Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 141 of 770
Found at i:41510103 original size:40 final size:40
Alignment explanation
Indices: 41510018--41510168 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
41510008 AATTGAATGA
* * *
41510018 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
41510058 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
41510099 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
41510138 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
41510169 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:41510182 original size:40 final size:40
Alignment explanation
Indices: 41510055--41510184 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
41510045 ATGCTGGAAA
* * * *
41510055 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
41510095 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
41510135 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
41510175 TTATATCCGG
1 TTATATCCGG
41510185 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:41512787 original size:28 final size:28
Alignment explanation
Indices: 41512747--41512838 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
41512737 TGGGAAGTAG
* * *
41512747 TTGGGCTTGATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
41512775 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
* *
41512803 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
41512831 TTGGGCCT
1 TTGGGCCT
41512839 AAAGGGGCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAATGTGA
Found at i:41513185 original size:27 final size:27
Alignment explanation
Indices: 41513161--41513413 Score: 228
Period size: 27 Copynumber: 9.4 Consensus size: 27
41513151 AGAGAAATGG
*
41513161 CCAAAATACCCCCGATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
* * *
41513188 CCGAAGTACCC-CCAGTTTGT-AAATTA
1 CCAAAATACCCTCGA-TTTGTAAAATTA
* *
41513214 TCGAAAA-ACCCTCAATTTGTAAAATTA
1 -CCAAAATACCCTCGATTTGTAAAATTA
* **
41513241 ACAAAATACCCTCGA-TTGGGAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
*
41513267 CTAAAATACCCTCGATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
* * *
41513294 TCAAAATACCC-CTAATTTCTAAAATTA
1 CCAAAATACCCTC-GATTTGTAAAATTA
*
41513321 CCAAAATACCCTCAATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
* * * * *
41513348 TCGAAATGCCTTTGATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
* * *
41513375 CCGAAACACCCCCGATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTA
* *
41513402 TCGAAATACCCT
1 CCAAAATACCCT
41513414 TGTAGTGTAA
Statistics
Matches: 181, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 44 0.24
27 136 0.75
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
CCAAAATACCCTCGATTTGTAAAATTA
Found at i:41513339 original size:54 final size:54
Alignment explanation
Indices: 41513161--41513412 Score: 251
Period size: 54 Copynumber: 4.7 Consensus size: 54
41513151 AGAGAAATGG
* * * * *
41513161 CCAAAATACCCCCGATTTGTAAAATTACCGAAGTACCCCCAGTTTGT-AAATTA
1 CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTA
* * * * * **
41513214 TCGAAAA-ACCCTCAATTTGTAAAATTAACAAAATA-CCCTCGA-TTGGGAAATTA
1 -CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCT-AATTTGTAAAATTA
* * *
41513267 CTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCCTAATTTCTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTA
* * ** *
41513321 CCAAAATACCCTCAATTTGTAAAATTATCGAAATGCCTTTGATTTGTAAAATTA
1 CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTA
* * *
41513375 CCGAAACACCCCCGATTTGTAAAATTATCGAAATACCC
1 CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCC
41513413 TTGTAGTGTA
Statistics
Matches: 162, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
52 11 0.07
53 56 0.35
54 95 0.59
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
CCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTA
Found at i:41513422 original size:27 final size:27
Alignment explanation
Indices: 41513164--41513442 Score: 134
Period size: 27 Copynumber: 10.4 Consensus size: 27
41513154 GAAATGGCCA
** *
41513164 AAATACCCCCGATTTGTAAAATTACCG
1 AAATACCCTTGATGTGTAAAATTACCG
* ** * *
41513191 AAGTACCC-CCAGTTTGT-AAATTATCG
1 AAATACCCTTGA-TGTGTAAAATTACCG
* ** * * *
41513217 AAAAACCCTCAATTTGTAAAATTAACA
1 AAATACCCTTGATGTGTAAAATTACCG
* ** **
41513244 AAATACCCTCGAT-TGGGAAATTACTA
1 AAATACCCTTGATGTGTAAAATTACCG
* * * *
41513270 AAATACCCTCGATTTGTAAAATTATCA
1 AAATACCCTTGATGTGTAAAATTACCG
* * * * *
41513297 AAATACCCCTAATTTCTAAAATTACCA
1 AAATACCCTTGATGTGTAAAATTACCG
** * *
41513324 AAATACCCTCAATTTGTAAAATTATCG
1 AAATACCCTTGATGTGTAAAATTACCG
* * *
41513351 AAATGCCTTTGATTTGTAAAATTACCG
1 AAATACCCTTGATGTGTAAAATTACCG
* ** * *
41513378 AAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTTGATGTGTAAAATTACCG
*
41513405 AAATACCCTTG-TAGTGTAAAATGACCG
1 AAATACCCTTGAT-GTGTAAAATTACCG
*
41513432 ACATACCCTTG
1 AAATACCCTTG
41513443 TAAGGTAAAA
Statistics
Matches: 201, Mismatches: 46, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 44 0.22
27 157 0.78
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGATGTGTAAAATTACCG
Found at i:41513443 original size:27 final size:28
Alignment explanation
Indices: 41513392--41513456 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
41513382 ACCCCCGATT
* *
41513392 TGTAAAATTATCGAAATACCCTTGT-AG
1 TGTAAAATGACCGAAATACCCTTGTAAG
*
41513419 TGTAAAATGACCGACATACCCTTGTAAG
1 TGTAAAATGACCGAAATACCCTTGTAAG
41513447 -GTAAAATGAC
1 TGTAAAATGAC
41513457 TATTTTGCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
TGTAAAATGACCGAAATACCCTTGTAAG
Found at i:41514435 original size:40 final size:40
Alignment explanation
Indices: 41514272--41514453 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
41514262 GAATGATATT
* * * *
41514272 CGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATC
* * *
41514312 CGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATC
* * * *
41514352 CGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATC
* *
41514392 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTAA-C
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AAATC
*
41514432 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
41514454 TGAATGTGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 109 0.92
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATC
Found at i:41521133 original size:41 final size:41
Alignment explanation
Indices: 41521088--41521205 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41521078 TGAAAGATAA
41521088 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41521129 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41521159 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41521200 ATGTAG
1 ATGTAG
41521206 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41521144 original size:71 final size:71
Alignment explanation
Indices: 41521056--41521219 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41521046 GAGATGTATC
41521056 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41521121 AGGACA
66 AGGACA
41521127 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41521192 AGGACA
66 AGGACA
41521198 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41521220 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41528216 original size:41 final size:41
Alignment explanation
Indices: 41528171--41528288 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41528161 TGAAAGATAA
41528171 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41528212 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41528242 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41528283 ATGTAG
1 ATGTAG
41528289 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41528227 original size:71 final size:71
Alignment explanation
Indices: 41528139--41528302 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41528129 GAGATGTATC
41528139 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41528204 AGGACA
66 AGGACA
41528210 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41528275 AGGACA
66 AGGACA
41528281 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41528303 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41532340 original size:40 final size:40
Alignment explanation
Indices: 41532174--41532358 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
41532164 TTCGAATGAT
* * * *
41532174 ATCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
* * *
41532214 ATCCGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
41532254 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
41532294 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
41532335 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
41532359 TGAATGTGTA
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:41539589 original size:27 final size:27
Alignment explanation
Indices: 41539549--41539746 Score: 242
Period size: 27 Copynumber: 7.3 Consensus size: 27
41539539 AGGAAGCGTC
*
41539549 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
41539576 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
41539602 CCTGATGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAAATATCTGAT
*
41539630 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
41539656 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAAATATCTGAT
* *
41539684 CTGGTGGCTCTGCCACATATATTTG-T
1 CTGGTGGCTCTGCCACAAATATCTGAT
41539710 CCTGGTGGCTCTGCCAC-AATATCTGTAT
1 -CTGGTGGCTCTGCCACAAATATCTG-AT
41539738 CTGGTGGCT
1 CTGGTGGCT
41539747 TCGTCACAAT
Statistics
Matches: 145, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.06
27 133 0.92
28 3 0.02
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:41539628 original size:54 final size:54
Alignment explanation
Indices: 41539546--41539746 Score: 350
Period size: 54 Copynumber: 3.7 Consensus size: 54
41539536 TGGAGGAAGC
*
41539546 GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
41539600 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
41539654 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
41539708 GTCCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGGCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCT
41539747 TCGTCACAAT
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
53 6 0.04
54 135 0.96
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:41542790 original size:42 final size:42
Alignment explanation
Indices: 41542686--41542792 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
41542676 GATTTCATGT
* * **
41542686 AGACCACGTTTGGGACATGGCATCGAAATGAGATTTCGTATA
1 AGACCACGTCTGGGACATGGCATCGAAATGAAATCACGTATA
** * * * ** *
41542728 AGACCATATCCGAGATATGGCATCGATGTGAAATCACGTGTA
1 AGACCACGTCTGGGACATGGCATCGAAATGAAATCACGTATA
41542770 AGACCACGTCTGGGACATGGCAT
1 AGACCACGTCTGGGACATGGCAT
41542793 TGGCATCGTA
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (42 bp):
AGACCACGTCTGGGACATGGCATCGAAATGAAATCACGTATA
Found at i:41542825 original size:33 final size:33
Alignment explanation
Indices: 41542783--41542848 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
41542773 CCACGTCTGG
41542783 GACATGGCATTGGCATCGTATTGTGTGTATGAA
1 GACATGGCATTGGCATCGTATTGTGTGTATGAA
41542816 GACATGGCATTGGCATCGTATTGTGTGTATGAA
1 GACATGGCATTGGCATCGTATTGTGTGTATGAA
41542849 AATCTTGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (33 bp):
GACATGGCATTGGCATCGTATTGTGTGTATGAA
Found at i:41551091 original size:6 final size:6
Alignment explanation
Indices: 41551073--41551166 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
41551063 AAGAAACATT
* *
41551073 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
41551122 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
41551167 GGGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:41551124 original size:31 final size:31
Alignment explanation
Indices: 41551087--41551166 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
41551077 GAACTAGAAT
* *
41551087 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
41551118 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
41551149 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
41551167 GGGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:41552200 original size:2 final size:2
Alignment explanation
Indices: 41552193--41552224 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41552183 CGGCTCTTGC
41552193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41552225 GTTTGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41553025 original size:40 final size:40
Alignment explanation
Indices: 41552980--41553185 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
41552970 AATGATACCT
* *
41552980 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCC
1 GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCC
* *
41553020 AGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCC
** *
41553060 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCC
1 GGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATATCC
* * * ** *
41553100 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC
1 GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCC
* * * * *
41553140 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCC
41553180 -GGCTAA
1 GGGCTAA
41553186 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.04
40 133 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATATCC
Found at i:41555720 original size:27 final size:27
Alignment explanation
Indices: 41555690--41555781 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
41555680 ATCACCAAAG
*
41555690 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41555717 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
41555744 TACCCTTGATTTGCAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
41555771 TACCCTCGATT
1 TACCCTCGATT
41555782 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:41555843 original size:27 final size:27
Alignment explanation
Indices: 41555813--41555935 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
41555803 TATAGGGTAG
**
41555813 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
41555840 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
41555867 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
41555894 AATTACCAAAATA-CCCTGATTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
**
41555920 AATTACTGAAATACCC
1 AATTACCAAAATACCC
41555936 TCAACCTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 23 0.26
27 64 0.74
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:41555854 original size:54 final size:54
Alignment explanation
Indices: 41555780--41555909 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
41555770 TTACCCTCGA
* ** * **
41555780 TTGTGAAATTACTGAAATACCCCTA-TAGGGTAGAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT-GGGTAAAATTACCAAAATACCCCTAAT
* **
41555834 TTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTAAT
*
41555888 TTGTGAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
41555910 TGATTTGTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 63 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTAAT
Found at i:41555988 original size:27 final size:27
Alignment explanation
Indices: 41555813--41555990 Score: 139
Period size: 27 Copynumber: 6.6 Consensus size: 27
41555803 TATAGGGTAG
**
41555813 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTGTAA
* *
41555840 AATTATCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTGTAA
*
41555867 AATTACCAAAATACCC-CTAATTTGTGA
1 AATTACCAAAATACCCTC-AATTTGTAA
* *
41555894 AATTACCAAAATACCCT-GATTTGTGA
1 AATTACCAAAATACCCTCAATTTGTAA
** ** *
41555920 AATTACTGAAATACCCTCAACCTATAA
1 AATTACCAAAATACCCTCAATTTGTAA
*** * *
41555947 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
*
41555974 AATTACCAAAGTACCCT
1 AATTACCAAAATACCCT
41555991 TGATTTACAG
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 23 0.18
27 105 0.82
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:41556004 original size:27 final size:26
Alignment explanation
Indices: 41555972--41556046 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
41555962 CTCGACTTGT
41555972 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* ** *
41555999 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCA-AATACCCTTGATTTAC
*
41556026 AAAATTACTGAAATACCCTTG
1 AAAATTAC-CAAATACCCTTG
41556047 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:41556058 original size:27 final size:27
Alignment explanation
Indices: 41556028--41556249 Score: 250
Period size: 27 Copynumber: 8.2 Consensus size: 27
41556018 CGATTTACAA
*
41556028 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
41556055 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
41556082 AATTACCGAAATACCCCTTTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
41556109 AATTA-TCGGAATACCCCTGTAGGATAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
41556136 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
41556163 AATTACCGAAAAACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
41556190 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
41556217 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
41556244 AATTAC
1 AATTAC
41556250 CATTTTGCCC
Statistics
Matches: 163, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:41556203 original size:81 final size:81
Alignment explanation
Indices: 41556028--41556250 Score: 288
Period size: 81 Copynumber: 2.8 Consensus size: 81
41556018 CGATTTACAA
* *
41556028 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAA
*
41556093 TACCCCTTTAGGGTAG
66 TAACCCTTTAGGGTAG
* *
41556109 AATTA-TCGGAATACCCCTGTAGGATAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAA
1 AATTACT-GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAA
41556173 A-AACCCTTGTAGGGTAG
65 ATAACCCTT-TAGGGTAG
* * * * * * * * *
41556190 AATTACTAAAATACCCCTATAGGGTGGAATTATCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACC
41556251 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 7 0.06
81 115 0.93
82 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAA
TAACCCTTTAGGGTAG
Found at i:41557963 original size:93 final size:92
Alignment explanation
Indices: 41557805--41557974 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
41557795 GCCCATAAGT
*
41557805 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
41557870 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
41557897 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41557962 CGAGTTCGGATGC
65 CGAGTTCGGATGC
41557975 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41557990 original size:46 final size:46
Alignment explanation
Indices: 41557797--41557976 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 46
41557787 TGTAACCCGC
* *
41557797 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
41557842 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
41557892 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
41557935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
41557977 AACCATCCTA
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 37 0.32
46 37 0.32
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:41559461 original size:6 final size:6
Alignment explanation
Indices: 41559430--41559505 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
41559420 ATTGCTTCCC
* *
41559430 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
41559479 -TCACCTG ATTCTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT
41559506 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 3 0.05
6 45 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:41559468 original size:31 final size:31
Alignment explanation
Indices: 41559430--41559505 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
41559420 ATTGCTTCCC
* *
41559430 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
41559461 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
41559492 ATTCTAATTCTGAT
1 ATTCTGATTCTGAT
41559506 AATGTTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:41559514 original size:18 final size:17
Alignment explanation
Indices: 41559493--41559526 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41559483 CTGATTCTGA
41559493 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
41559511 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
41559527 GGTTAAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:41560442 original size:27 final size:27
Alignment explanation
Indices: 41560412--41560580 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
41560402 AGGGCAAAAT
* * *
41560412 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
41560439 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
41560466 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
41560493 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
41560520 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
41560547 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
41560574 GGTAATT
1 GGTAATT
41560581 TTATAAACCA
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:41560555 original size:81 final size:80
Alignment explanation
Indices: 41560416--41560583 Score: 273
Period size: 81 Copynumber: 2.1 Consensus size: 80
41560406 CAAAATGGTA
*
41560416 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTA
41560481 CAGGGGTATTTCGGT
66 CAGGGGTATTTCGGT
* * *
41560496 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCT
*
41560561 ACAGGGGTATTTTGGT
65 ACAGGGGTATTTCGGT
41560577 AATTTTA
1 -ATTTTA
41560584 TAAACCAAGG
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
80 4 0.05
81 73 0.90
82 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTA
CAGGGGTATTTCGGT
Found at i:41560605 original size:54 final size:54
Alignment explanation
Indices: 41560411--41560607 Score: 225
Period size: 54 Copynumber: 3.6 Consensus size: 54
41560401 AAGGGCAAAA
* * * *
41560411 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
* * * *
41560465 TAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
* * * * *
41560519 CGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
* ***
41560573 TGGTAATTTTA-TAAACCAAGGGTATTTCAGTAATT
1 TGGTAATTCTACCCTA-CAAGGGTATTTCAGTAATT
41560608 TTGTAAATTG
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
Found at i:41560607 original size:81 final size:79
Alignment explanation
Indices: 41560425--41560607 Score: 251
Period size: 81 Copynumber: 2.3 Consensus size: 79
41560415 AATTTTACCC
*
41560425 CACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTAT
1 CACAAGGGTATTTC-GTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTAT
* **
41560490 TTCGGTATTTCTACC
65 TTCGGTATTTATAAA
*
41560505 CTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTA
1 C-ACAAGGGTATTTCG-TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTA
*
41560570 TTTTGGTAATTTTATAAA
64 TTTCGGT-A-TTTATAAA
41560588 C-CAAGGGTATTTCAGTAATT
1 CACAAGGGTATTTC-GTAATT
41560608 TTGTAAATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
80 2 0.02
81 82 0.89
82 2 0.02
83 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (79 bp):
CACAAGGGTATTTCGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATT
TCGGTATTTATAAA
Found at i:41560623 original size:54 final size:54
Alignment explanation
Indices: 41560565--41560904 Score: 202
Period size: 54 Copynumber: 6.3 Consensus size: 54
41560555 TACCCTACAG
* * * * *
41560565 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTGTAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
*** * * * *** *
41560619 GGGTAAAACGGTAATTCTATAAATCGATGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
*** ** *** *
41560673 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
* * ** **
41560727 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAATAA-TTTACAGGTCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
* * ** ** *
41560780 GGGTATTTCAGTAATTTCACAAATC-AGAGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTCGGTAATTTTACAAATCGAG-GGTATTTCAGTAATTTTGTAAATCGA
* * * ** * * * *
41560833 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
*
41560888 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
41560905 GGTAAACTAA
Statistics
Matches: 230, Mismatches: 49, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
52 5 0.02
53 37 0.16
54 184 0.80
55 4 0.02
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGA
Found at i:41560660 original size:81 final size:81
Alignment explanation
Indices: 41560575--41560731 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
41560565 GGGTATTTTG
* *** * *
41560575 GTAATTTTATAAACCAAGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTATAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
41560640 AATCGATGGTAAAACA
66 AATCGAGGGTAAAACA
* * * * *
41560656 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTATAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
41560721 AATCGAGGGTA
66 AATCGAGGGTA
41560732 CTTTGGTAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACA
Found at i:41560742 original size:27 final size:27
Alignment explanation
Indices: 41560602--41560731 Score: 197
Period size: 27 Copynumber: 4.8 Consensus size: 27
41560592 GGGTATTTCA
* *
41560602 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
41560629 GTAATTCTATAAATCGATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
41560656 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
41560683 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
41560710 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
41560732 CTTTGGTAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:41560753 original size:27 final size:27
Alignment explanation
Indices: 41560720--41560904 Score: 160
Period size: 27 Copynumber: 6.9 Consensus size: 27
41560710 GTAATTCTGT
*
41560720 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* ***
41560747 AAGTCGAGGGTATTTCAATAA-TTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** ** *
41560773 AGGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
41560800 AAATC-AGAGGTATTTTGGTAATTTTAC
1 AAATCGAG-GGTATTTTGGTAATTTTAC
*
41560827 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTTGGTAATTTTAC
* * * *
41560854 AAACCAAGGGTATTTTGGTGATTTTAT
1 AAATCGAGGGTATTTTGGTAATTTTAC
* * **
41560881 AAACCAAGGGTATTTCAGTAATTT
1 AAATCGAGGGTATTTTGGTAATTT
41560905 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 27 0.20
27 104 0.78
28 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:41560769 original size:81 final size:79
Alignment explanation
Indices: 41560565--41560770 Score: 205
Period size: 81 Copynumber: 2.5 Consensus size: 79
41560555 TACCCTACAG
* * * * *
41560565 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAACGG
1 GGGTAATTTGGTAA-TTT-TAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAG
41560630 TAATTCTATAAATCGA
64 TAATTCTATAAATCGA
* **** *** *
41560646 TGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAATTTGGTAATT-T-TAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAG
*
41560711 TAATTCTGTAAATCGA
64 TAATTCTATAAATCGA
* *
41560727 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTT
1 GGGTAATTTGGTAATTTTA-AA-TCGAGGGTATTTCAGTAATTT
41560771 ACAGGTCGAG
Statistics
Matches: 95, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
79 2 0.02
80 5 0.05
81 88 0.93
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (79 bp):
GGGTAATTTGGTAATTTTAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTA
ATTCTATAAATCGA
Found at i:41560778 original size:26 final size:26
Alignment explanation
Indices: 41560742--41560814 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
41560732 CTTTGGTAAT
41560742 TTTACAAGTCGAGGGTATTTCAATAA
1 TTTACAAGTCGAGGGTATTTCAATAA
* *
41560768 TTTACAGGTCGAGGGTATTTCAGTAA
1 TTTACAAGTCGAGGGTATTTCAATAA
*
41560794 TTTCACAAATC-AGAGGTATTT
1 TTT-ACAAGTCGAG-GGTATTT
41560815 TGGTAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 29 0.71
27 12 0.29
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (26 bp):
TTTACAAGTCGAGGGTATTTCAATAA
Found at i:41570037 original size:43 final size:42
Alignment explanation
Indices: 41569874--41570038 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
41569864 TTTCGTTATG
* * *
41569874 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCGTCGACTTA
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTA
* * * * * *
41569917 TGTTTTATGTGTAAGACCATGTCTGGGACATCGGCATCG-TATC
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TA
* * *
41569960 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCAACGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TA
*
41570003 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
41570039 TGTATATGTT
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTA
Found at i:41571229 original size:27 final size:26
Alignment explanation
Indices: 41571181--41571240 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41571171 GCGAAGCTGC
*
41571181 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41571208 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41571234 CAGATAT
1 CAGATAT
41571241 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41574784 original size:21 final size:21
Alignment explanation
Indices: 41574755--41574801 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
41574745 CAATGGAAGG
* *
41574755 AAAAGGGAAATGGAATTTAGA
1 AAAATGGAAATGGAATGTAGA
41574776 AAAATGGAAATGGAATGTAGA
1 AAAATGGAAATGGAATGTAGA
41574797 AAAAT
1 AAAAT
41574802 ACTAATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (21 bp):
AAAATGGAAATGGAATGTAGA
Found at i:41584709 original size:46 final size:45
Alignment explanation
Indices: 41584650--41584821 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
41584640 CACATCTCGT
*
41584650 GGCTGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCCTGA
1 GGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTATGT-CTGA
* * * *
41584696 GGCTAATGCATGTCCCAGACATGTCTTACACTAGCACT-TGTCTCAA
1 GGCTGATGCATGTCCCAGACATGTCTTACACTGGC-TTATGTCT-GA
* * *
41584742 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAG--TGT
1 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-AT-GTCTGA
41584790 GGCTGATGCATGTCCCAGACATGTCTTACACT
1 GGCTGATGCATGTCCCAGACATGTCTTACACT
41584822 AGCTCACACA
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 51 0.49
47 29 0.28
48 19 0.18
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (45 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTGA
Found at i:41584799 original size:94 final size:89
Alignment explanation
Indices: 41584556--41584824 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 89
41584546 ATGGGTAAAG
* * *
41584556 TGCCGATGCCATGTCCTAGA-ATGGTCTTACACAGGCTATCATCTTCGAGGCTGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT-GT-GAGGCTGATG-CATGTCC
* * *
41584620 TAAACATGGTCTTACAC-AGACACATCTCG
62 CAGACAT-GTCTTACACTAG-CACATCTCA
* * *
41584649 TGGCTGATG-CATGTCCCAGACAT-GTCTTATACTGGCTT-ATGTCCTGAGGCTAATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATG---TGAGGCTGATGCATGTCC
*
41584711 CAGACATGTCTTACACTAGCACTTGTCTCAA
62 CAGACATGTCTTACACTAGCAC--ATCTC-A
*
41584742 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGTGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT-GTGAGGCTGATGCATGTCCCA
41584807 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
41584825 TCACACAAAT
Statistics
Matches: 148, Mismatches: 14, Indels: 27
0.78 0.07 0.14
Matches are distributed among these distances:
90 12 0.08
91 16 0.11
92 20 0.14
93 39 0.26
94 57 0.39
95 1 0.01
96 2 0.01
97 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (89 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATGTGAGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCTCA
Found at i:41587240 original size:40 final size:40
Alignment explanation
Indices: 41587135--41587351 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
41587125 TGGATGATAA
* *
41587135 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
41587175 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41587214 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41587254 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41587294 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41587334 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41587352 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41587349 original size:119 final size:119
Alignment explanation
Indices: 41587131--41587351 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
41587121 TATTTGGATG
* *
41587131 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
41587196 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
41587250 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
41587314 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
41587352 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:41593199 original size:39 final size:40
Alignment explanation
Indices: 41593136--41593321 Score: 281
Period size: 39 Copynumber: 4.7 Consensus size: 40
41593126 TATTTGGATG
* *
41593136 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
41593176 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
41593215 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
41593255 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
41593294 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
41593322 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 90 0.67
40 44 0.33
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:41593273 original size:79 final size:79
Alignment explanation
Indices: 41593136--41593354 Score: 311
Period size: 79 Copynumber: 2.8 Consensus size: 79
41593126 TATTTGGATG
* *
41593136 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCC-GGCTAAGTCCCGAAGGC
41593199 ATTTGTGCGAGCTACT
64 ATTTGTGCGAGCTACT
* *
41593215 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
*
41593280 TTGTGCGAGTTACT
66 TTGTGCGAGCTACT
* * *
41593294 ATAACCGGGCT-AGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGCTAAGTCCCGAAGG
41593355 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.02
78 50 0.39
79 74 0.58
80 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGCTACT
Found at i:41593335 original size:39 final size:40
Alignment explanation
Indices: 41593136--41593354 Score: 279
Period size: 39 Copynumber: 5.6 Consensus size: 40
41593126 TATTTGGATG
* *
41593136 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
41593176 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41593215 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41593255 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41593294 ATAACCGGGCT-AGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
* * *
41593333 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
41593355 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 6 0.04
39 110 0.69
40 44 0.28
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:41601323 original size:29 final size:29
Alignment explanation
Indices: 41601288--41601424 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
41601278 CTACTCGATT
* *
41601288 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
41601317 TCGCACACACAGTGCCATATTTTTTTCCAGC
1 TCGCACACTTAGTGCCA-A-TAATTTCCAGC
*
41601348 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
41601377 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
41601406 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
41601425 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 64 0.72
30 7 0.08
31 17 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:41601364 original size:60 final size:58
Alignment explanation
Indices: 41601289--41601423 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 58
41601279 TACTCGATTT
** * * *
41601289 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA--TATTTCCAGCA
* * **
41601349 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
41601407 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
41601424 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 25 0.39
59 4 0.06
60 35 0.55
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:41610887 original size:77 final size:81
Alignment explanation
Indices: 41610759--41610939 Score: 230
Period size: 77 Copynumber: 2.3 Consensus size: 81
41610749 GCTACTCGTT
* * *
41610759 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
41610823 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
**
41610839 CAAATGCCTTC-GGACTTAACCC-ATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
41610901 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
41610917 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
41610940 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 3 0.03
77 45 0.51
78 20 0.23
79 9 0.10
80 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:41610941 original size:40 final size:40
Alignment explanation
Indices: 41610740--41610941 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
41610730 CGGAGTTTAA
** *
41610740 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41610780 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41610820 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41610859 CC--ATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
41610897 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41610937 CCGGA
1 CCGGA
41610942 CATCATTCGA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
37 29 0.20
38 6 0.04
39 12 0.08
40 85 0.59
41 11 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41618968 original size:40 final size:40
Alignment explanation
Indices: 41618931--41619115 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
41618921 GCTACTCGTT
*
41618931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41618971 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
41619011 C-AATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
41619050 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41619091 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41619116 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 40 0.31
40 77 0.59
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41619031 original size:79 final size:80
Alignment explanation
Indices: 41618933--41619115 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
41618923 TACTCGTTCA
*
41618933 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
41618996 ATTTAGTAAC-TCGCAC
64 ATATAGTAACTTAGCAC
* **
41619012 AATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
41619077 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
41619092 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41619116 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 3 0.03
79 60 0.65
80 29 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:41629315 original size:31 final size:29
Alignment explanation
Indices: 41629229--41629360 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
41629219 GTGACGAGAT
41629229 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41629258 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
41629287 TGGCACTAAAAGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
41629316 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41629345 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
41629361 GGCTTAAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41641627 original size:30 final size:30
Alignment explanation
Indices: 41641572--41641761 Score: 255
Period size: 30 Copynumber: 6.5 Consensus size: 30
41641562 GTAGTGAATC
41641572 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
41641601 CGCGCACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
41641631 CGCACACTTAGTGCCATGTAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
41641661 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
41641690 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
41641718 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
41641748 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41641762 CAATCTTGTC
Statistics
Matches: 144, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.01
28 22 0.15
29 47 0.33
30 72 0.50
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:41641742 original size:87 final size:87
Alignment explanation
Indices: 41641571--41641761 Score: 271
Period size: 89 Copynumber: 2.2 Consensus size: 87
41641561 TGTAGTGAAT
* *
41641571 CCGCACACTTAGTGCTATATATTTTCAGCTCGCGCACTTAGTGCTATATAATTTTCAGCTCGCAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACTCGCAC
* *
41641636 ACTTAGTGCCATGTAATTTTCAGC
64 ACTTAGTGCCATGTAATTTTAAAC
*
41641660 TCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACTCGCACA
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACTCGCACA
41641724 CTTAGTG-C-TGTACAATTTTAAAC
65 CTTAGTGCCATGT--AATTTTAAAC
41641747 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
41641762 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 38 0.41
89 49 0.53
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (87 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACTCGCACAC
TTAGTGCCATGTAATTTTAAAC
Found at i:41649600 original size:30 final size:30
Alignment explanation
Indices: 41649545--41649706 Score: 238
Period size: 30 Copynumber: 5.5 Consensus size: 30
41649535 GTAGTGAATC
41649545 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
41649574 CGCGCACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
41649604 CGCACACTTAGTGCCATGTAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
41649634 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* * * * *
41649663 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
41649693 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41649707 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
29 45 0.38
30 75 0.62
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:41649657 original size:59 final size:60
Alignment explanation
Indices: 41649545--41649706 Score: 224
Period size: 59 Copynumber: 2.7 Consensus size: 60
41649535 GTAGTGAATC
* * *
41649545 CGCACACTTAGTGCTATAT-ATTTTCAGCTCGCGCACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCCATGTAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
41649604 CGCACACTTAGTGCCATGTAATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCCATGTAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * *
41649663 CGCACACTTAGTG-C-TGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCCATGT--AATTTTCAGCTCGCACACTTAGTGC
41649707 CAATCTTGTC
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
57 3 0.03
58 1 0.01
59 62 0.66
60 28 0.30
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (60 bp):
CGCACACTTAGTGCCATGTAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:41649697 original size:89 final size:89
Alignment explanation
Indices: 41649545--41649708 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
41649535 GTAGTGAATC
* * * * *
41649545 CGCACACTTAGTGCTATATATTTTCAGCTCGCGCACTTAGTGCTATATAATTTTCAGCTCGCACA
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
41649610 CTTAGTGCCATGTAATTTTCAGCT
66 CTTAGTGCCATGTAATTTTCAGCT
*
41649634 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
41649699 CTTAGTGCCA
66 CTTAGTGCCA
41649709 ATCTTGTCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (89 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
CTTAGTGCCATGTAATTTTCAGCT
Found at i:41652096 original size:40 final size:40
Alignment explanation
Indices: 41652041--41652224 Score: 183
Period size: 40 Copynumber: 4.5 Consensus size: 40
41652031 GATTCAGATA
*
41652041 TATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGC
* * * * * * *
41652081 TATATGTGACACTTAGTGTGAGATTCGAAATAGCTTTGAC
1 TATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGC
* **
41652121 TATATATGGCACTTACTGTGCGAGAATGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGA-TTTGAGATAGCTTCGGC
* * *
41652162 TATGTAAGGCACTTAGTGTGTGAGATTAT-A-ATAGCTTCGGC
1 TATATATGGCACTTA--GTGTGCGATT-TGAGATAGCTTCGGC
41652203 TATATATTGGCACTTAGTGTGC
1 TATATA-TGGCACTTAGTGTGC
41652225 AAAATATCGA
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
40 56 0.50
41 40 0.36
42 9 0.08
43 7 0.06
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGC
Found at i:41652173 original size:41 final size:40
Alignment explanation
Indices: 41652041--41652224 Score: 155
Period size: 41 Copynumber: 4.5 Consensus size: 40
41652031 GATTCAGATA
* *
41652041 TATATATGGCACTTAGTGTGC--GATTTGAGATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCGAGATAT-A-ATAGCTTCGGC
* * * *
41652081 TATATGTGACACTTAGTGT--GAGAT-TCGAAATAGCTTTGAC
1 TATATATGGCACTTAGTGTGCGAGATAT---AATAGCTTCGGC
*
41652121 TATATATGGCACTTACTGTGCGAGA-ATGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATAT-A-ATAGCTTCGGC
* * *
41652162 TATGTAAGGCACTTAGTGTGTGAGATTATAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGA-TATAATAGCTTCGGC
41652203 TATATATTGGCACTTAGTGTGC
1 TATATA-TGGCACTTAGTGTGC
41652225 AAAATATCGA
Statistics
Matches: 114, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.01
40 45 0.39
41 47 0.41
42 19 0.17
43 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGAGATATAATAGCTTCGGC
Found at i:41652178 original size:81 final size:80
Alignment explanation
Indices: 41652041--41652229 Score: 220
Period size: 81 Copynumber: 2.3 Consensus size: 80
41652031 GATTCAGATA
** * **
41652041 TATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGTTATATGTGACACTTA-GTGTGAGAT
1 TATATATGGCACTTAGTGTGCGAAATGAGATAGCTTCGGCTATATAAGACACTTAGGTGTGAGAT
*
41652105 TCGA-AATAGCTTTGAC
66 T--ATAATAGCTTCGAC
* * *
41652121 TATATATGGCACTTACTGTGCGAGAATGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGTGAG
1 TATATATGGCACTTAGTGTGCGA-AATGAGATAGCTTCGGCTATATAAGACACTTAG-GTGTGAG
*
41652186 ATTATAATAGCTTCGGC
64 ATTATAATAGCTTCGAC
*
41652203 TATATATTGGCACTTAGTGTGCAAAAT
1 TATATA-TGGCACTTAGTGTGCGAAAT
41652230 ATCGAGCATT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 22 0.24
81 26 0.28
82 19 0.21
83 25 0.27
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (80 bp):
TATATATGGCACTTAGTGTGCGAAATGAGATAGCTTCGGCTATATAAGACACTTAGGTGTGAGAT
TATAATAGCTTCGAC
Found at i:41657295 original size:27 final size:28
Alignment explanation
Indices: 41657255--41657383 Score: 130
Period size: 27 Copynumber: 4.9 Consensus size: 28
41657245 AGGAAGCGTC
*
41657255 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
*
41657282 CTGGTGGCTCTGCCACATATT-TCTGT-G
1 CTGGTGGCTCTGCCACA-ATTATCTGTAT
*
41657309 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
41657337 CTAGT-GCTCTG-CACGA-T-TCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
41657361 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
41657384 TTCTGGCAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
24 11 0.13
25 7 0.08
26 12 0.14
27 50 0.57
28 7 0.08
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:41658467 original size:11 final size:10
Alignment explanation
Indices: 41658439--41658472 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
41658429 AGCCTGTAAG
41658439 TATTCTGAAT
1 TATTCTGAAT
*
41658449 TTTTCTGAAT
1 TATTCTGAAT
41658459 ATATTCTGAAT
1 -TATTCTGAAT
41658470 TAT
1 TAT
41658473 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:41665146 original size:27 final size:27
Alignment explanation
Indices: 41665106--41665211 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
41665096 AGGAAGCGTC
* * *
41665106 CTGGAGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
41665133 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
41665160 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
41665188 CTGGTGACTTTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
41665212 TTTTGGCAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.04
27 47 0.70
28 17 0.25
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:41665212 original size:27 final size:27
Alignment explanation
Indices: 41665123--41665212 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
41665113 CTATGCCATA
41665123 ATTATCTG-ATCTGGTGGCTCTGCCAC
1 ATTATCTGTATCTGGTGGCTCTGCCAC
*
41665149 ATATTTCTGT-TCTGGTGGCTCTGCCAC
1 AT-TATCTGTATCTGGTGGCTCTGCCAC
* * *
41665176 GATTATCTGTATCTGGTGACTTTGTCAC
1 -ATTATCTGTATCTGGTGGCTCTGCCAC
41665204 ATTATCTGT
1 ATTATCTGT
41665213 TTTGGCAGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
26 2 0.04
27 37 0.67
28 16 0.29
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTATCTGTATCTGGTGGCTCTGCCAC
Found at i:41672686 original size:40 final size:41
Alignment explanation
Indices: 41672641--41672741 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
41672631 CACTTAGATA
*
41672641 TATATATGGCACTTAGTGTGC-AG-TTCGAAATAGATTCGA-C
1 TATATATGGCACTTAGTGTGCAAGAAT-GAAATAGATT-GAGC
*
41672681 TATATATGGCACTTAGTGTGCAAGAATGAAATAGCTTGAGC
1 TATATATGGCACTTAGTGTGCAAGAATGAAATAGATTGAGC
* *
41672722 TATGTAAGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
41672742 TGAGATTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 23 0.43
41 30 0.56
42 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCAAGAATGAAATAGATTGAGC
Found at i:41672755 original size:41 final size:41
Alignment explanation
Indices: 41672648--41672768 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
41672638 ATATATATAT
* * * *
41672648 GGCACTTAGTGTGC-AG-TTCGAAATAGATTCGACTATATAT
1 GGCACTTAGTGTGCAAGAAT-GAAATAGATTCGGCTATGTAA
*
41672688 GGCACTTAGTGTGCAAGAATGAAATAGCTT-GAGCTATGTAA
1 GGCACTTAGTGTGCAAGAATGAAATAGATTCG-GCTATGTAA
** *
41672729 GGCACTTAGTGTGTGAG-ATTATAATAGATTCGGCTATGTA
1 GGCACTTAGTGTGCAAGAATGA-AATAGATTCGGCTATGTA
41672769 TTAGCACTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
40 18 0.27
41 47 0.70
42 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (41 bp):
GGCACTTAGTGTGCAAGAATGAAATAGATTCGGCTATGTAA
Found at i:41675156 original size:30 final size:29
Alignment explanation
Indices: 41675115--41675171 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
41675105 GTGCGAAAGT
41675115 AAAAAACAAATTGAGATTAAAAAAAGAAA
1 AAAAAACAAATTGAGATTAAAAAAAGAAA
**
41675144 AAAAACACAAATTTTGATTAAAAAAAGA
1 AAAAA-ACAAATTGAGATTAAAAAAAGA
41675172 GTCTGGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (29 bp):
AAAAAACAAATTGAGATTAAAAAAAGAAA
Found at i:41677997 original size:29 final size:28
Alignment explanation
Indices: 41677959--41678056 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 28
41677949 TGTGACTCGA
* *
41677959 CCTAACGGGCCATATAAATGTTATTTGGG
1 CCTAATGGGCCATATAAATGTGA-TTGGG
* *
41677988 CCTAATGGGCCATATACAGGTGACTTGGG
1 CCTAATGGGCCATATAAATGTGA-TTGGG
* *
41678017 CCTAATGGGCCATATGAATATGATTGGG
1 CCTAATGGGCCATATAAATGTGATTGGG
*
41678045 CTTAATGGGCCA
1 CCTAATGGGCCA
41678057 GATACAGCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 16 0.27
29 43 0.73
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (28 bp):
CCTAATGGGCCATATAAATGTGATTGGG
Found at i:41685442 original size:66 final size:68
Alignment explanation
Indices: 41685366--41685552 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
41685356 TAGTACCACT
*
41685366 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
41685428 CACG
65 CACG
41685432 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
41685497 ATCACG
63 ATCACG
41685503 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
41685553 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:41685477 original size:71 final size:71
Alignment explanation
Indices: 41685389--41685552 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41685379 CGATTTGTCT
41685389 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41685454 CTTTCA
66 CTTTCA
41685460 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41685525 CTTTCA
66 CTTTCA
41685531 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41685553 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41685590 original size:71 final size:70
Alignment explanation
Indices: 41685389--41685586 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
41685379 CGATTTGTCT
* * *
41685389 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41685454 CTTTCA
65 CTTTCA
* * *
41685460 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41685525 CTTTCA
65 CTTTCA
* *
41685531 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
41685587 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41692106 original size:66 final size:68
Alignment explanation
Indices: 41692030--41692216 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
41692020 TAGTACCACT
*
41692030 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
41692092 CACG
65 CACG
41692096 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
41692161 ATCACG
63 ATCACG
41692167 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
41692217 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:41692141 original size:71 final size:71
Alignment explanation
Indices: 41692053--41692216 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41692043 CGATTTGTCT
41692053 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41692118 CTTTCA
66 CTTTCA
41692124 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41692189 CTTTCA
66 CTTTCA
41692195 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41692217 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41692254 original size:71 final size:70
Alignment explanation
Indices: 41692053--41692250 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
41692043 CGATTTGTCT
* * *
41692053 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41692118 CTTTCA
65 CTTTCA
* * *
41692124 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41692189 CTTTCA
65 CTTTCA
* *
41692195 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
41692251 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41694791 original size:16 final size:16
Alignment explanation
Indices: 41694765--41694816 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
41694755 TATGAATCAG
*
41694765 CAAAA-GTCGAAATGC
1 CAAAATGTCGAAAAGC
41694780 CAAAATGTCGAAAAGC
1 CAAAATGTCGAAAAGC
* *
41694796 CGAAATGTTGAAAAGC
1 CAAAATGTCGAAAAGC
*
41694812 TAAAA
1 CAAAA
41694817 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (16 bp):
CAAAATGTCGAAAAGC
Found at i:41696433 original size:40 final size:39
Alignment explanation
Indices: 41696388--41696595 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
41696378 CGGAATACAA
*
41696388 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41696428 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
41696468 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
41696508 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
41696548 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
41696588 CCGGATAT
1 CCGGATAT
41696596 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:41696528 original size:80 final size:80
Alignment explanation
Indices: 41696388--41696594 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
41696378 CGGAATACAA
* * *
41696388 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
41696452 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
41696468 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
41696532 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
41696548 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
41696595 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:41698323 original size:29 final size:29
Alignment explanation
Indices: 41698281--41698376 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
41698271 TGTGACTAGG
*
41698281 CCTAACGGGCCATATAAATGTGATTTGGC
1 CCTAATGGGCCATATAAATGTGATTTGGC
* * * * *
41698310 CCTAATGGACCATATACAGGTGACTTGGG
1 CCTAATGGGCCATATAAATGTGATTTGGC
* * *
41698339 CCTAATGGGCCATATGAATATGA-TTGGG
1 CCTAATGGGCCATATAAATGTGATTTGGC
*
41698367 CTTAATGGGC
1 CCTAATGGGC
41698377 TAGATACAGC
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 14 0.25
29 41 0.75
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (29 bp):
CCTAATGGGCCATATAAATGTGATTTGGC
Found at i:41700158 original size:50 final size:48
Alignment explanation
Indices: 41700006--41700272 Score: 191
Period size: 46 Copynumber: 5.6 Consensus size: 48
41699996 TTTGTGCGCT
* * * *
41700006 AGTGAAAGA-CATGTCTGGGACAT-GCATCCGC-CTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGA-TTG-AGAGCC
* * * *
41700052 AGTGTAAGA-CATGTCTGTGACAT-GTATC-G-ACTATGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-TGATTGA-GAGCC
* **
41700096 AGTGTAAGACCATGTCTGCGACATGGCATCGGCACAGAGATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TTGAT-TGAGAGCC
* * * *
41700146 AGTGTAAGACCATGTTTGGGACATGGCGTCGGC-CTTGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGA-TT-GAGAGCC
* * * *
41700195 AGTGTAAGACCAAGTCTTGGACTTGGCATC-G-ACTTGATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATTGA-GAGCC
41700242 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
41700273 ATATTACATG
Statistics
Matches: 174, Mismatches: 30, Indels: 32
0.74 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.06
45 16 0.09
46 33 0.19
47 32 0.18
48 13 0.07
49 32 0.18
50 33 0.19
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATTGAGAGCC
Found at i:41700253 original size:47 final size:48
Alignment explanation
Indices: 41700048--41700273 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 48
41700038 TCGAGATGTA
* *
41700048 AGCCAGTGTAAGA-CATGTC-TGTGACAT-GTATCGAC-T-ATGAGATG
1 AGCCAGTGTAAGACCATGTCTTG-GACATGGCATCGACTTGATTAGATG
* * **
41700092 TGTCAGTGTAAGACCATGTC-TGCGACATGGCATCGGCACAGAGATGT-GA-G
1 AGCCAGTGTAAGACCATGTCTTG-GACATGGCATC-G-AC-TTGAT-TAGATG
* * *
41700142 AGCCAGTGTAAGACCATGT-TTGGGACATGGCGTCGGCCTTGATTTCGAT-
1 AGCCAGTGTAAGACCATGTCTT-GGACATGGCATC-GACTTGA-TTAGATG
* * *
41700191 AGTCAGTGTAAGACCAAGTCTTGGACTTGGCATCGACTTGA-TAGATG
1 AGCCAGTGTAAGACCATGTCTTGGACATGGCATCGACTTGATTAGATG
*
41700238 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 AGCCAGTGTAAGACCATGTCTTGGACATGGCATCGA
41700274 TATTACATGC
Statistics
Matches: 145, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 8 0.06
47 33 0.23
48 11 0.08
49 31 0.21
50 33 0.23
51 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTTGGACATGGCATCGACTTGATTAGATG
Found at i:41706865 original size:46 final size:46
Alignment explanation
Indices: 41706687--41706945 Score: 151
Period size: 46 Copynumber: 5.5 Consensus size: 46
41706677 TTTGTGCGCT
* * * *
41706687 AGTGTAAGACATGTCTGGGACAAGCATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTA-AGCC
* * * *
41706733 AGTGTAAGACAATGTCTAGGACATGGCAAT-GACATTA--AGACG-AGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GC-ATCGGC--TACGAGATGTA-AGCC
* *
41706781 AGTGTAAGACATGTCTGGGAAATGTATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTAAGCC
* * *
41706827 AGTGTAAGACATATCTGGGACATGCATCGGCTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
* * *
41706871 AATGTAAGACCATGTTTGGGACATGGCATCGAC-ACGAAGATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG-AGATGT-A-AGCC
* *
41706921 AGTGTAAGACCATGTTTGGAACATG
1 AGTGTAAGA-CATGTCTGGGACATG
41706946 GCGTCGGCCT
Statistics
Matches: 168, Mismatches: 27, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 66 0.39
47 24 0.14
48 20 0.12
49 4 0.02
50 25 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
Found at i:41710158 original size:39 final size:39
Alignment explanation
Indices: 41709986--41710175 Score: 215
Period size: 39 Copynumber: 4.9 Consensus size: 39
41709976 ATATTTGATG
** *
41709986 TGTATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAAT
1 TGTATCCGGACTTAAAGTCCGCAGGCT-TCGTGCTGGAAA
* **
41710025 TATATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGAAA
**
41710064 TGTATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGAAA
* * *
41710103 TGTATCTGGGC-CAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAAGT-CCGCAGGCTTCGTGCTGGAAA
* *
41710142 TGTATCCGG-GTTAAAGTCCTGCAGGCTTTGTGCT
1 TGTATCCGGACTTAAAGTCC-GCAGGCTTCGTGCT
41710176 ACTAATATAA
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 6 0.04
39 129 0.96
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGAAA
Found at i:41725188 original size:69 final size:69
Alignment explanation
Indices: 41725104--41725242 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
41725094 AATATGTGAC
* *
41725104 TATATGGTTCACCACTTGTGAATGCCTTGAGATTTAGATGGCTTTTAGTTTATTTAAGTGTGAAC
1 TATATGGTTCACCACTTGTGAATGCCTTGAGATTTAGATGGCTTTTAGTTCATTGAAGTGTGAAC
41725169 GAAG
66 GAAG
*
41725173 TATATGGTTCGCCACTTGTGAATGCCTTGAGATTTAGATGGCTTTTAGTTCATTGAAGTGTGAAC
1 TATATGGTTCACCACTTGTGAATGCCTTGAGATTTAGATGGCTTTTAGTTCATTGAAGTGTGAAC
41725238 GAAG
66 GAAG
41725242 T
1 T
41725243 GGTTAAATTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (69 bp):
TATATGGTTCACCACTTGTGAATGCCTTGAGATTTAGATGGCTTTTAGTTCATTGAAGTGTGAAC
GAAG
Found at i:41729788 original size:25 final size:25
Alignment explanation
Indices: 41729754--41729804 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
41729744 AAGTGAGGAG
41729754 TGAATTTGTACTAACCAATCATTAC
1 TGAATTTGTACTAACCAATCATTAC
41729779 TGAATTTGTACTAACCAATCATTAC
1 TGAATTTGTACTAACCAATCATTAC
41729804 T
1 T
41729805 CAGTTGTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (25 bp):
TGAATTTGTACTAACCAATCATTAC
Found at i:41736151 original size:29 final size:29
Alignment explanation
Indices: 41736118--41736278 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
41736108 GTGACGAGAT
*
41736118 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41736147 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41736176 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
41736205 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
41736234 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
41736263 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41736279 AAATCGAGTA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
28 2 0.02
29 116 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41745526 original size:14 final size:14
Alignment explanation
Indices: 41745507--41745541 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
41745497 AAGATGAGCA
* *
41745507 TTCTTTTTTTTTTT
1 TTCTTTTCTTTTTC
41745521 TTCTTTTCTTTTTC
1 TTCTTTTCTTTTTC
41745535 TTCTTTT
1 TTCTTTT
41745542 ACTAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:41755996 original size:29 final size:29
Alignment explanation
Indices: 41755963--41756123 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
41755953 GTGACGAGAT
*
41755963 TGGCACTAAGTGTGCGTGCTGGTAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
41755992 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41756021 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
41756050 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
41756079 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
41756108 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41756124 AAATCGAGTA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41766917 original size:80 final size:80
Alignment explanation
Indices: 41766784--41766969 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 80
41766774 ATTGAATGAT
* * * * *
41766784 ATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGC-AT
* *
41766849 T-GTGCTAGTGGCTAC
65 TCGTGCAAGTGGCTAA
*
41766864 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
* *
41766929 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGCTAA
*
41766944 ATCCGGGCTAAGACCCGAAGG-CATTT
1 ATCCGGGCTAAGTCCCG-AGGACATTT
41766970 GTGCAAATCG
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.03
80 87 0.94
81 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGCTAA
Found at i:41766974 original size:40 final size:40
Alignment explanation
Indices: 41766824--41766975 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
41766814 TGGAAATTAT
* * * * * *
41766824 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
* * * * *
41766864 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAGTTAA
* *
41766904 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
41766944 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
41766976 ATCGTGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
Found at i:41766986 original size:80 final size:80
Alignment explanation
Indices: 41766822--41767005 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
41766812 GCTGGAAATT
* * *
41766822 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
* * *
41766887 TTTATGCTAGTAATT
66 TTTATGCAAATAATG
* * *
41766902 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGG-
1 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTGGCTAAATCCGGGCTAAGACCCG-AGGA
* **
41766965 CATTTGTGCAAATCGTG
64 CATTTATGCAAATAATG
* *
41766982 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGTTAAGACCCGAAGGC
41767006 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 81 0.93
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
TTTATGCAAATAATG
Found at i:41766988 original size:40 final size:38
Alignment explanation
Indices: 41766821--41767005 Score: 156
Period size: 40 Copynumber: 4.7 Consensus size: 38
41766811 TGCTGGAAAT
* * *
41766821 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * * * *
41766860 CTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAAT
1 -TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT--G
*
41766901 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TG
* *
41766940 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * *
41766980 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
41767006 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.04
40 109 0.92
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG
Found at i:41775010 original size:80 final size:80
Alignment explanation
Indices: 41774877--41775062 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
41774867 ATTGAATGAT
* * * * * *
41774877 ATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCTGAAGGCAAT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGC-AT
* *
41774942 T-GTGCTAGTGGCTAC
65 TCGTGCAAGTGGCTAA
*
41774957 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
* *
41775022 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGCTAA
*
41775037 ATCCGGGCTAAGACCCGAAGG-CATTT
1 ATCCGGGCTAAGTCCCG-AGGACATTT
41775063 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.03
80 86 0.93
81 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGCTAA
Found at i:41775067 original size:40 final size:40
Alignment explanation
Indices: 41774917--41775068 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
41774907 TGGAAATTAT
* * * * * * *
41774917 ATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
* * * * *
41774957 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAGTTAA
* *
41774997 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
41775037 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
41775069 ATCGTGATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 87 0.94
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
Found at i:41775079 original size:80 final size:80
Alignment explanation
Indices: 41774915--41775098 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
41774905 GCTGGAAATT
* * * *
41774915 ATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
* * *
41774980 TTTATGCTAGTAATT
66 TTTATGCAAATAATG
* * *
41774995 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGG-
1 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTGGCTAAATCCGGGCTAAGACCCG-AGGA
* **
41775058 CATTTGTGCAAATCGTG
64 CATTTATGCAAATAATG
* *
41775075 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGTTAAGACCCGAAGGC
41775099 CTTGGTGCGG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 80 0.93
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
TTTATGCAAATAATG
Found at i:41775081 original size:40 final size:38
Alignment explanation
Indices: 41774914--41775098 Score: 147
Period size: 40 Copynumber: 4.7 Consensus size: 38
41774904 TGCTGGAAAT
* * * *
41774914 TATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * * * *
41774953 CTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAAT
1 -TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT--G
*
41774994 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TG
* *
41775033 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * *
41775073 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
41775099 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 5 0.04
40 108 0.92
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG
Found at i:41781083 original size:24 final size:24
Alignment explanation
Indices: 41781056--41781140 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
41781046 CTTATTATGT
41781056 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
41781080 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
41781104 T--CACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
41781126 TCGCACACATAGTGC
1 TCGCACACATAGTGC
41781141 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
22 21 0.37
24 36 0.63
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:41788611 original size:17 final size:17
Alignment explanation
Indices: 41788572--41788612 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
41788562 AACCCACATA
*
41788572 AATTTTTTTATTTTTCT
1 AATTTTTGTATTTTTCT
**
41788589 TTTTTTTGTATTTTTCT
1 AATTTTTGTATTTTTCT
41788606 AATTTTT
1 AATTTTT
41788613 TCCACTTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
AATTTTTGTATTTTTCT
Found at i:41793295 original size:41 final size:41
Alignment explanation
Indices: 41793249--41793461 Score: 291
Period size: 41 Copynumber: 5.1 Consensus size: 41
41793239 TATTACATAC
*
41793249 CAGGCTTTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAG
1 CAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
* *
41793290 TAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCCAG
1 CAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
* *
41793331 CAGGCTTTGTGTCGGTGTATTAAATCAAGCTTATCGCCTAG
1 CAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
* * *
41793372 CAAGCTTTGTGCCGGTGTATTATATCAAGCTTATTGCCCAG
1 CAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
* * * * *
41793413 CAGGCTTTATATGCTGGTGTATTATATTAGGCTTATTGCCTAG
1 CAGGC-TT-TGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
41793456 CAGGCT
1 CAGGCT
41793462 CTACCGGTGT
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 115 0.76
42 3 0.02
43 34 0.22
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
CAGGCTTTGTGCCGGTGTATTAAATCAAGCTTATTGCCTAG
Found at i:41797106 original size:19 final size:20
Alignment explanation
Indices: 41797082--41797119 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41797072 GGTACCACCA
41797082 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
41797101 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
41797120 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:41797508 original size:46 final size:46
Alignment explanation
Indices: 41797344--41797515 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
41797334 AACCCGCCCC
* * * * *
41797344 TAAGTGAACT-GGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
41797389 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
41797437 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
41797482 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41797516 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 11 0.10
46 49 0.47
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:41797513 original size:93 final size:92
Alignment explanation
Indices: 41797349--41797518 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
41797339 GCCCCTAAGT
* * *
41797349 GAACTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
41797414 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
41797441 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACT-GGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41797506 CGAGTTCGGATGC
65 CGAGTTCGGATGC
41797519 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 5 0.07
93 66 0.93
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41797534 original size:46 final size:45
Alignment explanation
Indices: 41797393--41797534 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
41797383 CATCCATAAA
41797393 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
41797440 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
41797486 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
41797532 TGA
1 TGA
41797535 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:41797968 original size:28 final size:28
Alignment explanation
Indices: 41797935--41797989 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
41797925 ATTTAATACG
41797935 AACTTTAAAAAAATTACACTTTTGCCCT
1 AACTTTAAAAAAATTACACTTTTGCCCT
*** *
41797963 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
41797990 CTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (28 bp):
AACTTTAAAAAAATTACACTTTTGCCCT
Found at i:41799445 original size:47 final size:47
Alignment explanation
Indices: 41799390--41799516 Score: 182
Period size: 47 Copynumber: 2.7 Consensus size: 47
41799380 CACAATCGAT
*
41799390 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCA
* ** * *
41799437 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCA
* *
41799484 AAATACCTATATCATGGCCTGTAGCCAAATCAA
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAA
41799517 TATTATTTGC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:41804693 original size:22 final size:22
Alignment explanation
Indices: 41804665--41804708 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
41804655 TGCCAATAGA
41804665 GTTGTTTCAAATCATTAGAAAT
1 GTTGTTTCAAATCATTAGAAAT
41804687 GTTGTTTCAAATCATTAGAAAT
1 GTTGTTTCAAATCATTAGAAAT
41804709 TTTTTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
GTTGTTTCAAATCATTAGAAAT
Found at i:41807204 original size:37 final size:37
Alignment explanation
Indices: 41807154--41807268 Score: 205
Period size: 37 Copynumber: 3.1 Consensus size: 37
41807144 AGATGAAATC
41807154 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
*
41807191 TCCACACGTAGTCATCGGGTCTTACCCGGACATA-ATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATT
41807228 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
41807265 TCCA
1 TCCA
41807269 AGTTTCATGT
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
36 3 0.04
37 68 0.92
38 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
Found at i:41807457 original size:48 final size:48
Alignment explanation
Indices: 41807404--41807689 Score: 502
Period size: 48 Copynumber: 6.0 Consensus size: 48
41807394 CCACACCTCC
* * * *
41807404 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
41807452 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
41807500 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC-CTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-A
41807548 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
41807596 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
41807644 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
41807690 TTATCTTGTG
Statistics
Matches: 230, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
47 1 0.00
48 228 0.99
49 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:41811577 original size:45 final size:45
Alignment explanation
Indices: 41811468--41811590 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
41811458 CGATGCTGAT
* *
41811468 GTCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGAAAACACATATATCGATGCCAAC
** * *
41811513 GTTGCAGACGA-GATCTTACACAAAAACACATATATCGATGCCAAC
1 GTCCCAGAC-ATGGTCTTACACGAAAACACATATATCGATGCCAAC
* *
41811558 GTCCCAAACATGGTGTTACACGAAAACACATAT
1 GTCCCAGACATGGTCTTACACGAAAACACATAT
41811591 CGGAATCCTA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.02
45 62 0.97
46 1 0.02
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (45 bp):
GTCCCAGACATGGTCTTACACGAAAACACATATATCGATGCCAAC
Found at i:41814580 original size:29 final size:28
Alignment explanation
Indices: 41814548--41814650 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
41814538 GTGACGAGAT
* *
41814548 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
41814577 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
41814606 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
41814635 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41814651 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:41816276 original size:71 final size:71
Alignment explanation
Indices: 41816190--41816353 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41816180 CGATTTGTCT
41816190 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41816255 CTTTCA
66 CTTTCA
41816261 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41816326 CTTTCA
66 CTTTCA
41816332 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41816354 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41816391 original size:71 final size:70
Alignment explanation
Indices: 41816190--41816387 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41816180 CGATTTGTCT
* * * *
41816190 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41816255 CTTTCA
65 CTTTCA
* * * *
41816261 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41816326 CTTTCA
65 CTTTCA
* *
41816332 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41816388 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41822756 original size:71 final size:71
Alignment explanation
Indices: 41822670--41822833 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41822660 CGATTTGTCT
41822670 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41822735 CTTTCA
66 CTTTCA
41822741 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41822806 CTTTCA
66 CTTTCA
41822812 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41822834 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.