Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 38
Found at i:1673294 original size:20 final size:20
Alignment explanation
Indices: 1673266--1673634 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
1673256 AAATTTCAGT
* * * *
1673266 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1673286 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1673306 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1673326 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1673346 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1673366 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1673386 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1673406 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1673426 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1673446 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
1673466 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1673486 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1673506 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1673526 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1673546 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1673566 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1673586 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1673606 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1673626 GTTGCGATT
1 GTTGCGATT
1673635 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1674060 original size:30 final size:30
Alignment explanation
Indices: 1674033--1674113 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
1674023 TATTATTTTT
*
1674033 TAATATTTTTGATTATTTTTTAGTATTTAG
1 TAATATTTTTGATTATTTTTTAGTATTTAA
* * * *
1674063 TAATGTTTTCGGTTATTTTTTAG-AGTCTAA
1 TAATATTTTTGATTATTTTTTAGTA-TTTAA
*
1674093 TAATATTTTTGATCATTTTTT
1 TAATATTTTTGATTATTTTTT
1674114 TAAAATTCGG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 1 0.02
30 40 0.98
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.60
Consensus pattern (30 bp):
TAATATTTTTGATTATTTTTTAGTATTTAA
Found at i:1678951 original size:42 final size:42
Alignment explanation
Indices: 1678879--1678965 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
1678869 TACTAAGGAA
* * *
1678879 CCTCTCGACCATCTTCTCTTAGAAAGATAACTCAACAAAGAC
1 CCTCTCGACCACCTTCGCTTAGAAAAATAACTCAACAAAGAC
* * **
1678921 CCTCTCGATCACCTTCGCTTGGAAAAATAACTCAGTAAAGAC
1 CCTCTCGACCACCTTCGCTTAGAAAAATAACTCAACAAAGAC
1678963 CCT
1 CCT
1678966 AAAAGGGTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.24
Consensus pattern (42 bp):
CCTCTCGACCACCTTCGCTTAGAAAAATAACTCAACAAAGAC
Found at i:1693865 original size:13 final size:13
Alignment explanation
Indices: 1693847--1693871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1693837 GCCCTGCCAG
1693847 CAAGTCGATCCAA
1 CAAGTCGATCCAA
1693860 CAAGTCGATCCA
1 CAAGTCGATCCA
1693872 GCTTTTGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
CAAGTCGATCCAA
Found at i:1699765 original size:23 final size:23
Alignment explanation
Indices: 1699733--1699834 Score: 138
Period size: 23 Copynumber: 4.5 Consensus size: 23
1699723 TAGCGTAGGA
*
1699733 GGTATCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
*
1699756 GGTACTGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
**
1699779 GGTACCGATACCCTCCCCT--A-G
1 GGTACCGATACCC-CCTTTGAATG
1699800 GGTACCGATACCCCCTTTGAATG
1 GGTACCGATACCCCCTTTGAATG
1699823 GGTACCGATACC
1 GGTACCGATACC
1699835 TTCCCCTAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
20 3 0.04
21 14 0.21
22 2 0.03
23 46 0.68
24 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (23 bp):
GGTACCGATACCCCCTTTGAATG
Found at i:1699802 original size:21 final size:21
Alignment explanation
Indices: 1699778--1699859 Score: 94
Period size: 21 Copynumber: 3.8 Consensus size: 21
1699768 CCCTTTGAAT
1699778 GGGTACCGATACCCTCCCCTA
1 GGGTACCGATACCCTCCCCTA
**
1699799 GGGTACCGATACCC-CCTTTGAA
1 GGGTACCGATACCCTCCCCT--A
*
1699821 TGGGTACCGATACCTTCCCCTA
1 -GGGTACCGATACCCTCCCCTA
*
1699843 GGGTATCGATACCCTCC
1 GGGTACCGATACCCTCC
1699860 ATGGGTTCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 3 0.06
21 29 0.58
22 2 0.04
23 13 0.26
24 3 0.06
ACGTcount: A:0.20, C:0.37, G:0.21, T:0.23
Consensus pattern (21 bp):
GGGTACCGATACCCTCCCCTA
Found at i:1699810 original size:44 final size:44
Alignment explanation
Indices: 1699755--1699856 Score: 177
Period size: 44 Copynumber: 2.3 Consensus size: 44
1699745 CCCTTTGAAT
*
1699755 GGGTACTGATACCCCCTTTGAATGGGTACCGATACCCTCCCCTA
1 GGGTACCGATACCCCCTTTGAATGGGTACCGATACCCTCCCCTA
*
1699799 GGGTACCGATACCCCCTTTGAATGGGTACCGATACCTTCCCCTA
1 GGGTACCGATACCCCCTTTGAATGGGTACCGATACCCTCCCCTA
*
1699843 GGGTATCGATACCC
1 GGGTACCGATACCC
1699857 TCCATGGGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.25
Consensus pattern (44 bp):
GGGTACCGATACCCCCTTTGAATGGGTACCGATACCCTCCCCTA
Found at i:1702126 original size:18 final size:18
Alignment explanation
Indices: 1702103--1702141 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1702093 TATTTTCAAG
1702103 GTATTAGAGTAAGGGGGA
1 GTATTAGAGTAAGGGGGA
1702121 GTATTAGAGTAAGGGGGA
1 GTATTAGAGTAAGGGGGA
1702139 GTA
1 GTA
1702142 ATTTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (18 bp):
GTATTAGAGTAAGGGGGA
Found at i:1702139 original size:52 final size:52
Alignment explanation
Indices: 1702068--1702175 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
1702058 AAGGGGGAGA
1702068 AGTATTAGAGTAAGGGGGAGTAATTTATTTTCAAGGTATTAGAGTAAGGGGG
1 AGTATTAGAGTAAGGGGGAGTAATTTATTTTCAAGGTATTAGAGTAAGGGGG
1702120 AGTATTAGAGTAAGGGGGAGTAATTTATTTTCAAGGTATTAGAGTAAGGGGG
1 AGTATTAGAGTAAGGGGGAGTAATTTATTTTCAAGGTATTAGAGTAAGGGGG
1702172 AGTA
1 AGTA
1702176 ATTTCAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.31
Consensus pattern (52 bp):
AGTATTAGAGTAAGGGGGAGTAATTTATTTTCAAGGTATTAGAGTAAGGGGG
Found at i:1702533 original size:21 final size:21
Alignment explanation
Indices: 1702509--1702552 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1702499 AACCAGATTG
1702509 CCCAA-AGGGTACCAATATCCC
1 CCCAAGAGGGTACCAATA-CCC
*
1702530 CCCAAGAGGGTACCGATACCC
1 CCCAAGAGGGTACCAATACCC
1702551 CC
1 CC
1702553 ATGTAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.41, G:0.18, T:0.11
Consensus pattern (21 bp):
CCCAAGAGGGTACCAATACCC
Found at i:1708832 original size:28 final size:28
Alignment explanation
Indices: 1708800--1708853 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1708790 CTCTATTTAA
*
1708800 ATTATATCATCAAGCTAGTGCTTGAAAC
1 ATTATATCATCAAGCCAGTGCTTGAAAC
* * *
1708828 ATTATGTCATCGAGCCAGTGGTTGAA
1 ATTATATCATCAAGCCAGTGCTTGAA
1708854 CAACGGTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (28 bp):
ATTATATCATCAAGCCAGTGCTTGAAAC
Found at i:1710040 original size:16 final size:18
Alignment explanation
Indices: 1710008--1710042 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1709998 ATATAAAAAC
1710008 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
1710026 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
1710042 A
1 A
1710043 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:1710176 original size:2 final size:2
Alignment explanation
Indices: 1710163--1710199 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1710153 AAAATAGGAA
*
1710163 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1710200 ATAACACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1710220 original size:28 final size:30
Alignment explanation
Indices: 1710189--1710260 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 30
1710179 ATATATATAT
*
1710189 ATATATATATAATAACACTAATA-AAAA-A
1 ATATATATATAATAAAACTAATAGAAAATA
*
1710217 ATATATATATAATAAAATTAATAGAAAATA
1 ATATATATATAATAAAACTAATAGAAAATA
1710247 ATATGCATATATAA
1 ATAT--ATATATAA
1710261 CAAGAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 21 0.55
29 4 0.11
30 5 0.13
32 8 0.21
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
ATATATATATAATAAAACTAATAGAAAATA
Found at i:1710250 original size:30 final size:28
Alignment explanation
Indices: 1710189--1710273 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 28
1710179 ATATATATAT
*
1710189 ATATATATATAATAACACTAATAAAAAA
1 ATATATATATAATAAAACTAATAAAAAA
*
1710217 ATATATATATAATAAAATTAATAGAAAATA
1 ATATATATATAATAAAACTAATA-AAAA-A
*
1710247 ATATGCATATATAACAAGAA-TAATAAA
1 ATAT--ATATATAATAA-AACTAATAAA
1710274 GTAGGAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 21 0.43
29 4 0.08
30 5 0.10
31 2 0.04
32 15 0.31
33 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (28 bp):
ATATATATATAATAAAACTAATAAAAAA
Found at i:1711555 original size:105 final size:105
Alignment explanation
Indices: 1711248--1712420 Score: 1692
Period size: 105 Copynumber: 11.3 Consensus size: 105
1711238 CATTGTTCCA
* * **
1711248 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATTG-TTGTTGACAA
* * * * *
1711312 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
1711354 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
1711414 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1711454 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
1711519 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1711559 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGCTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
1711619 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1711659 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
* *
1711719 AACGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1711759 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
*
1711823 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
1711864 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
1711924 AGCGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1711964 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
*
1712028 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1712069 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA-C
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
1712133 TAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 -AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1712174 AATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAATTG-TTGTTGACAA
*
1712239 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1712281 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTG-TTGTTGACAAG
* * * *
1712346 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1712387 AGTGCCATGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1712421 CGCGGATGGC
Statistics
Matches: 985, Mismatches: 58, Indels: 45
0.91 0.05 0.04
Matches are distributed among these distances:
100 357 0.36
101 10 0.01
102 13 0.01
103 10 0.01
104 12 0.01
105 365 0.37
106 100 0.10
107 95 0.10
108 1 0.00
109 22 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1711601 original size:205 final size:208
Alignment explanation
Indices: 1711248--1712420 Score: 1689
Period size: 205 Copynumber: 5.7 Consensus size: 208
1711238 CATTGTTCCA
* * **
1711248 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATTG-TTGTTGACAA
* * * * *
1711312 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
64 ACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
**
1711377 GTTGAAATTGAATCTGAA-T-GAAA-TTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
129 GTTGAAATTGGCTCTGAATTGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
1711439 ACTTGCGTTGTCTGG
194 ACTTGCGTTGTCTGG
* *
1711454 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAAC
* *
1711519 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1711584 TGAAATTGGCTCTGAA-T-GAAA-TTTTGCTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TGAAATTGGCTCTGAATTGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
1711646 TTGCGTTGTCTGG
196 TTGCGTTGTCTGG
* *
1711659 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAAC
* *
1711719 AACGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1711784 TGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-ATTGGAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1711849 ACTTGCATTGTCTGG
194 ACTTGCGTTGTCTGG
** *
1711864 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAAC
*
1711924 AGCGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1711989 TGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-ATTGGAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1712054 ACTTGCATTGTCTGG
194 ACTTGCGTTGTCTGG
*
1712069 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGAC-AAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAAC
* * *
1712133 TAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGCTGTGAAG
66 -AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * *
1712198 TTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 TTGAAATTGGCTCTG-AATT-GG-AAAGT-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
1712263 TGAACTTGCGTTGTCTGG
191 TGAACTTGCGTTGTCTGG
* * * *
1712281 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTG-TTGTTGACAAA
* * * * * *
1712346 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCCATGATATCCTCCGTCGTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT-CCA--ATATCCTTCGTTGTG
*
1712411 GAGTTGAAAT
127 AAGTTGAAAT
1712421 CGCGGATGGC
Statistics
Matches: 891, Mismatches: 55, Indels: 32
0.91 0.06 0.03
Matches are distributed among these distances:
200 87 0.10
201 6 0.01
202 1 0.00
203 5 0.01
204 3 0.00
205 469 0.53
206 46 0.05
207 2 0.00
209 7 0.01
210 86 0.10
211 3 0.00
212 104 0.12
213 46 0.05
214 5 0.01
216 21 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (208 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAAC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAATTGGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTGG
Found at i:1711794 original size:305 final size:310
Alignment explanation
Indices: 1711248--1712420 Score: 1794
Period size: 305 Copynumber: 3.8 Consensus size: 310
1711238 CATTGTTCCA
* *
1711248 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAA-C-TGAAATTGTTTGTTGACAA
* * * *
1711312 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
62 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
**
1711377 GTTGAAATTGAATCTGAA-TGAAA-TTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
127 GTTGAAATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
1711440 CTTGCGTTGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
192 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
1711505 TGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
257 TGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
1711559 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-T-TTTGCTGACAAGCAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAACTGAAATTGTTTGTTGACAACCAG
*
1711621 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
* *
1711686 AAATTGGCTCTGAA-TGAAA-TTTTGTTGACAAGCAACGGTCCCTTTGTCGTGAAGTTGAACTTG
131 AAATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
*
1711749 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTT
196 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT
*
1711814 GTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
261 GTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* *
1711864 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-T-TTTGTTGACAAGCAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAACTGAAATTGTTTGTTGACAACCAG
*
1711926 CGCTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
1711991 AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCTGA-ATT-GAAAGTT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
1712056 TTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT
193 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT
* *
1712121 GTTGTTGAC-AACTAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
258 GTTGTTGACAAAC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* * *
1712174 AATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-AACT--G-AAATTGTTTGTTGACAA
1712239 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
62 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
1712304 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
127 GTTGAAATTGGCTCTG-AATTGA-AAG-T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
* * * * *
1712369 TGAACTTGTGTTGTCTCGAGTGCCATGATATCCTCCGTCGTGGAGTTGAAAT
188 TGAACTTGCGTTGTCTGGAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1712421 CGCGGATGGC
Statistics
Matches: 800, Mismatches: 41, Indels: 32
0.92 0.05 0.04
Matches are distributed among these distances:
305 380 0.47
306 2 0.00
307 5 0.01
308 4 0.00
309 4 0.00
310 187 0.23
311 37 0.05
312 2 0.00
314 1 0.00
315 3 0.00
316 3 0.00
317 95 0.12
318 51 0.06
319 4 0.00
321 22 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (310 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAACTGAAATTGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAATTGAAAGTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT
GTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:1713114 original size:68 final size:65
Alignment explanation
Indices: 1713024--1713410 Score: 233
Period size: 65 Copynumber: 5.8 Consensus size: 65
1713014 AAGATATCTG
* * **
1713024 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
1713089 TT
64 TT
* * *
1713091 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
1713156 T
65 T
* ** * * *
1713157 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAAC-AAAATTTGTTTTAAGGGAAA-----T--A-A-A
** *
1713221 GACAAA-ACT
56 TTCAAAGATT
* * * **** * * * * * *
1713230 TAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGTATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * ** * *** *
1713295 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATG-TT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* *
1713359 TATGTTTCAAGAGAAACTGTCTCAAGGGAGAA-AAATTTTGTTTCAAGGGAAA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTTGTTTTAAGGGAAA
1713411 CTGTCTCAAG
Statistics
Matches: 242, Mismatches: 63, Indels: 32
0.72 0.19 0.09
Matches are distributed among these distances:
64 8 0.03
65 123 0.51
66 9 0.04
67 24 0.10
68 32 0.13
70 1 0.00
72 2 0.01
73 38 0.16
74 5 0.02
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:1713208 original size:36 final size:36
Alignment explanation
Indices: 1713157--1713464 Score: 159
Period size: 36 Copynumber: 8.9 Consensus size: 36
1713147 TTCAAAGATT
* *
1713157 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAAC
1713193 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * * * **** *
1713229 TTAGTTCCAAAAGAAACTGTCTCAAGGGAAATGGTAT
1 TT-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
* * **
1713266 TTGTTTCAA-AGAAAACATAT-TC-----A-A-ATATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAAC
*
1713295 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
** * * * ***
1713331 TCATTTCAAGGGAAA-TGTTTTC-A-A-TG--TTTA-
1 TTGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAAC
* *
1713361 -TGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-C
* **
1713396 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
*
1713432 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1713465 TGATGAGCAC
Statistics
Matches: 208, Mismatches: 41, Indels: 46
0.71 0.14 0.16
Matches are distributed among these distances:
28 2 0.01
29 30 0.14
30 5 0.02
31 2 0.01
32 1 0.00
33 2 0.01
34 2 0.01
35 10 0.05
36 122 0.59
37 32 0.15
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
Found at i:1713354 original size:65 final size:66
Alignment explanation
Indices: 1713285--1713464 Score: 170
Period size: 65 Copynumber: 2.7 Consensus size: 66
1713275 AGAAAACATA
1713285 TTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CTCATTTCAAGGGAAA-TG
1 TTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTCATTTCAAGGGAAACTG
1713348 TT
66 -T
* * * * **
1713350 TTC-AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACT
1 TTCAAATATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTCATTTCAAGGGAAACT
1713413 GT
65 GT
* * *
1713415 CTCAAGAGAGACAAAGTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTC-----A-A-ATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1713465 TGATGAGCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
64 10 0.11
65 46 0.51
66 2 0.02
72 28 0.31
73 5 0.05
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (66 bp):
TTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATCTCATTTCAAGGGAAACTG
T
Found at i:1714348 original size:22 final size:22
Alignment explanation
Indices: 1714323--1714373 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1714313 TTGTGTTTGG
*
1714323 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATCTGATGC
*
1714345 TCAAAGGTTTGGTATCTGATGC
1 TCAAAGGTTTGGCATCTGATGC
1714367 TCAAAGG
1 TCAAAGG
1714374 ATTGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGGCATCTGATGC
Found at i:1715006 original size:20 final size:21
Alignment explanation
Indices: 1714980--1715041 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1714970 CTTTTTGTTC
*
1714980 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
1715001 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
1715021 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
1715042 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:1715052 original size:22 final size:22
Alignment explanation
Indices: 1714998--1715050 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
1714988 ATTTTTGTTC
1714998 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
1715019 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
1715042 TTTCTTTTT
1 TTTCTTTTT
1715051 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:1718199 original size:16 final size:18
Alignment explanation
Indices: 1718167--1718201 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1718157 ATATAAAAAC
1718167 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
1718185 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
1718201 A
1 A
1718202 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:1718245 original size:2 final size:2
Alignment explanation
Indices: 1718240--1718280 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1718230 ACACACACAC
1718240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1718281 AGTAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1718361 original size:2 final size:2
Alignment explanation
Indices: 1718354--1718384 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1718344 AAATATAAAA
1718354 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
1718385 ACACTAATAA
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:1722052 original size:26 final size:24
Alignment explanation
Indices: 1721975--1722052 Score: 59
Period size: 26 Copynumber: 3.1 Consensus size: 24
1721965 TAATTGTAAA
* *
1721975 GTTTTTATTTATTTATTTTCTTAAT
1 GTTTTTA-TTATTTATTTTTTTATT
***
1722000 -TTTTTATTATTTAATTGTTAGAATT
1 GTTTTTATTATTT-ATT-TTTTTATT
1722025 GTTTTTATTATTTAGTTTTTTTAGTT
1 GTTTTTATTATTTA-TTTTTTTA-TT
1722051 GT
1 GT
1722053 ATCATTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
23 6 0.15
24 9 0.22
25 8 0.20
26 18 0.44
ACGTcount: A:0.21, C:0.01, G:0.09, T:0.69
Consensus pattern (24 bp):
GTTTTTATTATTTATTTTTTTATT
Found at i:1728201 original size:24 final size:24
Alignment explanation
Indices: 1728174--1728229 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
1728164 TTCCAATTCA
1728174 GTTTGATCGATGGTCGAATTAATC
1 GTTTGATCGATGGTCGAATTAATC
1728198 GTTTGATCGATGGTCGAATTAATC
1 GTTTGATCGATGGTCGAATTAATC
1728222 GTTTGATC
1 GTTTGATC
1728230 ATCCCTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (24 bp):
GTTTGATCGATGGTCGAATTAATC
Found at i:1733329 original size:30 final size:30
Alignment explanation
Indices: 1733269--1733330 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1733259 AATAGATTTA
* *
1733269 TTTAGTGACCAAATTATAAATTTTATAAAG
1 TTTAGTGACCAAAGTATAAATTTGATAAAG
1733299 TTTAGTGACCAAAGTATAAACTTTGA-AAAG
1 TTTAGTGACCAAAGTATAAA-TTTGATAAAG
1733329 TT
1 TT
1733331 CAAGGACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTAGTGACCAAAGTATAAATTTGATAAAG
Found at i:1733339 original size:30 final size:30
Alignment explanation
Indices: 1733272--1733341 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
1733262 AGATTTATTT
* * *
1733272 AGTGACCAAATTATAAATTTTATAAAGTTT
1 AGTGACCAAAGTATAAATTTGATAAAGTTA
1733302 AGTGACCAAAGTATAAACTTTGA-AAAGTTCA
1 AGTGACCAAAGTATAAA-TTTGATAAAGTT-A
1733333 AG-GACCAAA
1 AGTGACCAAA
1733342 ATGTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (30 bp):
AGTGACCAAAGTATAAATTTGATAAAGTTA
Found at i:1735147 original size:45 final size:44
Alignment explanation
Indices: 1735038--1735260 Score: 313
Period size: 45 Copynumber: 5.0 Consensus size: 44
1735028 ATAAACTGAC
1735038 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGGT-A
*
1735084 AAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTTTATTGGTA
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGGTA
1735129 AAATAAGCTTACGAGCTTATGAGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGA-ATAAATGGTAAGTATATTGGTA
* * * *
1735174 AAATAAGCTTACGAGCTTATGAGTTAAATGATGAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGA-ATAAATGGTAAGTATATTGGTA
* * *
1735219 AAATAAGCTTACAAGCTTATGGGATAAATGGTAA-AATATTGG
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGG
1735261 ACATGCATGT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
44 8 0.05
45 110 0.68
46 43 0.27
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGAATAAATGGTAAGTATATTGGTA
Found at i:1737218 original size:23 final size:23
Alignment explanation
Indices: 1737192--1737236 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1737182 CACCACAGCT
*
1737192 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
1737215 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
1737237 ATATAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:1737470 original size:154 final size:149
Alignment explanation
Indices: 1737204--1737523 Score: 543
Period size: 154 Copynumber: 2.1 Consensus size: 149
1737194 TATAATTGCA
1737204 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1737268 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
1737333 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
*
1737353 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCATACCACAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGG-----ACCACAT
1737418 ATTATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACA
61 ATTATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACA
*
1737483 TGTTCCAAAGAATATACATATGTC
126 TGTTCCAAAGAATATACATATATC
1737507 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1737524 CCCTCGACTC
Statistics
Matches: 161, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
148 1 0.01
149 50 0.31
154 110 0.68
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:1739013 original size:21 final size:21
Alignment explanation
Indices: 1738989--1739033 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1738979 TTTTGTTCGT
* *
1738989 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1739010 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1739031 TTG
1 TTG
1739034 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1742213 original size:23 final size:23
Alignment explanation
Indices: 1742187--1742231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1742177 CACCACAGCT
* *
1742187 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTACACCGAAGTGCCG
*
1742210 CGTAGAATTACACCGTAGTGCC
1 CGTAGAATTACACCGAAGTGCC
1742232 ATATAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCG
Found at i:1742452 original size:149 final size:149
Alignment explanation
Indices: 1742199--1742513 Score: 551
Period size: 149 Copynumber: 2.1 Consensus size: 149
1742189 TATAATTGCA
1742199 CCGAAGTG-CCGCGTAGAATTACACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTACACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1742263 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* * *
1742328 CCACAGAATATATATATATC
130 CCAAAGAATATACATATACC
* *
1742348 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
*
1742413 TCCTTAAGAATCATATACATATACTAGGGATCAATTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
1742478 CAAAGAATATACATATGCC
131 CAAAGAATATACATATACC
1742497 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1742514 CCCTCGACTC
Statistics
Matches: 158, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 157 0.99
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATACC
Found at i:1744004 original size:21 final size:21
Alignment explanation
Indices: 1743980--1744024 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1743970 TTTTGTTCGT
* *
1743980 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1744001 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1744022 TTG
1 TTG
1744025 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1756028 original size:14 final size:13
Alignment explanation
Indices: 1756009--1756046 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
1755999 GATAATGGGC
1756009 GATAATGATGATTT
1 GATAATGATGA-TT
1756023 GATAATGATGA-T
1 GATAATGATGATT
*
1756035 GACAATGATGAT
1 GATAATGATGAT
1756047 GGTAATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (13 bp):
GATAATGATGATT
Found at i:1758015 original size:21 final size:21
Alignment explanation
Indices: 1757963--1758023 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1757953 AACCCAAAAT
*
1757963 TCTAAATCTCAAATCCTAAAC
1 TCTAAATCTTAAATCCTAAAC
* * *
1757984 -CAAAAAACTTAAATCTTAAAC
1 TC-TAAATCTTAAATCCTAAAC
1758005 TCTAAATCTT-AATCCTAAA
1 TCTAAATCTTAAATCCTAAA
1758024 AAGAAAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 9 0.29
21 21 0.68
22 1 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TCTAAATCTTAAATCCTAAAC
Found at i:1760623 original size:123 final size:123
Alignment explanation
Indices: 1760404--1760633 Score: 379
Period size: 123 Copynumber: 1.9 Consensus size: 123
1760394 GGGATCGATC
*
1760404 TTGGATAGTAGGGGGAGACTTCATTGTGGCCAGGTTGAATAGTGATCGAAGAAGCTGAAAGAGTA
1 TTGGATAGTAGGGGGAGACTTCATTGCGGCCAGGTTGAATAGTGATCGAAGAAGCTGAAAGAGTA
* * *
1760469 TAGTGTCAAGTGATCATCATCTTCTAAAACTTTGCTTCTTTGCGTCTAGAATCGATTT
66 TAGGGTCAAGTGAACATCATCGTCTAAAACTTTGCTTCTTTGCGTCTAGAATCGATTT
* * *
1760527 TTGGATAGTAGGGTGAGACTTCATTGCGGCTAGGTTGAATAGTGATCGAAGAGGCTGAAAGAGTA
1 TTGGATAGTAGGGGGAGACTTCATTGCGGCCAGGTTGAATAGTGATCGAAGAAGCTGAAAGAGTA
* *
1760592 TGGGGTCAAGTGAAGATCATCGTCTAAAACTTTGCTTCTTTG
66 TAGGGTCAAGTGAACATCATCGTCTAAAACTTTGCTTCTTTG
1760634 AGATGATGTT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 98 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (123 bp):
TTGGATAGTAGGGGGAGACTTCATTGCGGCCAGGTTGAATAGTGATCGAAGAAGCTGAAAGAGTA
TAGGGTCAAGTGAACATCATCGTCTAAAACTTTGCTTCTTTGCGTCTAGAATCGATTT
Found at i:1761853 original size:32 final size:31
Alignment explanation
Indices: 1761759--1761892 Score: 92
Period size: 31 Copynumber: 4.3 Consensus size: 31
1761749 CAAAGAGTTA
* * *
1761759 ACCTAAGGGAACATCTTAGGGCCTCAGAGCCT
1 ACCTAA-GAAACATCTTAGGGCCGCAGGGCCT
* * * * *
1761791 ACCCAAGATAGAT-TTTGAGGCCG-TGTGGCCT
1 ACCTAAGAAACATCTTAG-GGCCGCAG-GGCCT
*
1761822 ACCTAATAACACATCTTAGGGCCGCAGGGCCT
1 ACCTAAGAA-ACATCTTAGGGCCGCAGGGCCT
** ** *
1761854 ACCCGAGAATGATCTTAGGGCCGCAGAGCCT
1 ACCTAAGAAACATCTTAGGGCCGCAGGGCCT
1761885 ACCTAAGA
1 ACCTAAGA
1761893 GTCACATTAG
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
30 4 0.05
31 43 0.57
32 24 0.32
33 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (31 bp):
ACCTAAGAAACATCTTAGGGCCGCAGGGCCT
Found at i:1764669 original size:13 final size:13
Alignment explanation
Indices: 1764652--1764687 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1764642 GTCTACAGAT
1764652 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
* *
1764665 TGGGTCAGGTCAA
1 CGGGTCGGGTCAA
1764678 CGGGTCGGGT
1 CGGGTCGGGT
1764688 AAACAGGTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1764686 original size:31 final size:31
Alignment explanation
Indices: 1764628--1764687 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1764618 AGTGGTCAAC
* *
1764628 GGTCAACGGGTCGGGTCTACAGATCGGGTCG
1 GGTCAACGGGTCAGGTCAACAGATCGGGTCG
* * *
1764659 GGTCAATGGGTCAGGTCAACGGGTCGGGT
1 GGTCAACGGGTCAGGTCAACAGATCGGGT
1764688 AAACAGGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.43, T:0.20
Consensus pattern (31 bp):
GGTCAACGGGTCAGGTCAACAGATCGGGTCG
Found at i:1766776 original size:32 final size:30
Alignment explanation
Indices: 1766740--1766815 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
1766730 GAGGCCGTGT
*
1766740 GGCCTACCTAAGAACACATCTTAGGGCCGCAA
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGC-A
** **
1766772 GGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGCCTACCTAAGAAACATCTCAGGGCCGCA
1766802 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
1766816 GTCATATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 2 0.06
31 22 0.61
32 12 0.33
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (30 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:1769651 original size:13 final size:13
Alignment explanation
Indices: 1769635--1769680 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
1769625 GTCAACAGAT
1769635 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
1769648 CGGGTCGGGT---
1 CGGGTCGGGTCAA
1769658 C-GGTCGGGTCAA
1 CGGGTCGGGTCAA
1769670 CGGGTCGGGTC
1 CGGGTCGGGTC
1769681 GGGTTGTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.28
10 1 0.03
12 1 0.03
13 19 0.66
ACGTcount: A:0.09, C:0.24, G:0.50, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1769665 original size:22 final size:22
Alignment explanation
Indices: 1769637--1769682 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1769627 CAACAGATCG
1769637 GGTCGGGTCAACGGGTCGGGTC
1 GGTCGGGTCAACGGGTCGGGTC
1769659 GGTCGGGTCAACGGGTCGGGTC
1 GGTCGGGTCAACGGGTCGGGTC
1769681 GG
1 GG
1769683 GTTGTGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (22 bp):
GGTCGGGTCAACGGGTCGGGTC
Found at i:1769682 original size:18 final size:18
Alignment explanation
Indices: 1769617--1769684 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
1769607 CAACGGTCAA
* * *
1769617 CGGGTTGGGTCAACAGAT
1 CGGGTCGGGTCAACGGGT
1769635 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
1769653 CGGGTCGGTCGGGTCAACGGGT
1 C--G--GGTCGGGTCAACGGGT
1769675 CGGGTCGGGT
1 CGGGTCGGGT
1769685 TGTGACTGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 24 0.56
20 2 0.05
22 17 0.40
ACGTcount: A:0.12, C:0.21, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:1770491 original size:33 final size:32
Alignment explanation
Indices: 1770444--1770518 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
1770434 GTGTTACACG
* * *
1770444 GGTTTTTTTCAAAAAATTTCGGGATCGGGTC-
1 GGTTTTTTTAAAAAAAATTCAGGATCGGGTCA
*
1770475 GGATTTTTTTAAAAAAAATTCAGGTTCGGGTCA
1 GG-TTTTTTTAAAAAAAATTCAGGATCGGGTCA
1770508 GGTTTTTTTAA
1 GGTTTTTTTAA
1770519 GTGTGATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 2 0.05
32 34 0.89
33 2 0.05
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (32 bp):
GGTTTTTTTAAAAAAAATTCAGGATCGGGTCA
Found at i:1771198 original size:17 final size:18
Alignment explanation
Indices: 1771154--1771198 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1771144 TTTATGAGGA
1771154 AATTGGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGG
* *
1771172 AATTGAAATCTGT-TAGG
1 AATTGGAATCTGTGAAGG
*
1771189 ATTTGGAATC
1 AATTGGAATC
1771199 CAATTCCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGG
Found at i:1772332 original size:252 final size:242
Alignment explanation
Indices: 1771733--1772337 Score: 720
Period size: 257 Copynumber: 2.4 Consensus size: 242
1771723 CATCCGCGAC
* * * * * *
1771733 CCGACCTGGCCAAAATAAAGTTTCGCCGGACCCG-ACTCGAATATATGAATTAGAAACCTGACCC
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGCCCT-GAATATATGAATTAGAAACCCGACCC
*
1771797 GACCGGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATA
65 GACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATA
*
1771862 TAAAGGGGTATTATTGTAATTATTCCTAAATATAAAAGGTAAAATTATATATTTTTTGGGCCGGG
130 TAAAGGGGTATTATTGTAATTATTCCTAAATATAAAAGGTAAAATTATATATATTTT--G-CGGG
*
1771927 CTGGGTATTTTTCACCCTAAACCCGACCTGAATATCACACTTAAAAAAAACCGAA
192 CTGGGTATTTTTCACCCTAAACCCGACCCGAATATCACACTT--AAAAAA-C-AA
* *
1771982 CCGACCCGACCAAAATAAAGTTTCACCCGACCCAACCC-GAATATATGAATTAGAAATCCGACCC
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCC-GCCCTGAATATATGAATTAGAAACCCGACCC
* * * *
1772046 GACCTAACCCGAAAAAATAAAAAAATAATTTTATTCAATAAAAACTGTGATTTAATT-GAAAAAA
65 G-----ACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAA
* *
1772110 ATTATATATAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGGTAAAATTATATATATTTT
125 A-TATATA-A-AGGGGTATTATTGTAATTATTCCTAAATATAAAAGGTAAAATTATATATATTTT
1772175 -CGGG-TCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACACGAATATCACACTT-AAAAA
187 GCGGGCT-GGGTATTTTTCACCCTAAA--C---C-CGA--C--C-CGAATATCACACTTAAAAAA
1772237 -AA
240 CAA
* *
1772239 CCGACCCGACCAATATAAAGTTTCACCTGACCCGCCCTGAATATATGAATTAGAAACCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGCCCTGAATATATGAATTAGAAACCCGACCCG
*
1772304 ACCCGAAATAATAAAAAAATATTTTTATTAAATA
66 ACCCGAAATAATAAAAAAATATTTTTATTCAATA
1772338 TATAAATAAG
Statistics
Matches: 309, Mismatches: 24, Indels: 43
0.82 0.06 0.11
Matches are distributed among these distances:
249 54 0.17
251 2 0.01
252 54 0.17
253 8 0.03
254 53 0.17
255 1 0.00
256 54 0.17
257 60 0.19
258 3 0.01
260 6 0.02
262 1 0.00
263 13 0.04
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (242 bp):
CCGACCCGACCAAAATAAAGTTTCACCCGACCCGCCCTGAATATATGAATTAGAAACCCGACCCG
ACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAATATAT
AAAGGGGTATTATTGTAATTATTCCTAAATATAAAAGGTAAAATTATATATATTTTGCGGGCTGG
GTATTTTTCACCCTAAACCCGACCCGAATATCACACTTAAAAAACAA
Found at i:1772432 original size:27 final size:27
Alignment explanation
Indices: 1772402--1772456 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 27
1772392 CTTCAATAAG
1772402 GGAATTGAATTCCATCATAGAATGGAT
1 GGAATTGAATTCCATCATAGAATGGAT
1772429 -G----GAATTCCATCATAGAATGGAT
1 GGAATTGAATTCCATCATAGAATGGAT
*
1772451 GAAATT
1 GGAATT
1772457 CACTTTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 10
0.67 0.03 0.30
Matches are distributed among these distances:
22 21 0.95
26 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (27 bp):
GGAATTGAATTCCATCATAGAATGGAT
Found at i:1772433 original size:22 final size:22
Alignment explanation
Indices: 1772408--1772457 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1772398 TAAGGGAATT
1772408 GAATTCCATCATAGAATGGATG
1 GAATTCCATCATAGAATGGATG
1772430 GAATTCCATCATAGAATGGATG
1 GAATTCCATCATAGAATGGATG
*
1772452 AAATTC
1 GAATTC
1772458 ACTTTCCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (22 bp):
GAATTCCATCATAGAATGGATG
Found at i:1773686 original size:23 final size:23
Alignment explanation
Indices: 1773656--1773710 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
1773646 AATATATGGC
1773656 GACCTAACTGGAGAGCCAATGAT
1 GACCTAACTGGAGAGCCAATGAT
1773679 GACCTAACTGGAGAGCCAATGAT
1 GACCTAACTGGAGAGCCAATGAT
*
1773702 GACCCAACT
1 GACCTAACT
1773711 TGCTCATCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (23 bp):
GACCTAACTGGAGAGCCAATGAT
Found at i:1777191 original size:31 final size:31
Alignment explanation
Indices: 1777153--1777277 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1777143 CCCGAAGGAC
* *
1777153 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1777184 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
**
1777215 CAGTCTGTATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1777246 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1777277 C
1 C
1777278 CCTCGACTCT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1778042 original size:64 final size:65
Alignment explanation
Indices: 1777934--1778111 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 65
1777924 TAATGAAGGT
* * ** * **
1777934 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAAT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCGCATTCGATGTAATCATTATTAATGGG
* ** *
1777998 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATCGCATTCGATGT-TTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCGCATTCGATGTAATCATTATTAATGGG
* *
1778062 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTA
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCGCATTCGATGTA
1778112 TTTTTTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
63 1 0.01
64 96 0.99
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATCGCATTCGATGTAATCATTATTAATGGG
Found at i:1780289 original size:19 final size:19
Alignment explanation
Indices: 1780265--1780305 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1780255 TATATTTTAT
1780265 ATAACAAGTTTTCATTCCC
1 ATAACAAGTTTTCATTCCC
1780284 ATAACAAGTTTTCATTCCC
1 ATAACAAGTTTTCATTCCC
1780303 ATA
1 ATA
1780306 TCATAGGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAACAAGTTTTCATTCCC
Found at i:1780590 original size:73 final size:75
Alignment explanation
Indices: 1780413--1780590 Score: 209
Period size: 73 Copynumber: 2.4 Consensus size: 75
1780403 CAGAATATAG
* *
1780413 GTATCGATATTTTAACTTTCAAT-TATATCTTCATCAAAATTTTCAATATATATAAAAGGATCAA
1 GTATCGATATTTTAACTATCGATCT-TATC-T--TCAAAATTTTCAATATATATAAAAGGATCAA
* * *
1780477 TCGTCATAGCATAT
62 TCATCATAACATAA
* * *
1780491 GTATCGATATTTTAACTTTCGCTCTTATCTTCAAAATTTTCAATAT-T-TAAAAGTATCAATCAT
1 GTATCGATATTTTAACTATCGATCTTATCTTCAAAATTTTCAATATATATAAAAGGATCAATCAT
*
1780554 TATAACATAA
66 CATAACATAA
*
1780564 GTATTGATATTTTAACTATCGATCTTA
1 GTATCGATATTTTAACTATCGATCTTA
1780591 CTTTCATTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
73 45 0.51
74 1 0.01
75 16 0.18
77 1 0.01
78 25 0.28
79 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (75 bp):
GTATCGATATTTTAACTATCGATCTTATCTTCAAAATTTTCAATATATATAAAAGGATCAATCAT
CATAACATAA
Found at i:1781316 original size:185 final size:185
Alignment explanation
Indices: 1780922--1781654 Score: 724
Period size: 185 Copynumber: 3.9 Consensus size: 185
1780912 TTATAATCGG
** * * * *** * *
1780922 ATTTATTACATAGAATTTTAACATTCTATATTGCAACCTACTTTCTTAGCGATTGATAACGTTCT
1 ATTTATTACATAGAAAATTAACATTCCAAATCGCAACCTACTTTCTTAGCGACCAATAACATTAT
* * * * * *
1780987 TGAATGTAACCGAATCTATTATAGATATTCATAATATTTTTAGCTTTTAACTTATTTTATTATTG
66 TGGATGCAACCAAATTTATTATAGATATTCATAACATTTTTAGCTTTTAACTTATTTTATTATCG
* * * * *
1781052 TGGGAATGTCTAAGGCCCTATTAGATAAACTTAGTTAATATTTTAGGCGCAACCGA
131 TGGGAATGTCTAAGGCCC-ATCAGCTAAACTTTGGTAACATTTTAGGCGCAACCGA
* ** *
1781108 ACTTATTACATAGAAGTTTAACATTTCAAATCGCAACCTACTTTCTTAGCGACCAATAACATTAT
1 ATTTATTACATAGAAAATTAACATTCCAAATCGCAACCTACTTTCTTAGCGACCAATAACATTAT
* * * *
1781173 TGGATGCAACCAAATTTATTATATATATTCATATA-A-TTTTAGATTTTAACTTATTTTCTTATT
66 TGGATGCAACCAAATTTATTATAGATATTCATA-ACATTTTTAGCTTTTAACTTATTTTATTATC
* * ** *
1781236 GTGGGAATATCTAAGGCCTCATCAGCTAGACTTTGGTAACATTTTAGATGCAACTGA
130 GTGGGAATGTCTAAGGCC-CATCAGCTAAACTTTGGTAACATTTTAGGCGCAACCGA
* * * *
1781293 ATTTATTACACAAAAAATTAACATTCCAAATCG-AATCCTACTTTCTTAGTGACCAATAACATTC
1 ATTTATTACATAGAAAATTAACATTCCAAATCGCAA-CCTACTTTCTTAGCGACCAATAACATTA
* *** * * *
1781357 TTGGGTGCAACTTGATTTCTTATAGATATTCATAACATTTTTATCTTTTAACTTATTTTTTTATC
65 TTGGATGCAACCAAATTTATTATAGATATTCATAACATTTTTAGCTTTTAACTTATTTTATTATC
* * * * *
1781422 GTGTGAATTTCTAAGGCCCATCAACTAAACTCTGGTAACATTTTAGGCACAACCGA
130 GTGGGAATGTCTAAGGCCCATCAGCTAAACTTTGGTAACATTTTAGGCGCAACCGA
* ** ** *
1781478 ATTTATTACATAGAAAATTAACATTCCAGATCATAATGTACTTTCTTAGCGACCTATAACATTAT
1 ATTTATTACATAGAAAATTAACATTCCAAATCGCAACCTACTTTCTTAGCGACCAATAACATTAT
* * * * * * *
1781543 T--AAGC-ACTAGTGGATTTTTTTATAAATATTCATAACATTTTTAGTTTTTAACTTATTTTGTT
66 TGGATGCAACCA----AATTTATTATAGATATTCATAACATTTTTAGCTTTTAACTTATTTTATT
* * * *
1781605 ACCGTTGGAATGTCTAAGGCCTCATCAGCTAATCTCTT-ATAACATTTTAG
127 ATCGTGGGAATGTCTAAGGCC-CATCAGCTAAACT-TTGGTAACATTTTAG
1781655 ACGTAATAGA
Statistics
Matches: 453, Mismatches: 82, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
182 3 0.01
183 2 0.00
184 3 0.01
185 237 0.52
186 184 0.41
187 23 0.05
188 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (185 bp):
ATTTATTACATAGAAAATTAACATTCCAAATCGCAACCTACTTTCTTAGCGACCAATAACATTAT
TGGATGCAACCAAATTTATTATAGATATTCATAACATTTTTAGCTTTTAACTTATTTTATTATCG
TGGGAATGTCTAAGGCCCATCAGCTAAACTTTGGTAACATTTTAGGCGCAACCGA
Found at i:1782609 original size:22 final size:21
Alignment explanation
Indices: 1782584--1782626 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
1782574 TAGATTTGTT
1782584 TTAAAATATAAACATATAAATA
1 TTAAAATATAAACATA-AAATA
* * *
1782606 TTAAGATTTAAACCTAAAATA
1 TTAAAATATAAACATAAAATA
1782627 GTAATAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAATATAAACATAAAATA
Found at i:1783256 original size:20 final size:20
Alignment explanation
Indices: 1783233--1783281 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1783223 CGATTACAAA
* *
1783233 TTGACAAAATTGGTTGAAAT
1 TTGAGAAAATCGGTTGAAAT
**
1783253 TTGAGAAAATCGGTTTCAAT
1 TTGAGAAAATCGGTTGAAAT
1783273 TTGAGAAAA
1 TTGAGAAAA
1783282 CCAATAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGAGAAAATCGGTTGAAAT
Found at i:1783757 original size:18 final size:18
Alignment explanation
Indices: 1783734--1783772 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1783724 CATAGTATCG
1783734 ATACTTTAGTAATTGAAA
1 ATACTTTAGTAATTGAAA
1783752 ATACTTTAGTAATTGAAA
1 ATACTTTAGTAATTGAAA
1783770 ATA
1 ATA
1783773 AATGAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (18 bp):
ATACTTTAGTAATTGAAA
Found at i:1790954 original size:199 final size:200
Alignment explanation
Indices: 1790528--1791617 Score: 934
Period size: 199 Copynumber: 5.5 Consensus size: 200
1790518 TTTATATCCA
* ** * *
1790528 TATCGATACTTTTATTCTAGTGTGGTTCTCAAACAATTTGCTCGCAACAAAGTACCGATACCCAT
1 TATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACGCAA-AAAGTATCGATA--CAT
* * * * *
1790593 ATA-AAC-AGTATTAATACTTGGAATTTCGAAACTTATTACTTTATAGTAATAGGTAAATATACA
63 ATATAACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACA
* *
1790656 AT-TGAAATGGTAAAAATCTACCGGTTTACTGATAATGGGCGTAAACATAAAGTAAT-GATATTT
128 ATGT-AAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGT-ATCGATATTT
* *
1790719 ATTATATACG
191 TTTATATAGG
* * *
1790729 TATCGATACTTTTATTATAGTATGCATCTCAAACAAATTGCATGCACAAAAGTATCGATACATAT
1 TATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACGCA-AAAAGTATCGATACATAT
* * * * * * * **
1790794 ATAACAAGTATCGATACTTATAATTTTGAACCCTACTCCTTCAAAGTAATATATAAATTTACAAT
65 ATAACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
* * * *
1790859 GTAAATGGTAAAAGTCTATCAGTTTAATGATAATAGGCATAAA-A-AAAGTATCGATATTTTTTA
130 GTAAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATATTTTTTA
*
1790922 TATAAG
195 TATAGG
* * ** * *
1790928 TACCAATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACATAAAAACATATCGATGCATAT
1 TATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACGCAAAAA-GTATCGATACATAT
* * * * * ** *
1790993 ATAAAAAGTATCTATATTTATAATTTCGAAATCTGGTACTTTAAAGTAATAGGTCAATTTACAAT
65 ATAACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
** * * *
1791058 GTCGACGGTAAAATTCTACCGGTTTAATGATAATATGCGTAAACATAAAGTATCGAT-TCTTTTT
130 GTAAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAT-TTTTT
1791122 ATATAGG
194 ATATAGG
** * * *
1791129 TATAAATACTTTTATTCCAGTATGCATCTCAAACAATTTACACGCAAAAAAGTATCAATAC---T
1 TATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACGC-AAAAAGTATCGATACATAT
* * ** * * * ** *
1791191 -TAA-AA-TTTCAAAACCTT-TTATTT-TAAAGC-A--A---T-ATGTAAT-TTTACAATGT---
65 ATAACAAGTATCAATA-CTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTA-AATTTACA
* ** ** * *
1791240 A---AA-TGGTAAAAATCTACTGGTTTAATGATAATAGATGTAAACATAAAAAATCGATACTTAT
128 ATGTAAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATATTTTT
1791301 TATATAGG
193 TATATAGG
* * * *
1791309 TATCGATA-TCGTTATTCCAGTATGCATCTCGAACAATTTGCACGCAAAAAGTATCGATACACAT
1 TATCGATACT-TTTATTCTAGTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACATAT
* * * *
1791373 ATAACAAGTATCAATACTTGGACTTTAGAAACCTTTTACTTTAAAGTAATAGGTAAATTT-CAAT
65 ATAACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
* * * * * * *
1791437 GTAAACGGTAAAAATCAACCGGTGTAAAGATAATAGGCGTAAACATAAAGTATTGGTATTTTTAA
130 GTAAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATATTTTTTA
*
1791502 TATATG
195 TATAGG
* * * * *
1791508 TATCGATACTTTTATTAC-AGTATGCATCTTAAACAATTTTGCAAGCATAAAGTATTGATACACA
1 TATCGATACTTTTATT-CTAGTATGCATCTCAAACAA-TTTGCACGCAAAAAGTATCGATACATA
* * * *
1791572 TATATA-AAGTATCGATACTTGGAATTTCAAAACTTATTACTTTAAA
64 TATA-ACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAA
1791618 TGTATATCGG
Statistics
Matches: 709, Mismatches: 140, Indels: 81
0.76 0.15 0.09
Matches are distributed among these distances:
179 15 0.02
180 93 0.13
182 1 0.00
183 3 0.00
184 6 0.01
185 9 0.01
186 5 0.01
187 10 0.01
188 1 0.00
189 1 0.00
191 1 0.00
192 1 0.00
193 10 0.01
194 6 0.01
195 11 0.02
196 4 0.01
197 3 0.00
198 9 0.01
199 244 0.34
200 70 0.10
201 199 0.28
202 7 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (200 bp):
TATCGATACTTTTATTCTAGTATGCATCTCAAACAATTTGCACGCAAAAAGTATCGATACATATA
TAACAAGTATCAATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATG
TAAATGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATATTTTTTAT
ATAGG
Found at i:1791306 original size:180 final size:179
Alignment explanation
Indices: 1790995--1791368 Score: 457
Period size: 180 Copynumber: 2.1 Consensus size: 179
1790985 ATGCATATAT
* * * * * *
1790995 AAAAAGTATCTATATTTATAATTTCGAAATCTGGTACTTTAAAGTAATAGGTCAATTTACAATGT
1 AAAAAGTATCAATACTTAAAATTTCAAAACCTGGTACTTTAAAGCAATAGGTCAATTTACAATGT
** * ** * *
1791060 CGACGGTAAAATTCTACCGGTTTAATGATAATATGCGTAAACATAAAGTATCGATTCTTTTTATA
66 AAACGGTAAAAATCTACCGGTTTAATGATAATATGCGTAAACATAAAAAATCGATACTTATTATA
*
1791125 TAGGTATAAATA-CTTTTATTCCAGTATGCATCTCAAACAATTTACACGC
131 TAGGTATAAATATC-GTTATTCCAGTATGCATCTCAAACAATTTACACGC
** * *
1791174 AAAAAAGTATCAATACTTAAAATTTCAAAACCTTTTATTTTAAAGCAATATGT-AATTTTACAAT
1 -AAAAAGTATCAATACTTAAAATTTCAAAACCTGGTACTTTAAAGCAATAGGTCAA-TTTACAAT
* * *
1791238 GTAAATGGTAAAAATCTACTGGTTTAATGATAATA-GATGTAAACATAAAAAATCGATACTTATT
64 GTAAACGGTAAAAATCTACCGGTTTAATGATAATATG-CGTAAACATAAAAAATCGATACTTATT
** * *
1791302 ATATAGGTATCGATATCGTTATTCCAGTATGCATCTCGAACAATTTGCACGC
128 ATATAGGTATAAATATCGTTATTCCAGTATGCATCTCAAACAATTTACACGC
*
1791354 AAAAAGTATCGATAC
1 AAAAAGTATCAATAC
1791369 ACATATAACA
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
179 17 0.10
180 147 0.89
181 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (179 bp):
AAAAAGTATCAATACTTAAAATTTCAAAACCTGGTACTTTAAAGCAATAGGTCAATTTACAATGT
AAACGGTAAAAATCTACCGGTTTAATGATAATATGCGTAAACATAAAAAATCGATACTTATTATA
TAGGTATAAATATCGTTATTCCAGTATGCATCTCAAACAATTTACACGC
Found at i:1791447 original size:379 final size:379
Alignment explanation
Indices: 1790836--1791546 Score: 901
Period size: 379 Copynumber: 1.9 Consensus size: 379
1790826 CTACTCCTTC
* * *
1790836 AAAGTAATATATAAATTTACAATGTAAATGGTAAAAGTCTATCAGTTTAATGATAATAGGCATAA
1 AAAGCAATATATAAATTTACAATGTAAATGGTAAAAATCTATCAGTTTAATGATAATAGACATAA
** * * * *
1790901 AAAAAGTATCGATATTTTTTATATAAGTACCAATACTTTTATTCTAGTATGCATCTCAAACAATT
66 AAAAAAAATCGATACTTATTATATAAGTACCAATACTGTTATTCCAGTATGCATCTCAAACAATT
* * * * * * * *
1790966 TGCACATAAAAACATATCGATGCATATATAAAAAGTATCTATATTTATAATTTCGAAATCTGGTA
131 TGCACACAAAAACATATCGATACACATATAAAAAGTATCAATACTTAGAATTTAGAAACCTGGTA
* ** * * * * *
1791031 CTTTAAAGTAATAGGTCAATTTACAATGTCGACGGTAAAATTCTACCGGTTTAATGATAATATGC
196 CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCAACCGGTGTAAAGATAATAGGC
* *
1791096 GTAAACATAAAGTATCGAT-TCTTTTTATATAGGTATAAATACTTTTATTCCAGTATGCATCTCA
261 GTAAACATAAAGTATCGATAT-TTTTAATATAGGTATAAATACTTTTATTACAGTATGCATCTCA
1791160 AACAATTTACACGCAAAAAAGTATCAATACTTAAAATTTCAAAACCTTTTATTTT
325 AACAATTTACACGCAAAAAAGTATCAATACTTAAAATTTCAAAACCTTTTATTTT
* * * **
1791215 AAAGCAATATGTAATTTTACAATGTAAATGGTAAAAATCTA-CTGGTTTAATGATAATAGATGTA
1 AAAGCAATATATAAATTTACAATGTAAATGGTAAAAATCTATC-AGTTTAATGATAATAGACATA
* * * *
1791279 AACATAAAAAATCGATACTTATTATATAGGTATCGATA-TCGTTATTCCAGTATGCATCTCGAAC
65 AA-A-AAAAAATCGATACTTATTATATAAGTACCAATACT-GTTATTCCAGTATGCATCTCAAAC
* * * * *
1791343 AATTTGCACGCAAAAA-GTATCGATACACATATAACAAGTATCAATACTTGGACTTTAGAAACCT
127 AATTTGCACACAAAAACATATCGATACACATATAAAAAGTATCAATACTTAGAATTTAGAAACCT
**
1791407 TTTACTTTAAAGTAATAGGTAAATTT-CAATGTAAACGGTAAAAATCAACCGGTGTAAAGATAAT
192 GGTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCAACCGGTGTAAAGATAAT
* * * **
1791471 AGGCGTAAACATAAAGTATTGGTATTTTTAATATATGTATCGATACTTTTATTACAGTATGCATC
257 AGGCGTAAACATAAAGTATCGATATTTTTAATATAGGTATAAATACTTTTATTACAGTATGCATC
*
1791536 TTAAACAATTT
322 TCAAACAATTT
1791547 TGCAAGCATA
Statistics
Matches: 278, Mismatches: 49, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
378 1 0.00
379 153 0.55
380 63 0.23
381 61 0.22
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (379 bp):
AAAGCAATATATAAATTTACAATGTAAATGGTAAAAATCTATCAGTTTAATGATAATAGACATAA
AAAAAAAATCGATACTTATTATATAAGTACCAATACTGTTATTCCAGTATGCATCTCAAACAATT
TGCACACAAAAACATATCGATACACATATAAAAAGTATCAATACTTAGAATTTAGAAACCTGGTA
CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCAACCGGTGTAAAGATAATAGGC
GTAAACATAAAGTATCGATATTTTTAATATAGGTATAAATACTTTTATTACAGTATGCATCTCAA
ACAATTTACACGCAAAAAAGTATCAATACTTAAAATTTCAAAACCTTTTATTTT
Found at i:1797028 original size:15 final size:14
Alignment explanation
Indices: 1797004--1797035 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1796994 TGTTGTGAAG
1797004 AAAGAAAAAGGAAA
1 AAAGAAAAAGGAAA
1797018 AAAGAAAAAAGGAAA
1 AAAG-AAAAAGGAAA
1797033 AAA
1 AAA
1797036 TTTTCTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGGAAA
Found at i:1797287 original size:23 final size:22
Alignment explanation
Indices: 1797260--1797302 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1797250 TAAAAGTTAA
1797260 AATAAAAAATAAAAGAAAATAAT
1 AATAAAAAATAAAA-AAAATAAT
* *
1797283 AATAATAAATCAAAAAAATA
1 AATAAAAAATAAAAAAAATA
1797303 TTTTCCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AATAAAAAATAAAAAAAATAAT
Found at i:1809013 original size:200 final size:201
Alignment explanation
Indices: 1808668--1810121 Score: 1635
Period size: 200 Copynumber: 7.3 Consensus size: 201
1808658 CACGCAAAAC
* * * *
1808668 AGTATCGATACTTAGAA-TTCTGAAACTTTTTACTTTAAAGTAATAGGTAAATTTATAATGAAAA
1 AGTATCGATACTTAGAATTTC-GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAA
* * * * *
1808732 TGGTAAAAATCTACCAGTTTAATGATAATAGGTGTAAACATAAACTATTGATTCTTATTATATAA
65 CGGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAA
* * * *
1808797 GTATCGATATTTTTATTCCAGTATGCATCT-AAACAATTTGCATGCAAAAAAGTATCGATACATA
130 GTATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACA
1808861 TATAACA
195 TATAACA
* * * *
1808868 AGTATCGATACTTAGAATTTCGAAACTTTTTACTTTAAAGTAATAAGTAAATTTACAATGGAAAC
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
* * * *
1808933 GGTAAAAATCTACCGGTTTAATGATAATAGGTGTAAACATAAACTATCGATTCTTATTATATAAG
66 GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAAG
* * * * *
1808998 TATCAATACTTTTATTCTAGTATGCATCTTAAACAATTTGTACGCAAAAAAGTATCGATGCATAT
131 TATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACAT
1809063 ATAACA
196 ATAACA
* * *
1809069 AGTATCCATACTT-GACTTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAG
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
* * * * * *
1809133 GGTTAAAATCTATCAGTTTAATGATAATAGGCGTAAACATAATGTATTGATACATATTATATAGG
66 GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAAG
* * *
1809198 TATCGATA-TTGTTATTCCAGTATGCATATCAAACAATTTGCACGCAAAAAA-TATCGATACATA
131 TATCAATACTT-TTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACA
1809261 TATAACA
195 TATAACA
* * ** * * * * *
1809268 AGTATCTATACTTAAAATTTTAAAACTTTTTACTTTAAAATAATAGATAAATTTACAATGGAAAC
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
* * *
1809333 GGTAAAAATCTATTAGTTTAATGATAATAGGTGTAAACATAAAGTATCAATACATATTATATAAG
66 GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAAG
* * **
1809398 TATCAATATTTTTATTCCAGTATGCATCTCAAACAATTTTCACGCAAAAAAAGTATTAATACACA
131 TATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGC-AAAAAAGTATCGATACACA
1809463 TATAACA
195 TATAACA
* * *
1809470 AGTATCGATACTTGGACTTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAT
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
* * * * * **
1809535 TGTCAAAATCTA-CCGATTTAATGATAATGGGTGTAAACATAAAGTATTGATACTTATTATATTG
66 GGTAAAAATCTATCAG-TTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAA
* * ** * *
1809599 GTATCGATACTGTTATTCCAGTATGCATCTCAAACAATTTGTTCG-AAAAAAGTATTGCTACACA
130 GTATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACA
1809663 TATAACA
195 TATAACA
* * * ** * *
1809670 AGTATCGATACTTGGATTTTCGAAAACTATTACTTTAAAGTAATATATAAATTTAAAATGTAAAT
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
* * * ** * * * *
1809735 GGTATAAATGTATCGGTTTAATGATAATAGACGTAAACTTAAAGTA-CTGATACGTAATATAT-T
66 GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATC-GATACTTATTATATAA
* *
1809798 GT-T--ATA-----A-T-CGGTATGCATCTCAAACAATTTGCACGC-AAAAAGTCTCGATACACA
130 GTATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACA
1809852 TATAACA
195 TATAACA
** * * * *
1809859 AGTATTAATACTTAGACTTTCCAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGCAAAC
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
*** * * * * * * *
1809924 AACAAATATCTATC-GTTTATTAATAATAGGAGTAAATATAAAGTATCGATACGTT-TAATATAG
66 GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATAC-TTATTATATAA
* * * *
1809987 GTATCAATACTTTCATTCCAATATGCTTCTCAAACAATTTGCACGTC--AAAAGCATCGATACAC
130 GTATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACG-CAAAAAAGTATCGATACAC
*
1810050 ATGT-ACAA
194 ATATAAC-A
* * * * *
1810058 AGTATCAATGCTTGGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTAACAATGTAAA
1 AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAA
1810122 GGATAGAAGT
Statistics
Matches: 1074, Mismatches: 154, Indels: 53
0.84 0.12 0.04
Matches are distributed among these distances:
188 34 0.03
189 111 0.10
190 2 0.00
191 1 0.00
192 3 0.00
196 3 0.00
197 1 0.00
198 4 0.00
199 133 0.12
200 558 0.52
201 64 0.06
202 160 0.15
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (201 bp):
AGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAC
GGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATAAAGTATCGATACTTATTATATAAG
TATCAATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACAT
ATAACA
Found at i:1810407 original size:179 final size:179
Alignment explanation
Indices: 1810073--1810408 Score: 421
Period size: 178 Copynumber: 1.9 Consensus size: 179
1810063 CAATGCTTGG
* * * *
1810073 AATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTAACAATGTAAAGGATAGAAGTTTTACC
1 AATTTCGAAACCTATTACTATAAAGTAATAGGCAAATTAACAATATAAAGGATAAAAGTTCTACC
* * ** *
1810138 GCTATAATGATAATAGGCGTATCTACAAAGTATAGATACTTTATATATAGGTATCGATACTGTTA
66 GATATAATGATAATAAGCGTAAATACAAAGTATAGATACTGTATATATAGGTATCGATACTGTTA
* * * *
1810203 GTCCAGTATGCTTCTCCATAATTTGCAAGCTAAATCTATTGATACCCGT
131 GTCCAATATGATTCTCAACAATTTGCAAGCTAAATCTATTGATACCCGT
*
1810252 AATTTCGAAA-CTGATTACTTTAAAGTAATAGGCAAATTTAA-AATATAAATGG-TAAAAG-TCT
1 AATTTCGAAACCT-ATTACTATAAAGTAATAGGCAAA-TTAACAATATAAA-GGATAAAAGTTCT
* * * *
1810313 ACCGATATATTGATAATAAGCGTAAATACCAAGTATCGATACTGTCTATATAGGTATCGATACT-
63 ACCGATATAATGATAATAAGCGTAAATACAAAGTATAGATACTGTATATATAGGTATCGATACTG
*
1810377 TTCATTCCAATATGATTCTCAAACAATTTGCA
128 TT-AGTCCAATATGATTCTC-AACAATTTGCA
1810409 CGCAAAAGGT
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
177 2 0.02
178 73 0.55
179 52 0.39
180 6 0.05
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (179 bp):
AATTTCGAAACCTATTACTATAAAGTAATAGGCAAATTAACAATATAAAGGATAAAAGTTCTACC
GATATAATGATAATAAGCGTAAATACAAAGTATAGATACTGTATATATAGGTATCGATACTGTTA
GTCCAATATGATTCTCAACAATTTGCAAGCTAAATCTATTGATACCCGT
Found at i:1811184 original size:118 final size:118
Alignment explanation
Indices: 1810986--1811233 Score: 329
Period size: 118 Copynumber: 2.1 Consensus size: 118
1810976 TAACAAATCA
* ** * *
1810986 AGTAATTAACCTATTTTGTTATCGTTGGATTTCTAAGTCCTCAGCAGCTTTAAACAAGCACTACC
1 AGTAATTAACCTATCTTGTTATCGTCAGATTTCTAAGGCCTCAGCAACTTTAAACAAGCACTACC
* * *
1811051 TATTACATTAAATAAGTGCTACTTGTTATGTTATTATGGTTGATAATGTTTCC
66 TATTACATTAAATAAGCGCTACCTGTTATGTTATTATGGTTGATAATATTTCC
* * *
1811104 AGTGATTAACCTATCTTGTTATCGTCAGATTTCTAAGGCC-CCGTCAACTTTAAA-AAGGCATTA
1 AGTAATTAACCTATCTTGTTATCGTCAGATTTCTAAGGCCTCAG-CAACTTTAAACAA-GCACTA
* * * *
1811167 CCTATTACGTTACATAAGCGCTACCTGTTGTGTTATTGTGGTTGATAATATTTCC
64 CCTATTACATTAAATAAGCGCTACCTGTTATGTTATTATGGTTGATAATATTTCC
1811222 AGTAATTAACCT
1 AGTAATTAACCT
1811234 GTTATGTTAA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
117 4 0.04
118 108 0.96
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (118 bp):
AGTAATTAACCTATCTTGTTATCGTCAGATTTCTAAGGCCTCAGCAACTTTAAACAAGCACTACC
TATTACATTAAATAAGCGCTACCTGTTATGTTATTATGGTTGATAATATTTCC
Found at i:1816231 original size:4 final size:4
Alignment explanation
Indices: 1816222--1816251 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1816212 AACATTTACG
1816222 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
1816252 AGGTAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:1816332 original size:21 final size:21
Alignment explanation
Indices: 1816306--1816347 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1816296 TTCTTTTTCC
1816306 TTCTGGTTTATCCTTCAAAAA
1 TTCTGGTTTATCCTTCAAAAA
1816327 TTCTGGTTTATCCTTCAAAAA
1 TTCTGGTTTATCCTTCAAAAA
1816348 AAAAAACCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
TTCTGGTTTATCCTTCAAAAA
Found at i:1817058 original size:16 final size:17
Alignment explanation
Indices: 1817024--1817058 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1817014 TGAATTATTT
1817024 AAAAGTTTCGTGGTAAA
1 AAAAGTTTCGTGGTAAA
1817041 AAAAGTTTCGTGGTAAA
1 AAAAGTTTCGTGGTAAA
1817058 A
1 A
1817059 CTGATATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (17 bp):
AAAAGTTTCGTGGTAAA
Found at i:1818164 original size:2 final size:2
Alignment explanation
Indices: 1818157--1818203 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1818147 CAATGAACTC
1818157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1818199 AT AT A
1 AT AT A
1818204 ATAGGAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1821173 original size:165 final size:165
Alignment explanation
Indices: 1820897--1821220 Score: 558
Period size: 165 Copynumber: 2.0 Consensus size: 165
1820887 TATTTTAAAT
* *
1820897 AATTTATAATTATATGTTAAGTCCTTTAAAATTTTAAATTTTTATAAATTAAATTAACGGTGTTC
1 AATTTATAATTATATGTTAAGTCCTTTAAAATTTTAAAGTTTTATAAATTAAATTAACGGTATTC
*
1820962 ATCGTTAGTAATGCTTAACAATACTCATCGAGCGTGACAAATTAATCTTATATAATATTAGAATT
66 ATCGTTACTAATGCTTAACAATACTCATCGAGCGTGACAAATTAATCTTATATAATATTAGAATT
*
1821027 TTTCATTTTTTATGTATTTGGTGGAAGTCCTTTAA
131 TTTCATTTTTTATGTATATGGTGGAAGTCCTTTAA
*
1821062 AATTTATAATTATATGTTAAGTCCTTTAAAATTTTAAAGTTTTATAAATTAAATTAATGGTATTC
1 AATTTATAATTATATGTTAAGTCCTTTAAAATTTTAAAGTTTTATAAATTAAATTAACGGTATTC
* ** * *
1821127 ATCGTTACTAATGCTTAACCATACTTGTCGAGTGTGACATATTAATCTTATATAATATTAGAATT
66 ATCGTTACTAATGCTTAACAATACTCATCGAGCGTGACAAATTAATCTTATATAATATTAGAATT
1821192 TTTCATTTTTTATGTATATGGTGGAAGTC
131 TTTCATTTTTTATGTATATGGTGGAAGTC
1821221 GAAAGATGTT
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 149 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (165 bp):
AATTTATAATTATATGTTAAGTCCTTTAAAATTTTAAAGTTTTATAAATTAAATTAACGGTATTC
ATCGTTACTAATGCTTAACAATACTCATCGAGCGTGACAAATTAATCTTATATAATATTAGAATT
TTTCATTTTTTATGTATATGGTGGAAGTCCTTTAA
Found at i:1834495 original size:42 final size:42
Alignment explanation
Indices: 1834448--1834528 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
1834438 AAAGGTGAAA
* *
1834448 AAAGTAGAACGAAATGAGGCATCACACTTTCGATTCTCGTCT
1 AAAGTAGAACGAAATGAAGCATAACACTTTCGATTCTCGTCT
*
1834490 AAAGTAGAACGAAATGAAGCATAACACTTTTGATTCTCG
1 AAAGTAGAACGAAATGAAGCATAACACTTTCGATTCTCG
1834529 ATGAATTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (42 bp):
AAAGTAGAACGAAATGAAGCATAACACTTTCGATTCTCGTCT
Found at i:1839656 original size:59 final size:59
Alignment explanation
Indices: 1839541--1839681 Score: 165
Period size: 59 Copynumber: 2.4 Consensus size: 59
1839531 TCAAAATGTC
* * * *
1839541 GTGAATCGAGCAATATGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTTGAAGTATT
1 GTGAATCGAGCAA-ATGAAATGTTAATCCCTCAAATGAGGAGTTACTGATTCGAAGTATT
* * * * * * *
1839601 GTGAATCAAGCAAATGAAATGTTGATCCCTCAAATTAGGCGTTGCTTATTCGAAGTTTT
1 GTGAATCGAGCAAATGAAATGTTAATCCCTCAAATGAGGAGTTACTGATTCGAAGTATT
*
1839660 GTGAATCGAGCAAAGGAAATGT
1 GTGAATCGAGCAAATGAAATGT
1839682 GAAAACATCC
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
59 56 0.82
60 12 0.18
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (59 bp):
GTGAATCGAGCAAATGAAATGTTAATCCCTCAAATGAGGAGTTACTGATTCGAAGTATT
Found at i:1839849 original size:286 final size:285
Alignment explanation
Indices: 1839359--1840094 Score: 1044
Period size: 286 Copynumber: 2.6 Consensus size: 285
1839349 TGATAAGTTA
* * * * * *
1839359 TTGATTCGAAATATTGTGAATCAAACAAAGAAAATGTGAAAACATCCTACCCGAAGGTCTTATGG
1 TTGATTCGAAGTTTTGTGAATCGAGCAAAGGAAATGTGAAAACATCCTGCCCGAAGGTCTTATGG
* *
1839424 ATGTCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAAATGACCCGAAGGATTTAAAAATCA
66 ATG-GCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAAATGACCCGAAGGATTTAAACATCA
* * * * * * * * * *
1839489 TGCTTGAAAGACTTATTGATGTCTCAAAAGATTTTTGCTGATTCAAAATGTCGTGAATCGAGCAA
130 TACTCGAAAGACTTACTGATGGCCCGAAAGACTTTTACTGATTCAAAATGTCGTGAATCAAACAA
* * *
1839554 TATGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTTGAAGTATTGTGAATCAAGCAAATGAA
195 TAGGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTCGAAGTATTGTGAATCAAGCAAAGGAA
* * * *
1839619 ATGTTGATCCCTCAAATTAGGCGTTG
260 ATATTGATCCCACAAATGAGGCATTG
*
1839645 CTT-ATTCGAAGTTTTGTGAATCGAGCAAAGGAAATGTGAAAACATCCTGCCCAAAGGTCTTATG
1 -TTGATTCGAAGTTTTGTGAATCGAGCAAAGGAAATGTGAAAACATCCTGCCCGAAGGTCTTATG
* * * *
1839709 GACGGCCTGAAGGACTTATTATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATC
65 GATGGCC-GAAGGACTTATCATCTTGCTCGAAAGACTTATAAATGACCCGAAGGATTTAAACATC
*
1839774 ATACTCGAAAGACTTACTGAAGGCCCGAAAGACTTTTACTGATTCAAAATGTCGTGAATCAAACA
129 ATACTCGAAAGACTTACTGATGGCCCGAAAGACTTTTACTGATTCAAAATGTCGTGAATCAAACA
*
1839839 ATAGGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTCGAAGTGTTGTGAATCAAGCAAAGGA
194 ATAGGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTCGAAGTATTGTGAATCAAGCAAAGGA
1839904 AATATTGATCCCACAAATGAGGCATTG
259 AATATTGATCCCACAAATGAGGCATTG
* * **
1839931 TTGATTTGAAGTGTTT-TCAATCGAGCAAAGGAAATGTTGAAAACATCCTGCTTGAAGGTCTTAT
1 TTGATTCGAAGT-TTTGTGAATCGAGCAAAGGAAATG-TGAAAACATCCTGCCCGAAGGTCTTAT
* * *
1839995 GGATGGCCGAAGAACTTATCATCTTTCTCGAAAGACTTATAAATGACCCGAATGATTTAAACATC
64 GGATGGCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAAATGACCCGAAGGATTTAAACATC
* *
1840060 ATTCTCGAAAGACTTACTGATGGCCCGAAGGACTT
129 ATACTCGAAAGACTTACTGATGGCCCGAAAGACTT
1840095 ACTCATCAAG
Statistics
Matches: 398, Mismatches: 47, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
285 4 0.01
286 358 0.90
287 36 0.09
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (285 bp):
TTGATTCGAAGTTTTGTGAATCGAGCAAAGGAAATGTGAAAACATCCTGCCCGAAGGTCTTATGG
ATGGCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAAATGACCCGAAGGATTTAAACATCAT
ACTCGAAAGACTTACTGATGGCCCGAAAGACTTTTACTGATTCAAAATGTCGTGAATCAAACAAT
AGGAAATGTTAATCCCTCAAGTGGGGATTTACTGATTCGAAGTATTGTGAATCAAGCAAAGGAAA
TATTGATCCCACAAATGAGGCATTG
Found at i:1840102 original size:42 final size:41
Alignment explanation
Indices: 1839990--1840102 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
1839980 GCTTGAAGGT
* * *
1839990 CTTATGGATGG-CCGAAGAACTTATCATCTTTCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATTCTCGAAAGA
* * * * *
1840030 CTTATAAATGACCCGAATGATTTAAACATCATTCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATTCTCGAAAGA
1840072 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
1840103 AGAAACCCTT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
40 8 0.14
41 9 0.16
42 38 0.68
43 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATTCTCGAAAGA
Found at i:1840338 original size:34 final size:35
Alignment explanation
Indices: 1840300--1840365 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
1840290 AAAATTAGTA
1840300 TTAGCTTCTTTT-A-AAAGTTCATTGAAAATCAAGC
1 TTAGCTTCTTTTCAGAAA-TTCATTGAAAATCAAGC
* *
1840334 TTAGCTTTTTTTCAGAAATTCATTGGAAATCA
1 TTAGCTTCTTTTCAGAAATTCATTGAAAATCA
1840366 TCATCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.39
35 14 0.50
36 3 0.11
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (35 bp):
TTAGCTTCTTTTCAGAAATTCATTGAAAATCAAGC
Found at i:1840362 original size:92 final size:97
Alignment explanation
Indices: 1840237--1840425 Score: 253
Period size: 92 Copynumber: 2.0 Consensus size: 97
1840227 TAAAAATTAG
* * *
1840237 GCTTAGCTTTATTTTTCTAAAAAATCATTGGAAATCATCATCAAGAAA-CCTTGAAAATTAGTAT
1 GCTTAGCTTTATTTTTCTAAAAAATCATTGGAAATCATCATCAAGAAACCCCTGAAAATCAGGAT
*
1840301 TAGCTTC-TTTTAAAAGTTCATTGAAAATCAA
66 TAGCTTCTTTTTAAAAATTCATTGAAAATCAA
* * * *
1840332 GCTTAGC-TT-TTTTTC-AGAAATTCATTGGAAATCATCATCAAGAAACCCCCTGAAAATCGGGC
1 GCTTAGCTTTATTTTTCTAAAAAATCATTGGAAATCATCATCAAGAAA-CCCCTGAAAATCAGGA
*
1840394 TTAGCTTCTTTTTAAAAATTCATTGGAAATCA
65 TTAGCTTCTTTTTAAAAATTCATTGAAAATCA
1840426 TCATCAAGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
92 28 0.34
93 6 0.07
94 20 0.24
95 28 0.34
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (97 bp):
GCTTAGCTTTATTTTTCTAAAAAATCATTGGAAATCATCATCAAGAAACCCCTGAAAATCAGGAT
TAGCTTCTTTTTAAAAATTCATTGAAAATCAA
Found at i:1840456 original size:152 final size:154
Alignment explanation
Indices: 1840195--1840481 Score: 393
Period size: 152 Copynumber: 1.9 Consensus size: 154
1840185 AGTTTATTAA
* * *
1840195 AAATTCATTGGAAAAATTCATCAAGAAATCCCTAAAAATTAGGCTTAGCTTTATTTTTCTAAAAA
1 AAATTCATTGGAAAAATTCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTTACTTTTCTAAAAA
* * * * *
1840260 ATCATTGGAAATCATCATCAAGAAACCTTGAAAATTAGTATTAGCTTCTTTTAAAAGTTCATTGA
66 ATCATTGGAAATCATCATCAAGAAACCCTGAAAATCAGGATTAGCTTATTTTAAAAATTCATTGA
1840325 AAATCAAGCTTAGCTTTTTTTCAG
131 AAATCAAGCTTAGCTTTTTTTCAG
* * *
1840349 AAATTCATTGGAAATCA-TCATCAAGAAACCCCCTGAAAATCGGGCTTAGC-TT-CTTTT-TAAA
1 AAATTCATTGGAAA-AATTCATCAAGAAA-CCCCTAAAAATCAGGCTTAGCTTTACTTTTCTAAA
* * *
1840410 AATTCATTGGAAATCATCATCAAGAAACCCTGAGAATCAGGCTTAGCTTATTTTAAAAATTCATT
64 AAATCATTGGAAATCATCATCAAGAAACCCTGAAAATCAGGATTAGCTTATTTTAAAAATTCATT
*
1840475 GGAAATC
129 GAAAATC
1840482 TCATTAAGAA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
152 67 0.58
153 4 0.03
154 27 0.23
155 18 0.16
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (154 bp):
AAATTCATTGGAAAAATTCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTTACTTTTCTAAAAA
ATCATTGGAAATCATCATCAAGAAACCCTGAAAATCAGGATTAGCTTATTTTAAAAATTCATTGA
AAATCAAGCTTAGCTTTTTTTCAG
Found at i:1840470 original size:57 final size:58
Alignment explanation
Indices: 1840322--1840589 Score: 316
Period size: 60 Copynumber: 4.7 Consensus size: 58
1840312 AAAAGTTCAT
* *
1840322 TGAAAATCAAGCTTAGCTTTTTTTCAGAAATTCATTGGAAATCATCATCAAGAAACCCCC
1 TGAAAATCAGGCTTAGCTTTTTTT-AAAAATTCATTGGAAATCATCATCAAGAAA-CCCC
*
1840382 TGAAAATCGGGCTTAGCTTCTTTTTAAAAATTCATTGGAAATCATCATCAAGAAA-CCC
1 TGAAAATCAGGCTTAGCTT-TTTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCC
* * *
1840440 TGAGAATCAGGCTTAGCTTATTTTAAAAATTCATTGGAAATC-TCATTAAGAAACCCC
1 TGAAAATCAGGCTTAGCTTTTTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCC
* * *** * *
1840497 TAAAAATTAGGCTTAG-TTTTAAAAAAAACTCATTTGAAA--A-CATCAAGAAACCCC
1 TGAAAATCAGGCTTAGCTTTTTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCC
* * *
1840551 T-AAAATTAGGCTTAGCTTCTTTTAAAAATTCATTTGAAA
1 TGAAAATCAGGCTTAGCTTTTTTTAAAAATTCATTGGAAA
1840590 ATTCCTATAA
Statistics
Matches: 182, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
53 14 0.08
54 32 0.18
56 27 0.15
57 38 0.21
58 20 0.11
60 46 0.25
61 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (58 bp):
TGAAAATCAGGCTTAGCTTTTTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCC
Found at i:1840549 original size:110 final size:116
Alignment explanation
Indices: 1840324--1840589 Score: 312
Period size: 110 Copynumber: 2.3 Consensus size: 116
1840314 AAGTTCATTG
* * * *
1840324 AAAATCAAGCTTAGCTTTTTTTCAGAAATTCATTGGAAATCATCATCAAGAAACCCCCTGAAAAT
1 AAAATCAGGCTTAGCTTATTTT-AAAAATTCATTGGAAATCATCATCAAGAAACCCCCTAAAAAT
* *** *
1840389 CGGGCTTAGCTTCTTTTTAAAAATTCATTGGAAATCATCATCAAGAAA-CCCT
65 CAGGCTTAGCTTCTTAAAAAAAACTCATTGGAAA-CATCATCAAGAAACCCCT
* *
1840441 GAGAATCAGGCTTAGCTTATTTTAAAAATTCATTGGAAATC-TCATTAAGAAA-CCCCTAAAAAT
1 -AAAATCAGGCTTAGCTTATTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCCCTAAAAAT
* *
1840504 TAGGCTTAG-TT-TTAAAAAAAACTCATTTGAAA-A-CATCAAGAAACCCCT
65 CAGGCTTAGCTTCTTAAAAAAAACTCATTGGAAACATCATCAAGAAACCCCT
* * *
1840552 AAAATTAGGCTTAGCTTCTTTTAAAAATTCATTTGAAA
1 AAAATCAGGCTTAGCTTATTTTAAAAATTCATTGGAAA
1840590 ATTCCTATAA
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
110 44 0.34
111 5 0.04
113 16 0.12
114 2 0.02
115 17 0.13
116 10 0.08
117 17 0.13
118 19 0.15
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (116 bp):
AAAATCAGGCTTAGCTTATTTTAAAAATTCATTGGAAATCATCATCAAGAAACCCCCTAAAAATC
AGGCTTAGCTTCTTAAAAAAAACTCATTGGAAACATCATCAAGAAACCCCT
Found at i:1848841 original size:28 final size:27
Alignment explanation
Indices: 1848796--1848865 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
1848786 TGAATCATTT
* **
1848796 AATAAACCTAATAAAAAAATTAACATAATA
1 AATAAA-CAAATAAAAAAAACAACAT-A-A
*
1848826 AATAAA-AAATAGAAAAAACAACATAA
1 AATAAACAAATAAAAAAAACAACATAA
1848852 AATAAACAAATAAA
1 AATAAACAAATAAA
1848866 CATAAATACG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 7 0.21
27 7 0.21
28 14 0.41
30 6 0.18
ACGTcount: A:0.73, C:0.09, G:0.01, T:0.17
Consensus pattern (27 bp):
AATAAACAAATAAAAAAAACAACATAA
Found at i:1848860 original size:14 final size:13
Alignment explanation
Indices: 1848811--1848871 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
1848801 ACCTAATAAA
*
1848811 AAAATTAACATAAT
1 AAAATAAACA-AAT
1848825 -AAATAAA-AAAT
1 AAAATAAACAAAT
1848836 AGAAA-AAACAACAT
1 A-AAATAAACAA-AT
1848850 AAAATAAACAAAT
1 AAAATAAACAAAT
1848863 AAACATAAA
1 AAA-ATAAA
1848872 TACGATGACC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
11 3 0.08
12 4 0.10
13 19 0.47
14 14 0.35
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:1850306 original size:18 final size:20
Alignment explanation
Indices: 1850270--1850306 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1850260 GGGCTTGAAG
*
1850270 TTGGGTGTTTTGGTATTGGT
1 TTGGGTGTTTAGGTATTGGT
1850290 TTGGGT-TTTAGGT-TTGG
1 TTGGGTGTTTAGGTATTGG
1850307 GCTTGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.05, C:0.00, G:0.41, T:0.54
Consensus pattern (20 bp):
TTGGGTGTTTAGGTATTGGT
Found at i:1850321 original size:21 final size:21
Alignment explanation
Indices: 1850295--1850334 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1850285 TTGGTTTGGG
*
1850295 TTTTAGGTTTGGGCTTGGTTT
1 TTTTAGGTTTAGGCTTGGTTT
*
1850316 TTTTAGGTTTAGGTTTGGT
1 TTTTAGGTTTAGGCTTGGT
1850335 CGGATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.33, T:0.57
Consensus pattern (21 bp):
TTTTAGGTTTAGGCTTGGTTT
Found at i:1852085 original size:24 final size:25
Alignment explanation
Indices: 1852035--1852085 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
1852025 GCTAAGACGG
*
1852035 ATTTATAAAATTCTAGAAAAAATAA
1 ATTTATAAAATTCTAGAAAAAAGAA
* * *
1852060 ATTTATAAACTTTTAG-TAAAAGAA
1 ATTTATAAAATTCTAGAAAAAAGAA
1852084 AT
1 AT
1852086 ATATTACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATTTATAAAATTCTAGAAAAAAGAA
Found at i:1853342 original size:2 final size:2
Alignment explanation
Indices: 1853335--1853379 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1853325 TCATCCAAAG
*
1853335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1853377 AT A
1 AT A
1853380 AGTGTAAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1853452 original size:75 final size:76
Alignment explanation
Indices: 1853367--1853507 Score: 239
Period size: 75 Copynumber: 1.9 Consensus size: 76
1853357 ATATATATAT
* *
1853367 ATATAAATATATAAGTGTAAGTGGATTCCAATACTTTCGTAATTTT-AAAGTGTTAATAATTTTA
1 ATATAAATATATAAATATAAGTGGATTCCAATACTTTCGTAATTTTAAAAGTGTTAATAATTTTA
1853431 AGGATTCCAAA
66 AGGATTCCAAA
* *
1853442 ATATACATATATAAATATAAGTGGATTCCAATACTTTCGTAGTTTTAAAAGTGTTAATAATTTTA
1 ATATAAATATATAAATATAAGTGGATTCCAATACTTTCGTAATTTTAAAAGTGTTAATAATTTTA
1853507 A
66 A
1853508 AAATACATAC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
75 42 0.69
76 19 0.31
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (76 bp):
ATATAAATATATAAATATAAGTGGATTCCAATACTTTCGTAATTTTAAAAGTGTTAATAATTTTA
AGGATTCCAAA
Found at i:1858007 original size:44 final size:43
Alignment explanation
Indices: 1857925--1858018 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
1857915 AAATGTCGGT
*
1857925 AAAGGTCAGGTTATGTAGCGACGTTTGTATACTAAAACGTCGCA
1 AAAGGTCAGGTTATGTAGCGACGTTTGTATAC-AAAACGCCGCA
* * * *
1857969 AAAGGTCAGGTTATTTAGTGGCATTTTAGTATAC-AAACGCCGCA
1 AAAGGTCAGGTTATGTAGCGAC-GTTT-GTATACAAAACGCCGCA
*
1858013 ACAGGT
1 AAAGGT
1858019 TCGCCATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 33 0.79
45 3 0.07
46 6 0.14
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAGGTCAGGTTATGTAGCGACGTTTGTATACAAAACGCCGCA
Found at i:1858562 original size:21 final size:21
Alignment explanation
Indices: 1858537--1858593 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1858527 GTTTTTTATA
*
1858537 TCTCTGCTTCTCTCGTTGCTC
1 TCTCTGCTTCTCTCGTAGCTC
1858558 TCTCTGCTTCTCTCGTAGCTC
1 TCTCTGCTTCTCTCGTAGCTC
* * *
1858579 CCTCTTCTTTTCTCG
1 TCTCTGCTTCTCTCG
1858594 CTTCAGCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.02, C:0.39, G:0.12, T:0.47
Consensus pattern (21 bp):
TCTCTGCTTCTCTCGTAGCTC
Found at i:1863162 original size:55 final size:55
Alignment explanation
Indices: 1863077--1863221 Score: 220
Period size: 55 Copynumber: 2.6 Consensus size: 55
1863067 TCATACTTGG
* * * *
1863077 GGGTATCGATACACTCCCCAGTGTATCGATACATAAAT-AGCACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGA-CACTCGATATTTTGA
*
1863132 GGGTATCGATACACTCATCAGTGTACCGATACACAAATGACACTCGATATTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACACTCGATATTTTGA
*
1863187 GGGTATCAATACACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
1863222 CTCATATAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 81 0.99
56 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACACTCGATATTTTGA
Found at i:1865309 original size:44 final size:44
Alignment explanation
Indices: 1865240--1865363 Score: 162
Period size: 44 Copynumber: 2.8 Consensus size: 44
1865230 TTGCACAATC
* *
1865240 GTGGCATTTATAAT--AAAAACGCCACTAAAGTACATCACTATT
1 GTGGCATTTATTATGAAAAAATGCCACTAAAGTACATCACTATT
*
1865282 GTGGCATTTATTATGAAAAAATGCCACTAAAGTATATCACTATT
1 GTGGCATTTATTATGAAAAAATGCCACTAAAGTACATCACTATT
* ** *
1865326 GCGGTGTTTATTACGAAAAAAGTGCCACTAAAGTACAT
1 GTGGCATTTATTATGAAAAAA-TGCCACTAAAGTACAT
1865364 GACTGTTGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 13 0.18
44 43 0.61
45 15 0.21
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (44 bp):
GTGGCATTTATTATGAAAAAATGCCACTAAAGTACATCACTATT
Found at i:1865373 original size:45 final size:44
Alignment explanation
Indices: 1865254--1865404 Score: 191
Period size: 44 Copynumber: 3.5 Consensus size: 44
1865244 CATTTATAAT
* * ** *
1865254 AAAAACGCCACTAAAGTACATCACTATTGTGGCATTTATTATGA
1 AAAAATGCCACTAAAGTACATCACTATTGCGGTGTTTATTACGA
*
1865298 AAAAATGCCACTAAAGTATATCACTATTGCGGTGTTTATTACGA
1 AAAAATGCCACTAAAGTACATCACTATTGCGGTGTTTATTACGA
* *
1865342 AAAAAGTGCCACTAAAGTACATGACTGTTGCGGTGTTTGA--AC-A
1 AAAAA-TGCCACTAAAGTACATCACTATTGCGGTGTTT-ATTACGA
1865385 AAAAATGCCACTAAAGTACA
1 AAAAATGCCACTAAAGTACA
1865405 AGTCTATAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
42 15 0.16
43 6 0.06
44 45 0.47
45 29 0.30
46 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (44 bp):
AAAAATGCCACTAAAGTACATCACTATTGCGGTGTTTATTACGA
Found at i:1872903 original size:13 final size:13
Alignment explanation
Indices: 1872903--1872947 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
1872893 CCGTTGACCC
1872903 GACCCGACCCGTT
1 GACCCGACCCGTT
1872916 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1872929 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
1872944 GACC
1 GACC
1872948 GTTGACCGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1872904 original size:18 final size:18
Alignment explanation
Indices: 1872881--1872926 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
1872871 ACCAGTCACA
1872881 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1872899 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1872917 ACCCGACCCG
1 ACCCGACCCG
1872927 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.52, G:0.22, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1872919 original size:8 final size:8
Alignment explanation
Indices: 1872908--1872954 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
1872898 GACCCGACCC
1872908 GACCCGTT
1 GACCCGTT
1872916 GACCC---
1 GACCCGTT
1872921 GACCCGTT
1 GACCCGTT
1872929 GA-CCGTT
1 GACCCGTT
1872936 GACCCGTT
1 GACCCGTT
1872944 GA-CCGTT
1 GACCCGTT
1872951 GACC
1 GACC
1872955 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:1872936 original size:7 final size:7
Alignment explanation
Indices: 1872924--1872955 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1872914 TTGACCCGAC
1872924 CCGTTGA
1 CCGTTGA
1872931 CCGTTGA
1 CCGTTGA
1872938 CCCGTTGA
1 -CCGTTGA
1872946 CCGTTGA
1 CCGTTGA
1872953 CCG
1 CCG
1872956 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1872941 original size:15 final size:15
Alignment explanation
Indices: 1872908--1872954 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1872898 GACCCGACCC
*
1872908 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
1872921 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1872936 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1872951 GACC
1 GACC
1872955 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1874290 original size:18 final size:18
Alignment explanation
Indices: 1874264--1874299 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1874254 TCGAAAGGAC
*
1874264 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1874282 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1874300 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1875528 original size:24 final size:24
Alignment explanation
Indices: 1875424--1875530 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
1875414 ATATTTTATC
*
1875424 TGATTTCTGATTTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
1875448 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * * *
1875472 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTATGTTT
* *
1875496 TGATATCTGATCTGAATTATATTT
1 TGATTTCTGATCTGAATTATGTTT
1875520 TGATTTCTGAT
1 TGATTTCTGAT
1875531 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:1877611 original size:29 final size:29
Alignment explanation
Indices: 1877572--1877646 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
1877562 AGTCACAACC
1877572 GACCGACCCGTTGACCCGACCCGACCGTT
1 GACCGACCCGTTGACCCGACCCGACCGTT
*
1877601 TACCGACCCGTTGACCCGACCCGACCGTT
1 GACCGACCCGTTGACCCGACCCGACCGTT
1877630 GACCCGACCCGTTGACC
1 GA-CCGACCCGTTGACC
1877647 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 29 0.67
30 14 0.33
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (29 bp):
GACCGACCCGTTGACCCGACCCGACCGTT
Found at i:1877639 original size:17 final size:17
Alignment explanation
Indices: 1877570--1877640 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
1877560 CCAGTCACAA
1877570 CCGA-CCGACCCGTTGAC
1 CCGACCCGA-CCGTTGAC
*
1877587 CCGACCCGACCGTTTA-
1 CCGACCCGACCGTTGAC
1877603 CCGA--C--CCGTTGAC
1 CCGACCCGACCGTTGAC
1877616 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
1877633 CCGACCCG
1 CCGACCCG
1877641 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
14 1 0.02
15 1 0.02
16 4 0.09
17 26 0.57
18 4 0.09
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.13
Consensus pattern (17 bp):
CCGACCCGACCGTTGAC
Found at i:1877648 original size:7 final size:7
Alignment explanation
Indices: 1877638--1877668 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1877628 TTGACCCGAC
1877638 CCGTTGA
1 CCGTTGA
1877645 CCGTTGA
1 CCGTTGA
1877652 CCGTTGA
1 CCGTTGA
1877659 CCGTTGA
1 CCGTTGA
1877666 CCG
1 CCG
1877669 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.32, G:0.29, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:1878998 original size:18 final size:18
Alignment explanation
Indices: 1878972--1879007 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1878962 TCGAAAGGAC
*
1878972 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1878990 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1879008 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1880237 original size:24 final size:24
Alignment explanation
Indices: 1880133--1880239 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
1880123 ATATTTTATC
*
1880133 TGATTTCTGATTTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
1880157 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * * *
1880181 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTATGTTT
* *
1880205 TGATATCTGATCTGAATTATATTT
1 TGATTTCTGATCTGAATTATGTTT
1880229 TGATTTCTGAT
1 TGATTTCTGAT
1880240 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:1886847 original size:18 final size:20
Alignment explanation
Indices: 1886815--1886855 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1886805 AAAAATCCTT
*
1886815 AAAAAATCCTAAAATT-CCA
1 AAAAAAACCTAAAATTCCCA
1886834 AAAAAAACCT-AAATTCCCA
1 AAAAAAACCTAAAATTCCCA
1886853 AAA
1 AAA
1886856 GTCCCCCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAAAACCTAAAATTCCCA
Found at i:1888985 original size:43 final size:43
Alignment explanation
Indices: 1888919--1889036 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
1888909 AATTCTGTCA
* * * *
1888919 TCTACATAGGAACCTCTATGGAGGGTAATATCCTCGTCCTATT
1 TCTACATGGGATCCTCTACGGAGGGTAATATCCCCGTCCTATT
* *
1888962 TCTACATGGGATCCTCTACGGAGGGTAACATCCCCGTCTTATT
1 TCTACATGGGATCCTCTACGGAGGGTAATATCCCCGTCCTATT
* *** * *
1889005 TTTGTTTGGGATCCTCTTCGGAGGGTTATATC
1 TCTACATGGGATCCTCTACGGAGGGTAATATC
1889037 TATATCCTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
TCTACATGGGATCCTCTACGGAGGGTAATATCCCCGTCCTATT
Found at i:1895180 original size:12 final size:12
Alignment explanation
Indices: 1895163--1895192 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1895153 CGTTTTTCGG
1895163 TTGGGCCTGAAA
1 TTGGGCCTGAAA
1895175 TTGGGCCTGAAA
1 TTGGGCCTGAAA
1895187 TTGGGC
1 TTGGGC
1895193 TTCGACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.27
Consensus pattern (12 bp):
TTGGGCCTGAAA
Found at i:1896919 original size:12 final size:12
Alignment explanation
Indices: 1896902--1896973 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
1896892 ACCAAGACCA
1896902 AAATAAAATAAT
1 AAATAAAATAAT
1896914 AAAT-AAATAAAT
1 AAATAAAAT-AAT
* *
1896926 ACAT-AAATCAT
1 AAATAAAATAAT
*
1896937 ATAATATAATAAT
1 A-AATAAAATAAT
1896950 -AATAATAATAAT
1 AAATAA-AATAAT
1896962 -AATAATAATAAT
1 AAATAA-AATAAT
1896974 GTAAAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
11 11 0.22
12 34 0.68
13 5 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATAAAATAAT
Found at i:1896950 original size:3 final size:3
Alignment explanation
Indices: 1896937--1896973 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1896927 CATAAATCAT
1896937 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1896974 GTAAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1897139 original size:37 final size:35
Alignment explanation
Indices: 1896978--1897224 Score: 191
Period size: 33 Copynumber: 7.1 Consensus size: 35
1896968 AATAATGTAA
* *
1896978 AAAATATTTCCCAAAACTATATAATATAT-ATTTTC
1 AAAATATTT-TCAAAACTATATATTATATAATTTTC
1897013 AAAAATATTTT-AAAACTATATATTATATTTATTTATTTT-
1 -AAAATATTTTCAAAACTATATATTATA--TA---ATTTTC
*
1897052 AAAATGTTTTCAAAACTATATATTATATATATTTTC
1 AAAATATTTTCAAAACTATATATTATATA-ATTTTC
*
1897088 --AAT-TTTTAAAAACTATATATTATATAAGTTTTC
1 AAAATATTTTCAAAACTATATATTATATAA-TTTTC
* *
1897121 AAAATATTTTCAAAAACTATATAATATATACATTTCC
1 AAAATATTTTC-AAAACTATATATTATATA-ATTTTC
* *
1897158 AAAA-A---TC-ATA-TAT-TA-TATATATGTTTTC
1 AAAATATTTTCAAAACTATATATTATATA-ATTTTC
*
1897186 AAAATGTTTTCAAAACTATATATTATAT-ATTTTC
1 AAAATATTTTCAAAACTATATATTATATAATTTTC
1897220 GAAAA
1 -AAAA
1897225 CCGATTTTTA
Statistics
Matches: 174, Mismatches: 14, Indels: 47
0.74 0.06 0.20
Matches are distributed among these distances:
28 14 0.08
29 2 0.01
30 3 0.02
31 2 0.01
32 3 0.02
33 31 0.18
34 26 0.15
35 15 0.09
36 20 0.11
37 27 0.16
38 10 0.06
39 16 0.09
40 5 0.03
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (35 bp):
AAAATATTTTCAAAACTATATATTATATAATTTTC
Found at i:1897155 original size:26 final size:28
Alignment explanation
Indices: 1897126--1897189 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
1897116 TTTTCAAAAT
1897126 ATTTTCAAAAA-C-TATATAATATATAC
1 ATTTTCAAAAATCATATATAATATATAC
* * *
1897152 ATTTCCAAAAATCATATATTATATATAT
1 ATTTTCAAAAATCATATATAATATATAC
*
1897180 GTTTTCAAAA
1 ATTTTCAAAA
1897190 TGTTTTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.32
27 1 0.03
28 20 0.65
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.41
Consensus pattern (28 bp):
ATTTTCAAAAATCATATATAATATATAC
Found at i:1897273 original size:13 final size:14
Alignment explanation
Indices: 1897246--1897288 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1897236 AGAATATATT
*
1897246 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
1897260 ATA-ATTTTCTAAAA
1 ATATATTTTC-AAAA
1897274 A-ATATTTTCAAAA
1 ATATATTTTCAAAA
1897287 AT
1 AT
1897289 TATACTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:1897278 original size:36 final size:35
Alignment explanation
Indices: 1897171--1897278 Score: 98
Period size: 36 Copynumber: 3.1 Consensus size: 35
1897161 AATCATATAT
* *
1897171 TATA-TATATGTTTTC-AAAATGTTTTC-AAAACTA
1 TATATTATATGTTTTCAAAAATATTTTCTAAAA-AA
* ** *
1897204 TATATTATATATTTTCGAAAACCGATTTT-TAAAGAA
1 TATATTATATGTTTTC-AAAA-ATATTTTCTAAAAAA
1897240 TATATTATATGTTTTCAAAAATAATTTTCTAAAAAA
1 TATATTATATGTTTTCAAAAAT-ATTTTCTAAAAAA
1897276 TAT
1 TAT
1897279 TTTCAAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
33 4 0.07
34 10 0.17
35 9 0.16
36 28 0.48
37 7 0.12
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (35 bp):
TATATTATATGTTTTCAAAAATATTTTCTAAAAAA
Found at i:1897280 original size:14 final size:14
Alignment explanation
Indices: 1897251--1897287 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1897241 ATATTATATG
1897251 TTTTC-AAAAATAA
1 TTTTCAAAAAATAA
1897264 TTTTCTAAAAAAT-A
1 TTTTC-AAAAAATAA
1897278 TTTTCAAAAA
1 TTTTCAAAAA
1897288 TTATACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 6 0.27
15 6 0.27
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTTCAAAAAATAA
Found at i:1899060 original size:18 final size:18
Alignment explanation
Indices: 1899037--1899077 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1899027 CATATACTTA
*
1899037 CATTATCATCATCAATAT
1 CATTATCAACATCAATAT
**
1899055 CATTATCAACATCCTTAT
1 CATTATCAACATCAATAT
1899073 CATTA
1 CATTA
1899078 ATCTATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (18 bp):
CATTATCAACATCAATAT
Found at i:1899308 original size:24 final size:24
Alignment explanation
Indices: 1899281--1899327 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1899271 CACCACAACT
*
1899281 CGTATAAACTGCACCGAAGTGCCG
1 CGTATAAACTGCACCGAAATGCCG
* *
1899305 CGTATAAATTGCACTGAAATGCC
1 CGTATAAACTGCACCGAAATGCC
1899328 ACATTGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (24 bp):
CGTATAAACTGCACCGAAATGCCG
Done.