Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 29 of 320
Found at i:8163047 original size:90 final size:90
Alignment explanation
Indices: 8162894--8163311 Score: 578
Period size: 90 Copynumber: 4.7 Consensus size: 90
8162884 TATAACTAAG
* * * * * * **
8162894 GAATGTCAAATCTTCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGTCGAATCCATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
8162959 TCGATCTGCTTCGATGTAAACACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
8162984 GAATGTTAGATCTCCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
8163049 TTGATCTGCTTCGA--T----ACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
8163068 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATACAGAGACGTCAAATTTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* *
8163133 CCGATCTGCTTCGATGTAAATACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
8163158 AAATGTCAGATCTGCTATCTTCGATCCGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* * *
8163223 TCAATCCGCTTCGATGTAAACACAT
66 TCGATCTGCTTCGATGTAAACACAC
*
8163248 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
8163312 GGTGATCTAC
Statistics
Matches: 288, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
84 75 0.26
86 1 0.00
88 1 0.00
90 211 0.73
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (90 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
TCGATCTGCTTCGATGTAAACACAC
Found at i:8163049 original size:45 final size:45
Alignment explanation
Indices: 8162896--8163311 Score: 224
Period size: 45 Copynumber: 9.4 Consensus size: 45
8162886 TAACTAAGGA
* *
8162896 ATGTCAAATCT-TCTATCTTCGATCTGCTCCCCATCTAATATAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * ** * * *
8162941 ACGTCGAATCCATCATCTTCGATCTGCT--TCGATGTAA-ACACACG
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCTAATACAGA-G
* * *
8162985 AATGTTAGATCT-CCTATCTTCGATCTGCTCCCCGTCTAATACAGAG
1 -ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * *
8163031 ATGCCAAATCTGTCATCTTTGATCTGCT-----TC-GATACACGA-
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCGTCTAATACA-GAG
* *
8163070 ATGTCAGATCTG-CTATCTACGATCTGCTCCCCGTCTAATACAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * * * * * *
8163115 ACGTCAAATTTGTCATCTCCGATCTGCT--TCGATGTAAATACACAA
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCT-AATACAGAG
* *
8163160 ATGTCAGATCTG-CTATCTTCGATCCGCTCCCCGTCTAATACAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * * * * * * *
8163205 ACGCCAAATCTATCATCTTCAATCCGCT--TCGATGTAA-ACACATG
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCTAATACAGA-G
* *
8163249 AATGTCAGATCT-ACTATCTTCGATCTGCTCCCCGTCTAATACAGAG
1 -ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* *
8163295 ACGCCAAATCTGTCATC
1 ATGTCAAATCTGTCATC
8163312 GGTGATCTAC
Statistics
Matches: 272, Mismatches: 66, Indels: 66
0.67 0.16 0.16
Matches are distributed among these distances:
38 1 0.00
39 27 0.10
40 4 0.01
43 12 0.04
44 19 0.07
45 177 0.65
46 18 0.07
47 14 0.05
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (45 bp):
ATGTCAAATCTGTCATCTTCGATCTGCTCCCCGTCTAATACAGAG
Found at i:8163191 original size:174 final size:177
Alignment explanation
Indices: 8162894--8163311 Score: 590
Period size: 174 Copynumber: 2.4 Consensus size: 177
8162884 TATAACTAAG
* * * * * **
8162894 GAATGTCAAATCTTCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGTCGAATCCATCATCT
1 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
* * * *
8162959 TCGATCTGCTTCGATGTAAACACACGAATGTTAGATCTCCTATCTTCGATCTGCTCCCCGTCTAA
66 CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
* * ** *
8163024 TACAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGA-T-ACAC-
131 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGAGTAACACA
* * *
8163068 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATACAGAGACGTCAAATTTGTCATCT
1 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
* *
8163133 CCGATCTGCTTCGATGTAAATACACAAATGTCAGATCTGCTATCTTCGATCCGCTCCCCGTCTAA
66 CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
8163198 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGATGTAAACACA
131 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGA-GT-AACACA
*
8163247 TGAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
1 -GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATC
8163312 GGTGATCTAC
Statistics
Matches: 214, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
174 149 0.70
176 1 0.00
178 4 0.02
180 60 0.28
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (177 bp):
GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGAGTAACACA
Found at i:8174838 original size:13 final size:12
Alignment explanation
Indices: 8174801--8174842 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
8174791 ACACATAGAA
8174801 ATAATA-ATTA-
1 ATAATATATTAC
*
8174811 ACAATATATTAC
1 ATAATATATTAC
8174823 ATAATATATATAC
1 ATAATATAT-TAC
8174836 ATAATAT
1 ATAATAT
8174843 TCATGCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 8 0.30
13 10 0.37
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATATATTAC
Found at i:8175322 original size:21 final size:20
Alignment explanation
Indices: 8175297--8175352 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
8175287 TTTTTAAAAT
8175297 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
8175318 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
8175339 TATA-ATAAATAATA
1 TATACATAAATAATA
8175353 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:8175339 original size:33 final size:32
Alignment explanation
Indices: 8175291--8175363 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
8175281 ACAAATTTTT
* *
8175291 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAATACA-AA
8175325 TAAAATATAAATAATATAATAAATAATACAAA
1 TAAAATATAAATAATATAATAAATAATACAAA
8175357 TAAAATA
1 TAAAATA
8175364 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.24
33 23 0.62
34 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAAATATAAATAATATAATAAATAATACAAA
Found at i:8175352 original size:26 final size:27
Alignment explanation
Indices: 8175298--8175367 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
8175288 TTTTAAAATT
*
8175298 ATACATAATAT-AATAA-ATAATATACA
1 ATACA-AATATAAATAATATAATAAACA
*
8175324 ATA-AAATATAAATAATATAATAAATA
1 ATACAAATATAAATAATATAATAAACA
8175350 ATACAAATA-AAATAATAT
1 ATACAAATATAAATAATAT
8175368 TTTTTACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 5 0.13
25 6 0.15
26 23 0.59
27 5 0.13
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (27 bp):
ATACAAATATAAATAATATAATAAACA
Found at i:8175421 original size:25 final size:27
Alignment explanation
Indices: 8175393--8175443 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8175383 AAGGTTTAAG
8175393 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATACAAAATATT
*
8175418 TAAAATAAATAAATTATATAAAATAT
1 TAAAATAAATAAATTATACAAAATAT
8175444 ATATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAATAAATAAATTATACAAAATATT
Found at i:8175422 original size:9 final size:9
Alignment explanation
Indices: 8175403--8175446 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
8175393 TAAAATAAAT
*
8175403 AATATACAA
1 AATATATAA
*
8175412 AATATTTAA
1 AATATATAA
*
8175421 AATAAATAA
1 AATATATAA
*
8175430 ATTATATAA
1 AATATATAA
8175439 AATATATA
1 AATATATA
8175447 TATAAAAGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATATATAA
Found at i:8193040 original size:25 final size:25
Alignment explanation
Indices: 8192984--8193096 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 25
8192974 TATGCCTCTT
* * *
8192984 ATGAGCTTCCCATTATACAGCCCGG
1 ATGAGCTTCCCATTATATAGCTCAG
* *
8193009 ATAAGCTTCCCATTATATAGCTCAC
1 ATGAGCTTCCCATTATATAGCTCAG
** *
8193034 ATGAGCTTCCTGTTATATGGCTCGAG
1 ATGAGCTTCCCATTATATAGCTC-AG
* * * *
8193060 AGAGAGCTTCCCGTT-TATTGCTCAT
1 A-TGAGCTTCCCATTATATAGCTCAG
8193085 ATGAGCATTCCC
1 ATGAGC-TTCCC
8193097 GAATATGAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 4 0.06
25 46 0.66
26 9 0.13
27 11 0.16
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTCAG
Found at i:8193285 original size:24 final size:26
Alignment explanation
Indices: 8193239--8193286 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8193229 AATGTATTGT
*
8193239 TATATTAATATATGATGTGGAAAACA
1 TATATTAATATATGATATGGAAAACA
*
8193265 TATATTTATATAT-ATAT-GAAAA
1 TATATTAATATATGATATGGAAAA
8193287 TTGTTACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATTAATATATGATATGGAAAACA
Found at i:8196701 original size:35 final size:35
Alignment explanation
Indices: 8196655--8196724 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
8196645 TCGAGGGTCA
*
8196655 GACATTAGGCATATAAGTTACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
8196690 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
8196725 CTTTTTCTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (35 bp):
GACATTAGGCATATAAGTGACAATTTGTGTAACTT
Found at i:8198929 original size:26 final size:26
Alignment explanation
Indices: 8198883--8198935 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8198873 TCAAACATGC
*
8198883 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
8198909 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
8198935 A
1 A
8198936 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:8200449 original size:26 final size:26
Alignment explanation
Indices: 8200418--8200525 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8200408 TGAAATGCCC
*
8200418 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8200444 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8200470 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8200496 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8200522 ATCA
1 ATCA
8200526 ATTTGTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8202153 original size:19 final size:19
Alignment explanation
Indices: 8202110--8202153 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8202100 CAAGTCAGAA
*
8202110 TCCTTCGGAACATAAATTC
1 TCCTTCGGAACATAAATAC
*
8202129 TTCTTCGGAAGCATAAA-AC
1 TCCTTCGGAA-CATAAATAC
8202148 TCCTTC
1 TCCTTC
8202154 AGTATTCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (19 bp):
TCCTTCGGAACATAAATAC
Found at i:8205905 original size:26 final size:26
Alignment explanation
Indices: 8205876--8205928 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8205866 TCAAACATGC
*
8205876 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
8205902 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
8205928 A
1 A
8205929 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:8207441 original size:26 final size:26
Alignment explanation
Indices: 8207410--8207517 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
8207400 TGAAATGCCC
8207410 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
8207436 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
8207462 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
8207488 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
8207514 ATCA
1 ATCA
8207518 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:8208169 original size:43 final size:43
Alignment explanation
Indices: 8208121--8208202 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
8208111 CCTAACAACT
8208121 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
8208164 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
8208203 TGTATAGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
Found at i:8210661 original size:67 final size:67
Alignment explanation
Indices: 8210548--8210683 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
8210538 ATTTGAACCA
* * *
8210548 TTCAAACATGAATTCATTTATATGCCAATTGCACATTTTTCGTTTCTATACACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
8210613 GG
66 GG
*
8210615 TTCAAACATGCATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
8210680 GG
66 GG
8210682 TT
1 TT
8210684 AGAAAAAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (67 bp):
TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
GG
Found at i:8211350 original size:36 final size:36
Alignment explanation
Indices: 8211309--8211377 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
8211299 TGATGAAAGG
* *
8211309 TGTGCCCTACACTAGTCGAATAAATCGACAATGTTT
1 TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
* * *
8211345 TGTGCCCGGCGCTAGTCGGATAAACCGACAATG
1 TGTGCCCGACACTAGTCGAATAAACCGACAATG
8211378 AGTTACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
Found at i:8217162 original size:19 final size:21
Alignment explanation
Indices: 8217140--8217191 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 21
8217130 TAGTTAATTT
8217140 TTCTTTCTTTCTTTTT-C-TT
1 TTCTTTCTTTCTTTTTGCATT
8217159 TTC-TT-TTTCTTTTTGCATT
1 TTCTTTCTTTCTTTTTGCATT
* *
8217178 TTCTATCCTTCTTT
1 TTCTTTCTTTCTTT
8217192 CCCTGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.33
18 3 0.11
19 8 0.30
20 1 0.04
21 6 0.22
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (21 bp):
TTCTTTCTTTCTTTTTGCATT
Found at i:8217163 original size:11 final size:11
Alignment explanation
Indices: 8217143--8217171 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8217133 TTAATTTTTC
8217143 TTTC-TTTCTT
1 TTTCTTTTCTT
8217153 TTTCTTTTCTT
1 TTTCTTTTCTT
8217164 TTTCTTTT
1 TTTCTTTT
8217172 TGCATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:8217904 original size:63 final size:63
Alignment explanation
Indices: 8217741--8217915 Score: 183
Period size: 63 Copynumber: 2.8 Consensus size: 63
8217731 TGTAACCTAT
* * * * *
8217741 TGTTTGTGAATTAGAGTCACACGGGCTACG-GACACGGACGTGTGTCCAAGCCATGTAACTCAC
1 TGTTTGTGAATTAGAGTCACACAGGCCA-GAGACACGGGCGTGTGTCCAGGCCATGTAACACAC
* * * * **
8217804 TGTTTATGAATTAGGGTTACACAAGCCA-AGGACACGGGCGTGTGTCCAGGCTGTGTAACACAC
1 TGTTTGTGAATTAGAGTCACACAGGCCAGA-GACACGGGCGTGTGTCCAGGCCATGTAACACAC
* * **
8217867 TGTTTGTGAATTAGTGTCATACAGGCCAGAGACACGGGTATGTGTCCAG
1 TGTTTGTGAATTAGAGTCACACAGGCCAGAGACACGGGCGTGTGTCCAG
8217916 ACCGTGTGAG
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
63 90 0.99
64 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (63 bp):
TGTTTGTGAATTAGAGTCACACAGGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACACAC
Found at i:8218652 original size:22 final size:21
Alignment explanation
Indices: 8218618--8218664 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
8218608 GCATCTGATC
*
8218618 CTGATATGTTTTGTATTTGTAT
1 CTGATATGCTTTGTATTT-TAT
*
8218640 CTGATCTGCTTTGTATTTTAT
1 CTGATATGCTTTGTATTTTAT
8218661 CTGA
1 CTGA
8218665 ACTGTTACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.55
Consensus pattern (21 bp):
CTGATATGCTTTGTATTTTAT
Found at i:8222045 original size:2 final size:2
Alignment explanation
Indices: 8222038--8222080 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
8222028 TGATTATCAA
* *
8222038 CT CT CT CT CT CT CT CT CG CT CT CT CT CT AT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8222080 C
1 C
8222081 ATGGAAGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.49, G:0.02, T:0.47
Consensus pattern (2 bp):
CT
Found at i:8222513 original size:17 final size:18
Alignment explanation
Indices: 8222478--8222515 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8222468 CCCGGCGCAG
8222478 AGGAACAAAACACGAACA
1 AGGAACAAAACACGAACA
8222496 AGGAAGCAAAA-A-GAACA
1 AGGAA-CAAAACACGAACA
8222513 AGG
1 AGG
8222516 CTAACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (18 bp):
AGGAACAAAACACGAACA
Found at i:8222948 original size:3 final size:3
Alignment explanation
Indices: 8222940--8222974 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8222930 TATTTGAAGC
8222940 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8222975 ACTCATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8235533 original size:19 final size:19
Alignment explanation
Indices: 8235509--8235561 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
8235499 ACTAGCGTGC
8235509 AAAATGCATCCTGGTACAA
1 AAAATGCATCCTGGTACAA
* * *
8235528 AAAATGCATACTGGCACAC
1 AAAATGCATCCTGGTACAA
* *
8235547 AAAGTACATCCTGGT
1 AAAATGCATCCTGGT
8235562 GCACGAAGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (19 bp):
AAAATGCATCCTGGTACAA
Found at i:8235683 original size:77 final size:77
Alignment explanation
Indices: 8235532--8235690 Score: 192
Period size: 77 Copynumber: 2.1 Consensus size: 77
8235522 GTACAAAAAA
* * * *
8235532 TGCATACTGGCACACAAAGTACATCCTGGTGCACGAAGCGCGTATCTGGAACACGATGTGCATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
8235597 CAGTGCACGAAG
66 CAGAACACGAAG
* ** * * *
8235609 TGCATACTAGTACACAAAGTGTATCCTGGTGCACAAAGCGTATATCTGGCACAAGATGTGTATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
8235674 TGGAACACGAAG
66 CAGAACACGAAG
8235686 TGCAT
1 TGCAT
8235691 TGTGACGGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (77 bp):
TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
CAGAACACGAAG
Found at i:8243971 original size:5 final size:5
Alignment explanation
Indices: 8243961--8244015 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
8243951 TAAGCATAAT
8243961 AAATA AAATA AAATA AAATAA AAATAA AAATAA AAATA AAA-A TAAAT-
1 AAATA AAATA AAATA AAAT-A AAAT-A AAAT-A AAATA AAATA -AAATA
8244008 AAATA AAA
1 AAATA AAA
8244016 ATACAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 5 0.11
5 24 0.52
6 17 0.37
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:8243986 original size:6 final size:6
Alignment explanation
Indices: 8243956--8244024 Score: 81
Period size: 6 Copynumber: 11.5 Consensus size: 6
8243946 ATTAATAAGC
8243956 ATAATAA AT-AAA AT-AAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
8244002 ATAAATAA ATAAAA ATACAA ATA
1 AT-AA-AA ATAAAA ATAAAA ATA
8244025 TTAAGGGCCA
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
5 14 0.24
6 34 0.59
7 6 0.10
8 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:8251012 original size:21 final size:20
Alignment explanation
Indices: 8250982--8251020 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8250972 TAGAAATATT
8250982 AAATTAAGAAATAAGCATACA
1 AAATTAAG-AATAAGCATACA
*
8251003 AAATTGAGAATAAGCATA
1 AAATTAAGAATAAGCATA
8251021 AAGTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (20 bp):
AAATTAAGAATAAGCATACA
Found at i:8263701 original size:21 final size:20
Alignment explanation
Indices: 8263677--8263715 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8263667 ACTCATCATG
*
8263677 TTATGTTATGTTATTTATTGT
1 TTATGTTAT-TTATATATTGT
8263698 TTATGTTATTTATATATT
1 TTATGTTATTTATATATT
8263716 ACTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTATGTTATTTATATATTGT
Found at i:8283369 original size:22 final size:22
Alignment explanation
Indices: 8283300--8283370 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
8283290 TATGTATATA
*
8283300 ATAAAATAACCTAATATAAATAAT
1 ATAAAAT-A-CTAAAATAAATAAT
* **
8283324 AAATAAAAAAC-AAAATGATTTAAT
1 --ATAAAATACTAAAAT-AAATAAT
8283348 ATAAAATACTAAAATAAATAAT
1 ATAAAATACTAAAATAAATAAT
8283370 A
1 A
8283371 AATAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
22 14 0.39
23 9 0.25
24 6 0.17
25 1 0.03
26 6 0.17
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (22 bp):
ATAAAATACTAAAATAAATAAT
Found at i:8290372 original size:17 final size:17
Alignment explanation
Indices: 8290345--8290391 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
8290335 GTTGACCTCT
*
8290345 AAAAGACAAAAAATAAAAA
1 AAAAGA-AAAAAA-AAAGA
*
8290364 AAAAGAAAAAAAAAAGG
1 AAAAGAAAAAAAAAAGA
8290381 AAAAGAAAAAA
1 AAAAGAAAAAA
8290392 GGCTGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 14 0.54
18 6 0.23
19 6 0.23
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGA
Found at i:8290374 original size:12 final size:12
Alignment explanation
Indices: 8290359--8290392 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8290349 GACAAAAAAT
8290359 AAAAAAAAAGAA
1 AAAAAAAAAGAA
*
8290371 AAAAAAAAGGAA
1 AAAAAAAAAGAA
*
8290383 AAGAAAAAAG
1 AAAAAAAAAG
8290393 GCTGAAGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:8290392 original size:13 final size:12
Alignment explanation
Indices: 8290359--8290393 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
8290349 GACAAAAAAT
8290359 AAAAAAAAA-GA
1 AAAAAAAAAGGA
8290370 AAAAAAAAAGGA
1 AAAAAAAAAGGA
8290382 AAAGAAAAAAGG
1 AAA-AAAAAAGG
8290394 CTGAAGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.41
12 5 0.23
13 8 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGGA
Found at i:8297505 original size:82 final size:81
Alignment explanation
Indices: 8297352--8297509 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
8297342 CTCTTGCCAC
* * * * *
8297352 CTCAGAGAGATAAGGTTGGTGGTAAAATCTGTTTCATTGCCAATACATAGAAATAAGATTCACTA
1 CTCAGAGAGATAAGGTTAGTGGTAAAATCTGTTCCATTGCCAATACATAGAAACAACATTCACCA
*
8297417 TTTTCGATCTGATCCA
66 TCTTCGATCTGATCCA
* * * *
8297433 CTCAGAGAGATAAGGTTAGTGGCTAAAATCTGTTCCATTGCCAATACGTGGAGACAACATTCGCC
1 CTCAGAGAGATAAGGTTAGTGG-TAAAATCTGTTCCATTGCCAATACATAGAAACAACATTCACC
8297498 ATCTTCGATCTG
65 ATCTTCGATCTG
8297510 TTCCGCTACT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 21 0.32
82 45 0.68
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (81 bp):
CTCAGAGAGATAAGGTTAGTGGTAAAATCTGTTCCATTGCCAATACATAGAAACAACATTCACCA
TCTTCGATCTGATCCA
Found at i:8297744 original size:176 final size:175
Alignment explanation
Indices: 8297433--8298077 Score: 690
Period size: 176 Copynumber: 3.6 Consensus size: 175
8297423 ATCTGATCCA
* * * * * * * *
8297433 CTCAGAGAGATAAGGTTAGTGGCTAAAATCTGTTCCATTGCCAATACGTGGAGACAACATTCGCC
1 CTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACC
* * * * * * **
8297498 ATCTTCGATCTGTTCCGCTACTGCTT-AGGGAAATAAGATCTTCAATCTTCAGTGTGCTTTCTCA
65 ATCTTCAATCTGCTCCACTACAG-TTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTG
8297562 CTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
129 CTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * *
8297609 CTCAGAGAGATAAGGCTTGG-GGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGC
1 CTCAGAGAGATAAGGC-TGGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
* * *
8297673 C-TCTTTCAATCTGCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTT
64 CATC-TTCAATCTGCTCCACTACAGTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTT
* *
8297737 GCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTAC
128 GCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * * * *
8297785 CTCAGAGAGATGAGGCTGGTGGTAAAACCTGCTCCATTGTCGATGCATAGAGATAAGATTCACCA
1 CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
* * * ** * *
8297850 TCTGCGAAGCTTTACTCCGTTGCAATCTCAGGGAGAT-AGAATCTTCAAT-TCTCAGTCTGCTTT
66 TCTTC-AA--TCTGCTCCACTACAGT-TCAGGGAGATAAG-ATCTTCAATCT-TCAGTCTGCTTT
* * *
8297913 CTTGCTACATCA-AGAAGATAAGACTTACTCTTCAACCTGCTCTCTTGCTAC
125 CTTGCTACCTCAGA-AAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * * * * *
8297964 CTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCACTGCTGATACAAGGAGAAAAGATTTACCA
1 CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
* * * *
8298029 TTTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTT
66 TCTTCAATCTGCTCCACTAC-AGTTCAGGGAGATAAGATCTTCAATCTT
8298078 TACCAATGTC
Statistics
Matches: 396, Mismatches: 58, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
175 44 0.11
176 198 0.50
177 7 0.02
178 13 0.03
179 134 0.34
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (175 bp):
CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
TCTTCAATCTGCTCCACTACAGTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCT
ACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
Found at i:8297774 original size:43 final size:45
Alignment explanation
Indices: 8297704--8297789 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 45
8297694 CTGTTTAGGG
**
8297704 AGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACCTCAGGA
1 AGATAAGATCTTCAATCTTCAACCTGCTCT-CTTGCTACCTCAGGA
*
8297749 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAG
8297790 AGAGATGAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 27 0.73
44 2 0.05
45 8 0.22
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGGA
Found at i:8297935 original size:179 final size:175
Alignment explanation
Indices: 8297524--8298077 Score: 618
Period size: 179 Copynumber: 3.1 Consensus size: 175
8297514 GCTACTGCTT
* * **
8297524 AGGGAAATAAGATCTTCAATCTTCAGTGTGCTTTCTCACTACCTC-AGAAAGATAAGACTCAATC
1 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAAG-AAGATAAGACTCAATC
* *
8297588 TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG-GGCTTAAATCTGCTCCATTACCG
65 TTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGC-TGGTGG-TAAAATCTGCTCCATTACCG
* * * * ** *
8297652 ATACATGGAGATAAGATTCGCCTCTTTCAATCTGCTCCACTACTGTTT
128 ATACATAGAGATAAGATTCACCTCTTGCAATCTACTCCACTACAATTC
* * *
8297700 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCT
1 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTCAATCT
* ** *
8297765 TCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAACCTGCTCCATTGTCGATG
66 TCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATA
* ** *
8297830 CATAGAGATAAGATTCACCATC-TGCGAAGCTTTACTCCGTTGCAATCTC
131 CATAGAGATAAGATTCACC-TCTTGC-AA--TCTACTCCACTACAAT-TC
* * *
8297879 AGGGAGAT-AGAATCTTCAAT-TCTCAGTCTGCTTTCTTGCTACATCAAGAAGATAAGACTTACT
1 AGGGAGATAAG-ATCTTCAATCT-TCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTCAAT
* * *
8297942 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCACTGCTGA
64 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGA
* * * * * *
8298007 TACA-AGGAGAAAAGATTTACCAT-TTTCGATCTGCTCCACTGCAACTTC
129 TACATA-GAGATAAGATTCACC-TCTTGCAATCTACTCCACTACAA-TTC
8298055 AGGGAGATAAGATCTTCAATCTT
1 AGGGAGATAAGATCTTCAATCTT
8298078 TACCAATGTC
Statistics
Matches: 322, Mismatches: 42, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
175 40 0.12
176 128 0.40
177 5 0.02
178 14 0.04
179 135 0.42
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (175 bp):
AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTCAATCT
TCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCATTACCGATA
CATAGAGATAAGATTCACCTCTTGCAATCTACTCCACTACAATTC
Found at i:8308517 original size:17 final size:17
Alignment explanation
Indices: 8308495--8308527 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8308485 TGATATGTAC
8308495 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
8308512 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
8308528 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:8308528 original size:18 final size:17
Alignment explanation
Indices: 8308495--8308528 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8308485 TGATATGTAC
*
8308495 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
8308512 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
8308529 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:8308818 original size:22 final size:21
Alignment explanation
Indices: 8308783--8308858 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
8308773 AAAAGGTATC
* *
8308783 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8308804 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
* *
8308827 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
8308846 TGC-AATCATATCT
1 TACAAATCATATCT
8308859 AAGATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.14
19 10 0.23
20 1 0.02
21 3 0.07
22 15 0.34
23 9 0.20
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:8308847 original size:19 final size:19
Alignment explanation
Indices: 8308819--8308909 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
8308809 AATCATATCT
*
8308819 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
8308838 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
8308856 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
8308873 TCTAAGAGTGCATATCATA
1 TCTAAGATTGCATATCATA
8308892 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
8308910 TGAATATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8308870 original size:35 final size:36
Alignment explanation
Indices: 8308831--8308901 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
8308821 TAATATTGCA
*
8308831 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
8308866 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
8308902 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (36 bp):
TATCATATCTAAGAGTGCATATCATATCTAAGATTG
Found at i:8311868 original size:40 final size:40
Alignment explanation
Indices: 8311723--8311986 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
8311713 TTGAATGCTG
* *
8311723 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
8311762 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8311802 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8311841 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
8311881 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
8311921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
8311962 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8311987 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
39 51 0.25
40 139 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:8312004 original size:120 final size:118
Alignment explanation
Indices: 8311775--8312021 Score: 318
Period size: 120 Copynumber: 2.1 Consensus size: 118
8311765 GGACTAAGAT
* * * *
8311775 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCTAGTTACTAA
1 CCGAAGGTATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* ** * *
8311840 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* *
8311894 CCGAAGGTATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGTATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * *
8311959 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
8312013 CCGAAGGTA
1 CCGAAGGTA
8312022 CGTGATTTGG
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
119 51 0.46
120 58 0.52
121 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGAAGGTATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:8319829 original size:40 final size:40
Alignment explanation
Indices: 8319740--8320003 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
8319730 TTGAATGCTG
* *
8319740 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
8319779 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8319819 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8319858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8319898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
8319938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
8319979 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8320004 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 52 0.25
40 142 0.70
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:8320021 original size:120 final size:118
Alignment explanation
Indices: 8319740--8320036 Score: 329
Period size: 119 Copynumber: 2.5 Consensus size: 118
8319730 TTGAATGCTG
* *
8319740 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
8319800 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAATTACTAAA
* ** * *
8319858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
8319923 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAATTACTA-AA
* * *
8319979 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
8320037 TACGTGATTT
Statistics
Matches: 152, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 63 0.41
121 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAATTACTAAA
Found at i:8334546 original size:14 final size:14
Alignment explanation
Indices: 8334527--8334558 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
8334517 TCAAATCACC
8334527 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
8334541 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
8334555 GGGC
1 GGGC
8334559 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:8339672 original size:14 final size:14
Alignment explanation
Indices: 8339653--8339684 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
8339643 TCAAATCACC
8339653 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
8339667 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
8339681 GGGC
1 GGGC
8339685 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:8341987 original size:12 final size:12
Alignment explanation
Indices: 8341964--8342005 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8341954 GATGACGTTA
8341964 AAATG-ATAAAT
1 AAATGAATAAAT
*
8341975 AAATGAATGAAT
1 AAATGAATAAAT
*
8341987 AAATAAATAAAT
1 AAATGAATAAAT
*
8341999 AGATGAA
1 AAATGAA
8342006 GAAACATAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AAATGAATAAAT
Found at i:8341990 original size:16 final size:15
Alignment explanation
Indices: 8341965--8341994 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8341955 ATGACGTTAA
8341965 AATGATAAATAAATG
1 AATGATAAATAAATG
8341980 AATGAATAAATAAAT
1 AATG-ATAAATAAAT
8341995 AAATAGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
AATGATAAATAAATG
Found at i:8349655 original size:22 final size:22
Alignment explanation
Indices: 8349630--8349702 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
8349620 TTAGACCTTA
*
8349630 AAAAATAAAATAATAAAAAGAG
1 AAAAAGAAAATAATAAAAAGAG
* *
8349652 --AAA-AAAATAATAAAAACAT
1 AAAAAGAAAATAATAAAAAGAG
**
8349671 TCAAAGAAAATAA-AAAAAGAG
1 AAAAAGAAAATAATAAAAAGAG
8349692 AAGAAAGAAAA
1 AA-AAAGAAAA
8349703 AGGAGAGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 14 0.34
20 3 0.07
21 9 0.22
22 15 0.37
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.11
Consensus pattern (22 bp):
AAAAAGAAAATAATAAAAAGAG
Found at i:8351209 original size:44 final size:44
Alignment explanation
Indices: 8351161--8351309 Score: 109
Period size: 44 Copynumber: 3.4 Consensus size: 44
8351151 GTATTGGCAA
* * * * *
8351161 TGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
* * *
8351205 TGGAGCAGGCTCAAGATACAAGTCTTATCTCCCTGAAGATGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
* * * * * * * * * * *
8351249 CGGAGCAAAATGAAAATGACAGGTCTTGTCTCCCTGAAGTTGTAG
1 TGGAGCAGACTCAAGA-CACAAGCCTTATCTCCCTGAAGATGCAG
*
8351294 TGGAGCAGACTGAAGA
1 TGGAGCAGACTCAAGA
8351310 TAGCGAATCT
Statistics
Matches: 81, Mismatches: 23, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
44 46 0.57
45 35 0.43
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (44 bp):
TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
Found at i:8351265 original size:177 final size:178
Alignment explanation
Indices: 8350913--8351322 Score: 434
Period size: 177 Copynumber: 2.3 Consensus size: 178
8350903 GGTGAATTCG
* * * ** * * *
8350913 CAGATCTTATCTCCATGAGGTAGCAGTGGAGCAGGTTGAAGATGGTGAATCTTATCTTTCCGAGG
1 CAGATCTTATCTCCCTGAAGTAGTAGTGGAGCAGACTGAAGATAGCGAATCTTATC--TCC-ATG
** * * *
8350978 TA---GCAGGGGAACAGATTTTAGCCACCAGCCTTATCTCCCTGAAGTTACTGTAGAGCAGGCTC
63 TATTGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTACAGTAGAGCAGGCTC
* * * * * * * * * *
8351040 AATATATAAGTCTTGTTTTCCTAAAGTTGCAGTAGAGCAGACTGAAAATTA
128 AAGATACAAGTCTTATCTCCCTAAAGATGCAGCAGAGCAAAATGAAAATGA
* * * *
8351091 TAGATCTTATCTCCCT-AAGTAGTAGTGGAGTAGA-TCGAATATGGCGAATCTTATCTCCATGTA
1 CAGATCTTATCTCCCTGAAGTAGTAGTGGAGCAGACT-GAAGATAGCGAATCTTATCTCCATGTA
* * *
8351154 TTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAA
65 TTGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTACAGTAGAGCAGGCTCAA
* *
8351219 GATACAAGTCTTATCTCCCTGAAGATGCAGCGGAGCAAAATGAAAATGA
130 GATACAAGTCTTATCTCCCTAAAGATGCAGCAGAGCAAAATGAAAATGA
* * *
8351268 CAGGTCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTAT
1 CAGATCTTATCTCCCTGAAGTAGTAGTGGAGCAGACTGAAGATAGCGAATCTTAT
8351323 TTCACTGAAG
Statistics
Matches: 190, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
174 4 0.02
175 3 0.02
176 1 0.01
177 135 0.71
178 46 0.24
179 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (178 bp):
CAGATCTTATCTCCCTGAAGTAGTAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCCATGTAT
TGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTACAGTAGAGCAGGCTCAAG
ATACAAGTCTTATCTCCCTAAAGATGCAGCAGAGCAAAATGAAAATGA
Found at i:8351299 original size:45 final size:44
Alignment explanation
Indices: 8351184--8351300 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
8351174 AGCCACTAGC
*** *
8351184 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAATACAAGT
* * * *
8351228 CTTATCTCCCTGAAGATGCAGCGGAGCAAAATGAAAATGACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAAT-ACAAGT
* *
8351273 CTTGTCTCCCTGAAGTTGTAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
8351301 GACTGAAGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 31 0.52
45 29 0.48
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAATACAAGT
Found at i:8351563 original size:182 final size:181
Alignment explanation
Indices: 8351277--8351608 Score: 479
Period size: 182 Copynumber: 1.8 Consensus size: 181
8351267 ACAGGTCTTG
* * *
8351277 TCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGATACAGTGC
* * * ** * *
8351342 AACAGATGAAGCTATAAATAAATAGATCTTATTTCTCTGAAGTTGTAGTAGAGTAGATCA-TAGC
66 AACAGATAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTACC
8351406 AAA-CCTTATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
131 AAATCC-TATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
* * * *
8351457 TCTCCCTGAAGTTGCAGTGGAGCAGACATGAAGTTAGTGAATCTTATTTCCCTGAAGATGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAGATAGCGAATCTTATTTCACTGAAGATACAGTG
*
8351522 CAACATATTAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTA
65 CAACAGA-TAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTA
*
8351587 CCAAATCCTATCTCCCTGAAGT
129 CCAAATCCTATCTCCATGAAGT
8351609 TACAGTTTGA
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
180 26 0.20
181 37 0.28
182 48 0.36
183 19 0.14
184 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (181 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGATACAGTGC
AACAGATAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTACC
AAATCCTATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
Found at i:8352598 original size:12 final size:12
Alignment explanation
Indices: 8352581--8352613 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8352571 TCCCCTATAA
*
8352581 AATAGTGAAAAT
1 AATAGTAAAAAT
8352593 AATAGTAAAAAT
1 AATAGTAAAAAT
8352605 AATAGTAAA
1 AATAGTAAA
8352614 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:8353533 original size:10 final size:10
Alignment explanation
Indices: 8353514--8353562 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
8353504 TGAAATTCTA
8353514 AAAGATAAAT
1 AAAGATAAAT
8353524 ACAA-ATAAAT
1 A-AAGATAAAT
8353534 AAAGATAAAT
1 AAAGATAAAT
*
8353544 AAAGATAAAG
1 AAAGATAAAT
8353554 AAA-ATAAAT
1 AAAGATAAAT
8353563 CCTAGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 7 0.20
10 26 0.74
11 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:8354085 original size:155 final size:155
Alignment explanation
Indices: 8353803--8354092 Score: 580
Period size: 155 Copynumber: 1.9 Consensus size: 155
8353793 TAAAAGACCA
8353803 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
1 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
8353868 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
66 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
8353933 TTTTCCAAATTAGTAGGATCATACT
131 TTTTCCAAATTAGTAGGATCATACT
8353958 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
1 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
8354023 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
66 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
8354088 TTTTC
131 TTTTC
8354093 GAATATAGCA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 135 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (155 bp):
CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
TTTTCCAAATTAGTAGGATCATACT
Found at i:8355191 original size:2 final size:2
Alignment explanation
Indices: 8355186--8355222 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8355176 TTTAATGTTT
* *
8355186 TA TA TA TA TA TA TA CA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8355223 TGTCCATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8357793 original size:35 final size:37
Alignment explanation
Indices: 8357722--8357819 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
8357712 ATAATCTTCA
8357722 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
8357760 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
8357795 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
8357820 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:8357819 original size:17 final size:19
Alignment explanation
Indices: 8357722--8357812 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
8357712 ATAATCTTCA
8357722 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8357741 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8357760 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8357777 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8357795 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
8357813 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:8357838 original size:22 final size:22
Alignment explanation
Indices: 8357791--8357835 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
8357781 TTGCAATCTT
*
8357791 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
8357813 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
8357836 GATTTAATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:8358049 original size:18 final size:19
Alignment explanation
Indices: 8358009--8358050 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
8357999 TCCCGCTTAC
8358009 GTTCTTATTTTATACGGTTT
1 GTTCTTATTTTATAC-GTTT
*
8358029 GTTCTTATTTTATTC-TTT
1 GTTCTTATTTTATACGTTT
8358047 GTTC
1 GTTC
8358051 ATCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
20 14 0.67
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (19 bp):
GTTCTTATTTTATACGTTT
Found at i:8366767 original size:195 final size:195
Alignment explanation
Indices: 8366424--8366815 Score: 658
Period size: 195 Copynumber: 2.0 Consensus size: 195
8366414 TGTTTACACT
8366424 GAAGCAAATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTG
1 GAAGCAAATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTG
* * *
8366489 GCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAATAGATCTAACCTTCGAATGTTTTCAC
66 GCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAACAGATCTAACATTCGAATGTCTTCAC
* *
8366554 ATCGAAGTAGATCCAAGATGATTTGGCATCTTTGCGTTGACAAGGAGCAGATCGAAGACATAGCA
131 ATCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCA
* * * *
8366619 GAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTG
1 GAAGCAAATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTG
* *
8366684 GCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTCGAATGTCTTCAC
66 GCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAACAGATCTAACATTCGAATGTCTTCAC
* * *
8366749 ATCGAAATAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGTAGATCGAAGACATAGCA
131 ATCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCA
8366814 GA
1 GA
8366816 TTTGGCTTTC
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
195 183 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (195 bp):
GAAGCAAATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTG
GCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAACAGATCTAACATTCGAATGTCTTCAC
ATCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCA
Found at i:8367028 original size:78 final size:77
Alignment explanation
Indices: 8366899--8367192 Score: 392
Period size: 78 Copynumber: 3.8 Consensus size: 77
8366889 GAAAAAACAA
** * * *
8366899 ATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGAGGGA-AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
*
8366964 CACATCCAAGATG
65 CAGATCCAAGATG
* *
8366977 ATTTGGCATCTCTGTATTAGATGGGAAGCAGATCGAAAACACAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGA-GGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
8367042 CAGATCCAAGATG
65 CAGATCCAAGATG
* * *
8367055 ATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCGAAGACATAACAGGT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAG-AGGGAAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAA
*
8367119 ACAGATCCAAGATG
64 GCAGATCCAAGATG
* * * *
8367133 ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTAACCTTCAT
1 ATTTGGCATCTCTGTATTAGA-GGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
8367193 GTGTTTACAT
Statistics
Matches: 192, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
77 2 0.01
78 185 0.96
79 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (77 bp):
ATTTGGCATCTCTGTATTAGAGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGC
AGATCCAAGATG
Found at i:8367356 original size:89 final size:88
Alignment explanation
Indices: 8367224--8367390 Score: 253
Period size: 89 Copynumber: 1.9 Consensus size: 88
8367214 CAAGATGAAA
*
8367224 GATTTGGCATCTCTGTATTAGACGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAG
1 GATTTGGCATCTCTGTATTAGACGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
*
8367289 ACGGGGAGCAGATTGAAGAAGCT
66 ACAGGGAGCAGATTGAAGAAGCT
** * * *
8367312 GATTTGGTGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGA-CGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
*
8367377 GATAGGGAGCAGAT
65 GACAGGGAGCAGAT
8367391 CAAAGATAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 20 0.29
89 50 0.71
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (88 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
ACAGGGAGCAGATTGAAGAAGCT
Found at i:8367376 original size:45 final size:45
Alignment explanation
Indices: 8367209--8367404 Score: 236
Period size: 44 Copynumber: 4.4 Consensus size: 45
8367199 ACATCGAAGT
* *
8367209 AGATCCAAGATGAA-AGATTTGGCATCTCTGTATTAGA-CGGGAGC
1 AGATCGAAGAT-AACAGATTTGGCATCTCTGTATTAGATGGGGAGC
* * *
8367253 AAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGGGGAGC
* * * **
8367298 AGATTGAAGA-AGCTGATTTGGTGTCTCTGTATTAGATGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGGGGAGC
* *
8367342 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATAGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGGGGAGC
* *
8367387 AGATCAAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
8367405 ATCGCCTTCC
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
43 2 0.02
44 69 0.53
45 59 0.45
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGGGGAGC
Found at i:8367825 original size:35 final size:37
Alignment explanation
Indices: 8367754--8367851 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
8367744 GTAATCTTCA
8367754 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
8367792 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
8367827 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
8367852 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:8367851 original size:17 final size:19
Alignment explanation
Indices: 8367754--8367844 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
8367744 GTAATCTTCA
8367754 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8367773 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8367792 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8367809 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
8367827 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
8367845 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:8367870 original size:22 final size:22
Alignment explanation
Indices: 8367754--8367867 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
8367744 GTAATCTTCA
8367754 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
8367773 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
8367792 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
8367809 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
8367827 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
8367849 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
8367868 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:8368157 original size:18 final size:17
Alignment explanation
Indices: 8368134--8368168 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8368124 TGTTTCCCTG
*
8368134 ATTTTTTTATATATTTTA
1 ATTTTTTAATAT-TTTTA
8368152 ATTTTTTAATATTTTTA
1 ATTTTTTAATATTTTTA
8368169 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTAATATTTTTA
Found at i:8372048 original size:17 final size:16
Alignment explanation
Indices: 8372028--8372063 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8372018 TTGGTTGCAT
*
8372028 TTTATTTTTGTTTTTAG
1 TTTATTTTT-TTTCTAG
8372045 TTTATTTTTTTTCTAG
1 TTTATTTTTTTTCTAG
8372061 TTT
1 TTT
8372064 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTTCTAG
Found at i:8382910 original size:17 final size:16
Alignment explanation
Indices: 8382890--8382925 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8382880 TTGGTTGCAT
*
8382890 TTTATTTTTGTTTTTAG
1 TTTATTTTT-TTTCTAG
8382907 TTTATTTTTTTTCTAG
1 TTTATTTTTTTTCTAG
8382923 TTT
1 TTT
8382926 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTTCTAG
Found at i:8403598 original size:19 final size:20
Alignment explanation
Indices: 8403561--8403598 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8403551 AGAGGGACAA
*
8403561 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
8403581 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
8403599 AATGTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:8405542 original size:25 final size:25
Alignment explanation
Indices: 8405514--8405566 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8405504 ATAACTAGAG
8405514 AATGTGTACATAAAAGTAAAGTTAT
1 AATGTGTACATAAAAGTAAAGTTAT
8405539 AATGTGTACATAAAAGTAAAGTTAT
1 AATGTGTACATAAAAGTAAAGTTAT
8405564 AAT
1 AAT
8405567 ATTGATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.32
Consensus pattern (25 bp):
AATGTGTACATAAAAGTAAAGTTAT
Found at i:8407294 original size:38 final size:38
Alignment explanation
Indices: 8407248--8407360 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
8407238 AATGCAAAGT
8407248 ACGT-GGCAAAGAAGAAATTTTCATCACATAGATCACA
1 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
8407285 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
1 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
8407323 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
1 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
8407361 CAAACGAGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 4 0.05
38 71 0.95
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (38 bp):
ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
Found at i:8409371 original size:25 final size:24
Alignment explanation
Indices: 8409326--8409372 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
8409316 TTTATGGAAT
*
8409326 TTATTTGAATGTGAAATTGTATTC
1 TTATTTGAATGTGAAAGTGTATTC
8409350 TTATTATGAAT-TGAAAAGTGTAT
1 TTATT-TGAATGTG-AAAGTGTAT
8409373 GTGTAGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (24 bp):
TTATTTGAATGTGAAAGTGTATTC
Found at i:8415957 original size:34 final size:34
Alignment explanation
Indices: 8415917--8415985 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8415907 TATATTATAA
8415917 ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
1 ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
8415951 ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
1 ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
8415985 A
1 A
8415986 GAGTGGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (34 bp):
ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
Found at i:8423518 original size:13 final size:13
Alignment explanation
Indices: 8423500--8423555 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
8423490 TAACTTTTTC
8423500 CTAAATATTATCA
1 CTAAATATTATCA
8423513 CTAAATA--ATC-
1 CTAAATATTATCA
*
8423523 CTAACTATTATCA
1 CTAAATATTATCA
*
8423536 CTAAATATAATCA
1 CTAAATATTATCA
8423549 CTAAATA
1 CTAAATA
8423556 ATTCAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 25 0.68
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:8423525 original size:23 final size:23
Alignment explanation
Indices: 8423498--8423542 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8423488 GCTAACTTTT
8423498 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
8423521 TCCTAACTATTATCACTAAATA
1 TCCTAAATATTATCACTAAATA
8423543 TAATCACTAA
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:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:8424415 original size:9 final size:9
Alignment explanation
Indices: 8424398--8424455 Score: 57
Period size: 10 Copynumber: 6.2 Consensus size: 9
8424388 AAATTGAAAA
8424398 AATATTTTTT
1 AATA-TTTTT
8424408 AATATTTTT
1 AATATTTTT
8424417 -ATACTATTTT
1 AATA-T-TTTT
*
8424427 AATAATTTT
1 AATATTTTT
8424436 AATAATTTTT
1 AAT-ATTTTT
8424446 AAT-TTTTT
1 AATATTTTT
8424454 AA
1 AA
8424456 AAAATTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 10 0.24
9 13 0.31
10 16 0.38
11 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
AATATTTTT
Found at i:8424428 original size:19 final size:18
Alignment explanation
Indices: 8424403--8424454 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
8424393 GAAAAAATAT
*
8424403 TTTTTAATATTTTTATAC
1 TTTTTAATATTTTTATAA
*
8424421 TATTTTAATAATTTTAATAA
1 T-TTTTAAT-ATTTTTATAA
8424441 TTTTTAAT-TTTTTA
1 TTTTTAATATTTTTA
8424455 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 14 0.48
20 9 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTAATATTTTTATAA
Found at i:8424461 original size:28 final size:28
Alignment explanation
Indices: 8424404--8424458 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
8424394 AAAAAATATT
*
8424404 TTTTAATATTTTTATACTATTTTAATAA
1 TTTTAATATTTTTATACTATTTTAAAAA
*
8424432 TTTTAATAATTTTTA-A-TTTTTTAAAAA
1 TTTTAAT-ATTTTTATACTATTTTAAAAA
8424459 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 8 0.33
29 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTAATATTTTTATACTATTTTAAAAA
Found at i:8429002 original size:6 final size:6
Alignment explanation
Indices: 8428991--8429063 Score: 146
Period size: 6 Copynumber: 12.2 Consensus size: 6
8428981 CATACATACG
8428991 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
8429039 TACATA TACATA TACATA TACATA T
1 TACATA TACATA TACATA TACATA T
8429064 CGGCATTTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:8447603 original size:46 final size:46
Alignment explanation
Indices: 8447528--8447847 Score: 394
Period size: 46 Copynumber: 7.0 Consensus size: 46
8447518 TTATCTTCGA
* * * * *
8447528 CATGATGCCATAGTATCTTTC-ACCTATGGTTTTACTCGTTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACC-ATGGTCTTACAC-ATTTCATAT
** ***
8447574 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** *
8447621 CATGTTGCAAT-GTATCTTTCAACCATGGTTTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8447666 CACGTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8447712 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
8447758 CAGGTTACCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8447804 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
8447848 TTCAGAGAGC
Statistics
Matches: 244, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 15 0.06
46 215 0.88
47 14 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8450241 original size:17 final size:18
Alignment explanation
Indices: 8450205--8450246 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
8450195 ACACCTTTAA
*
8450205 TTTTCCCTTTTCTTCTTTC
1 TTTTCTCTTTTC-TCTTTC
8450224 TTTTCTCTTTTC-CTTTC
1 TTTTCTCTTTTCTCTTTC
8450241 TTTTCT
1 TTTTCT
8450247 TCCCCTACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTCTTTTCTCTTTC
Found at i:8450312 original size:12 final size:12
Alignment explanation
Indices: 8450275--8450318 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
8450265 ATTTGCTTTG
*
8450275 TTTCTTCATTTC
1 TTTCTTTATTTC
* *
8450287 TATCTTTTTTTC
1 TTTCTTTATTTC
8450299 TTTCTTTATTTC
1 TTTCTTTATTTC
8450311 TTT-TTTAT
1 TTTCTTTAT
8450319 ATATATATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCTTTATTTC
Found at i:8450512 original size:18 final size:19
Alignment explanation
Indices: 8450463--8450512 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
8450453 TATAATATAA
8450463 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
8450483 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
8450503 TTATTTAATA
1 TTATTTAATA
8450513 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:8450560 original size:24 final size:24
Alignment explanation
Indices: 8450533--8450583 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8450523 GTATTACAAA
*
8450533 TGTATGTATT-TTTATCCATACATT
1 TGTATATATTATTTA-CCATACATT
* *
8450557 TGTATATTTTATTTACTATACATT
1 TGTATATATTATTTACCATACATT
8450581 TGT
1 TGT
8450584 CTTTGTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (24 bp):
TGTATATATTATTTACCATACATT
Found at i:8453035 original size:24 final size:24
Alignment explanation
Indices: 8453003--8453052 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
8452993 TCACTAAAGA
8453003 TTCACTCAAATCACTCGAGGTGTT
1 TTCACTCAAATCACTCGAGGTGTT
8453027 TTCACTCAAATCACTCGAGGTGTT
1 TTCACTCAAATCACTCGAGGTGTT
8453051 TT
1 TT
8453053 AAAGACAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (24 bp):
TTCACTCAAATCACTCGAGGTGTT
Found at i:8464368 original size:25 final size:25
Alignment explanation
Indices: 8464329--8464397 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
8464319 GCGGATTCTT
*
8464329 TGAAGCTAGTATTAGCAGCAT-TGAAC
1 TGAAGCTAGTGTTAGCA--ATCTGAAC
*
8464355 T-AAGCTAGTGTTAGCAATCCTGATC
1 TGAAGCTAGTGTTAGCAAT-CTGAAC
8464380 TGAAGCTAGTGTTAGCAA
1 TGAAGCTAGTGTTAGCAA
8464398 CTCAAATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 2 0.05
25 19 0.50
26 17 0.45
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (25 bp):
TGAAGCTAGTGTTAGCAATCTGAAC
Found at i:8469902 original size:21 final size:21
Alignment explanation
Indices: 8469850--8469890 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8469840 AGAGCTAAAC
8469850 GGAAACCCATAAGGGTTGAAA
1 GGAAACCCATAAGGGTTGAAA
8469871 GGAAACCCATAAGGGTTGAA
1 GGAAACCCATAAGGGTTGAA
8469891 CAGAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
GGAAACCCATAAGGGTTGAAA
Found at i:8470667 original size:30 final size:30
Alignment explanation
Indices: 8470633--8470698 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
8470623 AGGATATCAT
8470633 AAAACCCCTAATAAAATAGAAATTTAATAC
1 AAAACCCCTAATAAAATAGAAATTTAATAC
*
8470663 AAAACCCTTAATAAAATAGAAATTTAATAC
1 AAAACCCCTAATAAAATAGAAATTTAATAC
*
8470693 CAAACC
1 AAAACC
8470699 ATAATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAACCCCTAATAAAATAGAAATTTAATAC
Found at i:8473877 original size:23 final size:22
Alignment explanation
Indices: 8473840--8473912 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 22
8473830 CGAACACACC
* * *
8473840 ATAGCTCGCAAGAGCGTCCTGAT
1 ATAGCTCACATGAGCAT-CTGAT
8473863 ATAGCTCACATGAGCATCTCGAT
1 ATAGCTCACATGAGCATCT-GAT
* * *
8473886 ATAAGCTCTCTTGAGCTTTCTGAT
1 AT-AGCTCACATGAGC-ATCTGAT
8473910 ATA
1 ATA
8473913 TGGTTCTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 2 0.05
23 20 0.49
24 16 0.39
25 3 0.07
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
ATAGCTCACATGAGCATCTGAT
Found at i:8473910 original size:24 final size:23
Alignment explanation
Indices: 8473858--8473912 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
8473848 CAAGAGCGTC
8473858 CTGATAT-AGCTCACATGAGCAT
1 CTGATATAAGCTCACATGAGCAT
* * *
8473880 CTCGATATAAGCTCTCTTGAGCTTT
1 CT-GATATAAGCTCACATGAGC-AT
8473905 CTGATATA
1 CTGATATA
8473913 TGGTTCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 17 0.63
25 3 0.11
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (23 bp):
CTGATATAAGCTCACATGAGCAT
Found at i:8479707 original size:25 final size:26
Alignment explanation
Indices: 8479679--8479730 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8479669 AAGTTGTAAA
8479679 TAAAACAATATCTCTAGA-AATTTTC
1 TAAAACAATATCTCTAGATAATTTTC
* * *
8479704 TAAAATAATTTCTTTAGATAATTTTC
1 TAAAACAATATCTCTAGATAATTTTC
8479730 T
1 T
8479731 CTCCACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (26 bp):
TAAAACAATATCTCTAGATAATTTTC
Found at i:8479912 original size:59 final size:61
Alignment explanation
Indices: 8479839--8479956 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 61
8479829 ATCACTATAA
* * *
8479839 TATTAAATTGATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAGTCT
1 TATTAAATTAATATAATACTTACTACAAGATAAATATTAAAATAAATTTAATATTAAGTCT
* *
8479898 TATTAAATTAATATAATATTTATCTACAAGATAAATATTAAAATAATTTTAATATTAAG
1 TATTAAATTAATATAATACTTA-CTACAAGATAAATATTAAAATAAATTTAATATTAAG
8479957 ATAATAACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATATAATACTTACTACAAGATAAATATTAAAATAAATTTAATATTAAGTCT
Found at i:8481651 original size:15 final size:16
Alignment explanation
Indices: 8481631--8481660 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8481621 GAAAATTGCC
8481631 AAAATTGG-CTAAATA
1 AAAATTGGACTAAATA
8481646 AAAATTGGACTAAAT
1 AAAATTGGACTAAAT
8481661 TGGAATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (16 bp):
AAAATTGGACTAAATA
Found at i:8486323 original size:14 final size:14
Alignment explanation
Indices: 8486299--8486331 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8486289 AATTTGTGTG
8486299 TTTTTTATTTTAT-
1 TTTTTTATTTTATA
8486312 TTTTTTATTTTTATA
1 TTTTTTA-TTTTATA
8486327 TTTTT
1 TTTTT
8486332 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 6 0.33
15 5 0.28
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTATTTTATA
Found at i:8491740 original size:12 final size:12
Alignment explanation
Indices: 8491723--8491749 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8491713 TGAAGTGATT
8491723 CAGCCTTTTATG
1 CAGCCTTTTATG
8491735 CAGCCTTTTATG
1 CAGCCTTTTATG
8491747 CAG
1 CAG
8491750 TATATATTTT
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:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (12 bp):
CAGCCTTTTATG
Found at i:8493309 original size:7 final size:7
Alignment explanation
Indices: 8493293--8493399 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
8493283 AATAAATGAA
*
8493293 ATAATTT
1 ATAATAT
8493300 ATAATAT
1 ATAATAT
8493307 ATAATAT
1 ATAATAT
*
8493314 A-AAAAT
1 ATAATAT
* *
8493320 GTAAGTTT
1 ATAA-TAT
*
8493328 TTAA-A-
1 ATAATAT
*
8493333 ATAATGT
1 ATAATAT
8493340 ATAATAT
1 ATAATAT
*
8493347 A-AATAA
1 ATAATAT
8493353 ATAAATAT
1 AT-AATAT
8493361 ATAAGATAT
1 AT-A-ATAT
8493370 ATAAGT-T
1 ATAA-TAT
8493377 A-AA-AT
1 ATAATAT
8493382 ATAATAT
1 ATAATAT
8493389 ATAATA-
1 ATAATAT
8493395 ATAAT
1 ATAAT
8493400 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:8493363 original size:21 final size:21
Alignment explanation
Indices: 8493331--8493395 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
8493321 TAAGTTTTTA
*
8493331 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
8493351 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
8493372 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
8493394 AA
1 AA
8493396 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:8493364 original size:28 final size:29
Alignment explanation
Indices: 8493333--8493393 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
8493323 AGTTTTTAAA
8493333 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
8493361 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
8493389 ATAAT
1 ATAAT
8493394 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:8493434 original size:12 final size:13
Alignment explanation
Indices: 8493415--8493445 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
8493405 AATTTTGAAA
8493415 ATATAAATAATAT
1 ATATAAATAATAT
8493428 A-ATAAATAATAT
1 ATATAAATAATAT
8493440 ATATAA
1 ATATAA
8493446 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:8493443 original size:16 final size:15
Alignment explanation
Indices: 8493420--8493450 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8493410 TGAAAATATA
8493420 AATAATATAATAAAT
1 AATAATATAATAAAT
8493435 AATATATATAATAAAT
1 AATA-ATATAATAAAT
8493451 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:8493747 original size:22 final size:23
Alignment explanation
Indices: 8493720--8493762 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8493710 GGATATCTAC
8493720 AAATTAAATC-TCCAAGATTACA
1 AAATTAAATCTTCCAAGATTACA
* *
8493742 AAATTATATCTTCTAAGATTA
1 AAATTAAATCTTCCAAGATTA
8493763 TATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
AAATTAAATCTTCCAAGATTACA
Found at i:8493789 original size:18 final size:17
Alignment explanation
Indices: 8493766--8493885 Score: 168
Period size: 18 Copynumber: 6.9 Consensus size: 17
8493756 AAGATTATAT
8493766 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTG-A
*
8493784 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGA
*
8493801 ATCATATCTAAGATTACA
1 ATCATATCTAAGATT-GA
*
8493819 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGA
8493836 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTG-A
* *
8493854 ATCATATTTAAGATTGT
1 ATCATATCTAAGATTGA
8493871 ATCATATCTAAGATT
1 ATCATATCTAAGATT
8493886 ACATATCATT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
17 45 0.49
18 46 0.51
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
ATCATATCTAAGATTGA
Found at i:8493808 original size:35 final size:35
Alignment explanation
Indices: 8493765--8493894 Score: 224
Period size: 35 Copynumber: 3.7 Consensus size: 35
8493755 TAAGATTATA
*
8493765 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
8493800 TATCATATCTAAGATTACAATCATATCTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
* *
8493835 TATCATATCTAAGATTGCAATCATATTTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
8493870 TATCATATCTAAGATTACATATCAT
1 TATCATATCTAAGATTACA-ATCAT
8493895 TGAAGATTAT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
35 85 0.94
36 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (35 bp):
TATCATATCTAAGATTACAATCATATCTAAGATTG
Found at i:8494497 original size:83 final size:83
Alignment explanation
Indices: 8494277--8494629 Score: 634
Period size: 83 Copynumber: 4.2 Consensus size: 83
8494267 TTCGATTTGT
* * *
8494277 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
8494342 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
8494360 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
8494425 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
8494444 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
8494509 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
8494527 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
8494592 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
8494610 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
8494630 GATCTGCTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 183 0.70
84 79 0.30
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:8495148 original size:119 final size:119
Alignment explanation
Indices: 8494553--8495145 Score: 1044
Period size: 119 Copynumber: 5.0 Consensus size: 119
8494543 CTTGAGTCTG
* * * * * *
8494553 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
8494618 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
8494672 -TTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8494736 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
8494790 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8494855 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8494909 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8494974 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8495028 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8495093 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
8495146 CTTCGATCTG
Statistics
Matches: 455, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
118 107 0.24
119 348 0.76
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:8495185 original size:44 final size:44
Alignment explanation
Indices: 8495137--8495314 Score: 161
Period size: 44 Copynumber: 4.1 Consensus size: 44
8495127 TGAAGGTTAG
8495137 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
8495181 ATCTGCTATCTTC-AACTTGTT-CCTATAAACACA-GGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * ** * * *
8495221 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCGTAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATA-AACACAGGGATGCCAA
*
8495267 ATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
8495311 ATCT
1 ATCT
8495315 TGTTTCTTTG
Statistics
Matches: 101, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.02
41 11 0.11
42 13 0.13
43 18 0.18
44 40 0.40
45 15 0.15
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:8496206 original size:8 final size:7
Alignment explanation
Indices: 8496187--8496230 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
8496177 AGCCTCTCCA
8496187 TTTTTTC
1 TTTTTTC
8496194 TTTTTTC
1 TTTTTTC
8496201 TCTTTTTC
1 T-TTTTTC
*
8496209 TTTTCTTT
1 TTTT-TTC
8496217 TTTTTATC
1 TTTTT-TC
8496225 TTTTTT
1 TTTTTT
8496231 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:8496217 original size:11 final size:10
Alignment explanation
Indices: 8496187--8496233 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
8496177 AGCCTCTCCA
8496187 TTTTTTC-TT
1 TTTTTTCTTT
*
8496196 TTTTCTCTTT
1 TTTTTTCTTT
8496206 TTCTTTTCTTT
1 TT-TTTTCTTT
8496217 TTTTTATCTTT
1 TTTTT-TCTTT
8496228 TTTTTT
1 TTTTTT
8496234 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 6 0.18
10 8 0.24
11 19 0.58
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:8496226 original size:16 final size:14
Alignment explanation
Indices: 8496187--8496233 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
8496177 AGCCTCTCCA
8496187 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTT-T
*
8496202 CTTTTTCTTTTCTTT
1 TTTTTTCTTTT-TTT
8496217 TTTTTATCTTTTTTT
1 TTTTT-TCTTTTTTT
8496232 TT
1 TT
8496234 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:8509223 original size:12 final size:13
Alignment explanation
Indices: 8509206--8509238 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8509196 AAACAAATAC
8509206 AATAATATATAA-
1 AATAATATATAAT
8509218 AATAATA-ATAAT
1 AATAATATATAAT
8509230 AATAATATA
1 AATAATATA
8509239 GTAACATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 14 0.74
13 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATATATAAT
Found at i:8509645 original size:21 final size:21
Alignment explanation
Indices: 8509577--8509663 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
8509567 ATAATTTATA
* *
8509577 ATATATAATATAAAATGTAAG
1 ATATATAAGATAAAATATAAG
* * ** *
8509598 -TTTTTAA-ATAATGTATAAT
1 ATATATAAGATAAAATATAAG
*
8509617 ATAAATAA-ATAAATATATAAG
1 ATATATAAGATAAA-ATATAAG
* *
8509638 ATATATAAGTTAAAATATAAT
1 ATATATAAGATAAAATATAAG
8509659 ATATA
1 ATATA
8509664 ATAATAATTT
Statistics
Matches: 48, Mismatches: 15, Indels: 6
0.70 0.22 0.09
Matches are distributed among these distances:
19 8 0.17
20 13 0.27
21 23 0.48
22 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
ATATATAAGATAAAATATAAG
Done.