGA
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AACA
* * * *
6168445 CGTCCTACTCTTTGAGGACTA-AAAGATGCCACCAACTTGTGTGGGTTTTAAAA-AAAAGGCGTC
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-GCGTC
* *
6168508 TTGCACTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-A
65 TTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAACA
* *
6168563 GGCTCCTGCTCTTTGAGGACTA-AAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAAAG-G-C
1 CG-TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTC
* * * **
6168625 ATT-CTACTTTTAGAGGACTGAAAGGTACCGCCAACTTGTGTGGGCTTTATAAGGAGAAGG
65 -TTGCT-C-TTT-GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AACA
* * *
6168685 TGTCCTGCTCTTTGAGGGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAG
1 CGTCCTGCTCTTTGAGGAC----T----A--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
6168750 GAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAATTTGTGTGGGCTTTAAAAGGAAA
56 GA-AA-GCGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
**
6168815 GG
119 CA
* * * * * *
6168817 CCTCCTACTTTTTGAAGACT-GAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAAAAGGCGT
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAA-GCGT
* * * * * * * * **
6168881 CTTGCTCTTTGAGGGCTAAAATGTGCTACTAGCTTGTATGGGTTTTAAAAGGAGAAGG
64 CTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AACA
* * * * * * *
6168939 TGTCCTGCTTTTTAAGGA-TTGAAAGGTGCCATCAACTTGTGTAGGCTTTAAAAGGAGAAAGCAT
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G-GAAAGCGT
* * * * * * * **
6169003 CCTGTTCTTTGAGGACTAAAAAGTGCCACCAAATTATGTGGGCTTTAAACGGAGAAGG
64 CTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AACA
* * *
6169061 CATCCTACTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAG
1 CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
6169120 GAAAGGTGTT
Statistics
Matches: 657, Mismatches: 102, Indels: 72
0.79 0.12 0.09
Matches are distributed among these distances:
117 2 0.00
118 6 0.01
119 61 0.09
120 235 0.36
121 105 0.16
122 139 0.21
123 5 0.01
124 1 0.00
125 1 0.00
128 1 0.00
129 1 0.00
132 50 0.08
133 40 0.06
134 4 0.01
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (120 bp):
CGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTCT
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAACA
Found at i:6168596 original size:60 final size:61
Alignment explanation
Indices: 6168202--6169151 Score: 864
Period size: 61 Copynumber: 15.5 Consensus size: 61
6168192 AAAATGAGAG
* * * * *
6168202 AGGCGTCCTGCTCTTTGAGGGCTAGAAGGTGCCACCAGCTTGCGTAGGCTTTAAAA--AAGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-A
* * * * * * *
6168262 A-GTGTCATGCTCTTTGGGGACTAGAAGTTGCCACCAATTTGTGTGGGCTTTAAAAGGGAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
** * * * * *
6168322 ACACGTCTTGCTTTTTGAGGACTAGAAA-GTGCCACCAGCTTATGTGGGCTTTGAAAGG-AA
1 AGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* ** * * * * *
6168382 A-GTGTTTTGCTCTTTAAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * *
6168442 AGACGTCCTACTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGTTTTAAAA--AAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * *
6168501 AGGCGTCTTGCACTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
*
6168562 AGGC-TCCTGCTCTTTGAGGACTAAAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGG-AA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * * * * * *
6168621 AGGCATTCTACT-TTTAGAGGACTGAAAGGTACCGCCAACTTGTGTGGGCTTTATAAGGAGA
1 AGGCGTCCTGCTCTTT-GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * *
6168682 AGGTGTCCTGCTCTTTGAGGGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAA
1 AGGCGTCCTG--C--T-----C--TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAA
*
6168747 AAGGAGA
55 AAGGAAA
* * *
6168754 AGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAATTTGTGTGGGCTTTAAAAGG-AA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * * * * *
6168814 AGGCCTCCTACTTTTTGAAGACTGAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * * * * * * *
6168875 AGGCGTCTTGCTCTTTGAGGGCTAAAATGTGCTACTAGCTTGTATGGGTTTTAAAAGGAGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * * * * *
6168936 AGGTGTCCTGCTTTTTAAGGATTGAAAGGTGCCATCAACTTGTGTAGGCTTTAAAAGGAGAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA
* * * * * * *
6168998 A-GCATCCTGTTCTTTGAGGACTAAAAAGTGCCACCAAATTATGTGGGCTTTAAACGGAGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * *
6169058 AGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG--A--AA
* *
6169123 AGGTGTTCTGCTCTTTGAGGACTAAAAGG
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGG
6169152 ATAAAAGATT
Statistics
Matches: 718, Mismatches: 141, Indels: 57
0.78 0.15 0.06
Matches are distributed among these distances:
58 3 0.00
59 145 0.20
60 152 0.21
61 329 0.46
62 4 0.01
63 3 0.00
65 27 0.04
68 1 0.00
70 1 0.00
72 50 0.07
73 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (61 bp):
AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
Found at i:6168751 original size:72 final size:72
Alignment explanation
Indices: 6168631--6168773 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
6168621 AGGCATTCTA
* * * *
6168631 CTTTTAGAGGACTGAAAGGTACCGCCAACTTGTGTGGGCTTTATAAGGAGAAGGTGTCCTGCTCT
1 CTTTTAGAGGACTGAAAGGTACCACCAACTTGTGTGAGCTTTAAAAGGAGAAGGCGTCCTGCTCT
6168696 TTGAGGG
66 TTGAGGG
* *
6168703 CTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAGAAGGCGTCCTGCTCT
1 CTTTTAGAGGACTGAAAGGTACCACCAACTTGTGTGAGCTTTAAAAGGAGAAGGCGTCCTGCTCT
6168768 TTGAGG
66 TTGAGG
6168774 ACTGAAAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (72 bp):
CTTTTAGAGGACTGAAAGGTACCACCAACTTGTGTGAGCTTTAAAAGGAGAAGGCGTCCTGCTCT
TTGAGGG
Found at i:6168862 original size:193 final size:187
Alignment explanation
Indices: 6168192--6169151 Score: 768
Period size: 179 Copynumber: 5.2 Consensus size: 187
6168182 TATAAGATGG
* * * * *
6168192 AAAATGAGAGAGGCGTCCTGCTCTTTGAGGGCT-AGAAGGTGCCACCAGCTTGCGTAGGCTTTAA
1 AAAAGGAGA-AGGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
6168256 AA-AAGAAGTGTCATGCT-C--TTTGGGGACT-AGAAGTTGCCACCAATTTGTGTGGGCTTTAAA
64 AAGGA-AAG-G-CATCCTACTTTTTGAGGACTGA-AAGGTGCCACCAACTTATGTGGGCTTT-AA
** * * * * *
6168316 AGG-GAAACACGTCTTGCTTTTTGAGGACT---A--GAAA-GTGCCACCAGCTTATGTGGGCTTT
124 AGGAG-AAGGCGTCCTGCTCTTTGAGGGCTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * ** * *
6168374 GAAAGGA-AA-GTGTTTTGCTCTTTAAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAA
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * * * * * * *
6168437 AGAGAAGACGTCCTACTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGTTTTAAA-AAAA
66 GGA-AAGGCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAGGAGA
* *
6168501 AGGCGTCTTGCACTTT-A-----AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
130 AGGCGTCCTGCTCTTTGAGGGCTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
6168553 AAAAGGAAAAGGC-TCCTGCTCTTTGAGGACTAAAAGGTTCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * *
6168617 GGAAAGGCATTCTACTTTTAGAGGACTGAAAGGTACCGCCAACTTGTGTGGGCTTTATAAGGAGA
66 GGAAAGGCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTA-AAGGAGA
* *
6168682 AGGTGTCCTGCTCTTTGAGGGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTT
130 AGGCGTCCTGCTCTTTGAGGGC----T-AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
6168745 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAATTTGTGTGGGCTTTAAAA
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * *
6168810 GGAAAGGCCTCCTACTTTTTGAAGACTGAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAAA
66 GGAAAGGCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT-AAAGGAGA
* * * * * * *
6168875 AGGCGTCTTGCTCTTTGAGGGCT---A---AAATGTGCTACTAGCTTGTATGGGTTTT
130 AGGCGTCCTGCTCTTTGAGGGCTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
6168927 AAAAGGAGAAGGTGTCCTGCTTTTTAAGGATTGAAAGGTGCCATCAACTTGTGTAGGCTTTAAAA
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * *
6168992 GGAGAAAGCATCCT-GTTCTTTGAGGACTAAAAAGTGCCACCAAATTATGTGGGCTTTAAACGGA
66 GGA-AAGGCATCCTACTT-TTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAA-GGA
* * *
6169056 GAAGGCATCCTACTCTTT----G--AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
128 GAAGGCGTCCTGCTCTTTGAGGGCTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
6169110 GAAAGGAAAGGAAAGGTGTTCTGCTCTTTGAGGACTAAAAGG
1 AAAAGG--A-G-AAGGCGTCCTGCTCTTTGAGGACTGAAAGG
6169152 ATAAAAGATT
Statistics
Matches: 628, Mismatches: 107, Indels: 81
0.77 0.13 0.10
Matches are distributed among these distances:
176 1 0.00
178 9 0.01
179 130 0.21
180 62 0.10
181 50 0.08
182 93 0.15
183 86 0.14
185 2 0.00
186 1 0.00
187 25 0.04
189 1 0.00
192 46 0.07
193 121 0.19
194 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (187 bp):
AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAGGCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAGGAGAA
GGCGTCCTGCTCTTTGAGGGCTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:6182506 original size:28 final size:28
Alignment explanation
Indices: 6182474--6182535 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6182464 TATTTTGGAG
*
6182474 ATCCCCTCAGAAATAATAG-GGTTGAAGT
1 ATCCCCTCAAAAATAA-AGAGGTTGAAGT
* *
6182502 ATCCCCTCAAAAATAACGAGGTTGGAGT
1 ATCCCCTCAAAAATAAAGAGGTTGAAGT
6182530 ATCCCC
1 ATCCCC
6182536 GATGGTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCCCCTCAAAAATAAAGAGGTTGAAGT
Found at i:6182723 original size:79 final size:79
Alignment explanation
Indices: 6182493--6182784 Score: 345
Period size: 79 Copynumber: 3.7 Consensus size: 79
6182483 GAAATAATAG
* * * *
6182493 GGTTGAAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATGTTTT
*
6182558 GGAAATAAAATAGA
66 GGAAATAAAATCGA
* * * ** * * *
6182572 GATTAGAGTGTCCTTTCAGAAATAACGGGG-TAGGGTATCCCCAATTGTGAAAAATCAATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATGTTTT
* *
6182636 GGAAATAAAACCGG
66 GGAAATAAAATCGA
* * * *
6182650 GGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAGTATCCCCGATTATAAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATGTTTT
*
6182715 GAAAATAAAATCGA
66 GGAAATAAAATCGA
* * * *
6182729 GGTTGGAGTATCCCCTTC-AAAATAACGGGGTTGGAGTATCCTCAATGGTGAAAAAT
1 GGTTGGAGTATCCCC-TCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAAT
6182785 TGATATTTTA
Statistics
Matches: 174, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
78 64 0.37
79 108 0.62
80 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATGTTTT
GGAAATAAAATCGA
Found at i:6184499 original size:50 final size:49
Alignment explanation
Indices: 6184435--6184569 Score: 198
Period size: 50 Copynumber: 2.7 Consensus size: 49
6184425 AAAAATACTT
* *
6184435 GAATGTATCGATACATTGAGAAATGCATCGATACATATGGGTAAAACCCA
1 GAATGTATCGATACAATGA-AAATGTATCGATACATATGGGTAAAACCCA
* *
6184485 GAATATATCGATACAATGAAAAATGTATCGATTCATATGGGTAAAACCCA
1 GAATGTATCGATACAATG-AAAATGTATCGATACATATGGGTAAAACCCA
*
6184535 AAATGTATCGATACAATGAAAGATGTATCGATACA
1 GAATGTATCGATACAATGAAA-ATGTATCGATACA
6184570 AGCTGTGAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 3 0.04
50 72 0.95
51 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAATGTATCGATACATATGGGTAAAACCCA
Found at i:6185984 original size:56 final size:55
Alignment explanation
Indices: 6185858--6185993 Score: 148
Period size: 56 Copynumber: 2.5 Consensus size: 55
6185848 GCCCTTACTA
* * * *
6185858 AAATTGGCACCAAAATAAAAAAGCTTAAGAATAGATGGTAGCATAGCTCTAGTAG
1 AAATTGGCACCAAAATGATAAAGCCTAAGAATAGATGATAGCATAGCTCTAGTAG
* * ** * * *
6185913 AAATAGACAATAAAATGATAAAGCCTAAGAATAGCTTATAGGTATAGCTCTAGCT-G
1 AAATTGGCACCAAAATGATAAAGCCTAAGAATAGATGATA-GCATAGCTCTAG-TAG
6185969 AAATTGGCACCAAAATGATAAAGCC
1 AAATTGGCACCAAAATGATAAAGCC
6185994 CAATAGCAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
55 30 0.47
56 33 0.52
57 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (55 bp):
AAATTGGCACCAAAATGATAAAGCCTAAGAATAGATGATAGCATAGCTCTAGTAG
Found at i:6186097 original size:56 final size:57
Alignment explanation
Indices: 6185969--6186097 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 57
6185959 GCTCTAGCTG
* * * * *
6185969 AAATTGGCACCAAAATGATAAAGCCCAATAGCAAACTAATAGATTTTATCCTAGTTG
1 AAATTGGCACCAAAATGAGAAACCCCAAGAGCAAACTAATAGATTTCATCCTAGTTA
** * ** * *
6186026 AAATTGGCATTAAAATGAGAAACCCCGAGAG-TGATTAATAGGTTTCATCCTAGTTA
1 AAATTGGCACCAAAATGAGAAACCCCAAGAGCAAACTAATAGATTTCATCCTAGTTA
6186082 AAATTGGCACCAAAAT
1 AAATTGGCACCAAAAT
6186098 AAAAAGCCAA
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
56 33 0.57
57 25 0.43
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (57 bp):
AAATTGGCACCAAAATGAGAAACCCCAAGAGCAAACTAATAGATTTCATCCTAGTTA
Found at i:6186237 original size:56 final size:56
Alignment explanation
Indices: 6186176--6186375 Score: 179
Period size: 56 Copynumber: 3.6 Consensus size: 56
6186166 GCAACTAATC
* * * *
6186176 GGTTTTGTCCTAGTTGAAATTGGCACCAAAATGAAAAAGTCTAAGAACAGTCAATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAATGAAAAAGCCTAAGAACAGTCGATA
* * * * * * * *
6186232 GGTTTTATCCCAATTCAAATTGGCGCCAAATTGGGAAAA-CCTAGGAGCA-ACTGATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAAT-GAAAAAGCCTAAGAACAGTC-GATA
*** * * * * * *
6186288 GGTTTTGTCCTTGTTGAAATTGGAACCAAAATGAGAAAGCCCAAAAATAGTTGATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAATGAAAAAGCCTAAGAACAGTCGATA
6186344 GGTTTTGTCCCAATTGAAATTGGCACCAAAAT
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAAT
6186376 AGGAAAACCT
Statistics
Matches: 107, Mismatches: 33, Indels: 8
0.72 0.22 0.05
Matches are distributed among these distances:
55 5 0.05
56 97 0.91
57 5 0.05
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (56 bp):
GGTTTTGTCCCAATTGAAATTGGCACCAAAATGAAAAAGCCTAAGAACAGTCGATA
Found at i:6186292 original size:112 final size:112
Alignment explanation
Indices: 6185962--6186444 Score: 337
Period size: 112 Copynumber: 4.3 Consensus size: 112
6185952 AGGTATAGCT
* * * * ** * * * *
6185962 CTAGCTGAAATTGGCACCAAAATGATAAAGCCCAATAGCAAACTAATAGATTTTATCCTAGTTGA
1 CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAAAACAGTC-AATAGGTTTTATCCCAATTCA
** * ** ** * * **
6186027 AATTGGCATTAAAAT-GAGAAACCCCGAGAGTGATTAATAGGTTTCATC
65 AATTGGCACCAAAATAG-GAAAACCTAAGAGCAACTGATAGGTTTTGTC
* ** * * *** * *
6186075 CTAGTTAAAATTGGCACCAAAAT-AAAAAG-CCAAAAGTAG-AAGATAGGTTCTATTTTAGTTGA
1 CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAAAACAGTCA-ATAGGTTTTATCCCAATTCA
** * * * * *
6186137 AATTAACA-CATAAATAAGAAAGCCCAAGAGCAACTAATCGGTTTTGTC
65 AATTGGCACCA-AAATAGGAAAACCTAAGAGCAACTGATAGGTTTTGTC
* * *
6186185 CTAGTTGAAATTGGCACCAAAATGAAAAAGTCTAAGAACAGTCAATAGGTTTTATCCCAATTCAA
1 CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAAAACAGTCAATAGGTTTTATCCCAATTCAA
* * * *
6186250 ATTGGCGCCAAATTGGGAAAACCTAGGAGCAACTGATAGGTTTTGTC
66 ATTGGCACCAAAATAGGAAAACCTAAGAGCAACTGATAGGTTTTGTC
* * * * ** * *
6186297 CTTGTTGAAATTGGAACCAAAATGAGAAAGCCCAAAAATAGTTGATAGGTTTTGTCCCAATTGAA
1 CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAAAACAGTCAATAGGTTTTATCCCAATTCAA
* * * ***
6186362 ATTGGCACCAAAATAGGAAAACCTAAAAGGAAATGATAGGTTCCATC
66 ATTGGCACCAAAATAGGAAAACCTAAGAGCAACTGATAGGTTTTGTC
* * *
6186409 CTAGTTGAAATTTGCACCAAGATGATAAAGCCCAAA
1 CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAA
6186445 CATATGTAAT
Statistics
Matches: 291, Mismatches: 72, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
109 2 0.01
110 71 0.24
111 13 0.04
112 181 0.62
113 24 0.08
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (112 bp):
CTAGTTGAAATTGGCACCAAAATGAAAAAGCCCAAAAACAGTCAATAGGTTTTATCCCAATTCAA
ATTGGCACCAAAATAGGAAAACCTAAGAGCAACTGATAGGTTTTGTC
Found at i:6186399 original size:56 final size:55
Alignment explanation
Indices: 6186176--6186403 Score: 172
Period size: 56 Copynumber: 4.1 Consensus size: 55
6186166 GCAACTAATC
* * * * * *
6186176 GGTTTTGTCCTAGTTGAAATTGGCACCAAAATGAAAAAGTCTAAGAA-C-AGTCAATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAATGGAAAA-CCTAA-AAGCAAAT-GATA
* * * * ** *
6186232 GGTTTTATCCCAATTCAAATTGGCGCCAAATTGGGAAAACCTAGGAGCAACTGATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAAT-GGAAAACCTAAAAGCAAATGATA
*** * * * ** **
6186288 GGTTTTGTCCTTGTTGAAATTGGAACCAAAATGAGAAAGCCCAAAAATAGTTGATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAATG-GAAAACCTAAAAGCAAATGATA
*
6186344 GGTTTTGTCCCAATTGAAATTGGCACCAAAATAGGAAAACCTAAAAGGAAATGATA
1 GGTTTTGTCCCAATTGAAATTGGCACCAAAAT-GGAAAACCTAAAAGCAAATGATA
6186400 GGTT
1 GGTT
6186404 CCATCCTAGT
Statistics
Matches: 129, Mismatches: 38, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
55 2 0.02
56 119 0.92
57 8 0.06
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (55 bp):
GGTTTTGTCCCAATTGAAATTGGCACCAAAATGGAAAACCTAAAAGCAAATGATA
Found at i:6195326 original size:24 final size:25
Alignment explanation
Indices: 6195286--6195332 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6195276 ATTTTATACA
* *
6195286 TTTCTATTTTTAGTTTTTGTTATAT
1 TTTCTATCTTTAGTTTTAGTTATAT
6195311 TTTCTATCTTTA-TTTTAGTTAT
1 TTTCTATCTTTAGTTTTAGTTAT
6195333 TAACATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTCTATCTTTAGTTTTAGTTATAT
Found at i:6212955 original size:20 final size:20
Alignment explanation
Indices: 6212929--6212983 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
6212919 CTGCTAGTTT
**
6212929 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
6212949 TATGTATCGATAGAA-TGAA
1 CATGTATCGATACAATTGAA
6212968 CATGTATCGATACAAT
1 CATGTATCGATACAAT
6212984 ATACCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:6216230 original size:27 final size:27
Alignment explanation
Indices: 6216124--6216222 Score: 180
Period size: 27 Copynumber: 3.7 Consensus size: 27
6216114 GACACCTTTT
6216124 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
6216151 CCTTTTAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
*
6216178 CCTTTTAAGTCCATAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTTCGTGGCAC
*
6216205 CCTTTTAAGTCCAAAACT
1 CCTTTTAAGTCCACAACT
6216223 CTATGGCATC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTTCGTGGCAC
Found at i:6216364 original size:49 final size:49
Alignment explanation
Indices: 6216307--6216960 Score: 723
Period size: 49 Copynumber: 13.8 Consensus size: 49
6216297 TGGCATTTCC
*
6216307 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
*
6216356 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * *
6216399 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* *
6216448 TTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA----C--CT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * * *
6216491 TTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
*
6216540 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * * *
6216583 TTAAGTCCAATATCGCT-ACCTTGAATCAGCATATTGGCACCTTTATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
*
6216631 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * * *
6216674 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCT
*
6216726 TTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
*
6216775 TTAAGTCCAATGTCGCTGGCCTTGAATCAGAACATTGGCACCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * *
6216824 TTAAGTCCAATATCGCGGGCCTTGAATCAGCATATTGGCACCTTCGTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCT
** * * ** *
6216876 TTAAAACCCAATGTTGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCT
1 TT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * * *
6216924 TCAAGTCTAATGTCGCTGGCCATGAATTAGCACATTG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
6216961 TCATTCTTCT
Statistics
Matches: 505, Mismatches: 68, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
42 20 0.04
43 130 0.26
45 1 0.00
47 26 0.05
48 23 0.05
49 225 0.45
50 4 0.01
52 47 0.09
53 29 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
Found at i:6216468 original size:92 final size:92
Alignment explanation
Indices: 6216307--6216867 Score: 863
Period size: 92 Copynumber: 6.0 Consensus size: 92
6216297 TGGCATTTCC
* * * *
6216307 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
6216372 TGGCCTTGAATCAGCACATTGGCACCT
66 TGGCCTTGAATCAGCACATTGGCACCT
*
6216399 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
6216464 TGGCCTTGAATCAGCACATTGGCACCT
66 TGGCCTTGAATCAGCACATTGGCACCT
*
6216491 TTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
6216556 TGGCCTTGAATCAGCACATTGGCACCT
66 TGGCCTTGAATCAGCACATTGGCACCT
*
6216583 TTAAGTCCAATATCGCT-ACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
6216647 TGGCCTTGAATCAGCACATTGGCACCT
66 TGGCCTTGAATCAGCACATTGGCACCT
* *
6216674 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGT
* *
6216739 CGCTGGCCCTGAATCAGCACATTGGCACCTTCATCT
63 AGCTGGCCTTGAATCAGCACATTGGCA----C--CT
* * * * * *
6216775 TTAAGTCCAATGTCGCTGGCCTTGAATCAGAACATTGGCACCTTCATCTTTAAGTCCAATATCGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
* *
6216840 GGGCCTTGAATCAGCATATTGGCACCT
66 TGGCCTTGAATCAGCACATTGGCACCT
6216867 T
1 T
6216868 CGTCATCTTT
Statistics
Matches: 435, Mismatches: 24, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
91 89 0.20
92 218 0.50
93 2 0.00
94 2 0.00
95 42 0.10
98 40 0.09
99 1 0.00
100 2 0.00
101 39 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACCT
Found at i:6216583 original size:21 final size:20
Alignment explanation
Indices: 6216559--6216625 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
6216549 ATGTAGCTGG
6216559 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
6216580 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
6216601 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
6216622 CCTT
1 CCTT
6216626 TATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 18 0.50
22 7 0.19
23 2 0.06
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:6217700 original size:32 final size:32
Alignment explanation
Indices: 6217662--6217722 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6217652 TTCAACGATT
6217662 TGTATCGATACAAAAATGTTGTATCGATATAA
1 TGTATCGATACAAAAATGTTGTATCGATATAA
* *
6217694 TGTATCGATACATAAGTGTTGTATCGATA
1 TGTATCGATACAAAAATGTTGTATCGATA
6217723 CCTAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAAATGTTGTATCGATATAA
Found at i:6217718 original size:19 final size:18
Alignment explanation
Indices: 6217660--6217742 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 18
6217650 ATTTCAACGA
* *
6217660 TTTGTATCGATACAAAAA
1 TTTGTATCGATACATAAG
6217678 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
6217694 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
6217710 TGTTGTATCGATACCTAAG
1 T-TTGTATCGATACATAAG
*
6217729 TTTATATCGATACA
1 TTTGTATCGATACA
6217743 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
13 9 0.17
15 4 0.07
17 3 0.06
18 12 0.22
19 26 0.48
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:6217813 original size:13 final size:13
Alignment explanation
Indices: 6217795--6217819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6217785 ATTACTCAAA
6217795 TGTATCGATACAT
1 TGTATCGATACAT
6217808 TGTATCGATACA
1 TGTATCGATACA
6217820 CTGATCTTTG
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:6224852 original size:18 final size:18
Alignment explanation
Indices: 6224816--6224855 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6224806 CTGGAATAGT
* * *
6224816 CAAAAGTAAACACACAAA
1 CAAAAGTAAAAAAAAAAA
6224834 CAAAAGTAAAAAAAAAAA
1 CAAAAGTAAAAAAAAAAA
6224852 CAAA
1 CAAA
6224856 CAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (18 bp):
CAAAAGTAAAAAAAAAAA
Found at i:6224860 original size:13 final size:14
Alignment explanation
Indices: 6224844--6224906 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
6224834 CAAAAGTAAA
6224844 AAAAAAAAC-AAAC
1 AAAAAAAACAAAAC
***
6224857 AAAAAAAA-AGGTC
1 AAAAAAAACAAAAC
6224870 AAAAAAAAAACAAAAC
1 -AA-AAAAAACAAAAC
6224886 ACAAAAAAACAAAAC
1 A-AAAAAAACAAAAC
6224901 AAAAAA
1 AAAAAA
6224907 GGTGCAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
13 9 0.23
14 7 0.18
15 20 0.51
16 3 0.08
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.02
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:6224862 original size:15 final size:15
Alignment explanation
Indices: 6224842--6224906 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 15
6224832 AACAAAAGTA
6224842 AAAAAAAAAACAAAC
1 AAAAAAAAAACAAAC
***
6224857 -AAAAAAAAA-GGTC
1 AAAAAAAAAACAAAC
6224870 AAAAAAAAAACAAA-
1 AAAAAAAAAACAAAC
*
6224884 ACACAAAAAAACAAAAC
1 A-AAAAAAAAAC-AAAC
6224901 AAAAAA
1 AAAAAA
6224907 GGTGCAAAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
13 1 0.03
14 19 0.51
15 9 0.24
16 7 0.19
17 1 0.03
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:6224904 original size:28 final size:27
Alignment explanation
Indices: 6224827--6224906 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
6224817 AAAAGTAAAC
*
6224827 ACACAAACAAAAGTAAAAAAAAAAACAA
1 ACACAAA-AAAAGCAAAAAAAAAAACAA
*
6224855 ACAAAAAAAAAGGTC-AAAAAAAAAACAAA
1 ACACAAAAAAA-G-CAAAAAAAAAAAC-AA
*
6224884 ACACAAAAAAA-CAAAACAAAAAA
1 ACACAAAAAAAGCAAAAAAAAAAA
6224907 GGTGCAAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 13 0.30
28 18 0.41
29 12 0.27
ACGTcount: A:0.80, C:0.14, G:0.04, T:0.03
Consensus pattern (27 bp):
ACACAAAAAAAGCAAAAAAAAAAACAA
Found at i:6225179 original size:21 final size:21
Alignment explanation
Indices: 6225153--6225192 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6225143 CCAAACACAA
* *
6225153 AAAAAAATAAAAGAGAAAAAG
1 AAAAAAACAAAACAGAAAAAG
6225174 AAAAAAACAAAACAGAAAA
1 AAAAAAACAAAACAGAAAA
6225193 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (21 bp):
AAAAAAACAAAACAGAAAAAG
Found at i:6225262 original size:11 final size:10
Alignment explanation
Indices: 6225234--6225261 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6225224 TAATCTTCAC
6225234 AAAAAAAACA
1 AAAAAAAACA
6225244 AAAAAAAACA
1 AAAAAAAACA
6225254 AAAAAAAA
1 AAAAAAAA
6225262 AGGAAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:6226312 original size:32 final size:31
Alignment explanation
Indices: 6226207--6227060 Score: 407
Period size: 34 Copynumber: 27.1 Consensus size: 31
6226197 TTCAAATACC
* *
6226207 TTCTT-AAAGTCTACGACTCAGTGGCAGTCTC
1 TTCTTCAAAGTCCACGACTCAGTGGCA-TCTT
*
6226238 TTC-TCAAAGCCCACGACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
*
6226267 TGTC-TCAAAGTCCACGACTCAATGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCAT-CTT
*
6226299 TTCTTCAAAGTCCACGACTCAGTGGCGT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
6226329 TGTC-TCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCAT-CTT
* *
6226361 TTCTTCAAAGTCCATGACTCAGTGGCGT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
6226391 TGTC-TCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCAT-CTT
6226423 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
6226454 TTGTCTCAAAGTCCACGACTCCGTGGCACCTTT
1 TTCT-TCAAAGTCCACGACTCAGTGGCATC-TT
* * * *
6226487 TTCTTTTTAAAGCCCACAACTCCGTGGCATTCTTT
1 TTC--TTCAAAGTCCACGACTCAGTGGCA-TC-TT
* * * **
6226522 TTCCTTCTAAGTCCACAACTCCGTGGCA-CCC
1 TT-CTTCAAAGTCCACGACTCAGTGGCATCTT
* * * * **
6226553 GT-TT--AAGCCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* *
6226580 TT-TT--AAGTCCACGACTCTGTGGCATTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA-TCTT
* * * *
6226609 TTCCTTTTAAAGTCCACAACTCCGTGGCACCTT
1 TT-C-TTCAAAGTCCACGACTCAGTGGCATCTT
** * * **
6226642 TTCCTTTTAAGTCCACAACTCCGTGGCA-CCC
1 TT-CTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
6226673 TT-TT--AAGCCCACAACTCCGTGGCACTCTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA-TC-TT
* * * *
6226703 TTCCTTCTAAGTCCACAACTCCGTGGCACCTTT
1 TT-CTTCAAAGTCCACGACTCAGTGGCATC-TT
* * * *
6226736 TTCTTTTTAAAGCCCAC-ACCTCCGTGGCACCTT
1 TTC--TTCAAAGTCCACGA-CTCAGTGGCATCTT
** * * *
6226769 GTTCCTTTTAAGTGCACAACTCTGTGGCATCTTT
1 -TT-CTTCAAAGTCCACGACTCAGTGGCATC-TT
*
6226803 TTCCTTTAAAGTCCACGACTCAGTGGCATCTT
1 TT-CTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
6226835 TTCTTCAAAGTCCATGACTCCGTGGCACTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA-TCTT
* * * *
6226867 TTCTTTTCAAAGTTCACAACTCCGGGGCA-CTCT
1 TTC--TTCAAAGTCCACGACTCAGTGGCATCT-T
* * * **
6226900 TT-TT-AAAGCCCACAACTCCGTGGCA-CCC
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
* * *
6226928 TT-TT--AAGTCCACGACTCTGTAGCACCCTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA---TCTT
* * *
6226959 TTCCTTTAAAGTCCACAACTCCGTGGCA-CTTT
1 TT-CTTCAAAGTCCACGACTCAGTGGCATC-TT
** * *
6226991 GTTCCTTTTAAGTCCACAACTCTGTGGCATCTTT
1 -TT-CTTCAAAGTCCACGACTCAGTGGCATC-TT
* * *
6227025 TTCCTTTCAAAGTCCACAACTCCGTGGCACCTT
1 TT-C-TTCAAAGTCCACGACTCAGTGGCATCTT
6227058 TTC
1 TTC
6227061 CTTTTAAGTC
Statistics
Matches: 678, Mismatches: 89, Indels: 111
0.77 0.10 0.13
Matches are distributed among these distances:
27 77 0.11
28 4 0.01
29 28 0.04
30 81 0.12
31 66 0.10
32 143 0.21
33 103 0.15
34 150 0.22
35 25 0.04
36 1 0.00
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.33
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:6226322 original size:62 final size:62
Alignment explanation
Indices: 6226212--6226487 Score: 432
Period size: 62 Copynumber: 4.5 Consensus size: 62
6226202 ATACCTTCTT
* * *
6226212 AAAGTCTACGACTCAGTGGCAGT-CTCTTC-TCAAAGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCA-TCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
* *
6226273 AAAGTCCACGACTCAATGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCGTTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
* *
6226335 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCATGACTCAGTGGCGTTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
6226397 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA--TTTTGTCTC
*
6226461 AAAGTCCACGACTCCGTGGCA-CCTTTT
1 AAAGTCCACGACTCAGTGGCATCCTTTT
6226488 TCTTTTTAAA
Statistics
Matches: 201, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
60 1 0.00
61 24 0.12
62 141 0.70
63 6 0.03
64 29 0.14
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
Found at i:6226513 original size:34 final size:33
Alignment explanation
Indices: 6226398--6227150 Score: 553
Period size: 34 Copynumber: 23.9 Consensus size: 33
6226388 TTTTGTCTCA
* * **
6226398 AAGTCCACGACTCAGTGGCATCC-TTTT-CTTCA
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * * **
6226430 AAGTCCACGACTCAGTGGCATCTTTTGT-C-TCA
1 AAGTCCACAACTCCGTGGCACCTTTT-TCCTTTT
* *
6226462 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
6226495 AAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCT
1 -AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
*
6226530 AAGTCCACAACTCCGTGGCA-C-----CCGTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
6226557 AAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * **
6226584 AAGTCCACGACTCTGTGGCATTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
6226617 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
6226650 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
6226677 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
*
6226711 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
6226744 AAAGCCCACACCTCCGTGGCACCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
6226778 AAGTGCACAACTCTGTGGCATCTTTTTCCTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * **
6226811 AAGTCCACGACTCAGTGGCATC-TTTT-CTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** *
6226842 AAGTCCATGACTCCGTGGCA-CTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
6226874 CAAAGTTCACAACTCCGGGGCA-C-TCTT--TTTA
1 --AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
6226905 AAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
6226932 AAGTCCACGACTCTGTAGCACCCTTTTTTCCTTTA
1 AAGTCCACAACTCCGTGGCA-CC-TTTTTCCTTTT
6226967 AAGTCCACAACTCCGTGGCA-CTTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TTCCTTTT
* * *
6227000 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTT-T
6227034 AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
6227066 AAGTCCACAACTTCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
6227093 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
6227120 AAGTCTACAACTCCGTGGCATCTTTCTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTT
6227151 CTCCAAAGCC
Statistics
Matches: 602, Mismatches: 75, Indels: 87
0.79 0.10 0.11
Matches are distributed among these distances:
27 141 0.23
28 1 0.00
29 20 0.03
30 1 0.00
31 33 0.05
32 100 0.17
33 124 0.21
34 150 0.25
35 32 0.05
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:6226567 original size:27 final size:27
Alignment explanation
Indices: 6226524--6227139 Score: 260
Period size: 27 Copynumber: 20.0 Consensus size: 27
6226514 CATTCTTTTT
*
6226524 CCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
6226551 CCGTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
6226578 CCTTTTAAGTCCACGACTCTGTGGCATTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA------C
6226611 CCTTTTAAAGTCCACAACTCCGTGGCACC
1 CCTTTT-AAGTCCACAACTCCGTGGCA-C
6226640 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 ----CCTTTTAAGTCCACAACTCCGTGGCAC
*
6226671 CCTTTTAAGCCCACAACTCCGTGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
6226700 TTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
6226732 CTTTTTCTTTTTAAAGCCCACACCTCCGTGGCACC
1 C-----C-TTTT-AAGTCCACAACTCCGTGGCA-C
* *
6226767 TTGTTCCTTTTAAGTGCACAACTCTGTGGCATC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA-C
* * *
6226800 TTTTTCCTTTAAAGTCCACGACTCAGTGGCATC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA-C
** **
6226833 TTTTCTTCAAAGTCCATGACTCCGTGGCAC
1 CCTT-TT--AAGTCCACAACTCCGTGGCAC
* * *
6226863 TTTTTTCTTTTCAAAGTTCACAACTCCGGGGCAC
1 -----CCTTTT--AAGTCCACAACTCCGTGGCAC
* *
6226897 TCTTTTTAAAGCCCACAACTCCGTGGCAC
1 -CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
6226926 CCTTTTAAGTCCACGACTCTGTAGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
6226953 CCTTTTTTCCTTTAAAGTCCACAACTCCGTGGCAC
1 CC-----T--TTT-AAGTCCACAACTCCGTGGCAC
*
6226988 TTTGTTCCTTTTAAGTCCACAACTCTGTGGCATC
1 ------CCTTTTAAGTCCACAACTCCGTGGCA-C
*
6227022 TTTTTCCTTTCAAAGTCCACAACTCCGTGGCACC
1 -----CCTTT-TAAGTCCACAACTCCGTGGCA-C
*
6227056 TTTTCCTTTTAAGTCCACAACTTCGTGGCAC
1 ----CCTTTTAAGTCCACAACTCCGTGGCAC
6227087 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
6227114 CCTTTTAAGTCTACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
6227140 TCTTTCTCCT
Statistics
Matches: 474, Mismatches: 60, Indels: 110
0.74 0.09 0.17
Matches are distributed among these distances:
27 142 0.30
28 7 0.01
29 21 0.04
30 6 0.01
31 20 0.04
32 42 0.09
33 97 0.20
34 112 0.24
35 23 0.05
36 1 0.00
40 1 0.00
41 2 0.00
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:6226677 original size:93 final size:93
Alignment explanation
Indices: 6226398--6227139 Score: 458
Period size: 93 Copynumber: 7.9 Consensus size: 93
6226388 TTTTGTCTCA
* * * * * * * *
6226398 AAGTCCACGACTCAGTGGCATCCTTTT-C-TTCAAAGTCCACGACTCAGTGGCATCTTTT-GTCT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCT-T
** *
6226460 CAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTT
65 TTAAGTCCACAACTCCGTGGCACC-----C-TTTT
* * *
6226495 AAAGCCCACAACTCCGTGGCATTCTTTTTCCTTCT-AAGTCCACAACTCCGTGGCA-C----CCG
1 -AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCT
*
6226554 TTTAAGCCCACAACTCCGTGGCACCCTTTT
64 TTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
6226584 AAGTCCACGACTCTGTGGCATTTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
6226649 TAAGTCCACAACTCCGTGGCACCCTTTT
66 TAAGTCCACAACTCCGTGGCACCCTTTT
* * *
6226677 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCCACAACTCCGTGGCACCTTTTTCTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACC-TTTTCCT
* *
6226741 TTTAAAGCCCACACCTCCGTGGCACCTTGTTCCTTTT
64 TTT-AAGTCCACAACTCCGTGGCA-C-----CCTTTT
* * * * * *
6226778 AAGTGCACAACTCTGTGGCATCTTTTTCC-TTTAAAGTCCACGACTCAGTGGCATCTTTT-CTTC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
* ** *
6226841 AAAGTCCATGACTCCGTGGCACTTTTTTCTTTT
66 TAAGTCCACAACTCCGTGGCAC-----CCTTTT
* * * *
6226874 CAAAGTTCACAACTCCGGGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCA-C----CCT
1 --AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCT
* * *
6226929 TTTAAGTCCACGACTCTGTAGCACCCTTTTTTCCTTT
64 TTTAAGTCCACAACTCCGTGGCACCC-----T--TTT
* *
6226966 AAAGTCCACAACTCCGTGGCA-CTTTGTTCCTTTT-AAGTCCACAACTCTGTGGCATCTTTTTCC
1 -AAGTCCACAACTCCGTGGCATCTTT-TTCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTCC
*
6227029 TTTCAAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
63 TTT-TAAGTCCACAACTCCGTGGCA-C----CCTTTT
*
6227066 AAGTCCACAACTTCGTGGCA-C-----CCTTTT-AAGTCCACAACTCCGTGGCA-C----CCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
6227119 TAAGTCTACAACTCCGTGGCA
66 TAAGTCCACAACTCCGTGGCA
6227140 TCTTTCTCCT
Statistics
Matches: 523, Mismatches: 73, Indels: 108
0.74 0.10 0.15
Matches are distributed among these distances:
85 1 0.00
86 19 0.04
87 16 0.03
88 37 0.07
89 5 0.01
90 23 0.04
91 20 0.04
92 3 0.01
93 98 0.19
94 41 0.08
95 57 0.11
96 17 0.03
97 17 0.03
98 36 0.07
99 33 0.06
100 50 0.10
101 29 0.06
102 18 0.03
103 1 0.00
107 2 0.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (93 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTT
TAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:6227062 original size:255 final size:253
Alignment explanation
Indices: 6226461--6227113 Score: 812
Period size: 255 Copynumber: 2.6 Consensus size: 253
6226451 CTTTTGTCTC
*
6226461 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCC
* * *
6226526 -TTCTAAGTCCACAACTCCGTGGCACC----CGTTTAAGCCCACAACTCCGTGGCACCCTTTTAA
65 TTTCTAAGTCCACAACTCCGTGGCACCTTTTCCTTTAAGTCCACAACTCAGTGGCACCCTTTTAA
* * * * *
6226586 GTCCACGACTCTGTGGCATTTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTA
130 GTCCACGACTCCGTGGCACTTTTTTCCTTTTAAAGTCCACAACTCCGGGGCACCTCTT-CTTTAA
* * *
6226651 AGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
194 AGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTAGCACCCTTTTTCCTTCT
* * *
6226711 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACACCTCCGTGGCACCTTGTTCCT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCT
* * * * **
6226775 TT-TAAGTGCACAACTCTGTGGCATCTTTTTCCTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
66 TTCTAAGTCCACAACTCCGTGGCA-CCTTTTCCTTT-AAGTCCACAACTCAGTGGCA-CCCTT-T
* *
6226839 TCAAAGTCCATGACTCCGTGGCACTTTTTT-CTTTTCAAAGTTCACAACTCCGGGGCA-CTCTT-
127 T--AAGTCCACGACTCCGTGGCACTTTTTTCCTTTT-AAAGTCCACAACTCCGGGGCACCTCTTC
* * *
6226901 TTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCTGTAGCACCCTTTTTTCCTT-
189 TTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTAGCACCC-TTTTTCCTTC
6226965 T
253 T
* * *
6226966 AAAGTCCACAACTCCGTGGCA-CTTTGTTCCTTTT-AAGTCCACAACTCTGTGGCATCTTTTTCC
1 AAAGTCCACAACTCCGTGGCACCTTT-TTCTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCC
*
6227029 TTTCAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTTC-GTGGCACCCTTTT
65 TTTCTAAGTCCACAACTCCGTGGCACCTTTTCC-TTTAAGTCCACAAC-TCAGTGGCACCCTTTT
*
6227093 AAGTCCACAACTCCGTGGCAC
128 AAGTCCACGACTCCGTGGCAC
6227114 CCTTTTAAGT
Statistics
Matches: 344, Mismatches: 41, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
248 26 0.08
249 55 0.16
251 19 0.06
253 6 0.02
254 20 0.06
255 105 0.31
256 61 0.18
257 9 0.03
258 43 0.12
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (253 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCT
TTCTAAGTCCACAACTCCGTGGCACCTTTTCCTTTAAGTCCACAACTCAGTGGCACCCTTTTAAG
TCCACGACTCCGTGGCACTTTTTTCCTTTTAAAGTCCACAACTCCGGGGCACCTCTTCTTTAAAG
CCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTAGCACCCTTTTTCCTTCT
Found at i:6227192 original size:33 final size:33
Alignment explanation
Indices: 6227147--6227210 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
6227137 GCATCTTTCT
*
6227147 CCTTCTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCAAAAGCCCACACAAGTCGGTGGCAAC
*
6227180 CCTTCTCAAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTCAAAAGCCCACACAAGTCGGTGGCA
6227211 TTTCCTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (33 bp):
CCTTCTCAAAAGCCCACACAAGTCGGTGGCAAC
Found at i:6227329 original size:49 final size:49
Alignment explanation
Indices: 6227216--6227637 Score: 424
Period size: 49 Copynumber: 8.8 Consensus size: 49
6227206 TGGCATTTCC
6227216 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* *
6227259 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* *
6227308 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------TACCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* * * *
6227351 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATCT
* *
6227403 TTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* * * *
6227452 TTAAGTCCAATATCGCTGGCCTTGAATCAGAACCTTGGCACCTTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* * *
6227501 TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-ATCT
** * * **
6227553 TTAAAACCCAATGTTGTTGGCCTTGTCTCAGCACATTGGCA--TTCT-TCT
1 TT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCT
* * * *
6227601 TCAAGTCTAATGTCGCTGGCCATGAATTAGCACATTG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
6227638 TCATTCTTCT
Statistics
Matches: 316, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
43 76 0.24
44 1 0.00
47 26 0.08
48 4 0.01
49 126 0.40
50 1 0.00
51 5 0.02
52 46 0.15
53 31 0.10
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
Found at i:6227373 original size:92 final size:92
Alignment explanation
Indices: 6227216--6227544 Score: 469
Period size: 92 Copynumber: 3.5 Consensus size: 92
6227206 TGGCATTTCC
6227216 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCT
6227281 TGAATCAGCATATTGGCACCTTTATCT
66 TGAATCAGCATATTGGCACCTTTATCT
* *
6227308 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACCTTTAAGTCCAATATCGCTGGCCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCT
* *
6227373 TGAATCAGCATATTAGCGCCTTTGTCATCT
66 TGAATCAGCATATTGGCACC-TT-T-ATCT
*
6227403 TTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGC
* ** *
6227468 TGGCCTTGAATCAGAACCTTGGCACCTTCATCT
60 TGGCCTTGAATCAGCATATTGGCACCTTTATCT
* * *
6227501 TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
6227545 CGTCATCTTT
Statistics
Matches: 211, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
92 84 0.40
93 2 0.01
94 2 0.01
95 41 0.19
98 40 0.19
99 1 0.00
100 2 0.01
101 39 0.18
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCT
TGAATCAGCATATTGGCACCTTTATCT
Found at i:6227455 original size:144 final size:146
Alignment explanation
Indices: 6227257--6227637 Score: 473
Period size: 144 Copynumber: 2.6 Consensus size: 146
6227247 ACATTGGCAC
* * * *
6227257 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
6227322 GCTGGCCTTGAATCAGCACATTGG-T-ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 GCTGGCCTTGAATCAGCACATTGGCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
* *
6227385 TTAGCGCCTTTGTCAT
131 TTAGCACCTTCGTCAT
* *
6227401 CTTTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
* * * *
6227466 GCTGGCCTTGAATCAGAACCTTGGCACCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGG---C-TCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
6227531 CATATTGGCACCTTCGTCAT
127 CATATTAGCACCTTCGTCAT
** * * ** * * *
6227551 CTTTAAAACCCAATGTTGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
* *
6227614 CGCTGGCCATGAATTAGCACATTG
65 CGCTGGCCTTGAATCAGCACATTG
6227638 TCATTCTTCT
Statistics
Matches: 202, Mismatches: 28, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
144 81 0.40
149 37 0.18
150 53 0.26
151 31 0.15
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (146 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTAGCACCTTCGTCAT
Found at i:6227651 original size:100 final size:98
Alignment explanation
Indices: 6227216--6227681 Score: 363
Period size: 92 Copynumber: 4.8 Consensus size: 98
6227206 TGGCATTTCC
* ** *
6227216 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C--CTTTAAGTCCAATATCG
1 TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCACTTCTCATCTTTAAACCCAATATTG
* * * *
6227274 CTGGCCTTGAATCAGCATATTGGCACCTTTATCT
66 TTGGCCTTGAATCAGAACATTGGCA-CTTCATCT
* * * ** *
6227308 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------T-ACCTTTAAGTCCAATATCG
1 TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCACTTCTCATCTTTAAACCCAATATTG
* * *
6227366 CTGGCCTTGAATCAGCATATTAGCGC-CTTTGTCATCT
66 TTGGCCTTGAATCAGAACATT-G-GCAC--T-TCATCT
* * ** *
6227403 TTAAGTCCAATGTCGCTGGCCCTGAATCAGCACATTGGCACCT-TCATCTTTAAGTCCAATATCG
1 TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCACTTCTCATCTTTAAACCCAATATTG
* *
6227467 CTGGCCTTGAATCAGAACCTTGGCACCTTCATCT
66 TTGGCCTTGAATCAGAACATTGGCA-CTTCATCT
* * * * *
6227501 TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATG
1 TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCA-CTTC-TCATCTTT-AAACCCAATA
** * *
6227566 TTGTTGGCCTTGTCTCAGCACATTGGCA-TTCTTCT
63 TTGTTGGCCTTGAATCAGAACATTGGCACTTCATCT
* * * *
6227601 TCAAGTCTAATGTCGCTGGCCATGAATTAGCACATTGTCATTCTTCTCATCTTTAAACCCAATAT
1 TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCA--CTTCTCATCTTTAAACCCAATAT
*
6227666 TGTTGGCCGTGAATCA
64 TGTTGGCCTTGAATCA
6227682 ACGCATTGGT
Statistics
Matches: 317, Mismatches: 36, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
92 76 0.24
93 1 0.00
94 3 0.01
95 41 0.13
98 42 0.13
99 28 0.09
100 48 0.15
101 49 0.15
102 29 0.09
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (98 bp):
TTAAGTCCAATGTCGCTGGCCATGAATCAGCACATTGGCACTTCTCATCTTTAAACCCAATATTG
TTGGCCTTGAATCAGAACATTGGCACTTCATCT
Found at i:6228342 original size:19 final size:19
Alignment explanation
Indices: 6228318--6228382 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
6228308 TTTCAATGAT
6228318 TTGTATCGATACAAAAATG
1 TTGTATCGATACAAAAATG
6228337 TTGTATCGATAC---AA--
1 TTGTATCGATACAAAAATG
* *
6228351 -TGTATCGATACATAAGTG
1 TTGTATCGATACAAAAATG
6228369 TTGTATCGATACAA
1 TTGTATCGATACAA
6228383 TGTATCGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.29
16 3 0.08
19 24 0.63
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACAAAAATG
Found at i:6228356 original size:13 final size:13
Alignment explanation
Indices: 6228338--6228393 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
6228328 ACAAAAATGT
6228338 TGTATCGATACAA
1 TGTATCGATACAA
6228351 TGTATCGATACATAA
1 TGTATCGATAC--AA
6228366 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
6228383 TGTATCGATAC
1 TGTATCGATAC
6228394 CTAAGTTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6228357 original size:32 final size:32
Alignment explanation
Indices: 6228319--6228420 Score: 161
Period size: 32 Copynumber: 3.2 Consensus size: 32
6228309 TTCAATGATT
* *
6228319 TGTATCGATACAAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
6228351 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
6228383 TGTATCGATACCTAAGT-TTGTATCTATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
6228414 TGTATCG
1 TGTATCG
6228421 CTACGAAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 20 0.30
32 46 0.70
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:6228542 original size:52 final size:52
Alignment explanation
Indices: 6228498--6228730 Score: 421
Period size: 52 Copynumber: 4.5 Consensus size: 52
6228488 CACTGATCTT
6228498 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
6228550 TGTATCGATACATACAGACAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
6228602 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
6228654 TGTATCGATAGATACAGACAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
6228706 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
6228731 TCATATTTCG
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 171 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:6236595 original size:20 final size:20
Alignment explanation
Indices: 6236567--6236641 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
6236557 TTTTACCCAG
6236567 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
6236587 ATATATCGATACATGTTTGA
1 ATGTATCGATACATTTTTCA
* *
6236607 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
6236627 ATGTATTGATACATT
1 ATGTATCGATACATT
6236642 ATGTCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:6246073 original size:79 final size:79
Alignment explanation
Indices: 6245976--6246138 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 79
6245966 GGGCTGGAGG
* * ***
6245976 ATCCCTGATTATGAAAAATTGGTGTTCTGGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAAT
1 ATCCCTAATTATGAAAAATTGGTGTTCTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAAT
6246041 AACAGGGTTAGAGT
66 AACAGGGTTAGAGT
* *
6246055 ATCCCTAATTAT-AGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAA
1 ATCCCTAATTATGA-AAAATTGGTGTTCTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAA
* *
6246119 TAACGGGGTTGGAGT
65 TAACAGGGTTAGAGT
6246134 ATCCC
1 ATCCC
6246139 CGCGAAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 1 0.01
79 73 0.99
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
ATCCCTAATTATGAAAAATTGGTGTTCTGAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAAT
AACAGGGTTAGAGT
Found at i:6246128 original size:28 final size:28
Alignment explanation
Indices: 6246094--6246168 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
6246084 AAAATAAAAT
*
6246094 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
*
6246122 CGGGGTTGGAGTATCCCCGCGAAAATAA
1 CGGGGTTGGAGTATCCCCGCAAAAATAA
*
6246150 CGAGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
6246169 ATTGTGAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGCAAAAATAA
Found at i:6246275 original size:78 final size:78
Alignment explanation
Indices: 6246122--6246400 Score: 384
Period size: 78 Copynumber: 3.6 Consensus size: 78
6246112 TCAAAAATAA
* * *
6246122 CGGGGTTGGAGTATCCCCGCGA-AAATAACGAGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTAT-CCC-CTATGAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
* *
6246186 CTTTAGGAATAAAGC
64 TTTTAGAAATAAAGC
*
6246201 CGGGGTTGGAGTATCCCCTATGAAATAACGGGGTT-GAGTATCCCCGATTGTGAGAAATCTATAT
1 CGGGGTTGGAGTATCCCCTATG-AATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
6246265 TTTAGAAATAAAGC
65 TTTAGAAATAAAGC
* * *
6246279 CGGGGTTGGAGTATCCCCTCAAGAATAACGGGGTTGGAGTATCCCCGATTAT-AGAAATCAAAAT
1 CGGGGTTGGAGTATCCCCT-ATGAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
6246343 TTTAGAAATAAAAC
65 TTTAGAAATAAAGC
* * *
6246357 CAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCTATGAATAACGGGGTTGGAGTATCCC
6246401 TGGTTGTAAA
Statistics
Matches: 181, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
77 25 0.14
78 114 0.63
79 42 0.23
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTATGAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
TTAGAAATAAAGC
Found at i:6246429 original size:78 final size:76
Alignment explanation
Indices: 6246122--6246451 Score: 340
Period size: 78 Copynumber: 4.2 Consensus size: 76
6246112 TCAAAAATAA
* * *
6246122 CGGGGTTGGAGTATCCCCGCGA-AAATAACGAGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCC-C-ATGAATAACGGGGTTGGAGTATCCCCGATTGT-AGAAAT-TATA
* * *
6246186 CTTTAGGAATAAAGC
62 TTTTAGAAATAAAAC
*
6246201 CGGGGTTGGAGTATCCCCTATGAAATAACGGGGTT-GAGTATCCCCGATTGTGAGAAATCTATAT
1 CGGGGTTGGAGTATCCCCCATG-AATAACGGGGTTGGAGTATCCCCGATTGT-AGAAAT-TATAT
*
6246265 TTTAGAAATAAAGC
63 TTTAGAAATAAAAC
* * * *
6246279 CGGGGTTGGAGTATCCCCTCAAGAATAACGGGGTTGGAGTATCCCCGATTATAGAAATCAAAATT
1 CGGGGTTGGAGTATCCCC-CATGAATAACGGGGTTGGAGTATCCCCGATTGTAGAAAT-TATATT
6246344 TTAGAAATAAAAC
64 TTAGAAATAAAAC
* * * * * * * *
6246357 CAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCTGGTTGTAAAAAATTGGTGTT
1 CGGGGTTGGAGTATCCCCCATGAATAACGGGGTTGGAGTATCCCCGATTGT-AGAAATT-ATATT
* *
6246422 TTGGAAATAAAAT
64 TTAGAAATAAAAC
*
6246435 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
6246452 GGATTATAGA
Statistics
Matches: 217, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
77 28 0.13
78 143 0.66
79 46 0.21
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (76 bp):
CGGGGTTGGAGTATCCCCCATGAATAACGGGGTTGGAGTATCCCCGATTGTAGAAATTATATTTT
AGAAATAAAAC
Found at i:6246429 original size:156 final size:157
Alignment explanation
Indices: 6246122--6246451 Score: 425
Period size: 156 Copynumber: 2.1 Consensus size: 157
6246112 TCAAAAATAA
* *
6246122 CGGGGTTGGAGTATCCCCGCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAGAAATCAATAC
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAGAAATCAAAAC
* * * *
6246187 TTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTATGAAATAACGGGGTTGAGTATCCCCGATTGT
66 TTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGAGTATCCCCGATTGT
* * *
6246252 GAGAAATCTATATTTTAGAAATAAAGC
131 AAAAAATCTATATTTTAGAAATAAAAC
* *
6246279 CGGGGTTGGAGTATCCCCTC-AAGAATAACGGGGTTGGAGTATCCCCGATTAT-AGAAATCAAAA
1 CGGGGTTGGAGTATCCCCGCGAA-AATAACGAGGTTGGAGTATCCCCGATTATGAGAAATCAAAA
* * * *
6246342 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCTGGTT
65 CTTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATGAAATAACGGGGTT-GAGTATCCCCGATT
* * * *
6246406 GTAAAAAAT-TGGTGTTTTGGAAATAAAAT
129 GTAAAAAATCT-ATATTTTAGAAATAAAAC
*
6246435 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
6246452 GGATTATAGA
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
155 12 0.08
156 92 0.61
157 46 0.31
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (157 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAGAAATCAAAAC
TTTAGAAATAAAACCAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGAGTATCCCCGATTGT
AAAAAATCTATATTTTAGAAATAAAAC
Found at i:6246448 original size:51 final size:50
Alignment explanation
Indices: 6246386--6246514 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 50
6246376 ATGATTAACG
* *
6246386 GGGTTGGAGTATCCCTGG-TTGTAAAAAATTGGTGTTTTGGAAATAAAATC-
1 GGGTTGGAGTATCCC-GGATTATAAAAAATTGGTGTTTTAGAAATAAAA-CA
*
6246436 GGAGTTGGAGTATCCCGGATTATAGAAAATTGGTGTTTTAGAAATAAAACAA
1 GG-GTTGGAGTATCCCGGATTATAAAAAATTGGTGTTTTAGAAATAAAAC-A
* *
6246488 GGGTTGGAGTATCCCCGATTATGAAAA
1 GGGTTGGAGTATCCCGGATTATAAAAA
6246515 TTTGAGAAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 5 0.07
51 62 0.90
52 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCGGATTATAAAAAATTGGTGTTTTAGAAATAAAACA
Found at i:6248134 original size:19 final size:18
Alignment explanation
Indices: 6248109--6248173 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
6248099 ATTTCAACGA
6248109 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
6248127 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
6248143 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
6248159 TTTTGTATCGATACA
1 -TTTGTATCGATACA
6248174 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:6248147 original size:32 final size:32
Alignment explanation
Indices: 6248111--6248178 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
6248101 TTCAACGATT
6248111 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
6248143 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
6248175 TGTA
1 TGTA
6248179 CAGTTACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:6248148 original size:13 final size:13
Alignment explanation
Indices: 6248130--6248154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6248120 ACATAAGTGT
6248130 TGTATCGATACAA
1 TGTATCGATACAA
6248143 TGTATCGATACA
1 TGTATCGATACA
6248155 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6248244 original size:13 final size:13
Alignment explanation
Indices: 6248226--6248250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6248216 ATTACTCAAA
6248226 TGTATCGATACAT
1 TGTATCGATACAT
6248239 TGTATCGATACA
1 TGTATCGATACA
6248251 CTGATCTTTG
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:6248303 original size:52 final size:52
Alignment explanation
Indices: 6248259--6248387 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
6248249 CACTGATCTT
*
6248259 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
6248311 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * * *
6248363 TGTGTGGATATATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
6248388 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:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:6250628 original size:28 final size:28
Alignment explanation
Indices: 6250596--6250659 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
6250586 TCACAATTGA
* *
6250596 GGATACTCTAA-CCCTGTTATTTC-ATCGG
1 GGATACTCTAATCCC-GTTACTTCTA-AGG
6250624 GGATACTCTAATCCCGTTACTTCTAAGG
1 GGATACTCTAATCCCGTTACTTCTAAGG
6250652 GGATACTC
1 GGATACTC
6250660 CGACCCCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (28 bp):
GGATACTCTAATCCCGTTACTTCTAAGG
Found at i:6250708 original size:107 final size:107
Alignment explanation
Indices: 6250515--6250746 Score: 297
Period size: 107 Copynumber: 2.2 Consensus size: 107
6250505 TTTCGTAATT
* * * **
6250515 GGGGATATTCCAACCCCGTTATTTCCGAGGGGAAACTCCAACCCCAGTTTTATTTCTAAAACATT
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGGAAACTCCAACCCCAGTTTTATTTCTAAAACACC
* * * * *
6250580 AATTTTTCACAATTGAGGATACTCTAACCCTGTTA-TTTCATC
66 AATTTTTCACAATCGACGATACTCCAACCCCGTTATTTTCA-A
* * * * *
6250622 GGGGATACTCTAATCCCGTTACTTCTAAGGGGATACTCCGACCCC-GATTTTATTTCTAAAACAC
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGGAAACTCCAACCCCAG-TTTTATTTCTAAAACAC
6250686 CAATTTTTCACAATCGACGATACTCCAACCCCGTTATTTTCAA
65 CAATTTTTCACAATCGACGATACTCCAACCCCGTTATTTTCAA
6250729 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
6250747 ATTTTATTTC
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
106 1 0.01
107 100 0.94
108 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTACTTCCAAGGGGAAACTCCAACCCCAGTTTTATTTCTAAAACACC
AATTTTTCACAATCGACGATACTCCAACCCCGTTATTTTCAA
Found at i:6250719 original size:79 final size:79
Alignment explanation
Indices: 6250625--6250774 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
6250615 TTTCATCGGG
* * *
6250625 GATACTCTAATCCCGTTACTTCT-AAGGGGATACTCCGACCCCGATTTTATTTCTAAAACACCAA
1 GATACTCCAACCCCGTTA-TTCTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
6250689 TTTTTCACAATCGAC
65 TTTTTCACAATCGAC
* * *
6250704 GATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTATTTCTAGAACACCGAT
1 GATACTCCAACCCCGTTATTCTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAAT
6250769 TTTTCA
66 TTTTCA
6250775 TAGTCAGGGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 3 0.05
79 61 0.95
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTCTCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAAT
TTTTCACAATCGAC
Found at i:6254052 original size:27 final size:27
Alignment explanation
Indices: 6254001--6254052 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6253991 TTTGATTATC
*
6254001 GGGGACACTCCAACCCCGCTCTTCTGA
1 GGGGACACTCCAACCCCACTCTTCTGA
* * *
6254028 GGGGATACTCTAACCCCACTTTTCT
1 GGGGACACTCCAACCCCACTCTTCT
6254053 TCAAAATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (27 bp):
GGGGACACTCCAACCCCACTCTTCTGA
Found at i:6257375 original size:13 final size:13
Alignment explanation
Indices: 6257357--6257381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6257347 TAATTATTTT
6257357 TTAAATTAAAAAA
1 TTAAATTAAAAAA
6257370 TTAAATTAAAAA
1 TTAAATTAAAAA
6257382 GCATTTATTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAATTAAAAAA
Found at i:6257425 original size:22 final size:23
Alignment explanation
Indices: 6257400--6257460 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
6257390 TATTATTTTC
6257400 TTAATAAAATTAAAAATAA-TAT-
1 TTAATAAAATTAAAAA-AATTATA
* *
6257422 TTAATTCAATTTAAAAAAATTATA
1 TTAA-TAAAATTAAAAAAATTATA
*
6257446 TTAAAAAAATTAAAA
1 TTAATAAAATTAAAA
6257461 TATTAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.19
23 21 0.68
24 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAATAAAATTAAAAAAATTATA
Found at i:6257484 original size:115 final size:109
Alignment explanation
Indices: 6257295--6257570 Score: 308
Period size: 110 Copynumber: 2.4 Consensus size: 109
6257285 TATTTTATAA
* * *
6257295 TAAAAATAATATTTAATTAATTTTAAAAAATTACATGAATAAATTAAAATATTAATTATTTTTTA
1 TAAAAATAATATTTAATTAATTTAAAAAAATTACATTAAAAAATTAAAATATTAATTATTTTTT-
6257360 AATTAAAAAATTA-AATTAAAAAGCATTTATTATTATTTTCTTAATAAAAT
65 AATTAAAAAA-TACAATT----AGCATTTATTATTATTTT-TTAATAAAAT
*
6257410 TAAAAATAATATTTAATTCAATTTAAAAAAATTATATTAAAAAAATTAAAATATTAATTATATGT
1 TAAAAATAATATTTAATT-AATTTAAAAAAATTACATT-AAAAAATTAAAATATTAATTAT-T-T
***
6257475 TTT-A-T-AAAAATACAATTATTTTTTATTATTATTTTTTAATAAAAT
62 TTTAATTAAAAAATACAATTAGCATTTATTATTATTTTTTAATAAAAT
* * * *
6257520 AAAAAATGATATTTATTTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 TAAAAATAATATTTAATT-AATTTAAAAAAA-TTACATTAAAAAATTAAAA
6257571 AAAATAACAT
Statistics
Matches: 142, Mismatches: 13, Indels: 17
0.83 0.08 0.10
Matches are distributed among these distances:
110 48 0.34
111 21 0.15
114 2 0.01
115 27 0.19
116 17 0.12
117 22 0.15
118 1 0.01
119 4 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (109 bp):
TAAAAATAATATTTAATTAATTTAAAAAAATTACATTAAAAAATTAAAATATTAATTATTTTTTA
ATTAAAAAATACAATTAGCATTTATTATTATTTTTTAATAAAAT
Found at i:6257568 original size:23 final size:23
Alignment explanation
Indices: 6257542--6257620 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
6257532 TTATTTAAAT
6257542 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTACATTAACAAA
* * **
6257565 TTAAAAAAAATAACATTTAAGGAA
1 TTAAAAAAATTTACA-TTAACAAA
*
6257589 TTAAAAAAATTTATCATTATTCAAA
1 TTAAAAAAATTTA-CATTA-ACAAA
6257614 -TAAAAAA
1 TTAAAAAA
6257621 CCGTCTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
23 13 0.30
24 27 0.61
25 4 0.09
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (23 bp):
TTAAAAAAATTTACATTAACAAA
Found at i:6258058 original size:122 final size:124
Alignment explanation
Indices: 6257856--6258218 Score: 426
Period size: 122 Copynumber: 2.9 Consensus size: 124
6257846 AAAAAATATT
* *
6257856 ATTATAAT-AAAAA-CTTTTTAATTT-AAATTTTTTATTTT-TAAAAACATAATAATTAATATGT
1 ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTATTTTATAAAAACATAATAATTAATATTT
* **
6257917 TAATTTGTTAATGTAAATTTTTAAA-TTGAATTTAATATTATTTTTTATTTTATT-AAAA
66 TAATTTGTTAATGTAAATTTTTAAACTT-AATTAAATATTATTTTTTATTAAATTAAAAA
*
6257975 ATTATAATAAAAAACCTTTTTCTTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATT
1 ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTA-TTTTATAAAAACATAATAATTAATATT
* * *
6258039 TTAATATGTTAATGT-AATTTTTAAACTTAATTAAATATTATTTTTAATAAAATTAAAAA
65 TTAATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTATTAAATTAAAAA
* * *
6258098 ATAATAATAATAAACCATTTTTATTTTTATTTAAAATTTTTTA--TTATTAAAA-A-AATAATTA
1 ATTATAATAAAAAACC-TTTTTA----T-TTTAAAATTTTTTATTTTATAAAAACATAATAATTA
* *
6258159 ATATTTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAAATATTATTTTTTATTAAA
60 ATATTTTAATTTGTTAATGTAAA-TT-TTTAAACTTAATTAAATATTATTTTTTATTAAA
6258219 AATAATAATT
Statistics
Matches: 209, Mismatches: 18, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
119 8 0.04
120 5 0.02
121 9 0.04
122 41 0.20
123 40 0.19
124 32 0.15
125 17 0.08
126 10 0.05
127 2 0.01
128 31 0.15
129 14 0.07
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (124 bp):
ATTATAATAAAAAACCTTTTTATTTTAAAATTTTTTATTTTATAAAAACATAATAATTAATATTT
TAATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTTATTAAATTAAAAA
Found at i:6262334 original size:65 final size:65
Alignment explanation
Indices: 6262246--6262374 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
6262236 ACTTTTCAGC
* * * * *
6262246 TTTTCTATCAAAAAGTATCTGATTCTTAAATATAATTTATGCATTAGTCTAATCCTTGCAGTCTT
1 TTTTCTATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCTT
* * *
6262311 TTTTTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTTTAATCCTTACAGTCT
1 TTTTCTATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCT
6262375 GACATTTACA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (65 bp):
TTTTCTATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAGTCTT
Found at i:6262405 original size:92 final size:92
Alignment explanation
Indices: 6262307--6263029 Score: 687
Period size: 92 Copynumber: 7.9 Consensus size: 92
6262297 ATCCTTGCAG
*
6262307 TCTTTTTTT-TATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTTTAATCCTTACA
1 TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
6262371 GTCTGACATTTACAATCAATCAGTCTT
66 GTCTGACATTTACAATCAATCAGTCTT
** * * *
6262398 TCTTTTTTTCTATAAAAAAGAATCCAATTCTTAGATATAATTCAAGCATTAGTCTAATCCCTACA
1 TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
*
6262463 GTCT-AGCATTTACAATCAATCAGTTTT
66 GTCTGA-CATTTACAATCAATCAGTCTT
* * *
6262490 TCTTTTTTTTTTATAAAAAGGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTAC
1 TC-TTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTAC
*
6262555 AGTCTGACATTTACAAT--A--AGT-TA
65 AGTCTGACATTTACAATCAATCAGTCTT
* * *
6262578 AC-TTTTTTCTATAAAAAAGAATTTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCA
1 TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
** * * * * **
6262642 GTCTTTCTTTTTTCCTATAAAAAAGAATCTGAT
66 GTCTGAC--ATTTACAATCAATCAG--TCT--T
** * ** * * ** **
6262675 TCTCAGATATAATTC-ATACATTAG--TCTAATTCTCAGAGATAATTCATGCATTAACCTAATTT
1 TCT----T-TTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCC
* *
6262737 TTATAGTCTGACATTTACAATCAATCATTC-T
61 TTACAGTCTGACATTTACAATCAATCAGTCTT
* ** * *
6262768 T-TTTTTCTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATATATTAGTCTAATCTTTGCA
1 TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
*
6262832 GTCTGACATTT---A-CAATCAGTC-A
66 GTCTGACATTTACAATCAATCAGTCTT
* * * *
6262854 AC-GTTTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACA
1 TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
* * *
6262918 GTCTAACATTTACAATCAGTCA-ACTT
66 GTCTGACATTTACAATCAATCAGTCTT
* * *
6262944 T-TCTTTTTTCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTG
1 TCT-TTTTTTCTATAAAAAAG-AATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTA
* *
6263008 CAATCTAACATTTACAATCAAT
64 CAGTCTGACATTTACAATCAAT
6263030 TCTCAAATAT
Statistics
Matches: 510, Mismatches: 89, Indels: 65
0.77 0.13 0.10
Matches are distributed among these distances:
86 134 0.26
87 4 0.01
88 15 0.03
89 5 0.01
90 51 0.10
91 27 0.05
92 136 0.27
93 73 0.14
94 2 0.00
95 1 0.00
96 2 0.00
97 1 0.00
98 9 0.02
100 39 0.08
102 7 0.01
103 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.40
Consensus pattern (92 bp):
TCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
GTCTGACATTTACAATCAATCAGTCTT
Found at i:6262734 original size:30 final size:30
Alignment explanation
Indices: 6262673--6262735 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6262663 AAAGAATCTG
* **
6262673 ATTCTCAGATATAATTCATACATTAGTCTA
1 ATTCTCAGAGATAATTCATACATTAACCTA
*
6262703 ATTCTCAGAGATAATTCATGCATTAACCTA
1 ATTCTCAGAGATAATTCATACATTAACCTA
6262733 ATT
1 ATT
6262736 TTTATAGTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (30 bp):
ATTCTCAGAGATAATTCATACATTAACCTA
Found at i:6262894 original size:86 final size:86
Alignment explanation
Indices: 6262703--6263027 Score: 371
Period size: 86 Copynumber: 3.7 Consensus size: 86
6262693 CATTAGTCTA
* * ** ** ** * * *
6262703 ATTCTCAGAGATAATTCATGCATTAACCTAATTTTTATAGTCTGACATTTACAATCAATCATTCT
1 ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCA-AC-
6262768 TTTTTTCTCTATAAAAAAGAATCTG
64 -TTTTT-TCTATAAAAAAGAATCTG
* * * *
6262793 ATTCTCAGATATAATTCATATATTAGTCTAATCTTTGCAGTCTGACATTTACAATCAGTCAACGT
1 ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAACTT
*
6262858 TTTTCTATAAAAAAGAATCCG
66 TTTTCTATAAAAAAGAATCTG
* * *
6262879 ATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAGTCAACTT
1 ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAA---
*
6262944 TTCTTTTTTCTATAAAAAAGAAATCTA
63 --CTTTTTTCTATAAAAAAG-AATCTG
*
6262971 ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAATCTAACATTTACAATCA
1 ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTAACATTTACAATCA
6263028 ATTCTCAAAT
Statistics
Matches: 204, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
86 73 0.36
87 4 0.02
89 1 0.00
90 52 0.25
91 17 0.08
92 57 0.28
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (86 bp):
ATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAACTT
TTTTCTATAAAAAAGAATCTG
Found at i:6263021 original size:178 final size:176
Alignment explanation
Indices: 6262703--6263027 Score: 474
Period size: 178 Copynumber: 1.8 Consensus size: 176
6262693 CATTAGTCTA
** * *
6262703 ATTCTCAGAGATAATTCATGCATTAACCTAATTTTTATAGTCTGACATTTACAATCAATCATTCT
1 ATTCTCAGAGATAATTCATGCATTAACCTAATCCTTACAGTCTAACATTTACAATCAATCATTCT
* * * *
6262768 TTTTTTCTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATATATTAGTCTAATCTTTGCAG
66 TTTTTTCTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAA
*
6262833 TCTGACATTTACAATCAGTCAACGTTTTTCTATAAAAAAGAATCCG
131 TCTAACATTTACAATCAGTCAACGTTTTTCTATAAAAAAGAATCCG
* * ** *
6262879 ATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAGTCAACTT
1 ATTCTCAGAGATAATTCATGCATTAACCTAATCCTTACAGTCTAACATTTACAATCAATC-A-TT
6262944 -TTCTTTTT-TCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTT
64 CTT-TTTTTCTCTATAAAAAAG-AATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTT
6263007 GCAATCTAACATTTACAATCA
127 GCAATCTAACATTTACAATCA
6263028 ATTCTCAAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
176 51 0.39
177 15 0.11
178 65 0.50
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (176 bp):
ATTCTCAGAGATAATTCATGCATTAACCTAATCCTTACAGTCTAACATTTACAATCAATCATTCT
TTTTTTCTCTATAAAAAAGAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAA
TCTAACATTTACAATCAGTCAACGTTTTTCTATAAAAAAGAATCCG
Found at i:6263058 original size:57 final size:57
Alignment explanation
Indices: 6262965--6263086 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
6262955 ATAAAAAAGA
* * * *
6262965 AATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAATCTAACATTTAC
1 AATC-AATTCTCAAATATAATTCATACATCAATCTAATCCTTACAATCTAACATTTAC
* * * *
6263023 AATCAATTCTCAAATATAATTCATGCATCAATCTAATCCTTATAGTCTGACATTTAC
1 AATCAATTCTCAAATATAATTCATACATCAATCTAATCCTTACAATCTAACATTTAC
6263080 AATCAAT
1 AATCAAT
6263087 CAACTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 52 0.93
58 4 0.07
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (57 bp):
AATCAATTCTCAAATATAATTCATACATCAATCTAATCCTTACAATCTAACATTTAC
Found at i:6263177 original size:149 final size:149
Alignment explanation
Indices: 6262887--6263174 Score: 440
Period size: 145 Copynumber: 2.0 Consensus size: 149
6262877 CGATTCTTAG
* * *
6262887 ATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAGTCAACTTTTCTTTTT
1 ATATAATTCATGCATCAATCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTCTTTTT
*
6262952 TCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAATCTAAC
66 TCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAATCTAAC
6263017 ATTTACAATCAATTCTCAA
131 ATTTACAATCAATTCTCAA
* *
6263036 ATATAATTCATGCATCAATCTAATCCTTATAGTCTGACATTTACAATCAATCAAC-TTT-TTTTT
1 ATATAATTCATGCATCAATCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTCTTTTT
* * * * * *
6263099 TCTATAAAAAAG-AAT-TGATTTTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGAC
66 TCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAATCTAAC
6263162 ATTTACAATCAAT
131 ATTTACAATCAAT
6263175 CAACTTTTCT
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
145 54 0.43
146 3 0.02
147 17 0.13
148 3 0.02
149 50 0.39
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (149 bp):
ATATAATTCATGCATCAATCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTCTTTTT
TCTATAAAAAAGAAATCTAATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAATCTAAC
ATTTACAATCAATTCTCAA
Found at i:6263220 original size:237 final size:235
Alignment explanation
Indices: 6262793--6263222 Score: 639
Period size: 237 Copynumber: 1.8 Consensus size: 235
6262783 AAAGAATCTG
* * * * * * *
6262793 ATTCTCAGATATAATTCATATATTAGTCTAATCTTTGCAGTCTGACATTTACAATCAGTCAACGT
1 ATTCTCAAATATAATTCATACATCAATCTAATCCTTACAGTCTGACATTTACAATCAATCAACGT
6262858 TTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTA
66 TTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTA
* * *
6262923 ACATTTACAATCAGTCAACTTTTCTTTTTTCTATAAAAAAGAAATCTAATTCTCAGATATAATTC
131 ACATTTACAATCAATCAACTTTTCTTTTTTCCATAAAAAAGAAATCTAATTCTAAGATATAATTC
6262988 ATACATTAGTCTAATCCTTGCAATCTAACATTTACAATCA
196 ATACATTAGTCTAATCCTTGCAATCTAACATTTACAATCA
* *
6263028 ATTCTCAAATATAATTCATGCATCAATCTAATCCTTATAGTCTGACATTTACAATCAATCAACTT
1 ATTCTCAAATATAATTCATACATCAATCTAATCCTTACAGTCTGACATTTACAATCAATCAAC--
* * *
6263093 TTTTTTTCTATAAAAAAGAAT-TGATTTTTAGATATAATTCATGCATTAGTCTAATCCTTACAGT
64 -GTTTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGT
* * * *
6263157 CTGACATTTACAATCAATCAACTTTTCTTTTTTCCCATAAAAAAGAATTC-GATTTTAAGATATA
128 CTAACATTTACAATCAATCAACTTTTCTTTTTT-CCATAAAAAAGAAATCTAATTCTAAGATATA
6263221 AT
192 AT
6263223 CACATTTATT
Statistics
Matches: 172, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
235 54 0.31
237 85 0.49
238 33 0.19
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (235 bp):
ATTCTCAAATATAATTCATACATCAATCTAATCCTTACAGTCTGACATTTACAATCAATCAACGT
TTTTCTATAAAAAAGAATCCGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTA
ACATTTACAATCAATCAACTTTTCTTTTTTCCATAAAAAAGAAATCTAATTCTAAGATATAATTC
ATACATTAGTCTAATCCTTGCAATCTAACATTTACAATCA
Found at i:6263747 original size:29 final size:28
Alignment explanation
Indices: 6263698--6263753 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
6263688 TTGTTGTGAA
*
6263698 ATCGCCACTTCAAATGACGATTTCTCAAC
1 ATCGCCACCTCAAATGACGATTT-TCAAC
*
6263727 ATCGCCACCT-AATATGGCGATTTTCAA
1 ATCGCCACCTCAA-ATGACGATTTTCAA
6263754 ACTACAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
ATCGCCACCTCAAATGACGATTTTCAAC
Found at i:6264093 original size:123 final size:123
Alignment explanation
Indices: 6263846--6264206 Score: 448
Period size: 123 Copynumber: 2.9 Consensus size: 123
6263836 TATTATTTTT
*
6263846 AATAAAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAA-TTTAAA-AAA-TTACATTAACAAATTAAAATATTAATTATT
* * *** * * *
6263911 -TGTTAATAATAAAAAATTTTAAA--TAAAAATAAAAAGGGTTTATTATTATTATTTTTAATAA
63 ATGTT-TTTAT-AAAAATAAAAAATTTTAAAATAAAAA-GGTTTTTTATTATAATTTTTAATAA
*
6263972 AATTAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAAT-TTAATTATTAT
1 AATAAAAAATAATATTTAATTAA-TTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
*
6264036 GTTTTTATAAAAATGAAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTTAATAA
65 GTTTTTATAAAAATAAAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTTAATAA
* * *
6264095 AATAAAAAATAATATTCAATTCAATTTAAAAATTTACATTAATAAATTAAAATATTAATTATTAT
1 AATAAAAAATAATATTTAATT-AATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
* * *
6264160 G-TTTT-TAAAAATAAAAAATTTTAAATTAAAAAAG-TTTTTAATATAAT
65 GTTTTTATAAAAATAAAAAATTTTAAAATAAAAAGGTTTTTTATTATAAT
6264207 AATATTTTTA
Statistics
Matches: 211, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
121 12 0.06
122 35 0.17
123 85 0.40
124 48 0.23
125 3 0.01
126 28 0.13
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (123 bp):
AATAAAAAATAATATTTAATTAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATG
TTTTTATAAAAATAAAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTTAATAA
Found at i:6264198 original size:17 final size:17
Alignment explanation
Indices: 6264160--6264205 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
6264150 TAATTATTAT
6264160 GTTTTTAAAAATAAAAAA
1 GTTTTT-AAAATAAAAAA
*
6264178 --TTTTAAATTAAAAAA
1 GTTTTTAAAATAAAAAA
*
6264193 GTTTTTAATATAA
1 GTTTTTAAAATAA
6264206 TAATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (17 bp):
GTTTTTAAAATAAAAAA
Found at i:6264542 original size:23 final size:23
Alignment explanation
Indices: 6264498--6264554 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
6264488 ATAATGATAA
6264498 ATTTTTTTTAATTCCTTAAATGTT
1 ATTTTTTTTAATTCCTTAAATG-T
**
6264522 ATTTTTTTTAATTTGTT-AATGT
1 ATTTTTTTTAATTCCTTAAATGT
*
6264544 AGTTTTTTTAA
1 ATTTTTTTTAA
6264555 AATTTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 11 0.37
23 4 0.13
24 15 0.50
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.65
Consensus pattern (23 bp):
ATTTTTTTTAATTCCTTAAATGT
Done.