Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 41 of 189
Found at i:12220039 original size:21 final size:21
Alignment explanation
Indices: 12219940--12220041 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
12219930 AGCAGATGAG
* * * *
12219940 GCAGCAAGAGAAGCAAAGGCC
1 GCAGCGAGGGAAGCAGAGGCT
* * *
12219961 GCAGCGAGAGAAGTACAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
12219982 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
12220003 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
12220024 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
12220042 CAGCGTCAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.41, T:0.04
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:12220424 original size:43 final size:43
Alignment explanation
Indices: 12220372--12220611 Score: 178
Period size: 43 Copynumber: 5.6 Consensus size: 43
12220362 TTAAAAAAAA
* ** * *
12220372 CGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAG
1 CGCCACTAAAGATAATGGTCTTTAGTGGCGTTTGTGGTCAAAG
* * * **
12220415 CGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAG
1 CGCCACTAAAGATAATGGTCTTTAGTGGCGTTTGTGGTCAAAG
* *
12220458 CGCCACTAAAGATCATAGTCTTTAGTGGCGTTTGTGGTCAAAG
1 CGCCACTAAAGATAATGGTCTTTAGTGGCGTTTGTGGTCAAAG
* * * * * * **
12220501 CGCCGCTATAGATCAGGGTCTATTA-CGGCGTTTGAGGGGAAAG
1 CGCCACTAAAGATAATGGTCT-TTAGTGGCGTTTGTGGTCAAAG
* *** * * * *
12220544 CGCCGCTAAAGACCCTGATCTTTTGTGGCGTTTTTGG-GAGAAG
1 CGCCACTAAAGATAATGGTCTTTAGTGGCGTTTGTGGTCA-AAG
* *
12220587 CGCCGCTAAAGATAAGGGTCTTTAG
1 CGCCACTAAAGATAATGGTCTTTAG
12220612 CGTTGCTTCC
Statistics
Matches: 154, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
42 4 0.03
43 147 0.95
44 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
CGCCACTAAAGATAATGGTCTTTAGTGGCGTTTGTGGTCAAAG
Found at i:12220496 original size:86 final size:86
Alignment explanation
Indices: 12220391--12220613 Score: 299
Period size: 86 Copynumber: 2.6 Consensus size: 86
12220381 AGGTGTTGGC
*
12220391 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
*
12220456 AGCGCCACTAAAGATCAT-AGT
66 AGCGCCACTAAAGACCATGA-T
* * * **
12220477 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTA-CGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAGGAAA
* *
12220541 AAGCGCCGCTAAAGACCCTGAT
65 AAGCGCCACTAAAGACCATGAT
* *
12220563 CTTTTGTGGCGTTTTTGG-GAGAAGCGCCGCTAAAGATAAGGGTCTTTAGCG
1 CTTTAGTGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCG
12220614 TTGCTTCCAC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 4 0.03
86 111 0.93
87 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (86 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
AGCGCCACTAAAGACCATGAT
Found at i:12221475 original size:3 final size:3
Alignment explanation
Indices: 12221467--12221514 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
12221457 ATGTGTAAGT
* * * *
12221467 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATT ATT ATA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12221514 A
1 A
12221515 CCACTATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:12225129 original size:28 final size:28
Alignment explanation
Indices: 12225083--12225140 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
12225073 GAACTAATAA
*
12225083 AGGTATCAACTTGAAAAAAAAATTAGTTT
1 AGGTATCAACTTGAAAAAAAAAAT-GTTT
**
12225112 AGGTATC-ACTTGTGAAAAAAAATGTTT
1 AGGTATCAACTTGAAAAAAAAAATGTTT
12225139 AG
1 AG
12225141 ATACCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 13 0.50
29 7 0.27
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGTATCAACTTGAAAAAAAAAATGTTT
Found at i:12227027 original size:15 final size:15
Alignment explanation
Indices: 12227007--12227045 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12226997 AGTATTTTTG
12227007 AACAAG-TTCCTGGAT
1 AACAAGCTT-CTGGAT
12227022 AACAAGCTTCTGGAT
1 AACAAGCTTCTGGAT
*
12227037 AATAAGCTT
1 AACAAGCTT
12227046 AAAGGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (15 bp):
AACAAGCTTCTGGAT
Found at i:12227077 original size:15 final size:17
Alignment explanation
Indices: 12227057--12227102 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
12227047 AAGGTTTTCT
12227057 TATTGATGATA-T-CGA
1 TATTGATGATAGTACGA
*
12227072 TATTGATAATAGTGACGA
1 TATTGATGATAGT-ACGA
*
12227090 TATTGATGCTAGT
1 TATTGATGATAGT
12227103 GATGCTATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 10 0.40
16 1 0.04
18 14 0.56
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.39
Consensus pattern (17 bp):
TATTGATGATAGTACGA
Found at i:12231058 original size:18 final size:17
Alignment explanation
Indices: 12230999--12231063 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 17
12230989 AAGAAAAGAT
12230999 AAATAAATAAAATGTCAAAC
1 AAAT-AATAAAA-GT-AAAC
* *
12231019 ATATAATAAAAGGAAATC
1 AAATAATAAAAGTAAA-C
12231037 -AATAATTAAAAGTAAAC
1 AAATAA-TAAAAGTAAAC
12231054 AAATAA-AAAA
1 AAATAATAAAA
12231064 AATTAAAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.11
17 8 0.21
18 16 0.42
19 7 0.18
20 3 0.08
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAATAAAAGTAAAC
Found at i:12232638 original size:23 final size:23
Alignment explanation
Indices: 12232608--12232652 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12232598 GGGCCTTAAA
*
12232608 CATTGGGC-CTCGGGTTTGGGTTG
1 CATTGGGCTC-CGGGGTTGGGTTG
12232631 CATTGGGCTCCGGGGTTGGGTT
1 CATTGGGCTCCGGGGTTGGGTT
12232653 CAAATGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.04, C:0.18, G:0.44, T:0.33
Consensus pattern (23 bp):
CATTGGGCTCCGGGGTTGGGTTG
Found at i:12233038 original size:100 final size:99
Alignment explanation
Indices: 12232860--12233398 Score: 893
Period size: 100 Copynumber: 5.4 Consensus size: 99
12232850 GTCTTGCCGA
* * * * *
12232860 GGAAATAAGATTCGCCGTTGCGGTTTCAATATTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAAT-CTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
* *
12232925 TGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTG
65 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
12232960 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
12233025 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
65 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
*
12233060 GG-AGTAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCC
12233124 GTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
66 GTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
*
12233158 GGAAGTAAGATTCATCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATC-TTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
*
12233223 CGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTG
65 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
* * *
12233258 GG-AGTAAGATTCACCATTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCT
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCC
*
12233322 GTTGTAGCTTCAATCTGCTCTGCTGCATCGCCTG
66 GTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
* *
12233356 GGAAGTAAGATTTACCATTGTGGCTTCAATCTTTGAATTGCAA
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAA
12233399 ACTATGGTTT
Statistics
Matches: 417, Mismatches: 18, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
98 135 0.32
99 120 0.29
100 162 0.39
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (99 bp):
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCC
GTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
Found at i:12233230 original size:198 final size:198
Alignment explanation
Indices: 12232865--12233398 Score: 935
Period size: 198 Copynumber: 2.7 Consensus size: 198
12232855 GCCGAGGAAA
* * * * *
12232865 TAAGATTCGCCGTTGCGGTTTCAATATTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCTGTTG
1 TAAGATTCACCGTTGTGGCTTCAAT-CTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCTGTTG
*
12232930 TAGCTTCAATCTGCTCCGCTGCATCACCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
65 TAGCTTCAATCTGCTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
*
12232995 GAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTG
130 GAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTG
12233060 GGAG
195 GGAG
*
12233064 TAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCCGTTGT
1 TAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCTGTTGT
*
12233129 AGCTTCAATCTGCTCCGCTGCATCGCCTGGGAAGTAAGATTCATCGTTGTGGCTTCAATCTTTTG
66 AGCTTCAATCTGCTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTG
12233194 AATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTGG
131 AATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTGG
12233259 GAG
196 GAG
*
12233262 TAAGATTCACCATTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCTGTTGT
1 TAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCTGTTGT
* * *
12233327 AGCTTCAATCTGCTCTGCTGCATCGCCTGGGAAGTAAGATTTACCATTGTGGCTTCAATC-TTTG
66 AGCTTCAATCTGCTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTG
12233391 AATTGCAA
131 AATTGCAA
12233399 ACTATGGTTT
Statistics
Matches: 320, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
197 12 0.04
198 286 0.89
199 22 0.07
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (198 bp):
TAAGATTCACCGTTGTGGCTTCAATCTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCTGTTGT
AGCTTCAATCTGCTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTG
AATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCACCTGG
GAG
Found at i:12233367 original size:50 final size:50
Alignment explanation
Indices: 12232909--12233387 Score: 369
Period size: 50 Copynumber: 9.7 Consensus size: 50
12232899 TGCAATGTCG
* * * *
12232909 GGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCACCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
* * * * * *
12232959 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT--TTTGAATTGCAAT-GTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTG--CTGC-ATCGCCT
* *
12233009 GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
* * * * *
12233059 GGG-AGTAAGATTCACCGTTGTGGCTTCAATCT--T-TGAATTGCAAT-GTCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTG--CTGC-ATCGCCT
* *
12233107 GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
** * * * * *
12233157 GGGAAGTAAGATTCATCGTTGTGGCTTCAATCT--TTTGAATTGCAAT-GTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTG--CTGC-ATCGCCT
* * *
12233207 GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCATCACCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
* * * * * *
12233257 GGG-AGTAAGATTCACCATTGTGGCTTCAATCT--T-TGAATTGCAAT-GTCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTG--CTGC-ATCGCCT
* *
12233305 GGGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
** * *
12233355 GGGAAGTAAGATTTACCATTGTGGCTTCAATCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
12233388 TTGAATTGCA
Statistics
Matches: 327, Mismatches: 74, Indels: 56
0.72 0.16 0.12
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 19 0.06
49 113 0.35
50 178 0.54
51 6 0.02
52 7 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCT
Found at i:12241503 original size:14 final size:14
Alignment explanation
Indices: 12241484--12241510 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12241474 GATTTTTCGT
12241484 TTCTTATTATTTTG
1 TTCTTATTATTTTG
12241498 TTCTTATTATTTT
1 TTCTTATTATTTT
12241511 TATTTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTATTATTTTG
Found at i:12244345 original size:21 final size:21
Alignment explanation
Indices: 12244319--12244359 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12244309 AGACGAGCAA
* *
12244319 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
12244340 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
12244360 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:12250172 original size:66 final size:65
Alignment explanation
Indices: 12250065--12250235 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 65
12250055 GAGCAAATTA
* * * *
12250065 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
12250129 G
65 G
* *
12250130 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
12250195 G
65 G
* *
12250196 CAGCAGCTTAAAGCAGATG-AGGCAGCAAGAGAAGCTGAGG
1 CA-CAACTTAAAGCAGATGCA-GCAGCGAGAGAAGCTGAGG
12250236 CCGCAGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
65 3 0.03
66 86 0.92
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:12250318 original size:21 final size:21
Alignment explanation
Indices: 12250217--12250318 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
12250207 AGCAGATGAG
* * * *
12250217 GCAGCAAGAGAAGCTGAGGCC
1 GCAGCGAGGGAAGCAGAGGCT
* * * *
12250238 GCAGCGAGAGAAGTACAGGAT
1 GCAGCGAGGGAAGCAGAGGCT
*
12250259 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
12250280 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
12250301 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
12250319 CAGCGTCAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:12250717 original size:43 final size:43
Alignment explanation
Indices: 12250670--12250975 Score: 226
Period size: 43 Copynumber: 7.1 Consensus size: 43
12250660 AGGTGTTGGC
* *
12250670 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * **
12250713 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATAGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
12250756 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** * ** *
12250799 CTATT-GAGGCGTTTGAGGGGAAAGCGCCGCTAAAGACCCTGAT
1 CT-TTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
12250842 CTTTAGTGGCGTTTTTGG-GAGAAGCGCCACTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCAGGGT
* * * **** * ***
12250885 CTTTAGCGGTGCTTCCACT-AAAGCGCCGCTAAAGGTCTTAGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
12250927 CTTCAGCGGCGTTTGT-G-CAAGATGCACCGCTAAAGATCAGGGT
1 CTTTAGTGGCGTTTGTGGTCAA-A-GCGCCGCTAAAGATCAGGGT
12250970 CTTTAG
1 CTTTAG
12250976 CAGCGCATTC
Statistics
Matches: 198, Mismatches: 58, Indels: 14
0.73 0.21 0.05
Matches are distributed among these distances:
41 2 0.01
42 32 0.16
43 162 0.82
44 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:12250775 original size:86 final size:85
Alignment explanation
Indices: 12250670--12250976 Score: 291
Period size: 86 Copynumber: 3.6 Consensus size: 85
12250660 AGGTGTTGGC
*
12250670 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTGTGG-CAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
*
12250735 AGCGCCACTAAAGATCATAGT
65 AGCGCCGCTAAAGATCATAGT
* * * * **
12250756 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GAGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTGTGG-CAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGTGGAAA
* *
12250820 AAGCGCCGCTAAAGACCCT-GAT
64 AAGCGCCGCTAAAGATCATAG-T
* * * * * ** *
12250842 CTTTAGTGGCGTTTTTGGGAGAAGCGCCACTAAAGATAAGGGTCTTTAGCGGTG-CT-TCCACTA
1 CTTTAGTGGCGTTTGTGGCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGA-AA
* *
12250905 AAGCGCCGCTAAAGGTCTTAGT
64 AAGCGCCGCTAAAGATCATAGT
* * * *
12250927 CTTCAGCGGCGTTTGT-GCAAGATGCACCGCTAAAGATCAGGGTCTTTAGC
1 CTTTAGTGGCGTTTGTGGCAA-A-GCGCCGCTAAAGATAAGGGTCTTTAGC
12250977 AGCGCATTCA
Statistics
Matches: 180, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
83 1 0.01
84 3 0.02
85 60 0.33
86 114 0.63
87 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (85 bp):
CTTTAGTGGCGTTTGTGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
GCGCCGCTAAAGATCATAGT
Found at i:12251669 original size:3 final size:3
Alignment explanation
Indices: 12251661--12251711 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
12251651 ATGTGTAAGT
* * * *
12251661 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATT ATT ATA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12251708 ATA A
1 ATA A
12251712 CCACTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:12253159 original size:50 final size:50
Alignment explanation
Indices: 12253089--12253564 Score: 212
Period size: 50 Copynumber: 9.5 Consensus size: 50
12253079 CGGAGAAACC
* * * *
12253089 AGATCCACCGTTATGACTTCAATCTGCTACACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
* * ** * * * *
12253139 AGATTCGCCGTTGTGGCTTCAATCTTTTTA-ATTGCGCTGTC-GAAGAAATCA
1 AGATCCGCCGTTGTGACTTCAATC-TGCTACATTGCACTGCCAG-GGAAGT-A
* * * **
12253190 A-ATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCACCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
* * * * ** * ** ***
12253239 AGATCTGCTGTTGTGGCTTCAAAAATTTTTTA-ATTGCGCTATC-GAGGAAACC
1 AGATCCGCCGTTGTGACTTC---AATCTGCTACATTGCACTGCCAG-GGAAGTA
* ** *
12253291 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACCACCAAGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
* * * * ** * * * ***
12253341 AGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTGTC-GGAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGG-GAAGTA
* * * *
12253391 AGATCCGCCGTTATGACTTTAATCTGCT-CACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
*** * ** * ** * ***
12253440 AGATCCGTTATTGTGGCTTCAATCTTTTTA-ATTGCGCTATCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATC-TGCTACATTGCACTGCCAGGGAAGTA
* * * *
12253490 AGATCCACCGTTGTGACTTCAATCTGCTCCACTACACTGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
*
12253540 AGATCCGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTTGTGACTTCAATCT
12253565 TTTTAATTCC
Statistics
Matches: 287, Mismatches: 122, Indels: 34
0.65 0.28 0.08
Matches are distributed among these distances:
49 41 0.14
50 207 0.72
51 7 0.02
52 27 0.09
53 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTACATTGCACTGCCAGGGAAGTA
Found at i:12253200 original size:100 final size:100
Alignment explanation
Indices: 12253015--12253572 Score: 764
Period size: 100 Copynumber: 5.6 Consensus size: 100
12253005 CTCAAGTCCA
* *
12253015 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTACGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
12253080 GGAGAAACCAGATCCACCGTTATGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
12253115 CTACACTGCACCGCCAGGGAAGTAAGAT-TCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
1 CTCCACTGCACCACCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
* * *
12253179 CGAAGAAATCAAATCCGCCGTTGTGACTTCAATCTG
65 CGGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
12253215 CTCCACTACACCACCAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCT
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTC---AATCTTTTTAATTGCGCT
*
12253279 ATC-GAGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
63 GTCGGA-GAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * *
12253317 CTCCATTGCACCACCAAGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
12253382 GGAGAAACCAGATCCGCCGTTATGACTTTAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *** *
12253417 CT-CACTGCACCGCCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTATC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
12253481 GGGGAAACCAGATCCACCGTTGTGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* ** *
12253516 CTCCACTACACTGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATT
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATT
12253573 CCAATGCCAA
Statistics
Matches: 406, Mismatches: 43, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
99 89 0.22
100 223 0.55
101 4 0.01
102 87 0.21
103 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (100 bp):
CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:12253581 original size:50 final size:50
Alignment explanation
Indices: 12253428--12253581 Score: 123
Period size: 50 Copynumber: 3.1 Consensus size: 50
12253418 TCACTGCACC
*** *
12253428 GCCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTAT
1 GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATT-C-CAAT
* *** * * ** ** * * *
12253480 --CGGGGAAACCAGATCCACCGTTGTGACTTCAATCTGCTCCACTACACT
1 GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTCCAAT
12253528 GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTCCAAT
1 GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTCCAAT
12253578 GCCA
1 GCCA
12253582 AAGAGATAAG
Statistics
Matches: 70, Mismatches: 30, Indels: 6
0.66 0.28 0.06
Matches are distributed among these distances:
48 2 0.03
50 68 0.97
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
GCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTCCAAT
Found at i:12255000 original size:15 final size:14
Alignment explanation
Indices: 12254982--12255031 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
12254972 TTAGCCTCTC
12254982 CATTTTTATTTTTT
1 CATTTTTATTTTTT
12254996 CCATTTTTCA-TTTTT
1 -CATTTTT-ATTTTTT
12255011 CATTTTT-TTATTTT
1 CATTTTTATT-TTTT
12255025 CATTTTT
1 CATTTTT
12255032 TCACATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.03
14 18 0.56
15 12 0.38
16 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTATTTTTT
Found at i:12255002 original size:8 final size:7
Alignment explanation
Indices: 12254982--12255031 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
12254972 TTAGCCTCTC
12254982 CATTTTT
1 CATTTTT
12254989 -ATTTTTT
1 CA-TTTTT
12254996 CCATTTTT
1 -CATTTTT
12255004 CATTTTT
1 CATTTTT
12255011 CATTTTT
1 CATTTTT
*
12255018 -TTATTTT
1 CAT-TTTT
12255025 CATTTTT
1 CATTTTT
12255032 TCACATCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.06
7 27 0.75
8 6 0.17
9 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:12261506 original size:25 final size:24
Alignment explanation
Indices: 12261477--12261525 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
12261467 ACACCATTTA
*
12261477 TTTCTCCTTTCATCTTCCTCTTTTT
1 TTTCTCCTTTCATCCTCC-CTTTTT
*
12261502 TTTCTCCTTTCTTCCTCCCTTTTT
1 TTTCTCCTTTCATCCTCCCTTTTT
12261526 CTCTTATCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTCTCCTTTCATCCTCCCTTTTT
Found at i:12262544 original size:22 final size:22
Alignment explanation
Indices: 12262475--12262550 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
12262465 GGAGGAAGTG
*
12262475 CTACTGGCGGTTTATTCGCATAT
1 CTACTGGCGG-TTATTTGCATAT
* * * * *
12262498 CTACTGGAAGTTTATCTACAAAT
1 CTACTGG-CGGTTATTTGCATAT
*
12262521 CTGCTGGCGGTTATTTGCATAT
1 CTACTGGCGGTTATTTGCATAT
12262543 CTACTGGC
1 CTACTGGC
12262551 AGTATATCCA
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
22 17 0.44
23 21 0.54
24 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (22 bp):
CTACTGGCGGTTATTTGCATAT
Found at i:12263632 original size:100 final size:97
Alignment explanation
Indices: 12263522--12263805 Score: 292
Period size: 100 Copynumber: 2.9 Consensus size: 97
12263512 TAAAATATTT
12263522 CTTTTAACATAATGATATATAAAAATATATATTTCCATTATATAATTACATATTTATTATTTTAT
1 CTTTTAACATAATGATATATAAAAATATATATTT-CATTATATAATTACATATTTATTATTTTAT
**
12263587 TTATATAAATAATGGAAG-TATTAATTTAAAAAATA
65 TTATATAAATAAAAG-AGTTATTAATTT--AAAATA
* * * * *
12263622 TTTTTGACATAATGATATATATAAAATGTACATTTTATTATATAATTAC--ATTT-TTA--TTAT
1 CTTTTAACATAATGATATATA-AAAATATATATTTCATTATATAATTACATATTTATTATTTTAT
*
12263682 TTTTATAAATAAAAGAGTTATTAATTTAAAATA
65 TTATATAAATAAAAGAGTTATTAATTTAAAATA
* * * * *
12263715 CATTTAACATAATGATTTATGTAAAAATATATATATTTTGATTATATAAGTACATGTTTATTATT
1 CTTTTAACATAATGA--TATAT-AAAA-ATATATA-TTTCATTATATAATTACATATTTATTATT
* * *
12263780 TTGTTTATATAAATAAATGATTTATT
61 TTATTTATATAAATAAAAGAGTTATT
12263806 GTAACACCCC
Statistics
Matches: 151, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
93 18 0.12
94 2 0.01
95 32 0.21
96 6 0.04
97 18 0.12
98 4 0.03
99 3 0.02
100 35 0.23
101 11 0.07
102 22 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (97 bp):
CTTTTAACATAATGATATATAAAAATATATATTTCATTATATAATTACATATTTATTATTTTATT
TATATAAATAAAAGAGTTATTAATTTAAAATA
Found at i:12263787 original size:28 final size:29
Alignment explanation
Indices: 12263748--12263805 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
12263738 AAAATATATA
* *
12263748 TATTTTGATTATATAAGTACATG-TTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
*
12263776 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
12263805 T
1 T
12263806 GTAACACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TATTTTGATTATATAAATAAATGATTTAT
Found at i:12276014 original size:15 final size:17
Alignment explanation
Indices: 12275974--12276015 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
12275964 TGTAATAATT
*
12275974 AAATATTGTTGGTGTAG
1 AAATATTATTGGTGTAG
*
12275991 AAATCTTATTGGT-TA-
1 AAATATTATTGGTGTAG
12276006 AAATATTATT
1 AAATATTATT
12276016 ATACTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATATTATTGGTGTAG
Found at i:12277621 original size:16 final size:16
Alignment explanation
Indices: 12277585--12277624 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
12277575 TTAAAAGTCC
12277585 AAAAAATATATTTAAT
1 AAAAAATATATTTAAT
* *
12277601 AAAAAGTATATTTGAT
1 AAAAAATATATTTAAT
*
12277617 TAAAAATA
1 AAAAAATA
12277625 AATAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAAAATATATTTAAT
Found at i:12277632 original size:40 final size:38
Alignment explanation
Indices: 12277526--12277641 Score: 115
Period size: 41 Copynumber: 2.9 Consensus size: 38
12277516 GGCCCGTCCC
* ** * *
12277526 ATATTTGATTAAAAATAAAAATATATATATGTTTAATAT
1 ATATTTGATTAAAAATAAAAA-ATATATTTAATAAAAAT
*
12277565 ATAATTCTGATTAAAAGTCCAAAAAATATATTTAATAAAAAGT
1 AT-ATT-TGATTAAAAAT--AAAAAATATATTTAATAAAAA-T
12277608 ATATTTGATTAAAAATAAATAAATATATTTAATA
1 ATATTTGATTAAAAATAAA-AAATATATTTAATA
12277642 TAATTCGGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
39 5 0.08
40 17 0.27
41 20 0.31
42 14 0.22
43 8 0.12
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (38 bp):
ATATTTGATTAAAAATAAAAAATATATTTAATAAAAAT
Found at i:12278955 original size:8 final size:8
Alignment explanation
Indices: 12278942--12278974 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
12278932 GGGATGCATT
12278942 GAAGTTGA
1 GAAGTTGA
12278950 GAAGTTGA
1 GAAGTTGA
12278958 GAAGTTGA
1 GAAGTTGA
12278966 GAAGTTGA
1 GAAGTTGA
12278974 G
1 G
12278975 CTTGGTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.24
Consensus pattern (8 bp):
GAAGTTGA
Found at i:12291728 original size:97 final size:97
Alignment explanation
Indices: 12291562--12291758 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 97
12291552 ATTCGCAAAA
*
12291562 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTACAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
*
12291627 TCGAGATCGTCGTTGGATGCTGAGTCGGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
*
12291659 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
**
12291724 TCGAGATAGTCGTTGGATGCTGAGTTTGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
12291756 CAA
1 CAA
12291759 AAGAGAGCAC
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (97 bp):
CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
Found at i:12292485 original size:74 final size:73
Alignment explanation
Indices: 12292407--12292657 Score: 327
Period size: 74 Copynumber: 3.5 Consensus size: 73
12292397 CTGATGGAAG
* * *
12292407 TTGCGCCCAATGCTAATTGGATAAATCGACG-AATAATTAGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGTGCTAGTCGGATAAATCGACGAAATAATTAGT-AG-CCAGCTCTAGTTGGATAAA
12292471 CCAATGATAT
64 CCAATGATAT
*
12292481 TTGCGCCCACTGCTAGTCGGATAAA-CAGACGAAATAATTAGTAAGCCTAGCTCTAGTTGGATAA
1 TTGCGCCCAGTGCTAGTCGGATAAATC-GACGAAATAATTAGT-AGCC-AGCTCTAGTTGGATAA
*
12292545 ACCAACGATAT
63 ACCAATGATAT
*
12292556 TAT--GCCCAGTGCTAGTCGGATAAATCGATGAAATAATTAGTA---AGCTCTAGTTGGATAAAC
1 T-TGCGCCCAGTGCTAGTCGGATAAATCGACGAAATAATTAGTAGCCAGCTCTAGTTGGATAAAC
12292616 CAATGATAT
65 CAATGATAT
**
12292625 TTGCGCCCAGTGCTAGTCGGATAAGCCGACGAA
1 TTGCGCCCAGTGCTAGTCGGATAAATCGACGAA
12292658 TGTGTGTCCG
Statistics
Matches: 159, Mismatches: 11, Indels: 18
0.85 0.06 0.10
Matches are distributed among these distances:
68 1 0.01
69 27 0.17
70 26 0.16
73 2 0.01
74 62 0.39
75 40 0.25
76 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (73 bp):
TTGCGCCCAGTGCTAGTCGGATAAATCGACGAAATAATTAGTAGCCAGCTCTAGTTGGATAAACC
AATGATAT
Found at i:12292497 original size:35 final size:34
Alignment explanation
Indices: 12292449--12292648 Score: 106
Period size: 35 Copynumber: 5.6 Consensus size: 34
12292439 ATAATTAGTG
*
12292449 AGCCCAGCTCTAGTTGGATAAACCAATGATATTT
1 AGCCCAGCTCTAGTCGGATAAACCAATGATATTT
* *
12292483 GCGCCCA-CTGCTAGTCGGATAAA-CAGACGAAATAATTAGT
1 -AGCCCAGCT-CTAGTCGGATAAACCA-ATG--AT-ATT--T
* * *
12292523 AAGCCTAGCTCTAGTTGGATAAACCAACGATA-TT
1 -AGCCCAGCTCTAGTCGGATAAACCAATGATATTT
* * *
12292557 ATGCCCAG-TGCTAGTCGGATAAATCGATGAAATAATT
1 A-GCCCAGCT-CTAGTCGGATAAACCAATG--ATATTT
** *
12292594 AG-TAAGCTCTAGTTGGATAAACCAATGATATTT
1 AGCCCAGCTCTAGTCGGATAAACCAATGATATTT
*
12292627 GCGCCCAG-TGCTAGTCGGATAA
1 -AGCCCAGCT-CTAGTCGGATAA
12292649 GCCGACGAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
33 7 0.06
34 27 0.22
35 50 0.40
36 6 0.05
37 6 0.05
38 5 0.04
40 20 0.16
41 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (34 bp):
AGCCCAGCTCTAGTCGGATAAACCAATGATATTT
Found at i:12294169 original size:30 final size:31
Alignment explanation
Indices: 12294130--12294189 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
12294120 GGAGGTGGGA
12294130 TGGGAAGGGAATAAAAATTTTAG-GGGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GTGGGAAAAG
*
12294161 TGGG-AGGGAGTAAAAATTTTGTGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGTGGGAAAA
12294190 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 22 0.81
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGTGGGAAAAG
Found at i:12294386 original size:9 final size:9
Alignment explanation
Indices: 12294372--12294396 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12294362 TATAGTTTGA
12294372 TATTCGAAT
1 TATTCGAAT
12294381 TATTCGAAT
1 TATTCGAAT
12294390 TATTCGA
1 TATTCGA
12294397 GCTATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12294918 original size:7 final size:7
Alignment explanation
Indices: 12294894--12294930 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
12294884 TAATTGTTAC
12294894 TATATAA
1 TATATAA
12294901 T-TA-ATA
1 TATATA-A
12294907 TATATAA
1 TATATAA
12294914 TATATAA
1 TATATAA
12294921 TATATAA
1 TATATAA
12294928 TAT
1 TAT
12294931 CCTTATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 1 0.04
6 4 0.15
7 21 0.78
8 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:12298187 original size:74 final size:76
Alignment explanation
Indices: 12298094--12298305 Score: 180
Period size: 74 Copynumber: 2.8 Consensus size: 76
12298084 AAAAATGTGT
** * ** * *
12298094 GCCCAGCACTAGTCAGATAAACTGACGGA-AGTTGCGCTTTA-CTCTAGTTGGATAAACCGACG-
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGC-CCAGCGCTAGTTGGATAAACCGAAGA
12298156 AATAATTAGTGA
65 AATAATTAGTGA
* * * *
12298168 GCCCAGCTCTAGTTGGATAAACAAAC-GATATTTGCGCCCAGCGCTAGTTGGATAAACTGAAGAA
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
12298232 ATAATTAGTGA
66 ATAATTAGTGA
* * * * * * * *
12298243 ACCCAACACTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAGCTCTAGTTGGATAAACC
1 GCCCAGCACTAGTTGGATAAACAGACG-GAT-AGT--TGCGCCCAGCGCTAGTTGGATAAACC
12298306 AATGATATTT
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.03
74 46 0.42
75 32 0.29
77 2 0.02
78 3 0.03
80 23 0.21
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (76 bp):
GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
ATAATTAGTGA
Found at i:12298273 original size:40 final size:39
Alignment explanation
Indices: 12298135--12298347 Score: 217
Period size: 40 Copynumber: 5.6 Consensus size: 39
12298125 TTGCGCTTTA
12298135 CTCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAG
1 CTCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAG
** *
12298174 CTCTAGTTGGATAAACAAACG-AT-ATT--TGCGCCCAG
1 CTCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAG
* * * * *
12298209 CGCTAGTTGGATAAACTGAAGAAATAATTAGTGAACCCAA
1 CTCTAGTTGGATAAACCGACG-AATAATTAGTGAGCCCAG
* *
12298249 CACTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAG
1 CTCTAGTTGGATAAACCGACG-AATAATTAGTGAGCCCAG
* * * *
12298289 CTCTAGTTGGATAAACCAATG-AT-ATT--TGCGCCCAA
1 CTCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAG
*
12298324 CGCTAGTTGGATAAACCGACGAAT
1 CTCTAGTTGGATAAACCGACGAAT
12298348 GTGTGGCCAG
Statistics
Matches: 143, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
35 50 0.35
36 2 0.01
37 8 0.06
38 7 0.05
39 19 0.13
40 57 0.40
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
CTCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAG
Found at i:12301298 original size:27 final size:27
Alignment explanation
Indices: 12301215--12301416 Score: 171
Period size: 27 Copynumber: 7.6 Consensus size: 27
12301205 CTCGATGGGG
* ** *
12301215 AAAATGACCGAAAT-ACCCCATAGGAT
1 AAAATGACCGTAATGACCCTGTAGGGT
* *
12301241 GAAATGACCGTAA-CACCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
12301267 AAAATGACTGTAATGAACCTATAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* **
12301294 AAAATGACCGTAAT-TCTTTTGTAGGGT
1 AAAATGACCGTAATGAC-CCTGTAGGGT
* *
12301321 AAAATGACCATAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
12301348 AAAATAACTGTAAT-ACCCCTATAGGGT
1 AAAATGACCGTAATGA-CCCTGTAGGGT
**
12301375 AAAATGTTCGTAATG-CCCTTGTAGGGT
1 AAAATGACCGTAATGACCC-TGTAGGGT
12301402 AAAATGACCGTAATG
1 AAAATGACCGTAATG
12301417 CTCTAGTGGG
Statistics
Matches: 137, Mismatches: 32, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
26 34 0.25
27 102 0.74
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
AAAATGACCGTAATGACCCTGTAGGGT
Found at i:12301348 original size:81 final size:81
Alignment explanation
Indices: 12301256--12301417 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
12301246 GACCGTAACA
* * **
12301256 CCCTGTAGGGTAAAATGACTGTAATGA-ACCTATAGGGTAAAATGACCGTAATTCTTTTGTAGGG
1 CCCTGTAGGGTAAAATAACTGTAAT-ACACCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGG
12301320 TAAAATGACCATAATGC
65 TAAAATGACCATAATGC
* **
12301337 CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGTTCGTAATGCCCTTGTAGGGT
1 CCCTGTAGGGTAAAATAACTGTAATACACCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
*
12301402 AAAATGACCGTAATGC
66 AAAATGACCATAATGC
12301418 TCTAGTGGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (81 bp):
CCCTGTAGGGTAAAATAACTGTAATACACCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
AAAATGACCATAATGC
Found at i:12301417 original size:27 final size:27
Alignment explanation
Indices: 12301242--12301430 Score: 177
Period size: 27 Copynumber: 7.1 Consensus size: 27
12301232 CCATAGGATG
**
12301242 AAATGACCGTAACACCC-TGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * *
12301268 AAATGACTGTAATGAACC-TATAGGGTA
1 AAATGACCGTAATG-CCCTTGTAGGGTA
* **
12301295 AAATGACCGTAATTCTTTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
12301322 AAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * * * *
12301349 AAATAACTGTAATACCCCTATAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
**
12301376 AAATGTTCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
12301403 AAATGACCGTAATGCTCTAGT-GGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
12301429 AA
1 AA
12301431 TGATTATTTT
Statistics
Matches: 129, Mismatches: 32, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
26 18 0.14
27 111 0.86
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
AAATGACCGTAATGCCCTTGTAGGGTA
Found at i:12301514 original size:24 final size:25
Alignment explanation
Indices: 12301480--12301526 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
12301470 CTGTGGTTTA
*
12301480 ATGACTGATTTGTCTGTG-TTTGGT
1 ATGACTAATTTGTCTGTGATTTGGT
12301504 ATGACTAATTTGTCTGTGATTTG
1 ATGACTAATTTGTCTGTGATTTG
12301527 AATGCTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.49
Consensus pattern (25 bp):
ATGACTAATTTGTCTGTGATTTGGT
Found at i:12301802 original size:32 final size:32
Alignment explanation
Indices: 12301705--12301942 Score: 146
Period size: 32 Copynumber: 7.5 Consensus size: 32
12301695 GCTACGATGC
* * *
12301705 TACTGATGGCTTTGTGCCGATCATAATACCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
12301737 TACTGGTGGCTTTGTGCTA-ATCATAGTACCGT
1 TACTGATGGCTTTGTAC-AGATCATATTACCGT
* *
12301769 TACTGATGGCTTTGTACAGATTATATTATCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
12301801 TACCGATGG-TTATAG-ACCGATCATGTTACCGT
1 TACTGATGGCTT-T-GTACAGATCATATTACCGT
* * * * *
12301833 TACTGATGGCTGTGTACTGATCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * * * * * *
12301865 TATTGATGGCTGTGTGCCGACCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * *
12301897 TACTGATGGCTTTTTGCA-ATCACATTACTG-
1 TACTGATGGCTTTGTACAGATCATATTACCGT
*
12301927 TACTTATGGC-TTGTAC
1 TACTGATGGCTTTGTAC
12301943 CCATTTTGTT
Statistics
Matches: 166, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.02
30 9 0.05
31 13 0.08
32 138 0.83
33 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTACAGATCATATTACCGT
Found at i:12305998 original size:15 final size:16
Alignment explanation
Indices: 12305969--12306000 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12305959 AAATACCAAT
12305969 AAATATCCAATTTTTA
1 AAATATCCAATTTTTA
12305985 AAATATCCAATTTTTA
1 AAATATCCAATTTTTA
12306001 TTCTTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATCCAATTTTTA
Found at i:12319962 original size:11 final size:11
Alignment explanation
Indices: 12319923--12319984 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
12319913 CAAAACAGTG
*
12319923 AAAAAAACAAC
1 AAAAAAACAGC
* *
12319934 AAGAAAATAGC
1 AAAAAAACAGC
* *
12319945 AAGAAAACAGT
1 AAAAAAACAGC
12319956 AAAAAAA-AGC
1 AAAAAAACAGC
* *
12319966 AACAAAACAGT
1 AAAAAAACAGC
12319977 AAAAAAAC
1 AAAAAAAC
12319985 CCAACAGATT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
10 8 0.20
11 32 0.80
ACGTcount: A:0.73, C:0.13, G:0.10, T:0.05
Consensus pattern (11 bp):
AAAAAAACAGC
Found at i:12319966 original size:21 final size:21
Alignment explanation
Indices: 12319937--12319983 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12319927 AAACAACAAG
* *
12319937 AAAATAGCAAGAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
12319958 AAAAAAGCAACAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
12319979 AAAAA
1 AAAAA
12319984 CCCAACAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAAAGCAACAAAACAGTAA
Found at i:12319989 original size:21 final size:21
Alignment explanation
Indices: 12319948--12319990 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12319938 AAATAGCAAG
*
12319948 AAAACAGTAAAAAAAAGCAAC
1 AAAACAGTAAAAAAAACCAAC
*
12319969 AAAACAGTAAAAAAACCCAAC
1 AAAACAGTAAAAAAAACCAAC
12319990 A
1 A
12319991 GATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.19, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAACAGTAAAAAAAACCAAC
Found at i:12322450 original size:23 final size:22
Alignment explanation
Indices: 12322420--12322465 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
12322410 ATCAACACAA
*
12322420 ATATAATCA-CATACATATTCAC
1 ATATAATCATCATA-ATAATCAC
12322442 ATATCAATCATCATAATAATCAC
1 ATAT-AATCATCATAATAATCAC
12322465 A
1 A
12322466 AGTTCTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAATCATCATAATAATCAC
Found at i:12327300 original size:18 final size:18
Alignment explanation
Indices: 12327250--12327300 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
12327240 ATAAAAAAAC
*
12327250 GTTTTGAAATTGAATAAT
1 GTTTTGAAAATGAATAAT
* *
12327268 GATTTGTAAATGAATAAT
1 GTTTTGAAAATGAATAAT
*
12327286 GTTTTGAAAACGAAT
1 GTTTTGAAAATGAAT
12327301 GACACAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (18 bp):
GTTTTGAAAATGAATAAT
Found at i:12330656 original size:27 final size:27
Alignment explanation
Indices: 12330588--12331022 Score: 326
Period size: 27 Copynumber: 16.2 Consensus size: 27
12330578 GATTCTTGGG
** * *
12330588 AAAATTATGGAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
12330615 -AATTTACTGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12330641 AAGATTACCGAAATACCTTC-ATTGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* * *
12330668 AAAATTACCAAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
12330695 AATATTACCGAAATACCCTCGACA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* ** * *
12330722 AAAATTTCTAAAATACCTTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
** *
12330749 AAAATTATTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12330776 AATATTACTGAAATA-CCTCTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
** * *
12330803 AAACCTATCGAAATACCCCCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
12330830 AAAATTATCGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
12330857 AAAATTACCTAAATAACCT-AAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
12330883 AAAATGACCGTAATATCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12330910 AAAATTATCGAAATACTCTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
12330937 AAAATGATCAAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
12330964 AAAATTACCGAAATACCC-CTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
* * * *
12330991 AGAATGACCGTAATACCC-CTATAGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
12331018 AAAAT
1 AAAAT
12331023 GACCACTATA
Statistics
Matches: 319, Mismatches: 79, Indels: 20
0.76 0.19 0.05
Matches are distributed among these distances:
26 48 0.15
27 266 0.83
28 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:12330931 original size:80 final size:81
Alignment explanation
Indices: 12330732--12330941 Score: 237
Period size: 80 Copynumber: 2.6 Consensus size: 81
12330722 AAAATTTCTA
** * * * *
12330732 AAATACCTTCGAAAGGTAAAATTATTGAAATACCCTCGATGGGTAATATTACTGAAATACCTCTA
1 AAATACCCCCGAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATAACTCTA
* * *
12330797 AAGGGTAAACCTATCG
66 AAAGGTAAACATACCG
12330813 AAATACCCCCGAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCT-AAATAAC-CT
1 AAATACCCCCGAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTA-CTGAAATAACTCT
12330876 AAAAGGTAAA-ATGACCG
65 AAAAGGTAAACAT-ACCG
* * * * * **
12330893 TAATATCCTCGATGGGTAAAATTATCGAAATACTCTCGAAAGGTAAAAT
1 AAATACCCCCGAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAAT
12330942 GATCAAAATA
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 56 0.50
81 52 0.47
82 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (81 bp):
AAATACCCCCGAAGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATAACTCTA
AAAGGTAAACATACCG
Found at i:12331033 original size:27 final size:27
Alignment explanation
Indices: 12330960--12331038 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
12330950 TACCCTCGAT
* **
12330960 GGGTAAAATTACCGAAATACCCCTAAA
1 GGGTAAAATGACCCTAATACCCCTAAA
* * *
12330987 GGGTAGAATGACCGTAATACCCCTATA
1 GGGTAAAATGACCCTAATACCCCTAAA
12331014 GGGTAAAATGACCACT-ATACCCCTA
1 GGGTAAAATGACC-CTAATACCCCTA
12331039 GGAAATGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACCCTAATACCCCTAAA
Found at i:12331257 original size:26 final size:26
Alignment explanation
Indices: 12331227--12331295 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
12331217 AATACTGTTG
12331227 CTGGCAGCTTTGCTGCGTTACCGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
* * *
12331253 CTGGCAGCTCTGTTGCGTTACTGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
*
12331279 TTGGCAGCTTTGCTGCG
1 CTGGCAGCTTTGCTGCG
12331296 ATATTGGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.10, C:0.25, G:0.29, T:0.36
Consensus pattern (26 bp):
CTGGCAGCTTTGCTGCGTTACCGTTA
Found at i:12331455 original size:28 final size:28
Alignment explanation
Indices: 12331407--12331524 Score: 128
Period size: 30 Copynumber: 4.1 Consensus size: 28
12331397 TTTGTATTGA
*
12331407 ATATTGTTTTGGGCTAAGGCCCACACTG
1 ATATTGTATTGGGCTAAGGCCCACACTG
*
12331435 ATACTGTATTGGGCTAAGGCCCACACTCTG
1 ATATTGTATTGGGCTAAGGCCCACA--CTG
* * *
12331465 TTATTGTATTGGGCTATGACCTACACACTG
1 ATATTGTATTGGGCTAAGGCC--CACACTG
* * *
12331495 CTATTGTATAGGGCTCAGGCCCACACTG
1 ATATTGTATTGGGCTAAGGCCCACACTG
12331523 AT
1 AT
12331525 TCTGCATGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
28 31 0.42
30 39 0.53
32 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (28 bp):
ATATTGTATTGGGCTAAGGCCCACACTG
Found at i:12340080 original size:16 final size:17
Alignment explanation
Indices: 12340045--12340076 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
12340035 ATATGGTAGA
12340045 AAATTGATTAAGTTATT
1 AAATTGATTAAGTTATT
12340062 AAATT-ATTAA-TTATT
1 AAATTGATTAAGTTATT
12340077 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AAATTGATTAAGTTATT
Found at i:12340799 original size:21 final size:23
Alignment explanation
Indices: 12340760--12340801 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12340750 ATTATGTATG
*
12340760 TTATAATATAAAGTTAATAATTA
1 TTATAATATAAAGTAAATAATTA
12340783 TTATAATA-AAAG-AAATAAT
1 TTATAATATAAAGTAAATAAT
12340802 AAAAAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
TTATAATATAAAGTAAATAATTA
Found at i:12340854 original size:14 final size:14
Alignment explanation
Indices: 12340835--12340880 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
12340825 GCAAATTAGA
12340835 AAAGAAAGAAAAGG
1 AAAGAAAGAAAAGG
12340849 AAAGAAAGAAAA--
1 AAAGAAAGAAAAGG
12340861 AAAGAAA-AAGAAGG
1 AAAGAAAGAA-AAGG
12340875 AAAGAA
1 AAAGAA
12340881 CGCACGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.07
12 9 0.31
14 18 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAGG
Found at i:12340866 original size:22 final size:23
Alignment explanation
Indices: 12340832--12340880 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
12340822 CATGCAAATT
*
12340832 AGAAAAGAAAGAAAAGGAAAGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
*
12340855 AGAAAA-AAAGAAAAAGAAGGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
12340877 AGAA
1 AGAA
12340881 CGCACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAGAAAGAAAAAGAAAGAA
Found at i:12343227 original size:49 final size:49
Alignment explanation
Indices: 12343155--12343248 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
12343145 TCAAGAATGG
*
12343155 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACTAAGCTTAGCAATAT
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
* *
12343204 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCA
12343249 TTGCATAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
Found at i:12343898 original size:16 final size:16
Alignment explanation
Indices: 12343866--12343910 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
12343856 TAATTATTAT
*
12343866 AAATTATATAATAATAA
1 AAATTATAT-TTAATAA
*
12343883 AAATTATTTTTAATAA
1 AAATTATATTTAATAA
*
12343899 AATTTATATTTA
1 AAATTATATTTA
12343911 TTATTATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATATTTAATAA
Found at i:12343986 original size:13 final size:14
Alignment explanation
Indices: 12343968--12344002 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
12343958 TTTATTTTTT
12343968 TATTTATATAT-AA
1 TATTTATATATAAA
12343981 TATTTATATATCAAA
1 TATTTATATAT-AAA
12343996 TATTTAT
1 TATTTAT
12344003 TTTCTCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
15 9 0.45
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTATATATAAA
Found at i:12345780 original size:10 final size:10
Alignment explanation
Indices: 12345746--12345781 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12345736 AATTAGTGTT
12345746 ACTTGCACCAA
1 ACTT-CACCAA
*
12345757 ACTCCACCAA
1 ACTTCACCAA
12345767 ACTTCACCAA
1 ACTTCACCAA
12345777 ACTTC
1 ACTTC
12345782 GACCTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.19
Consensus pattern (10 bp):
ACTTCACCAA
Found at i:12350528 original size:3 final size:3
Alignment explanation
Indices: 12350520--12350560 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12350510 TACTATGACT
12350520 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12350561 CCTACTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12361861 original size:45 final size:45
Alignment explanation
Indices: 12361823--12362066 Score: 224
Period size: 45 Copynumber: 5.5 Consensus size: 45
12361813 GTGGTGGAGT
* *
12361823 AGATCGAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAAC
1 AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
* * * * * * * * *
12361868 AGACCAAAGAAAGCAGATATTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
* *
12361912 AGATCAGAG-AAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
* * * * * * * *
12361956 AGACCAAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
* * * * *
12362000 AAATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
*
12362045 AAATCAAAGAAAGCAGATCTTG
1 AGATCAAAGAAAGCAGATCTTG
12362067 TTTTCATGTA
Statistics
Matches: 148, Mismatches: 48, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
43 20 0.14
44 54 0.36
45 74 0.50
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
AGATCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAGC
Found at i:12361913 original size:134 final size:133
Alignment explanation
Indices: 12361739--12361982 Score: 328
Period size: 133 Copynumber: 1.8 Consensus size: 133
12361729 GAGCAGGTTG
* * *
12361739 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCATAGATACCAAATCTTGTCTC
1 AAAGATAACAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGA-ACCAAATCTTGCCTC
* * * * * *
12361804 CCCGTACAGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACA
65 CCCATACAGGTGGCGAAGCAGACCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACA
12361869 GACC
130 GACC
* * * *
12361873 AAAGA-AAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAGAGAAGCAGATCTTGCCTT
1 AAAGATAA-CAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGAACCAAATCTTGCCTC
* *
12361937 CCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGATCTTGTCTTC
65 CCCATACAGGTGGCGAAGCAGACCAAAGAAAGCAGATCTTGCCTTC
12361983 ATGTATTGGC
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
133 51 0.54
134 43 0.46
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (133 bp):
AAAGATAACAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGAACCAAATCTTGCCTCC
CCATACAGGTGGCGAAGCAGACCAAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAG
ACC
Found at i:12361934 original size:88 final size:88
Alignment explanation
Indices: 12361820--12362086 Score: 410
Period size: 88 Copynumber: 3.0 Consensus size: 88
12361810 CAGGTGGTGG
* *
12361820 AGTAGATC-GAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACCAAAGAAAGCAG
1 AGTAGATCAG-AG-AAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAG
*
12361884 ATATTGTCTTCATGTATTGGCGTGA
64 ATCTTGTCTTCATGTATTGGCGTGA
12361909 AGTAGATCAGAGAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGAT
1 AGTAGATCAGAGAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGAT
12361974 CTTGTCTTCATGTATTGGCGTGA
66 CTTGTCTTCATGTATTGGCGTGA
* * * *
12361997 AGTAAATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAGAAAGCAGA
1 AGTAGATCAGAGA-AGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
* **
12362062 TCTTGTTTTCATGTACCGGCGTGA
65 TCTTGTCTTCATGTATTGGCGTGA
12362086 A
1 A
12362087 ACAGATCAAA
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
88 85 0.51
89 80 0.48
90 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (88 bp):
AGTAGATCAGAGAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGAT
CTTGTCTTCATGTATTGGCGTGA
Found at i:12362019 original size:44 final size:43
Alignment explanation
Indices: 12361747--12362026 Score: 148
Period size: 45 Copynumber: 6.3 Consensus size: 43
12361737 TGAAAGATAA
* * * *
12361747 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCATAGATAC
1 CAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAGAGA-AG
* * * ** ** * *
12361791 CAAATCTTGTCTCCCCGTACAGGTGGTGGAGTAGATC-GAAGAAAG
1 CAGATCTTGCCTTCATGTATTGG-CGTGAAGTAGATCAG-AG-AAG
* * * * * ** * *
12361836 CAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACCAAAGAAAG
1 CAGATCTTGCCTTCATGTATTGG-CGTGAAGTAGATCAGAG-AAG
* *
12361881 CAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAGAGAAG
1 CAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAGAGAAG
*** * * * * * *
12361924 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAG
1 CAGATCTTGCCTTCATGTATTGG-CGTGAAGTAGATCAGAG-AAG
* * *
12361969 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAAATCAGAGATAC
1 CAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAGAGA-AG
12362013 CAGATCTTGCCTTC
1 CAGATCTTGCCTTC
12362027 CCATACTGGT
Statistics
Matches: 173, Mismatches: 56, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
43 21 0.12
44 66 0.38
45 85 0.49
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
CAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAGAGAAG
Found at i:12362132 original size:89 final size:89
Alignment explanation
Indices: 12361820--12362101 Score: 415
Period size: 89 Copynumber: 3.2 Consensus size: 89
12361810 CAGGTGGTGG
* * *
12361820 AGTAGATC-GAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACCAAAGAAAGCAG
1 AGTAGATCAG-AGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAG
*
12361884 ATATTGTCTTCATGTATTGGCGTGA
65 ATCTTGTCTTCATGTATTGGCGTGA
12361909 AGTAGATCAGAGA-AGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
1 AGTAGATCAGAGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
12361973 TCTTGTCTTCATGTATTGGCGTGA
66 TCTTGTCTTCATGTATTGGCGTGA
* * * *
12361997 AGTAAATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAGAAAGCAGA
1 AGTAGATCAGAGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
* **
12362062 TCTTGTTTTCATGTACCGGCGTGA
66 TCTTGTCTTCATGTATTGGCGTGA
** *
12362086 AACAGATCAAAGATAG
1 AGTAGATCAGAGATAG
12362102 TAGGTCCTGT
Statistics
Matches: 176, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
88 84 0.48
89 91 0.52
90 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (89 bp):
AGTAGATCAGAGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
TCTTGTCTTCATGTATTGGCGTGA
Found at i:12362162 original size:222 final size:222
Alignment explanation
Indices: 12361739--12362176 Score: 488
Period size: 222 Copynumber: 2.0 Consensus size: 222
12361729 GAGCAGGTTG
* * *
12361739 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCATAGATACCAAATCTTGTCTC
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAAATCAGAGATACCAAATCTTGCCTC
* * * * * * * * *
12361804 CCCGTACAGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACA
66 CCCATACAGGTGGCGAAGCAAATCAAAGAAAGCAGATCTTGCCTTCATATACCGGTCGCGAAACA
* * * * * * *
12361869 GACCAAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAGAGAAGCAGATCTTGC
131 GACCAAAGAAAGCAGATACTGTCTTCATATATCGGAGCGAAGTAGATCAGAGAAACAGATCTTAC
12361934 CTTCCCATACTGGTGGCGAAGCAGACC
196 CTTCCCATACTGGTGGCGAAGCAGACC
* *
12361961 AAAGA-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAAATCAGAGATACCAGATCTTGCCT
1 AAAGATAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAAATCAGAGATACCAAATCTTGCCT
* * ** * *
12362025 TCCCATACTGGTGGCGAAGCAAATCAAAGAAAGCAGATCTTGTTTTCATGTACCGG-CGTGAAAC
65 CCCCATACAGGTGGCGAAGCAAATCAAAGAAAGCAGATCTTGCCTTCATATACCGGTCGCGAAAC
* * * * * * * *
12362089 AGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATC-GA-ATATACAGATT
130 AGACCAAAGAAAGCAGATACTGTCTTCATATATCGG-AGCGAAGTAGATCAGAGA-A-ACAGATC
*
12362152 TTATCTTCCCATACTGGTGGCGAAG
192 TTACCTTCCCATACTGGTGGCGAAG
12362177 TAGGAAAAAC
Statistics
Matches: 176, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
220 1 0.01
221 38 0.22
222 137 0.78
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (222 bp):
AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAAATCAGAGATACCAAATCTTGCCTC
CCCATACAGGTGGCGAAGCAAATCAAAGAAAGCAGATCTTGCCTTCATATACCGGTCGCGAAACA
GACCAAAGAAAGCAGATACTGTCTTCATATATCGGAGCGAAGTAGATCAGAGAAACAGATCTTAC
CTTCCCATACTGGTGGCGAAGCAGACC
Found at i:12363042 original size:7 final size:7
Alignment explanation
Indices: 12363030--12363055 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12363020 TGGCCCAAAG
12363030 AAAAACA
1 AAAAACA
12363037 AAAAACA
1 AAAAACA
12363044 AAAAACA
1 AAAAACA
12363051 AAAAA
1 AAAAA
12363056 GAACCCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:12363772 original size:25 final size:25
Alignment explanation
Indices: 12363743--12363800 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
12363733 TGGGAAATTT
12363743 GCGCGTTTAGTCCCTCCCTTCTGCA
1 GCGCGTTTAGTCCCTCCCTTCTGCA
12363768 GCGCGTTTAGTCCCTCCCTTCTGCA
1 GCGCGTTTAGTCCCTCCCTTCTGCA
12363793 GCGCGTTT
1 GCGCGTTT
12363801 CGATTAACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.07, C:0.38, G:0.22, T:0.33
Consensus pattern (25 bp):
GCGCGTTTAGTCCCTCCCTTCTGCA
Found at i:12365799 original size:20 final size:20
Alignment explanation
Indices: 12365771--12365835 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
12365761 AATTATAATT
*
12365771 TATATTTTTCATTAATTTTA
1 TATAATTTTCATTAATTTTA
*
12365791 TATAATTTTAATT-A--TTA
1 TATAATTTTCATTAATTTTA
* * *
12365808 CAT-TTTTTCATTAATTGTA
1 TATAATTTTCATTAATTTTA
12365827 TATAATTTT
1 TATAATTTT
12365836 AATTGATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
19 5 0.15
20 15 0.45
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TATAATTTTCATTAATTTTA
Found at i:12365846 original size:15 final size:16
Alignment explanation
Indices: 12365818--12365847 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12365808 CATTTTTTCA
12365818 TTAATTGTATATAATT
1 TTAATTGTATATAATT
12365834 TTAATTG-ATATAAT
1 TTAATTGTATATAAT
12365848 AACGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTAATTGTATATAATT
Found at i:12366007 original size:2 final size:2
Alignment explanation
Indices: 12365958--12365988 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12365948 ATAAGAAACA
12365958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12365989 AATTTAGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12366709 original size:21 final size:20
Alignment explanation
Indices: 12366667--12366726 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
12366657 AACTTATTTA
* **
12366667 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
12366687 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
12366708 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
12366727 ATTAATTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:12369120 original size:15 final size:15
Alignment explanation
Indices: 12369100--12369136 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
12369090 ATTCAACTTG
12369100 CCTCATATTTCTCTC
1 CCTCATATTTCTCTC
* *
12369115 CCTCATTTTTCTTTC
1 CCTCATATTTCTCTC
12369130 CCTCATA
1 CCTCATA
12369137 GACAAGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.49
Consensus pattern (15 bp):
CCTCATATTTCTCTC
Found at i:12370531 original size:72 final size:72
Alignment explanation
Indices: 12370408--12370674 Score: 263
Period size: 72 Copynumber: 3.7 Consensus size: 72
12370398 AGATGGGCGT
* * * * * *
12370408 TGAATTGCTACCAAAGCTTTTAGATGGTTCTATAATTGCCAACAG-GATGGGTACGAATATGGAG
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAA-AGAGATGGGTACGAATATGGAG
12370472 GTGAACAC
65 GTGAACAC
* * * * *
12370480 TGAATTGCTACCATATCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGACTATGGAGA
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACGAATATGGAGG
*
12370545 TGAACAT
66 TGAACAC
* *
12370552 TGAATTGTTACCAAAGCTTATAGAAGATTCTACAAGTCCTAAAGAGATGGGT-CGTAATATGGAG
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACG-AATATGGA-
12370616 GAGTTGAGA-A-
64 G-G-TGA-ACAC
* * * * * *
12370626 TCGAATTGATATCAAAGCGTATAGAAGATTTTCCGAGTGCTAAAGAGAT
1 T-GAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGAT
12370675 AGATTTGAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
71 3 0.02
72 112 0.69
73 1 0.01
74 1 0.01
75 44 0.27
76 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (72 bp):
TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACGAATATGGAGG
TGAACAC
Found at i:12370669 original size:75 final size:72
Alignment explanation
Indices: 12370409--12370756 Score: 227
Period size: 72 Copynumber: 4.8 Consensus size: 72
12370399 GATGGGCGTT
* * * * * * * * * *
12370409 GAATTGCTACCAAAGCTTTTAGATGGTTCTATAATTGCCAACAG-GATGGGTACGAATATGGAGG
1 GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAA-AGAGATGGGTAAGAATATGGAGA
12370473 TGAACA-C
65 TGAACATC
* * * * *
12370480 TGAATTGCTACCATATCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGACTATGGAGA
1 -GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGAATATGGAGA
*
12370545 TGAACATT
65 TGAACATC
* * * *
12370553 GAATTGTTACCAAAGCTTATAGAAGATTCTACAAGTCCTAAAGAGATGGGT-CGTAATATGGAGG
1 GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAG-AATATGGA-G
12370617 AGTTGAGA-ATC
64 A--TGA-ACATC
* * * * * * ** *
12370628 GAATTGATATCAAAGCGTATAGAAGATTTTCCGAGTGCTAAAGAGATAGATTTGAATAAGGAGAA
1 GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGAATATGGAG-A
* * *
12370693 GGAGAACGTT
65 --TGAACATC
** * * * * *
12370703 GAATTGATGTCAAAGCTTACAGAAGATACTTCAAATGCTAAAGAGATGGGTAAG
1 GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAG
12370757 GATGTGGCAG
Statistics
Matches: 220, Mismatches: 46, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
71 3 0.01
72 110 0.50
73 2 0.01
74 2 0.01
75 101 0.46
76 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (72 bp):
GAATTGATACCAAAGCGTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGAATATGGAGAT
GAACATC
Found at i:12372402 original size:24 final size:23
Alignment explanation
Indices: 12372358--12372402 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
12372348 GCGCCGATGA
* *
12372358 ATAAAAAATATTAATTTTTTTAT
1 ATAAAAAATATTAAATATTTTAT
*
12372381 ATAAAATATAATTAAATATTTT
1 ATAAAAAAT-ATTAAATATTTT
12372403 CCTGGGTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAAAAAATATTAAATATTTTAT
Found at i:12372483 original size:27 final size:27
Alignment explanation
Indices: 12372452--12372520 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
12372442 CGTCTATCTC
12372452 AGAGGCGCCAATGGTGGTGCC-TATCTG
1 AGAGGCGCCAATGGTGGTGCCATA-CTG
* * **
12372479 GGAGGCGCCATTATTGGTGCCATACTG
1 AGAGGCGCCAATGGTGGTGCCATACTG
12372506 AGAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
12372521 CTGATTTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.22
Consensus pattern (27 bp):
AGAGGCGCCAATGGTGGTGCCATACTG
Found at i:12372610 original size:18 final size:18
Alignment explanation
Indices: 12372577--12372625 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12372567 AGAGAAACGG
12372577 AAGAAATAAGAAGGAAGCAA
1 AAGAAA-AA-AAGGAAGCAA
*
12372597 AAGAAAAAAAGGAAGGAA
1 AAGAAAAAAAGGAAGCAA
12372615 AAGAAGAAAAA
1 AAGAA-AAAAA
12372626 AATAAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 14 0.52
19 7 0.26
20 6 0.22
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAGGAAGCAA
Found at i:12375627 original size:27 final size:27
Alignment explanation
Indices: 12375597--12375663 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
12375587 GCAAAATAAA
12375597 AAAAAAACATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
*
12375624 AAAAAACCATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
12375651 AAAAAAATCATTA
1 AAAAAAA-CATTA
12375664 CATAAATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 32 0.86
28 5 0.14
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAACATTATAATTTTATTTACAT
Found at i:12377775 original size:37 final size:38
Alignment explanation
Indices: 12377733--12377813 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 38
12377723 AAAAAGTCGG
12377733 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
12377770 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
12377808 TTATAA
1 TTATAA
12377814 ACTTTATTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 33 0.77
38 10 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:12377923 original size:60 final size:60
Alignment explanation
Indices: 12377847--12377968 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
12377837 ATACTAAACT
* * * *
12377847 AAACACAACAACTTATAGCT-TAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATA-ATATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
12377907 AAACACAAAAATTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
12377967 AA
1 AA
12377969 TATTCATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 5 0.09
60 50 0.91
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAACTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:12378023 original size:21 final size:21
Alignment explanation
Indices: 12377991--12378079 Score: 56
Period size: 21 Copynumber: 4.0 Consensus size: 21
12377981 AAATTACAAT
12377991 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
* * *
12378012 ATTGCATTATTCAT--ATAAA
1 ATTACAATATTCATACAAAAA
*
12378031 ATTATAATATTACAATATTCATACAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA
12378059 AATTACAATATTCATACAAAA
1 -ATTACAATATTCATACAAAA
12378080 TACTAATCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 19
0.65 0.10 0.25
Matches are distributed among these distances:
19 12 0.24
20 1 0.02
21 14 0.28
22 3 0.06
23 1 0.02
25 1 0.02
27 4 0.08
28 4 0.08
29 10 0.20
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:12378040 original size:48 final size:48
Alignment explanation
Indices: 12377956--12378080 Score: 187
Period size: 48 Copynumber: 2.5 Consensus size: 48
12377946 AATTAATTAT
12377956 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
* * * *
12378007 AAAAAATTGCATTATTCATATAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
12378055 AAAAAATTACAATATTCATACAAAAT
1 AAAAAATTACAATATTCATACAAAAT
12378081 ACTAATCCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 49 0.73
50 14 0.21
51 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:12378144 original size:19 final size:19
Alignment explanation
Indices: 12378120--12378183 Score: 92
Period size: 19 Copynumber: 3.2 Consensus size: 19
12378110 ATTATAAAAT
12378120 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
12378139 AATTACAATATTCATACAAAAA
1 AATTACAATATTCATAC---AA
*
12378161 AATTAAAATATTCATACAA
1 AATTACAATATTCATACAA
12378180 AATT
1 AATT
12378184 CTAATCCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 23 0.56
22 18 0.44
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:12378162 original size:22 final size:22
Alignment explanation
Indices: 12378115--12378181 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
12378105 ATTTAATTAT
*
12378115 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
12378137 ---AAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
12378156 AAAAAAATTAAAATATTCATAC
1 AAAAAAATTACAATATTCATAC
12378178 AAAA
1 AAAA
12378182 TTCTAATCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 18 0.45
22 22 0.55
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:12378267 original size:12 final size:12
Alignment explanation
Indices: 12378250--12378275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12378240 AAAAATTCAC
12378250 AATATCTTCTAA
1 AATATCTTCTAA
12378262 AATATCTTCTAA
1 AATATCTTCTAA
12378274 AA
1 AA
12378276 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:12378355 original size:3 final size:3
Alignment explanation
Indices: 12378349--12378381 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12378339 TTTTTTTTCT
*
12378349 TTC TTC TTC TTC TTC TTC -TC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
12378382 CTCCTTCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:12378372 original size:14 final size:14
Alignment explanation
Indices: 12378353--12378389 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12378343 TTTTCTTTCT
*
12378353 TCTTCTTCTTCTTC
1 TCTTCTTCTCCTTC
12378367 TCTTCTTCTCCTTC
1 TCTTCTTCTCCTTC
*
12378381 TCTCCTTCT
1 TCTTCTTCT
12378390 GCTTTCTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTTCTTCTCCTTC
Found at i:12378372 original size:17 final size:16
Alignment explanation
Indices: 12378345--12378381 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
12378335 TACTTTTTTT
*
12378345 TTCTTTCTTCTTCTTC
1 TTCTTTCTTCTTCTCC
12378361 TTCTTCTCTTCTTCTCC
1 TTCTT-TCTTCTTCTCC
12378378 TTCT
1 TTCT
12378382 CTCCTTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTTTCTTCTTCTCC
Found at i:12378787 original size:29 final size:29
Alignment explanation
Indices: 12378737--12378792 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
12378727 ACTCATTTTG
*
12378737 GTAAATATTTTTTTTGACATCCTATTTCA
1 GTAAATATTTTTTTTCACATCCTATTTCA
* **
12378766 GTAAATTTTTTTTTTCTTATCCTATTT
1 GTAAATATTTTTTTTCACATCCTATTT
12378793 GTGTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.59
Consensus pattern (29 bp):
GTAAATATTTTTTTTCACATCCTATTTCA
Found at i:12378798 original size:29 final size:28
Alignment explanation
Indices: 12378733--12378799 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
12378723 AATAACTCAT
*
12378733 TTTGGTAAATATTTTTTTTGACATCCTA
1 TTTGGTAAATATTTTTTTTCACATCCTA
* * **
12378761 TTTCAGTAAATTTTTTTTTTCTTATCCTA
1 TTT-GGTAAATATTTTTTTTCACATCCTA
12378790 TTTGTGTAAA
1 TTTG-GTAAA
12378800 AAATTCGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.10
29 28 0.90
ACGTcount: A:0.24, C:0.10, G:0.09, T:0.57
Consensus pattern (28 bp):
TTTGGTAAATATTTTTTTTCACATCCTA
Found at i:12379977 original size:3 final size:3
Alignment explanation
Indices: 12379969--12379998 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12379959 TACCGTCCGA
*
12379969 GTC GTC GTC GTA GTC GTC GTC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
12379999 TTCCTCGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.33, T:0.33
Consensus pattern (3 bp):
GTC
Found at i:12384435 original size:17 final size:17
Alignment explanation
Indices: 12384400--12384461 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 17
12384390 TTCCAATAAT
* *
12384400 TTCAAATAAATTTGA-A
1 TTCAAATTAATTTTAGA
12384416 TTCAAATTAATTTTAGA
1 TTCAAATTAATTTTAGA
* **
12384433 TTCAAGTTTTTTTTAG-
1 TTCAAATTAATTTTAGA
*
12384449 TTCAAATCAATTT
1 TTCAAATTAATTT
12384462 GAATCTACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 22 0.61
17 14 0.39
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (17 bp):
TTCAAATTAATTTTAGA
Found at i:12384699 original size:13 final size:13
Alignment explanation
Indices: 12384681--12384742 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
12384671 TTAACAATTT
*
12384681 TTTTAAAAAGTGC
1 TTTTAAAAAGTAC
12384694 TTTT-AAAAGTAC
1 TTTTAAAAAGTAC
** * *
12384706 CGTAAAAAAGTTC
1 TTTTAAAAAGTAC
12384719 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
*
12384732 TTTTGAAAAGT
1 TTTTAAAAAGT
12384743 TTGATTTAAG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 8 0.21
13 30 0.79
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:12386631 original size:24 final size:24
Alignment explanation
Indices: 12386599--12386647 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12386589 GATGCATAAG
* *
12386599 AAAACCACCACATAGTCGTCATTT
1 AAAACCACCACATAATCATCATTT
12386623 AAAACCACCACATAATCATCATTT
1 AAAACCACCACATAATCATCATTT
12386647 A
1 A
12386648 TATCATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAACCACCACATAATCATCATTT
Found at i:12394162 original size:23 final size:21
Alignment explanation
Indices: 12394135--12394183 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
12394125 ATAAAAAGGG
12394135 TAATAAAT-AAATAGATAAATAGA
1 TAATAAATAAAATAG-T-AATA-A
12394158 TAAT-AATAAAATAGTAATAA
1 TAATAAATAAAATAGTAATAA
12394178 TAATAA
1 TAATAA
12394184 TGAAGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 4 0.17
23 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAATAAAATAGTAATAA
Found at i:12394175 original size:14 final size:15
Alignment explanation
Indices: 12394151--12394180 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12394141 ATAAATAGAT
12394151 AAATAGATAATAATA
1 AAATAGATAATAATA
12394166 AAATAG-TAATAATA
1 AAATAGATAATAATA
12394180 A
1 A
12394181 TAATGAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:12394206 original size:27 final size:27
Alignment explanation
Indices: 12394176--12394296 Score: 72
Period size: 27 Copynumber: 4.3 Consensus size: 27
12394166 AAATAGTAAT
12394176 AATAATAATGAAGGAAAAAATAAAATA
1 AATAATAATGAAGGAAAAAATAAAATA
* *
12394203 AATAATCGATGAACGAAAATAA-AAAATTAAA
1 AATAAT-AATGAAGGAAAA-AATAAAA-T--A
* *
12394234 ATATAAAAAATGAAGG-AATAAT-AAATA
1 A-AT-AATAATGAAGGAAAAAATAAAATA
*
12394261 AAT--TAATGCAAGGATTAAAATAAAATA
1 AATAATAATG-AAGGA-AAAAATAAAATA
12394288 AATGAATAA
1 AAT-AATAA
12394297 AATAAAATGA
Statistics
Matches: 70, Mismatches: 9, Indels: 27
0.66 0.08 0.25
Matches are distributed among these distances:
23 4 0.06
24 4 0.06
26 6 0.09
27 16 0.23
28 14 0.20
29 4 0.06
30 8 0.11
31 4 0.06
32 8 0.11
33 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.21
Consensus pattern (27 bp):
AATAATAATGAAGGAAAAAATAAAATA
Found at i:12394306 original size:14 final size:13
Alignment explanation
Indices: 12394279--12394329 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
12394269 CAAGGATTAA
12394279 AATAAAATAAATG
1 AATAAAATAAATG
12394292 AATAAAATAAAATG
1 AATAAAAT-AAATG
12394306 AATAATGAAT-AATG
1 AATAA--AATAAATG
12394320 AAT-AAATAAA
1 AATAAAATAAA
12394330 CAAGTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.09
12 2 0.06
13 9 0.26
14 17 0.50
16 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AATAAAATAAATG
Found at i:12396274 original size:44 final size:44
Alignment explanation
Indices: 12396226--12396786 Score: 351
Period size: 44 Copynumber: 12.2 Consensus size: 44
12396216 CTTCAAAGGT
* * *
12396226 ATAAGCTTTGTCGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * * *
12396270 ATAAGATTAGTAGCTTCAAACGGTTCCATTACAACTTCAGAGAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* ** * * * *
12396314 ATTAGATTCACTATCTTCAATATTCTCCATTGCAACTTCAGGGAG
1 ATAAGATT-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
** *
12396359 ATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
12396404 ATGAGACTCGCTATGGTAGATTTAATCCGAC-CTACTGCAACTTCAGAGG-T
1 ATAAGA-T---T-T-GTAGCTTCAATCTG-CTCCACTGCAACTTCAG-GGAG
* * * *
12396454 ATAGGATTTGTCA-CTTCAATCTACTCCACTGCTACTTAAGGGAG
1 ATAAGATTTGT-AGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *
12396498 ATAAGACTTGTAACTTCTATCTGCTCCACTGCAAC-TCTAGGGAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGGGAG
* ** * *
12396542 ATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAA
1 ATAAGA----T---TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *
12396593 ATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGGAAG
1 ATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
12396638 ATAAGATTTGTTGTTTTAATCTGCTCCTCTACAACTTCAGGGAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
12396682 ATAAGATTTGTGGCTTTAATCTGCTCCACTGCATCTTTAGTGAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* *
12396726 ATAAGATTCGCCATGATGACTTCAATCCG-TCCTACTGCAACTTCAGGG-G
1 ATAAGATTTG---T-A-G-CTTCAATCTGCTCC-ACTGCAACTTCAGGGAG
12396775 TATAAGATTTGT
1 -ATAAGATTTGT
12396787 GGTTTCACTA
Statistics
Matches: 398, Mismatches: 89, Indels: 57
0.73 0.16 0.10
Matches are distributed among these distances:
43 5 0.01
44 176 0.44
45 111 0.28
46 2 0.01
47 3 0.01
49 7 0.02
50 56 0.14
51 36 0.09
52 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:12396350 original size:45 final size:45
Alignment explanation
Indices: 12396239--12396405 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 45
12396229 AGCTTTGTCG
* * * * *
12396239 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-AGTAG
1 CTTCAATATGCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
* * * * *
12396283 CTTCAA-ACGGTTCCATTACAACTTCAGAGAGATTAGATTCACTAT
1 CTTCAATA-TGCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
*
12396328 CTTCAATATTCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
1 CTTCAATATGCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
* *
12396373 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CTTCAATATGCTCCATTGCAACTTCAGGGAGAT
12396406 GAGACTCGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 30 0.30
45 70 0.69
46 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (45 bp):
CTTCAATATGCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
Found at i:12399555 original size:84 final size:84
Alignment explanation
Indices: 12399414--12399582 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
12399404 CTTCTTGATA
* *
12399414 ATGTAGTATATCACTCTTTTTTCCTTCTTGACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCACTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
*
12399479 TTCCCAAATACTGCCAAGT
66 TTCCCAAATACTACCAAGT
*
12399498 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCACTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
12399563 TTCCCAAATACTACCAAGT
66 TTCCCAAATACTACCAAGT
12399582 A
1 A
12399583 CAGTACTACC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (84 bp):
ATGTAGTATATCACTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
TTCCCAAATACTACCAAGT
Found at i:12401290 original size:15 final size:15
Alignment explanation
Indices: 12401270--12401307 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
12401260 TCCTTTCTTG
*
12401270 TTTCTTTTCCAGCTC
1 TTTCTTCTCCAGCTC
12401285 TTTCTTCTCCAGCTC
1 TTTCTTCTCCAGCTC
12401300 TTTCTTCT
1 TTTCTTCT
12401308 TTTGAATCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.34, G:0.05, T:0.55
Consensus pattern (15 bp):
TTTCTTCTCCAGCTC
Found at i:12402536 original size:31 final size:31
Alignment explanation
Indices: 12402443--12402538 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
12402433 GGCAAATTAC
*
12402443 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12402474 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
12402506 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12402537 AA
1 AA
12402539 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:12407069 original size:10 final size:10
Alignment explanation
Indices: 12407054--12407159 Score: 64
Period size: 10 Copynumber: 10.8 Consensus size: 10
12407044 AGGCAACTTT
12407054 TTTTTTGCGC
1 TTTTTTGCGC
12407064 TTTTTT--GC
1 TTTTTTGCGC
**
12407072 -TTTTTGCTT
1 TTTTTTGCGC
12407081 TTTTTTGCGC
1 TTTTTTGCGC
*
12407091 TTTTTACT-CTC
1 TTTTT--TGCGC
12407102 TCTTTTTGCG-
1 T-TTTTTGCGC
*
12407112 TTTTTT-TGC
1 TTTTTTGCGC
12407121 TTTTTTGCGC
1 TTTTTTGCGC
*
12407131 TTTTTACT-CTC
1 TTTTT--TGCGC
*
12407142 TTTTTTACGC
1 TTTTTTGCGC
12407152 TTTTTTGC
1 TTTTTTGC
12407160 TTTTTTGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
7 5 0.07
8 3 0.04
9 12 0.16
10 36 0.49
11 11 0.15
12 6 0.08
ACGTcount: A:0.03, C:0.19, G:0.12, T:0.66
Consensus pattern (10 bp):
TTTTTTGCGC
Found at i:12407108 original size:39 final size:39
Alignment explanation
Indices: 12407063--12407165 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 39
12407053 TTTTTTTGCG
12407063 CTTTTTTGC-TTTTTGCTTTTTTTTGCGCTTTTTACTCT
1 CTTTTTTGCGTTTTTGCTTTTTTTTGCGCTTTTTACTCT
12407101 CTCTTTTTGCGTTTTT--TTGCTTTTTTGCGCTTTTTACTCT
1 CT-TTTTTGCGTTTTTGCTT--TTTTTTGCGCTTTTTACTCT
*
12407141 CTTTTTTACGCTTTTTTGCTTTTTT
1 CTTTTTT--GCGTTTTTGCTTTTTT
12407166 GTTTTTTTGC
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
38 4 0.07
39 12 0.21
40 27 0.48
41 11 0.20
43 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.11, T:0.68
Consensus pattern (39 bp):
CTTTTTTGCGTTTTTGCTTTTTTTTGCGCTTTTTACTCT
Found at i:12407200 original size:8 final size:8
Alignment explanation
Indices: 12407113--12407191 Score: 59
Period size: 8 Copynumber: 8.8 Consensus size: 8
12407103 CTTTTTGCGT
12407113 TTTTTTGC
1 TTTTTTGC
12407121 TTTTTTGCGC
1 TTTTTT--GC
*
12407131 TTTTTACTCTC
1 TTTTT--T-GC
12407142 TTTTTTACGC
1 TTTTTT--GC
12407152 TTTTTTGC
1 TTTTTTGC
*
12407160 TTTTTTGT
1 TTTTTTGC
12407168 TTTTTTGC
1 TTTTTTGC
12407176 TGTTTTTGC
1 T-TTTTTGC
12407185 TATTTTT
1 T-TTTTT
12407192 TTTGCTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
8 23 0.38
9 14 0.23
10 15 0.25
11 7 0.12
12 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.11, T:0.71
Consensus pattern (8 bp):
TTTTTTGC
Found at i:12407200 original size:9 final size:9
Alignment explanation
Indices: 12407104--12407192 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
12407094 TTACTCTCTC
12407104 TTTTTGCGTT
1 TTTTTGC-TT
12407114 TTTTTGCTT
1 TTTTTGCTT
*
12407123 TTTTGCGCTT
1 TTTT-TGCTT
12407133 TTTACTCT-CTT
1 TTT--T-TGCTT
*
12407144 TTTTACGC-T
1 TTTT-TGCTT
12407153 TTTTTGC-T
1 TTTTTGCTT
12407161 TTTTTG-TT
1 TTTTTGCTT
*
12407169 TTTTTGCTG
1 TTTTTGCTT
12407178 TTTTTGCTAT
1 TTTTTGCT-T
12407188 TTTTT
1 TTTTT
12407193 TTGCTTTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
8 16 0.25
9 21 0.33
10 20 0.31
11 6 0.09
12 1 0.02
ACGTcount: A:0.03, C:0.13, G:0.12, T:0.71
Consensus pattern (9 bp):
TTTTTGCTT
Found at i:12407827 original size:31 final size:31
Alignment explanation
Indices: 12407734--12407829 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
12407724 GGCAAATTAC
*
12407734 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12407765 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
12407797 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12407828 AA
1 AA
12407830 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:12408960 original size:23 final size:21
Alignment explanation
Indices: 12408934--12408982 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
12408924 ATAAAAAGGG
12408934 TAATAAAT-AAATAGATAAATAGA
1 TAATAAATAAAATAG-T-AATA-A
12408957 TAAT-AATAAAATAGTAATAA
1 TAATAAATAAAATAGTAATAA
12408977 TAATAA
1 TAATAA
12408983 TAATGAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 4 0.17
23 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAATAAAATAGTAATAA
Found at i:12408974 original size:14 final size:15
Alignment explanation
Indices: 12408950--12408984 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
12408940 ATAAATAGAT
12408950 AAATAGATAATAATA
1 AAATAGATAATAATA
12408965 AAATAG-TAATAATA
1 AAATAGATAATAATA
12408979 ATAATA
1 A-AATA
12408985 ATGAAGGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:12409056 original size:25 final size:25
Alignment explanation
Indices: 12408950--12409053 Score: 90
Period size: 26 Copynumber: 4.1 Consensus size: 25
12408940 ATAAATAGAT
*
12408950 AAATAGATAATAAT-AA--AATAGTA
1 AAATA-ATAATAATGAAGGAATAATA
*
12408973 ATAATAATAATAATGAAGGCATAAATA
1 A-AATAATAATAATGAAGGAAT-AATA
* *
12409000 AAATAAATAATCGATGAAAGAA-AATA
1 AAAT-AATAAT-AATGAAGGAATAATA
12409026 AAATAATAATAAATGAAGGAATAATA
1 AAATAATAAT-AATGAAGGAATAATA
12409052 AA
1 AA
12409054 TAAATGAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
23 9 0.14
24 6 0.09
25 14 0.22
26 19 0.29
27 10 0.15
28 7 0.11
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (25 bp):
AAATAATAATAATGAAGGAATAATA
Found at i:12409057 original size:4 final size:4
Alignment explanation
Indices: 12409048--12409194 Score: 84
Period size: 4 Copynumber: 36.5 Consensus size: 4
12409038 ATGAAGGAAT
* ** * *
12409048 AATA AATA AATG AATA CAAGG ATTA AAATA AA-A AATA AATA AATA AATC
1 AATA AATA AATA AATA -AATA AATA AA-TA AATA AATA AATA AATA AATA
* * * * * *
12409097 AAT- AATA TATG AATA AATA AGTA AATG AACA AATA AATT AATAA AATCA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AAT-A
** * * * *
12409146 AAGG AAT- AATG AATA AATA AACA AGTA AATA AGTA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
12409193 AA
1 AA
12409195 AGAATTAAAA
Statistics
Matches: 105, Mismatches: 32, Indels: 12
0.70 0.21 0.08
Matches are distributed among these distances:
3 9 0.09
4 84 0.80
5 12 0.11
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:12409788 original size:24 final size:24
Alignment explanation
Indices: 12409741--12409800 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
12409731 GGTATATATT
12409741 AAATATATATATTTCATTTTTAATC
1 AAATATATAT-TTTCATTTTTAATC
*
12409766 AAATATATATTTTTATTTTTAATC
1 AAATATATATTTTCATTTTTAATC
12409790 AAATATATATT
1 AAATATATATT
12409801 ATATATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATATATATTTTCATTTTTAATC
Found at i:12410389 original size:16 final size:17
Alignment explanation
Indices: 12410358--12410390 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12410348 CCTTGTTCAT
12410358 TTTTATTTTATTTTATG
1 TTTTATTTTATTTTATG
*
12410375 TTTTGTTTT-TTTTATG
1 TTTTATTTTATTTTATG
12410391 AATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTTATG
Done.