Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 404 of 425
Found at i:123391763 original size:17 final size:17
Alignment explanation
Indices: 123391743--123391776 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
123391733 AGGTTTAGGT
123391743 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
*
123391760 TTAAATTTTTTAATTAA
1 TTAAAATTTTTAATTAA
123391777 AAATCTATTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:123393071 original size:20 final size:21
Alignment explanation
Indices: 123393046--123393102 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
123393036 ATTTTCAAAA
*
123393046 AAATATAATAT-TATTA-TTTT
1 AAATATAAAATAT-TTATTTTT
123393066 AAATATAAAATATTTATTTTT
1 AAATATAAAATATTTATTTTT
123393087 ACAATATAAAAT-TTTA
1 A-AATATAAAATATTTA
123393103 AATGAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 13 0.39
21 10 0.30
22 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATATAAAATATTTATTTTT
Found at i:123393077 original size:22 final size:22
Alignment explanation
Indices: 123393062--123393102 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
123393052 AATATTATTA
123393062 TTTTA-AATATAAAATATTTAT
1 TTTTACAATATAAAATATTTAT
123393083 TTTTACAATATAAAAT-TTTA
1 TTTTACAATATAAAATATTTA
123393103 AATGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTACAATATAAAATATTTAT
Found at i:123393232 original size:2 final size:2
Alignment explanation
Indices: 123393225--123393264 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
123393215 TAACATCTTT
123393225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123393265 GACTAATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123394194 original size:12 final size:11
Alignment explanation
Indices: 123394167--123394200 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
123394157 TTTTCAAGTG
123394167 AAAATTAATAA
1 AAAATTAATAA
123394178 AAAATTAATATA
1 AAAATTAATA-A
123394190 AAAATT-ATAA
1 AAAATTAATAA
123394200 A
1 A
123394201 TTATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 13 0.59
12 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTAATAA
Found at i:123396183 original size:32 final size:32
Alignment explanation
Indices: 123396124--123396184 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
123396114 GCATTCATGT
* *
123396124 AATATTTATATCAATCATATGTTATTATTTAC
1 AATATTTATATCAATAATATGTAATTATTTAC
*
123396156 AATATTTATATGATATAATA-GTAATTATT
1 AATATTTATATCA-ATAATATGTAATTATT
123396185 ATGTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 20 0.80
33 5 0.20
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (32 bp):
AATATTTATATCAATAATATGTAATTATTTAC
Found at i:123399977 original size:16 final size:16
Alignment explanation
Indices: 123399954--123399991 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
123399944 TTTAAAATTT
123399954 TAAA-AATATAAAATA
1 TAAATAATATAAAATA
*
123399969 TAAATAATATTAAATA
1 TAAATAATATAAAATA
123399985 TAAATAA
1 TAAATAA
123399992 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAATATAAAATA
Found at i:123412378 original size:14 final size:14
Alignment explanation
Indices: 123412359--123412386 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123412349 TTGTGTGACC
123412359 CGAATCCTTGTTAA
1 CGAATCCTTGTTAA
123412373 CGAATCCTTGTTAA
1 CGAATCCTTGTTAA
123412387 AGAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
CGAATCCTTGTTAA
Found at i:123424956 original size:18 final size:18
Alignment explanation
Indices: 123424933--123424967 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
123424923 ATGAGTTTTT
123424933 AATTAAATT-AATATCACA
1 AATT-AATTAAATATCACA
123424951 AATTAATTAAATATCAC
1 AATTAATTAAATATCAC
123424968 TCTAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAATTAAATATCACA
Found at i:123427970 original size:46 final size:46
Alignment explanation
Indices: 123427909--123428368 Score: 650
Period size: 46 Copynumber: 10.0 Consensus size: 46
123427899 TTTCTGTCAT
* * *
123427909 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
123427955 GCTGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* *
123428001 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* ** *
123428047 GTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
123428093 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
123428139 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * * *
123428185 ATTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
** *
123428231 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
123428277 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
***
123428323 GTTGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
123428369 AGAGCACACT
Statistics
Matches: 378, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 378 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:123430461 original size:16 final size:16
Alignment explanation
Indices: 123430442--123430474 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
123430432 AATTTTTCCC
*
123430442 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
123430458 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
123430474 T
1 T
123430475 CCCCTGCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:123430550 original size:2 final size:2
Alignment explanation
Indices: 123430543--123430583 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
123430533 CTTTTACTTT
123430543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123430584 ATAACTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123430748 original size:18 final size:18
Alignment explanation
Indices: 123430705--123430740 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
123430695 AATATCTTTT
*
123430705 ATTTAATAATAATATATA
1 ATTTAATAATAATAAATA
123430723 ATTTAATAATAATAAATA
1 ATTTAATAATAATAAATA
123430741 CATTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAATAATAAATA
Found at i:123433418 original size:5 final size:5
Alignment explanation
Indices: 123433408--123433462 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
123433398 GCAACCCAAT
* * *
123433408 TTTTA TTTTA TTTTA GTTTA TTTTA TTTTTA TTTATT TTTTC TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA TT-TTA
123433456 TTTTA TT
1 TTTTA TT
123433463 ATTTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
5 29 0.69
6 13 0.31
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:123433453 original size:25 final size:26
Alignment explanation
Indices: 123433406--123433475 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
123433396 AGGCAACCCA
*
123433406 ATTTTTATTTTATTTTAGT-TTATT-TT
1 ATTTTTA-TTTATTTT-TTCTTATTATT
123433432 ATTTTTATTTATTTTTTCTTATTATT
1 ATTTTTATTTATTTTTTCTTATTATT
*
123433458 -TTATTATTTATTATTTTC
1 ATTTTTATTTATT-TTTTC
123433476 AGATATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 1 0.03
25 24 0.62
26 14 0.36
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (26 bp):
ATTTTTATTTATTTTTTCTTATTATT
Found at i:123433470 original size:15 final size:14
Alignment explanation
Indices: 123433410--123433474 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
123433400 AACCCAATTT
123433410 TTATTTTA-TTTTA
1 TTATTTTATTTTTA
123433423 GTTTATTTTATTTTTA
1 --TTATTTTATTTTTA
*
123433439 TTTATTTT-TTCTTA
1 -TTATTTTATTTTTA
123433453 TTATTTTATTATTTA
1 TTATTTTATT-TTTA
123433468 TTATTTT
1 TTATTTT
123433475 CAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 26 0.58
16 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:123433482 original size:28 final size:28
Alignment explanation
Indices: 123433425--123433483 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
123433415 TTATTTTAGT
** *
123433425 TTATTTTATTTTTATTTATTTTTTCTTA
1 TTATTTTATTTTTATTTATTTTCACATA
*
123433453 TTATTTTATTATTTA-TTATTTTCAGATA
1 TTATTTTATT-TTTATTTATTTTCACATA
123433481 TTA
1 TTA
123433484 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (28 bp):
TTATTTTATTTTTATTTATTTTCACATA
Found at i:123434406 original size:5 final size:4
Alignment explanation
Indices: 123434382--123434443 Score: 63
Period size: 4 Copynumber: 15.2 Consensus size: 4
123434372 ACATACATAC
* * *
123434382 ATAA ATAA ATAA ATAA ATAAA ATAAA ATAA A-AA ATAA AAAA ATAT ATAT
1 ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
*
123434431 GTAA ATAA ATAA A
1 ATAA ATAA ATAA A
123434444 ATTTGGGACT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 3 0.06
4 38 0.76
5 9 0.18
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:123435015 original size:15 final size:15
Alignment explanation
Indices: 123434995--123435024 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
123434985 CATTTTATTT
*
123434995 ATATTAGGATAATTA
1 ATATTAAGATAATTA
123435010 ATATTAAGATAATTA
1 ATATTAAGATAATTA
123435025 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:123435052 original size:27 final size:26
Alignment explanation
Indices: 123434991--123435053 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
123434981 ACTCCATTTT
123434991 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
123435018 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
123435046 ATTTTATT
1 ATTTTATT
123435054 TTTAATTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:123435741 original size:2 final size:2
Alignment explanation
Indices: 123435734--123435759 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123435724 TGTATAGATT
123435734 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
123435760 ATTCATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123436494 original size:24 final size:24
Alignment explanation
Indices: 123436365--123436524 Score: 108
Period size: 24 Copynumber: 6.7 Consensus size: 24
123436355 CAACCGATTT
* ** *
123436365 CGCACACATAGTGCTAAACAAATT
1 CGCACACATAGTGCCATTCAAATC
* * *
123436389 CGCACACATAGCGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
123436413 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
123436437 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
123436461 AGCACACATAGTGCCATTCAATTC
1 CGCACACATAGTGCCATTCAAATC
123436485 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
123436509 CACACACTTAGTGCCA
1 CGCACACATAGTGCCA
123436525 ATGTTGACCC
Statistics
Matches: 99, Mismatches: 33, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 91 0.92
25 5 0.05
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:123437025 original size:2 final size:2
Alignment explanation
Indices: 123436987--123437016 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123436977 TAGCACACAC
123436987 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
123437017 TTGTATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123443461 original size:2 final size:2
Alignment explanation
Indices: 123443454--123443481 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123443444 TGTATAGATT
123443454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123443482 ATTCATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123444218 original size:24 final size:24
Alignment explanation
Indices: 123444092--123444248 Score: 111
Period size: 24 Copynumber: 6.5 Consensus size: 24
123444082 CCGATTTCGT
* ** *
123444092 ACACATAGTGCTAAACAAATTCGC
1 ACACATAGTGCCATTCAAATCCGC
* *
123444116 ACACATAGTGCCATGCTACA-CCGC
1 ACACATAGTGCCATTC-AAATCCGC
* * *
123444140 ACACATAGTGCC-TTGAAGATTCAC
1 ACACATAGTGCCATTCAA-ATCCGC
* ** * * * *
123444164 TCATGTATTGACATCCAAATCAGC
1 ACACATAGTGCCATTCAAATCCGC
* *
123444188 ACACATAGTGTCATTCAATTCCGC
1 ACACATAGTGCCATTCAAATCCGC
123444212 ACACATAGTGCCATTCAAATCCGC
1 ACACATAGTGCCATTCAAATCCGC
*
123444236 ACACTTAGTGCCA
1 ACACATAGTGCCA
123444249 ATGTTGACCC
Statistics
Matches: 98, Mismatches: 31, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 90 0.92
25 5 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (24 bp):
ACACATAGTGCCATTCAAATCCGC
Found at i:123448296 original size:145 final size:146
Alignment explanation
Indices: 123448112--123448983 Score: 1315
Period size: 145 Copynumber: 6.0 Consensus size: 146
123448102 ATTATATTAA
* *
123448112 TTTAATAAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
1 TTTAA-AAAATAAGATACG--AA-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAA
* *
123448177 AAAAATATAAAAAATACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAAT
62 AAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAAT
123448242 AAAATACGAAAATAATATAT
127 AAAATACGAAAATAATATAT
123448262 TTTAAAAAATAAGATAC-AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
* * *
123448325 ATATAAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAA
66 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
123448390 TACGAAAATAATATAT
131 TACGAAAATAATATAT
* **
123448406 TTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATT
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAA
* * * * *
123448470 AATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAA
65 AATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAA
123448535 AATACGAAAATAATATAT
129 AATACGAAAATAATATAT
* * *
123448553 TTTAAAAAATAATATACGAAAAAAATACTAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
* *
123448618 ACATAAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAA
66 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
*
123448683 TACAAAAATAATATAT
131 TACGAAAATAATATAT
* *
123448699 TTTAAAAAATAAGATACG-AAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
* * *
123448763 ATATAAATAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAA
66 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
123448828 TACGAAAATAATATAT
131 TACGAAAATAATATAT
* * **
123448844 TTTAAAAAATAAGATACGAAAAAAATATGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATT
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAA
* * * *
123448908 AATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAA
65 AATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAA
*
123448972 TATACGAAAATA
129 AATACGAAAATA
123448984 TTTTACTTAT
Statistics
Matches: 661, Mismatches: 53, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
144 101 0.15
145 214 0.32
146 155 0.23
147 174 0.26
148 1 0.00
149 11 0.02
150 5 0.01
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (146 bp):
TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
TACGAAAATAATATAT
Found at i:123448541 original size:291 final size:289
Alignment explanation
Indices: 123448112--123448983 Score: 1311
Period size: 291 Copynumber: 3.0 Consensus size: 289
123448102 ATTATATTAA
* *
123448112 TTTAATAAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
1 TTTAA-AAAATAAGATACG--AA-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-A
*
123448177 AAAAATATAAAAAATACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAAT
61 AAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAAT
123448242 AAAATACGAAAATAATATATTTTAAAAAATAAGATAC-AAAAAAATACGAATAAAGTGCTAAAAT
126 AAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAAT
* *
123448306 CAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAA
191 CAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAA
123448371 ATAATATGAAGAAATAAAATACGAAAATAATATAT
256 ATAATAT-AAGAAATAAAATACGAAAATAATATAT
* *
123448406 TTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATT
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAA-A
* * * * * *
123448470 AATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAA
64 AATAT-AAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAA
* *
123448535 AATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACTAATAAAGTGCTAAAATCA
128 AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCA
* *
123448600 GGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAA
193 GGGTTATTTA-TTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAA
*
123448665 TAATATAAAGAAATAAAATACAAAAATAATATAT
257 TAATAT-AAGAAATAAAATACGAAAATAATATAT
*
123448699 TTTAAAAAATAAGATACG-AAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAA
* *
123448763 ATATAAATAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAA
65 ATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
* *
123448828 TACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATATGAAGAAAGTG-TCAAAATCAG
130 TACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT-AAAATCAG
* * * * *
123448892 GGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAA
194 GGTTATTTATTAAA-AAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAA
* *
123448957 TAATATAAAAAATAATATACGAAAATA
257 TAATATAAGAAATAAAATACGAAAATA
123448984 TTTTACTTAT
Statistics
Matches: 524, Mismatches: 44, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
289 4 0.01
290 46 0.09
291 230 0.44
292 123 0.23
293 116 0.22
294 5 0.01
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (289 bp):
TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
TATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
ACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGG
TTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAAT
ATAAGAAATAAAATACGAAAATAATATAT
Found at i:123448950 original size:438 final size:439
Alignment explanation
Indices: 123448112--123448983 Score: 1570
Period size: 438 Copynumber: 2.0 Consensus size: 439
123448102 ATTATATTAA
123448112 TTTAATAAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
1 TTTAATAAAATAATATACG-AAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
* * *
123448177 AAAAATATAAAAAATACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAAT
65 AAAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAAT
* *
123448242 AAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACGAATAAAGTGCTAAAATC
130 AAAATACAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATC
*
123448307 AGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAA
195 AGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAA
123448372 TAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAA
260 TAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAA
123448437 GAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGA
325 GAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGA
123448502 AACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATAT
390 AACATTTTTTGCTAAAATAATAT-AAAAAATAAAATACGAAAATAATATAT
* * *
123448553 TTTAA-AAAATAATATACG-AA-AAAAATACTAATAAAGTGCTAAAATCAGGGTTATTTATTTAA
1 TTTAATAAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAA
*
123448615 AAAACATAAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATA
66 AAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATA
*
123448680 AAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCA
131 AAATACAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCA
*
123448745 GGGTTATTTATTGAAAAAATATAAATAATACTTAAATAATACATTTGAAACATTATGTACTAAAA
196 GGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAA
*
123448810 TAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATATGAA
260 TAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAA
123448875 GAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGA
325 GAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGA
*
123448940 AACATTTTTTGCTAAAATAATATAAAAAATAATATACGAAAATA
390 AACATTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATA
123448984 TTTTACTTAT
Statistics
Matches: 416, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
437 194 0.47
438 204 0.49
440 13 0.03
441 5 0.01
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (439 bp):
TTTAATAAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAA
AAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATA
AAATACAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCA
GGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAAT
AATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAG
AAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAA
ACATTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATAT
Found at i:123449094 original size:27 final size:27
Alignment explanation
Indices: 123449062--123449131 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
123449052 GACCCACACA
*
123449062 ACTGGTGCCGCCTCTGCCAGAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
*
123449089 ATTGGTGCCGCCTCTGCCAAAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
123449116 ACTGGTGCCGCCTCTG
1 ACTGGTGCCGCCTCTG
123449132 GCACCAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (27 bp):
ACTGGTGCCGCCTCTGCCAAAGGCAAC
Found at i:123453875 original size:12 final size:12
Alignment explanation
Indices: 123453858--123453882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123453848 CTGTGTGTTC
123453858 TTTATTTTATTT
1 TTTATTTTATTT
123453870 TTTATTTTATTT
1 TTTATTTTATTT
123453882 T
1 T
123453883 ATTTTCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:123458322 original size:12 final size:12
Alignment explanation
Indices: 123458305--123458329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123458295 CTGTGTGTTC
123458305 TTTATTTTATTT
1 TTTATTTTATTT
123458317 TTTATTTTATTT
1 TTTATTTTATTT
123458329 T
1 T
123458330 ATTTTCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:123460201 original size:22 final size:22
Alignment explanation
Indices: 123460154--123460202 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
123460144 TGAACAAGAC
* *
123460154 ATTAAATATAAATTTATAGAAA
1 ATTAAAAATAAATATATAGAAA
*
123460176 ATTAAAAATAAAGTATATA-AAT
1 ATTAAAAATAAA-TATATAGAAA
123460198 ATTAA
1 ATTAA
123460203 TATTTCTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATTAAAAATAAATATATAGAAA
Found at i:123460861 original size:165 final size:165
Alignment explanation
Indices: 123460552--123460867 Score: 370
Period size: 165 Copynumber: 1.9 Consensus size: 165
123460542 GAGAAACAAA
* * ** *
123460552 TTAAAAAAAAAATCAATTAATCCCTTCAAGTTAAAATTTTATTCCATTGAACCTTTATGGATAAT
1 TTAAAAAAAAAATCAATTAATCCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAAT
* * * * ** * * *
123460617 AATTTAATCAATTTGATCTTTTCATCAACATAAATTCTTATTGCTCGATTTAATCAGACTGTTTA
66 AATTTAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTA
*
123460682 TTCAGACTAAATGATAAAAAAAATTCTATTGAATT
131 TTCAGACAAAATGATAAAAAAAATTCTATTGAATT
** *
123460717 TTAAAAAAAAAATCAATTAGATCTTTTCAAATT-AATTTTTATTCAATTGAACCTTTATCCACAA
1 TTAAAAAAAAAATCAATTA-ATCCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAA
* * *
123460781 TAATTTAATTAATTTAATC-TCTCTATCAACAGAAATAT-TTACTAATCAATTTAAACGGTCTAT
65 TAATTTAATCAATTTAATCTTCTC-ATCAACAGAAAT-TCTTACTAATCAATTTAAACAGACTAT
*
123460844 TTATTTATG-CAAAATGATAAAAAA
128 TTATTCA-GACAAAATGATAAAAAA
123460868 GAAATAAGTT
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
164 3 0.02
165 110 0.88
166 12 0.10
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (165 bp):
TTAAAAAAAAAATCAATTAATCCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAAT
AATTTAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTA
TTCAGACAAAATGATAAAAAAAATTCTATTGAATT
Found at i:123461177 original size:19 final size:18
Alignment explanation
Indices: 123461131--123461169 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
123461121 AATACAACCC
*
123461131 AAAAT-AAAAAATAATAA
1 AAAATAAAAAAATAAGAA
123461148 AAAATAAAAAAATGAAGAA
1 AAAATAAAAAAAT-AAGAA
123461167 AAA
1 AAA
123461170 GAAAAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAATAAGAA
Found at i:123461979 original size:17 final size:17
Alignment explanation
Indices: 123461957--123461993 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
123461947 ATTTTATATA
123461957 TTTTATGTATTATTTAT
1 TTTTATGTATTATTTAT
* *
123461974 TTTTATTTTTTATTTAT
1 TTTTATGTATTATTTAT
123461991 TTT
1 TTT
123461994 ACGATCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATGTATTATTTAT
Found at i:123462338 original size:19 final size:19
Alignment explanation
Indices: 123462314--123462351 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
123462304 TTGAGATTGC
*
123462314 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
123462333 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
123462352 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:123467791 original size:2 final size:2
Alignment explanation
Indices: 123467786--123467822 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
123467776 TGTGCGCGTG
*
123467786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
123467823 TTATGTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123467827 original size:12 final size:12
Alignment explanation
Indices: 123467786--123467835 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
123467776 TGTGCGCGTG
*
123467786 TATATATATATA
1 TATATGTATATA
*
123467798 TATATATATATA
1 TATATGTATATA
123467810 TATATGTATATA
1 TATATGTATATA
* *
123467822 TTTATGTACATA
1 TATATGTATATA
123467834 TA
1 TA
123467836 GGATGTGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (12 bp):
TATATGTATATA
Found at i:123469629 original size:6 final size:6
Alignment explanation
Indices: 123469618--123469656 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
123469608 TTTGCTCTTT
* *
123469618 ACCCTC ACCCTC ACCCTC ACCC-C ACCCCC ACCCCC ACCC
1 ACCCTC ACCCTC ACCCTC ACCCTC ACCCTC ACCCTC ACCC
123469657 CACTTATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.18, C:0.74, G:0.00, T:0.08
Consensus pattern (6 bp):
ACCCTC
Found at i:123469649 original size:17 final size:17
Alignment explanation
Indices: 123469618--123469659 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
123469608 TTTGCTCTTT
* *
123469618 ACCCTCACCCTCACCCTC
1 ACCC-CACCCCCACCCCC
123469636 ACCCCACCCCCACCCCC
1 ACCCCACCCCCACCCCC
123469653 ACCCCAC
1 ACCCCAC
123469660 TTATTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.19, C:0.74, G:0.00, T:0.07
Consensus pattern (17 bp):
ACCCCACCCCCACCCCC
Found at i:123477589 original size:20 final size:20
Alignment explanation
Indices: 123477564--123477601 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
123477554 TTGTATTAAT
123477564 TTATCAAAATAATATAAATA
1 TTATCAAAATAATATAAATA
123477584 TTATCAAAATAATATAAA
1 TTATCAAAATAATATAAA
123477602 AAATTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTATCAAAATAATATAAATA
Found at i:123478961 original size:24 final size:23
Alignment explanation
Indices: 123478933--123478989 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
123478923 ACTCTCCAAT
** *
123478933 AAATACTAAAAAGAGTATCACAAG
1 AAATACTAAAAA-AAAAGCACAAG
*
123478957 AAATA-TAAAAAAAAAGCACAAT
1 AAATACTAAAAAAAAAGCACAAG
123478979 AAATACTAAAA
1 AAATACTAAAA
123478990 TTTGTCTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.43
23 11 0.39
24 5 0.18
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.16
Consensus pattern (23 bp):
AAATACTAAAAAAAAAGCACAAG
Found at i:123485998 original size:26 final size:26
Alignment explanation
Indices: 123485969--123486052 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
123485959 TGATACAAAT
*
123485969 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
123485995 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
123486021 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
123486047 TGATAA
1 TGATAA
123486053 GAATATCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:123490741 original size:53 final size:53
Alignment explanation
Indices: 123490600--123490750 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
123490590 ACAAGTGTGC
* **
123490600 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
123490653 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
123490706 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
123490751 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:123498245 original size:53 final size:53
Alignment explanation
Indices: 123498104--123498254 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
123498094 ACAAGTGTGC
* **
123498104 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
123498157 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
123498210 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
123498255 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:123502565 original size:131 final size:131
Alignment explanation
Indices: 123502336--123502700 Score: 409
Period size: 131 Copynumber: 2.8 Consensus size: 131
123502326 AAAGGAATAT
* *** * * * *
123502336 TCGATTA-TTTGAGCAAACGAG-AATCACAACCCAGCACGATAGGGCATGATTCC-CGAATTAAC
1 TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACC
* * * * * * *
123502398 AAA-AGCCAAATATTGCCTTCGTTT-TAAGTAATTTTTAGAAGACATGAACGAAATCTT-GAAGG
66 AAACA-TCAAATCTCGTCTTCGTTTGGAAG-AA-TTTTAAAAGACATGAACGAAAT-TTCGAAGC
123502460 GATAC
127 GATAC
* * *
123502465 TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCTGTGAATTACT
1 TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACC
* * * *
123502530 AAATATCGAATGTCGTCTTCGTTTGGAAGAATTTTAAAAGACATGAATGAAATTTCGAAGCGATA
66 AAACATCAAATCTCGTCTTCGTTTGGAAGAATTTTAAAAGACATGAACGAAATTTCGAAGCGATA
*
123502595 T
131 C
*
123502596 TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
1 TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACC
* * *
123502661 AAACATCAAATCTTGTCTTCGTTTTGAAGAATTTTTAAAG
66 AAACATCAAATCTCGTCTTCGTTTGGAAGAATTTTAAAAG
123502701 GAATACTTAT
Statistics
Matches: 199, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
129 7 0.04
130 15 0.08
131 148 0.74
132 25 0.13
133 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (131 bp):
TCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACC
AAACATCAAATCTCGTCTTCGTTTGGAAGAATTTTAAAAGACATGAACGAAATTTCGAAGCGATA
C
Found at i:123508728 original size:20 final size:19
Alignment explanation
Indices: 123508703--123508743 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
123508693 GATATTCTCC
123508703 TTTTTATTGATAAATTATTT
1 TTTTTATTGATAAATT-TTT
**
123508723 TTTTTATTTTTAAATTTTT
1 TTTTTATTGATAAATTTTT
123508742 TT
1 TT
123508744 ATCTCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATTGATAAATTTTT
Found at i:123509628 original size:16 final size:16
Alignment explanation
Indices: 123509607--123509637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123509597 GGGGATTTGG
123509607 GGGAAAAAATCGATTT
1 GGGAAAAAATCGATTT
*
123509623 GGGAAAAAATTGATT
1 GGGAAAAAATCGATT
123509638 GTGATTTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (16 bp):
GGGAAAAAATCGATTT
Found at i:123509925 original size:15 final size:16
Alignment explanation
Indices: 123509893--123509932 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
123509883 GTTTTTTATT
123509893 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
123509910 TTTTGATTTA-GGTTA
1 TTTTGATTTAGGGTTA
123509925 TTTTGATT
1 TTTTGATT
123509933 CTGATTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.57
16 6 0.26
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:123509969 original size:6 final size:6
Alignment explanation
Indices: 123509924--123510090 Score: 74
Period size: 6 Copynumber: 28.7 Consensus size: 6
123509914 GATTTAGGTT
* * * * * * **
123509924 ATTTTG ATTCTG ATTTCG ATTCTA ATTCTA ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * ** **
123509972 ATTTTG A-TTTG ATTTTG ATTTCG ATTTAG -GGTT- ATTTTG -GGTT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** * * * **
123510015 ATTTCG ATTTCA ATTTTG GTTTTG ACTCTG ATTTTG ATTTCA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** *
123510063 ATTTAA ATTTTG ATTTTG ATTTCG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
123510091 AGGGTTATTT
Statistics
Matches: 114, Mismatches: 42, Indels: 10
0.69 0.25 0.06
Matches are distributed among these distances:
5 11 0.10
6 103 0.90
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.57
Consensus pattern (6 bp):
ATTTTG
Found at i:123509974 original size:18 final size:17
Alignment explanation
Indices: 123509953--123509986 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
123509943 TTCTAATTCT
123509953 AATTTTGATTTTGATTTC
1 AATTTTGA-TTTGATTTC
123509971 AATTTTGATTTGATTT
1 AATTTTGATTTGATTT
123509987 TGATTTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.62
Consensus pattern (17 bp):
AATTTTGATTTGATTTC
Found at i:123510055 original size:30 final size:30
Alignment explanation
Indices: 123510015--123510090 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
123510005 ATTTTGGGTT
* * **
123510015 ATTTCGATTTCAATTTTGGTTTTGACTCTG
1 ATTTTGATTTCAATTTTGATTTAAACTCTG
* *
123510045 ATTTTGATTTCAATTTTGATTTAAATTTTG
1 ATTTTGATTTCAATTTTGATTTAAACTCTG
*
123510075 ATTTTGATTTCGATTT
1 ATTTTGATTTCAATTT
123510091 AGGGTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (30 bp):
ATTTTGATTTCAATTTTGATTTAAACTCTG
Found at i:123510300 original size:16 final size:16
Alignment explanation
Indices: 123510275--123510318 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
123510265 ACTGCTGTTT
*
123510275 ATTGTCTGTATCTGCC
1 ATTGTTTGTATCTGCC
*
123510291 ATTGTTTGTATCTGTC
1 ATTGTTTGTATCTGCC
*
123510307 ATTGTTTATATC
1 ATTGTTTGTATC
123510319 CTAGCTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTGTTTGTATCTGCC
Found at i:123517730 original size:97 final size:98
Alignment explanation
Indices: 123517628--123517836 Score: 255
Period size: 98 Copynumber: 2.1 Consensus size: 98
123517618 GGGAATATTT
* *
123517628 ATGCAGT-ATTTGTTGGTATATGTAACCG-TTTTTTTAAT-TAACATATTGTTGACTATTTTTTT
1 ATGCAGTGA-TTGTTGGTATATATAACCGTTTTTTTTAATAT-ACATACTGTTGACTA-TTTTTT
*
123517690 AATATGCATGCAGTGAGTA-TTTTTTAATAATATGC
63 AATATGCATGCAGTGAGTATTTTTTTAATAATATAC
* * * * * *
123517725 ATGCAGTGATTGTTGGTGTGTATGACTGTTTTTTTTAATATACGTGCTGTTGACTATTTTTTAAT
1 ATGCAGTGATTGTTGGTATATATAACCGTTTTTTTTAATATACATACTGTTGACTATTTTTTAAT
*
123517790 ATGCATGTAGTGAGTATTTTTTTAATAATATAC
66 ATGCATGCAGTGAGTATTTTTTTAATAATATAC
* *
123517823 ATGTAGTGACTGTT
1 ATGCAGTGATTGTT
123517837 TTTTAAATGT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
97 45 0.47
98 50 0.52
99 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (98 bp):
ATGCAGTGATTGTTGGTATATATAACCGTTTTTTTTAATATACATACTGTTGACTATTTTTTAAT
ATGCATGCAGTGAGTATTTTTTTAATAATATAC
Found at i:123518544 original size:21 final size:21
Alignment explanation
Indices: 123518518--123518569 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
123518508 CAAGTGGTTT
*
123518518 CCCCAACTCAGCAATAG-GCTA
1 CCCCAACTCAGCAAGAGAG-TA
*
123518539 CCCCAAATCAGCAAGAGAGTA
1 CCCCAACTCAGCAAGAGAGTA
123518560 CCCCAACTCA
1 CCCCAACTCA
123518570 ACAGGCTGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.38, G:0.13, T:0.12
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAGAGTA
Found at i:123519075 original size:23 final size:24
Alignment explanation
Indices: 123519038--123519085 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
123519028 TCTTCTAACA
*
123519038 TATGAGTATTAAGAAA-ACAAATG
1 TATGAGGATTAAGAAATACAAATG
*
123519061 TATGAGGATTGAGAAATACAAATG
1 TATGAGGATTAAGAAATACAAATG
123519085 T
1 T
123519086 TCTTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (24 bp):
TATGAGGATTAAGAAATACAAATG
Found at i:123522776 original size:2 final size:2
Alignment explanation
Indices: 123522769--123522793 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123522759 AAGAAATTAT
123522769 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
123522794 TTGTATGGGT
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:123528092 original size:22 final size:23
Alignment explanation
Indices: 123528050--123528092 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
123528040 GCTATTATTT
* *
123528050 TCATTGTTTTTGTTGTTGTTTTG
1 TCATTGTTTTTGGTGTCGTTTTG
123528073 TCATTG-TTTTGGTGTCGTTT
1 TCATTGTTTTTGGTGTCGTTT
123528093 CACTATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (23 bp):
TCATTGTTTTTGGTGTCGTTTTG
Found at i:123532119 original size:15 final size:16
Alignment explanation
Indices: 123532099--123532147 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
123532089 GGTAATAAGT
123532099 AAATAA-AATAAAATA
1 AAATAATAATAAAATA
**
123532114 AAATAATTGTAAAATA
1 AAATAATAATAAAATA
*
123532130 AAA-AATAAAAAAATA
1 AAATAATAATAAAATA
123532145 AAA
1 AAA
123532148 CATATTGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAATAATAAAATA
Found at i:123533906 original size:13 final size:13
Alignment explanation
Indices: 123533842--123533907 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
123533832 TTTAAATTAA
* *
123533842 ACTTTTTAGAAGT
1 ACTTTTTAAAAGC
* *
123533855 ACTTCTTAAAAGT
1 ACTTTTTAAAAGC
* *
123533868 A-TTTTTCCATAGC
1 ACTTTTT-AAAAGC
*
123533881 ACTTTTCAAAAGC
1 ACTTTTTAAAAGC
123533894 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
123533907 A
1 A
123533908 TTACCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:123536836 original size:12 final size:12
Alignment explanation
Indices: 123536819--123536844 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
123536809 AAAGGCGATC
123536819 CCAAGTCCAAGA
1 CCAAGTCCAAGA
123536831 CCAAGTCCAAGA
1 CCAAGTCCAAGA
123536843 CC
1 CC
123536845 GGCGGTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCAAGTCCAAGA
Found at i:123543709 original size:26 final size:27
Alignment explanation
Indices: 123543654--123543709 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
123543644 TGGGAAATGG
*
123543654 TTTACGAAAATATTTTCTATTTTCATT
1 TTTACGAAAATATTTTCTATTTTCAGT
123543681 TTTA-GAAAATAGTTTTC-A-TTTCTAGT
1 TTTACGAAAATA-TTTTCTATTTTC-AGT
123543707 TTT
1 TTT
123543710 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTACGAAAATATTTTCTATTTTCAGT
Found at i:123550823 original size:22 final size:24
Alignment explanation
Indices: 123550795--123550841 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
123550785 AATTTGAATT
123550795 TTTTTGAATATTTT-AATA-TATA
1 TTTTTGAATATTTTGAATATTATA
123550817 TTTTTGAATATTTTGAATATTATA
1 TTTTTGAATATTTTGAATATTATA
123550841 T
1 T
123550842 AGAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 4 0.17
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTGAATATTTTGAATATTATA
Found at i:123555150 original size:24 final size:23
Alignment explanation
Indices: 123555123--123555192 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
123555113 TTGTTAACAT
123555123 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * *
123555147 TGTTCATGACCATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
* *
123555170 TGTTCGTAAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCAATTAA
123555193 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:123560073 original size:2 final size:2
Alignment explanation
Indices: 123560066--123560100 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123560056 GAGCAGGAAA
123560066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123560101 ACGACATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123566568 original size:8 final size:8
Alignment explanation
Indices: 123566557--123566583 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
123566547 AGTAATATAG
123566557 ATTACATC
1 ATTACATC
123566565 ATTACATC
1 ATTACATC
123566573 ATTACATC
1 ATTACATC
123566581 ATT
1 ATT
123566584 GTCTCCACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTACATC
Found at i:123566662 original size:28 final size:28
Alignment explanation
Indices: 123566630--123566685 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
123566620 TCTCCTATCG
123566630 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
123566658 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
123566686 TTTCTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
ACAAGAAGACATGATCTAAAAATTAATT
Found at i:123576785 original size:22 final size:22
Alignment explanation
Indices: 123576757--123576798 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
123576747 AACATGAAGT
*
123576757 AAGAGAAGTAACCAGAGTTCTA
1 AAGAGAAGTAACCAAAGTTCTA
123576779 AAGAGAAGTAACCAAAGTTC
1 AAGAGAAGTAACCAAAGTTC
123576799 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGAGAAGTAACCAAAGTTCTA
Found at i:123579365 original size:5 final size:5
Alignment explanation
Indices: 123579355--123579379 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
123579345 AAAAATTGAT
123579355 CCAAA CCAAA CCAAA CCAAA CCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA
123579380 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:123591783 original size:24 final size:25
Alignment explanation
Indices: 123591745--123591794 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
123591735 AATTTTATTT
123591745 TTATTTTTTAAAATATT-TAAAATA
1 TTATTTTTTAAAATATTGTAAAATA
** *
123591769 TTATTTTTTTCAATATTGTTAAATA
1 TTATTTTTTAAAATATTGTAAAATA
123591794 T
1 T
123591795 ACATATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTTTTTAAAATATTGTAAAATA
Found at i:123591851 original size:22 final size:22
Alignment explanation
Indices: 123591826--123591869 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
123591816 TAATCTTATA
123591826 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
123591848 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
123591870 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:123591907 original size:13 final size:14
Alignment explanation
Indices: 123591889--123591930 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
123591879 TTTCAACTTT
123591889 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
123591902 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
123591917 ATTTTAAATAATAT
1 ATTTT-AATAATAT
123591931 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:123591915 original size:16 final size:16
Alignment explanation
Indices: 123591893--123591929 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
123591883 AACTTTATTT
123591893 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
123591910 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
123591925 TAATA
1 TAATA
123591930 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:123591979 original size:15 final size:15
Alignment explanation
Indices: 123591959--123592018 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
123591949 AATATTCGAT
123591959 ATAAATATTTTAATA
1 ATAAATATTTTAATA
*
123591974 ATAAATATTTATTATA
1 ATAAATATTT-TAATA
*
123591990 ATTATAAGTATATTAATA
1 A-TA-AA-TATTTTAATA
*
123592008 ATAAATGTTTT
1 ATAAATATTTT
123592019 GTAGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 14 0.39
16 7 0.19
17 4 0.11
18 7 0.19
19 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTAATA
Found at i:123600186 original size:23 final size:22
Alignment explanation
Indices: 123600143--123600196 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
123600133 AAAATTTTAG
*
123600143 TAAATAAAAAATTATTAAATAT
1 TAAATAAAAAATAATTAAATAT
* *
123600165 TAAATTAAAAATAATATCAATAT
1 TAAATAAAAAATAAT-TAAATAT
*
123600188 TTAA-AAAAA
1 TAAATAAAAA
123600197 TAAAAAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAAAAAATAATTAAATAT
Found at i:123601240 original size:2 final size:2
Alignment explanation
Indices: 123601235--123601281 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
123601225 AAAAAAAAAA
123601235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123601277 AT AT A
1 AT AT A
123601282 ACACTTGTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123601449 original size:21 final size:20
Alignment explanation
Indices: 123601419--123601457 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
123601409 TCGTAGAACC
*
123601419 TTTTAAATAATAACTAATTAA
1 TTTTAAATAA-AAATAATTAA
*
123601440 TTTTATATAAAAATAATT
1 TTTTAAATAAAAATAATT
123601458 TTATCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAAAATAATTAA
Found at i:123604431 original size:19 final size:19
Alignment explanation
Indices: 123604407--123604444 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
123604397 ACAATTTAAT
123604407 TATTTATCTAA-TAAATATA
1 TATTTA-CTAATTAAATATA
123604426 TATTTACTAATTAAATATA
1 TATTTACTAATTAAATATA
123604445 AGTATTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTACTAATTAAATATA
Found at i:123611340 original size:2 final size:2
Alignment explanation
Indices: 123611333--123611357 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123611323 CTTTCGTTTC
123611333 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
123611358 TCTCTTCTGG
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:123614339 original size:3 final size:3
Alignment explanation
Indices: 123614333--123614369 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
123614323 CCAAAGGAGG
123614333 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
123614370 AGGGATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:123614448 original size:6 final size:6
Alignment explanation
Indices: 123614437--123614462 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
123614427 ACTTAGTTCG
123614437 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
123614463 AGATACTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:123615656 original size:20 final size:22
Alignment explanation
Indices: 123615619--123615658 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
123615609 AATATATATC
*
123615619 AATAATATTTTATTTAAATAAA
1 AATAATATTTTATATAAATAAA
123615641 AATAAT-TTTTA-ATAAATA
1 AATAATATTTTATATAAATA
123615659 GAATTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATATTTTATATAAATAAA
Found at i:123619156 original size:13 final size:13
Alignment explanation
Indices: 123619140--123619185 Score: 92
Period size: 13 Copynumber: 3.5 Consensus size: 13
123619130 ACCACCTTTG
123619140 TTGGCCACCCACC
1 TTGGCCACCCACC
123619153 TTGGCCACCCACC
1 TTGGCCACCCACC
123619166 TTGGCCACCCACC
1 TTGGCCACCCACC
123619179 TTGGCCA
1 TTGGCCA
123619186 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.15, C:0.50, G:0.17, T:0.17
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:123622300 original size:6 final size:6
Alignment explanation
Indices: 123622289--123622325 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
123622279 GGAGTTATAT
*
123622289 GGCAAA GGCAAA GGCAAA GGAAAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GG-CAAA GGCAAA GGCAAA
123622326 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.54, C:0.14, G:0.32, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:123622316 original size:13 final size:13
Alignment explanation
Indices: 123622289--123622327 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
123622279 GGAGTTATAT
*
123622289 GGCAAAGG-CAAA
1 GGCAAAGGAAAAA
123622301 GGCAAAGGAAAAA
1 GGCAAAGGAAAAA
123622314 GGCAAAGGCAAAAA
1 GGCAAAGG-AAAAA
123622328 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 11 0.46
14 5 0.21
ACGTcount: A:0.56, C:0.13, G:0.31, T:0.00
Consensus pattern (13 bp):
GGCAAAGGAAAAA
Found at i:123622331 original size:19 final size:19
Alignment explanation
Indices: 123622292--123622332 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
123622282 GTTATATGGC
**
123622292 AAAGGCAAAGGCAAAGGAA
1 AAAGGCAAAGGCAAAAAAA
123622311 AAAGGCAAAGGCAAAAAAA
1 AAAGGCAAAGGCAAAAAAA
123622330 AAA
1 AAA
123622333 AAAACACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.10, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAGGCAAAGGCAAAAAAA
Found at i:123622343 original size:8 final size:8
Alignment explanation
Indices: 123622332--123622368 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
123622322 CAAAAAAAAA
123622332 AAAAACAC
1 AAAAACAC
123622340 AAAAACAC
1 AAAAACAC
*
123622348 GAAAACAC
1 AAAAACAC
*
123622356 AAAAAAAC
1 AAAAACAC
123622364 AAAAA
1 AAAAA
123622369 AATTCTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.78, C:0.19, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:123622369 original size:8 final size:8
Alignment explanation
Indices: 123622322--123622370 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
123622312 AAGGCAAAGG
123622322 CAAAAAAA
1 CAAAAAAA
123622330 -AAAAAAA
1 CAAAAAAA
123622337 CACAAAAACA
1 CA-AAAAA-A
* *
123622347 CGAAAACA
1 CAAAAAAA
123622355 CAAAAAAA
1 CAAAAAAA
123622363 CAAAAAAA
1 CAAAAAAA
123622371 TTCTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.21
8 16 0.47
9 9 0.26
10 2 0.06
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:123623614 original size:66 final size:66
Alignment explanation
Indices: 123623514--123623640 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
123623504 CATTCATATA
*
123623514 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
123623579 C
66 C
* *
123623580 ATAATACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
123623641 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:123623855 original size:42 final size:43
Alignment explanation
Indices: 123623704--123625259 Score: 794
Period size: 43 Copynumber: 35.7 Consensus size: 43
123623694 ATTCACAAGC
* * * * ** *
123623704 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * * *
123623749 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAA-GAT
* * * * * * *
123623793 CTTAAACCCCTAATCGGTAGGGTAACGGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * *
123623835 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * * **
123623878 CTTAACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * ** * *
123623921 CTTTAACCTCCTAAGCAGTAGGGTAACA-AGCCAAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * * *
123623965 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* ** * *
123624010 CTTAACCCCCTAAGCAGTAGGGAAACA-AGCCAAATTTACAAG-C
1 CTTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * *
123624053 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAA-GAT
* * * * *
123624097 CTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGA-AGAT
* * * *
123624139 CTTATCTCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * **
123624182 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * *
123624225 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCC-AA-ATTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGA-TGA-AGAT
* * * *
123624269 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * * **
123624314 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * ** * *
123624357 CTTTAACCCCCTAAGTAGTAGGGTAACA-AGCTGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * * * * *
123624401 CTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* *** * * **
123624446 CTTAACCCCCTAAACAGTAGGGAAACAGATAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * * *
123624489 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGATGA-AGAT
* * * * *
123624532 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* ** * *
123624577 CTTAACCCCCTAAGCAGTAGGGAAACA-AGCCAAATTTACAAG-C
1 CTTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * * *
123624620 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAA-GAT
* * * * *
123624664 CTTAAACCCCTAATC-GATAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAG-TAGGGAAACAGACCGAAGATGAAGAT
* * *
123624706 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * **
123624749 CTTAACCCCCTAGGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * *
123624792 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCC-AA-ATTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGA-TGA-AGAT
* * * *
123624836 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * * **
123624881 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* ** * *
123624924 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * * * *
123624968 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* *** * * **
123625013 CTTAACCCCCTAAACAGTAGGGAAACAGATAAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGATGAAGAT
* * * * *
123625057 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-CCGAAGATGA-AGAT
* * * * * *
123625101 CTTAA-ACCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * *** * *
123625145 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGA-AGAT
* * * * **
123625188 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGAT-AATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAA--GAT
* * *
123625232 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAG
123625260 GCTGGAAATT
Statistics
Matches: 1152, Mismatches: 289, Indels: 141
0.73 0.18 0.09
Matches are distributed among these distances:
42 122 0.11
43 449 0.39
44 298 0.26
45 280 0.24
46 3 0.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
Found at i:123623943 original size:129 final size:132
Alignment explanation
Indices: 123623693--123625258 Score: 482
Period size: 132 Copynumber: 12.0 Consensus size: 132
123623683 AGAATCAGTG
* * * * * *
123623693 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCCC
* * * *
123623758 CTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-GGA
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAG-
*
123623822 CCG
130 CCA
* * * * *
123623825 AA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACC
1 AATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTGACAGATCTTAACC
* * * * *
123623885 CCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGG-CTTTAACCTCCTAAGCAGTAGGGTAACA
64 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACC-CCTAAGCAGTAGGGTAACA
123623949 AGCCA
128 AGCCA
* *
123623954 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCCC
* * * * * *
123624019 CTAAGCAGTAGGGAAACA-AGCCAAATTTAC-AA--GCCTTAACCCCCTAAGCAGTAGGGAAAC-
66 CTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
* *
123624079 AGATCG
128 AG-CCA
* * * * * * * * *
123624085 AA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATT-ACAGATCTTATC
1 AATTTAC-AA--GCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAAC
* * * * * *
123624145 TCCCTAAGCAGTAGGGAAACAGATCAAAGATGAA-GATCTTAACCCCCTAAGCAGTAGGGAAACA
63 CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
* *
123624209 GATCGA
128 -AGCCA
* *** * * * * * * *
123624215 AGA-TGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAAACCTTAACCC
1 A-ATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCC
* * ** * * *
123624277 CCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACA-GATCTTAACCCCCTAAGCAGTAGGGAAAC
65 CCTAAGCAGTAGGGAAACAGATC-GAAGA-CGA-AGGGTCTTAAACCCCTAAGCAGTAGGGTAAC
*
123624340 -AGATCA
127 AAG-CCA
* * *** * * * * * * *
123624346 AAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTG-A-ATTTACA-AGCCTTAAAC
1 AA-TTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGA-TCTTAACC
* * * ** * * * *
123624408 CCCTAAGCAGTAGGGTAATAG-GCTGAAGATTTACA-GATCTTAACCCCCTAAACAGTAGGGAAA
64 CCCTAAGCAGTAGGGAAACAGATC-GAAGA-CGA-AGGGTCTTAAACCCCTAAGCAGTAGGGTAA
***
123624471 CAGATAAA
126 CA-AGCCA
* * *** * * * * * * * *
123624479 AAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAACCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCCC
* * ** * * *
123624541 CTAAGCAGTAGGGTAACAG-GCTGAAGATTTACA-GATCTTAACCCCCTAAGCAGTAGGGAAACA
66 CTAAGCAGTAGGGAAACAGATC-GAAGA-CGA-AGGGTCTTAAACCCCTAAGCAGTAGGGTAACA
123624604 AGCCA
128 AGCCA
* * * * *
123624609 AATTTACAAGCCTTAACCCCCTAAGTAGTAGGGAAACA-GATCGAAGA-CGA-AGGGTCTTAAAC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTGACA-GATCTTAACC
* * * ** * * * *
123624671 CCCTAATC-GATAGGGTAACAGACCGAA-TTGCA-GATCTT-ATCTCCCTAAGCAGTAGGGAAAC
64 CCCTAAGCAG-TAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC-CCCTAAGCAGTAGGGTAAC
* *
123624732 AGATCGA
127 A-AGCCA
* * * * * **
123624739 AGA--T-GAAGATCTTAACCCCCTAGGCAGTAGGGAAACA-GATCGAAGA-TGA-TGGGCTTTAA
1 A-ATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTGACAGATC-TTAA
* * * * ** *
123624798 CCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTAC-AA--ACCTTAACCCCCTAAGCAGTAGGGT
62 CCCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGGTCTTAAACCCCTAAGCAGTAGGGT
* *
123624859 AACAGGCTGA
124 AACAAGC-CA
* * * * **
123624869 AGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAAGA-TGA-TGGGCTTTAA
1 A-ATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTGACAGATC-TTAA
* * * *
123624930 CCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAC-AA--GCCTTAAACCCCTAAGCAGTAGGGT
62 CCCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGGTCTTAAACCCCTAAGCAGTAGGGT
* *
123624991 AACAGGCTGA
124 AACAAGC-CA
* * * * * * * **
123625001 AGATTTAC-AGATCTTAACCCCCTAAACAGTAGGGAAACA-GATAAAAAAATGA-TGGGCTTTAA
1 A-ATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTGACAGATC-TTAA
* * * **
123625063 CCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAC-AA--ACCTTAAA-CCCTAAGCAGTAGGGT
62 CCCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGGTCTTAAACCCCTAAGCAGTAGGGT
* *
123625123 AACAGGCTGA
124 AACAAGC-CA
** * * * *
123625133 AGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCC
1 A-ATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCC
* * * * * *
123625196 CTTAAGCAGTTGGGAAATAGATCGAAGA-TAATGGGCCTTAAACCCCTAAGTAGTAGGGTAACA
65 CCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGGTCTTAAACCCCTAAGCAGTAGGGTAACA
123625259 GGCTGGAAAT
Statistics
Matches: 1201, Mismatches: 164, Indels: 138
0.80 0.11 0.09
Matches are distributed among these distances:
127 1 0.00
128 21 0.02
129 246 0.20
130 159 0.13
131 204 0.17
132 503 0.42
133 65 0.05
134 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (132 bp):
AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTGACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAAGC
CA
Found at i:123624034 original size:132 final size:129
Alignment explanation
Indices: 123623698--123624647 Score: 598
Period size: 132 Copynumber: 7.3 Consensus size: 129
123623688 CAGTGAATTC
* * *
123623698 ACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-ATTTACAGATCTTAACCCCCTAAG
* * * * * * * * *
123623763 TAGTAGGGAAACAGATCGAAGACGA--AGGGTCTTAAACCCCTAATCGGTAGGGTAAC-GGACCG
65 CAGTAGGGAAACAGAGCGAAGA-TATCA-GCT-TTAACCCCCTAAGCAGTAGGGAAACAAG-CC-
*
123623825 AATTG
125 AAATG
* * * * * *
123623830 -C-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCTA
1 ACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-ATTTACAGATCTTAACCCCCTA
* * * ** * *
123623890 AGCAGTAAGGAAATAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTAACAAGCCAA
63 AGCAGTAGGGAAACAGAGCGAAGAT-ATCAGCTTTAACCCCCTAAGCAGTAGGGAAACAAGCCAA
*
123623955 ATTT
127 A-TG
123623959 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-ATTTACAGATCTTAACCCCCTAAG
* * * * *
123624024 CAGTAGGGAAACA-AGCCAA-ATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAAC-AGATCGA
65 CAGTAGGGAAACAGAGCGAAGATAT-C-AGCTTTAACCCCCTAAGCAGTAGGGAAACAAG-CCAA
123624086 A-G
127 ATG
* * * * * * * *
123624088 ACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-AA-TTACAGATCTTATCTCCCTA
1 AC-AA--GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAGATCTTAACCCCCTA
* * * * *
123624151 AGCAGTAGGGAAACAGATCAAAGATGA--AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCG
63 AGCAGTAGGGAAACAGAGCGAAGAT-ATCAGCT-TTAACCCCCTAAGCAGTAGGGAAACA-AGCC
123624214 AAGATG
125 AA-ATG
*** * * * * *
123624220 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAAATTTACAAACCTTAACCCCCTAAGC
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAGATCTTAACCCCCTAAGC
* * * * *
123624284 AGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAA
66 AGTAGGGAAACAGAGC-GAAGATAT-CAGCT-TTAACCCCCTAAGCAGTAGGGAAACA-AGCCAA
123624348 GATG
127 -ATG
*** * * * * *
123624352 ATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTG-AATTTACA-AGCCTTAAACCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAGA-TCTTAACCCCCTAAG
* * * * * ***
123624415 CAGTAGGGTAATAG-GCTGAAGATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATAAA
65 CAGTAGGGAAACAGAGC-GAAGATAT-CAGCT-TTAACCCCCTAAGCAGTAGGGAAACA-A-GCC
123624479 AAATG
125 AAATG
*** * * * * * *
123624484 ATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCCG-AATTTACAAACCTTAAACCCCTAAGC
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAGATCTTAACCCCCTAAGC
* * *
123624547 AGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAA
66 AGTAGGGAAACAGAGC-GAAGATAT-CAGCT-TTAACCCCCTAAGCAGTAGGGAAACAAGCCAAA
*
123624611 TTT
128 -TG
* *
123624614 ACAAGCCTTAACCCCCTAAGTAGTAGGGAAACAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
123624648 ATCGAAGACG
Statistics
Matches: 680, Mismatches: 100, Indels: 77
0.79 0.12 0.09
Matches are distributed among these distances:
128 4 0.01
129 154 0.23
130 96 0.14
131 193 0.28
132 230 0.34
133 3 0.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (129 bp):
ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAATTTACAGATCTTAACCCCCTAAGC
AGTAGGGAAACAGAGCGAAGATATCAGCTTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATG
Found at i:123624177 original size:261 final size:262
Alignment explanation
Indices: 123623693--123625259 Score: 764
Period size: 261 Copynumber: 6.0 Consensus size: 262
123623683 AGAATCAGTG
* *
123623693 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
1 AATTCACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
* * * * * * * * *
123623758 CTAAGTAGTAGGGAAAC-AGATCGAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACG
66 CTAAGCAGTAGGGAAACAAG-CCAAATTTAC-AA--GTCTTAACCCCCTAAGCAGTAGGGAAACA
* * * * * * * *
123623820 GACCGAA-TTGCA-GATCTT-ATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTA
127 GATCGAAGATGAAGGGTCTTAAAC-CCCTAATCAGTAGGGTAACAGACCGAAGATGAAGATCTTA
* * * * * *
123623882 ACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTAA
191 ACCCCCTAAGCAGTAAGGAAACAGATCAAAGATGAAGAGC-TTAACCCCCTAAGCAGTAGGGAAA
123623947 CA-AGCCA
255 CAGAGCCA
* *
123623954 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTCACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
*
123624019 CTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGATC
66 CTAAGCAGTAGGGAAACAAGCCAAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGAAACAGATC
* * * * *
123624084 GAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATTACAGATCTTATCTC
131 GAAGATGAAGGGTCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAGATGA-AGATCTTAACCC
* * *
123624147 CCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
195 CCTAAGCAGTAAGGAAACAGATCAAAGATGAAGAGCTTAACCCCCTAAGCAGTAGGGAAACAGAG
*
123624212 CGA
260 CCA
* *** * * * * *
123624215 AGA-TGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAAACCTTAACCC
1 A-ATTCACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCC
* * *
123624277 CCTAAGCAGTAGGGTAACAGGCTGAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACA
65 CCTAAGCAGTAGGGAAACAAGC-CAA-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGAAACA
* * * * ** * *
123624341 GATCAAAGATGATGGG-CTTTAACCCCCTAAGT-AGTAGGGTAACA-AGCTGAATTTACAAG-CC
127 GATCGAAGATGAAGGGTC-TTAAACCCCTAA-TCAGTAGGGTAACAGA-CCGAAGAT-GAAGATC
* * * * * * * * *
123624402 TTAAACCCCTAAGCAGTAGGGTAATAG-GCTGAAGATTTACAGATCTTAACCCCCTAAACAGTAG
188 TTAACCCCCTAAGCAGTAAGGAAACAGATC-AAAGA-TGA-AGAGCTTAACCCCCTAAGCAGTAG
***
123624466 GGAAACAGATAAA
250 GGAAACAGAGCCA
* * *** * * ** * * *
123624479 AAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGC-CGA-ATTTACAAACCTTAAACCC
1 AATTCACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
* * *
123624541 CTAAGCAGTAGGGTAACAGGCTGAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACA-
66 CTAAGCAGTAGGGAAACAAGC-CAA-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGAAACAG
* * * * * * * * * *
123624604 AGCCAA-ATTTACA-AGCCTTAACCCCCTAAGT-AGTAGGGAAACAGATCGAAGACGAAGGGTCT
128 ATCGAAGA-TGA-AGGGTCTTAAACCCCTAA-TCAGTAGGGTAACAGACCGAAGATGAA-GATCT
* * * * * * * * * * *
123624666 TAAACCCCTAATC-GATAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGA
189 TAACCCCCTAAGCAG-TAAGGAAACAGATCAAAGATGAAGAGCTTAACCCCCTAAGCAGTAGGGA
* *
123624729 AACAGATCGA
253 AACAGAGCCA
* * * * * * * * **
123624739 AGA-T--GAAGATCTTAACCCCCTAGGCAGTAGGGAAACA-GATCGAAGA-TGA-TGGGCTTTAA
1 A-ATTCACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAGATTTACAGATC-TTAA
* ** *
123624798 CCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACA
62 CCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGAAACA
* * * * * * * * * **
123624863 G-GCTGAAGATTTACA-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT
127 GATC-GAAGA-TGA-AGGGTCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAGATGAAGATC-
* * * * * * *
123624926 TTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACA-AGCCTTAAACCCCTAAGCAGTAG
188 TTAACCCCCTAAGCAGTAAGGAAACAGA-TCAAAGATGA-AGAG-CTTAACCCCCTAAGCAGTAG
* *
123624988 GGTAACAG-GCTGA
250 GGAAACAGAGC-CA
* * * * * * * * * **
123625001 AGATTTAC-AGATCTTAACCCCCTAAACAGTAGGGAAACA-GATAAAAAAATGA-TGGGCTTTAA
1 A-ATTCACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAGATTTACAGATC-TTAA
* * ** * *
123625063 CCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAA-ACCCTAAGCAGTAGGGTAACA
62 CCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGAAACA
* * ** * * *** * *
123625127 G-GCTGAAGATTTACA-AATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGATC
127 GATC-GAAGA-TGA-AGGGTCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAGATGA-AGATC
* ** * * * * *
123625189 TTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGAT-AATGGGCCTTAAACCCCTAAGTAGTAGG
188 TTAACCCCCTAAGCAGTAAGGAAACAGATCAAAGATGAA-GAG-CTTAACCCCCTAAGCAGTAGG
*
123625253 GTAACAG
251 GAAACAG
123625260 GCTGGAAATT
Statistics
Matches: 1086, Mismatches: 163, Indels: 111
0.80 0.12 0.08
Matches are distributed among these distances:
258 1 0.00
259 75 0.07
260 127 0.12
261 338 0.31
262 130 0.12
263 176 0.16
264 184 0.17
265 55 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (262 bp):
AATTCACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAAGCCAAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGAAACAGATC
GAAGATGAAGGGTCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAGATGAAGATCTTAACCCC
CTAAGCAGTAAGGAAACAGATCAAAGATGAAGAGCTTAACCCCCTAAGCAGTAGGGAAACAGAGC
CA
Found at i:123624288 original size:304 final size:306
Alignment explanation
Indices: 123623704--123624995 Score: 1193
Period size: 304 Copynumber: 4.2 Consensus size: 306
123623694 ATTCACAAGC
* * * * * * *
123623704 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTAC-AGATCTTAACCCCCTAAGTAGTA
1 CTTAACCCCCTAAGCAGTAGGGAAACAAGC-CAA-ATTTACAAG-CCTTAACCCCCTAAGCAGTA
* * * * *
123623768 GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACGGACCG-A-ATTGC
63 GGGTAACAGATCGAAGACGAA-GGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTAC
* * * *
123623831 AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATC-TTAACCCCCTAAGCAG
127 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAGCTTTAACCCCCTAAGCAG
* * **** * *
123623895 TAAGGAAATAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTAACAAGC-CAA-ATT
192 TAGGGAAACA-ATCGAA-ATGACAAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAGATT
* *
123623958 TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
255 TACAAACCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGAT
123624010 CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGG
* * *
123624075 AAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATTACAGA
66 TAACAGATCGAAGACGAA-GGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTACAGA
* * *
123624138 TCTTATCTCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATC-TTAACCCCCTAAGCAGTAG
130 TCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAGCTTTAACCCCCTAAGCAGTAG
**** *
123624202 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-ATTTAC
195 GGAAACA-ATCGAA-ATGACAAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAGATTTAC
*
123624265 AAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
258 AAACCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGAT
* * * *** * *
123624314 CTTAACCCCCTAAGCAGTAGGGAAAC-AGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAAG-CCAAA-TTTACAAGCCTTAACCCCCTAAGCAGTAG
* * * * * *
123624378 GGTAACA-AGCTGAATTTAC-AA-GCCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTT
64 GGTAACAGATC-GAA--GACGAAGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGA-TT
* * * * *
123624440 ACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATAAAAAATGATGGGCTTTAA-CCCCTAAGC
125 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAGCTTTAACCCCCTAAGC
* * * * * * *
123624504 AGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGAT
190 AGTAGGGAAACAA-TCGAAATGACAAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAGAT
* * * * *
123624569 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAGC-CAA-ATTTACA-AGC
254 TTACAAACCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGA-T
* * * * * * *
123624620 CTTAACCCCCTAAGTAGTAGGGAAAC-AGATCGAA--GACGAAGGGTCTTAAACCCCTAATC-GA
1 CTTAACCCCCTAAGCAGTAGGGAAACAAG-CCAAATTTAC-AA--GCCTTAACCCCCTAAGCAG-
* ** * * * * * *
123624681 TAGGGTAACAGACCGAA-TTGCAGATCTT-ATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATG
61 TAGGGTAACAGATCGAAGACGAAGGTCTTAAAC-CCCTAAGCAGTAGGGTAACAGACCGAAGATT
* * * *
123624744 A-AGATCTTAACCCCCTAGGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGC
125 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAGCTTTAACCCCCTAAGC
* * * * * *
123624808 AGTAGGGTAACAAGCCAAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGAT
190 AGTAGGGAAACAATCGAAA-TGACAAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAGAT
* * * * * * **
123624873 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAAGA-TGA-TGGG
254 TTACAAACCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTTACAGAT
* * *
123624924 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGG
1 C-TTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGG
123624989 GTAACAG
65 GTAACAG
123624996 GCTGAAGATT
Statistics
Matches: 852, Mismatches: 101, Indels: 68
0.83 0.10 0.07
Matches are distributed among these distances:
303 56 0.07
304 452 0.53
305 97 0.11
306 129 0.15
307 78 0.09
308 40 0.05
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (306 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGG
TAACAGATCGAAGACGAAGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTACAGAT
CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGAGCTTTAACCCCCTAAGCAGTAGG
GAAACAATCGAAATGACAAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAGATTTACAAA
CCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGAT
Found at i:123624782 original size:567 final size:566
Alignment explanation
Indices: 123623693--123625259 Score: 2492
Period size: 567 Copynumber: 2.8 Consensus size: 566
123623683 AGAATCAGTG
* * * * *
123623693 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCC
1 AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * * * *
123623758 CTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAA-TCGGTAGGGTAAC-G
66 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCT-TTAACCCCCTAAGT-AGTAGGGTAACAA
* * * * * *
123623820 GACCGAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATC
129 G-CCGAATTTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATC
* * * ** *
123623879 TTAACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGG
190 TTAACCCCCTAAACAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACC-CCTAAGCAGTAGGG
* * *
123623944 TAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
254 TAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
123624009 TCTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGG
319 TCTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGG
123624074 GAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTACAGAT
384 GAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATC-GTAGGGTAACAGACCGAATTACAGAT
123624139 CTTATCTCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATCTTAACCCCCTAAGCAGTAGGG
448 CTTATCTCCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATCTTAACCCCCTAAGCAGTAGGG
123624204 AAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
513 AAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
123624258 AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
123624323 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGC
* *
123624388 TGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATCTTAACC
131 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
123624453 CCCTAAACAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCTAAGCAGTAGGGTAACAAG
196 CCCTAAACAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCTAAGCAGTAGGGTAACAAG
123624518 CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAAC
261 CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAAC
*
123624583 CCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGTAGTAGGGAAACAG
326 CCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAG
*
123624648 ATCGAAGACGAAGGGTCTTAAACCCCTAATCGATAGGGTAACAGACCGAATTGCAGATCTTATCT
391 ATCGAAGACGAAGGGTCTTAAACCCCTAATCG-TAGGGTAACAGACCGAATTACAGATCTTATCT
* *
123624713 CCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAGGCAGTAGGGAAACAGA
455 CCCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
123624778 TCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
520 TCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
123624825 AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
123624890 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGC
123624955 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
131 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
123625020 CCCTAAACAGTAGGGAAACAGATAAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
196 CCCTAAACAGTAGGGAAACAGAT-AAAAAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACA
*
123625085 AGCCGAATTTACAAACCTTAAA-CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTA
259 AGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTA
* * * *** * * *
123625149 ACCCCCTAACCAGTAGGGTAACAGGTTGAATTTAC-AGATCTTAACCCCTTAAGCAGTTGGGAAA
324 ACCCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGAAA
* * * *
123625213 TAGATCGAAGA-TAATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAG
388 CAGATCGAAGACGAA-GGGTCTTAAACCCCTAA-TCGTAGGGTAACAG
123625260 GCTGGAAATT
Statistics
Matches: 936, Mismatches: 51, Indels: 27
0.92 0.05 0.03
Matches are distributed among these distances:
565 115 0.12
566 33 0.04
567 546 0.58
568 197 0.21
569 45 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (566 bp):
AATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGC
CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
CCCTAAACAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCTAAGCAGTAGGGTAACAAG
CCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAAC
CCCCTAAGCAGTAGGGAAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGAAACAG
ATCGAAGACGAAGGGTCTTAAACCCCTAATCGTAGGGTAACAGACCGAATTACAGATCTTATCTC
CCTAAGCAGTAGGGAAACAGATCAAAGATGAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
CGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
Found at i:123624898 original size:132 final size:131
Alignment explanation
Indices: 123623826--123625172 Score: 877
Period size: 132 Copynumber: 10.3 Consensus size: 131
123623816 AACGGACCGA
* * * * *
123623826 ATTG-CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATC-TTAACCCCCT
1 ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCTTTAACCCCCT
* * * * * * ** * * * *
123623889 AAGCAGTAAGGAAATAGATCGAAGA-TGATGGGCTTTAACCTCCTAAGCAGTAGGGTAACA-A-G
66 AAGCAGTAGGGTAACA-AGCCAA-ATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGATG
123623951 CCAA-
129 --AAG
* * * * * *
123623955 ATTTACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTACAGATCTTAACC
1 ATTGACAGA-TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GAGCT-TTAACC
*
123624017 CCCTAAGCAGTAGGGAAACAAGCCAAATTTACA-AGCCTTAACCCCCTAAGCAGTAGGGAAACAG
62 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGA-CCTTAACCCCCTAAGCAGTAGGGAAACAG
123624081 ATCGAAG
126 AT-GAAG
* * * * * * * * * * *
123624088 A-CGA-AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATTA-CAGATCTTATCTCC
1 ATTGACA-GATCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT-TTAACCCC
* * * * *
123624148 CTAAGCAGTAGGGAAAC-AGATCAAAGATGA-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
64 CTAAGCAGTAGGGTAACAAG-CCAAA-TTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGA
123624211 TCGAAG
127 T-GAAG
* ** * * * ** * *
123624217 A-TGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAACCTTAACCCC
1 ATTGACAGATC-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGATGAGCTTTAACCCC
* * *
123624278 CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
64 CTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGA
*
123624343 TCAAAG
127 T-GAAG
* ** * * * * ** * *
123624349 A-TGA-TGGGCTTTAACCCCCTAAGTAGTAGGGTAACA-AGCTGAA-TTTACAAGCCTTAAACCC
1 ATTGACAGATC-TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGATGAGCTTTAACCCC
* * * * *
123624410 CTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGA
64 CTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGA
* *
123624475 TAAAA
127 TGAAG
* * ** * * * ** * * *
123624480 AATGA-TGGGCTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAACCTTAAACCC
1 ATTGACAGATC-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGATGAGCTTTAACCCC
* * *
123624541 CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA-A
64 CTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGA
123624605 -GCCAA-
127 TG--AAG
* * * * * * * *
123624610 ATTTACA-AGCCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAG-GGTCTTAAACCC
1 ATTGACAGA-TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCT-TTAACCCC
* * * * * *
123624673 CTAATC-GATAGGGTAAC-AGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGA
64 CTAAGCAG-TAGGGTAACAAG-CCAAATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGA
123624735 TCGAAG
127 T-GAAG
* * *
123624741 A-TGA-AGATCTTAACCCCCTAGGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCT
1 ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCTTTAACCCCCT
* * *
123624804 AAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA
66 AAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACA-GATGA
123624869 AG
130 AG
* * * *
123624871 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCT
1 ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCTTTAACCCCCT
* * * *
123624936 AAGCAGTAGGGTAACAAGCCGAATTTACA-AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG
66 AAGCAGTAGGGTAACAAGCCAAATTTACAGA-CCTTAACCCCCTAAGCAGTAGGGAAACA-GATG
123625000 AAG
129 AAG
* * * ** * *
123625003 ATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATAAAAAAATGATGGGCTTTAACCCCC
1 ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGAT-CGAAGATGATGAGCTTTAACCCCC
* * * * *
123625068 TAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAA-ACCCTAAGCAGTAGGGTAACAGGCTG
65 TAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACA-GATG
123625132 AAG
129 AAG
* * *
123625135 ATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAG
1 ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAG
123625173 GTTGAATTTA
Statistics
Matches: 1039, Mismatches: 124, Indels: 107
0.82 0.10 0.08
Matches are distributed among these distances:
128 7 0.01
129 197 0.19
130 119 0.11
131 180 0.17
132 472 0.45
133 62 0.06
134 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (131 bp):
ATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGAGCTTTAACCCCCT
AAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGCAGTAGGGAAACAGATGAA
G
Found at i:123625243 original size:132 final size:129
Alignment explanation
Indices: 123624533--123625275 Score: 565
Period size: 132 Copynumber: 5.7 Consensus size: 129
123624523 TTTACAAACC
* * * * *
123624533 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAG-CCTTAAACCCCTAAGCAGTAG
* * * ** ** * * *
123624597 GGAAACAAGC-CAA-ATTTACAAGCCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAA
63 GGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGT-TAATA--AA
*
123624660 GGGTC-
125 -GATCT
* * * * *
123624665 TTAAACCCCTAATC-GATAGGGTAAC-AGACCGAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTA
1 TTAACCCCCTAAGCAG-TAGGGTAACAAG-CCGAATTTACAAG-CCTTAAAC-CCCTAAGCAGTA
* * * * ** * * * *
123624725 GGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCTAGGCAGTAGGGAAACAGATCGAA-GAT
62 GGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGT-TAATAAA
123624786 GATGGGCT
125 GAT---CT
* * *
123624794 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTTAACCCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * * * *
123624859 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAA-AGATGATGG
66 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGTTAATA-AAGAT--
123624923 GCT
128 -CT
123624926 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * * *
123624991 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAACAGTAGGGAAACAGATAAAAAAATGATGG
66 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGTTAATAAA-GAT--
123625056 GCT
128 -CT
*
123625059 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAA-CCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
* * *
123625123 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGAT
66 AACAGGCTGAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGTT-AA--TAAAGAT
123625188 C-
128 CT
* * * ** * *
123625189 TTAACCCCTTAAGCAGTTGGG-AA-ATAGATCGAAGATA-ATGGGCCTTAAACCCCTAAGTAGTA
1 TTAACCCCCTAAGCAGTAGGGTAACA-AG-CCGAATTTACA--AGCCTTAAACCCCTAAGCAGTA
123625251 GGGTAACAGGCTGGAA-A-TTACAAAT
62 GGGTAACAGGCT-GAAGATTTACAAAT
123625276 TTCTTTTTCC
Statistics
Matches: 530, Mismatches: 51, Indels: 61
0.83 0.08 0.10
Matches are distributed among these distances:
125 2 0.00
126 1 0.00
128 5 0.01
129 93 0.18
130 63 0.12
131 29 0.05
132 271 0.51
133 61 0.12
134 3 0.01
135 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (129 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
AACAGGCTGAAGATTTACAAATCTTAACCCCCTAAACAGTAGGGAAACAGGTTAATAAAGATCT
Found at i:123625394 original size:68 final size:68
Alignment explanation
Indices: 123625277--123625475 Score: 294
Period size: 68 Copynumber: 2.9 Consensus size: 68
123625267 ATTACAAATT
*
123625277 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
*
123625340 AGGA
66 A-AA
** *
123625344 TCTTTTCTTCCTGAAATGGTGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
123625409 AAA
66 AAA
* * * *
123625412 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
123625476 TGAAAGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
67 6 0.05
68 111 0.94
69 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:123625774 original size:132 final size:132
Alignment explanation
Indices: 123625631--123626151 Score: 889
Period size: 132 Copynumber: 3.9 Consensus size: 132
123625621 ACATCAGATT
123625631 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
** * * * * *
123625696 GAACGGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
123625761 CA
131 CA
*
123625763 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
*
123625828 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAAATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
123625893 CA
131 CA
123625895 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
*
123625960 GAACAAATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
123626025 CA
131 CA
* * *
123626027 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
** * *
123626092 GAACGGATCGAAGATAGCAAATCTGACATTCTTGTGCTTACAGTGAAGCAGATCAAAGAT
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
123626152 AGCGGATATC
Statistics
Matches: 371, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 371 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CA
Found at i:123626109 original size:44 final size:44
Alignment explanation
Indices: 123625528--123626110 Score: 509
Period size: 44 Copynumber: 13.2 Consensus size: 44
123625518 AGGAGCAGAC
* * * * *
123625528 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAAT
* ** *
123625573 CCAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * * * *
123625616 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * * * **
123625660 TGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* *
123625704 CGAAGATAGCAGATTTGGCATCCCTGTGCTTA-CGGTGAAGCAGAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-CAAAT
** *
123625749 CGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * *
123625792 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * * * *
123625836 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAAAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAAT
* ** *
123625881 CAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * * *
123625924 TGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * * * * * *
123625968 CGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAAT
* ** * *
123626013 CAAAGATTTCAGCA--TGACATCCCTGTGCTTATAGGGAACAAGT
1 CGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAAT
* * **
123626056 TGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
123626100 CGAAGATAGCA
1 CGAAGATAGCA
123626111 AATCTGACAT
Statistics
Matches: 433, Mismatches: 88, Indels: 35
0.78 0.16 0.06
Matches are distributed among these distances:
42 4 0.01
43 42 0.10
44 331 0.76
45 52 0.12
46 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
CGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAAT
Found at i:123626505 original size:13 final size:13
Alignment explanation
Indices: 123626489--123626513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123626479 ACCACCTTTG
123626489 TTGGCCACCCACC
1 TTGGCCACCCACC
123626502 TTGGCCACCCAC
1 TTGGCCACCCAC
123626514 TCCACCACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:123626540 original size:22 final size:22
Alignment explanation
Indices: 123626500--123626541 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
123626490 TGGCCACCCA
**
123626500 CCTTGGCCACCCACTCCACCAC
1 CCTTGGCCACCCAAACCACCAC
*
123626522 CCTTGGCCACCTAAACCACC
1 CCTTGGCCACCCAAACCACC
123626542 CCAACCACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.55, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCCAAACCACCAC
Found at i:123626667 original size:22 final size:21
Alignment explanation
Indices: 123626604--123626714 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 21
123626594 TTTAGCAGGG
*
123626604 GGTTTTTTGGTTTTTTGGAGGA
1 GGTTTTTTTGTTTTTTGGA-GA
123626626 GGATTGTTCTTTG--TTTTGGACGA
1 GG-TT-TT-TTTGTTTTTTGGA-GA
123626649 GGTTTTTTTGTTTTTTGGAG-
1 GGTTTTTTTGTTTTTTGGAGA
123626669 GTGTTTTTTTGTTTTTTTGGAAAGAA
1 G-GTTTTTTTG-TTTTTTGG--AG-A
*
123626695 GGTTGTTTTTGTTTCTTGGA
1 GGTT-TTTTTGTTTTTTGGA
123626715 AAGGCTAGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.07
21 12 0.16
22 19 0.26
23 14 0.19
24 4 0.05
25 13 0.18
26 7 0.09
ACGTcount: A:0.11, C:0.03, G:0.30, T:0.57
Consensus pattern (21 bp):
GGTTTTTTTGTTTTTTGGAGA
Found at i:123626683 original size:19 final size:20
Alignment explanation
Indices: 123626616--123626683 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
123626606 TTTTTTGGTT
*
123626616 TTTTGGAGGAGGATTGTTCTTTG
1 TTTTGGACGAGG-TT-TT-TTTG
123626639 TTTTGGACGAGGTTTTTTTG
1 TTTTGGACGAGGTTTTTTTG
123626659 TTTTTTGGA-G-GTGTTTTTTTG
1 --TTTTGGACGAG-GTTTTTTTG
123626680 TTTT
1 TTTT
123626684 TTTGGAAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
19 4 0.10
20 5 0.12
21 12 0.29
22 9 0.22
23 11 0.27
ACGTcount: A:0.09, C:0.03, G:0.29, T:0.59
Consensus pattern (20 bp):
TTTTGGACGAGGTTTTTTTG
Found at i:123627031 original size:3 final size:3
Alignment explanation
Indices: 123627017--123627102 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
123627007 GAGCTTTGTT
* *
123627017 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
123627061 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
123627103 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:123627055 original size:27 final size:27
Alignment explanation
Indices: 123627016--123627102 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
123627006 AGAGCTTTGT
123627016 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
123627043 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
123627068 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
123627094 -TTATATTAT
1 TTTATATTAT
123627103 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:123627077 original size:21 final size:18
Alignment explanation
Indices: 123627017--123627106 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
123627007 GAGCTTTGTT
*
123627017 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
123627037 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
123627055 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
123627076 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
123627094 TTA-TATTATATAT
1 TTATTATT-TATAT
123627107 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:123627465 original size:2 final size:2
Alignment explanation
Indices: 123627460--123627499 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
123627450 GTATTTCTAT
* *
123627460 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123627500 GTATTATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123627506 original size:12 final size:11
Alignment explanation
Indices: 123627457--123627506 Score: 59
Period size: 10 Copynumber: 4.5 Consensus size: 11
123627447 TGTGTATTTC
*
123627457 TATTATATACA
1 TATTATATATA
123627468 TA-TATATATA
1 TATTATATATA
123627478 TA-TATATATA
1 TATTATATATA
123627488 TATTTATATATA
1 TA-TTATATATA
123627500 GTATTAT
1 -TATTAT
123627507 TGTTTACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
10 19 0.54
11 2 0.06
12 12 0.34
13 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTATATATA
Found at i:123628367 original size:2 final size:2
Alignment explanation
Indices: 123628311--123628353 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
123628301 TGGTTACGAC
123628311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123628353 A
1 A
123628354 ATACACACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123628482 original size:25 final size:22
Alignment explanation
Indices: 123628454--123628558 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 22
123628444 TTAAATAAGA
123628454 ATAAGACAAGTTTAAAATAATATAT
1 ATAAGA-AA-TTTAAAATAAT-TAT
123628479 ATAAAGAAATTTAAAATAATTAT
1 AT-AAGAAATTTAAAATAATTAT
*** *
123628502 -TAAGAGGCTCAAAATAATAATATGT
1 ATAAGAAATTTAAAATAAT--TA--T
* *
123628527 AAAAGAAATTTAAAATAA-TGT
1 ATAAGAAATTTAAAATAATTAT
123628548 ATAAGAAATTT
1 ATAAGAAATTT
123628559 TGAAGTAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
21 24 0.38
22 1 0.02
23 6 0.10
24 11 0.17
25 5 0.08
26 16 0.25
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (22 bp):
ATAAGAAATTTAAAATAATTAT
Found at i:123628506 original size:21 final size:23
Alignment explanation
Indices: 123628454--123628737 Score: 76
Period size: 26 Copynumber: 11.2 Consensus size: 23
123628444 TTAAATAAGA
123628454 ATAAGACAAGTTTAAAATAATATAT
1 ATAAGA-AA-TTTAAAATAATATAT
123628479 ATAAAGAAATTTAAAATAAT-TAT
1 AT-AAGAAATTTAAAATAATATAT
*** *
123628502 -TAAGAGGCTCAAAATAATAATATGT
1 ATAAGAAATTTAAAATAAT-ATA--T
* *
123628527 AAAAGAAATTTAAAAT-A-ATGT
1 ATAAGAAATTTAAAATAATATAT
* * *
123628548 ATAAGAAATTTTGAAGTAAATAACAT
1 ATAAGAAA-TTTAAAAT-AAT-ATAT
* *
123628574 ATAAAATAATTTAAACCAAGTAATACAT
1 ATAAGA-AATTT-AA--AA-TAATATAT
*
123628602 ATAA-AACTTTAAAATAGATA-AT
1 ATAAGAAATTTAAAATA-ATATAT
*
123628624 ATACACAAAGATTTAAAATAAATCATAT
1 ATA-A-GAA-ATTTAAAAT-AAT-ATAT
* *
123628652 ATGAAAAAAATTAAAATGAATAATAT
1 AT-AAGAAATTTAAAAT-AAT-ATAT
* *
123628678 GTAAAAACAATTTTGAAAATATATAATAT
1 AT-AAGA-AA-TTT-AAAATA-AT-ATAT
*
123628707 ATAAGAAATATGTAAAATAATTTAAT
1 ATAAGAAAT-T-TAAAATAATAT-AT
123628733 ATAAG
1 ATAAG
123628738 TAATATATAT
Statistics
Matches: 198, Mismatches: 29, Indels: 63
0.68 0.10 0.22
Matches are distributed among these distances:
21 21 0.11
22 14 0.07
23 13 0.07
24 12 0.06
25 11 0.06
26 68 0.34
27 20 0.10
28 20 0.10
29 18 0.09
30 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (23 bp):
ATAAGAAATTTAAAATAATATAT
Found at i:123629032 original size:26 final size:27
Alignment explanation
Indices: 123628996--123629046 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
123628986 AATGTATATA
123628996 ATAACTTAAAT-ATAAACAATATGTAT
1 ATAACTTAAATAATAAACAATATGTAT
* *
123629022 ATAATTTAAATAATACACAATATGT
1 ATAACTTAAATAATAAACAATATGT
123629047 GGAAACACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (27 bp):
ATAACTTAAATAATAAACAATATGTAT
Found at i:123630805 original size:19 final size:17
Alignment explanation
Indices: 123630772--123630810 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
123630762 AATATCAATA
*
123630772 AAAATATTTTTAATATT
1 AAAATATTTTTAATAAT
123630789 AAAATATTTAATTAATAAT
1 AAAATATTT--TTAATAAT
123630808 AAA
1 AAA
123630811 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTTTTAATAAT
Found at i:123631724 original size:31 final size:34
Alignment explanation
Indices: 123631680--123631743 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 34
123631670 CAATGGTATA
*
123631680 TTATATATATAATATAAT-ATG-TATACTATTTT
1 TTATATATATAATATAATAATGTTATAATATTTT
*
123631712 TTATA-ATATAATATTATAATGTTATAATATTT
1 TTATATATATAATATAATAATGTTATAATATTT
123631744 ATTTTACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 11 0.39
32 8 0.29
33 9 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (34 bp):
TTATATATATAATATAATAATGTTATAATATTTT
Found at i:123642479 original size:37 final size:38
Alignment explanation
Indices: 123642415--123642487 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
123642405 ATTCATATAA
* *
123642415 TAATAATTATATTAAAAATATTATTAAATTATATTTAG
1 TAATAATTATATTAAAAATATGATTAAAATATATTTAG
* *
123642453 TAATAATTATGTT-AAAATATGGTTAAAATATATTT
1 TAATAATTATATTAAAAATATGATTAAAATATATTT
123642488 TAAAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (38 bp):
TAATAATTATATTAAAAATATGATTAAAATATATTTAG
Found at i:123642658 original size:44 final size:46
Alignment explanation
Indices: 123642607--123642694 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 46
123642597 CAGCTATTCT
* *
123642607 ATTCAACCAAACACA-AGAATT-CT-ATTACAGCTTTATTTCATTTC
1 ATTCAACCAAACA-ATAGAATTACTGATTACAACTTTATTCCATTTC
*
123642651 ATTCAACCAAACAATTGAATTACTGATTACAACTTTATTCCATT
1 ATTCAACCAAACAATAGAATTACTGATTACAACTTTATTCCATT
123642695 ACAGCTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.47
45 2 0.05
46 17 0.45
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.36
Consensus pattern (46 bp):
ATTCAACCAAACAATAGAATTACTGATTACAACTTTATTCCATTTC
Found at i:123642697 original size:16 final size:16
Alignment explanation
Indices: 123642676--123642729 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
123642666 TGAATTACTG
123642676 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
* **
123642692 ATTACAGCTTTATTTA
1 ATTACAACTTTATTCC
*
123642708 ATTACAACCTTATTCC
1 ATTACAACTTTATTCC
123642724 ATTACA
1 ATTACA
123642730 GTGAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:123647112 original size:30 final size:27
Alignment explanation
Indices: 123647040--123647141 Score: 77
Period size: 27 Copynumber: 3.7 Consensus size: 27
123647030 CTCCTGCTTT
123647040 TATTAAAAA-TTAGA-AAAAAATTATAAAA
1 TATTAAAAATTTA-ATAAAAAA-T-TAAAA
* * *
123647068 AATT-AAAA-TCAATAAAACATATAAATA
1 TATTAAAAATTTAATAAAAAAT-TAAA-A
* *
123647095 TTATTTAAATTTTAATAAAAAATTAAAA
1 -TATTAAAAATTTAATAAAAAATTAAAA
123647123 TATTAAAAATTTAATAAAA
1 TATTAAAAATTTAATAAAA
123647142 TTTAGAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.12
27 29 0.48
28 7 0.12
29 7 0.12
30 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (27 bp):
TATTAAAAATTTAATAAAAAATTAAAA
Found at i:123647191 original size:40 final size:39
Alignment explanation
Indices: 123647126--123647209 Score: 89
Period size: 40 Copynumber: 2.1 Consensus size: 39
123647116 ATTAAAATAT
* * *
123647126 TAAAAATTTAATAAAATTTAGAAAATAATAGAAAATTCG
1 TAAAAATATAATAAAAATTAGAAAATAATAGAAAAATCG
** *
123647165 TAAAAATATATATAAAAATT-GTAAAATTTTATAAAAATCG
1 TAAAAATATA-ATAAAAATTAG-AAAATAATAGAAAAATCG
123647205 TAAAA
1 TAAAA
123647210 GAATTTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (39 bp):
TAAAAATATAATAAAAATTAGAAAATAATAGAAAAATCG
Done.