Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 32 of 345
Found at i:9789693 original size:5 final size:5
Alignment explanation
Indices: 9789683--9789716 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
9789673 TCGGCCCGAA
*
9789683 CCCGG CCCGG CCCGG CCCGAA CCCGG CCCGG CCC
1 CCCGG CCCGG CCCGG CCCG-G CCCGG CCCGG CCC
9789717 ATGATCACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.06, C:0.62, G:0.32, T:0.00
Consensus pattern (5 bp):
CCCGG
Found at i:9789698 original size:21 final size:21
Alignment explanation
Indices: 9789674--9789716 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9789664 TACTTGGGCT
9789674 CGGCCCGAACCCGGCCCGGCC
1 CGGCCCGAACCCGGCCCGGCC
9789695 CGGCCCGAACCCGGCCCGGCC
1 CGGCCCGAACCCGGCCCGGCC
9789716 C
1 C
9789717 ATGATCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.58, G:0.33, T:0.00
Consensus pattern (21 bp):
CGGCCCGAACCCGGCCCGGCC
Found at i:9796057 original size:16 final size:16
Alignment explanation
Indices: 9796036--9796066 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9796026 TAACTATTGA
9796036 TATAGATATCAAGTAG
1 TATAGATATCAAGTAG
9796052 TATAGATATCAAGTA
1 TATAGATATCAAGTA
9796067 TCAGCTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (16 bp):
TATAGATATCAAGTAG
Found at i:9797567 original size:3 final size:3
Alignment explanation
Indices: 9797559--9797600 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
9797549 CATCTTCGCT
* * *
9797559 ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
9797601 CTCTGAGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:9797864 original size:27 final size:27
Alignment explanation
Indices: 9797826--9797879 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9797816 TGGAGAGGAG
9797826 AAAACTTAGTTAAATCACAATATCCAT
1 AAAACTTAGTTAAATCACAATATCCAT
9797853 AAAACTTAGTTAAATCACAATATCCAT
1 AAAACTTAGTTAAATCACAATATCCAT
9797880 TTGTATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAACTTAGTTAAATCACAATATCCAT
Found at i:9798106 original size:148 final size:148
Alignment explanation
Indices: 9797837--9798136 Score: 566
Period size: 148 Copynumber: 2.0 Consensus size: 148
9797827 AAACTTAGTT
*
9797837 AAATCACAATATCCATAAAACTTAGTTAAATCACAATATCCATTTGTATTCTTAATGAGATCTAT
1 AAATCACAATATCCATAAAACTTAGTTAAATCACAATATCCACTTGTATTCTTAATGAGATCTAT
9797902 CTAATCCTATTGAACATATGTCAGCAAGCTGTCACAGTATTCGGATATATGATGATAATGATTTG
66 CTAATCCTATTGAACATATGTCAGCAAGCTGTCACAGTATTCGGATATATGATGATAATGATTTG
9797967 TGCCTGTCCAATGTTTAG
131 TGCCTGTCCAATGTTTAG
9797985 AAATCACAATATCCATAAAACTTAGTTAAATCACAATATCCACTTGTATTCTTAATGAGATCTAT
1 AAATCACAATATCCATAAAACTTAGTTAAATCACAATATCCACTTGTATTCTTAATGAGATCTAT
*
9798050 CTAATCCTATTGAACATATGTCAGCAAGCT-TACACAGTATTCGGATATATGTTGATAATGATTT
66 CTAATCCTATTGAACATATGTCAGCAAGCTGT-CACAGTATTCGGATATATGATGATAATGATTT
9798114 GTGCCTGTCCAATGTTTAG
130 GTGCCTGTCCAATGTTTAG
9798133 AAAT
1 AAAT
9798137 AAATATATGA
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
147 1 0.01
148 148 0.99
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (148 bp):
AAATCACAATATCCATAAAACTTAGTTAAATCACAATATCCACTTGTATTCTTAATGAGATCTAT
CTAATCCTATTGAACATATGTCAGCAAGCTGTCACAGTATTCGGATATATGATGATAATGATTTG
TGCCTGTCCAATGTTTAG
Found at i:9809505 original size:25 final size:26
Alignment explanation
Indices: 9809455--9809505 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
9809445 TACGTTTATT
* *
9809455 TTAAAAAATATATATTTATTTTTATA
1 TTAAAAAATATATATTTATCTATATA
9809481 TTAAATAAATATA-A-TTATCTATATA
1 TTAAA-AAATATATATTTATCTATATA
9809506 GGTAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAAAAATATATATTTATCTATATA
Found at i:9810485 original size:18 final size:18
Alignment explanation
Indices: 9810462--9810497 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9810452 AAATCCATGC
9810462 TATTTACATAAATAAAAT
1 TATTTACATAAATAAAAT
*
9810480 TATTTACATCAATAAAAT
1 TATTTACATAAATAAAAT
9810498 ATTAACTTCA
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:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TATTTACATAAATAAAAT
Found at i:9810508 original size:17 final size:18
Alignment explanation
Indices: 9810462--9810508 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
9810452 AAATCCATGC
* *
9810462 TATTTACATAAATAAAAT
1 TATTAACATCAATAAAAT
*
9810480 TATTTACATCAATAAAA-
1 TATTAACATCAATAAAAT
*
9810497 TATTAACTTCAA
1 TATTAACATCAA
9810509 CATTAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAACATCAATAAAAT
Found at i:9823495 original size:2 final size:2
Alignment explanation
Indices: 9823488--9823546 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
9823478 AATCTTCCCA
9823488 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
9823530 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
9823547 GGAGTATACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9833962 original size:22 final size:24
Alignment explanation
Indices: 9833934--9834005 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
9833924 GCATACGCAT
*
9833934 ATATGAACCAATGA-T-ATAACCA
1 ATATGAACCAATGATTAACAACCA
*
9833956 ATATGAAGCAATATGATTAACAACCA
1 ATATGAA-CCA-ATGATTAACAACCA
*
9833982 ATATGAAACAATGTGATTAACAAC
1 ATATGAACCAA--TGATTAACAAC
9834006 AAAATACAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.17
23 2 0.05
24 5 0.12
25 2 0.05
26 24 0.60
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (24 bp):
ATATGAACCAATGATTAACAACCA
Found at i:9833983 original size:26 final size:26
Alignment explanation
Indices: 9833951--9834005 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
9833941 CCAATGATAT
*
9833951 AACCAATATGAAGCAATATGATTAAC
1 AACCAATATGAAACAATATGATTAAC
*
9833977 AACCAATATGAAACAATGTGATTAAC
1 AACCAATATGAAACAATATGATTAAC
9834003 AAC
1 AAC
9834006 AAAATACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (26 bp):
AACCAATATGAAACAATATGATTAAC
Found at i:9836393 original size:29 final size:30
Alignment explanation
Indices: 9836361--9836426 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
9836351 GTACAATTAG
**
9836361 AATTTAGTCTCAT-TAC-TTTTATTTTTAAA
1 AATTTAGTCTC-TCTACTTTTTAGATTTAAA
9836390 AATTTAGTCTCTCTACTTTTTAGATTTAAA
1 AATTTAGTCTCTCTACTTTTTAGATTTAAA
9836420 AATTTAG
1 AATTTAG
9836427 GTGTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 14 0.42
30 18 0.55
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.52
Consensus pattern (30 bp):
AATTTAGTCTCTCTACTTTTTAGATTTAAA
Found at i:9836837 original size:13 final size:13
Alignment explanation
Indices: 9836819--9836845 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9836809 TTAATTGGAA
9836819 AATTAATAAAATT
1 AATTAATAAAATT
9836832 AATTAATAAAATT
1 AATTAATAAAATT
9836845 A
1 A
9836846 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTAATAAAATT
Found at i:9847803 original size:53 final size:53
Alignment explanation
Indices: 9847711--9847881 Score: 168
Period size: 54 Copynumber: 3.2 Consensus size: 53
9847701 AGATTTCTCA
* * * * *
9847711 CCATAAGTCTTCCCCCATGCATTTGGAAGCATGGTTATTATTGTTAAACCTTGT
1 CCATAAGCCTTCCCCCATGCGTTTGG-AGTAAGGATATTATTGTTAAACCTTGT
* *
9847765 CCATAAG-CTTCCCCCATGTGTTTGAGAGTAAGGATATTATTGTTAAACCTCGT
1 CCATAAGCCTTCCCCCATGCGTTTG-GAGTAAGGATATTATTGTTAAACCTTGT
* * * * *
9847818 -CAGTAAGCCTACCCCTATGCGTTTGGGAGT-GGAGATATTATTATTAAACCTTGC
1 CCA-TAAGCCTTCCCCCATGCGTTT-GGAGTAAG-GATATTATTGTTAAACCTTGT
9847872 CCATAAGCCT
1 CCATAAGCCT
9847882 CCCTCGTGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 43 0.44
54 50 0.51
55 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (53 bp):
CCATAAGCCTTCCCCCATGCGTTTGGAGTAAGGATATTATTGTTAAACCTTGT
Found at i:9848097 original size:49 final size:49
Alignment explanation
Indices: 9848044--9848198 Score: 129
Period size: 49 Copynumber: 3.2 Consensus size: 49
9848034 CCCCCATACA
*
9848044 TTTGGGAGTAGGTCCAATTTATTGCTTTCCATAAACCTTCCCCTATGTG
1 TTTGGGAGTAGGTCCAATTTATTGCTTTCCATAAACCTTCCCCCATGTG
* * * * * *
9848093 TTTGGAAGCAAGGT-CACTTTATTACCTTCTATAAGA--TTCCCCCCATAG-G
1 TTTGGGAG-TAGGTCCAATTTATTGCTTTCCATAA-ACCTT-CCCCCAT-GTG
* * * * *
9848142 TCTAGGAGTAGGTCCAGTTTATTGCTTTCCATAAGCCTTCCCCCATATG
1 TTTGGGAGTAGGTCCAATTTATTGCTTTCCATAAACCTTCCCCCATGTG
*
9848191 TTAGGGAG
1 TTTGGGAG
9848199 CAATATCACT
Statistics
Matches: 78, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
48 6 0.08
49 64 0.82
50 8 0.10
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (49 bp):
TTTGGGAGTAGGTCCAATTTATTGCTTTCCATAAACCTTCCCCCATGTG
Found at i:9848111 original size:98 final size:98
Alignment explanation
Indices: 9848009--9848262 Score: 294
Period size: 98 Copynumber: 2.6 Consensus size: 98
9847999 AGAGCAAAGC
* * * *
9848009 CACTTTATCACCTTTTGTAAGCCTCCCCCCATACATTTGGGAGTAGGTCCAATTTATTGCTTTCC
1 CACTTTATTACCTTCTGTAAGCCTCCCCCCATACATCTAGGAGTAGGTCCAATTTATTGCTTTCC
* * * *
9848074 ATAAACCTTCCCCTATGTGTTTGGAAGCAAGGT
66 ATAAACCTTCCCCCATATGTTAGGAAGCAAGAT
* ** ** *
9848107 CACTTTATTACCTTCTATAAGATTCCCCCCATAGGTCTAGGAGTAGGTCCAGTTTATTGCTTTCC
1 CACTTTATTACCTTCTGTAAGCCTCCCCCCATACATCTAGGAGTAGGTCCAATTTATTGCTTTCC
* * *
9848172 ATAAGCCTTCCCCCATATGTTAGGGAGCAATAT
66 ATAAACCTTCCCCCATATGTTAGGAAGCAAGAT
** * * *
9848205 CACTTTATTACCTTCTGTAAGCCTCCTTCCATGCGTCTAGGAGTAAGGT-CATTTTATT
1 CACTTTATTACCTTCTGTAAGCCTCCCCCCATACATCTAGGAGT-AGGTCCAATTTATT
9848263 ACTTATTGCA
Statistics
Matches: 130, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
98 126 0.97
99 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (98 bp):
CACTTTATTACCTTCTGTAAGCCTCCCCCCATACATCTAGGAGTAGGTCCAATTTATTGCTTTCC
ATAAACCTTCCCCCATATGTTAGGAAGCAAGAT
Found at i:9852176 original size:21 final size:21
Alignment explanation
Indices: 9852151--9852192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9852141 TTTTTTTTTA
*
9852151 AAAAAATGAAAGTCATGAAAAG
1 AAAAAA-GAAAATCATGAAAAG
*
9852173 AAAAAAGAAAATCATTAAAA
1 AAAAAAGAAAATCATGAAAA
9852193 AGTGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAAAGAAAATCATGAAAAG
Found at i:9852193 original size:22 final size:22
Alignment explanation
Indices: 9852151--9852194 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9852141 TTTTTTTTTA
* *
9852151 AAAAAATGAAAGTCATGAAAAG
1 AAAAAATGAAAATCATAAAAAG
9852173 AAAAAA-GAAAATCATTAAAAAG
1 AAAAAATGAAAATCA-TAAAAAG
9852195 TGAAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAATGAAAATCATAAAAAG
Found at i:9854008 original size:29 final size:27
Alignment explanation
Indices: 9853952--9854008 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
9853942 AATTAAATTC
* * *
9853952 AATTAATTCAAAAAATATAGAGATTAA
1 AATTAATTAAAAAAATATAGAAAGTAA
9853979 AATTAATTAAAATAGAATATAGAAAGTAA
1 AATTAATTAAAA-A-AATATAGAAAGTAA
9854008 A
1 A
9854009 TTTAGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTAATTAAAAAAATATAGAAAGTAA
Found at i:9859376 original size:12 final size:12
Alignment explanation
Indices: 9859359--9859385 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9859349 AAGTGATGAA
9859359 TAAGTTTAATAT
1 TAAGTTTAATAT
9859371 TAAGTTTAATAT
1 TAAGTTTAATAT
9859383 TAA
1 TAA
9859386 AAGTGATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
TAAGTTTAATAT
Found at i:9859731 original size:58 final size:56
Alignment explanation
Indices: 9859623--9859746 Score: 185
Period size: 58 Copynumber: 2.2 Consensus size: 56
9859613 TATATGTGGT
* *
9859623 ATCGATATGTGACTTCGATATATATGTGTGAGTAAGTCTACGTTTAATACGTTGGC
1 ATCGATATGTGACTTCGATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGC
* * *
9859679 ATCGACATGTGACTTCGATGTATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGC
1 ATCGATATGTGACTTCGATATATATGTGT--GAGTAAGACCACGTTTAATACGTTGGC
9859737 ATCGATATGT
1 ATCGATATGT
9859747 AATGACCCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 27 0.45
58 33 0.55
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
ATCGATATGTGACTTCGATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGC
Found at i:9860297 original size:22 final size:21
Alignment explanation
Indices: 9860264--9860304 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9860254 ATATGAAATA
*
9860264 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
9860285 AAAGCAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
9860305 GAACAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:9860972 original size:3 final size:3
Alignment explanation
Indices: 9860964--9861005 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9860954 GAATGGTAAG
9860964 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9861006 GGTATTGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9862307 original size:31 final size:31
Alignment explanation
Indices: 9862272--9862341 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
9862262 CTTGTCACTT
* * *
9862272 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
9862303 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
9862334 GTAGCCGA
1 GTAGCCGA
9862342 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:9862363 original size:46 final size:46
Alignment explanation
Indices: 9862296--9862387 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
9862286 CACTATTCAC
* *
9862296 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
9862342 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
9862388 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:9862380 original size:31 final size:31
Alignment explanation
Indices: 9862342--9862400 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
9862332 AAGTAGCCGA
9862342 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
9862373 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
9862401 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:9862474 original size:50 final size:50
Alignment explanation
Indices: 9862380--9862657 Score: 421
Period size: 50 Copynumber: 5.5 Consensus size: 50
9862370 CATTGATCAG
* * * *
9862380 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
9862431 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
9862481 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
9862531 GTAACCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
9862581 GTAACCGAAAACTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCG-AAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
9862632 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
9862658 GTTGCCATGG
Statistics
Matches: 208, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
50 140 0.67
51 68 0.33
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:9864967 original size:18 final size:18
Alignment explanation
Indices: 9864946--9864983 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9864936 TACTGTTACA
*
9864946 GAATAAATGACTAATACT
1 GAATAAATGAATAATACT
*
9864964 GAATAAATGAATATTACT
1 GAATAAATGAATAATACT
9864982 GA
1 GA
9864984 TTAACCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (18 bp):
GAATAAATGAATAATACT
Found at i:9870892 original size:2 final size:2
Alignment explanation
Indices: 9870885--9870930 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
9870875 GCTTTAAATA
*
9870885 AT AT AT AT AA 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
9870927 AT AT
1 AT AT
9870931 GGTATTATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9871112 original size:11 final size:11
Alignment explanation
Indices: 9871096--9871133 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
9871086 AATCCATCCA
9871096 TTAAATTTTTT
1 TTAAATTTTTT
9871107 TTAAATTTTTTT
1 TTAAA-TTTTTT
9871119 TTAAATTTTTT
1 TTAAATTTTTT
9871130 TTAA
1 TTAA
9871134 TAATCTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTAAATTTTTT
Found at i:9871118 original size:12 final size:12
Alignment explanation
Indices: 9871096--9871131 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
9871086 AATCCATCCA
9871096 TTAAA-TTTTTT
1 TTAAATTTTTTT
9871107 TTAAATTTTTTT
1 TTAAATTTTTTT
9871119 TTAAATTTTTTT
1 TTAAATTTTTTT
9871131 T
1 T
9871132 AATAATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTAAATTTTTTT
Found at i:9872913 original size:20 final size:20
Alignment explanation
Indices: 9872888--9872925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9872878 GAAACTTACG
* *
9872888 AAACCAATTTCCATTTATCC
1 AAACCAAATACCATTTATCC
9872908 AAACCAAATACCATTTAT
1 AAACCAAATACCATTTAT
9872926 TTATCGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (20 bp):
AAACCAAATACCATTTATCC
Found at i:9876286 original size:11 final size:11
Alignment explanation
Indices: 9876270--9876294 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9876260 ATAAACTTAC
9876270 TAATAGTTTAG
1 TAATAGTTTAG
9876281 TAATAGTTTAG
1 TAATAGTTTAG
9876292 TAA
1 TAA
9876295 CCTTGGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (11 bp):
TAATAGTTTAG
Found at i:9884329 original size:93 final size:93
Alignment explanation
Indices: 9884217--9884388 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9884207 CGCCCATAAG
* *
9884217 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9884282 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
9884310 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9884375 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
9884389 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:9884385 original size:46 final size:46
Alignment explanation
Indices: 9884210--9884385 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9884200 TGTAACCCGC
* * *
9884210 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
9884256 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
9884306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
9884349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
9884386 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:9891910 original size:93 final size:93
Alignment explanation
Indices: 9891798--9891969 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9891788 CGCCCATAAG
* *
9891798 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9891863 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
9891891 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9891956 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
9891970 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:9891966 original size:46 final size:46
Alignment explanation
Indices: 9891791--9891966 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9891781 TGTAACCCGC
* * *
9891791 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
9891837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
9891887 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
9891930 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
9891967 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:9896538 original size:134 final size:133
Alignment explanation
Indices: 9896205--9896618 Score: 503
Period size: 132 Copynumber: 3.1 Consensus size: 133
9896195 TGTTGTCCTC
* ** * * *
9896205 GTTTTA-AATAATTTTTAGGAGACATGAATGAAATTTTGAAGGGATATTTGATCATTTTAAGC-A
1 GTTTTAGAAGAATTTTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAA
** * * * * **
9896268 ACAAAGAAACTGCAACCCAACACGTTAGGGCACAATTCTGCGAATTGCCAAATATCGCACATCAC
66 AC-GCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCGAATATCGT
9896333 CTTT
130 CTTT
* * * ** * *
9896337 ATTTTA-AAGAATTTTTAAAAGGCGTGGGTGAAATCTTGAAGGGATATTCGATTATTTTGAGTAA
1 GTTTTAGAAGAATTTTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAA
* * *
9896401 ACGCGAAATTGCAACCCAACACGTTAAGGCACTATTCCGCGAATTGCCAAATATCGAATTTCGTC
66 ACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCGAATATCGTC
*
9896466 TTC
131 TTT
* *
9896469 GTTTTAGAGAGAATTTTTAAAAGACATGAATGGAATTTTGAAGTGATATTCGATTATTTTGAGCA
1 GTTTTAGA-AGAATTTTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCA
* * * *
9896534 AACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGGATTGCCAAATATCAAATCTCGT
65 AACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCGAATATCGT
9896599 CTTT
130 CTTT
9896603 GTTTT-GAAGAATTTTT
1 GTTTTAGAAGAATTTTT
9896619 GAATGAATGA
Statistics
Matches: 239, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
132 117 0.49
133 6 0.03
134 116 0.49
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (133 bp):
GTTTTAGAAGAATTTTTAAAAGACATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAA
ACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAATATCGAATATCGTC
TTT
Found at i:9897615 original size:2 final size:2
Alignment explanation
Indices: 9897608--9897669 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
9897598 TATTATAGAG
*
9897608 TA TA TA TA CA 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 TA
9897650 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
9897670 GAGGAGTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9900627 original size:15 final size:16
Alignment explanation
Indices: 9900596--9900629 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9900586 AATGACAATC
*
9900596 AATAAATCGTGCAGTT
1 AATAAATCGTCCAGTT
9900612 AATAAATC-TCCAGTT
1 AATAAATCGTCCAGTT
9900627 AAT
1 AAT
9900630 GGTTCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (16 bp):
AATAAATCGTCCAGTT
Found at i:9906737 original size:14 final size:14
Alignment explanation
Indices: 9906720--9906755 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9906710 GAACCTTGTG
9906720 CCTTAAACCCCGAA
1 CCTTAAACCCCGAA
*
9906734 CCTTAAACCTCGAA
1 CCTTAAACCCCGAA
*
9906748 TCTTAAAC
1 CCTTAAAC
9906756 ATCAAGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.36, G:0.06, T:0.22
Consensus pattern (14 bp):
CCTTAAACCCCGAA
Found at i:9926406 original size:78 final size:78
Alignment explanation
Indices: 9926277--9926433 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
9926267 TATTAGTCAA
* * *
9926277 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
9926342 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
9926355 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
9926420 GACAGCAACACTC
66 GACAGCAACACTC
9926433 G
1 G
9926434 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:9935868 original size:13 final size:13
Alignment explanation
Indices: 9935850--9935874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9935840 AGTTAAATGA
9935850 TAAAATAAATAAG
1 TAAAATAAATAAG
9935863 TAAAATAAATAA
1 TAAAATAAATAA
9935875 AAGAATAAAA
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAG
Found at i:9939139 original size:3 final size:3
Alignment explanation
Indices: 9939131--9939191 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
9939121 TTTTCTTTAT
9939131 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9939179 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
9939192 ATATCTATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9939687 original size:15 final size:15
Alignment explanation
Indices: 9939667--9939700 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9939657 TACAATTGCC
9939667 CACATGT-ATTTATT
1 CACATGTAATTTATT
9939681 ACACATGTAATTTATT
1 -CACATGTAATTTATT
9939697 CACA
1 CACA
9939701 CTATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (15 bp):
CACATGTAATTTATT
Found at i:9939792 original size:10 final size:10
Alignment explanation
Indices: 9939735--9939794 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
9939725 TTATTTATAA
*
9939735 TAATATAATA
1 TAATATAATT
9939745 TAATATAATT
1 TAATATAATT
9939755 T-ATATAATT
1 TAATATAATT
*
9939764 TAAAATATGATCT
1 T--AATATAAT-T
9939777 AATAATATAATT
1 --TAATATAATT
9939789 TAATAT
1 TAATAT
9939795 TTAACATTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
9 9 0.22
10 16 0.39
12 7 0.17
13 8 0.20
15 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (10 bp):
TAATATAATT
Found at i:9941903 original size:4 final size:4
Alignment explanation
Indices: 9941896--9941938 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
9941886 GATAGATAGA
* * *
9941896 GAGT GAGT GAGT GAGT GAGT GAGT GGGT GAGT AAGG GAGT GAG
1 GAGT GAGT GAGT GAGT GAGT GAGT GAGT GAGT GAGT GAGT GAG
9941939 GGAGAGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.53, T:0.21
Consensus pattern (4 bp):
GAGT
Found at i:9949909 original size:2 final size:2
Alignment explanation
Indices: 9949902--9949931 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9949892 ACAAAATCTA
*
9949902 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9949932 TGTGACGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9950204 original size:40 final size:40
Alignment explanation
Indices: 9950159--9950236 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
9950149 GTAAACGCAC
*
9950159 CATCTATCTACAATGGTCCTTATAACTAAAAAGTTAAAAA
1 CATCTATCTACAATGGTCCTTACAACTAAAAAGTTAAAAA
9950199 CATCTATCTACAATGGTCCTTACAACTAAAAAGTTAAA
1 CATCTATCTACAATGGTCCTTACAACTAAAAAGTTAAA
9950237 CATGTCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (40 bp):
CATCTATCTACAATGGTCCTTACAACTAAAAAGTTAAAAA
Found at i:9954990 original size:30 final size:31
Alignment explanation
Indices: 9954966--9955024 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
9954956 GTAAATACTC
* * *
9954966 AAAATTTGAGGGGTTAA-AGTGTAAATATAA
1 AAAATTTGAAGGATCAATAGTGTAAATATAA
9954996 AAAATTTGAAGGATCAATAGTGTAAATAT
1 AAAATTTGAAGGATCAATAGTGTAAATAT
9955025 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGATCAATAGTGTAAATATAA
Found at i:9955276 original size:11 final size:11
Alignment explanation
Indices: 9955262--9955317 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
9955252 AGATAAATAT
9955262 TATTTTATTAA
1 TATTTTATTAA
*
9955273 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
9955286 TATTTTATTAT
1 TATTTTATTAA
*
9955297 TATTTTATTAT
1 TATTTTATTAA
9955308 TATTTTATTA
1 TATTTTATTA
9955318 GTATATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 27 0.68
12 6 0.15
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:9957508 original size:46 final size:46
Alignment explanation
Indices: 9957456--9957728 Score: 350
Period size: 46 Copynumber: 5.9 Consensus size: 46
9957446 GTGTACTCTT
*
9957456 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
9957502 TGATATGAAATGTGTAAGACCATGGTTGAAAGGTACCGTGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
9957548 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATCGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
9957594 TGATAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
** * * *
9957640 TGGCATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
9957686 TGACA-GAAAAGGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
9957729 TCATGTCAAA
Statistics
Matches: 205, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:9959642 original size:13 final size:13
Alignment explanation
Indices: 9959624--9959648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9959614 GCAGGGGAGA
9959624 AAAAGAAAGAAAC
1 AAAAGAAAGAAAC
9959637 AAAAGAAAGAAA
1 AAAAGAAAGAAA
9959649 GGGGGAAAAG
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAC
Found at i:9961513 original size:113 final size:113
Alignment explanation
Indices: 9961315--9961552 Score: 417
Period size: 113 Copynumber: 2.1 Consensus size: 113
9961305 GAATCTTGTG
9961315 AAACTAAACAAATAATTAACCTAATCACAAAAATTACTAACAAAATAATTTTAAAATAAATTAAA
1 AAACTAAACAAATAATTAACCTAATCACAAAAATTACTAACAAAATAATTTTAAAATAAATTAAA
9961380 AAATAATAAAAGATTACATTCATAACCTAACAAATCACAATAAACATT
66 AAATAATAAAAGATTACATTCATAACCTAACAAATCACAATAAACATT
* *
9961428 AAACTAAATAAATAATTAACCTAATCACAAAAATTACTAATAAAATAACTTTT-AAATAAATTAA
1 AAACTAAACAAATAATTAACCTAATCACAAAAATTACTAACAAAATAA-TTTTAAAATAAATTAA
*
9961492 AAATTAATAAAA-ATTTACATTCATAACCTAACAAATCACAATAAACATT
65 AAAATAATAAAAGA-TTACATTCATAACCTAACAAATCACAATAAACATT
9961541 AAACTAAACAAA
1 AAACTAAACAAA
9961553 CAAGTTATAA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
112 1 0.01
113 114 0.96
114 4 0.03
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.26
Consensus pattern (113 bp):
AAACTAAACAAATAATTAACCTAATCACAAAAATTACTAACAAAATAATTTTAAAATAAATTAAA
AAATAATAAAAGATTACATTCATAACCTAACAAATCACAATAAACATT
Found at i:9964430 original size:6 final size:6
Alignment explanation
Indices: 9964419--9964480 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
9964409 GTTATTTCGG
* * * *
9964419 TTTTAA TTTTAA TTTCGA TTTTGA TTTTGA TTTTGA TTTCGA TTTCT-A
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTT-TGA
9964467 TTTTGA TTTTGA TT
1 TTTTGA TTTTGA TT
9964481 ACAATTTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 48 0.98
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (6 bp):
TTTTGA
Found at i:9964439 original size:12 final size:12
Alignment explanation
Indices: 9964424--9964490 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
9964414 TTCGGTTTTA
*
9964424 ATTTTAATTTCG
1 ATTTTGATTTCG
*
9964436 ATTTTGATTTTG
1 ATTTTGATTTCG
9964448 ATTTTGATTTCG
1 ATTTTGATTTCG
*
9964460 ATTTCT-ATTTTG
1 ATTT-TGATTTCG
* *
9964472 ATTTTGATTACA
1 ATTTTGATTTCG
9964484 ATTTTGA
1 ATTTTGA
9964491 AGCACTCACT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 1 0.02
12 44 0.96
13 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:9964462 original size:18 final size:17
Alignment explanation
Indices: 9964410--9964480 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
9964400 TTAATTAGGG
* *
9964410 TTATTTCGGTTTTAATT
1 TTATTTCGATTTTGATT
9964427 TTAATTTCGATTTTGATT
1 TT-ATTTCGATTTTGATT
* *
9964445 TTGATTTTGATTTCGATT
1 TT-ATTTCGATTTTGATT
*
9964463 TCTATTTTGATTTTGATT
1 T-TATTTCGATTTTGATT
9964481 ACAATTTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 2 0.04
18 43 0.93
19 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.13, T:0.63
Consensus pattern (17 bp):
TTATTTCGATTTTGATT
Found at i:9964487 original size:18 final size:18
Alignment explanation
Indices: 9964419--9964490 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
9964409 GTTATTTCGG
* * *
9964419 TTTTAATTTTAATTTCGA
1 TTTTGATTTCAATTTTGA
**
9964437 TTTTGATTTTGATTTTGA
1 TTTTGATTTCAATTTTGA
* *
9964455 TTTCGATTTCTATTTTGA
1 TTTTGATTTCAATTTTGA
*
9964473 TTTTGATTACAATTTTGA
1 TTTTGATTTCAATTTTGA
9964491 AGCACTCACT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTTGATTTCAATTTTGA
Found at i:9964547 original size:18 final size:18
Alignment explanation
Indices: 9964507--9964548 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9964497 CACTGATTCT
*
9964507 GATTTAGATTTTGATTTC
1 GATTTAGATTTTGATCTC
* *
9964525 AATTTCGATTTTGATCTC
1 GATTTAGATTTTGATCTC
9964543 GATTTA
1 GATTTA
9964549 AAATTAGAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (18 bp):
GATTTAGATTTTGATCTC
Found at i:9964795 original size:64 final size:64
Alignment explanation
Indices: 9964694--9964897 Score: 318
Period size: 64 Copynumber: 3.2 Consensus size: 64
9964684 CATGATTTTT
* * * * **
9964694 ATTGTTTGTATTTGCCATTGTACGAATGCCATTATCAAACTGATGCTTATTATGTATATCTACC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
* *
9964758 ATTGTTTGTATCTGCCATTGTATAAATGCCATTATCAAACTTATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
* *
9964822 ATTGTTTGTATCTGCCATTGTATGAATGCCATGATCAAACTGATGTTTATTGTGTATATATGTC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
9964886 ATTGTTTGTATC
1 ATTGTTTGTATC
9964898 CAAGCTCCTA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
Found at i:9965225 original size:15 final size:15
Alignment explanation
Indices: 9965205--9965233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9965195 GAAGAAAACA
9965205 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
9965220 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
9965234 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:9966985 original size:40 final size:40
Alignment explanation
Indices: 9966884--9966991 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
9966874 GCTATTTTAG
* * *
9966884 TGAATGTTTTTTAATATGCATACACTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
9966924 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
**
9966964 TGCCTATTTTTTAATATGCATGCAGTGA
1 TGAATATTTTTTAATATGCATGCAGTGA
9966992 GTATTTTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.46
Consensus pattern (40 bp):
TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
Found at i:9967609 original size:21 final size:21
Alignment explanation
Indices: 9967554--9967609 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
9967544 AAGTTGGTGT
*
9967554 CCCAACTCAGCAACAGGCTAC
1 CCCAACTCAGCAAGAGGCTAC
* *
9967575 CCCAAATCAGCAAGAGGGTAC
1 CCCAACTCAGCAAGAGGCTAC
*
9967596 CCCAACTCAACAAG
1 CCCAACTCAGCAAG
9967610 CTGCCCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.38, G:0.16, T:0.09
Consensus pattern (21 bp):
CCCAACTCAGCAAGAGGCTAC
Found at i:9970551 original size:37 final size:36
Alignment explanation
Indices: 9970510--9970590 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
9970500 ATTGATATTG
*
9970510 TATATATTTTATAAGTTATTAT-TAATTAATTTTAAA
1 TATATATTTTATAAGTTATTGTAT-ATTAATTTTAAA
* * *
9970546 TTATATATTTTATTATTTATTGTATATTATTTTTAAA
1 -TATATATTTTATAAGTTATTGTATATTAATTTTAAA
9970583 TATATATT
1 TATATATT
9970591 AGTAATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 8 0.21
37 30 0.77
38 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (36 bp):
TATATATTTTATAAGTTATTGTATATTAATTTTAAA
Found at i:9973075 original size:19 final size:20
Alignment explanation
Indices: 9973039--9973076 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9973029 TTAGATTGTT
* *
9973039 AAAATAATAATTATATAAAA
1 AAAATAATAATCAGATAAAA
9973059 AAAATAA-AATCAGATAAA
1 AAAATAATAATCAGATAAA
9973077 GTACAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAATAATAATCAGATAAAA
Found at i:9973748 original size:18 final size:17
Alignment explanation
Indices: 9973693--9973749 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
9973683 AAAAAATTGT
* *
9973693 AAATCATAATAATATAA
1 AAATAATAAAAATATAA
* *
9973710 AAATAGAGAAAAATAGAAA
1 AAATA-ATAAAAATA-TAA
*
9973729 AAATAATAAAAATATTA
1 AAATAATAAAAATATAA
9973746 AAAT
1 AAAT
9973750 TAAAATATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 9 0.29
18 15 0.48
19 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (17 bp):
AAATAATAAAAATATAA
Found at i:9974016 original size:22 final size:21
Alignment explanation
Indices: 9973989--9974056 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
9973979 AATTGATATT
*
9973989 AACTTATAAAAATTATAATAAA
1 AACTTATAAATATTATAA-AAA
*
9974011 AACTTATGAATATTATAAAAA
1 AACTTATAAATATTATAAAAA
*
9974032 AATCTAATAAATTATTATAAAAA
1 AA-CTTATAAA-TATTATAAAAA
9974055 AA
1 AA
9974057 TTAGAACATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.12
22 22 0.55
23 13 0.32
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (21 bp):
AACTTATAAATATTATAAAAA
Found at i:9974045 original size:20 final size:21
Alignment explanation
Indices: 9973998--9974054 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
9973988 TAACTTATAA
*
9973998 AAATTATAATAAAAACTTATG
1 AAATTATAATAAAAACTAATG
9974019 AATATTATAA-AAAAATCTAAT-
1 AA-ATTATAATAAAAA-CTAATG
*
9974040 AAATTATTATAAAAA
1 AAATTATAATAAAAA
9974055 AATTAGAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 6 0.19
21 14 0.45
22 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATTATAATAAAAACTAATG
Found at i:9990760 original size:3 final size:3
Alignment explanation
Indices: 9990705--9990744 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9990695 TTCAAAGAAA
9990705 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9990745 TATTCTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9991016 original size:23 final size:23
Alignment explanation
Indices: 9990971--9991018 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9990961 TCGAATTTAA
* *
9990971 AATTCGAATTATTTATTCAAATT
1 AATTCGAATAATTAATTCAAATT
9990994 AATTCGAATAATTAAATTC-AATT
1 AATTCGAATAATT-AATTCAAATT
9991017 AA
1 AA
9991019 CTTAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (23 bp):
AATTCGAATAATTAATTCAAATT
Found at i:9991368 original size:6 final size:6
Alignment explanation
Indices: 9991357--9991405 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
9991347 GAAATTCTTT
*
9991357 TTAATA TTAATA -TAATTA TT-TTAA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAA-TA TTAAT-A TTAATA TTAATA TTAATA TTAATA
9991405 T
1 T
9991406 AAAATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 31 0.84
7 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAATA
Found at i:9995628 original size:20 final size:18
Alignment explanation
Indices: 9995594--9995630 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
9995584 GCAACTCATA
9995594 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
9995612 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
9995631 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:9998492 original size:46 final size:43
Alignment explanation
Indices: 9998418--9998629 Score: 165
Period size: 46 Copynumber: 4.7 Consensus size: 43
9998408 GTCGATGCCG
* * *
9998418 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGTGCTGACGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTGCCGACGCA
*
9998464 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAACCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGT-GCCGACGCA
* * * * *
9998508 TGTCCTAGACATGTCTGACACTGGCTAACATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC--ACATCTCG-TGCCGACGCA
* * * *
9998554 TGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAG--CACATCTC-GTGCCGACG-CA
* *
9998601 TGTCCCATACATGGTCTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTAGCACA
9998630 CAAATCTCAT
Statistics
Matches: 135, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 3 0.02
44 29 0.21
46 77 0.57
47 14 0.10
48 12 0.09
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTGCCGACGCA
Found at i:10004383 original size:20 final size:18
Alignment explanation
Indices: 10004349--10004385 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
10004339 GCAACTCATA
10004349 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
10004367 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
10004386 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:10005228 original size:24 final size:25
Alignment explanation
Indices: 10005186--10005236 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
10005176 AGGAGTGCTT
10005186 ATAAAAGCACATAAACAGGAAGCTC
1 ATAAAAGCACATAAACAGGAAGCTC
*
10005211 ATAAAAGC-CATAATCAGGAAGCTC
1 ATAAAAGCACATAAACAGGAAGCTC
10005235 AT
1 AT
10005237 GCGAGTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.49, C:0.20, G:0.16, T:0.16
Consensus pattern (25 bp):
ATAAAAGCACATAAACAGGAAGCTC
Found at i:10007063 original size:30 final size:31
Alignment explanation
Indices: 10007027--10007096 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
10007017 CGTTAATTGG
** * *
10007027 ATAGTTGAGTGATTAAAATATAACAAAGT-A
1 ATAGTTGAGTGACCAAAATAGAACAAACTGA
*
10007057 ATAGTTGGGTGACCAAAATAGAACAAACTGA
1 ATAGTTGAGTGACCAAAATAGAACAAACTGA
10007088 ATAGTTGAG
1 ATAGTTGAG
10007097 CGACTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
ATAGTTGAGTGACCAAAATAGAACAAACTGA
Found at i:10007209 original size:205 final size:208
Alignment explanation
Indices: 10006847--10007255 Score: 558
Period size: 205 Copynumber: 2.0 Consensus size: 208
10006837 GAAAAAAAAT
* * ** * *
10006847 TAATAGTTGGGTAACTAATATAGAATGAACCGGATAATTGAGTGACTATTTTTGTACTTTACTCT
1 TAATAGTTGGGTAACCAAAATAGAACAAACCGAATAATTGAGCGACTATTTTTGTACTTTACTCT
* * *
10006912 TAAATTAATTTTAATATTATAGTAACAAATCAGTTAAAACTAGAAATTTAAAATTCTAGGCATTG
66 TAAATTAA-TTTAATATAATAATAACAAATCAGTTAAAACTAGAAATTTAAAATTCTAGGCAATG
* * * * *
10006977 GGTTAAATAAGTACCATTTGACAATTTTATATCATGTTATCGTTAATTGGATAGTTGAGTGATTA
130 GGATAAACAAGTACCATTTGACAATTTTATATCATGTTATCATTAACTGGATAGTTGAGTGACTA
10007042 AAA-TATAACAAAG
195 AAATTATAACAAAG
* * *
10007055 TAATAGTTGGGTGACCAAAATAGAACAAACTGAATAGTTGAGCGACTATTTTT-TACCTTTACTC
1 TAATAGTTGGGTAACCAAAATAGAACAAACCGAATAATTGAGCGACTATTTTTGTA-CTTTACTC
* * *
10007119 TTAAATTAA-TTAAT-TAATAATAACAAATCTA-TTGAAACTATAAATTTAAAATTTTAGGCAAT
65 TTAAATTAATTTAATATAATAATAACAAATC-AGTTAAAACTAGAAATTTAAAATTCTAGGCAAT
* *
10007181 GGGATAAACAAGTACCATTTGACAATTTTATATTATTTTATCATTAACTGGATAGTTGAGTGACT
129 GGGATAAACAAGTACCATTTGACAATTTTATATCATGTTATCATTAACTGGATAGTTGAGTGACT
10007246 AAAATTATAA
194 AAAATTATAA
10007256 AATATTTAAT
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
205 102 0.58
206 11 0.06
207 2 0.01
208 61 0.35
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (208 bp):
TAATAGTTGGGTAACCAAAATAGAACAAACCGAATAATTGAGCGACTATTTTTGTACTTTACTCT
TAAATTAATTTAATATAATAATAACAAATCAGTTAAAACTAGAAATTTAAAATTCTAGGCAATGG
GATAAACAAGTACCATTTGACAATTTTATATCATGTTATCATTAACTGGATAGTTGAGTGACTAA
AATTATAACAAAG
Found at i:10007290 original size:25 final size:27
Alignment explanation
Indices: 10007237--10007290 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
10007227 ACTGGATAGT
10007237 TGAGTGACTAAAATTATAAAATATTTAA
1 TGAGTGACTAAAATTAT-AAATATTTAA
*
10007265 TGAGTGATTAAAATT-T-AATATTTAA
1 TGAGTGACTAAAATTATAAATATTTAA
10007290 T
1 T
10007291 ATTTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
27 1 0.04
28 14 0.56
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (27 bp):
TGAGTGACTAAAATTATAAATATTTAA
Found at i:10007862 original size:11 final size:11
Alignment explanation
Indices: 10007845--10007874 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10007835 GCCCATATTA
10007845 AATTTTTATAT
1 AATTTTTATAT
*
10007856 TATTTTTATAT
1 AATTTTTATAT
10007867 AATTTTTA
1 AATTTTTA
10007875 AATATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:10008531 original size:22 final size:22
Alignment explanation
Indices: 10008506--10008552 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10008496 TGAGAAAATA
*
10008506 TAAATATAAAGTATAGAAAGTT
1 TAAATATAAAGTATAAAAAGTT
* *
10008528 TAAATATAAATTATAAAAATTT
1 TAAATATAAAGTATAAAAAGTT
10008550 TAA
1 TAA
10008553 CAAGTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATATAAAGTATAAAAAGTT
Found at i:10010784 original size:24 final size:24
Alignment explanation
Indices: 10010737--10010784 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10010727 TCATTCTATG
* * *
10010737 GCAAATGATGAATTAACGGTAAAT
1 GCAAAGGATGAATTAACAGCAAAT
*
10010761 GCAAAGGATGAATTGACAGCAAAT
1 GCAAAGGATGAATTAACAGCAAAT
10010785 TACCCAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (24 bp):
GCAAAGGATGAATTAACAGCAAAT
Found at i:10014259 original size:54 final size:51
Alignment explanation
Indices: 10014200--10014318 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
10014190 GGGTAACAGT
*
10014200 AACAGTAACAGTAGCAGT-AGCGGTACACAAAGTAACTCATCGGAACAAATCTGA
1 AACAGTAACAGTAGCAGTCA--GGT--ACAAAGTAACTCATCGGAACAAATCCGA
* ** * *
10014254 AACAGTAACAGTAACAGTCAGGTACGGAGTACCTCTTCGGAACAAATCCGA
1 AACAGTAACAGTAGCAGTCAGGTACAAAGTAACTCATCGGAACAAATCCGA
*
10014305 AACAGTCACAGTAG
1 AACAGTAACAGTAG
10014319 TCGACACATA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 35 0.62
53 3 0.05
54 17 0.30
55 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (51 bp):
AACAGTAACAGTAGCAGTCAGGTACAAAGTAACTCATCGGAACAAATCCGA
Found at i:10015323 original size:19 final size:19
Alignment explanation
Indices: 10015281--10015321 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10015271 AAACCTTCAA
10015281 TTTTC-CCTTTCTTCTTTC
1 TTTTCTCCTTTCTTCTTTC
10015299 TTTTCTCCTTTCTTCCTTTC
1 TTTTCTCCTTTCTT-CTTTC
10015319 TTT
1 TTT
10015322 CTTTCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCTCCTTTCTTCTTTC
Found at i:10016292 original size:18 final size:19
Alignment explanation
Indices: 10016259--10016295 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10016249 TGTTATTTTT
10016259 AAAACTCAAAATATTTATA
1 AAAACTCAAAATATTTATA
*
10016278 AAAACTCTAAA-ATTTATA
1 AAAACTCAAAATATTTATA
10016296 TTCCCATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAACTCAAAATATTTATA
Found at i:10019457 original size:108 final size:104
Alignment explanation
Indices: 10019313--10019526 Score: 304
Period size: 108 Copynumber: 2.0 Consensus size: 104
10019303 TATAATAGAT
* ** * *
10019313 TTTATATATCTAATTTGTAGTTGACTTATGTTAGAATGTCCAATAACAAACCAACTTTATAACTT
1 TTTATAAATCTAATTTGTAGTTGACTTACATTAGAATGTACAATAACAAACAAACTTTATAA---
*
10019378 TTTTTTTTTTTTTAATATTTCGATAACTATTATTTCATGCAAA
63 -TTTTTTTTTTGTAATATTTCGATAACTATTATTTCATGCAAA
10019421 TTTATAAATCTAATTTGCT-GTTGACTTACATTAGAATGTACAATAACAAACAAACTTTATAATT
1 TTTATAAATCTAATTTG-TAGTTGACTTACATTAGAATGTACAATAACAAACAAACTTTATAATT
* *
10019485 TTTTTTTTGTAATATTTCTATTACTATTATTTCATGCAAA
65 TTTTTTTTGTAATATTTCGATAACTATTATTTCATGCAAA
10019525 TT
1 TT
10019527 AGTTAAAAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
104 41 0.42
108 55 0.57
109 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.48
Consensus pattern (104 bp):
TTTATAAATCTAATTTGTAGTTGACTTACATTAGAATGTACAATAACAAACAAACTTTATAATTT
TTTTTTTGTAATATTTCGATAACTATTATTTCATGCAAA
Found at i:10021505 original size:40 final size:39
Alignment explanation
Indices: 10021460--10021666 Score: 198
Period size: 40 Copynumber: 5.2 Consensus size: 39
10021450 GGAATACGAT
*
10021460 CGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCC
* * *
10021500 CGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 CGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCC
* * *
10021540 CGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCC
* * ** * *
10021580 TGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCC
** * * * *
10021620 CGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCC
1 CGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGCC
10021660 CGGATAT
1 CGGATAT
10021667 CATTCAATTG
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGCC
Found at i:10023983 original size:11 final size:11
Alignment explanation
Indices: 10023967--10023993 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10023957 AAACACACCT
10023967 AAACAAGCCCG
1 AAACAAGCCCG
10023978 AAACAAGCCCG
1 AAACAAGCCCG
10023989 AAACA
1 AAACA
10023994 TACCAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.33, G:0.15, T:0.00
Consensus pattern (11 bp):
AAACAAGCCCG
Found at i:10024288 original size:14 final size:14
Alignment explanation
Indices: 10024269--10024297 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10024259 ACATAAGTGA
10024269 TCTAAAACCAAGTT
1 TCTAAAACCAAGTT
10024283 TCTAAAACCAAGTT
1 TCTAAAACCAAGTT
10024297 T
1 T
10024298 AAACAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TCTAAAACCAAGTT
Found at i:10024701 original size:15 final size:15
Alignment explanation
Indices: 10024681--10024712 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10024671 ATTCAATAGC
10024681 ATGAGATCATTCAAT
1 ATGAGATCATTCAAT
*
10024696 ATGAGATCATTGAAT
1 ATGAGATCATTCAAT
10024711 AT
1 AT
10024713 AAGTTACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (15 bp):
ATGAGATCATTCAAT
Found at i:10028432 original size:27 final size:27
Alignment explanation
Indices: 10028393--10028451 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
10028383 ATAAAATATT
*
10028393 AGTGGAGGGTACCCCACAAGCGGCACC
1 AGTGGAGGATACCCCACAAGCGGCACC
* *
10028420 GGTGGAGGATACCCTACAAGCGGCACC
1 AGTGGAGGATACCCCACAAGCGGCACC
10028447 AGTGG
1 AGTGG
10028452 TGCCTTTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.36, T:0.10
Consensus pattern (27 bp):
AGTGGAGGATACCCCACAAGCGGCACC
Found at i:10028570 original size:22 final size:22
Alignment explanation
Indices: 10028545--10028586 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10028535 TTACAGAAGA
10028545 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
10028567 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
10028587 AGAAAAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:10028580 original size:25 final size:27
Alignment explanation
Indices: 10028542--10028591 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
10028532 AATTTACAGA
*
10028542 AGAAGAAGATAG-AAAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAAGAAAGG
10028567 AGAAGAAGAAAGAAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAAAGAAA
10028592 AGGTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (27 bp):
AGAAGAAGAAAGAAAAGAAAAGAAAGG
Found at i:10028589 original size:17 final size:17
Alignment explanation
Indices: 10028555--10028590 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10028545 AGAAGATAGA
* *
10028555 AAGAAAGAAAGGAGAAG
1 AAGAAAGAAAAGAAAAG
10028572 AAGAAAGAAAAGAAAAG
1 AAGAAAGAAAAGAAAAG
10028589 AA
1 AA
10028591 AAGGTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAGAAAAG
Found at i:10034950 original size:13 final size:12
Alignment explanation
Indices: 10034929--10034963 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10034919 ATTTTTAAAA
10034929 ATATTATTTTTGT
1 ATATTATTTTT-T
*
10034942 ATTTTATTTTTT
1 ATATTATTTTTT
10034954 ATATTATTTT
1 ATATTATTTT
10034964 AGTACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:10034961 original size:28 final size:28
Alignment explanation
Indices: 10034900--10034961 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
10034890 TTTTGGTATT
10034900 TATT-TTATTTTTAGATTCTATTTTTAA
1 TATTATTATTTTTAGATTCTATTTTTAA
* * * *
10034927 AAATATTATTTTT-GTATTTTATTTTTTA
1 TATTATTATTTTTAG-ATTCTATTTTTAA
10034955 TATTATT
1 TATTATT
10034962 TTAGTACATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTATTATTTTTAGATTCTATTTTTAA
Found at i:10035053 original size:13 final size:13
Alignment explanation
Indices: 10035037--10035117 Score: 56
Period size: 13 Copynumber: 6.0 Consensus size: 13
10035027 ATTTTGGCCA
*
10035037 TTTATTTTTTTAT
1 TTTATTTTTGTAT
* *
10035050 TTTATTTTCGGAT
1 TTTATTTTTGTAT
*
10035063 TTTACTTTTTAAAATAT
1 TTTA-TTTTT---GTAT
*
10035080 ATTATTTTTGTAT
1 TTTATTTTTGTAT
10035093 TTTATTTTT-TAT
1 TTTATTTTTGTAT
* *
10035105 ATTATTTTAGTAT
1 TTTATTTTTGTAT
10035118 ATAATGTTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
12 10 0.19
13 28 0.54
14 4 0.08
16 5 0.10
17 5 0.10
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.69
Consensus pattern (13 bp):
TTTATTTTTGTAT
Found at i:10035089 original size:149 final size:146
Alignment explanation
Indices: 10034898--10035805 Score: 1196
Period size: 149 Copynumber: 6.3 Consensus size: 146
10034888 TATTTTGGTA
* * * *
10034898 TTTATTTTATTTTTAGATTCTA-TTTTTAAAA-ATATTATTTTTGTATTTTA-TTTTTTATATTA
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
*
10034960 TTTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTATATTAATTTAGTAAAAAACTC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAAACTC
10035025 TGATTTTGGCCATTTATTTT
130 TGATTTTGGCC--TT-TTTT
* * * *
10035045 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATATTATTTTTGTATTTTA-TTTTTTATATTA
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
* *
10035109 TTTTAGTATATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAACACT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
*
10035173 GATTTTGG-C----TG
131 GATTTTGGCCTTTTTT
10035184 TTTA---T-TTTTT--ATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
* * * *
10035242 TTTTAGTAAATAATATTTTAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAACTC
* * *
10035307 TTATTTTGGCCCTTTTA
130 TGATTTTGGCCTTTTTT
* * *
10035324 TAT-TTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
* * *
10035388 TTTTAGTACGTAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
*
10035451 GATTTTGGCC--CTTT
131 GATTTTGGCCTTTTTT
10035465 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
* * *
10035530 TTTTAGTACATAATGTTTCAAATATATTATTTTA-ATTTTTTATATTAATTTAGTAAAAAATTCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
10035594 GATTTTGGCCGTTTGTTT
131 GATTTTGGCC-TTT-TTT
*
10035612 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTAAGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTT-CGTATTTTATTTTTTTATATT
* * *
10035677 ATTTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
10035742 TGATTTTGGCCTTTTTTAT
130 TGATTTTGGCC-TTTTT-T
** * *
10035761 TTTATTTTCAAATTTTTTAAAATATATTTTTTAAAATATACTATT
1 TTTATTTT---A-TTTTTGGATTTTATTTTTTAAAATATACTATT
10035806 AAGCTATTCT
Statistics
Matches: 679, Mismatches: 52, Indels: 54
0.86 0.07 0.07
Matches are distributed among these distances:
133 77 0.11
134 18 0.03
135 20 0.03
136 2 0.00
139 5 0.01
140 3 0.00
141 4 0.01
142 78 0.11
143 57 0.08
144 45 0.07
145 36 0.05
146 28 0.04
147 101 0.15
148 64 0.09
149 112 0.16
152 1 0.00
153 28 0.04
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (146 bp):
TTTATTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
GATTTTGGCCTTTTTT
Found at i:10035109 original size:12 final size:13
Alignment explanation
Indices: 10035077--10035119 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
10035067 CTTTTTAAAA
10035077 TATATTATTTTTG
1 TATATTATTTTTG
*
10035090 TATTTTATTTTT-
1 TATATTATTTTTG
*
10035102 TATATTATTTTAG
1 TATATTATTTTTG
10035115 TATAT
1 TATAT
10035120 AATGTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:10035118 original size:13 final size:12
Alignment explanation
Indices: 10035077--10035119 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
10035067 CTTTTTAAAA
10035077 TATATTATTTTTG
1 TATATTA-TTTTG
* *
10035090 TATTTTATTTTT
1 TATATTATTTTG
10035102 TATATTATTTTAG
1 TATATTATTTT-G
10035115 TATAT
1 TATAT
10035120 AATGTTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (12 bp):
TATATTATTTTG
Found at i:10035253 original size:42 final size:43
Alignment explanation
Indices: 10035072--10035251 Score: 148
Period size: 42 Copynumber: 4.1 Consensus size: 43
10035062 TTTTACTTTT
* *
10035072 TAAAATATATTATTTTTGTATTTTATTTTTTATATTATTTTAG
1 TAAAATATACTATTTTAGTATTTTATTTTTTATATTATTTTAG
* * * * * * *
10035115 TATATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAG
1 TA-A-AAT-ATACTATTTTAGTATTTTA-TTTTTTATATTATTTTAG
* * * * * *
10035162 TAAAAAACACTGATTTTGGCT-GTTTATTTTTTATTTTATTTT-T
1 TAAAATATACT-ATTTTAG-TATTTTATTTTTTATATTATTTTAG
*
10035205 TAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAG
1 TAAAATATACTATTTTAGTATTTTATTTTTTATATTATTTTAG
10035248 TAAA
1 TAAA
10035252 TAATATTTTA
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 15 0.15
44 16 0.16
45 12 0.12
46 13 0.13
47 19 0.19
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (43 bp):
TAAAATATACTATTTTAGTATTTTATTTTTTATATTATTTTAG
Found at i:10035281 original size:47 final size:47
Alignment explanation
Indices: 10035090--10035295 Score: 143
Period size: 48 Copynumber: 4.5 Consensus size: 47
10035080 ATTATTTTTG
* * *
10035090 TATTTTATTTTTTATATTATTTTAGTATATA-A-TGTTTCAAATGTAT
1 TATTTTATTTTTTATATTATTTTAGTAAATACACTATTTTAAATGT-T
* * ***
10035136 TATTTTAGTTTTTTATATTAATTTAGTAAAAAACACTGATTTTGGCTGTT
1 TATTTTA-TTTTTTATATTATTTTAGT-AAATACACT-ATTTTAAATGTT
* * *
10035186 TATTTT-TTATTT-TATT-TTTTA--AAATATACTATTTT---CG--
1 TATTTTATTTTTTATATTATTTTAGTAAATACACTATTTTAAATGTT
10035223 TATTTTATTTTTTATATTATTTTAGTAAATA-A-TATTTTAAATGTAT
1 TATTTTATTTTTTATATTATTTTAGTAAATACACTATTTTAAATGT-T
*
10035269 TATTTTAGTTTTTTTATATTAATTTAG
1 TATTTTA--TTTTTTATATTATTTTAG
10035296 AAAAAAAACT
Statistics
Matches: 126, Mismatches: 16, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
37 6 0.05
38 5 0.04
39 5 0.04
40 11 0.09
41 1 0.01
42 10 0.08
43 8 0.06
46 18 0.14
47 22 0.17
48 25 0.20
49 1 0.01
50 8 0.06
51 6 0.05
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (47 bp):
TATTTTATTTTTTATATTATTTTAGTAAATACACTATTTTAAATGTT
Found at i:10035597 original size:143 final size:144
Alignment explanation
Indices: 10035184--10035768 Score: 885
Period size: 142 Copynumber: 4.1 Consensus size: 144
10035174 ATTTTGGCTG
*
10035184 TTTATTTTT-TATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTA
1 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
* * * * *
10035247 GTAAATAATATTTTAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAAACTCTTATT
66 GTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAACTCTGATT
*
10035312 TTGGCCCTTTTATATT
130 TTGGCCCTTTTTTA-T
* *
10035328 TTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
1 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
* * *
10035393 GTACGTAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGTGATTT
66 GTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTT
10035456 TGGCCCTTTTTTAT
131 TGGCCCTTTTTTAT
10035470 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
1 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
* * *
10035535 GTACATAATGTTTCAAATATATTATTTTA-ATTTTTTATATTAATTTAGTAAAAAATTCTGATTT
66 GTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTT
*
10035599 TGGCCGTTTGTTTTTTAT
131 TGGCC----CTTTTTTAT
*
10035617 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTAAGTATTTTATTTTTTTATATTATTTT
1 TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTT-CGTATTTTATTTTTTTATATTATTTT
* * *
10035682 AGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTGATT
65 AGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATT
10035747 TTGG-CCTTTTTTAT
130 TTGGCCCTTTTTTAT
10035761 TTTATTTT
1 TTTATTTT
10035769 CAAATTTTTT
Statistics
Matches: 403, Mismatches: 28, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
142 77 0.19
143 60 0.15
144 69 0.17
145 36 0.09
146 27 0.07
147 46 0.11
148 54 0.13
149 34 0.08
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (144 bp):
TTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTA
GTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTT
TGGCCCTTTTTTAT
Found at i:10035789 original size:14 final size:14
Alignment explanation
Indices: 10035772--10035800 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10035762 TTATTTTCAA
10035772 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
10035786 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
10035800 A
1 A
10035801 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:10036321 original size:3 final size:3
Alignment explanation
Indices: 10036315--10036356 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
10036305 CCTCCTCCTC
* **
10036315 CTT CTT CTT CTT CTT CTT CTC CTT CCC CTT -TT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
10036357 ACTCACGCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:10044208 original size:15 final size:14
Alignment explanation
Indices: 10044180--10044228 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
10044170 ACCCACAGAA
*
10044180 TTTTTTTATT-TAT
1 TTTTTTTTTTGTAT
10044193 TTTTTTTTTTCGTAT
1 TTTTTTTTTT-GTAT
*
10044208 TTTATTTTTTGTACT
1 TTTTTTTTTTGTA-T
10044223 TTTTTT
1 TTTTTT
10044229 ATCACTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 9 0.30
14 3 0.10
15 18 0.60
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTGTAT
Found at i:10056644 original size:72 final size:72
Alignment explanation
Indices: 10056527--10056670 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
10056517 TACTGTAATT
10056527 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
1 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
10056592 GTAAACA
66 GTAAACA
10056599 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
1 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
10056664 GTAAACA
66 GTAAACA
10056671 AACAATGAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (72 bp):
TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
GTAAACA
Found at i:10057159 original size:3 final size:3
Alignment explanation
Indices: 10057151--10057201 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10057141 GAGATGACAG
* * * *
10057151 TGA TGA TGA TGA TGA TGA TAA TGG TG- TGGA CGA TGA TGA TGT TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T-GA TGA TGA TGA TGA TGA
10057196 TGA TGA
1 TGA TGA
10057202 AACAGGCTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:10062569 original size:4 final size:4
Alignment explanation
Indices: 10062555--10062595 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
10062545 AACCAAAATT
10062555 AGAA AGAAA AGAA AGAA AGAA A-AA GAGAA AGAA AGAA AGAA
1 AGAA AG-AA AGAA AGAA AGAA AGAA -AGAA AGAA AGAA AGAA
10062596 GCAGACTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 26 0.76
5 6 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:10062587 original size:20 final size:19
Alignment explanation
Indices: 10062557--10062595 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
10062547 CCAAAATTAG
10062557 AAAGAAAAGAAAGAAAGAA
1 AAAGAAAAGAAAGAAAGAA
10062576 AAAGAGAAAGAAAGAAAGAA
1 AAAGA-AAAGAAAGAAAGAA
10062596 GCAGACTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGAAAGAA
Found at i:10063980 original size:41 final size:42
Alignment explanation
Indices: 10063913--10063992 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
10063903 GTGCAAAGGA
* *
10063913 CACACGGCCTATCAACATGCCTGTGTG-CAAGCCGTGTGTCG
1 CACACGGCCTATCAACACGCCCGTGTGACAAGCCGTGTGTCG
* *
10063954 CACACGGTCTAATC-ACACGCCCGTGTGACAGGCCGTGTG
1 CACACGGCCT-ATCAACACGCCCGTGTGACAAGCCGTGTG
10063993 GACTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (42 bp):
CACACGGCCTATCAACACGCCCGTGTGACAAGCCGTGTGTCG
Found at i:10064698 original size:6 final size:6
Alignment explanation
Indices: 10064689--10064735 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
10064679 GAAATACATT
* * *
10064689 GTAACA GTAACA GTAACG GTAACA GTAACG GTAACG GTAACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
10064736 GGTAGCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:10064736 original size:18 final size:18
Alignment explanation
Indices: 10064689--10064739 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
10064679 GAAATACATT
*
10064689 GTAACAGTAACAGTAACG
1 GTAACAGTAACGGTAACG
10064707 GTAACAGTAACGGTAACG
1 GTAACAGTAACGGTAACG
10064725 GTAACAGTAACGGTA
1 GTAACAGTAACGGTA
10064740 GCAATAGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (18 bp):
GTAACAGTAACGGTAACG
Found at i:10065697 original size:5 final size:5
Alignment explanation
Indices: 10065682--10065726 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
10065672 TAATACATTT
* *
10065682 TAATAA TAATA TAATA TAATA TAATA TAATT TACTTA TAATA TAA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TA-ATA TAATA TAA
10065727 GTAAATTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 27 0.79
6 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:10065706 original size:21 final size:21
Alignment explanation
Indices: 10065682--10065726 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10065672 TAATACATTT
10065682 TAATAATAATATA-ATATAATA
1 TAAT-ATAATATACATATAATA
* *
10065703 TAATATAATTTACTTATAATA
1 TAATATAATATACATATAATA
10065724 TAA
1 TAA
10065727 GTAAATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATATAATATACATATAATA
Found at i:10068060 original size:51 final size:51
Alignment explanation
Indices: 10067989--10068199 Score: 352
Period size: 51 Copynumber: 4.2 Consensus size: 51
10067979 TTGATCACAT
*
10067989 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTGCCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
10068040 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
10068090 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
10068141 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
10068192 TTGTCACT
1 TTATCACT
10068200 GATCAGAAGT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
50 48 0.32
51 104 0.68
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:10068104 original size:101 final size:102
Alignment explanation
Indices: 10067986--10068199 Score: 367
Period size: 101 Copynumber: 2.1 Consensus size: 102
10067976 ACATTGATCA
* *
10067986 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTGCCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
10068051 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
10068087 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
*
10068152 CACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
10068189 CACTTGTCACT
1 CATTTATCACT
10068200 GATCAGAAGT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 84 0.79
102 22 0.21
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTAT
CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:10074855 original size:50 final size:50
Alignment explanation
Indices: 10074761--10074995 Score: 333
Period size: 50 Copynumber: 4.8 Consensus size: 50
10074751 CACGGTCTTA
*
10074761 CACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTATCACTTGT
*
10074812 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCATTTATCACTTGT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
*
10074862 CACTGATCAGATAA--GT-G-T-AG---CCACTTATCATTTATCACTTGT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
* *
10074904 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTAT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
* *
10074954 CACTAATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTT
1 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTT
10074996 GTCATTGATC
Statistics
Matches: 168, Mismatches: 7, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
42 36 0.21
44 2 0.01
45 3 0.02
46 2 0.01
47 3 0.02
48 2 0.01
50 81 0.48
51 39 0.23
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (50 bp):
CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
Found at i:10074870 original size:21 final size:21
Alignment explanation
Indices: 10074841--10074912 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
10074831 GCTAAGCTAC
*
10074841 CACTTATCATTTATCACTTGT
1 CACTGATCATTTATCACTTGT
* * * *
10074862 CACTGATCA--GATAAGTGTAGC
1 CACTGATCATTTATCACT-T-GT
*
10074883 CACTTATCATTTATCACTTGT
1 CACTGATCATTTATCACTTGT
10074904 CACTGATCA
1 CACTGATCA
10074913 GATAAGTGTA
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 26 0.72
22 1 0.03
23 4 0.11
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.38
Consensus pattern (21 bp):
CACTGATCATTTATCACTTGT
Found at i:10074892 original size:42 final size:42
Alignment explanation
Indices: 10074840--10074955 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 42
10074830 AGCTAAGCTA
10074840 CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAG
1 CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAG
10074882 CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAG
1 CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAG
* * * *
10074924 CTAAGC-TACCACTTATCACTTGTCACTTATCA
1 C-CA-CTTATCATTTATCACTTGTCACTGATCA
10074956 CTAATCAGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
42 43 0.63
43 24 0.35
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (42 bp):
CCACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAG
Done.