Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 33 of 131
Found at i:10626594 original size:21 final size:21
Alignment explanation
Indices: 10626570--10626611 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10626560 AGTAAATTAC
10626570 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
10626591 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
10626612 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:10627829 original size:11 final size:11
Alignment explanation
Indices: 10627813--10627837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10627803 GGGTGTGATG
10627813 TTTATCCTTAA
1 TTTATCCTTAA
10627824 TTTATCCTTAA
1 TTTATCCTTAA
10627835 TTT
1 TTT
10627838 TGTCATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATCCTTAA
Found at i:10627863 original size:20 final size:21
Alignment explanation
Indices: 10627824--10627867 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
10627814 TTATCCTTAA
10627824 TTTATCCTTAATTTTGTCATG
1 TTTATCCTTAATTTTGTCATG
*
10627845 TTTATCCTT-ATTTTTTCATG
1 TTTATCCTTAATTTTGTCATG
10627865 TTT
1 TTT
10627868 TGGTACTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTATCCTTAATTTTGTCATG
Found at i:10633070 original size:18 final size:18
Alignment explanation
Indices: 10633043--10633077 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10633033 CTATATGATT
* *
10633043 TTATGCTTTGCGAGCTTC
1 TTATGATTTGCAAGCTTC
10633061 TTATGATTTGCAAGCTT
1 TTATGATTTGCAAGCTT
10633078 TGTGTTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (18 bp):
TTATGATTTGCAAGCTTC
Found at i:10635888 original size:14 final size:16
Alignment explanation
Indices: 10635869--10635900 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10635859 AAATCAAAGC
10635869 AAATCCA-AAATT-TA
1 AAATCCAGAAATTATA
10635883 AAATCCAGAAATTATA
1 AAATCCAGAAATTATA
10635899 AA
1 AA
10635901 GGCCTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATCCAGAAATTATA
Found at i:10637484 original size:8 final size:8
Alignment explanation
Indices: 10637471--10637499 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10637461 CACTAGAGAC
10637471 CAGTGTTA
1 CAGTGTTA
10637479 CAGTGTTA
1 CAGTGTTA
10637487 CAGTGTTA
1 CAGTGTTA
10637495 CAGTG
1 CAGTG
10637500 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:10637612 original size:23 final size:23
Alignment explanation
Indices: 10637586--10637661 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
10637576 AGTGTTATTG
10637586 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
10637609 ATCAGTGGTAGCTTCT-GCTACAT
1 ATCAGTGGTAGCTT-TGGCTACAT
* *
10637632 ATAAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTGGCTACAT
10637655 ATCAGTG
1 ATCAGTG
10637662 TGGCACTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
23 47 0.98
24 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTGGCTACAT
Found at i:10639471 original size:45 final size:45
Alignment explanation
Indices: 10639421--10639599 Score: 358
Period size: 45 Copynumber: 4.0 Consensus size: 45
10639411 GTCGATTCAT
10639421 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
1 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
10639466 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
1 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
10639511 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
1 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
10639556 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGA
1 AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGA
10639600 GTAATGATTT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
AGAAAAGACAGTGTGATTGCACACACTCTTTTGGCTTTACGAGAC
Found at i:10649807 original size:21 final size:21
Alignment explanation
Indices: 10649783--10649826 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10649773 TAGTTGGAGT
10649783 TTCTAGTTTTATAGTTTCTAA
1 TTCTAGTTTTATAGTTTCTAA
10649804 TTCTAGTTTTATAGTTTCTAA
1 TTCTAGTTTTATAGTTTCTAA
10649825 TT
1 TT
10649827 TTACCCGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (21 bp):
TTCTAGTTTTATAGTTTCTAA
Found at i:10652408 original size:43 final size:42
Alignment explanation
Indices: 10652359--10652596 Score: 203
Period size: 43 Copynumber: 5.6 Consensus size: 42
10652349 ACGGTATTTT
***
10652359 TAGCGGCATTTGTAATCAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCATTTGTAGGAAAAGCG-CGCTAAAGGTCTTGAGCTA
* * * *
10652402 TAGCGGCATTTGT-GGAAAAGGAGCCCCTAAAAGTCTTGATCTA
1 TAGCGGCATTTGTAGGAAAA-GCG-CGCTAAAGGTCTTGAGCTA
* * * * * *
10652445 TTGCGACTTTTGTTGGAAAAGCGCCACTAAAGGTCTTGAGCTG
1 TAGCGGCATTTGTAGGAAAAGCG-CGCTAAAGGTCTTGAGCTA
* * *
10652488 TAGCGGCCTTTG-AGGAAAAGCGCTGCTAAAAGTCTTGATCTA
1 TAGCGGCATTTGTAGGAAAAGCGC-GCTAAAGGTCTTGAGCTA
* * * *
10652530 TAGTGGCATTTGTGGGAAAAGCGCTGCTAAAGATCTTGAACTA
1 TAGCGGCATTTGTAGGAAAAGCGC-GCTAAAGGTCTTGAGCTA
* *
10652573 TAGCGGCGTTTGT-GTAAAAGCGCG
1 TAGCGGCATTTGTAGGAAAAGCGCG
10652597 GGAAAAGCGC
Statistics
Matches: 158, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
42 45 0.28
43 105 0.66
44 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (42 bp):
TAGCGGCATTTGTAGGAAAAGCGCGCTAAAGGTCTTGAGCTA
Found at i:10652553 original size:85 final size:85
Alignment explanation
Indices: 10652376--10652595 Score: 269
Period size: 85 Copynumber: 2.6 Consensus size: 85
10652366 ATTTGTAATC
* *
10652376 AAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAAGGAGCCCCTAAAAGTCTTGA
1 AAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAA-GCGCCCCTAAAAGTCTTGA
* * *
10652441 TCTATTGCGACTTTTGTTGGA
65 TCTATAGCGACATTTGTGGGA
* * * * **
10652462 AAAGCGCCACTAAAGGTCTTGAGCTGTAGCGGCCTTTGAGGAAAAGCGCTGCTAAAAGTCTTGAT
1 AAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAAGCGCCCCTAAAAGTCTTGAT
* *
10652527 CTATAGTGGCATTTGTGGGA
66 CTATAGCGACATTTGTGGGA
* * * * *
10652547 AAAGCGCTGCTAAAGATCTTGAACTATAGCGGCGTTTGTGTAAAAGCGC
1 AAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAAGCGC
10652596 GGGAAAAGCG
Statistics
Matches: 113, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
85 73 0.65
86 40 0.35
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAAGCGCCCCTAAAAGTCTTGAT
CTATAGCGACATTTGTGGGA
Found at i:10654569 original size:111 final size:111
Alignment explanation
Indices: 10654427--10654756 Score: 608
Period size: 111 Copynumber: 3.0 Consensus size: 111
10654417 AACTGATAGG
10654427 TCAAATGTGATGGTTGAATGGTACA-TCGTGTAACTAATACTTTAATGATTCAATTACAGATATC
1 TCAAATGTGATGGTTGAATGGTACAGT-GTGTAACTAATACTTTAATGATTCAATTACAGATATC
10654491 AGAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAATGAT
65 AGAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAATGAT
* *
10654538 TCAAATGTGATGGTTGAATGGTACAGTGTGTAACTAATATTTTAATGATTCAATTACAGATATTA
1 TCAAATGTGATGGTTGAATGGTACAGTGTGTAACTAATACTTTAATGATTCAATTACAGATATCA
10654603 GAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAATGAT
66 GAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAATGAT
*
10654649 TCAAATGTGATGGTTGAATGGTACAGCGTGTAACTAATACTTTAATGATTCAATTACAGATATCA
1 TCAAATGTGATGGTTGAATGGTACAGTGTGTAACTAATACTTTAATGATTCAATTACAGATATCA
*
10654714 AAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAAT
66 GAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAAT
10654757 ATTTTTATAT
Statistics
Matches: 212, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
111 211 1.00
112 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (111 bp):
TCAAATGTGATGGTTGAATGGTACAGTGTGTAACTAATACTTTAATGATTCAATTACAGATATCA
GAAATTAAGAGTTATAAGCATGAAATGTTAATTATAGAAGAATGAT
Found at i:10659992 original size:25 final size:24
Alignment explanation
Indices: 10659941--10660027 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
10659931 TACTGATTCA
* **
10659941 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCATATGAGCTTACCG-TTTTC
10659966 AGCTCATATGAGCTTACCGTTGTTC
1 AGCTCATATGAGCTTACCGTT-TTC
* * *
10659991 AGATCAGAAGAGCTTACCGTTTATC
1 AGCTCATATGAGCTTACCGTTT-TC
*
10660016 -GCTCGTATGAGC
1 AGCTCATATGAGC
10660028 ATACATGTAG
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 10 0.20
25 40 0.80
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCTCATATGAGCTTACCGTTTTC
Found at i:10672568 original size:21 final size:21
Alignment explanation
Indices: 10672542--10672584 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10672532 GAAACATTCC
10672542 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
10672563 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
10672584 A
1 A
10672585 TCCACCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:10678209 original size:2 final size:2
Alignment explanation
Indices: 10678202--10678237 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10678192 AATAACTACA
10678202 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
10678238 TCTCTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10679173 original size:11 final size:11
Alignment explanation
Indices: 10679157--10679187 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10679147 TTAATTCATA
*
10679157 ATATAATTTAC
1 ATATAAATTAC
10679168 ATATAAATTAC
1 ATATAAATTAC
10679179 ATATAAATT
1 ATATAAATT
10679188 CAGTTTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATAAATTAC
Found at i:10680796 original size:27 final size:27
Alignment explanation
Indices: 10680766--10680828 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
10680756 AACATGACAG
*
10680766 GAAAGAATAGCTTTTGT-GATGAATTAT
1 GAAAGAATAGCTTTTGTGGA-AAATTAT
10680793 GAAAGAATAGCTTTTGTGGAAAATTAT
1 GAAAGAATAGCTTTTGTGGAAAATTAT
10680820 GAAAGAATA
1 GAAAGAATA
10680829 ATAACCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (27 bp):
GAAAGAATAGCTTTTGTGGAAAATTAT
Found at i:10680940 original size:27 final size:26
Alignment explanation
Indices: 10680878--10680940 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
10680868 GCAATAAACT
*
10680878 AAAAGAAAT-GCCTTTGTGGCGTACT
1 AAAAGAAATGGCCTTTGTGGCGTACC
* * *
10680903 ATGAAGGAATGGCTTTTGTGGCGTACCC
1 A-AAAGAAATGGCCTTTGTGGCGTA-CC
10680931 AAAAGAAATG
1 AAAAGAAATG
10680941 TTCATTGTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 1 0.03
26 6 0.21
27 20 0.69
28 2 0.07
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (26 bp):
AAAAGAAATGGCCTTTGTGGCGTACC
Found at i:10702442 original size:14 final size:16
Alignment explanation
Indices: 10702423--10702463 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
10702413 CACATTTTTA
10702423 TAATTTC-TA-TGTCC
1 TAATTTCATACTGTCC
10702437 TAATTTCATACTTGTCC
1 TAATTTCATAC-TGTCC
*
10702454 TAATTGCATA
1 TAATTTCATA
10702464 TTTTCACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
17 14 0.61
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (16 bp):
TAATTTCATACTGTCC
Found at i:10760702 original size:19 final size:19
Alignment explanation
Indices: 10760680--10760717 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10760670 TCAACCATCC
10760680 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
10760699 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
10760718 AATATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:10767497 original size:75 final size:75
Alignment explanation
Indices: 10767417--10767563 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 75
10767407 AAAAACCATT
** * * *
10767417 ATTATTCCCTTATT-ACTGGAGAAGGCAAATGGAAAGTTAGAAAAAAG-AATTATATTCTTTCCA
1 ATTATTCCCTTATTAAC-AAAGAAGACAAATAGAAAATT-GAAAAAAGTAATTATATTCTTTCCA
10767480 AAAGAATATAGG
64 AAAGAATATAGG
* * *
10767492 ATTATTCTCTTATTAACAAAGAAGACAAATAGAAAATTGGAAAAAGTAATTGTATTCTTTCCAAA
1 ATTATTCCCTTATTAACAAAGAAGACAAATAGAAAATTGAAAAAAGTAATTATATTCTTTCCAAA
10767557 AGAATAT
66 AGAATAT
10767564 TAATTTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 7 0.11
75 53 0.85
76 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (75 bp):
ATTATTCCCTTATTAACAAAGAAGACAAATAGAAAATTGAAAAAAGTAATTATATTCTTTCCAAA
AGAATATAGG
Found at i:10767788 original size:137 final size:138
Alignment explanation
Indices: 10767538--10767843 Score: 461
Period size: 137 Copynumber: 2.2 Consensus size: 138
10767528 TTGGAAAAAG
* *
10767538 TAATTGTATTCTTTCCAAAAGAATATTAATTTAAATGTCTTTTATATTTTAACCGAAATTAATTA
1 TAATTATATTCTTTCCAAAAGAATATTAATTTAAATGTCTTTTATATTTTAACCAAAATTAATTA
* * * * *
10767603 ATATAATTGTTTATATTAATAAATTTGATAAAATATATACAGTTAATATTTTGTATGAATC-AAT
66 ATACAATTGTTTATAATAATAAATTTGATAAAATATATACAATCAATATTTTGTATAAATCAAAT
*
10767667 GAATATGT
131 GAATATAT
** ** *
10767675 TAATTATATTCTTTCCGTAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTA
1 TAATTATATTCTTTCCAAAAGAATATTAATTTAAATGTCTTTTATATTTTAACCAAAATTAATTA
*
10767740 ATACAATTGTTTATAATAATAAATTTGGTAAAATATATACAATCAATATTTTGTATAAATCAAAT
66 ATACAATTGTTTATAATAATAAATTTGATAAAATATATACAATCAATATTTTGTATAAATCAAAT
**
10767805 TCATATAT
131 GAATATAT
10767813 TAATTATATTCTTTCCAAAAGAATATTAATT
1 TAATTATATTCTTTCCAAAAGAATATTAATT
10767844 ATTTCTGTAC
Statistics
Matches: 150, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
137 113 0.75
138 37 0.25
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.45
Consensus pattern (138 bp):
TAATTATATTCTTTCCAAAAGAATATTAATTTAAATGTCTTTTATATTTTAACCAAAATTAATTA
ATACAATTGTTTATAATAATAAATTTGATAAAATATATACAATCAATATTTTGTATAAATCAAAT
GAATATAT
Found at i:10780731 original size:20 final size:19
Alignment explanation
Indices: 10780708--10780779 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
10780698 GGAAAAATTG
10780708 TAACTCTTAGAGAAAACTGT
1 TAACTCTTAG-GAAAACTGT
* *
10780728 TAACATCTAAGGAAGACTGCT
1 TAAC-TCTTAGGAAAACTG-T
* *
10780749 AAACTAC-TAGGAAAAACTAT
1 TAACT-CTTAGG-AAAACTGT
10780769 TAACTCTTAGG
1 TAACTCTTAGG
10780780 GAATGTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.03
20 24 0.60
21 15 0.38
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (19 bp):
TAACTCTTAGGAAAACTGT
Found at i:10780845 original size:41 final size:42
Alignment explanation
Indices: 10780788--10780880 Score: 104
Period size: 41 Copynumber: 2.2 Consensus size: 42
10780778 GGGAATGTTA
* **
10780788 TTAACTCCTATGAAAGATTG-CTAAACTT-CTAGGGAAAACT-C
1 TTAACTCCTATGAAAGACTGTC-AAA-TTCCTAAAGAAAACTGC
10780829 TTAACTCCT-TGAAAAGACTGTCAAATTCCTAAAGAAAACTGC
1 TTAACTCCTATG-AAAGACTGTCAAATTCCTAAAGAAAACTGC
10780871 TTAACTCCTA
1 TTAACTCCTA
10780881 GAGAAAACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
40 4 0.09
41 29 0.66
42 11 0.25
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (42 bp):
TTAACTCCTATGAAAGACTGTCAAATTCCTAAAGAAAACTGC
Found at i:10780899 original size:21 final size:21
Alignment explanation
Indices: 10780855--10780899 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10780845 ACTGTCAAAT
*
10780855 TCCTAAAGAAAACTGCTTAAC
1 TCCTAAAGAAAACTGATTAAC
*
10780876 TCCTAGAGAAAACT-ATTAATC
1 TCCTAAAGAAAACTGATTAA-C
10780897 TCC
1 TCC
10780900 CTGGACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (21 bp):
TCCTAAAGAAAACTGATTAAC
Found at i:10781947 original size:19 final size:20
Alignment explanation
Indices: 10781909--10781947 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10781899 TTTTAGACTT
* *
10781909 GACATTGCCTTTTCATGCTC
1 GACATCGCCTTTTCAAGCTC
10781929 GACATCGCC-TTTCAAGCTC
1 GACATCGCCTTTTCAAGCTC
10781948 ACTAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (20 bp):
GACATCGCCTTTTCAAGCTC
Found at i:10782319 original size:95 final size:91
Alignment explanation
Indices: 10781945--10782376 Score: 341
Period size: 95 Copynumber: 4.6 Consensus size: 91
10781935 GCCTTTCAAG
** * * *
10781945 CTCACTAAAACTAATAGCAGATATACTGCTAAGCCTTTTAAGGCACTTAGCCAAAAATCAATATC
1 CTCACTAAGTCTAATAGCAGATATACTGCTAAGCCTATTAAGGCACTTAG-CTAAATTCAATAT-
* * * *
10782010 TATAGAGCAGACAATTCAAGAGGGAACTG
64 TATAAAGCAGACAATT-GAGAGGAAACTA
* * * * * *
10782039 CTCACTAAGTCTAACAGCAAATATATTGCTAAGCCTCTTAAGGCACGTAGCTAAATTCAACAAAA
1 CTCACTAAGTCTAATAGCAGATATACTGCTAAGCCTATTAAGGCACTTAGCTAAATT---CAATA
* ** *
10782104 TTATAAAGTAGACACACCGAGAAGAAACTA
63 TTATAAAGCAGACA-ATTGAGAGGAAACTA
* * * * * * *
10782134 ATCACTAAGTGTAATAGAAGA-ATTGCTTCT-AGCCTCTTAAGGCACTTAGCCAAAATTCAATAT
1 CTCACTAAGTCTAATAGCAGATA-TACTGCTAAGCCTATTAAGGCACTTAG-CTAAATTCAATA-
* * * *
10782197 TTATAAAGTAGATACTCTTAGAGGAAACTA
63 TTATAAAGCAGACAAT-TGAGAGGAAACTA
* * *
10782227 CTCGCTAATTCTAATAGCAGATATACTGCTAAGCCTATTAGGGCACTTAGCTAAATTCAATGAAG
1 CTCACTAAGTCTAATAGCAGATATACTGCTAAGCCTATTAAGGCACTTAGCTAAATTCAAT--A-
* *
10782292 TTATAAAACAGACAAGTTGAGAGGAAACTG
63 TTATAAAGCAGACAA-TTGAGAGGAAACTA
* * *
10782322 CTCGCTAAGTCTAATA-CTAGATACACTGCTAAGCC-ACTTAAGGCACTTATCTAAA
1 CTCACTAAGTCTAATAGC-AGATATACTGCTAAGCCTA-TTAAGGCACTTAGCTAAA
10782377 ATTTGTAAAC
Statistics
Matches: 267, Mismatches: 56, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
92 4 0.01
93 59 0.22
94 82 0.31
95 115 0.43
96 7 0.03
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (91 bp):
CTCACTAAGTCTAATAGCAGATATACTGCTAAGCCTATTAAGGCACTTAGCTAAATTCAATATTA
TAAAGCAGACAATTGAGAGGAAACTA
Found at i:10802668 original size:15 final size:13
Alignment explanation
Indices: 10802638--10802675 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
10802628 TAACTCGCTG
10802638 CACATAAAACAAA
1 CACATAAAACAAA
10802651 CACATAAAATCAAA
1 CACATAAAA-CAAA
*
10802665 -ACACAAAACAA
1 CACATAAAACAA
10802676 CCAAAATACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 16 0.70
14 4 0.17
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACATAAAACAAA
Found at i:10810970 original size:67 final size:67
Alignment explanation
Indices: 10810862--10810992 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 67
10810852 TTCCCAATTC
** *
10810862 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTA
10810927 CA
66 CA
* *
10810929 AGAGAGCATACTCCCGCAAACCTTATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
10810993 GTAATATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTA
CA
Found at i:10811208 original size:57 final size:57
Alignment explanation
Indices: 10811115--10811262 Score: 181
Period size: 57 Copynumber: 2.5 Consensus size: 57
10811105 ACCCCAATTT
* *
10811115 AGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGCTATATCA
* *
10811172 AGATCACCCGTTCGGGCTAGATCC-TTTTCACACATATTCTTCGAGAGGGCTATATCAGGA
1 AGATCACCCGTCCGGGCTAAATCCATTTTC-CACATATTCTTCGAGAGGGCTATATC---A
* *
10811232 TAGGATCACCCGTCCAGGCTAAATCCTTTTT
1 -A-GATCACCCGTCCGGGCTAAATCCATTTT
10811263 ACCATCAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 5 0.06
57 46 0.60
60 1 0.01
61 1 0.01
62 20 0.26
63 4 0.05
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (57 bp):
AGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGCTATATCA
Found at i:10814698 original size:49 final size:50
Alignment explanation
Indices: 10814626--10814739 Score: 167
Period size: 49 Copynumber: 2.3 Consensus size: 50
10814616 GTAATCACAT
* *
10814626 ATCACATATCACATACCGATGCCATAACCCAGCTATGGTCTTACACG-GA
1 ATCACATATCACATACCGATGCCATAACCCAGCTATGGCCTTACACGAAA
* * *
10814675 ATCACATATCACTTACTGATGCCATAGCCCAGCTATGGCCTTACACGAAA
1 ATCACATATCACATACCGATGCCATAACCCAGCTATGGCCTTACACGAAA
10814725 ATCACATAATCACAT
1 ATCACAT-ATCACAT
10814740 TTTCACATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 43 0.75
50 8 0.14
51 6 0.11
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (50 bp):
ATCACATATCACATACCGATGCCATAACCCAGCTATGGCCTTACACGAAA
Found at i:10816452 original size:67 final size:66
Alignment explanation
Indices: 10816344--10816478 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 66
10816334 CCAATTCAGA
** *
10816344 GAGCACACTCCCGTTAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 GAGCACACTCCCGCGAACCTCATTTCTTACAGAGGGATTACCAGTCCAGGCTAAATCCCCTGC-A
10816409 GG
65 GG
* *
10816411 GAGCACACTCCCGCGAACCTCATTTCTTACAGAGGGATTACCAGTCCAGGCTCAATCCCTTGCAG
1 GAGCACACTCCCGCGAACCTCATTTCTTACAGAGGGATTACCAGTCCAGGCTAAATCCCCTGCAG
10816476 G
66 G
10816477 GA
1 GA
10816479 CAATTACTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 5 0.08
67 58 0.92
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (66 bp):
GAGCACACTCCCGCGAACCTCATTTCTTACAGAGGGATTACCAGTCCAGGCTAAATCCCCTGCAG
G
Found at i:10816682 original size:62 final size:57
Alignment explanation
Indices: 10816540--10816686 Score: 197
Period size: 57 Copynumber: 2.5 Consensus size: 57
10816530 ACCCTAATTC
* *
10816540 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTACATCAA
1 GGATCACCCGTCCGGGCTAGATCC-TTTTCCACATATTCTTCGGGAGGGCTACATCAA
*
10816598 -GATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTC-CACATATTCTTCGGGAGGGCTACATC---A-A
*
10816659 GGATCACCCATCCGGGCTAGATCCTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTT
10816687 TACCGTCAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
56 5 0.06
57 46 0.58
60 1 0.01
61 1 0.01
62 26 0.33
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (57 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTCCACATATTCTTCGGGAGGGCTACATCAA
Found at i:10817194 original size:26 final size:26
Alignment explanation
Indices: 10817158--10817210 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10817148 TTACCACTAA
10817158 TTACTTATTTACTCACAACAAGCTAT
1 TTACTTATTTACTCACAACAAGCTAT
10817184 TTACTTATTTACTCACAACAAGCTAT
1 TTACTTATTTACTCACAACAAGCTAT
10817210 T
1 T
10817211 CATTTCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (26 bp):
TTACTTATTTACTCACAACAAGCTAT
Found at i:10819420 original size:35 final size:35
Alignment explanation
Indices: 10819374--10819445 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
10819364 GATAGGATTA
*
10819374 TTAAATTCAAACTGTGTTACCAAACTTGTGTTGAT
1 TTAAATTCAAACTGTGTTAACAAACTTGTGTTGAT
10819409 TTAAATTCAAACTGTGTTAACAAACTTGTGTTGAT
1 TTAAATTCAAACTGTGTTAACAAACTTGTGTTGAT
10819444 TT
1 TT
10819446 TCTTTCTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (35 bp):
TTAAATTCAAACTGTGTTAACAAACTTGTGTTGAT
Found at i:10823063 original size:43 final size:44
Alignment explanation
Indices: 10822991--10823087 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 44
10822981 AGCATGTTGT
* * *
10822991 GGCGTTTGTAGCTAGAATTGCCGCAAAAGATCATGTTCTTTAGC
1 GGCGTTTGTAGCTAAAAGTGCCGCAAAAGATCATGTTCTATAGC
*
10823035 GGCGTTTGTAG-TAAAAGTGCCGCTAAAGATCATGTTCTATAGC
1 GGCGTTTGTAGCTAAAAGTGCCGCAAAAGATCATGTTCTATAGC
* *
10823078 AGTGTTTGTA
1 GGCGTTTGTA
10823088 AGAAAATGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 36 0.77
44 11 0.23
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (44 bp):
GGCGTTTGTAGCTAAAAGTGCCGCAAAAGATCATGTTCTATAGC
Found at i:10823434 original size:20 final size:21
Alignment explanation
Indices: 10823400--10823451 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
10823390 ATTTTCTTGT
* * *
10823400 TGCCTCTACTGCCCTTGCTG-
1 TGCCTCTGCTTCCCTCGCTGC
10823420 TGCCTCTGCTTCCCTCGCTGC
1 TGCCTCTGCTTCCCTCGCTGC
*
10823441 TACCTCTGCTT
1 TGCCTCTGCTT
10823452 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.37
Consensus pattern (21 bp):
TGCCTCTGCTTCCCTCGCTGC
Found at i:10827049 original size:2 final size:2
Alignment explanation
Indices: 10827034--10827068 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10827024 TGAAATAATG
*
10827034 AT AT AT -T AT GT 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
10827069 GTANNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10827199 original size:23 final size:23
Alignment explanation
Indices: 10827165--10827285 Score: 118
Period size: 23 Copynumber: 5.2 Consensus size: 23
10827155 GGATGCATAA
10827165 AATAATACATGATAAATTTAAAT
1 AATAATACATGATAAATTTAAAT
* * * *
10827188 GATCATAGATGATAAATTCAAAAT
1 AATAATACATGATAAATT-TAAAT
*
10827212 AATAATACATGATAACTTTAAAT
1 AATAATACATGATAAATTTAAAT
* * *
10827235 AAAAATACATGATAAAACTAAAAT
1 AATAATACATGAT-AAATTTAAAT
**
10827259 AATGTTA-ATGATAAATTTAGAAT
1 AATAATACATGATAAATTTA-AAT
10827282 AATA
1 AATA
10827286 TATATTATAA
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
22 5 0.07
23 42 0.55
24 29 0.38
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.31
Consensus pattern (23 bp):
AATAATACATGATAAATTTAAAT
Found at i:10827216 original size:47 final size:47
Alignment explanation
Indices: 10827165--10827283 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 47
10827155 GGATGCATAA
* ** * *
10827165 AATAATACATGATAAATTTAAATGATCATAGATGAT-AAATTCAAAAT
1 AATAATACATGATAAATTTAAATAAAAATACATGATAAAACT-AAAAT
*
10827212 AATAATACATGATAACTTTAAATAAAAATACATGATAAAACTAAAAT
1 AATAATACATGATAAATTTAAATAAAAATACATGATAAAACTAAAAT
**
10827259 AATGTTA-ATGATAAATTTAGAATAA
1 AATAATACATGATAAATTTA-AATAA
10827284 TATATATTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 11 0.18
47 46 0.75
48 4 0.07
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (47 bp):
AATAATACATGATAAATTTAAATAAAAATACATGATAAAACTAAAAT
Found at i:10830342 original size:90 final size:90
Alignment explanation
Indices: 10830189--10830374 Score: 345
Period size: 90 Copynumber: 2.1 Consensus size: 90
10830179 AAAGAATCAT
* * *
10830189 ATTCTCTTGGCTTGCATTTTGAAATGCAAACTTTAGAAAAGTTTGTACTCCATTTCGATAGTAGT
1 ATTCTTTTGGCTTGCATTTTAAAATGCAAAATTTAGAAAAGTTTGTACTCCATTTCGATAGTAGT
10830254 TGCTTACCCTTGACAAATCCATCCA
66 TGCTTACCCTTGACAAATCCATCCA
10830279 ATTCTTTTGGCTTGCATTTTAAAATGCAAAATTTAGAAAAGTTTGTACTCCATTTCGATAGTAGT
1 ATTCTTTTGGCTTGCATTTTAAAATGCAAAATTTAGAAAAGTTTGTACTCCATTTCGATAGTAGT
10830344 TGCTTACCCTTGACAAATCCATCCA
66 TGCTTACCCTTGACAAATCCATCCA
10830369 ATTCTT
1 ATTCTT
10830375 ATCCATTTCA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (90 bp):
ATTCTTTTGGCTTGCATTTTAAAATGCAAAATTTAGAAAAGTTTGTACTCCATTTCGATAGTAGT
TGCTTACCCTTGACAAATCCATCCA
Found at i:10838576 original size:22 final size:20
Alignment explanation
Indices: 10838543--10838591 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
10838533 AAAAAAAAAC
10838543 AAATAAACTAATAATGGAATA
1 AAATAAACTAATAATGGAA-A
*
10838564 AAATAACACTAATAATGGCAA
1 AAATAA-ACTAATAATGGAAA
10838585 AAATAAA
1 AAATAAA
10838592 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (20 bp):
AAATAAACTAATAATGGAAA
Found at i:10840303 original size:44 final size:44
Alignment explanation
Indices: 10840148--10840316 Score: 169
Period size: 45 Copynumber: 3.8 Consensus size: 44
10840138 GACTTGTAGC
* * * *
10840148 TTCGATCTACTCCGCTGTAACTTCAAGGAGATAAGGATTAGTAAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAAT
* * *
10840193 TTCAACCTGCTCCACTGCAACTTCAGGG-GATAAGGTTTGTATAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-AT
** * **
10840237 TTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGT
1 TTCGAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAAT
* * *
10840282 TTCGATTTGCTCCACTGCAACTTTAGGAAGATAAG
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAG
10840317 ATCCACCATA
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
43 3 0.03
44 39 0.39
45 48 0.48
46 11 0.11
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAAT
Found at i:10840513 original size:143 final size:143
Alignment explanation
Indices: 10840244--10840890 Score: 855
Period size: 143 Copynumber: 4.5 Consensus size: 143
10840234 TATTTTTATC
* * * * * * *
10840244 CTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGTTTCGATTTGCTCCACTGCAACTTTAGG
1 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * **
10840309 AAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCAATACAATACCAGAGAAATAAGATT
66 AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATT
*
10840374 CGCTGTCTTCAGT
131 CGCTATCTTCAGT
* * *
10840387 CTTCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTCCACTGCAACTTCAGG
1 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* *
10840452 AAGATAAGGTCCGCCATAATTTGTAGCTTTAATCTATTCCACTACAACGCCAGAGAAATAAGATT
66 AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATT
* * *
10840517 TGATGTCTTCAGT
131 CGCTATCTTCAGT
* * ** * *
10840530 CTGCTCCGCTACAATTTCAGGGAGATAAAGCTGGTAACTTCAATCTGCTCTATTGCAACTTCAAG
1 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AG
* * * *
10840595 G-AGATAAGATCCGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAATAT
65 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGAT
*
10840659 TCGCTATCTTTAGT
130 TCGCTATCTTCAGT
* * * * * *
10840673 CTTCTCTGCTGCAACTTCACGGAGATAAGGCTGGTGGCTTCAATCTACTCTACTGCAACTTCAGG
1 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
* * *
10840738 AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTTCACTACAACGTCAGGGAAATAAGATT
66 AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATT
**
10840803 CATTATCTTCAGT
131 CGCTATCTTCAGT
* * * *
10840816 CTGCTCTGCTACGACTTCAGGAAGATAAGGCTGGTGGCTTAAATCTGCTCCACTGCAACTTCAGG
1 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
*
10840881 GAGATAAGAT
66 AAGATAAGAT
10840891 TCACCGTAGT
Statistics
Matches: 440, Mismatches: 62, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
142 3 0.01
143 434 0.99
144 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (143 bp):
CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGG
AAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATT
CGCTATCTTCAGT
Found at i:10842231 original size:47 final size:48
Alignment explanation
Indices: 10842155--10842252 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 48
10842145 CGTTGGCCTC
* *
10842155 TCTTTTTTTCTTAGGACTCAAAGAGCCCTTTATGGGTTTTCGTCTTGG
1 TCTTTTTTTCTTAGGACTCAAAGAGCCCTTTACGGGTTTTCGCCTTGG
*
10842203 TCTTTTTTT-TTAGGACTCAAAGTA-CCCTTTGCGGGTTTTCGCCTTGG
1 TCTTTTTTTCTTAGGACTCAAAG-AGCCCTTTACGGGTTTTCGCCTTGG
10842250 TCT
1 TCT
10842253 CTTCTCCTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 36 0.78
48 10 0.22
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (48 bp):
TCTTTTTTTCTTAGGACTCAAAGAGCCCTTTACGGGTTTTCGCCTTGG
Found at i:10849772 original size:47 final size:47
Alignment explanation
Indices: 10849721--10849820 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
10849711 TGGTTGGACC
* * *
10849721 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGAT
1 ATGGCAACGATGTGATATGTG-CTACCGTATAAGACCATAGCTGGGAT
* * * * *
10849768 ATGGCATCGGTGTGATATGTGCTACTGTGTAAGACCATAGCTGGGCT
1 ATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGAT
10849815 ATGGCA
1 ATGGCA
10849821 TCAATATGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 33 0.75
48 11 0.25
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGAT
Found at i:10852751 original size:51 final size:51
Alignment explanation
Indices: 10852617--10852809 Score: 171
Period size: 51 Copynumber: 3.8 Consensus size: 51
10852607 CAAAAGTGAA
* * * ** * * *
10852617 AGTGATGGTCACGTGTCTAGTACTATGTGCCTGCTACTACGTGTACCAGA-
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
*
10852667 A-TGAT-ATGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATGA--TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
* ** * * *
10852718 -G-GCTTCGATCATGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGAT
1 AGTG-AT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
*
10852769 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
10852810 TGAACCAGTA
Statistics
Matches: 112, Mismatches: 22, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
49 4 0.04
50 36 0.32
51 68 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (51 bp):
AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
Found at i:10852811 original size:26 final size:26
Alignment explanation
Indices: 10852731--10852811 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
10852721 TTCGATCATG
*
10852731 TGTGTAGTACTATGTACAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
10852757 CGTGTACCGGA-TA-GTG-ATGG-TCAC-A
1 TGTGTA--GTACTATGTGCA-GGCT-ACTA
10852782 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
10852808 TGTG
1 TGTG
10852812 AACCAGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 15 0.37
26 18 0.44
27 2 0.05
28 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:10860592 original size:15 final size:14
Alignment explanation
Indices: 10860559--10860608 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
10860549 ATTCTTGGAC
*
10860559 TTTTTATTGGGTTT
1 TTTTTATTTGGTTT
*
10860573 GTTTTATTTGGTATT
1 TTTTTATTTGGT-TT
*
10860588 TTTTTGTTTGGTTT
1 TTTTTATTTGGTTT
10860602 ATTTTTA
1 -TTTTTA
10860609 GTGGGCCGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.10, C:0.00, G:0.18, T:0.72
Consensus pattern (14 bp):
TTTTTATTTGGTTT
Found at i:10863612 original size:11 final size:11
Alignment explanation
Indices: 10863596--10863647 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
10863586 AAACATATTT
10863596 TTATTATTGTA
1 TTATTATTGTA
*
10863607 TTATTATT-AA
1 TTATTATTGTA
* *
10863617 ATATTATAAGTA
1 TTATTAT-TGTA
10863629 TTATTATTGTA
1 TTATTATTGTA
10863640 TTATTATT
1 TTATTATT
10863648 ATTATGAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (11 bp):
TTATTATTGTA
Found at i:10864213 original size:9 final size:9
Alignment explanation
Indices: 10864196--10864271 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
10864186 GTAGTGATTC
*
10864196 AATTTGGTT
1 AATTCGGTT
10864205 AATTCGGTT
1 AATTCGGTT
*
10864214 AATTCGGGT
1 AATTCGGTT
10864223 AATTCGGTT
1 AATTCGGTT
*
10864232 AATTCGGGT
1 AATTCGGTT
* *
10864241 AATTCAGAT
1 AATTCGGTT
10864250 AATTCGGTT
1 AATTCGGTT
10864259 AATTCGGTT
1 AATTCGGTT
10864268 AATT
1 AATT
10864272 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10865540 original size:18 final size:19
Alignment explanation
Indices: 10865517--10865561 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
10865507 AAATGTACTA
10865517 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
10865535 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
10865554 ATTAATTT
1 ATTAATTT
10865562 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:10866016 original size:52 final size:52
Alignment explanation
Indices: 10865939--10866048 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 52
10865929 CGGAAATAAA
* **
10865939 AAAAAAAAATTGGGTGCTGAAACACTAATGATTGACACTCTTGTACCAGATT
1 AAAAAAAAATTGGATGCTGAAACACTAATGATCAACACTCTTGTACCAGATT
* ** * * *
10865991 AAAAAAAAATTGGATGTTGGGACACTGATGATCAATACTCTTGTACTAGATT
1 AAAAAAAAATTGGATGCTGAAACACTAATGATCAACACTCTTGTACCAGATT
10866043 AAAAAA
1 AAAAAA
10866049 TAACGGTGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (52 bp):
AAAAAAAAATTGGATGCTGAAACACTAATGATCAACACTCTTGTACCAGATT
Found at i:10866321 original size:50 final size:51
Alignment explanation
Indices: 10866205--10866340 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 51
10866195 AAAAAGAAAT
* *
10866205 TTAAAATAAAAAATAGAATTTAATTAAATGATAAATTATATTTAAAGCAATAAA
1 TTAAAAT-TAAAATA-AATTTAATTAAAGGAT-AATTATATTTAAAGCAATAAA
* *
10866259 TTAAAATTAAAAT-AA-TTAATTATAGGATAATTATATTTAAAGTAATAAA
1 TTAAAATTAAAATAAATTTAATTAAAGGATAATTATATTTAAAGCAATAAA
* *
10866308 TTTATATTAAAAATAGAATTTAATTAAAGGATA
1 TTAAAATT-AAAATA-AATTTAATTAAAGGATA
10866341 TGAGACGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
49 26 0.37
50 16 0.23
51 2 0.03
52 2 0.03
53 18 0.25
54 7 0.10
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.37
Consensus pattern (51 bp):
TTAAAATTAAAATAAATTTAATTAAAGGATAATTATATTTAAAGCAATAAA
Found at i:10866329 original size:18 final size:16
Alignment explanation
Indices: 10866213--10866335 Score: 56
Period size: 17 Copynumber: 7.2 Consensus size: 16
10866203 ATTTAAAATA
10866213 AAAAATAGAATTTAATT
1 AAAAATA-AATTTAATT
* *
10866230 AAATGATAAATTATATTT
1 AAA-AATAAATT-TAATT
*
10866248 AAAGCAATAAATTAAAATT
1 AAA--AATAAATT-TAATT
10866267 -AAAAT-AA-TTAATT
1 AAAAATAAATTTAATT
** *
10866280 ATAGGAT-AATTATATTT
1 A-AAAATAAATT-TAATT
10866297 AAAGTAATAAATTTATATT
1 AAA--AATAAATTTA-ATT
10866316 AAAAATAGAATTTAATT
1 AAAAATA-AATTTAATT
10866333 AAA
1 AAA
10866336 GGATATGAGA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
13 4 0.05
14 1 0.01
15 7 0.09
16 5 0.06
17 22 0.27
18 22 0.27
19 20 0.25
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (16 bp):
AAAAATAAATTTAATT
Found at i:10870619 original size:21 final size:21
Alignment explanation
Indices: 10870595--10870635 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10870585 AATCAAAAGC
10870595 TTAA-AAAAATTATTGAAAGAT
1 TTAAGAAAAATT-TTGAAAGAT
*
10870616 TTAAGAGAAATTTTGAAAGA
1 TTAAGAAAAATTTTGAAAGA
10870636 AAATGTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.32
Consensus pattern (21 bp):
TTAAGAAAAATTTTGAAAGAT
Found at i:10870736 original size:7 final size:7
Alignment explanation
Indices: 10870724--10870769 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
10870714 TAAACAAAAA
10870724 AATTTTG
1 AATTTTG
10870731 AATTTTG
1 AATTTTG
10870738 AATTTTG
1 AATTTTG
10870745 AATTTTG
1 AATTTTG
10870752 AATTTTG
1 AATTTTG
*
10870759 AATTTTA
1 AATTTTG
10870766 AATT
1 AATT
10870770 ATATAACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (7 bp):
AATTTTG
Found at i:10881480 original size:18 final size:17
Alignment explanation
Indices: 10881447--10881485 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10881437 TTTTATAAAT
10881447 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
10881465 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
10881482 TGTG
1 TGTG
10881486 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:10881616 original size:8 final size:8
Alignment explanation
Indices: 10881603--10881631 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10881593 CACTAGAGAC
10881603 CAGTGTTA
1 CAGTGTTA
10881611 CAGTGTTA
1 CAGTGTTA
10881619 CAGTGTTA
1 CAGTGTTA
10881627 CAGTG
1 CAGTG
10881632 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:10881745 original size:23 final size:23
Alignment explanation
Indices: 10881719--10881763 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10881709 GTGTTATTGA
10881719 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
10881742 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
10881764 AAGTATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:10884440 original size:39 final size:39
Alignment explanation
Indices: 10884384--10884463 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
10884374 TCTGAAGCAT
*
10884384 TTATGTGTAGGGTTATAAGTTTTCACAGTGAAACAATTC
1 TTATGTGTAGGGCTATAAGTTTTCACAGTGAAACAATTC
10884423 TTATGTGTAGGGCTATAAGTTTTCACAGTGAAACAATTC
1 TTATGTGTAGGGCTATAAGTTTTCACAGTGAAACAATTC
10884462 TT
1 TT
10884464 TCTACGGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (39 bp):
TTATGTGTAGGGCTATAAGTTTTCACAGTGAAACAATTC
Found at i:10885949 original size:17 final size:18
Alignment explanation
Indices: 10885901--10885950 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
10885891 TTACCCCAAA
10885901 TCAAATACCAAAACATTC
1 TCAAATACCAAAACATTC
* *
10885919 TCACATA--ATCAACATT-
1 TCAAATACCA-AAACATTC
10885935 TCAAATACCAAAACAT
1 TCAAATACCAAAACAT
10885951 AACATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
16 7 0.28
17 11 0.44
18 7 0.28
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
TCAAATACCAAAACATTC
Found at i:10886722 original size:15 final size:15
Alignment explanation
Indices: 10886702--10886731 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10886692 GATGATAATA
*
10886702 CTCACACGAGCTGTG
1 CTCACACGAACTGTG
10886717 CTCACACGAACTGTG
1 CTCACACGAACTGTG
10886732 AAAAATCTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.20
Consensus pattern (15 bp):
CTCACACGAACTGTG
Found at i:10888588 original size:24 final size:25
Alignment explanation
Indices: 10888528--10888589 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 25
10888518 ACATAAGTAG
10888528 AAACAAACAAATAAACTAATGTCATAC
1 AAACAAAC--ATAAACTAATGTCATAC
* *
10888555 ATAA-ATACATAAA-TGATGTCATAC
1 A-AACAAACATAAACTAATGTCATAC
10888579 AAACAAACATA
1 AAACAAACATA
10888590 CAGATTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.07
24 17 0.57
25 5 0.17
27 4 0.13
28 2 0.07
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (25 bp):
AAACAAACATAAACTAATGTCATAC
Found at i:10888772 original size:39 final size:39
Alignment explanation
Indices: 10888729--10888877 Score: 147
Period size: 39 Copynumber: 3.7 Consensus size: 39
10888719 TCATCACACA
10888729 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
1 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
** * *
10888768 AATTTAATTAGAGGGTTCAACATAATTTAATTGTTAACTTAACAT
1 AATTTAATTAGAGACTT--A-A-AATATAA-TG-TAACTTAATAT
* ** *
10888813 AATTTACTTAGAGGTTTAAAATATAATTTAACTTAATAT
1 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
* *
10888852 AATTTATTTAAAGACTT-AAATATAAT
1 AATTTAATTAGAGACTTAAAATATAAT
10888878 TTCAAACAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
38 9 0.10
39 38 0.42
40 1 0.01
41 7 0.08
42 2 0.02
43 7 0.08
44 2 0.02
45 25 0.27
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (39 bp):
AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
Found at i:10891953 original size:40 final size:40
Alignment explanation
Indices: 10891898--10891978 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
10891888 ACCCTAAGGA
10891898 AATCATCAGATGATACACGACTGTGTCACCAGGCCGTATG
1 AATCATCAGATGATACACGACTGTGTCACCAGGCCGTATG
*
10891938 AATCATCAGATGATACACGACTGTGTCGCCAGGCCGTATG
1 AATCATCAGATGATACACGACTGTGTCACCAGGCCGTATG
10891978 A
1 A
10891979 CTCACACAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AATCATCAGATGATACACGACTGTGTCACCAGGCCGTATG
Found at i:10902768 original size:17 final size:17
Alignment explanation
Indices: 10902746--10902779 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10902736 CAATTAATAA
*
10902746 ACCTAATGTCAGTTGCT
1 ACCTAAAGTCAGTTGCT
10902763 ACCTAAAGTCAGTTGCT
1 ACCTAAAGTCAGTTGCT
10902780 CTTACTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (17 bp):
ACCTAAAGTCAGTTGCT
Found at i:10902918 original size:19 final size:18
Alignment explanation
Indices: 10902894--10902929 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10902884 GGTGATTTCT
10902894 TTCTTGGGTATTGTTTTGC
1 TTCTTGGGTATT-TTTTGC
*
10902913 TTCTTGGTTATTTTTTG
1 TTCTTGGGTATTTTTTG
10902930 ATTATTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.08, G:0.22, T:0.64
Consensus pattern (18 bp):
TTCTTGGGTATTTTTTGC
Found at i:10914369 original size:50 final size:50
Alignment explanation
Indices: 10914310--10914409 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
10914300 CAAGTCTTCC
10914310 ACACTTTGTATATTTGGCACCACATCTTCCCTATTTCGCATGCTGACCGG
1 ACACTTTGTATATTTGGCACCACATCTTCCCTATTTCGCATGCTGACCGG
* *
10914360 ACACTTTGTATATTTGGCACCACATCTTTCCTATTTCTCATGCTGACCGG
1 ACACTTTGTATATTTGGCACCACATCTTCCCTATTTCGCATGCTGACCGG
10914410 TTTTATCTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (50 bp):
ACACTTTGTATATTTGGCACCACATCTTCCCTATTTCGCATGCTGACCGG
Found at i:10919641 original size:54 final size:54
Alignment explanation
Indices: 10919547--10919658 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
10919537 CACACAGCTA
* * * *
10919547 TGTCGCAGGCCGTGTGCCAGACTGTGTAACTCCCTGACTTG-TGACACACGGTCG
1 TGTCGCAGGCCATGTGCCAGACTGTGTAACACACTAACTTGAT-ACACACGGTCG
** * * *
10919601 TGTCGCAGGCCATGTGCTGGCCTGTGTAACACACTAACTTGATATACAGGGTCG
1 TGTCGCAGGCCATGTGCCAGACTGTGTAACACACTAACTTGATACACACGGTCG
10919655 TGTC
1 TGTC
10919659 TCAGACGGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.26
Consensus pattern (54 bp):
TGTCGCAGGCCATGTGCCAGACTGTGTAACACACTAACTTGATACACACGGTCG
Found at i:10920651 original size:36 final size:36
Alignment explanation
Indices: 10920606--10920698 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
10920596 AGTACACAAG
10920606 TAATCCAACCAAAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCAAAACACGCCAAATGCTCATAAGAGC
* * * *
10920642 TAATACAACCGATAACAC-CCAAATGTTTATAAGAGC
1 TAATCCAACC-AAAACACGCCAAATGCTCATAAGAGC
*
10920678 CAATCCAACCAATAACACGCC
1 TAATCCAACCAA-AACACGCC
10920699 CTAATAGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.02
36 38 0.81
37 8 0.17
ACGTcount: A:0.44, C:0.30, G:0.10, T:0.16
Consensus pattern (36 bp):
TAATCCAACCAAAACACGCCAAATGCTCATAAGAGC
Found at i:10920987 original size:5 final size:5
Alignment explanation
Indices: 10920954--10920986 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10920944 AATATCCACT
*
10920954 ATATC ATATC ATATC ATATC ATATC ATACC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATA
10920987 CAATTCATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:10922986 original size:27 final size:27
Alignment explanation
Indices: 10922956--10923190 Score: 265
Period size: 27 Copynumber: 8.7 Consensus size: 27
10922946 CCAGGATTTT
* * *
10922956 CCACAAAGGTTTTCATTTT-ATTGTTTG
1 CCACAAAGGCTTTC-TTTTCATGGTTCG
10922983 CCACAAAGGCTTTCTTTTCATGGTTCG
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* **
10923010 CCATAAAGGCTTTCTTTTCATGGTTTT
1 CCACAAAGGCTTTCTTTTCATGGTTCG
10923037 CCACAAAGGCTTTCTTTTCATGGTTCG
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* * * *
10923064 CCACCAAGGCTCTCATTTCATGGTTCA
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* *
10923091 CCATAAAGGCTTTTTTTTCATGGTTCG
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* * * *
10923118 CCACAAATGCTCTCTCTTCATGGTTCA
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* * *
10923145 CCAAAAAGGCTTTCATTTCATGGTTCA
1 CCACAAAGGCTTTCTTTTCATGGTTCG
* *
10923172 CCATAAAGGCTTTCATTTC
1 CCACAAAGGCTTTCTTTTC
10923191 TAACATATCT
Statistics
Matches: 176, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 172 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (27 bp):
CCACAAAGGCTTTCTTTTCATGGTTCG
Found at i:10923067 original size:81 final size:81
Alignment explanation
Indices: 10922952--10923190 Score: 318
Period size: 81 Copynumber: 3.0 Consensus size: 81
10922942 CCTTCCAGGA
* * * * *
10922952 TTTTCCACAAAGGTTTTCATTTT-ATTGTTTGCCACAAAGGCTTTCTTTTCATGGTTCGCCATAA
1 TTTTCCACAAAGGCTTTC-TTTTCATGGTTCGCCACAAAGGCTTTCATTTCATGGTTCACCATAA
10923016 AGGCTTTCTTTTCATGG
65 AGGCTTTCTTTTCATGG
* *
10923033 TTTTCCACAAAGGCTTTCTTTTCATGGTTCGCCACCAAGGCTCTCATTTCATGGTTCACCATAAA
1 TTTTCCACAAAGGCTTTCTTTTCATGGTTCGCCACAAAGGCTTTCATTTCATGGTTCACCATAAA
*
10923098 GGCTTTTTTTTCATGG
66 GGCTTTCTTTTCATGG
** * * * * *
10923114 TTCGCCACAAATGCTCTCTCTTCATGGTTCACCAAAAAGGCTTTCATTTCATGGTTCACCATAAA
1 TTTTCCACAAAGGCTTTCTTTTCATGGTTCGCCACAAAGGCTTTCATTTCATGGTTCACCATAAA
*
10923179 GGCTTTCATTTC
66 GGCTTTCTTTTC
10923191 TAACATATCT
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.03
81 134 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (81 bp):
TTTTCCACAAAGGCTTTCTTTTCATGGTTCGCCACAAAGGCTTTCATTTCATGGTTCACCATAAA
GGCTTTCTTTTCATGG
Found at i:10925053 original size:14 final size:11
Alignment explanation
Indices: 10925021--10925052 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
10925011 AAAGAGGGAA
10925021 AATTATATAAT
1 AATTATATAAT
10925032 AATTATATAAT
1 AATTATATAAT
10925043 AATTAATATA
1 AATT-ATATA
10925053 TTTTTGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTATATAAT
Found at i:10933669 original size:675 final size:675
Alignment explanation
Indices: 10932379--10933728 Score: 2691
Period size: 675 Copynumber: 2.0 Consensus size: 675
10932369 ATCATTTATT
10932379 TATTTCCTTTTATTTTGGTACCCATATGTGGGTCACAACAACTTATTTATACTCCAAACAGCTCG
1 TATTTCCTTTTATTTTGGTACCCATATGTGGGTCACAACAACTTATTTATACTCCAAACAGCTCG
10932444 ATTATCTCAAAATAAATTCCATCATGATTATGTGACATGATATATCATTTCCTAAAAATCTATCT
66 ATTATCTCAAAATAAATTCCATCATGATTATGTGACATGATATATCATTTCCTAAAAATCTATCT
10932509 GCTTATGAAAATCATAATCTCAACCTCATACTAAATTCGATCATGGGTATGTGGCACAGTAAATT
131 GCTTATGAAAATCATAATCTCAACCTCATACTAAATTCGATCATGGGTATGTGGCACAGTAAATT
10932574 ACATCTTATTTGCTTATAAAAAATAACGTGAGTCAAATAAGCTAACAAATAAAACGCCTTCGTCC
196 ACATCTTATTTGCTTATAAAAAATAACGTGAGTCAAATAAGCTAACAAATAAAACGCCTTCGTCC
10932639 AATTGAGTAACTTTGAGCTTTTAGTGAGATATCATAGATATCCTGCTCGTTGATTATTTAGGACT
261 AATTGAGTAACTTTGAGCTTTTAGTGAGATATCATAGATATCCTGCTCGTTGATTATTTAGGACT
10932704 CCATTTTAGTAGGCTTTCTATTGGCCGCGCTCATAAGTCAGGTCGGGTCCAATTAAAAATTTAAG
326 CCATTTTAGTAGGCTTTCTATTGGCCGCGCTCATAAGTCAGGTCGGGTCCAATTAAAAATTTAAG
10932769 CATGTTTATTCTGTTTGGATTTAGGCTTGGCCTAAAAATTGAGCTTAAAATTTTATCTAAATTCA
391 CATGTTTATTCTGTTTGGATTTAGGCTTGGCCTAAAAATTGAGCTTAAAATTTTATCTAAATTCA
10932834 GTTCGAATAAAAATGCTAAAATTCGGGTCTAGCTCGCTTGTATTAATTTTTTATATTATTTTTAT
456 GTTCGAATAAAAATGCTAAAATTCGGGTCTAGCTCGCTTGTATTAATTTTTTATATTATTTTTAT
10932899 ATAATTTTTAAATGTATATAATACATTAAAAATACTAAAAATATTAAAATAAATATTTCCCAATA
521 ATAATTTTTAAATGTATATAATACATTAAAAATACTAAAAATATTAAAATAAATATTTCCCAATA
10932964 AATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAAGATAGATACAACTTAACAA
586 AATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAAGATAGATACAACTTAACAA
*
10933029 GCAAATGTCTCTAAAACAAATAAAA
651 GCAAATGCCTCTAAAACAAATAAAA
10933054 TATTTCCTTTTATTTTGGTACCCATATGTGGGTCACAACAACTTATTTATACTCCAAACAGCTCG
1 TATTTCCTTTTATTTTGGTACCCATATGTGGGTCACAACAACTTATTTATACTCCAAACAGCTCG
10933119 ATTATCTCAAAATAAATTCCATCATGATTATGTGACATGATATATCATTTCCTAAAAATCTATCT
66 ATTATCTCAAAATAAATTCCATCATGATTATGTGACATGATATATCATTTCCTAAAAATCTATCT
10933184 GCTTATGAAAATCATAATCTCAACCTCATACTAAATTCGATCATGGGTATGTGGCACAGTAAATT
131 GCTTATGAAAATCATAATCTCAACCTCATACTAAATTCGATCATGGGTATGTGGCACAGTAAATT
10933249 ACATCTTATTTGCTTATAAAAAATAACGTGAGTCAAATAAGCTAACAAATAAAACGCCTTCGTCC
196 ACATCTTATTTGCTTATAAAAAATAACGTGAGTCAAATAAGCTAACAAATAAAACGCCTTCGTCC
10933314 AATTGAGTAACTTTGAGCTTTTAGTGAGATATCATAGATATCCTGCTCGTTGATTATTTAGGACT
261 AATTGAGTAACTTTGAGCTTTTAGTGAGATATCATAGATATCCTGCTCGTTGATTATTTAGGACT
10933379 CCATTTTAGTAGGCTTTCTATTGGCCGCGCTCATAAGTCAGGTCGGGTCCAATTAAAAATTTAAG
326 CCATTTTAGTAGGCTTTCTATTGGCCGCGCTCATAAGTCAGGTCGGGTCCAATTAAAAATTTAAG
10933444 CATGTTTATTCTGTTTGGATTTAGGCTTGGCCTAAAAATTGAGCTTAAAATTTTATCTAAATTCA
391 CATGTTTATTCTGTTTGGATTTAGGCTTGGCCTAAAAATTGAGCTTAAAATTTTATCTAAATTCA
10933509 GTTCGAATAAAAATGCTAAAATTCGGGTCTAGCTCGCTTGTATTAATTTTTTATATTATTTTTAT
456 GTTCGAATAAAAATGCTAAAATTCGGGTCTAGCTCGCTTGTATTAATTTTTTATATTATTTTTAT
10933574 ATAATTTTTAAATGTATATAATACATTAAAAATACTAAAAATATTAAAATAAATATTTCCCAATA
521 ATAATTTTTAAATGTATATAATACATTAAAAATACTAAAAATATTAAAATAAATATTTCCCAATA
10933639 AATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAAGATAGATACAACTTAACAA
586 AATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAAGATAGATACAACTTAACAA
10933704 GCAAATGCCTCTAAAACAAATAAAA
651 GCAAATGCCTCTAAAACAAATAAAA
10933729 AAATTAACAA
Statistics
Matches: 674, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
675 674 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (675 bp):
TATTTCCTTTTATTTTGGTACCCATATGTGGGTCACAACAACTTATTTATACTCCAAACAGCTCG
ATTATCTCAAAATAAATTCCATCATGATTATGTGACATGATATATCATTTCCTAAAAATCTATCT
GCTTATGAAAATCATAATCTCAACCTCATACTAAATTCGATCATGGGTATGTGGCACAGTAAATT
ACATCTTATTTGCTTATAAAAAATAACGTGAGTCAAATAAGCTAACAAATAAAACGCCTTCGTCC
AATTGAGTAACTTTGAGCTTTTAGTGAGATATCATAGATATCCTGCTCGTTGATTATTTAGGACT
CCATTTTAGTAGGCTTTCTATTGGCCGCGCTCATAAGTCAGGTCGGGTCCAATTAAAAATTTAAG
CATGTTTATTCTGTTTGGATTTAGGCTTGGCCTAAAAATTGAGCTTAAAATTTTATCTAAATTCA
GTTCGAATAAAAATGCTAAAATTCGGGTCTAGCTCGCTTGTATTAATTTTTTATATTATTTTTAT
ATAATTTTTAAATGTATATAATACATTAAAAATACTAAAAATATTAAAATAAATATTTCCCAATA
AATTGAAAATAAATTTTAAAAAATATGTATACTTAAATAACACTAAGATAGATACAACTTAACAA
GCAAATGCCTCTAAAACAAATAAAA
Found at i:10935098 original size:71 final size:72
Alignment explanation
Indices: 10934981--10935123 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 72
10934971 TCAAATAAAT
* *
10934981 CAATTTAGTATTTTTTTTAAAAGAATGAACATTTTAACTGTAAAAAATTTAAAGAAAAAAAATCA
1 CAATTTAGTATTTTTTTAAAAAGAATGAACAATTTAACTGTAAAAAATTTAAAGAAAAAAAATCA
10935046 CACTATA
66 CACTATA
10935053 CAATTTAGTA-TTTTTTAAAAAGAATGAACAATTTAACTGTAAAAAATTTAAAGAAAAAAAATCA
1 CAATTTAGTATTTTTTTAAAAAGAATGAACAATTTAACTGTAAAAAATTTAAAGAAAAAAAATCA
10935117 CACTATA
66 CACTATA
10935124 TAATATCAGA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 59 0.86
72 10 0.14
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (72 bp):
CAATTTAGTATTTTTTTAAAAAGAATGAACAATTTAACTGTAAAAAATTTAAAGAAAAAAAATCA
CACTATA
Found at i:10938172 original size:9 final size:9
Alignment explanation
Indices: 10938158--10938314 Score: 84
Period size: 9 Copynumber: 16.3 Consensus size: 9
10938148 TATTTATGTA
10938158 TTATGTAAG
1 TTATGTAAG
*
10938167 TTATGTGAG
1 TTATGTAAG
10938176 TTATGTAAG
1 TTATGTAAG
*
10938185 TTATGATATG
1 TTATG-TAAG
*
10938195 ATATATATAAG
1 -T-TATGTAAG
*
10938206 TTACTATGTACG
1 -T--TATGTAAG
* *
10938218 TTATATGAG
1 TTATGTAAG
*
10938227 TTATGATATG
1 TTATG-TAAG
*
10938237 ATATATATAAG
1 -T-TATGTAAG
10938248 TTAT-TAAG
1 TTATGTAAG
*
10938256 TTATGTACG
1 TTATGTAAG
*
10938265 TTATGTGAG
1 TTATGTAAG
10938274 TTATGTAAG
1 TTATGTAAG
*
10938283 TTATGATATG
1 TTATG-TAAG
*
10938293 ATATATATAAG
1 -T-TATGTAAG
10938304 TTAT-TAAG
1 TTATGTAAG
10938312 TTA
1 TTA
10938315 ATATCCAAAG
Statistics
Matches: 113, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
8 15 0.13
9 59 0.52
10 10 0.09
11 14 0.12
12 15 0.13
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10938207 original size:21 final size:21
Alignment explanation
Indices: 10938181--10938307 Score: 87
Period size: 21 Copynumber: 6.4 Consensus size: 21
10938171 GTGAGTTATG
10938181 TAAGTTATGATATGATATATA
1 TAAGTTATGATATGATATATA
*
10938202 TAAGTTA--CTATG-TACGTTATA
1 TAAGTTATGATATGATA---TATA
*
10938223 TGAGTTATGATATGATATATA
1 TAAGTTATGATATGATATATA
* *
10938244 TAAGTTAT--TAAG-T-TATG
1 TAAGTTATGATATGATATATA
* *
10938261 TACGTTATG---TGAGT-TATG
1 TAAGTTATGATATGA-TATATA
10938279 TAAGTTATGATATGATATATA
1 TAAGTTATGATATGATATATA
10938300 TAAGTTAT
1 TAAGTTAT
10938308 TAAGTTAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 10 0.12
18 16 0.19
19 7 0.08
20 1 0.01
21 42 0.51
23 4 0.05
24 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
TAAGTTATGATATGATATATA
Found at i:10938273 original size:98 final size:94
Alignment explanation
Indices: 10938131--10938306 Score: 291
Period size: 98 Copynumber: 1.8 Consensus size: 94
10938121 AGTATAATTA
10938131 AGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGA
1 AGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGA
10938196 TATATATAAGTTACTATGTACGTTATATG
66 TATATATAAGTTACTATGTACGTTATATG
*
10938225 AGTTATGATATGATATATATAAGTTAT-TAAGTTATGTACGTTATGTGAGTTATGTAAGTTATGA
1 AGTTATGATATGATATATAT---TTATGT-A-TTATGTAAGTTATGTGAGTTATGTAAGTTATGA
10938289 TATGATATATATAAGTTA
61 TATGATATATATAAGTTA
10938307 TTAAGTTAAT
Statistics
Matches: 76, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
94 20 0.26
96 1 0.01
97 5 0.07
98 50 0.66
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (94 bp):
AGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGA
TATATATAAGTTACTATGTACGTTATATG
Found at i:10938364 original size:9 final size:9
Alignment explanation
Indices: 10938350--10938409 Score: 66
Period size: 9 Copynumber: 6.2 Consensus size: 9
10938340 TTTAAAATTC
10938350 TGTAAGTTA
1 TGTAAGTTA
10938359 TGTAAGTTTTTA
1 TGTAAG---TTA
* *
10938371 TATATATTTA
1 TGTA-AGTTA
10938381 TGTAAGTTA
1 TGTAAGTTA
10938390 TGTAAGTTA
1 TGTAAGTTA
10938399 TGTAAGTTA
1 TGTAAGTTA
10938408 TG
1 TG
10938410 ATATATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 30 0.70
10 6 0.14
12 6 0.14
13 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:10938394 original size:40 final size:39
Alignment explanation
Indices: 10938350--10938427 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
10938340 TTTAAAATTC
* * *
10938350 TGTAAGTTATGTAAGTTTTTATATATATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGATATATATTT-TATAAGTTA
10938390 TGTAAGTTATGTAAGTTATGATATATATTTTATAAGTT
1 TGTAAGTTATGTAAGTTATGATATATATTTTATAAGTT
10938428 TTAAAAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 7 0.20
40 28 0.80
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (39 bp):
TGTAAGTTATGTAAGTTATGATATATATTTTATAAGTTA
Found at i:10940906 original size:20 final size:20
Alignment explanation
Indices: 10940761--10940970 Score: 116
Period size: 21 Copynumber: 10.0 Consensus size: 20
10940751 AAAATTAGAC
*
10940761 CCTAAACACTAAACCATAAA
1 CCTAAACCCTAAACCATAAA
*
10940781 TCCTAAACTCTTAAACTC-TAAA
1 -CCTAAAC-CCTAAAC-CATAAA
* ** *
10940803 CTATAAACTTTAAACCCTAAA
1 C-CTAAACCCTAAACCATAAA
* *
10940824 CCTTAAGCCCCATAACCCATAAA
1 CC-TAA-ACCC-TAAACCATAAA
* * *
10940847 CTATAAACACTAAACCCTAAA
1 C-CTAAACCCTAAACCATAAA
* *
10940868 CTATAAACACTAAACCATAAA
1 C-CTAAACCCTAAACCATAAA
* *
10940889 CCTACACCCTAAATCATAAA
1 CCTAAACCCTAAACCATAAA
* * *
10940909 CACTAAATCATAAACCTTAAA
1 C-CTAAACCCTAAACCATAAA
*
10940930 CCTTAAACCCTAAACTATAAA
1 CC-TAAACCCTAAACCATAAA
* * *
10940951 CTTACACCCTAAACCCTAAA
1 CCTAAACCCTAAACCATAAA
10940971 TATATATTAC
Statistics
Matches: 146, Mismatches: 33, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
20 33 0.23
21 82 0.56
22 17 0.12
23 14 0.10
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (20 bp):
CCTAAACCCTAAACCATAAA
Found at i:10940908 original size:34 final size:34
Alignment explanation
Indices: 10940763--10940937 Score: 131
Period size: 34 Copynumber: 4.9 Consensus size: 34
10940753 AATTAGACCC
* *
10940763 TAAACACTAAACCATAAATCCTAAACTCTTAAACTC
1 TAAACACTAAACCATAAA-CCTAAAC-CCTAAACTA
** * * *
10940799 TAAACTA-TAAACTTTAAACCCTAAACCTTAAGCCCCA
1 TAAAC-ACTAAACCATAAA-CCTAAACCCTAA--ACTA
* *
10940836 T-AACCCATAAACTATAAACACTAAACCCTAAACTA
1 TAAACAC-TAAACCATAAAC-CTAAACCCTAAACTA
*
10940871 TAAACACTAAACCATAAACCTACACCCTAAA-TCA
1 TAAACACTAAACCATAAACCTAAACCCTAAACT-A
* *
10940905 TAAACACTAAATCATAAACCTTAAACCTTAAAC
1 TAAACACTAAACCATAAACC-TAAACCCTAAAC
10940938 CCTAAACTAT
Statistics
Matches: 112, Mismatches: 17, Indels: 20
0.75 0.11 0.13
Matches are distributed among these distances:
33 1 0.01
34 31 0.28
35 28 0.25
36 29 0.26
37 23 0.21
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (34 bp):
TAAACACTAAACCATAAACCTAAACCCTAAACTA
Found at i:10940943 original size:62 final size:62
Alignment explanation
Indices: 10940792--10940963 Score: 163
Period size: 62 Copynumber: 2.7 Consensus size: 62
10940782 CCTAAACTCT
* ** * **
10940792 TAAACTCTAAACTATAAACTTTAAACCCTAAACCTTA-AGCCCCATAACCCATAAACTATAAACA
1 TAAACCCTAAACTATAAACACTAAACCATAAACC-TACA--CCC-TAAATCATAAACTATAAACA
10940856 C
62 C
10940857 TAAACCCTAAACTATAAACACTAAACCATAAACCTACACCCTAAATCATAAAC-ACTAAATCA-
1 TAAACCCTAAACTATAAACACTAAACCATAAACCTACACCCTAAATCATAAACTA-TAAA-CAC
* * * *
10940919 TAAACCTTAAACCT-TAAACCCTAAACTATAAACTTACACCCTAAA
1 TAAACCCTAAA-CTATAAACACTAAACCATAAACCTACACCCTAAA
10940964 CCCTAAATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
61 1 0.01
62 52 0.56
63 7 0.08
64 2 0.02
65 31 0.33
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (62 bp):
TAAACCCTAAACTATAAACACTAAACCATAAACCTACACCCTAAATCATAAACTATAAACAC
Found at i:10940966 original size:7 final size:7
Alignment explanation
Indices: 10940759--10940970 Score: 104
Period size: 7 Copynumber: 30.1 Consensus size: 7
10940749 TTAAAATTAG
10940759 ACCCTAA
1 ACCCTAA
*
10940766 ACACTAA
1 ACCCTAA
*
10940773 ACCATAA
1 ACCCTAA
*
10940780 ATCCTAA
1 ACCCTAA
*
10940787 ACTCTTAA
1 AC-CCTAA
*
10940795 ACTCTAA
1 ACCCTAA
**
10940802 ACTATAA
1 ACCCTAA
**
10940809 ACTTTAA
1 ACCCTAA
10940816 ACCCTAA
1 ACCCTAA
*
10940823 ACCTTAA
1 ACCCTAA
* *
10940830 GCCCCATA
1 ACCCTA-A
10940838 ACCCATAA
1 ACCC-TAA
**
10940846 ACTATAA
1 ACCCTAA
*
10940853 ACACTAA
1 ACCCTAA
10940860 ACCCTAA
1 ACCCTAA
**
10940867 ACTATAA
1 ACCCTAA
*
10940874 ACACTAA
1 ACCCTAA
*
10940881 ACCATAA
1 ACCCTAA
*
10940888 A-CCTAC
1 ACCCTAA
10940894 ACCCTAA
1 ACCCTAA
* *
10940901 ATCATAA
1 ACCCTAA
*
10940908 ACACTAA
1 ACCCTAA
* *
10940915 ATCATAA
1 ACCCTAA
*
10940922 ACCTTAA
1 ACCCTAA
*
10940929 ACCTTAA
1 ACCCTAA
10940936 ACCCTAA
1 ACCCTAA
**
10940943 ACTATAA
1 ACCCTAA
* *
10940950 A-CTTAC
1 ACCCTAA
10940956 ACCCTAA
1 ACCCTAA
10940963 ACCCTAA
1 ACCCTAA
10940970 A
1 A
10940971 TATATATTAC
Statistics
Matches: 149, Mismatches: 51, Indels: 10
0.71 0.24 0.05
Matches are distributed among these distances:
6 7 0.05
7 128 0.86
8 13 0.09
9 1 0.01
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:10940976 original size:28 final size:28
Alignment explanation
Indices: 10940905--10940976 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
10940895 CCCTAAATCA
* * *
10940905 TAAACACTAAATCATA-AACCTTAAACCT
1 TAAACCCTAAAT-ATATAAACTTAAACCC
* *
10940933 TAAACCCTAAA-CTATAAACTTACACCC
1 TAAACCCTAAATATATAAACTTAAACCC
10940960 TAAACCCTAAATATATA
1 TAAACCCTAAATATATA
10940977 TTACAAAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAATATATAAACTTAAACCC
Found at i:10941160 original size:7 final size:7
Alignment explanation
Indices: 10941150--10941193 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
10941140 CCCAAACCCC
10941150 AAACTCT
1 AAACTCT
*
10941157 AAACTAT
1 AAACTCT
10941164 AAAC-CAT
1 AAACTC-T
10941171 AAACTCT
1 AAACTCT
*
10941178 AAACTCA
1 AAACTCT
10941185 AAACTCT
1 AAACTCT
10941192 AA
1 AA
10941194 TCCCAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 30 0.97
8 1 0.03
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACTCT
Found at i:10941167 original size:21 final size:21
Alignment explanation
Indices: 10941143--10941182 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10941133 AATAAACCCC
*
10941143 AAACCCCAAACTCTAAACTAT
1 AAACCACAAACTCTAAACTAT
*
10941164 AAACCATAAACTCTAAACT
1 AAACCACAAACTCTAAACT
10941183 CAAAACTCTA
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:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCACAAACTCTAAACTAT
Found at i:10941474 original size:41 final size:38
Alignment explanation
Indices: 10941384--10941480 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 38
10941374 GTGTTTTGCG
10941384 AAAAGTGCCGCTAATGCTCGATCTATAGCGTATTTTTC
1 AAAAGTGCCGCTAATGCTCGATCTATAGCGTATTTTTC
* * *
10941422 AACTAA-CGCCGCTAATTCTCGATCTATTGCGGCGT-TTTTTAC
1 AA--AAGTGCCGCTAATGCTCGATCTA-T--AGCGTATTTTT-C
10941464 AAAAGTGCCGCTAATGC
1 AAAAGTGCCGCTAATGC
10941481 CACTAAAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
38 2 0.04
39 18 0.38
40 5 0.11
41 15 0.32
42 7 0.15
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (38 bp):
AAAAGTGCCGCTAATGCTCGATCTATAGCGTATTTTTC
Found at i:10941558 original size:41 final size:41
Alignment explanation
Indices: 10941513--10941624 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 41
10941503 CAACTTTTTT
10941513 GCGGCGTTTTTCCAAAAAGCGCCGCTAATGCTAGATCTATA
1 GCGGCGTTTTTCCAAAAAGCGCCGCTAATGCTAGATCTATA
* * * * * *
10941554 GCGGCATTTTTCGACAAAGCGCCGCTAATTCTCGATCTATT
1 GCGGCGTTTTTCCAAAAAGCGCCGCTAATGCTAGATCTATA
* *
10941595 GCGGCGTTTTT-TAAAAAGCGCCTCTAATGC
1 GCGGCGTTTTTCCAAAAAGCGCCGCTAATGC
10941625 CACTAAAGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
40 15 0.25
41 45 0.75
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAAGCGCCGCTAATGCTAGATCTATA
Found at i:10941730 original size:40 final size:40
Alignment explanation
Indices: 10941663--10941773 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
10941653 CAACTTTTTT
* * * *
10941663 GCGGCGTTTTCCAAAAAGTGCCTCTAATGCTTGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
10941703 GTGGCGTTTTTCAAATAGCGCCGCTAATGCTCGATCTATT
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
10941743 GCGGCGTGTTTTAAAAAAGCGTCGCTAATGC
1 GCGGCGT-TTTTCAAAAAGCGCCGCTAATGC
10941774 CACTAAAGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
40 39 0.66
41 20 0.34
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:10941838 original size:148 final size:148
Alignment explanation
Indices: 10941348--10941920 Score: 711
Period size: 148 Copynumber: 3.9 Consensus size: 148
10941338 ACAACAAATG
* * * *
10941348 ACGTCGTTTTGCTCAACTTTTTTGCGGTGTTTTGCGAAAAGTGCCGCTAATGCTCGATCTATAGC
1 ACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * * *
10941413 -GTATTTTTC-AACTAA-CGCCGCTAATTCTCGATCTATTGCGGCGTTTTTTACAAAAGTGCCGC
66 GGCATTTTTCGAA--AAGCGCCGCTAATGCTCGATCTATTGCGGCG-TTTTTAAAAAAGCGCCGC
10941475 TAATGCCACTAAAGCT---CA
128 TAATGCCACTAAAGCTCAACA
*
10941493 A---CGTTTTGCTCAACTTTTTTGCGGCGTTTTTCCAAAAAGCGCCGCTAATGCTAGATCTATAG
1 ACGTCGTTTTGCTCAACTTTTTTGCGGCG-TTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAG
* * *
10941555 CGGCATTTTTCGACAAAGCGCCGCTAATTCTCGATCTATTGCGGCGTTTTTTAAAAAGCGCCTCT
65 CGGCATTTTTCGA-AAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTAAAAAAGCGCCGCT
10941620 AATGCCACTAAAGCTCAACA
129 AATGCCACTAAAGCTCAACA
* * * * * *
10941640 ACATCGTTTTACTCAACTTTTTTGCGGCGTTTTCCAAAAAGTGCCTCTAATGCTTGATCTATAGT
1 ACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAGC
* *
10941705 GGCGTTTTTC-AAATAGCGCCGCTAATGCTCGATCTATTGCGGCGTGTTTTAAAAAAGCGTCGCT
66 GGCATTTTTCGAAA-AGCGCCGCTAATGCTCGATCTATTGCGGCGT-TTTTAAAAAAGCGCCGCT
10941769 AATGCCACTAAAGCTCAACA
129 AATGCCACTAAAGCTCAACA
* **
10941789 ACGT-GTTTTGCTCAACTTTTTTACGGCGCTTTT-TGAAAAGCGCCGCTAATGCTCGATCTATAG
1 ACGTCGTTTTGCTCAACTTTTTTGCGGCG-TTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAG
* * * * * * * *
10941852 CGGCGTTTTTCGAGAAGCGTCGTTAATGCTTGATCTATAGCGACGTTTTTCAAAAAGCGCCGCTA
65 CGGCATTTTTCGAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTAAAAAAGCGCCGCTA
10941917 ATGC
130 ATGC
10941921 TCAATCTATA
Statistics
Matches: 376, Mismatches: 37, Indels: 28
0.85 0.08 0.06
Matches are distributed among these distances:
142 24 0.06
143 32 0.09
144 40 0.11
145 30 0.08
146 1 0.00
147 26 0.07
148 114 0.30
149 85 0.23
150 24 0.06
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (148 bp):
ACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAGC
GGCATTTTTCGAAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTAAAAAAGCGCCGCTAA
TGCCACTAAAGCTCAACA
Found at i:10941856 original size:40 final size:40
Alignment explanation
Indices: 10941824--10942002 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
10941814 GCGCTTTTTG
*
10941824 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCG
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCA
* * * * *
10941864 AGAAGCGTCGTTAATGCTTGATCTATAGCGACGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCA
*
10941904 AAAAGCGCCGCTAATGCTCAATCTATAGCGGCGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCA
* * *
10941944 AAAAGCACCGCTAATGCTCGACCTATAGCGACGTTTGTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCG-TT-TTTCA
*
10941986 GAAA-CGCCGCTAATGCT
1 AAAAGCGCCGCTAATGCT
10942003 TGACTTTTTG
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 97 0.82
41 14 0.12
42 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCA
Found at i:10942422 original size:142 final size:142
Alignment explanation
Indices: 10942166--10942445 Score: 508
Period size: 142 Copynumber: 2.0 Consensus size: 142
10942156 CACAACTCAA
* * *
10942166 CAACTGTAGTAGCTTTCTGCAACTCTGTGCTTTGATGATCATCAAGTTGAAAATACTCCAATTGA
1 CAACTGTAGTAGCTTTCTGCAACTCTGTGCTTTGATAAGCATCAAGTTGAAAAAACTCCAATTGA
10942231 ATCTTCATGTGTAATTTTTATTGCTCCGTAAAATTGTCCGTATAAAAATCATTCATAAACTTGCA
66 ATCTTCATGTGTAATTTTTATTGCTCCGTAAAATTGTCCGTATAAAAATCATTCATAAACTTGCA
10942296 GATATCTTTCTG
131 GATATCTTTCTG
10942308 CAACTGTAGTAGCTTTCTGCAACTCTGTGCTTTGATAAGCATCAAGTTGAAAAAACTCCAATTGA
1 CAACTGTAGTAGCTTTCTGCAACTCTGTGCTTTGATAAGCATCAAGTTGAAAAAACTCCAATTGA
*
10942373 ATCTTCATGTGTAGTTTTTATTGCTCCGTAAAATTGTCCAG-ATAAAAATCATTCATAAACTTGC
66 ATCTTCATGTGTAATTTTTATTGCTCCGTAAAATTGTCC-GTATAAAAATCATTCATAAACTTGC
10942437 AGATATCTT
130 AGATATCTT
10942446 CCACCCAAAA
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 132 0.99
143 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (142 bp):
CAACTGTAGTAGCTTTCTGCAACTCTGTGCTTTGATAAGCATCAAGTTGAAAAAACTCCAATTGA
ATCTTCATGTGTAATTTTTATTGCTCCGTAAAATTGTCCGTATAAAAATCATTCATAAACTTGCA
GATATCTTTCTG
Found at i:10945921 original size:111 final size:112
Alignment explanation
Indices: 10945705--10945927 Score: 439
Period size: 111 Copynumber: 2.0 Consensus size: 112
10945695 TTTTGAAAAA
10945705 AAGGATTTTTAATTTATACTTTTTAAAGTTTTAGAATCAATATAAATTGATAAAATGTTTAATAT
1 AAGGATTTTTAATTTATACTTTTTAAAGTTTTAGAATCAATATAAATTGATAAAATGTTTAATAT
10945770 TGAAAGTTGAATTTATTAAATTTTTTAATAACCATCCTAAGTTAGCC
66 TGAAAGTTGAATTTATTAAATTTTTTAATAACCATCCTAAGTTAGCC
10945817 AAGGATTTTT-ATTTATACTTTTTAAAGTTTTAGAATCAATATAAATTGATAAAATGTTTAATAT
1 AAGGATTTTTAATTTATACTTTTTAAAGTTTTAGAATCAATATAAATTGATAAAATGTTTAATAT
10945881 TGAAAGTTGAATTTATTAAATTTTTTAATAACCATCCTAAGTTAGCC
66 TGAAAGTTGAATTTATTAAATTTTTTAATAACCATCCTAAGTTAGCC
10945928 TTCCATTTGA
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 101 0.91
112 10 0.09
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (112 bp):
AAGGATTTTTAATTTATACTTTTTAAAGTTTTAGAATCAATATAAATTGATAAAATGTTTAATAT
TGAAAGTTGAATTTATTAAATTTTTTAATAACCATCCTAAGTTAGCC
Found at i:10949675 original size:79 final size:80
Alignment explanation
Indices: 10949592--10949753 Score: 290
Period size: 79 Copynumber: 2.0 Consensus size: 80
10949582 AGAATTATAA
10949592 TATATGTTATAAATAAAATTATGAAACTATAATTAAAACCCATACAAAAAATTATAAAATT-AAA
1 TATATGTTATAAATAAAATTATGAAACTATAATTAAAACCCATACAAAAAATTATAAAATTAAAA
10949656 AAAAGTATTTTGTAT
66 AAAAGTATTTTGTAT
*
10949671 TATATGTTATAAATAAAATTATGAAACTATAATTAAAACCCATACAAAGAATTATAAAATTAAAA
1 TATATGTTATAAATAAAATTATGAAACTATAATTAAAACCCATACAAAAAATTATAAAATT--AA
10949736 AAAAAAGTATTTTGTAT
64 AAAAAAGTATTTTGTAT
10949753 T
1 T
10949754 TTATCGGGCA
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
79 60 0.76
82 19 0.24
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (80 bp):
TATATGTTATAAATAAAATTATGAAACTATAATTAAAACCCATACAAAAAATTATAAAATTAAAA
AAAAGTATTTTGTAT
Found at i:10950338 original size:2 final size:2
Alignment explanation
Indices: 10950331--10950355 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10950321 CTTAACAACC
10950331 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10950356 TCACCAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10954373 original size:33 final size:34
Alignment explanation
Indices: 10954318--10954382 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
10954308 GTCTATATGT
* * * *
10954318 AAGACCATACCTGGGCTGTGGCA-TTTTAATGAA
1 AAGACCATAACTGAGCTATGGCACTTTGAATGAA
*
10954351 AAGACCATAACTGAGTTATGGCACTTTGAATG
1 AAGACCATAACTGAGCTATGGCACTTTGAATG
10954383 TAAGATCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 19 0.73
34 7 0.27
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (34 bp):
AAGACCATAACTGAGCTATGGCACTTTGAATGAA
Found at i:10962001 original size:101 final size:101
Alignment explanation
Indices: 10961811--10962027 Score: 263
Period size: 101 Copynumber: 2.1 Consensus size: 101
10961801 ATGACCATGC
* * * * * * * *
10961811 TTGGACCATGGCAATGTTTATATGTAATACCATAGTTGGGATATGGCATTTTAATGAAAAGAGCA
1 TTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCA
* **
10961876 TAATTGGGTTATGACACTTTGAACGTAAGACAATGG
66 TAACTGGGTTATGACACTACGAACGTAAGACAATGG
* * * *
10961912 TTGGACCATGACAGTATTTATAAGTAAGACTATAGCTGGGTTATGACATTCTAATGATAAGACCA
1 TTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCA
* * *
10961977 TAACTGGGTTATGGCAGTACGAACGTAAGACCATGG
66 TAACTGGGTTATGACACTACGAACGTAAGACAATGG
*
10962013 TTGGGCCATGACAAT
1 TTGGACCATGACAAT
10962028 GCATGTGTAA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (101 bp):
TTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCA
TAACTGGGTTATGACACTACGAACGTAAGACAATGG
Found at i:10965040 original size:34 final size:34
Alignment explanation
Indices: 10965002--10965101 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 34
10964992 CATGGCATCC
* * * *
10965002 ATAGAGATAAGTCTGTCAGGACAGTAAACATGGA
1 ATAGAGATAAGTCTGCCAGGACAATAAACACGAA
** *
10965036 ATAGAGATAAGTCCCCCAGGACAATAAATACGAA
1 ATAGAGATAAGTCTGCCAGGACAATAAACACGAA
*
10965070 ATAAAG-TAAGTCTGCCAGGACAATAAACACGA
1 ATAGAGATAAGTCTGCCAGGACAATAAACACGA
10965102 GAGGTCCGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 23 0.42
34 32 0.58
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (34 bp):
ATAGAGATAAGTCTGCCAGGACAATAAACACGAA
Found at i:10974975 original size:33 final size:33
Alignment explanation
Indices: 10974933--10974998 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10974923 ATTCAGGAGT
10974933 AGGGAGTTGGAAAAGTGGGGAAACCAGCAAGCG
1 AGGGAGTTGGAAAAGTGGGGAAACCAGCAAGCG
10974966 AGGGAGTTGGAAAAGTGGGGAAACCAGCAAGCG
1 AGGGAGTTGGAAAAGTGGGGAAACCAGCAAGCG
10974999 GGTAAGGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.42, T:0.09
Consensus pattern (33 bp):
AGGGAGTTGGAAAAGTGGGGAAACCAGCAAGCG
Found at i:10975634 original size:51 final size:54
Alignment explanation
Indices: 10975547--10975686 Score: 144
Period size: 57 Copynumber: 2.6 Consensus size: 54
10975537 ATATATGGCA
* ** * *
10975547 TAAGACCATGGATGAACGATGTCATGTAAGTC-TGGT-ATGTTGTACG-TA-GCG
1 TAAGACCATGGATGAAAGATGTCATGGCAG-CATGGTAAAGTTATACGATAGGCG
* *
10975598 TAAGACCATGGATGAAAGATGTCATGGCAGCATGGTACAAGTTATAGGTATATGGCT
1 TAAGACCATGGATGAAAGATGTCATGGCAGCATGGTA-AAGTTATACG-ATA-GGCG
*
10975655 TAAGACCATAGATGAAAGATGTCATGGCAGCA
1 TAAGACCATGGATGAAAGATGTCATGGCAGCA
10975687 ATGTTTAAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
50 1 0.01
51 31 0.42
53 7 0.09
55 2 0.03
57 33 0.45
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (54 bp):
TAAGACCATGGATGAAAGATGTCATGGCAGCATGGTAAAGTTATACGATAGGCG
Found at i:10985926 original size:25 final size:25
Alignment explanation
Indices: 10985888--10985956 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
10985878 CACTCTCAAG
10985888 CAATATAACAGGAAGCTCATGTCAGC
1 CAATATAACAGGAAGCTCAT-TCAGC
* * * *
10985914 C-ATGTAACGGGAAGCTTATTCGGC
1 CAATATAACAGGAAGCTCATTCAGC
10985938 CAATATAACAGGAAGCTCA
1 CAATATAACAGGAAGCTCA
10985957 CAAAGAGCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (25 bp):
CAATATAACAGGAAGCTCATTCAGC
Found at i:10989710 original size:22 final size:20
Alignment explanation
Indices: 10989670--10989710 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
10989660 CATTTAAGAT
*
10989670 AAATTGAAGAATTAGGCTTG
1 AAATTGAAGAATTAAGCTTG
10989690 AAATTGATAGAAATTAAGCTT
1 AAATTGA-AG-AATTAAGCTT
10989711 AGATTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (20 bp):
AAATTGAAGAATTAAGCTTG
Found at i:10991888 original size:58 final size:58
Alignment explanation
Indices: 10991826--10991949 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 58
10991816 ACAGAAATGG
* * * *
10991826 AGAGAATTGAAAAACATTTGGAAATGAAT-ATGG-TTTTATCCAAAATGAAAAT-AAAAAT
1 AGAGAAATG-AAAACATTTGAAAATGAATGA-GGATTTT-TCAAAAATAAAAATGAAAAAT
*
10991884 AGAGAAATGGAAACATTTGAAAATGAATGAGGATTTTTCAAAAATAAAAATGAAAAAT
1 AGAGAAATGAAAACATTTGAAAATGAATGAGGATTTTTCAAAAATAAAAATGAAAAAT
10991942 -GA-AAATGA
1 AGAGAAATGA
10991950 CCTGGAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
56 5 0.09
57 33 0.58
58 19 0.33
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (58 bp):
AGAGAAATGAAAACATTTGAAAATGAATGAGGATTTTTCAAAAATAAAAATGAAAAAT
Found at i:10992647 original size:360 final size:360
Alignment explanation
Indices: 10991986--10992679 Score: 1343
Period size: 360 Copynumber: 1.9 Consensus size: 360
10991976 ATTAAATGAT
10991986 AGTAAACTTATTGAATGATTTTAATAGAATTAGAATTGTGTGAAGAATATTATTTAATTGGAAAA
1 AGTAAACTTATTGAATGATTTTAATAGAATTAGAATTGTGTGAAGAATATTATTTAATTGGAAAA
*
10992051 TTAATTAAGATGTTTAATTTGGGAAATAGAAAAATGAATATTAGTGTAACACCCTTTACCCAGTT
66 TTAATTAAGATGTTTAATTTGGGAAATAGAAAAATGAATATTAGTGTAACACCCCTTACCCAGTT
10992116 CGAAAAATTAATATAATAGAACAATTACATCCAAAACCGGTATTAACAATCAACCCAAACATTAA
131 CGAAAAATTAATATAATAGAACAATTACATCCAAAACCGGTATTAACAATCAACCCAAACATTAA
10992181 ACATTTCAAATTTTAAGTATACCATGATTTATAATCAAATCCAAGTCTCAAACGATCTTACGAAG
196 ACATTTCAAATTTTAAGTATACCATGATTTATAATCAAATCCAAGTCTCAAACGATCTTACGAAG
10992246 GCTCTTAAACCAATCCGGAAACAAATAAGGACTTAACTGAACATATAACAAAAAGTATGAGAATT
261 GCTCTTAAACCAATCCGGAAACAAATAAGGACTTAACTGAACATATAACAAAAAGTATGAGAATT
*
10992311 TCTGAAAACAGAAATAGAATTAGAATTAGAATTAG
326 TCTAAAAACAGAAATAGAATTAGAATTAGAATTAG
10992346 AGTAAACTTATTGAATGATTTTAATAGAATTAGAATTGTGTGAAGAATATTATTTAATTGGAAAA
1 AGTAAACTTATTGAATGATTTTAATAGAATTAGAATTGTGTGAAGAATATTATTTAATTGGAAAA
*
10992411 TTAATTAAGATGTTTAATTTTGGAAATAGAAAAATGAATATTAGTGTAACACCCCTTACCCAGTT
66 TTAATTAAGATGTTTAATTTGGGAAATAGAAAAATGAATATTAGTGTAACACCCCTTACCCAGTT
*
10992476 CGAAAAATTAATATAATAGAACAATTACATCCAAAATCGGTATTAACAATCAACCCAAACATTAA
131 CGAAAAATTAATATAATAGAACAATTACATCCAAAACCGGTATTAACAATCAACCCAAACATTAA
*
10992541 ACATTTCATATTTTAAGTATACCATGATTTATAATCAAATCCAAGTCTCAAACGATCTTACGAAG
196 ACATTTCAAATTTTAAGTATACCATGATTTATAATCAAATCCAAGTCTCAAACGATCTTACGAAG
10992606 GCTCTTAAACCAATCCGGAAACAAATAAGGACTTAACTGAACATATAACAAAAAGTATGAGAATT
261 GCTCTTAAACCAATCCGGAAACAAATAAGGACTTAACTGAACATATAACAAAAAGTATGAGAATT
10992671 TCTAAAAAC
326 TCTAAAAAC
10992680 TGAACATATA
Statistics
Matches: 329, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
360 329 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (360 bp):
AGTAAACTTATTGAATGATTTTAATAGAATTAGAATTGTGTGAAGAATATTATTTAATTGGAAAA
TTAATTAAGATGTTTAATTTGGGAAATAGAAAAATGAATATTAGTGTAACACCCCTTACCCAGTT
CGAAAAATTAATATAATAGAACAATTACATCCAAAACCGGTATTAACAATCAACCCAAACATTAA
ACATTTCAAATTTTAAGTATACCATGATTTATAATCAAATCCAAGTCTCAAACGATCTTACGAAG
GCTCTTAAACCAATCCGGAAACAAATAAGGACTTAACTGAACATATAACAAAAAGTATGAGAATT
TCTAAAAACAGAAATAGAATTAGAATTAGAATTAG
Found at i:10993550 original size:19 final size:20
Alignment explanation
Indices: 10993526--10993563 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10993516 TTAAAGTAGT
10993526 AATTT-AGTAAATAAAAGAA
1 AATTTAAGTAAATAAAAGAA
10993545 AATTTAAGTAAATAAAAGA
1 AATTTAAGTAAATAAAAGA
10993564 TAAAAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
AATTTAAGTAAATAAAAGAA
Found at i:11008476 original size:15 final size:16
Alignment explanation
Indices: 11008451--11008482 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11008441 TACATCTACT
11008451 AAATCAGATGAATTAC
1 AAATCAGATGAATTAC
11008467 AAAT-AGATGAATTAC
1 AAATCAGATGAATTAC
11008482 A
1 A
11008483 TACAACATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (16 bp):
AAATCAGATGAATTAC
Found at i:11009822 original size:56 final size:52
Alignment explanation
Indices: 11009754--11009890 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 52
11009744 AAGACCCTAT
* **
11009754 GTAAGATCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-TACCGA-G--ATGAGAGGTCCCAC
*
11009810 GTAAGACCATGTCTGGGACATGGCATTGG--TACCGAGATGAGAGGTCCCTC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGGTCCCAC
* * *
11009860 GTAAGACTATGCCTGGGACATGGCATGGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
11009891 CCAATATGAG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
50 39 0.54
52 1 0.01
53 4 0.06
56 28 0.39
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (52 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGGTCCCAC
Found at i:11009855 original size:50 final size:50
Alignment explanation
Indices: 11009754--11009936 Score: 159
Period size: 50 Copynumber: 3.5 Consensus size: 50
11009744 AAGACCCTAT
* **
11009754 GTAAGATCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGG---TACCGA-G--ATGAGAGGTCCCAC
*
11009810 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCTC
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAC
* * * * * * ** * *
11009860 GTAAGACTATGCCTGGGACATGGCATGGGCACCAATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAC
* * *
11009910 GTAAGACCATATCTGGGATATGACATT
1 GTAAGACCATGTCTGGGACATGGCATT
11009937 TGTAGTACAG
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
50 73 0.69
52 1 0.01
53 4 0.04
56 28 0.26
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAC
Found at i:11010217 original size:20 final size:20
Alignment explanation
Indices: 11010192--11010230 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11010182 TGAGTTATTT
11010192 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
11010212 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
11010231 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:11017101 original size:23 final size:22
Alignment explanation
Indices: 11017074--11017158 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 22
11017064 ATTAAATGTG
11017074 TTAAAACTTAATGTGATTTATGC
1 TTAAAA-TTAATGTGATTTATGC
*
11017097 TTAAAATTTAATGTGCTTTATGC
1 TTAAAA-TTAATGTGATTTATGC
*
11017120 TTAAATATTAATGTGATTTATGA
1 TTAAA-ATTAATGTGATTTATGC
*
11017143 TTAAATATTAAAGTGA
1 TTAAA-ATTAATGTGA
11017159 CTAATGTGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 55 0.98
24 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAAAATTAATGTGATTTATGC
Found at i:11017171 original size:23 final size:23
Alignment explanation
Indices: 11017120--11017164 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11017110 TGCTTTATGC
* * *
11017120 TTAAATATTAATGTGATTTATGA
1 TTAAATATTAAAGTGACTAATGA
11017143 TTAAATATTAAAGTGACTAATG
1 TTAAATATTAAAGTGACTAATG
11017165 TGTAAATGGA
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:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (23 bp):
TTAAATATTAAAGTGACTAATGA
Found at i:11017171 original size:46 final size:47
Alignment explanation
Indices: 11017068--11017171 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 47
11017058 ACTATCATTA
* *
11017068 AATGTGTTAAA-ACTTAATGTGATTTATGCTTAAAATTTAATGTGCTT
1 AATGTG-TAAATACTTAATGTGATTTATGATTAAAATTTAAAGTGCTT
*
11017115 TATGCT-TAAATA-TTAATGTGATTTATGATT-AAATATTAAAGTGAC-T
1 AATG-TGTAAATACTTAATGTGATTTATGATTAAAAT-TTAAAGTG-CTT
11017161 AATGTGTAAAT
1 AATGTGTAAAT
11017172 GGACCCATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
45 5 0.10
46 37 0.77
47 5 0.10
48 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (47 bp):
AATGTGTAAATACTTAATGTGATTTATGATTAAAATTTAAAGTGCTT
Found at i:11023976 original size:20 final size:18
Alignment explanation
Indices: 11023933--11023968 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11023923 CCAAAATTTT
11023933 ATTTTAATATTTTTATAC
1 ATTTTAATATTTTTATAC
11023951 ATTTTAAT-TTTATTATAC
1 ATTTTAATATTT-TTATAC
11023969 GCATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTAATATTTTTATAC
Found at i:11025849 original size:69 final size:68
Alignment explanation
Indices: 11025758--11025924 Score: 176
Period size: 68 Copynumber: 2.4 Consensus size: 68
11025748 AGCCCCGATG
* * *
11025758 ACAGCTGGGAGTTTTGCACTCAC-AACCTGTGTTAG-AGATTGCGACTATTCACCTGCGAGCCTA
1 ACAGCTGGGAGCTTTGCTCTCACTAA-CTGT-TTAGAAG-TTGCGACTATTCACCTGCAAGCCTA
11025821 AATATA
63 AATATA
* * * * * * *
11025827 ACAGTTGGGAGCTTTGCTCTCACTAACTGTTTGGAAGTTGTGGCTCTTCACCTGTAAGCCTTAAT
1 ACAGCTGGGAGCTTTGCTCTCACTAACTGTTTAGAAGTTGCGACTATTCACCTGCAAGCCTAAAT
*
11025892 ATG
66 ATA
* *
11025895 ACAGCTAGGAGCTTTGCTCTCGCTAACTGT
1 ACAGCTGGGAGCTTTGCTCTCACTAACTGT
11025925 GTTGGACATC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
68 54 0.66
69 26 0.32
70 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (68 bp):
ACAGCTGGGAGCTTTGCTCTCACTAACTGTTTAGAAGTTGCGACTATTCACCTGCAAGCCTAAAT
ATA
Found at i:11029454 original size:381 final size:384
Alignment explanation
Indices: 11028744--11029485 Score: 1292
Period size: 381 Copynumber: 1.9 Consensus size: 384
11028734 AATAAAGCTA
* * *
11028744 TAATAGAATAGAGTTGTAATCATTAATTCAATTGTTTGATTGAATGTAGTGAAATACAACTCTAA
1 TAATAGAATAGAGTTGTAATCAGTAATTCAATCGTTTGATTGAATGTAATGAAATACAACTCTAA
*
11028809 TATACTAGTTATTTCTTCAAATATACAAAAAATTTTAAATTTTTGAGTAAATCAGTGACAGATGT
66 TATACAAGTTATTTCTTCAAATATACAAAAAATTTTAAATTTTTGAGTAAATCAGTGACAGATGT
* *
11028874 ACATCAAAATCCAACATTGATCACTTAATCTTGATAATAAAGCTGACACATGTGGTTAAAATTTT
131 ACATC--AA--CAACATTGATCAATTAATCCTGATAATAAAGCTGACACATGTGGTTAAAATTTT
*
11028939 GTGCTACTTGAAAAGCTATCTTATTTGGGTATGCATCTCATGTCAAAATTGATCACATGAAGATA
192 GTGCTACTTGAAAAGCTATCTTATTTGGGTATGCATCTCATGTCAAAATCGATCACATGAAGATA
11029004 ATAATGAACCAAACTCAACATTATGGGGATTAACCGAAGATTAAGAATAGATACTAGCAAAATAA
257 ATAATGAACCAAACTCAACATTATGGGGATTAACCGAAGATTAAGAATAGATACTAGCAAAATAA
*
11029069 TACAATTGGATTCCATGAGAACTAACATTGTTGCAGAATAGAGTTGTAATCAGTAATTCACTC
322 TACAATTAGATTCCATGAGAACTAACATTGTTGCAGAATAGAGTTGTAATCAGTAATTCACTC
* *
11029132 TAATAGAATAGAGTTGTAATCAGTAATTCAATCGTTTGATTGAATGTAATGGAATACAACTGTAA
1 TAATAGAATAGAGTTGTAATCAGTAATTCAATCGTTTGATTGAATGTAATGAAATACAACTCTAA
11029197 TATACAAGTTATTTCTTCAAATATACAAAAAATTTTAAATTTTTGAGTAAATCAGTGACAGATGT
66 TATACAAGTTATTTCTTCAAATATACAAAAAATTTTAAATTTTTGAGTAAATCAGTGACAGATGT
* *
11029262 ACATC-A-AA-ATTGATCAATTAATCCTGATAATAAAGCTGATAGATGTGGTTAAAATTTTGTGC
131 ACATCAACAACATTGATCAATTAATCCTGATAATAAAGCTGACACATGTGGTTAAAATTTTGTGC
* *
11029324 TACTTGAAAAGCTATCTTGTTTGGGTATGCATCTCATGTCAAAATCGATCCCATGAAGATAATAA
196 TACTTGAAAAGCTATCTTATTTGGGTATGCATCTCATGTCAAAATCGATCACATGAAGATAATAA
11029389 TGAACCAAACTCAACATTATGGGGATTAACCGAAGATTAAGAATAGATACTAGCAAAATAATACA
261 TGAACCAAACTCAACATTATGGGGATTAACCGAAGATTAAGAATAGATACTAGCAAAATAATACA
*
11029454 ATTAGATTCCATGAGAACTAACCTTGTTGCAG
326 ATTAGATTCCATGAGAACTAACATTGTTGCAG
11029486 CAAACACAAA
Statistics
Matches: 339, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
381 207 0.61
382 2 0.01
385 1 0.00
388 129 0.38
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (384 bp):
TAATAGAATAGAGTTGTAATCAGTAATTCAATCGTTTGATTGAATGTAATGAAATACAACTCTAA
TATACAAGTTATTTCTTCAAATATACAAAAAATTTTAAATTTTTGAGTAAATCAGTGACAGATGT
ACATCAACAACATTGATCAATTAATCCTGATAATAAAGCTGACACATGTGGTTAAAATTTTGTGC
TACTTGAAAAGCTATCTTATTTGGGTATGCATCTCATGTCAAAATCGATCACATGAAGATAATAA
TGAACCAAACTCAACATTATGGGGATTAACCGAAGATTAAGAATAGATACTAGCAAAATAATACA
ATTAGATTCCATGAGAACTAACATTGTTGCAGAATAGAGTTGTAATCAGTAATTCACTC
Found at i:11030793 original size:13 final size:14
Alignment explanation
Indices: 11030775--11030803 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11030765 TAACAATGAT
11030775 AATTGAAA-AAAAA
1 AATTGAAAGAAAAA
11030788 AATTGAAAGAAAAA
1 AATTGAAAGAAAAA
11030802 AA
1 AA
11030804 GAAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AATTGAAAGAAAAA
Found at i:11032866 original size:11 final size:10
Alignment explanation
Indices: 11032844--11032883 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
11032834 ATTTTATCTA
11032844 TTTTTAATATT
1 TTTTTAA-ATT
11032855 TTTTATAAATT
1 TTTT-TAAATT
11032866 TTTTTAAATT
1 TTTTTAAATT
11032876 TTATTTAA
1 TT-TTTAA
11032884 GGGTAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.30
11 16 0.59
12 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTAAATT
Done.