Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 76 of 211
Found at i:23630142 original size:52 final size:48
Alignment explanation
Indices: 23630041--23630196 Score: 140
Period size: 52 Copynumber: 3.1 Consensus size: 48
23630031 CAAGATCTTG
*
23630041 TTTATTTAATTGTTTTTTAGATCTGATGCTTTTAAATAAATATAGATA
1 TTTATTTAATTGTTTTTTAGATCTGATGCTTTTAAATAAATATAAATA
* *
23630089 TTTATTTAATTTGTTTTTCTTAGATCT-AGTGTTTTTTACATAAATATAAATA
1 TTTATTTAA-TTG-TTTT-TTAGATCTGA-TG-CTTTTAAATAAATATAAATA
* * **
23630141 TTTATTTATATTATTTGTTCAGATCT--TG-TATTTAATATAAATATTTATA
1 TTTATTTA-ATTGTTT-TTTAGATCTGATGCT-TTTAA-ATAAATATAAATA
23630190 TTTATTT
1 TTTATTT
23630197 GTTAACGTGT
Statistics
Matches: 91, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
47 1 0.01
48 13 0.14
49 23 0.25
50 5 0.05
51 20 0.22
52 28 0.31
53 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.56
Consensus pattern (48 bp):
TTTATTTAATTGTTTTTTAGATCTGATGCTTTTAAATAAATATAAATA
Found at i:23636008 original size:27 final size:27
Alignment explanation
Indices: 23635970--23636024 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23635960 GTACTAGGGG
23635970 AGATAGTCTAATCCTACTTAAACTCCC
1 AGATAGTCTAATCCTACTTAAACTCCC
23635997 AGATAGTCTAATCCTACTTAAACTCCC
1 AGATAGTCTAATCCTACTTAAACTCCC
23636024 A
1 A
23636025 AAAGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.29, G:0.07, T:0.29
Consensus pattern (27 bp):
AGATAGTCTAATCCTACTTAAACTCCC
Found at i:23636065 original size:10 final size:10
Alignment explanation
Indices: 23636050--23636089 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
23636040 TAATTGAAGA
23636050 TAAATAAAAT
1 TAAATAAAAT
23636060 TAAATAAAAT
1 TAAATAAAAT
23636070 TAAATCCTAAAAT
1 TAAA---TAAAAT
23636083 TAAATAA
1 TAAATAA
23636090 TCCTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 17 0.63
13 10 0.37
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATAAAAT
Found at i:23636117 original size:15 final size:14
Alignment explanation
Indices: 23636096--23636131 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
23636086 ATAATCCTTA
*
23636096 ATAATTATCTTAAT
1 ATAATTATCCTAAT
23636110 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
23636125 ATAATTA
1 ATAATTA
23636132 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:23637117 original size:38 final size:38
Alignment explanation
Indices: 23637070--23637146 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
23637060 GATAACTCCA
*
23637070 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTC
1 CAATCCCATATTTCCCTCCTAAAATCACTCCAACACTC
*
23637108 CAATCCCATATTTCCCTCCTAAAATCACTCTAACACTC
1 CAATCCCATATTTCCCTCCTAAAATCACTCCAACACTC
23637146 C
1 C
23637147 CCTACCACGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (38 bp):
CAATCCCATATTTCCCTCCTAAAATCACTCCAACACTC
Found at i:23639237 original size:16 final size:15
Alignment explanation
Indices: 23639213--23639258 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
23639203 AAAAAGTATT
23639213 AAAAAGAAACAAAGC
1 AAAAAGAAACAAAGC
*
23639228 AAAAACGAAACAGAAGG
1 AAAAA-GAAACA-AAGC
*
23639245 AAAAAGAAAGAAAG
1 AAAAAGAAACAAAG
23639259 AAAGAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.72, C:0.09, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAGAAACAAAGC
Found at i:23640392 original size:25 final size:25
Alignment explanation
Indices: 23640275--23640393 Score: 82
Period size: 24 Copynumber: 4.9 Consensus size: 25
23640265 TGGCCCTCTA
* * *
23640275 GAGCTTCCCGATAT-TGGCTCGCTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * **
23640299 GAACTTCCTGATAT-TGGCTCGTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
23640323 GAGCTTCACGTTA-ATGGCTCTCCG
1 GAGCTTCCCGTTATATGGCTCACAT
* **
23640347 GAGCTTCTCGTTATACAGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
23640372 GAGCTTCCCGTTATATGGCTCA
1 GAGCTTCCCGTTATATGGCTCA
23640394 AAAGATTATC
Statistics
Matches: 72, Mismatches: 21, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
24 47 0.65
25 25 0.35
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:23645233 original size:38 final size:40
Alignment explanation
Indices: 23645186--23645341 Score: 130
Period size: 38 Copynumber: 4.0 Consensus size: 40
23645176 TGGTCTGAAC
*
23645186 TAAAGACATGTATTAAAGATGT-CTAAACTA-GAACAT-AT
1 TAAAAACATGTATTAAAGATGTCCTAAACTATG-ACATAAT
* *
23645224 TCAAAACATGTATTTAAGATGTCCTAAACTATGACATAAT
1 TAAAAACATGTATTAAAGATGTCCTAAACTATGACATAAT
* * * *
23645264 TAAAAACCCT-TATTAAAGATGTTC-AGATTATGACATAAT
1 TAAAAA-CATGTATTAAAGATGTCCTAAACTATGACATAAT
* * * *
23645303 T-AAAAC-TCATATTAATGATGTTC-AAATTATGACATAAT
1 TAAAAACAT-GTATTAAAGATGTCCTAAACTATGACATAAT
23645341 T
1 T
23645342 TAAGACTTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 51 0.50
39 26 0.26
40 20 0.20
41 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (40 bp):
TAAAAACATGTATTAAAGATGTCCTAAACTATGACATAAT
Found at i:23645296 original size:39 final size:38
Alignment explanation
Indices: 23645234--23645341 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
23645224 TCAAAACATG
* * * *
23645234 TATTTAAGATGTCCTAAACTATGACATAATTAAAAACCCT
1 TATTAAAGATGTTC-AAATTATGACATAATT-AAAACCCA
* *
23645274 TATTAAAGATGTTCAGATTATGACATAATTAAAACTCA
1 TATTAAAGATGTTCAAATTATGACATAATTAAAACCCA
*
23645312 TATTAATGATGTTCAAATTATGACATAATT
1 TATTAAAGATGTTCAAATTATGACATAATT
23645342 TAAGACTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 34 0.57
39 14 0.23
40 12 0.20
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (38 bp):
TATTAAAGATGTTCAAATTATGACATAATTAAAACCCA
Found at i:23646974 original size:26 final size:26
Alignment explanation
Indices: 23646945--23647002 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
23646935 AAAGGTTTAT
*
23646945 GAATAAATTGACAAACCTTGTTAACA
1 GAATAAACTGACAAACCTTGTTAACA
*
23646971 GAATAAGCTGACAAACCTTGTTAACA
1 GAATAAACTGACAAACCTTGTTAACA
23646997 GAATAA
1 GAATAA
23647003 GCTATGTACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.24
Consensus pattern (26 bp):
GAATAAACTGACAAACCTTGTTAACA
Found at i:23647003 original size:26 final size:26
Alignment explanation
Indices: 23646953--23647005 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23646943 ATGAATAAAT
23646953 TGACAAACCTTGTTAACAGAATAAGC
1 TGACAAACCTTGTTAACAGAATAAGC
23646979 TGACAAACCTTGTTAACAGAATAAGC
1 TGACAAACCTTGTTAACAGAATAAGC
23647005 T
1 T
23647006 ATGTACGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (26 bp):
TGACAAACCTTGTTAACAGAATAAGC
Found at i:23648148 original size:21 final size:21
Alignment explanation
Indices: 23648119--23648160 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23648109 AGTTCGATGA
*
23648119 GATGGGACTGAGGAGTGTGCC
1 GATGAGACTGAGGAGTGTGCC
23648140 GATGAGACTGAGGAGTGTGCC
1 GATGAGACTGAGGAGTGTGCC
23648161 ATAGGAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.45, T:0.19
Consensus pattern (21 bp):
GATGAGACTGAGGAGTGTGCC
Found at i:23654038 original size:22 final size:22
Alignment explanation
Indices: 23654010--23654104 Score: 136
Period size: 22 Copynumber: 4.3 Consensus size: 22
23654000 CGTTCAGGTA
*
23654010 AGATGCAGAACAGATCATATAC
1 AGATGCAGAACAGATCAAATAC
* **
23654032 AGATGCAGAATAGATCCGATAC
1 AGATGCAGAACAGATCAAATAC
* *
23654054 AGATGCAGAACAAATCAAATAA
1 AGATGCAGAACAGATCAAATAC
23654076 AGATGCAGAACAGATCAAATAC
1 AGATGCAGAACAGATCAAATAC
23654098 AGATGCA
1 AGATGCA
23654105 ATTTCCTACC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (22 bp):
AGATGCAGAACAGATCAAATAC
Found at i:23654046 original size:11 final size:11
Alignment explanation
Indices: 23654010--23654104 Score: 63
Period size: 11 Copynumber: 8.6 Consensus size: 11
23654000 CGTTCAGGTA
23654010 AGATGCAGAAC
1 AGATGCAGAAC
*
23654021 AGAT-CATATAC
1 AGATGCAGA-AC
*
23654032 AGATGCAGAAT
1 AGATGCAGAAC
*
23654043 AGAT-CCGATAC
1 AGATGCAGA-AC
23654054 AGATGCAGAAC
1 AGATGCAGAAC
* * *
23654065 AAAT-CAAATAA
1 AGATGCAGA-AC
23654076 AGATGCAGAAC
1 AGATGCAGAAC
*
23654087 AGAT-CAAATAC
1 AGATGCAGA-AC
23654098 AGATGCA
1 AGATGCA
23654105 ATTTCCTACC
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
10 12 0.19
11 40 0.63
12 11 0.17
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (11 bp):
AGATGCAGAAC
Found at i:23654810 original size:63 final size:63
Alignment explanation
Indices: 23654709--23654830 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
23654699 ACACAACCAT
* * * * * *
23654709 GTCCTTAACTCATGTTACCCTAAATAAAAAATAATGAGTTACACGGCCTGTACGCACGCTCGC
1 GTCCTTAACCCATGTGACCCTAAACAAAAAATAATGAGTCACACGGCCTGGACACACGCTCGC
* * * *
23654772 GTCCTTAGCCCATGTGACCCTAAACCACAAATAGTGAGTCACACGGCCTGGACACACGC
1 GTCCTTAACCCATGTGACCCTAAACAAAAAATAATGAGTCACACGGCCTGGACACACGC
23654831 CCGTGTGACT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (63 bp):
GTCCTTAACCCATGTGACCCTAAACAAAAAATAATGAGTCACACGGCCTGGACACACGCTCGC
Found at i:23654859 original size:50 final size:50
Alignment explanation
Indices: 23654779--23654886 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 50
23654769 CGCGTCCTTA
* *
23654779 GCCCATGTGACCCTAAACCACAAATAGTGAGTCACACGGCCTGGACACAC
1 GCCCGTGTGACCCTAAACCACAAATAGTGAGTCACACGACCTGGACACAC
* * * * *
23654829 GCCCGTGTGACTCTAAATCACAAATAGTGAGTTACATGACCTGGACAGAC
1 GCCCGTGTGACCCTAAACCACAAATAGTGAGTCACACGACCTGGACACAC
*
23654879 ACCCGTGT
1 GCCCGTGT
23654887 CCCTGGCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.19
Consensus pattern (50 bp):
GCCCGTGTGACCCTAAACCACAAATAGTGAGTCACACGACCTGGACACAC
Found at i:23661219 original size:22 final size:22
Alignment explanation
Indices: 23661180--23661241 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
23661170 TAATATGTAG
* * *
23661180 AACATATCAGTTATAGATGCAA
1 AACAGATCAGATACAGATGCAA
*
23661202 AACAGATTC-GATACAGATGCAG
1 AACAGA-TCAGATACAGATGCAA
*
23661224 AACATATCAGATACAGAT
1 AACAGATCAGATACAGAT
23661242 ATAGTTTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (22 bp):
AACAGATCAGATACAGATGCAA
Found at i:23661925 original size:63 final size:63
Alignment explanation
Indices: 23661800--23662384 Score: 443
Period size: 63 Copynumber: 9.3 Consensus size: 63
23661790 CTTAATACCA
* * * * * * * * *
23661800 TACATAGCCTGTACACACGCCCACGTCCCTGACTCATGTGACCTTAAGTAAAAAACAATGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* * * * * * *
23661863 TAGATGGCGTCGATACACGCCCACGTCCCTGGCTTGTGTGACCTTAAATCACAAATAGTGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* * * * * * * *
23661926 TACACAGCTTGGACACACGCCCGCGTCCCTAGTTCATGTAACCCTAAATCACAAACAGTGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* * * * * * *
23661989 TACAGAGCCTGGACAGAAGCCCATGTCCCTAGCCCGTGTGACCGTAAATCACAAATAGTGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* *** * *
23662052 TACATAGCCTGGACACAGGCCTGTGTCCCTGGCCCGTGTGACCCTAAATCACAAATAGAGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* * * * * * * * * *
23662115 TACACAGCCTGGTCCCACACCCATGTCCCTGTCCCGTGCGACTCTAAATCACAAATAGCGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
** * * *** * * **
23662178 TACACGGCCTGGTCACACACCTGTGTCCCTGGCCCGTGTGACTCTAAATCACAAATAACGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
** * *** * * ** *
23662241 TACACGGCCTGGACACACACCTGTGTCCTTGGCCCGTGTGACTTTAAATCACAAATAGCGAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
* * ** * ** * *
23662304 TACACAGCCTGGACACACACCCGTGTCCCTGGCCCGTGTGACTTTAAATCACAAACAGTAAGT
1 TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
**
23662367 TACACGGCCTGG-CACACG
1 TACATAGCCTGGACACACG
23662385 ATTGTGTGAC
Statistics
Matches: 444, Mismatches: 78, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
62 5 0.01
63 439 0.99
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (63 bp):
TACATAGCCTGGACACACGCCCACGTCCCTGGCTCGTGTGACCCTAAATCACAAATAGTGAGT
Found at i:23662028 original size:126 final size:125
Alignment explanation
Indices: 23661898--23662383 Score: 566
Period size: 126 Copynumber: 3.9 Consensus size: 125
23661888 TCCCTGGCTT
* * * * * ** *
23661898 GTGTGACCTTAAATCACAAATAGTGAGTTACACAGCTTGGACACACGCCCGCGTCCCTAGTTCAT
1 GTGTGACCTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCGT
* *
23661963 GTAACCCTAAATCACAAACAGTGAGTTACA-GAGCCTGGACAGA-AGCCCATGTCCCTAGCCC
66 GTGACCCTAAATCACAAACAGTGAGTTACACG-GCCTGGACACACA-CCCATGTCCCT-GCCC
* * * ** *
23662024 GTGTGACCGTAAATCACAAATAGTGAGTTACATAGCCTGGACACAGGCCTGTGTCCCTGGCCCGT
1 GTGTGACCTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCGT
* * * * *
23662089 GTGACCCTAAATCACAAATAGAGAGTTACACAGCCTGGTCCCACACCCATGTCCCTGTCCC
66 GTGACCCTAAATCACAAACAGTGAGTTACACGGCCTGGACACACACCCATGTCCCTG-CCC
* * * *
23662150 GTGCGA-CTCTAAATCACAAATAGCGAGTTACACGGCCTGGTCACACACCTGTGTCCCTGGCCCG
1 GTGTGACCT-TAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCG
* * ** ** *
23662214 TGTGACTCTAAATCACAAATAACGAGTTACACGGCCTGGACACACACCTGTGTCCTTGGCCC
65 TGTGACCCTAAATCACAAACAGTGAGTTACACGGCCTGGACACACACCCATGTCCCT-GCCC
*
23662276 GTGTGACTTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCGT
1 GTGTGACCTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCGT
** *
23662341 GTGACTTTAAATCACAAACAGTAAGTTACACGGCCTGG-CACAC
66 GTGACCCTAAATCACAAACAGTGAGTTACACGGCCTGGACACAC
23662384 GATTGTGTGA
Statistics
Matches: 310, Mismatches: 44, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
125 7 0.02
126 300 0.97
127 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (125 bp):
GTGTGACCTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGTCCCTGGCCCGT
GTGACCCTAAATCACAAACAGTGAGTTACACGGCCTGGACACACACCCATGTCCCTGCCC
Found at i:23662164 original size:189 final size:189
Alignment explanation
Indices: 23661887--23662383 Score: 617
Period size: 189 Copynumber: 2.6 Consensus size: 189
23661877 ACACGCCCAC
** * * * *
23661887 GTCCCTGGCTTGTGTGACCTTAAATCACAAATAGTGAGTTACACAGCTTGGACACACGCCCGCGT
1 GTCCCTGGCCCGTGTGACCTTAAATCACAAATAGAGAGTTACACAGCCTGGACACACACCCGTGT
* * * * *
23661952 CCCTAGT-TCATGTAACCCTAAATCACAAACAGTGAGTTACA-GAGCCTGGACAGA-AGCCCATG
66 CCCT-GTCCCGTGTGACTCTAAATCACAAACAGTGAGTTACACG-GCCTGGACACACA-CCCATG
** * **
23662014 TCCCTAGCCCGTGTGAC-CGTAAATCACAAATAGTGAGTTACATAGCCTGGACACAGGCCTGT
128 TCCCTAGCCCGTGTGACTC-TAAATCACAAATAACGAGTTACACAGCCTGGACACACACCTGT
* * * *
23662076 GTCCCTGGCCCGTGTGACCCTAAATCACAAATAGAGAGTTACACAGCCTGGTCCCACACCCATGT
1 GTCCCTGGCCCGTGTGACCTTAAATCACAAATAGAGAGTTACACAGCCTGGACACACACCCGTGT
* * * * **
23662141 CCCTGTCCCGTGCGACTCTAAATCACAAATAGCGAGTTACACGGCCTGGTCACACACCTGTGTCC
66 CCCTGTCCCGTGTGACTCTAAATCACAAACAGTGAGTTACACGGCCTGGACACACACCCATGTCC
* *
23662206 CTGGCCCGTGTGACTCTAAATCACAAATAACGAGTTACACGGCCTGGACACACACCTGT
131 CTAGCCCGTGTGACTCTAAATCACAAATAACGAGTTACACAGCCTGGACACACACCTGT
* * *
23662265 GTCCTTGGCCCGTGTGACTTTAAATCACAAATAGCGAGTTACACAGCCTGGACACACACCCGTGT
1 GTCCCTGGCCCGTGTGACCTTAAATCACAAATAGAGAGTTACACAGCCTGGACACACACCCGTGT
* * *
23662330 CCCTGGCCCGTGTGACTTTAAATCACAAACAGTAAGTTACACGGCCTGG-CACAC
66 CCCTGTCCCGTGTGACTCTAAATCACAAACAGTGAGTTACACGGCCTGGACACAC
23662384 GATTGTGTGA
Statistics
Matches: 263, Mismatches: 41, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
188 7 0.03
189 253 0.96
190 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (189 bp):
GTCCCTGGCCCGTGTGACCTTAAATCACAAATAGAGAGTTACACAGCCTGGACACACACCCGTGT
CCCTGTCCCGTGTGACTCTAAATCACAAACAGTGAGTTACACGGCCTGGACACACACCCATGTCC
CTAGCCCGTGTGACTCTAAATCACAAATAACGAGTTACACAGCCTGGACACACACCTGT
Found at i:23664754 original size:23 final size:23
Alignment explanation
Indices: 23664721--23664765 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
23664711 TAAACGAATC
23664721 TTGGATATATTCTACTTGGATCA
1 TTGGATATATTCTACTTGGATCA
*
23664744 TTGGATCTATTCTACTTGGATC
1 TTGGATATATTCTACTTGGATC
23664766 TTGTTCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (23 bp):
TTGGATATATTCTACTTGGATCA
Found at i:23668581 original size:59 final size:59
Alignment explanation
Indices: 23668503--23668614 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 59
23668493 AATACAAGAA
* ** *
23668503 TTTATGATTTAATTGCTTATGATTGATGGCATAAATCTGTGAATGATTTTATAATTGCT
1 TTTATGATATAATCACTTATGATTGATGGCATAAATCTGTGAATGATTATATAATTGCT
* * ** *
23668562 TTTATGATATAATCACTTATGATTGTTTGTTTAAATTTGTGAATGATTATATA
1 TTTATGATATAATCACTTATGATTGATGGCATAAATCTGTGAATGATTATATA
23668615 TATTTATTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.49
Consensus pattern (59 bp):
TTTATGATATAATCACTTATGATTGATGGCATAAATCTGTGAATGATTATATAATTGCT
Found at i:23668747 original size:16 final size:15
Alignment explanation
Indices: 23668722--23668751 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23668712 ATAATGATAT
23668722 TGATTGATTGCATTA
1 TGATTGATTGCATTA
23668737 TGATTGCATTGCATT
1 TGATTG-ATTGCATT
23668752 GCATTTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (15 bp):
TGATTGATTGCATTA
Found at i:23669424 original size:17 final size:17
Alignment explanation
Indices: 23669322--23669425 Score: 52
Period size: 17 Copynumber: 5.8 Consensus size: 17
23669312 TACCATATGG
23669322 AATTGATTGATATGTGA
1 AATTGATTGATATGTGA
*
23669339 GACTATTTG-TT-ATCATGTTA
1 -A--A-TTGATTGAT-ATGTGA
23669359 AATTGATTGATATGTGA
1 AATTGATTGATATGTGA
* * *
23669376 AACTGTTTG-TCATTGTAGTG
1 AATTGATTGAT-A-TGT-G-A
*
23669396 AATAGATTGATATGTGA
1 AATTGATTGATATGTGA
*
23669413 AATTGTTTGATAT
1 AATTGATTGATAT
23669426 TATTGTACAG
Statistics
Matches: 64, Mismatches: 11, Indels: 23
0.65 0.11 0.23
Matches are distributed among these distances:
16 4 0.06
17 27 0.42
18 7 0.11
19 7 0.11
20 15 0.23
21 4 0.06
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (17 bp):
AATTGATTGATATGTGA
Found at i:23672603 original size:19 final size:19
Alignment explanation
Indices: 23672550--23672605 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
23672540 TTATTTCATT
***
23672550 AAATAAAAAATTTTAAAAC
1 AAATAAAAAATAAAAAAAC
* *
23672569 AAATATTAAAA-CAAAAAAC
1 AAATA-AAAAATAAAAAAAC
23672588 AAATAAAAAATAAAAAAA
1 AAATAAAAAATAAAAAAA
23672606 TGAGACTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAAAAATAAAAAAAC
Found at i:23673858 original size:40 final size:40
Alignment explanation
Indices: 23673803--23673884 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
23673793 GTCATTAGAC
23673803 AAAGTATTTGGATGAATTGCTTTCGTAAAAAGTATACTAT
1 AAAGTATTTGGATGAATTGCTTTCGTAAAAAGTATACTAT
*
23673843 AAAGTATTTGGATGAATTGCTTTCGTAAAAAGTATTCTAT
1 AAAGTATTTGGATGAATTGCTTTCGTAAAAAGTATACTAT
23673883 AA
1 AA
23673885 GGATTTTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (40 bp):
AAAGTATTTGGATGAATTGCTTTCGTAAAAAGTATACTAT
Found at i:23674709 original size:36 final size:38
Alignment explanation
Indices: 23674668--23674766 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
23674658 TATGTTATTA
*
23674668 TAATAGTTTAATTTAAATTAA-ATTAAA-T-ACTTATCT
1 TAATAGTTTAATTTAATTTAATATTAAAGTGA-TTATCT
*
23674704 TAATAGTATT-TTATTAATTTAATATTAAAGTGATTATCT
1 TAATAGT-TTAAT-TTAATTTAATATTAAAGTGATTATCT
23674743 TAATA-TTTAATTTAATTTAATATT
1 TAATAGTTTAATTTAATTTAATATT
23674767 TATCTTGTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
36 8 0.15
37 25 0.46
38 8 0.15
39 12 0.22
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (38 bp):
TAATAGTTTAATTTAATTTAATATTAAAGTGATTATCT
Found at i:23682156 original size:9 final size:9
Alignment explanation
Indices: 23682142--23682166 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23682132 GCGCACCTTC
23682142 TGTTCTTTT
1 TGTTCTTTT
23682151 TGTTCTTTT
1 TGTTCTTTT
23682160 TGTTCTT
1 TGTTCTT
23682167 AAAACTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (9 bp):
TGTTCTTTT
Found at i:23688201 original size:3 final size:3
Alignment explanation
Indices: 23688193--23688232 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
23688183 ACAAAGACAT
*
23688193 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TAA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
23688233 AATGGTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:23689458 original size:21 final size:21
Alignment explanation
Indices: 23689432--23689471 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23689422 TGATGTAGCT
*
23689432 AAGTTCATTT-ATTTTTTCCCC
1 AAGTTC-TTTCATTTGTTCCCC
23689453 AAGTTCTTTCATTTGTTCC
1 AAGTTCTTTCATTTGTTCC
23689472 AAGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (21 bp):
AAGTTCTTTCATTTGTTCCCC
Found at i:23694789 original size:17 final size:17
Alignment explanation
Indices: 23694706--23694817 Score: 71
Period size: 17 Copynumber: 6.5 Consensus size: 17
23694696 TCAAACATCT
*
23694706 GTTCATATAAAATAACA
1 GTTCATACAAAATAACA
* *
23694723 ATTCATACACCAAATGACA
1 GTTCATACA--AAATAACA
* * * *
23694742 GCTCATGCAAAATGATA
1 GTTCATACAAAATAACA
* ** *
23694759 GTTTATATGAAATATCA
1 GTTCATACAAAATAACA
**
23694776 GTTCATACCGAATAACA
1 GTTCATACAAAATAACA
* *
23694793 ATTCATGCAAAATAACA
1 GTTCATACAAAATAACA
23694810 GTTCATAC
1 GTTCATAC
23694818 TCTATCATAA
Statistics
Matches: 67, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
17 54 0.81
19 13 0.19
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.28
Consensus pattern (17 bp):
GTTCATACAAAATAACA
Found at i:23695539 original size:36 final size:36
Alignment explanation
Indices: 23695471--23695540 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
23695461 AATTAATATC
*
23695471 GTTCGCCATATTAATACAAATCACCAAATTAACACA
1 GTTCGCCATAATAATACAAATCACCAAATTAACACA
* * * *
23695507 GTTCGCCATAATAATATAATTCGCCAAGTTAACA
1 GTTCGCCATAATAATACAAATCACCAAATTAACA
23695541 TGGTTCACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (36 bp):
GTTCGCCATAATAATACAAATCACCAAATTAACACA
Found at i:23695811 original size:25 final size:25
Alignment explanation
Indices: 23695778--23695914 Score: 116
Period size: 25 Copynumber: 5.1 Consensus size: 25
23695768 CAAAACTCAT
*
23695778 CCATATATATATTATAAAACAAGAC
1 CCATATATATATTATAAAACAAAAC
*
23695803 CCATATATATATTATATAACAAAAC
1 CCATATATATATTATAAAACAAAAC
* *
23695828 TCACT-CATATATTATAGATAACAAAAC
1 CCA-TATATATATTATA-A-AACAAAAC
*
23695855 CCATGCATATATATAATATATAACAAAAC
1 CCAT--ATATATAT--TATAAAACAAAAC
23695884 CCATACATATATATTATACATAAC-AAAC
1 CCAT--ATATATATTATA-A-AACAAAAC
23695912 CCA
1 CCA
23695915 AGCATGTATA
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
25 35 0.38
26 2 0.02
27 14 0.15
28 7 0.08
29 30 0.33
31 4 0.04
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.28
Consensus pattern (25 bp):
CCATATATATATTATAAAACAAAAC
Found at i:23695820 original size:27 final size:27
Alignment explanation
Indices: 23695778--23695938 Score: 134
Period size: 29 Copynumber: 5.8 Consensus size: 27
23695768 CAAAACTCAT
*
23695778 CCATATATATATTATA-A-AACAAGAC
1 CCATATATATATTATATATAACAAAAC
23695803 CCATATATATA-T-TATATAACAAAAC
1 CCATATATATATTATATATAACAAAAC
* * *
23695828 TCACT-CATATATTATAGATAACAAAAC
1 CCA-TATATATATTATATATAACAAAAC
*
23695855 CCATGCATATATATAATATATAACAAAAC
1 CCAT--ATATATATTATATATAACAAAAC
* *
23695884 CCATACATATATATTATACATAACAAACC
1 CCAT--ATATATATTATATATAACAAAAC
23695913 CAAGCATGTATATATATTATATATAA
1 C---CA--TATATATATTATATATAA
23695939 TAAAGTCACG
Statistics
Matches: 110, Mismatches: 13, Indels: 19
0.77 0.09 0.13
Matches are distributed among these distances:
23 2 0.02
24 2 0.02
25 25 0.23
26 3 0.03
27 14 0.13
29 45 0.41
32 18 0.16
34 1 0.01
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (27 bp):
CCATATATATATTATATATAACAAAAC
Found at i:23699325 original size:87 final size:87
Alignment explanation
Indices: 23699179--23699354 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
23699169 GAAAGTACGT
*
23699179 GACGGATTATCTAGAAAATATATTTATAAAAGTTACAAAAGAATTGATGTGATTGAATTTCAAAG
1 GACGGATTATCTAGAAAACATATTTATAAAAGTTACAAAAGAATTGATGTGATTGAATTTCAAAG
23699244 GTTTATATGTTTATAGAGAAGG
66 GTTTATATGTTTATAGAGAAGG
*
23699266 GACGGATTATTTAGAAAACATATTTATAAAAGTTACAAAAGAATTGATGTGATTGAATTTCAAAG
1 GACGGATTATCTAGAAAACATATTTATAAAAGTTACAAAAGAATTGATGTGATTGAATTTCAAAG
*
23699331 TTTTATATGTTTATAGAGAAGG
66 GTTTATATGTTTATAGAGAAGG
23699353 GA
1 GA
23699355 ATAAAGTTAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (87 bp):
GACGGATTATCTAGAAAACATATTTATAAAAGTTACAAAAGAATTGATGTGATTGAATTTCAAAG
GTTTATATGTTTATAGAGAAGG
Found at i:23702689 original size:17 final size:18
Alignment explanation
Indices: 23702667--23702700 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23702657 AATTCAACAT
23702667 AATATATAT-TTTTTAGC
1 AATATATATATTTTTAGC
23702684 AATATATATATTTTTAG
1 AATATATATATTTTTAG
23702701 ATTCACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (18 bp):
AATATATATATTTTTAGC
Found at i:23707701 original size:6 final size:6
Alignment explanation
Indices: 23707692--23707731 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
23707682 AAAAAAAAGA
* * *
23707692 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
23707732 GAGAGAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:23708666 original size:14 final size:14
Alignment explanation
Indices: 23708615--23708667 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 14
23708605 CTTTGAGTAA
23708615 AAAAAATCGAAAAGT
1 AAAAAAT-GAAAAGT
23708630 GAAAAAATGAAAAAGT
1 -AAAAAATG-AAAAGT
* *
23708646 -GAGAATGAAAAGT
1 AAAAAATGAAAAGT
23708659 AAAAAATGA
1 AAAAAATGA
23708668 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 6 0.19
14 11 0.35
15 1 0.03
16 13 0.42
ACGTcount: A:0.66, C:0.02, G:0.19, T:0.13
Consensus pattern (14 bp):
AAAAAATGAAAAGT
Found at i:23718040 original size:26 final size:24
Alignment explanation
Indices: 23718011--23718079 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
23718001 GGACTCACCA
23718011 CAGCTTGTATGAGCTTACCGATATAT
1 CAGCTTGTATGAGCTTACCGAT-T-T
23718037 CAGCTCT-TATGAGCTTACC-ATTT
1 CAGCT-TGTATGAGCTTACCGATTT
*
23718060 CAGCTCG-ATAGAGCTTACCG
1 CAGCTTGTAT-GAGCTTACCG
23718080 TTCTTTAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 1 0.03
25 2 0.05
26 17 0.45
27 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (24 bp):
CAGCTTGTATGAGCTTACCGATTT
Found at i:23718073 original size:23 final size:26
Alignment explanation
Indices: 23718018--23718079 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 26
23718008 CCACAGCTTG
*
23718018 TATGAGCTTACCGATATATCAGCTCT
1 TATGAGCTTACCGATATATCAGCTCA
23718044 TATGAGCTTACC-AT-T-TCAGCTCGA
1 TATGAGCTTACCGATATATCAGCTC-A
23718068 TA-GAGCTTACCG
1 TATGAGCTTACCG
23718080 TTCTTTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 16 0.48
24 3 0.09
25 2 0.06
26 12 0.36
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
TATGAGCTTACCGATATATCAGCTCA
Found at i:23720923 original size:40 final size:40
Alignment explanation
Indices: 23720865--23720940 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
23720855 TCTCAACTTC
* *
23720865 ATACTTGATGATTAATCTTAGTGCATTATGTTGGAACATT
1 ATACTTGATAATTAATCTTAGTGCATTATGGTGGAACATT
*
23720905 ATACTTGATAATTCATCTTAGTGCATTATGGTGGAA
1 ATACTTGATAATTAATCTTAGTGCATTATGGTGGAA
23720941 TATAAAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (40 bp):
ATACTTGATAATTAATCTTAGTGCATTATGGTGGAACATT
Found at i:23725165 original size:37 final size:37
Alignment explanation
Indices: 23725095--23725165 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
23725085 AATTTTTATA
* * *
23725095 TTTTTTAAATTTGTAATATATTTATATATTTTTTGAG
1 TTTTTTAAATTTCTAATATATTTATAAAATTTTTGAG
*
23725132 TTTTTTAATTTTTCTAAT-TATTTATAAAATTTTT
1 TTTTTTAA-ATTTCTAATATATTTATAAAATTTTT
23725166 ACATATACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 22 0.76
38 7 0.24
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (37 bp):
TTTTTTAAATTTCTAATATATTTATAAAATTTTTGAG
Found at i:23733263 original size:24 final size:25
Alignment explanation
Indices: 23733234--23733283 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
23733224 AAATCGAGTT
*
23733234 TCTTTTCTCAGTTAAACTCT-ATTA
1 TCTTTTCTCAATTAAACTCTAATTA
*
23733258 TCTTTTCTCAATTAAAGTCTAATTA
1 TCTTTTCTCAATTAAACTCTAATTA
23733283 T
1 T
23733284 TCTAGGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.50
Consensus pattern (25 bp):
TCTTTTCTCAATTAAACTCTAATTA
Found at i:23735222 original size:108 final size:108
Alignment explanation
Indices: 23735023--23735253 Score: 390
Period size: 108 Copynumber: 2.1 Consensus size: 108
23735013 TTGGCAATTT
* * *
23735023 AGAAAACTAAAAGTCTTCCAATTTTAAAGTTCAAGCACTATTTAGACTCGGTTAATATTCTGTAA
1 AGAAAA-TACAAGTCTTCCAATTTCAAAGTTCAAGCACTATTTAGACTCGGTTAATATCCTGTAA
23735088 AGAACAAGTTAGGCCCATGACAGGTATTGGCAAAGAAGACGTTG
65 AGAACAAGTTAGGCCCATGACAGGTATTGGCAAAGAAGACGTTG
* * *
23735132 AGAAAATACAAGTCTTCCAGTTTCAAGGTTCAAGCACTATTTAGACTCGGTTAGTATCCTGTAAA
1 AGAAAATACAAGTCTTCCAATTTCAAAGTTCAAGCACTATTTAGACTCGGTTAATATCCTGTAAA
*
23735197 GAACAAGTTAGGCCCATGACAGGTATTGGCAAAGAAGGCGTTG
66 GAACAAGTTAGGCCCATGACAGGTATTGGCAAAGAAGACGTTG
23735240 AGAAAATACAAGTC
1 AGAAAATACAAGTC
23735254 AAGGTGGAGG
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 109 0.95
109 6 0.05
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (108 bp):
AGAAAATACAAGTCTTCCAATTTCAAAGTTCAAGCACTATTTAGACTCGGTTAATATCCTGTAAA
GAACAAGTTAGGCCCATGACAGGTATTGGCAAAGAAGACGTTG
Found at i:23742945 original size:85 final size:84
Alignment explanation
Indices: 23742802--23743081 Score: 305
Period size: 85 Copynumber: 3.3 Consensus size: 84
23742792 TTCCCCGAGC
** * * *
23742802 GGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTGATCCTACC
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATCC-ACC
** * *
23742867 GTATTTTTTATTATGAATGG
65 GTATCCTTGATTATGAAAGG
*
23742887 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGA-TCCACC
*
23742952 GTATCCTTGATTGTGAAAGG
65 GTATCCTTGATTATGAAAGG
* * * * *
23742972 GGTTGTTATGTGCTAATTCCCCGTATCATTGATTAT-AAGGTGCTTGCTAAGTGCTGATTCCACC
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGA-TCCACC
* **
23743036 GGGATCCTTTGAACATG--AGG
65 -GTATCC-TTGATTATGAAAGG
23743056 TGGTTGCTAAGTGCTGATTCCACCGT
1 -GGTTGCTAAGTGCTGATTCC-CCGT
23743082 GTAACGATTA
Statistics
Matches: 166, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
84 30 0.18
85 123 0.74
86 13 0.08
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (84 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATCCACCG
TATCCTTGATTATGAAAGG
Found at i:23743063 original size:44 final size:42
Alignment explanation
Indices: 23742802--23743081 Score: 232
Period size: 42 Copynumber: 6.6 Consensus size: 42
23742792 TTCCCCGAGC
** ** * *
23742802 GGTTGCTAAGTGCTGATTCC-CCAAATTATTGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT-AAGGT
** * *
23742844 GGTTGCTAAGTGCTGA-TCCTACCGTATTTTTTATTATGAATGG-
1 GGTTGCTAAGTGCTGATTCC-ACCGTATCCTTGAATAT-AA-GGT
23742887 GGTTGCTAAGTGCTGATTCC-CCGTATCAC-TGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATC-CTTGAATAT-AAGGT
* *
23742929 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT--AAGGT
* * * * *
23742972 GGTTGTTATGTGCTAATTCC-CCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATATAAGGT
* * * *
23743013 GCTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGAATATAAGGT
23743057 GGTTGCTAAGTGCTGATTCCACCGT
1 GGTTGCTAAGTGCTGATTCCACCGT
23743082 GTAACGATTA
Statistics
Matches: 195, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
40 4 0.02
41 21 0.11
42 66 0.34
43 62 0.32
44 42 0.22
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATATAAGGT
Found at i:23746911 original size:24 final size:23
Alignment explanation
Indices: 23746851--23746935 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
23746841 TCCAGGCTGT
23746851 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
* **
23746874 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
* ** *
23746898 AATAACGGGTAGCTCCGAAAAGCC
1 -ATAACGGGAAGCTCATAAGAGCC
*
23746922 ATTCACGGGAAGCT
1 A-TAACGGGAAGCT
23746936 TCGGATAGCC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
23 5 0.11
24 38 0.81
25 4 0.09
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:23754845 original size:9 final size:9
Alignment explanation
Indices: 23754831--23754861 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23754821 GTTAAACGAA
23754831 TCGAGTTAT
1 TCGAGTTAT
*
23754840 TCGAGTTAA
1 TCGAGTTAT
23754849 TCGAGTTAT
1 TCGAGTTAT
23754858 TCGA
1 TCGA
23754862 ATCAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23754929 original size:9 final size:9
Alignment explanation
Indices: 23754912--23754948 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23754902 TGAGTTTTCG
23754912 AATTCGAAT
1 AATTCGAAT
*
23754921 AACTCGAAT
1 AATTCGAAT
*
23754930 AATTTGAAT
1 AATTCGAAT
23754939 AATTCGAAT
1 AATTCGAAT
23754948 A
1 A
23754949 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23755499 original size:17 final size:17
Alignment explanation
Indices: 23755479--23755525 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
23755469 CACATTTTAT
23755479 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
23755496 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
23755514 A-TATTTATATTA
1 ATTATTTATATTA
23755526 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:23758392 original size:16 final size:16
Alignment explanation
Indices: 23758371--23758437 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
23758361 GGTTCACTGG
23758371 AATGGAATAAGGTTGT
1 AATGGAATAAGGTTGT
* * *
23758387 AATGGAATAGGGCTAT
1 AATGGAATAAGGTTGT
* **
23758403 AATGGAACAAAATTGT
1 AATGGAATAAGGTTGT
*
23758419 AATGAAAT-AGAGTTGT
1 AATGGAATAAG-GTTGT
23758435 AAT
1 AAT
23758438 CAATGATTCA
Statistics
Matches: 37, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
15 1 0.03
16 36 0.97
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.28
Consensus pattern (16 bp):
AATGGAATAAGGTTGT
Found at i:23758474 original size:46 final size:42
Alignment explanation
Indices: 23758416--23758503 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 42
23758406 GGAACAAAAT
*
23758416 TGTAATGAAATAGAGTTGTAATCAATGATTCAATTGTTTGGTTGAA
1 TGTAATGAAATAGAATTGTAAT-AAT-ATT--ATTGTTTGGTTGAA
*
23758462 TGTAATGGAATAGAATTGTAATAATATTATTGTTTGGTTGAA
1 TGTAATGAAATAGAATTGTAATAATATTATTGTTTGGTTGAA
23758504 AGGAATAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 14 0.35
44 3 0.08
45 3 0.08
46 20 0.50
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (42 bp):
TGTAATGAAATAGAATTGTAATAATATTATTGTTTGGTTGAA
Found at i:23759786 original size:40 final size:41
Alignment explanation
Indices: 23759740--23759818 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
23759730 AAATCTTGTC
**
23759740 ATTATAATTTTAAGGTA-ATCTTCTATTAATTTAAAAATAG
1 ATTATAATTTTAAAATATATCTTCTATTAATTTAAAAATAG
*
23759780 ATTATAATTTTAAAATATTATTTTCTATTAATTTAAAAA
1 ATTATAATTTTAAAATA-TATCTTCTATTAATTTAAAAA
23759819 ATGGATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 15 0.44
42 19 0.56
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (41 bp):
ATTATAATTTTAAAATATATCTTCTATTAATTTAAAAATAG
Found at i:23765404 original size:25 final size:25
Alignment explanation
Indices: 23765375--23765424 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23765365 AATTGTACTA
23765375 AATTGTAACAAATTGATAATTTTAC
1 AATTGTAACAAATTGATAATTTTAC
23765400 AATTGTAACAAATTGATAATTTTAC
1 AATTGTAACAAATTGATAATTTTAC
23765425 TATCATTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (25 bp):
AATTGTAACAAATTGATAATTTTAC
Found at i:23768982 original size:18 final size:18
Alignment explanation
Indices: 23768938--23768985 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
23768928 GCAATAAAAA
23768938 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* * *
23768956 AACGATTTGTACA-TGAAT
1 AATGTTTTG-AAATTGAAT
23768974 AATGTTTTGAAA
1 AATGTTTTGAAA
23768986 ACGAACGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:23780701 original size:16 final size:16
Alignment explanation
Indices: 23780680--23780711 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23780670 AATTGGGTTG
*
23780680 AAAAAATTATTTAATT
1 AAAAAATTAATTAATT
23780696 AAAAAATTAATTAATT
1 AAAAAATTAATTAATT
23780712 TAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAATTAATTAATT
Found at i:23782398 original size:20 final size:20
Alignment explanation
Indices: 23782373--23782433 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
23782363 GTGATCTTGA
23782373 GTAGAAGTAGACTTGTATTG
1 GTAGAAGTAGACTTGTATTG
*
23782393 GTAGAAGTGGACTTGTATTG
1 GTAGAAGTAGACTTGTATTG
* * *
23782413 ATACAACTAGGACTTGTATTG
1 GTAGAAGTA-GACTTGTATTG
23782434 ATACAACTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 24 0.69
21 11 0.31
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (20 bp):
GTAGAAGTAGACTTGTATTG
Found at i:23782427 original size:21 final size:21
Alignment explanation
Indices: 23782382--23782446 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
23782372 AGTAGAAGTA
* * *
23782382 GACTTGTATTGGTAGAAGT-G
1 GACTTGTATTGATACAACTAG
23782402 GACTTGTATTGATACAACTAG
1 GACTTGTATTGATACAACTAG
23782423 GACTTGTATTGATACAACTAG
1 GACTTGTATTGATACAACTAG
23782444 GAC
1 GAC
23782447 ATGTTATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (21 bp):
GACTTGTATTGATACAACTAG
Found at i:23782816 original size:17 final size:19
Alignment explanation
Indices: 23782782--23782830 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
23782772 AAAAATATTT
23782782 AAAAAGTTATATAA-CTTA-C
1 AAAAAG-TATA-AAGCTTAGC
*
23782801 AAAAA-TATAAAGCTTAGG
1 AAAAAGTATAAAGCTTAGC
23782819 AAAAAGTATAAA
1 AAAAAGTATAAA
23782831 AAAACTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.08
17 8 0.31
18 5 0.19
19 11 0.42
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAAGTATAAAGCTTAGC
Found at i:23785906 original size:27 final size:27
Alignment explanation
Indices: 23785851--23785907 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23785841 TTTTTATACT
* *
23785851 TTTTTAAATAATTTTAAATTTTAATAA
1 TTTTTAAATAATTTTAAATTTAAAAAA
*
23785878 TTTTTATA-AATTTTAAAATTTAAAAAA
1 TTTTTAAATAATTTT-AAATTTAAAAAA
23785905 TTT
1 TTT
23785908 AATTCTTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTAAATAATTTTAAATTTAAAAAA
Found at i:23793795 original size:27 final size:26
Alignment explanation
Indices: 23793744--23793839 Score: 97
Period size: 25 Copynumber: 3.7 Consensus size: 26
23793734 GTTCTGACCT
* * *
23793744 ACAGCTCGTGTGAGCAGACCCATTTTC
1 ACAGCTCATGTGAGCATA-CCAATTTC
* *
23793771 ACAGCTCGTGTGAGCATACTAATTT-
1 ACAGCTCATGTGAGCATACCAATTTC
* *
23793796 ACAGCTCATGTAAGCATACCGA-TTC
1 ACAGCTCATGTGAGCATACCAATTTC
*
23793821 ACAGCTCATGCGAGCATAC
1 ACAGCTCATGTGAGCATAC
23793840 ATGTACAGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.03
25 35 0.59
26 5 0.08
27 17 0.29
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (26 bp):
ACAGCTCATGTGAGCATACCAATTTC
Found at i:23799449 original size:41 final size:41
Alignment explanation
Indices: 23799393--23799494 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
23799383 TGATTCAGTA
* *
23799393 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACATATAGTCTGAAATATTT
** * * * * *
23799434 CATGGGCATTAAGCCTGCTAGACATTTTGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACATATAGTCTGAAATATTT
23799475 CACCGGCAATAAGCCTGCTA
1 CACCGGCAATAAGCCTGCTA
23799495 AGCTCTAAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:23803511 original size:16 final size:16
Alignment explanation
Indices: 23803490--23803525 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23803480 TTTGGTTCGC
23803490 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23803506 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23803522 TGTA
1 TGTA
23803526 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23803590 original size:44 final size:45
Alignment explanation
Indices: 23803506--23803596 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
23803496 GGATTAGAGG
* * *
23803506 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
23803551 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
23803595 TG
1 TG
23803597 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:23803781 original size:18 final size:17
Alignment explanation
Indices: 23803760--23803794 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23803750 TTATTATTAA
*
23803760 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23803778 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23803795 TCTGAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23803840 original size:61 final size:60
Alignment explanation
Indices: 23803769--23803965 Score: 152
Period size: 61 Copynumber: 3.3 Consensus size: 60
23803759 AATATATTTT
* *
23803769 AATTAAAATATATAATTTAATAAAATTCTGAATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATAATTTAATAAAATTCT-AATAATCAATATTCTTATATGAATTTACTAA
* * * * * * * * **
23803830 AATCATAATATATGATACT-ATAAAA-TATAATTTAA-C-ATAATTATTAT-TAAATATATTTT
1 AATTATAATATATAAT-TTAATAAAATTCTAA--TAATCAAT-ATTCTTATATGAATTTACTAA
* * * * *
23803889 AATTAAAATATATGATTTAATCAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATTATAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATATGAATTTACTAA
23803950 AATTATAATATATAAT
1 AATTATAATATATAAT
23803966 AGTATAAAAT
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
58 1 0.01
59 32 0.32
60 18 0.18
61 48 0.48
62 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
AATTATAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAA
Found at i:23803878 original size:120 final size:120
Alignment explanation
Indices: 23803738--23804004 Score: 435
Period size: 120 Copynumber: 2.2 Consensus size: 120
23803728 ATTTAATCAT
23803738 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTGAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTGAATA
* * *
23803803 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* * * *
23803859 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATCAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTGAATAA
* *
23803924 TAAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
23803979 ATATAACATAATTATTATTAAATATA
1 ATTTAACATAATTATTATTAAATATA
23804005 ATCAATTTTT
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
120 132 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTGAATAA
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:23806469 original size:18 final size:18
Alignment explanation
Indices: 23806446--23806480 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23806436 GTTTCAGACG
23806446 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
23806464 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
23806481 GACGGCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:23807989 original size:216 final size:216
Alignment explanation
Indices: 23807576--23808263 Score: 1092
Period size: 217 Copynumber: 3.2 Consensus size: 216
23807566 GGATTATCGG
* * * * * *
23807576 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGCTTACTCAGTCTGCTCCGCTGCAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
* **
23807641 CCTCAAGGAGATAAGACCCGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
* *
23807706 TTTAA-TCTGCTCCACTACAACTTCATGGAGATAGGATTATCGACTTCAATCTGCTCCTTGTAAC
131 TTTAATTC-GCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC-TGCAAC
* * *
23807770 CTCAGTGAGATAAGGTTTGCTTT
194 CTCAGAGAGACAAGATTTGCTTT
*
23807793 CTTTGATCTGCCCCACTGCAACCTCA-GGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
*
23807857 CCTCAGGGAGATAAGAGTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
* *
23807922 TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTACCTGCAACC
131 TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT-CCTGCAACC
*
23807987 TCAGGGAGACAAGATTTGCTTT
195 TCAGAGAGACAAGATTTGCTTT
* *
23808009 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTACAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
*
23808074 CCTCAGGGAGATAAGACTTGATGCGATCCATTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
* * *
23808139 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAACTTCAATCTGCTCTCTACAACC
131 TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTC-CTGCAACC
23808204 TCAGAGAGACAAGATTTGCTTT
195 TCAGAGAGACAAGATTTGCTTT
*
23808226 CTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGAC
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGAC
23808264 CTGTTTGATA
Statistics
Matches: 437, Mismatches: 30, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
216 196 0.45
217 241 0.55
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (216 bp):
CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCTGCAACCT
CAGAGAGACAAGATTTGCTTT
Found at i:23808164 original size:44 final size:44
Alignment explanation
Indices: 23807576--23808262 Score: 336
Period size: 44 Copynumber: 15.8 Consensus size: 44
23807566 GGATTATCGG
* * *
23807576 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGCTTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-ATTA
* * * ***
23807621 C-TCAGTCTGCTCCGCTGCAACCTCAAGGAGATAAGA-C-CCGA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * ** * * *
23807662 -TGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * * * * *
23807705 CTTTAATCTGCTCCACTACAACTTCATGGAGATAGGAT-TATCGA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTAT-TA
* * * * * * *
23807749 CTTCAATCTGCTCC-TTGTAACCTCAGTGAGATAAGGTTTGCTTT
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-ATTA
** * *
23807793 CTTTGATCTGCCCCACTGCAACCTCAGGG-GATAAGA-CTTGCTTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATC-T-ATTA
* * *
23807837 C-TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA-GT-TGA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * ** * * *
23807878 -TGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * * * **
23807921 CTTTAAT-TCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGG
1 CTTCAATCT-GCTCCACTGCAACCTCAGGGAGATAAGATCTAT-TA
* * * * * *
23807965 CTTCAATCTACTAC-CTGCAACCTCAGGGAGACAAGATTTGCTTT
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-ATTA
* * * * *
23808009 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-ATTA
* * *
23808054 C-TCAGTCTGCTCCACTACAACCTCAGGGAGATAAGA-CT-TGA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * *** * * *
23808095 -TGCGATCCATTCTACTGCAACTTCAGAGAGATAAGATCTATTA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
* * * * * *
23808138 CTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCAA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTAT-TA
* * * * * * *
23808182 CTTCAATCTGCT-CTCTACAACCTCAGAGAGACAAGATTTGCTTT
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-ATTA
* * * *
23808226 CTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGA
1 CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
23808263 CCTGTTTGAT
Statistics
Matches: 471, Mismatches: 143, Indels: 56
0.70 0.21 0.08
Matches are distributed among these distances:
41 83 0.18
42 4 0.01
43 94 0.20
44 230 0.49
45 60 0.13
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTA
Found at i:23809483 original size:9 final size:8
Alignment explanation
Indices: 23809469--23809525 Score: 50
Period size: 7 Copynumber: 7.5 Consensus size: 8
23809459 GGCCTCTCCA
23809469 TTTTTACTT
1 TTTTTA-TT
23809478 TTTTTA-T
1 TTTTTATT
23809485 TTTTTA-T
1 TTTTTATT
*
23809492 TTTTCA-T
1 TTTTTATT
*
23809499 TTTTCA-T
1 TTTTTATT
*
23809506 TTTTTGTT
1 TTTTTATT
23809514 TTTTTATT
1 TTTTTATT
23809522 TTTT
1 TTTT
23809526 GTTTTTGACT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.58
8 12 0.28
9 6 0.14
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:23809487 original size:7 final size:7
Alignment explanation
Indices: 23809477--23809531 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
23809467 CATTTTTACT
23809477 TTTTTTA
1 TTTTTTA
23809484 TTTTTTA
1 TTTTTTA
*
23809491 TTTTTCA
1 TTTTTTA
*
23809498 TTTTTCA
1 TTTTTTA
*
23809505 TTTTTTGT
1 TTTTTT-A
23809513 TTTTTTA
1 TTTTTTA
*
23809520 TTTTTTG
1 TTTTTTA
23809527 TTTTT
1 TTTTT
23809532 GACTCAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 36 0.86
8 6 0.14
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:23809499 original size:29 final size:29
Alignment explanation
Indices: 23809467--23809524 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
23809457 TTGGCCTCTC
23809467 CATTTTT-ACTTTTTT-TATTTTTTATTTTT
1 CATTTTTCA-TTTTTTGT-TTTTTTATTTTT
23809496 CATTTTTCATTTTTTGTTTTTTTATTTTT
1 CATTTTTCATTTTTTGTTTTTTTATTTTT
23809525 TGTTTTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (29 bp):
CATTTTTCATTTTTTGTTTTTTTATTTTT
Found at i:23809526 original size:15 final size:15
Alignment explanation
Indices: 23809469--23809531 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
23809459 GGCCTCTCCA
23809469 TTTTTACTTTTTT-TAT
1 TTTTTA-TTTTTTGT-T
**
23809485 TTTTTA-TTTTTCAT
1 TTTTTATTTTTTGTT
*
23809499 TTTTCATTTTTTGTT
1 TTTTTATTTTTTGTT
23809514 TTTTTATTTTTTGTT
1 TTTTTATTTTTTGTT
23809529 TTT
1 TTT
23809532 GACTCAAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.28
15 23 0.57
16 6 0.15
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTTGTT
Found at i:23810357 original size:18 final size:17
Alignment explanation
Indices: 23810336--23810375 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23810326 TTGACTTTGA
*
23810336 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTCTT-TTTTTC
*
23810354 TTTTTCTTCTTTTTTTG
1 TTTTTCTTCTTTTTTTC
23810371 TTTTT
1 TTTTT
23810376 GATCTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTCTTCTTTTTTTC
Found at i:23810376 original size:6 final size:6
Alignment explanation
Indices: 23810336--23810375 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
23810326 TTGACTTTGA
* *
23810336 TTTTTC TTTTTC TTTTTC TTTTTC TTCTT- TTTTTG TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
23810376 GATCTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:23824669 original size:14 final size:15
Alignment explanation
Indices: 23824650--23824689 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
23824640 AAAAGGGTCC
*
23824650 AGTTGAACCGCAT-T
1 AGTTGAACCGAATCT
23824664 AGTTGAACCGAATCT
1 AGTTGAACCGAATCT
23824679 AG-TGAACCGAA
1 AGTTGAACCGAA
23824690 CCAGCCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (15 bp):
AGTTGAACCGAATCT
Found at i:23828353 original size:12 final size:12
Alignment explanation
Indices: 23828326--23828359 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
23828316 TTAGTTTAGG
23828326 CTTAG-TTTTC-
1 CTTAGCTTTTCT
23828336 CTTAGCTTTTCT
1 CTTAGCTTTTCT
23828348 CTTAGCTTTTCT
1 CTTAGCTTTTCT
23828360 TCTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 5 0.23
12 12 0.55
ACGTcount: A:0.09, C:0.24, G:0.09, T:0.59
Consensus pattern (12 bp):
CTTAGCTTTTCT
Found at i:23831005 original size:17 final size:16
Alignment explanation
Indices: 23830976--23831010 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23830966 AGTTCAGGGG
23830976 CATTTTTATAATTTTC
1 CATTTTTATAATTTTC
*
23830992 CATTTTTCTCAATTTTC
1 CATTTTTAT-AATTTTC
23831009 CA
1 CA
23831011 CCCGATCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (16 bp):
CATTTTTATAATTTTC
Found at i:23841173 original size:89 final size:88
Alignment explanation
Indices: 23841022--23841193 Score: 317
Period size: 89 Copynumber: 1.9 Consensus size: 88
23841012 GCTCTTGATA
*
23841022 AAAAATGAATTGTAATAGAGAGTATTTATAACTTATTGGCTTGATGCGTACAACACGTAAATTAA
1 AAAAATGAATTGTAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATTAA
23841087 CATAATTTCATGTTGAAAAAGGTC
66 CATAATTTCATGTT-AAAAAGGTC
*
23841111 AAAAATGAATTGTAATGGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATTAA
1 AAAAATGAATTGTAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATTAA
23841176 CATAATTTCATGTTAAAA
66 CATAATTTCATGTTAAAA
23841194 TAGGAAGTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
88 4 0.05
89 77 0.95
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (88 bp):
AAAAATGAATTGTAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATTAA
CATAATTTCATGTTAAAAAGGTC
Found at i:23845027 original size:24 final size:25
Alignment explanation
Indices: 23844950--23845087 Score: 147
Period size: 25 Copynumber: 5.6 Consensus size: 25
23844940 CAACTCATAT
* *
23844950 GAGCTTACCGGTTCGCAACTTGTGA
1 GAGCTTACCGATTCGCAACTCGTGA
*
23844975 GAGCTTACCGGTTCGCAACTCGTGA
1 GAGCTTACCGATTCGCAACTCGTGA
* *
23845000 GAGCTTACCGATTTGTAAC-CGTGA
1 GAGCTTACCGATTCGCAACTCGTGA
* *
23845024 GAGCTTACCGATTCTCAGCTCGT-A
1 GAGCTTACCGATTCGCAACTCGTGA
* *
23845048 TGAGCTTACCGATTTC-CAGCTTGTGA
1 -GAGCTTACCGA-TTCGCAACTCGTGA
*
23845074 GAGCATACCGATTC
1 GAGCTTACCGATTC
23845088 ATAGCTCATA
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
24 24 0.24
25 71 0.72
26 4 0.04
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGATTCGCAACTCGTGA
Found at i:23854661 original size:18 final size:19
Alignment explanation
Indices: 23854640--23854685 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23854630 TCTAAAAAAT
23854640 AAAATAAAACAACTAA-TGA
1 AAAATAAAACAAC-AACTGA
*
23854659 AAAATAAAAGAACAACTG-
1 AAAATAAAACAACAACTGA
23854677 AAAATAAAA
1 AAAATAAAA
23854686 ATAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.13
Consensus pattern (19 bp):
AAAATAAAACAACAACTGA
Found at i:23859825 original size:32 final size:32
Alignment explanation
Indices: 23859788--23859852 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
23859778 TTGCATTCAG
* *
23859788 ATATCAGATTTATATAAGTAGCAGAATAATCA
1 ATATCAGATATATACAAGTAGCAGAATAATCA
23859820 ATATCAGATATATACAAGTAGCAGAATAATCA
1 ATATCAGATATATACAAGTAGCAGAATAATCA
23859852 A
1 A
23859853 ACGTGCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (32 bp):
ATATCAGATATATACAAGTAGCAGAATAATCA
Found at i:23860900 original size:9 final size:10
Alignment explanation
Indices: 23860877--23860905 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
23860867 GTGTAGAACT
23860877 TTTTTTAAAA
1 TTTTTTAAAA
23860887 TTTTTTAAAA
1 TTTTTTAAAA
23860897 TTTTTTAAA
1 TTTTTTAAA
23860906 GTAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:23863732 original size:6 final size:6
Alignment explanation
Indices: 23863709--23863752 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
23863699 AAATTGAATG
* *
23863709 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
23863753 AATTGCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:23863739 original size:20 final size:19
Alignment explanation
Indices: 23863710--23863753 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
23863700 AATTGAATGT
*
23863710 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
23863729 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
23863749 AAAAA
1 AAAAA
23863754 ATTGCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:23863754 original size:14 final size:14
Alignment explanation
Indices: 23863722--23863755 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23863712 AAATTAAATT
*
23863722 AAAAATAAAAATAT
1 AAAAATAAAAATAA
*
23863736 TAAAATAAAAATAA
1 AAAAATAAAAATAA
23863750 AAAAAT
1 AAAAAT
23863756 TGCCAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:23869052 original size:82 final size:81
Alignment explanation
Indices: 23868936--23869091 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
23868926 AAATTGTACA
* * * *
23868936 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
23869000 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23869017 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
23869082 TGCGAGTTGA
65 TGCGAATTGA
23869092 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23869059 original size:55 final size:52
Alignment explanation
Indices: 23868935--23869088 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
23868925 TAAATTGTAC
* *
23868935 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
23868988 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
23869043 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
23869089 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:23869093 original size:27 final size:27
Alignment explanation
Indices: 23868936--23869091 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
23868926 AAATTGTACA
*
23868936 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
23868963 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
23868990 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
23869017 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
23869045 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
23869072 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
23869092 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:23869102 original size:27 final size:27
Alignment explanation
Indices: 23868928--23869112 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
23868918 GCGGGATTAA
*
23868928 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
23868955 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
23868982 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
23869009 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
23869037 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
23869064 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
23869091 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
23869113 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:23869103 original size:82 final size:82
Alignment explanation
Indices: 23868905--23869112 Score: 213
Period size: 82 Copynumber: 2.5 Consensus size: 82
23868895 ACCATGAGAT
* * * * * *
23868905 TGGCACTAAGTGCGCGGGATTAAATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAA
1 TGGCACTAAGTGTGCGAG-TT-GATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAA
*
23868970 GTGTGCGAAATGAATATGA
64 GTGTGCGAAATGAATACGA
* *** * *
23868989 T-GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAG
1 TGGCACTAAGTGTGCGAGTTGATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAG
** *
23869053 TGTGCGATTTGATTACG-
65 TGTGCGAAATGAATACGA
* *
23869070 TGGCACTAAGTGTGCGAGTTGATTGTATAGCACTGAGTGTGCG
1 TGGCACTAAGTGTGCGAGTTGATTGTACAGCACTAAGTGTGCG
23869113 GGCTCAATAT
Statistics
Matches: 98, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
81 21 0.21
82 63 0.64
83 13 0.13
84 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (82 bp):
TGGCACTAAGTGTGCGAGTTGATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGT
GTGCGAAATGAATACGA
Found at i:23877153 original size:82 final size:81
Alignment explanation
Indices: 23877037--23877192 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
23877027 AAATTGTACA
* * * *
23877037 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
23877101 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23877118 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
23877183 TGCGAGTTGA
65 TGCGAATTGA
23877193 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23877160 original size:55 final size:52
Alignment explanation
Indices: 23877036--23877189 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
23877026 TAAATTGTAC
* *
23877036 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
23877089 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
23877144 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
23877190 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:23877194 original size:27 final size:27
Alignment explanation
Indices: 23877037--23877192 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
23877027 AAATTGTACA
*
23877037 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
23877064 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
23877091 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
23877118 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
23877146 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
23877173 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
23877193 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:23877203 original size:27 final size:27
Alignment explanation
Indices: 23877029--23877213 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
23877019 GCGGGATTAA
*
23877029 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
23877056 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
23877083 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
23877110 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
23877138 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
23877165 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
23877192 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
23877214 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:23877204 original size:82 final size:81
Alignment explanation
Indices: 23877029--23877213 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
23877019 GCGGGATTAA
* * * *
23877029 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
23877094 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
23877110 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
23877174 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
23877192 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
23877214 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:23879598 original size:24 final size:24
Alignment explanation
Indices: 23879577--23879628 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23879567 AATCAATGTC
*
23879577 AAATATATTATGCTAACAAATGCT
1 AAATATATTATACTAACAAATGCT
* *
23879601 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAACAAATGCT
23879625 AAAT
1 AAAT
23879629 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAACAAATGCT
Found at i:23887553 original size:23 final size:24
Alignment explanation
Indices: 23887510--23887554 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23887500 ACCATTTTTT
*
23887510 TTAAAACAAAAATTAGTAGTCGAC
1 TTAAAACAAAAATTAGGAGTCGAC
23887534 TTAAAACAAAAATT-GGAGTCG
1 TTAAAACAAAAATTAGGAGTCG
23887555 CCACCGATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (24 bp):
TTAAAACAAAAATTAGGAGTCGAC
Found at i:23888714 original size:14 final size:13
Alignment explanation
Indices: 23888684--23888722 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
23888674 ATGAAGAGCT
*
23888684 TAATAATAACA-A
1 TAATAATAATACA
23888696 TAATAATATATACA
1 TAATAATA-ATACA
23888710 TAATAATAATACA
1 TAATAATAATACA
23888723 AAAAGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 7 0.29
14 9 0.38
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAATACA
Found at i:23890954 original size:33 final size:35
Alignment explanation
Indices: 23890899--23890966 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
23890889 ATTCTATAGT
* *
23890899 TTTTAATTATGTCTTGATCATTAAGTG-TTTGCATC
1 TTTTAATTATGACATGA-CATTAAGTGTTTTGCATC
*
23890934 TTTTAATTATGACATG-CATTATGTGTTTTGCAT
1 TTTTAATTATGACATGACATTAAGTGTTTTGCAT
23890967 TAAATAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 7 0.24
35 14 0.48
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (35 bp):
TTTTAATTATGACATGACATTAAGTGTTTTGCATC
Found at i:23891117 original size:49 final size:52
Alignment explanation
Indices: 23891050--23891156 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 52
23891040 TGTTAGTTAA
* *
23891050 AGTTTGCATCATTAAATTAAGTCATGCA-TTAAGTAACTTATTTGTTCATTT
1 AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
* * *
23891101 AGTTTACATC-TT-AATTAAGTCTTGCATTTAAGCATCTTGTTTGTTCATTT
1 AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
23891151 AGTTTA
1 AGTTTA
23891157 AAGCATGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 13 0.26
50 28 0.56
51 9 0.18
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (52 bp):
AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
Found at i:23895889 original size:18 final size:18
Alignment explanation
Indices: 23895866--23895903 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23895856 CTAGACTTAA
23895866 TATAGCTCAACTTTGTTT
1 TATAGCTCAACTTTGTTT
23895884 TATAGCTCAACTTTGTTT
1 TATAGCTCAACTTTGTTT
23895902 TA
1 TA
23895904 CTTGCTCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (18 bp):
TATAGCTCAACTTTGTTT
Found at i:23900185 original size:6 final size:6
Alignment explanation
Indices: 23900169--23900199 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
23900159 CTAGAGATTG
23900169 AAAACT AAAAACT AAAACT AAAACT AAAACT
1 AAAACT -AAAACT AAAACT AAAACT AAAACT
23900200 GCTTTCAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAACT
Found at i:23908011 original size:6 final size:6
Alignment explanation
Indices: 23908002--23908032 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
23907992 CATGGCCATG
23908002 GCCACA GCCACA GCCACA GCCACA GCCACA G
1 GCCACA GCCACA GCCACA GCCACA GCCACA G
23908033 TCGTGGCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.48, G:0.19, T:0.00
Consensus pattern (6 bp):
GCCACA
Found at i:23908041 original size:18 final size:18
Alignment explanation
Indices: 23907996--23908042 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23907986 CATCATCATG
23907996 GCCATGGCCACAGCCACA
1 GCCATGGCCACAGCCACA
**
23908014 GCCACAGCCACAGCCACA
1 GCCATGGCCACAGCCACA
* *
23908032 GTCGTGGCCAC
1 GCCATGGCCAC
23908043 GTTCATTCTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.45, G:0.23, T:0.06
Consensus pattern (18 bp):
GCCATGGCCACAGCCACA
Found at i:23909858 original size:173 final size:171
Alignment explanation
Indices: 23909557--23910034 Score: 638
Period size: 173 Copynumber: 2.8 Consensus size: 171
23909547 ATTTCGAAGT
* * ** * *
23909557 GGTCGTTTGCTACAAATTGGTAGGGTGTTCCATTTTTGTAATTTATTATGTTTTTTGGATTATTG
1 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
* * **
23909622 GGGTAAAAAGGTCAAGAAACGGTGTATGGTACAACATTTTTACCTAGGTAATATTAAAAAATAAT
66 GGGTAAATAGGTCAAGAAAC-GTGTATGGTACAACAATTTTACCTAAATAATA-TAAAAAATAAT
** * * *
23909687 TAAATACGGAAATGGGTAACCTTACAAATTAAGTACCTAAAT-
129 TAAATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATA
** * *
23909729 GGATTGTTTGTTTCAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTAT
1 GG-TCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATG-TTTTTTGGATTAT
* * *
23909794 TGGGGTAAATAGGTCAAGAAACAGTGTATGGTGCAATAATTTTACCTAAACAATATAAAAAATAA
64 TGGGGTAAATAGGTCAAGAAAC-GTGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAA
* *
23909859 TTAAATACAAAAATGGGCAACCGTACAGATTAAGTATCGAAATA
128 TTAAATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATA
23909903 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
1 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
* * *
23909968 GGGTAAATAGGTCAAGACACGATATATGGTACAACAATTTTACTTAAATAATA-AAAAAAT-ATT
66 GGGTAAATAGGTCAAGAAACG-TGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAATT
23910031 AAAT
130 AAAT
23910035 GGACGACATT
Statistics
Matches: 269, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
170 7 0.03
171 8 0.03
172 61 0.23
173 132 0.49
174 61 0.23
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (171 bp):
GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
GGGTAAATAGGTCAAGAAACGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAATTA
AATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATA
Found at i:23910071 original size:162 final size:168
Alignment explanation
Indices: 23909557--23910105 Score: 531
Period size: 173 Copynumber: 3.2 Consensus size: 168
23909547 ATTTCGAAGT
* * ** * * *
23909557 GGTCGTTTGCTACAAATTGGTAGGGTGTTCCATTTTTGTAATTTATTATG-TTTTTTGGATTATT
1 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTATT
* * * * ***
23909621 GGGGTAAAAAGGTCAAGAAACGGTGTATGGTACAACATTTTTACCTAGGTAATATTAAAAAATAA
66 GGGGTAAATAGGTCAAGAAACAGTATATGGTACAACAATTTTACCTAAACAATA-TAAAAAATAA
** ** ** * *
23909686 TTAAATACGGAAATGGGTAACCTTACAAATTAAGTACCTAAAT-
130 TT--ATA---AAATGGACAACAGTACAAAAAAAGTATCGAAATA
** *
23909729 GGATTGTTTGTTTCAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTAT
1 GG-TCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTAT
* * *
23909794 TGGGGTAAATAGGTCAAGAAACAGTGTATGGTGCAATAATTTTACCTAAACAATATAAAAAATAA
65 TGGGGTAAATAGGTCAAGAAACAGTATATGGTACAACAATTTTACCTAAACAATATAAAAAATAA
* * * **
23909859 TTAAATACAAAAATGGGCAACCGTACAGATTAAGTATCGAAATA
130 TT--AT---AAAATGGACAACAGTACAAAAAAAGTATCGAAATA
*
23909903 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATG-TTTTTTGGATTATT
1 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTATT
* * *
23909967 GGGGTAAATAGGTCAAGACAC-GATATATGGTACAACAATTTTACTTAAATAATA-AAAAAAT-A
66 GGGGTAAATAGGTCAAGAAACAG-TATATGGTACAACAATTTTACCTAAACAATATAAAAAATAA
* * *
23910029 -T-T-AAATGGACGACATTACAAAAAAAGTATCGAAATG
130 TTATAAAATGGACAACAGTACAAAAAAAGTATCGAAATA
* * *
23910065 GGTCATTTGTTATAATTTGGTAGGGTGACCTATTTTGGTAT
1 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTAT
23910106 ATATCTGTTA
Statistics
Matches: 328, Mismatches: 42, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
162 64 0.20
166 1 0.00
169 1 0.00
170 1 0.00
171 8 0.02
172 61 0.19
173 130 0.40
174 61 0.19
176 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (168 bp):
GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTTAGATTATT
GGGGTAAATAGGTCAAGAAACAGTATATGGTACAACAATTTTACCTAAACAATATAAAAAATAAT
TATAAAATGGACAACAGTACAAAAAAAGTATCGAAATA
Found at i:23917895 original size:74 final size:73
Alignment explanation
Indices: 23917735--23917896 Score: 252
Period size: 74 Copynumber: 2.2 Consensus size: 73
23917725 AATAATATAC
23917735 AAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTAACTATTT
1 AAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTAACTATTT
23917800 AAATTGCA
66 AAATTGCA
** * * * *
23917808 AAAACCCTAAAAATTAATAACTGAAATGGGAAAAAAGTCATTATATAACTACAAAGTTGACTATT
1 AAAACCCT-AAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTAACTATT
23917873 TAAATTGCA
65 TAAATTGCA
23917882 AAAACCCCTAAAATT
1 AAAA-CCCTAAAATT
23917897 GATGGTTTGA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
73 8 0.10
74 69 0.85
75 4 0.05
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (73 bp):
AAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTAACTATTT
AAATTGCA
Found at i:23918104 original size:33 final size:33
Alignment explanation
Indices: 23918057--23918172 Score: 151
Period size: 33 Copynumber: 3.5 Consensus size: 33
23918047 AACTTAAGCT
* * *
23918057 GGGAGGAGTAGAGTACTGCGGTGGATATGGGCC
1 GGGAGGAGTGGAGTACTGCAGTGGATACGGGCC
* *
23918090 GGGAGAAGTGGAGTACTGCAGTGGATACGAGCC
1 GGGAGGAGTGGAGTACTGCAGTGGATACGGGCC
* * *
23918123 GGTAGGAGTGGAGTACTGAAGTGGATACGGGTC
1 GGGAGGAGTGGAGTACTGCAGTGGATACGGGCC
*
23918156 GAGAGGAGTGGAGTACT
1 GGGAGGAGTGGAGTACT
23918173 AAGGTGGTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.25, C:0.11, G:0.46, T:0.18
Consensus pattern (33 bp):
GGGAGGAGTGGAGTACTGCAGTGGATACGGGCC
Found at i:23922368 original size:15 final size:14
Alignment explanation
Indices: 23922334--23922374 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
23922324 ACATTTCAAT
23922334 AAATC-AATAAAAA
1 AAATCAAATAAAAA
*
23922347 AATTCAAATAAATAA
1 AAATCAAATAAA-AA
23922362 AAATCAAATAAAA
1 AAATCAAATAAAA
23922375 TTACATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCAAATAAAAA
Found at i:23922393 original size:17 final size:18
Alignment explanation
Indices: 23922371--23922408 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
23922361 AAAATCAAAT
23922371 AAAATTACATTA-TAAAA
1 AAAATTACATTACTAAAA
23922388 AAAATTACATTACTAAAA
1 AAAATTACATTACTAAAA
23922406 AAA
1 AAA
23922409 TCACAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTACATTACTAAAA
Found at i:23922681 original size:106 final size:105
Alignment explanation
Indices: 23922386--23922894 Score: 683
Period size: 105 Copynumber: 4.8 Consensus size: 105
23922376 TACATTATAA
* * * *
23922386 AAAAAATTACATTACTAAAAAAATCACAAAAATACTAAACTAAACACTAACAATTTATAACTTAA
1 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAATTTATAACCTAA
* *
23922451 TCATAAATTACAAACAAAATAACTAT--AATTTTTTTTTAAAAAAAAT
66 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT--------T
* * * * * *
23922497 AAAAATTTACATTACT-AAAAAAT-TACAAAACACTAAACTAAACACTAACAGTTTGTAACCTAA
1 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAATTTATAACCTAA
*
23922560 TCATAAATTACTAACAAAACAACTATAAAATTATTTTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
23922600 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAATTTTATAACCTA
1 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAA-TTTATAACCTA
*
23922665 ATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTA
65 ATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
*
23922706 AAAAATTTACATTACTAAAAAAAT-TAAAAAATACTAAACTAAACACTAAAAATTTTATAACCTA
1 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAA-TTTATAACCTA
*
23922770 ATCATAAATTACTAACGAAATAACTATAAAATTATTTTTTT
65 ATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
* * * * *
23922811 TAAAA-TTACTTTACT-AAAAAATC-ACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
1 AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAATTTATAACCTAA
23922873 TCATAAATTACTAACAAAATAA
66 TCATAAATTACTAACAAAATAA
23922895 TTAACAAAAT
Statistics
Matches: 364, Mismatches: 28, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
102 33 0.09
103 48 0.13
104 16 0.04
105 105 0.29
106 73 0.20
109 57 0.16
110 7 0.02
111 25 0.07
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (105 bp):
AAAAATTTACATTACTAAAAAAATCAAAAAAATACTAAACTAAACACTAAAAATTTATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
Found at i:23922899 original size:12 final size:12
Alignment explanation
Indices: 23922884--23922908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23922874 CATAAATTAC
23922884 TAACAAAATAAT
1 TAACAAAATAAT
23922896 TAACAAAATAAT
1 TAACAAAATAAT
23922908 T
1 T
23922909 TTACATTAAT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACAAAATAAT
Found at i:23922973 original size:92 final size:93
Alignment explanation
Indices: 23922816--23922988 Score: 294
Period size: 92 Copynumber: 1.9 Consensus size: 93
23922806 TTTTTTAAAA
* * *
23922816 TTACTTTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAAT
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
23922881 TACTAACAAAATAATTAACAAAATAATT
66 TACTAACAAAATAATTAACAAAATAATT
* *
23922909 TTACATTAATAAAAAATCACAAAACACTAAACTGAACAC-AACAATTTATAACATAATCCTAAAT
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
23922973 TACTAACAAAATAATT
66 TACTAACAAAATAATT
23922989 TTAAAATAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 39 0.52
93 36 0.48
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (93 bp):
TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
TACTAACAAAATAATTAACAAAATAATT
Found at i:23923032 original size:92 final size:93
Alignment explanation
Indices: 23922825--23923009 Score: 257
Period size: 92 Copynumber: 2.0 Consensus size: 93
23922815 ATTACTTTAC
* *
23922825 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
1 TAAAAAATCACAAAAAACTAAACTAAACACTAACAATTTATAACATAATCATAAATTACTAACAA
* * **
23922890 AATAATTAACAAAATAATTTTACATTAA
66 AATAATTAACAAAATAATTATAAAAAAA
* * *
23922918 TAAAAAATCACAAAACACTAAACTGAACAC-AACAATTTATAACATAATCCTAAATTACTAACAA
1 TAAAAAATCACAAAAAACTAAACTAAACACTAACAATTTATAACATAATCATAAATTACTAACAA
**
23922982 AATAATT-TTAAAATAATTATAAAAAAA
66 AATAATTAACAAAATAATTATAAAAAAA
23923009 T
1 T
23923010 TTACATTCAT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 15 0.18
92 39 0.47
93 29 0.35
ACGTcount: A:0.58, C:0.15, G:0.01, T:0.26
Consensus pattern (93 bp):
TAAAAAATCACAAAAAACTAAACTAAACACTAACAATTTATAACATAATCATAAATTACTAACAA
AATAATTAACAAAATAATTATAAAAAAA
Found at i:23923181 original size:14 final size:13
Alignment explanation
Indices: 23923147--23923186 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
23923137 TAATACATAC
23923147 CTTTTTTTCTTC-
1 CTTTTTTTCTTCT
*
23923159 CTTTCTTTCTTCTT
1 CTTTTTTTCTTC-T
23923173 CTTTTTTTCTTCT
1 CTTTTTTTCTTCT
23923186 C
1 C
23923187 CTTTCTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTTTTCTTCT
Found at i:23923190 original size:14 final size:14
Alignment explanation
Indices: 23923146--23923190 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
23923136 ATAATACATA
23923146 CCTTTTTTTC-T-T
1 CCTTTTTTTCTTCT
*
23923158 CCTTTCTTTCTTCT
1 CCTTTTTTTCTTCT
*
23923172 TCTTTTTTTCTTCT
1 CCTTTTTTTCTTCT
23923186 CCTTT
1 CCTTT
23923191 CTCTCATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.33
13 1 0.04
14 17 0.63
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CCTTTTTTTCTTCT
Found at i:23923986 original size:24 final size:25
Alignment explanation
Indices: 23923948--23924008 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
23923938 ACACCACCTA
* *
23923948 TTTATTTAATAATTTATTTTTTCGTT
1 TTTATTTTA-AATTTATTTTTTCATT
*
23923974 TTT-TTTTAAATTTATTTTTTTATT
1 TTTATTTTAAATTTATTTTTTCATT
23923998 TTTATTTTAAA
1 TTTATTTTAAA
23924009 AAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.55
25 11 0.35
26 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTATTTTAAATTTATTTTTTCATT
Found at i:23924000 original size:25 final size:24
Alignment explanation
Indices: 23923948--23924008 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
23923938 ACACCACCTA
* *
23923948 TTTATTTAATAATTTATTTTTTCGT
1 TTTATTTTA-AATTTATTTTTTAGT
* *
23923973 TTTTTTTTAAATTTATTTTTTTATT
1 TTTATTTTAAATTTA-TTTTTTAGT
23923998 TTTATTTTAAA
1 TTTATTTTAAA
23924009 AAATATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTTTAAATTTATTTTTTAGT
Done.