Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 40 of 136
Found at i:13159927 original size:2 final size:2
Alignment explanation
Indices: 13159920--13159949 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13159910 GCCACATTCG
*
13159920 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13159950 CCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13161450 original size:36 final size:36
Alignment explanation
Indices: 13161410--13161483 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
13161400 TTGGGAGTCC
*
13161410 ATCCAACTCCTATAGCTAAGACAAGATATCTCCTTA
1 ATCCAACTCCGATAGCTAAGACAAGATATCTCCTTA
13161446 ATCCAACTCCGATAGCTAAGACAAGATATCTCCTTA
1 ATCCAACTCCGATAGCTAAGACAAGATATCTCCTTA
13161482 AT
1 AT
13161484 TGGACTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (36 bp):
ATCCAACTCCGATAGCTAAGACAAGATATCTCCTTA
Found at i:13163204 original size:20 final size:20
Alignment explanation
Indices: 13163133--13163204 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
13163123 TGGAAATTAA
*
13163133 TTTTTATTTAAAAAATTTTAT
1 TTTTTATTTAAAATA-TTTAT
13163154 TTTTTATTTAAAA-A--TA-
1 TTTTTATTTAAAATATTTAT
* * *
13163170 -TTCTAATTAATATATTTAT
1 TTTTTATTTAAAATATTTAT
13163189 TTTTTATTTAAAATAT
1 TTTTTATTTAAAATAT
13163205 AAAAATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 2 0.05
18 2 0.05
20 13 0.32
21 13 0.32
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATTTAAAATATTTAT
Found at i:13168038 original size:20 final size:20
Alignment explanation
Indices: 13168004--13168051 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
13167994 TTGGTAAATT
*
13168004 CATGTGTA-ATAATAATAAA
1 CATGTGTATTTAATAATAAA
13168023 CATGTGTATTTAATAATAAA
1 CATGTGTATTTAATAATAAA
*
13168043 -ATATGTATT
1 CATGTGTATT
13168052 GCTTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (20 bp):
CATGTGTATTTAATAATAAA
Found at i:13168049 original size:19 final size:20
Alignment explanation
Indices: 13168013--13168051 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13168003 TCATGTGTAA
*
13168013 TAATAATAAACATGTGTATT
1 TAATAATAAACATATGTATT
13168033 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
13168052 GCTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:13168155 original size:14 final size:15
Alignment explanation
Indices: 13168096--13168164 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 15
13168086 ATTATAATTA
* *
13168096 AAACAAAACAAATA-
1 AAACAAAAGAAAAAG
* *
13168110 AAAGAAAAGAAAATG
1 AAACAAAAGAAAAAG
* *
13168125 AAATGAAATATAAAAAG
1 AAA-CAAA-AGAAAAAG
13168142 AAA-AAAAGAAAAAG
1 AAACAAAAGAAAAAG
13168156 AAACAAAAG
1 AAACAAAAG
13168165 GGGAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 20 0.45
15 11 0.25
16 4 0.09
17 9 0.20
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.07
Consensus pattern (15 bp):
AAACAAAAGAAAAAG
Found at i:13168219 original size:5 final size:6
Alignment explanation
Indices: 13168202--13168226 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13168192 AGGGGAAAGG
13168202 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
13168227 CTAGAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:13168616 original size:17 final size:18
Alignment explanation
Indices: 13168594--13168627 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13168584 TAAATGAGTT
13168594 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
13168611 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
13168628 AAAAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:13169113 original size:23 final size:22
Alignment explanation
Indices: 13169082--13169135 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
13169072 GCTTTGTCGG
13169082 TCAAGCACTTTACGTGTCGT-ATT
1 TCAAGCACTTT-CGTGT-GTCATT
*
13169105 TCAGGCAC-TTCGTGTGTCATT
1 TCAAGCACTTTCGTGTGTCATT
13169126 TCAAGCACTT
1 TCAAGCACTT
13169136 ATGTGTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 15 0.56
22 3 0.11
23 7 0.26
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (22 bp):
TCAAGCACTTTCGTGTGTCATT
Found at i:13182307 original size:31 final size:30
Alignment explanation
Indices: 13182265--13182332 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
13182255 GATTAAAACA
*
13182265 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * *
13182295 ACAATTAGAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
13182326 AAATTAA
1 AAATTAA
13182333 TCAAAATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:13183683 original size:381 final size:381
Alignment explanation
Indices: 13182980--13183741 Score: 1524
Period size: 381 Copynumber: 2.0 Consensus size: 381
13182970 TCAGAAAATA
13182980 TTCCTTAAATTAAATAAAAACCATTATTTAAAACAGTTCACGAACTTGTGGTCACCGTGAGACTC
1 TTCCTTAAATTAAATAAAAACCATTATTTAAAACAGTTCACGAACTTGTGGTCACCGTGAGACTC
13183045 TGTCTTACTGAACTGCCAAAGTTTGTGGATTACTTGAATAGAACAGACAAATAGATGTGAGTTTT
66 TGTCTTACTGAACTGCCAAAGTTTGTGGATTACTTGAATAGAACAGACAAATAGATGTGAGTTTT
13183110 CGTAAACTCAGTGTGTAACCCAACAGAAATAGACATGCAACATACACCAATTTTCATGATCAGTC
131 CGTAAACTCAGTGTGTAACCCAACAGAAATAGACATGCAACATACACCAATTTTCATGATCAGTC
13183175 AGATACAGATTCGGACTTAAGTCCATAACAGATACAGTTATCAGAATCGGATAAACAACACAGAT
196 AGATACAGATTCGGACTTAAGTCCATAACAGATACAGTTATCAGAATCGGATAAACAACACAGAT
13183240 ATAGTAAGTCCTACCCCCATCCTCTACACACCATCTCCGACCATCCCATCACACCAAGTAGGGTT
261 ATAGTAAGTCCTACCCCCATCCTCTACACACCATCTCCGACCATCCCATCACACCAAGTAGGGTT
13183305 AAAAACACCCACCCATCCCTATACACCATATAGTGTCGATGCGACATATTATAGAT
326 AAAAACACCCACCCATCCCTATACACCATATAGTGTCGATGCGACATATTATAGAT
13183361 TTCCTTAAATTAAATAAAAACCATTATTTAAAACAGTTCACGAACTTGTGGTCACCGTGAGACTC
1 TTCCTTAAATTAAATAAAAACCATTATTTAAAACAGTTCACGAACTTGTGGTCACCGTGAGACTC
13183426 TGTCTTACTGAACTGCCAAAGTTTGTGGATTACTTGAATAGAACAGACAAATAGATGTGAGTTTT
66 TGTCTTACTGAACTGCCAAAGTTTGTGGATTACTTGAATAGAACAGACAAATAGATGTGAGTTTT
13183491 CGTAAACTCAGTGTGTAACCCAACAGAAATAGACATGCAACATACACCAATTTTCATGATCAGTC
131 CGTAAACTCAGTGTGTAACCCAACAGAAATAGACATGCAACATACACCAATTTTCATGATCAGTC
13183556 AGATACAGATTCGGACTTAAGTCCATAACAGATACAGTTATCAGAATCGGATAAACAACACAGAT
196 AGATACAGATTCGGACTTAAGTCCATAACAGATACAGTTATCAGAATCGGATAAACAACACAGAT
13183621 ATAGTAAGTCCTACCCCCATCCTCTACACACCATCTCCGACCATCCCATCACACCAAGTAGGGTT
261 ATAGTAAGTCCTACCCCCATCCTCTACACACCATCTCCGACCATCCCATCACACCAAGTAGGGTT
13183686 AAAAACACCCACCCATCCCTATACACCATATAGTGTCGATGCGACATATTATAGAT
326 AAAAACACCCACCCATCCCTATACACCATATAGTGTCGATGCGACATATTATAGAT
13183742 AATATGCAGT
Statistics
Matches: 381, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
381 381 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (381 bp):
TTCCTTAAATTAAATAAAAACCATTATTTAAAACAGTTCACGAACTTGTGGTCACCGTGAGACTC
TGTCTTACTGAACTGCCAAAGTTTGTGGATTACTTGAATAGAACAGACAAATAGATGTGAGTTTT
CGTAAACTCAGTGTGTAACCCAACAGAAATAGACATGCAACATACACCAATTTTCATGATCAGTC
AGATACAGATTCGGACTTAAGTCCATAACAGATACAGTTATCAGAATCGGATAAACAACACAGAT
ATAGTAAGTCCTACCCCCATCCTCTACACACCATCTCCGACCATCCCATCACACCAAGTAGGGTT
AAAAACACCCACCCATCCCTATACACCATATAGTGTCGATGCGACATATTATAGAT
Found at i:13194611 original size:16 final size:16
Alignment explanation
Indices: 13194586--13194621 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13194576 ATAACCAATT
*
13194586 TTCATATCATTATTAA
1 TTCATATCATTATCAA
*
13194602 TTCATTTCATTATCAA
1 TTCATATCATTATCAA
13194618 TTCA
1 TTCA
13194622 CAAATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCATATCATTATCAA
Found at i:13197124 original size:8 final size:8
Alignment explanation
Indices: 13197113--13197142 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13197103 TCAAATTTAC
13197113 AAAAATAT
1 AAAAATAT
13197121 AAAAATAT
1 AAAAATAT
13197129 AAAAATAT
1 AAAAATAT
13197137 AAAAAT
1 AAAAAT
13197143 CTATGATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:13199378 original size:3 final size:3
Alignment explanation
Indices: 13199370--13199418 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
13199360 TTCTTAATTA
13199370 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13199417 AA
1 AA
13199419 ATCCCCTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13212739 original size:21 final size:21
Alignment explanation
Indices: 13212713--13212769 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
13212703 AATCATATCT
*
13212713 TTTAAGATTGCATATATTATA
1 TTTAAGATTGCATATATCATA
13212734 TTTAAGATTGCATATATCATA
1 TTTAAGATTGCATATATCATA
* *
13212755 TCTAAGATTACATAT
1 TTTAAGATTGCATAT
13212770 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
TTTAAGATTGCATATATCATA
Found at i:13212780 original size:17 final size:17
Alignment explanation
Indices: 13212758--13212816 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
13212748 TATCATATCT
13212758 AAGATTACATATCCTTG
1 AAGATTACATATCCTTG
*
13212775 AAGATTCACATCAT-ATCT-
1 AAGATT-ACAT-ATCCT-TG
*
13212793 AAGATTGCATATCCTTG
1 AAGATTACATATCCTTG
13212810 AAGATTA
1 AAGATTA
13212817 TGTTTCCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 3 0.09
17 16 0.48
18 11 0.33
19 3 0.09
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (17 bp):
AAGATTACATATCCTTG
Found at i:13212789 original size:35 final size:35
Alignment explanation
Indices: 13212749--13212815 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
13212739 GATTGCATAT
13212749 ATCATATCTAAGATTACATATCCTTGAAGATTCAC
1 ATCATATCTAAGATTACATATCCTTGAAGATTCAC
*
13212784 ATCATATCTAAGATTGCATATCCTTGAAGATT
1 ATCATATCTAAGATTACATATCCTTGAAGATT
13212816 ATGTTTCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTACATATCCTTGAAGATTCAC
Found at i:13212796 original size:18 final size:17
Alignment explanation
Indices: 13212749--13212798 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
13212739 GATTGCATAT
13212749 ATCATATCTAAGATTAC
1 ATCATATCTAAGATTAC
*
13212766 AT-AT-CCTTGAAGATTCAC
1 ATCATATC-T-AAGATT-AC
13212784 ATCATATCTAAGATT
1 ATCATATCTAAGATT
13212799 GCATATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 8 0.31
18 10 0.38
19 3 0.12
20 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (17 bp):
ATCATATCTAAGATTAC
Found at i:13214249 original size:13 final size:13
Alignment explanation
Indices: 13214231--13214258 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13214221 TTAATTTAGA
13214231 TAGTGAAACAACT
1 TAGTGAAACAACT
13214244 TAGTGAAACAACT
1 TAGTGAAACAACT
13214257 TA
1 TA
13214259 TTTTATGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (13 bp):
TAGTGAAACAACT
Found at i:13216142 original size:132 final size:132
Alignment explanation
Indices: 13215989--13216268 Score: 560
Period size: 132 Copynumber: 2.1 Consensus size: 132
13215979 AACCGCATTC
13215989 GGTCGGTTAACCGAATTAACCGACCTTCCAAAAATTTTAACCGTTAACCGAACCGATTTTTTTTA
1 GGTCGGTTAACCGAATTAACCGACCTTCCAAAAATTTTAACCGTTAACCGAACCGATTTTTTTTA
13216054 AAAAAAATCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTTAATTCGGTTATAGTAATTT
66 AAAAAAATCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTTAATTCGGTTATAGTAATTT
13216119 CG
131 CG
13216121 GGTCGGTTAACCGAATTAACCGACCTTCCAAAAATTTTAACCGTTAACCGAACCGATTTTTTTTA
1 GGTCGGTTAACCGAATTAACCGACCTTCCAAAAATTTTAACCGTTAACCGAACCGATTTTTTTTA
13216186 AAAAAAATCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTTAATTCGGTTATAGTAATTT
66 AAAAAAATCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTTAATTCGGTTATAGTAATTT
13216251 CG
131 CG
13216253 GGTCGGTTAACCGAAT
1 GGTCGGTTAACCGAAT
13216269 GAACACCCCT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 148 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (132 bp):
GGTCGGTTAACCGAATTAACCGACCTTCCAAAAATTTTAACCGTTAACCGAACCGATTTTTTTTA
AAAAAAATCGGTTCGGTTAACGGTTAAAATTTTTGGAAGGTCGGTTAATTCGGTTATAGTAATTT
CG
Found at i:13225239 original size:33 final size:33
Alignment explanation
Indices: 13225177--13225247 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
13225167 AATTCAGTTA
*
13225177 ATTTTAATTTTTTCAGAATTTTTTCTTTTTTAT
1 ATTTTAATTTTTTCAGAATTTTATCTTTTTTAT
*
13225210 ATTTTAATTTTATTTA-AATTCTTAT-TTTTTTAT
1 ATTTTAATTTT-TTCAGAATT-TTATCTTTTTTAT
*
13225243 TTTTT
1 ATTTT
13225248 GCTTTCGTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (33 bp):
ATTTTAATTTTTTCAGAATTTTATCTTTTTTAT
Found at i:13225483 original size:19 final size:18
Alignment explanation
Indices: 13225453--13225488 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13225443 TTTAATGACC
13225453 AATTAATTAATCAATTAA
1 AATTAATTAATCAATTAA
*
13225471 AATTAATTTAATCGATTA
1 AATTAA-TTAATCAATTA
13225489 TTTCAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTAATTAATCAATTAA
Found at i:13227621 original size:11 final size:11
Alignment explanation
Indices: 13227605--13227647 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
13227595 ATTTAAAAAA
13227605 ATAAAAAATAT
1 ATAAAAAATAT
*
13227616 ATAAAAAAGAT
1 ATAAAAAATAT
13227627 AT-AAAAAT-T
1 ATAAAAAATAT
13227636 ATAAAGAAATAT
1 ATAAA-AAATAT
13227648 TTTTTAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 7 0.26
11 16 0.59
12 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:13227622 original size:20 final size:20
Alignment explanation
Indices: 13227560--13227640 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
13227550 TAAATTTTTT
*
13227560 AAAATTTAAAAATTCA-AAAA
1 AAAATATAAAAATT-ATAAAA
* * *
13227580 AAAATTATGAAGATTATTTAAA
1 AAAA-TATAAAAATTA-TAAAA
13227602 AAAATA-AAAAATATATAAAA
1 AAAATATAAAAAT-TATAAAA
*
13227622 AAGATATAAAAATTATAAA
1 AAAATATAAAAATTATAAA
13227641 GAAATATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
20 24 0.50
21 17 0.35
22 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATATAAAAATTATAAAA
Found at i:13228708 original size:21 final size:20
Alignment explanation
Indices: 13228690--13228742 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
13228680 AACATTTAAT
13228690 TAATTTTT-AATAATTTTTA
1 TAATTTTTAAATAATTTTTA
*
13228709 TGATTTTTAAAATAATTTTTA
1 TAATTTTT-AAATAATTTTTA
13228730 TAATTTTTTAAAT
1 TAA-TTTTTAAAT
13228743 TAAAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TAATTTTTAAATAATTTTTA
Found at i:13228737 original size:9 final size:10
Alignment explanation
Indices: 13228684--13228737 Score: 58
Period size: 9 Copynumber: 5.3 Consensus size: 10
13228674 CATGTCAACA
13228684 TTTAATTAATT
1 TTTAA-TAATT
13228695 TTTAATAATT
1 TTTAATAATT
*
13228705 TTT-ATGATT
1 TTTAATAATT
13228714 TTTAAAATAATT
1 TTT--AATAATT
13228726 TTT-ATAATT
1 TTTAATAATT
13228735 TTT
1 TTT
13228738 TAAATTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 17 0.45
10 8 0.21
11 5 0.13
12 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:13228756 original size:31 final size:32
Alignment explanation
Indices: 13228687--13228756 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 32
13228677 GTCAACATTT
* * **
13228687 AATTAATTTTTAATAATTTTTATGATTTTTAA
1 AATTAATTTTTAATAATTTTTATAAATTAAAA
13228719 AA-TAATTTTT-ATAATTTTT-TAAATTAAAA
1 AATTAATTTTTAATAATTTTTATAAATTAAAA
13228748 GAATTAATT
1 -AATTAATT
13228757 AAATGCTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 6 0.19
30 11 0.34
31 13 0.41
32 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (32 bp):
AATTAATTTTTAATAATTTTTATAAATTAAAA
Found at i:13232752 original size:25 final size:24
Alignment explanation
Indices: 13232691--13232752 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
13232681 GTACATGTAT
*
13232691 GCTCATACGAGCTATAAACGGTAA
1 GCTCATACGAGCTAAAAACGGTAA
** * * *
13232715 GCTTTTCCAAGCTAAATAATGGTAA
1 GCTCATACGAGCTAAA-AACGGTAA
13232740 GCTCATACGAGCT
1 GCTCATACGAGCT
13232753 GAGTATCGGT
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTAAAAACGGTAA
Found at i:13238883 original size:43 final size:43
Alignment explanation
Indices: 13238831--13239041 Score: 251
Period size: 43 Copynumber: 4.9 Consensus size: 43
13238821 CCAACACAAT
* * * * * *
13238831 TATATTGGCACATAAAGTGCATCATCAGATATACCAAAGCAAC
1 TATACTGGCACATACAGTGCATCATCAGATAAACCGAAGTATC
*
13238874 TATACTGGCACATACAGTGCATCATCGGATAAACCGAAGTATC
1 TATACTGGCACATACAGTGCATCATCAGATAAACCGAAGTATC
* * * *
13238917 TATACTGGTACATATAGTGCATCATCGGATAAACTGAAGTATC
1 TATACTGGCACATACAGTGCATCATCAGATAAACCGAAGTATC
* * * *
13238960 TATACTGGTACATACAGTGCATCATCAAATAAGCTGAAGTATC
1 TATACTGGCACATACAGTGCATCATCAGATAAACCGAAGTATC
* ** *
13239003 TATACTAGCATTTACAGTGCATCATCAGATATACCGAAG
1 TATACTGGCACATACAGTGCATCATCAGATAAACCGAAG
13239042 GACAACCTGT
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (43 bp):
TATACTGGCACATACAGTGCATCATCAGATAAACCGAAGTATC
Found at i:13238898 original size:86 final size:86
Alignment explanation
Indices: 13238808--13239033 Score: 211
Period size: 86 Copynumber: 2.6 Consensus size: 86
13238798 ACATAAATGT
* * *
13238808 ATCATCGAATGAACCAACACAAT-TATATTGGCACATAAAGTGCATCATCAGATATACCAAAGCA
1 ATCATCGAATAAACCAA-ACAATCTATACTGGCACATAAAGTGCATCATCAGATAAACCAAAGCA
13238872 ACTATACTGGCACATACAGTGC
65 ACTATACTGGCACATACAGTGC
* * ** * * * ** * *
13238894 ATCATCGGATAAACCGAAGTATCTATACTGGTACATATAGTGCATCATCGGATAAACTGAAGTAT
1 ATCATCGAATAAACCAAACAATCTATACTGGCACATAAAGTGCATCATCAGATAAACCAAAGCAA
*
13238959 CTATACTGGTACATACAGTGC
66 CTATACTGGCACATACAGTGC
* * ** ** * ** *
13238980 ATCATCAAATAAGCTGAAGTATCTATACTAGCATTTACAGTGCATCATCAGATA
1 ATCATCGAATAAACCAAACAATCTATACTGGCACATAAAGTGCATCATCAGATA
13239034 TACCGAAGGA
Statistics
Matches: 114, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
85 3 0.03
86 111 0.97
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (86 bp):
ATCATCGAATAAACCAAACAATCTATACTGGCACATAAAGTGCATCATCAGATAAACCAAAGCAA
CTATACTGGCACATACAGTGC
Found at i:13239450 original size:17 final size:17
Alignment explanation
Indices: 13239428--13239463 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13239418 TTTGGCCAAG
* *
13239428 TATCGATATTTTTGAAA
1 TATCGATATCTTTCAAA
13239445 TATCGATATCTTTCAAA
1 TATCGATATCTTTCAAA
13239462 TA
1 TA
13239464 AATGATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (17 bp):
TATCGATATCTTTCAAA
Found at i:13241983 original size:16 final size:17
Alignment explanation
Indices: 13241962--13241995 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13241952 ATGACGTTTT
13241962 CGAAAAT-AGATATAAA
1 CGAAAATGAGATATAAA
*
13241978 CGAAAATGAGTTATAAA
1 CGAAAATGAGATATAAA
13241995 C
1 C
13241996 TAGAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (17 bp):
CGAAAATGAGATATAAA
Found at i:13254577 original size:24 final size:24
Alignment explanation
Indices: 13254540--13254629 Score: 153
Period size: 24 Copynumber: 3.8 Consensus size: 24
13254530 GGTAAGACAT
*
13254540 TTTCCACAGCTCCTCTCTTCACCT
1 TTTCCACAGCTCCTCTCTTCACCC
* *
13254564 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
13254588 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
13254612 TTTCCACAGCTCCTCTCT
1 TTTCCACAGCTCCTCTCT
13254630 CATCTCTGCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.11, C:0.47, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:13255439 original size:8 final size:8
Alignment explanation
Indices: 13255418--13255450 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
13255408 AAAAGATTAG
13255418 TGTTGTTCC
1 TGTTGTT-C
13255427 TGTTGTTC
1 TGTTGTTC
13255435 TGTTGTTC
1 TGTTGTTC
13255443 TGTTGTTC
1 TGTTGTTC
13255451 CTGGTAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.00, C:0.15, G:0.24, T:0.61
Consensus pattern (8 bp):
TGTTGTTC
Found at i:13260471 original size:14 final size:14
Alignment explanation
Indices: 13260448--13260487 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13260438 ACAGAAAAGT
*
13260448 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13260462 AAATCATTTTACGG
1 AAAACATTTTACAG
13260476 AAAACATTTTAC
1 AAAACATTTTAC
13260488 TGCCAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13260473 original size:34 final size:35
Alignment explanation
Indices: 13260413--13260479 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13260403 CAAACACCAG
* *
13260413 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13260448 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13260480 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13261960 original size:11 final size:11
Alignment explanation
Indices: 13261944--13261970 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13261934 AGATAAATGT
13261944 TATTTAATTAA
1 TATTTAATTAA
13261955 TATTTAATTAA
1 TATTTAATTAA
13261966 TATTT
1 TATTT
13261971 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:13264216 original size:11 final size:11
Alignment explanation
Indices: 13264200--13264231 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
13264190 TTAGTATCAG
13264200 TATCAAGCCAT
1 TATCAAGCCAT
13264211 TATCAAGCCAT
1 TATCAAGCCAT
13264222 TATCAAGCCA
1 TATCAAGCCA
13264232 AAATGAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (11 bp):
TATCAAGCCAT
Found at i:13264723 original size:43 final size:42
Alignment explanation
Indices: 13264647--13264771 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 42
13264637 GAAACACATA
* * *
13264647 TATCACATA-CAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATATCGATGCCATGTCCCAGATATGGTCTTACACGT
* *
13264688 TATCACATATCGATGCCACTGTCCTAGATAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TGTCCCAGATATGGTCTTACACGT
* ** * *
13264731 AATCGTATATCGATGACAATGTCCCAGACATGGTCTTACAC
1 TATCACATATCGATG-CCATGTCCCAGATATGGTCTTACAC
13264772 AAAATCACAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 51 0.74
44 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
TATCACATATCGATGCCATGTCCCAGATATGGTCTTACACGT
Found at i:13270637 original size:43 final size:43
Alignment explanation
Indices: 13270526--13270646 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
13270516 ATCTCATACA
* * * *
13270526 ATGCC-ATATCCCAGATATGGTCTTAAATGTTATCACATATAG
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATAG
* * *
13270568 ATGCCACTGTCCCAGATAGGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATAG
* * *
13270611 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCA
1 ATGCCAATGTCCCAGATATGGTCTTACACGTAATCA
13270647 TGCCTCGGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 5 0.08
43 61 0.92
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATATGGTCTTACACGTAATCACATATAG
Found at i:13273624 original size:22 final size:22
Alignment explanation
Indices: 13273581--13273624 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13273571 AAGAATCACA
*
13273581 TTTACATGCCCTTAAGAGAATC
1 TTTACATGCCCTTAAGACAATC
*
13273603 TTTAGATG-CCTTAGAGACAATC
1 TTTACATGCCCTTA-AGACAATC
13273625 CTAATTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (22 bp):
TTTACATGCCCTTAAGACAATC
Found at i:13274314 original size:19 final size:20
Alignment explanation
Indices: 13274279--13274316 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13274269 TTTCATGTGG
*
13274279 TTATTTGATCTATTTTGACC
1 TTATTTGATCTAGTTTGACC
13274299 TTATTTG-TCTAGTTTGAC
1 TTATTTGATCTAGTTTGAC
13274317 TTGTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (20 bp):
TTATTTGATCTAGTTTGACC
Found at i:13274594 original size:20 final size:19
Alignment explanation
Indices: 13274569--13274623 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
13274559 CAATACCAAT
**
13274569 TAAAAAATATTGATACTTT
1 TAAAAAATATTGATACTCA
*
13274588 TATAAAAATATCGATACTCA
1 TA-AAAAATATTGATACTCA
*
13274608 TAAAAAATACTGATAC
1 TAAAAAATATTGATAC
13274624 CACTGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAAATATTGATACTCA
Found at i:13285825 original size:27 final size:27
Alignment explanation
Indices: 13285787--13285863 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
13285777 AACACGTCAG
* * *
13285787 GAAAGAACAGCCCTTGTGGTGAACTCT
1 GAAAGAATAGCCCTCGTGGCGAACTCT
* *
13285814 GAAATAATAGCCGTCGTGGCGAACTCT
1 GAAAGAATAGCCCTCGTGGCGAACTCT
* * *
13285841 GGAAGAATAGCCTTAGTGGCGAA
1 GAAAGAATAGCCCTCGTGGCGAA
13285864 TTATGAAGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (27 bp):
GAAAGAATAGCCCTCGTGGCGAACTCT
Found at i:13292031 original size:2 final size:2
Alignment explanation
Indices: 13292026--13292050 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13292016 CCCTCTCCCC
13292026 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
13292051 CACTTCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:13294888 original size:18 final size:19
Alignment explanation
Indices: 13294865--13294900 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13294855 AAAAAAATTA
*
13294865 TTTTGAGT-TATTCGATTT
1 TTTTGAGTCAATTCGATTT
13294883 TTTTGAGTCAATTCGATT
1 TTTTGAGTCAATTCGATT
13294901 AAGTAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (19 bp):
TTTTGAGTCAATTCGATTT
Found at i:13295055 original size:19 final size:18
Alignment explanation
Indices: 13295005--13295064 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
13294995 TTTAAAAGTT
*
13295005 TTTA-AAAAATTAAAATAA
1 TTTATAAAAATTCAAAT-A
*
13295023 TTTTTAAAAATTCAAATA
1 TTTATAAAAATTCAAATA
13295041 TTTATAAAAATTTCAAA-A
1 TTTATAAAAA-TTCAAATA
13295059 TTTATA
1 TTTATA
13295065 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 20 0.54
19 17 0.46
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATAAAAATTCAAATA
Found at i:13298210 original size:31 final size:32
Alignment explanation
Indices: 13298175--13298256 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 32
13298165 TATGCATATG
* * * *
13298175 TATTAATAGTTTTA-GTCATAGTTTTATATTA
1 TATTAATAGTATTATGTAATAGTTTTAAAATA
*
13298206 TATT-ATTGTATTATGTAATAGTTTTAAAATA
1 TATTAATAGTATTATGTAATAGTTTTAAAATA
* *
13298237 TATTATTA-CATTATGTAATA
1 TATTAATAGTATTATGTAATA
13298257 CTATATCGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 7 0.17
31 33 0.80
32 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (32 bp):
TATTAATAGTATTATGTAATAGTTTTAAAATA
Found at i:13299565 original size:22 final size:23
Alignment explanation
Indices: 13299512--13299567 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13299502 TTTAATTAAA
* * *
13299512 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
13299535 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
13299557 ATTAAAATTAA
1 ATTAAAATTAA
13299568 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:13299580 original size:16 final size:16
Alignment explanation
Indices: 13299543--13299582 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13299533 TTAATAAAAT
* *
13299543 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
13299559 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
13299575 TAAAATTA
1 TAAAATTA
13299583 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:13299688 original size:9 final size:9
Alignment explanation
Indices: 13299655--13299682 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13299645 TTTATCAAAT
13299655 TATTAATTG
1 TATTAATTG
13299664 TATTAATTG
1 TATTAATTG
13299673 TATTAATTG
1 TATTAATTG
13299682 T
1 T
13299683 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13299692 original size:68 final size:68
Alignment explanation
Indices: 13299571--13299891 Score: 619
Period size: 68 Copynumber: 4.8 Consensus size: 68
13299561 AAATTAATTG
*
13299571 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
13299634 TGA
66 TGA
13299637 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
13299702 TGA
66 TGA
13299705 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
13299770 TGA
66 TGA
13299773 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
13299838 TGA
66 TGA
13299841 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAA
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAA
13299892 GATGCCATAT
Statistics
Matches: 252, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
66 26 0.10
68 226 0.90
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:13299756 original size:9 final size:9
Alignment explanation
Indices: 13299723--13299750 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13299713 TTTATCAAAT
13299723 TATTAATTG
1 TATTAATTG
13299732 TATTAATTG
1 TATTAATTG
13299741 TATTAATTG
1 TATTAATTG
13299750 T
1 T
13299751 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13299824 original size:9 final size:9
Alignment explanation
Indices: 13299791--13299818 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13299781 TTTATCAAAT
13299791 TATTAATTG
1 TATTAATTG
13299800 TATTAATTG
1 TATTAATTG
13299809 TATTAATTG
1 TATTAATTG
13299818 T
1 T
13299819 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13299871 original size:9 final size:9
Alignment explanation
Indices: 13299859--13299886 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13299849 TTTATCAAAT
13299859 TATTAATTG
1 TATTAATTG
13299868 TATTAATTG
1 TATTAATTG
13299877 TATTAATTG
1 TATTAATTG
13299886 T
1 T
13299887 TGTAAGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13306715 original size:17 final size:16
Alignment explanation
Indices: 13306693--13306724 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13306683 CTAATTAAAC
13306693 GCACAAACACACAAGAT
1 GCACAAACAC-CAAGAT
13306710 GCACAAACACCAAGA
1 GCACAAACACCAAGA
13306725 AAGGCAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.31, G:0.12, T:0.03
Consensus pattern (16 bp):
GCACAAACACCAAGAT
Found at i:13306905 original size:19 final size:20
Alignment explanation
Indices: 13306865--13306905 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
13306855 CAAAAGAAAT
*
13306865 TAAAATAATTATTTAAAAAA
1 TAAAATAATTATTAAAAAAA
13306885 TAAAAT-ATTA-TAAAAACAA
1 TAAAATAATTATTAAAAA-AA
13306904 TA
1 TA
13306906 TCTTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATAATTATTAAAAAAA
Found at i:13309804 original size:38 final size:38
Alignment explanation
Indices: 13309761--13309845 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 38
13309751 AGAGAAACGA
13309761 CTAATAAATGGGGGTAGGTATAGATTGAATAGAAATGG
1 CTAATAAATGGGGGTAGGTATAGATTGAATAGAAATGG
13309799 CTAATAAAT-GGGGTAGGTATAGATTGAATAGAAATGG
1 CTAATAAATGGGGGTAGGTATAGATTGAATAGAAATGG
13309836 CTAATAAATG
1 CTAATAAATG
13309846 AGTATTTAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 37 0.80
38 9 0.20
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.27
Consensus pattern (38 bp):
CTAATAAATGGGGGTAGGTATAGATTGAATAGAAATGG
Found at i:13313562 original size:20 final size:20
Alignment explanation
Indices: 13313505--13313562 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13313495 CCCAAAAACC
* *
13313505 CACATGCCCGTGTGAAAAGA
1 CACATGCCAGTGTGCAAAGA
* *
13313525 CACACGCCAGTGTACAAAGA
1 CACATGCCAGTGTGCAAAGA
*
13313545 CACATGCCAGTCTGCAAA
1 CACATGCCAGTGTGCAAA
13313563 TCACTACACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (20 bp):
CACATGCCAGTGTGCAAAGA
Found at i:13321181 original size:126 final size:124
Alignment explanation
Indices: 13320810--13321316 Score: 757
Period size: 125 Copynumber: 4.1 Consensus size: 124
13320800 TATAGTAGGT
* *
13320810 TACAGTAGGT-CTGGAAAAATAATTTTGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTT
1 TACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTT
* **
13320874 CAAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCACCCTCGTAAACGCGCTTTTGC
65 CAAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGC
* * *
13320934 TACAATAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTTTAAAAACGCTT
1 TACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTT
* *
13320999 CAAGCAGGATACTATTTGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGC
65 CAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGC
* * *
13321059 TACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCT
1 TACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCT
*
13321124 TCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGC
64 TCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGC
* * *
13321185 TACAGTAGGTCTTGGAAAAATAATTTCGAGTTGTCATTTCTGAGCAAATAGTATAAAAACGCTTC
1 TACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * *
13321250 TAGCAGAATGCTATTTGAGAAGAATTTGTGAAATCCCGCCCTCGTGGACGCGCTTTTAC
66 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGC
*
13321309 TATAGTAG
1 TACAGTAG
13321317 CATGTTTGGG
Statistics
Matches: 351, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
124 82 0.23
125 152 0.43
126 117 0.33
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (124 bp):
TACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGC
Found at i:13324543 original size:114 final size:113
Alignment explanation
Indices: 13324287--13324596 Score: 568
Period size: 114 Copynumber: 2.7 Consensus size: 113
13324277 TTTTTTTTTC
*
13324287 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
13324352 TTAGTACCAATCAAAACA-TTTTTCAAATCTAACATTATGTGAATGTAA
66 TTAGTACC-ATCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
*
13324400 AATTATTAATTGATAATTGTATTATTGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
*
13324465 TTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
66 TTAGTACCA-TCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
13324514 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
13324579 TTAGTACCATCAAAACAT
66 TTAGTACCATCAAAACAT
13324597 ATTAGGGTTT
Statistics
Matches: 190, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
112 1 0.01
113 87 0.46
114 102 0.54
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (113 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
TTAGTACCATCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
Found at i:13324626 original size:22 final size:22
Alignment explanation
Indices: 13324598--13325114 Score: 601
Period size: 22 Copynumber: 23.8 Consensus size: 22
13324588 TCAAAACATA
13324598 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
13324620 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
13324641 TTAGAGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* * *
13324663 TTAAGGTTTTTAAGATAAGAGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13324685 TTAGGGTTTTAAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
13324706 TTAGGGTTTTTAAGTTAAGGAT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13324728 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* * *
13324750 TTATGGTTTTAAAGTCAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
13324771 TTAGAGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
13324793 TTATGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
13324815 TTATGGTTTTTAAATTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
13324836 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
13324857 TTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* * *
13324878 TTAGTGTTTTTTATTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
****
13324899 TTAGGG-TTAGGGGTT-AGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
13324918 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
* *
13324940 TTAGGGTTTTAAAGTCAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
13324961 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13324983 TTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13325005 TTATGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13325027 TTAGGGTTTTTAATTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* * *
13325048 TTAGGATTTTTATGTTAAAGGTTAGGG
1 TTAGGGTTTTTAAGTT-AA-G---GGT
13325075 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
13325097 TTAGGCTTTGTTAA-TTAA
1 TTAGGGTTT-TTAAGTTAA
13325115 ATTATGCATT
Statistics
Matches: 424, Mismatches: 57, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
19 10 0.02
20 9 0.02
21 154 0.36
22 227 0.54
23 5 0.01
25 1 0.00
26 4 0.01
27 14 0.03
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:13324687 original size:65 final size:65
Alignment explanation
Indices: 13324598--13325114 Score: 625
Period size: 65 Copynumber: 7.9 Consensus size: 65
13324588 TCAAAACATA
*
13324598 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* * * * *
13324663 TTAAGGTTTTTAAGATAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGAT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* * * * * *
13324728 TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTAAAGTCAAGGGTTAGAGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* * * *
13324793 TTATGGTTTTTAAATTAAGGGTTTATGGTTTTTAAATTAAGGGTTAGGGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* * * ****
13324857 TTAGGGTTTTTAAGTTAAGGG-TTAGTGTTTTTTATTTAAGGGTTAGGG-TTAGGGGTT-AGGG-
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* *
13324918 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTCAAGGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
* * *
13324983 TTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
13325048 -
65 T
* * * *
13325048 TTAGGATTTTTATGTTAAAGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGCTTTGTTAA-T
1 TTAGGGTTTTTAAGTT-AA-G---GGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTT-TTAAGT
13325112 TAA
59 TAA
13325115 ATTATGCATT
Statistics
Matches: 389, Mismatches: 52, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
61 25 0.06
62 27 0.07
63 28 0.07
64 23 0.06
65 224 0.58
66 22 0.06
67 1 0.00
70 35 0.09
71 4 0.01
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (65 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT
Found at i:13324914 original size:7 final size:6
Alignment explanation
Indices: 13324895--13324925 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
13324885 TTTTTATTTA
13324895 AGGGTT AGGGTT AGGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT A-GGGTT AGGGTT AGGGTT
13324926 TTTAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
AGGGTT
Found at i:13324914 original size:13 final size:13
Alignment explanation
Indices: 13324896--13324923 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13324886 TTTTATTTAA
13324896 GGGTTAGGGTTAG
1 GGGTTAGGGTTAG
13324909 GGGTTAGGGTTAG
1 GGGTTAGGGTTAG
13324922 GG
1 GG
13324924 TTTTTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (13 bp):
GGGTTAGGGTTAG
Found at i:13325074 original size:27 final size:27
Alignment explanation
Indices: 13325044--13325097 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
13325034 TTTTAATTTA
*
13325044 AGGGTTAGGATTTTTATGTTAAAGGTT
1 AGGGTTAGGATTTTTAAGTTAAAGGTT
* *
13325071 AGGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGATTTTTAAGTTAAAGGTT
13325098 TAGGCTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (27 bp):
AGGGTTAGGATTTTTAAGTTAAAGGTT
Found at i:13325669 original size:18 final size:18
Alignment explanation
Indices: 13325642--13325676 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13325632 GAAAATGGAA
*
13325642 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
13325660 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
13325677 AACGCACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:13325968 original size:16 final size:16
Alignment explanation
Indices: 13325947--13325981 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13325937 CTAAACCATG
13325947 GCATGTATCCCGACAC
1 GCATGTATCCCGACAC
* *
13325963 GCATGTATTCCGGCAC
1 GCATGTATCCCGACAC
13325979 GCA
1 GCA
13325982 CGCTAACTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (16 bp):
GCATGTATCCCGACAC
Found at i:13326566 original size:20 final size:20
Alignment explanation
Indices: 13326529--13326566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13326519 TTTATTTTTA
*
13326529 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
13326549 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
13326567 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:13327426 original size:51 final size:50
Alignment explanation
Indices: 13327378--13327478 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 50
13327368 TTAAAATTAT
13327378 TTAAAAATAGAGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGA
1 TTAAAAAT-G-GATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATT-AGA
* * * * *
13327431 TTAAATATGGATTTCAGATAAATTTGGAAGGAATTTGAGAGCAAATTA
1 TTAAAAATGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTA
13327479 AGAGGAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 1 0.02
51 32 0.76
52 2 0.05
53 7 0.17
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.29
Consensus pattern (50 bp):
TTAAAAATGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTAGA
Found at i:13327482 original size:11 final size:11
Alignment explanation
Indices: 13327468--13327510 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
13327458 AAGGAATTTG
*
13327468 AGAGCAAATTA
1 AGAGGAAATTA
*
13327479 AGAGGAAATTT
1 AGAGGAAATTA
*
13327490 AGAGGAAATTG
1 AGAGGAAATTA
*
13327501 AGATGAAATT
1 AGAGGAAATT
13327511 TGAGAGAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTA
Found at i:13327484 original size:22 final size:22
Alignment explanation
Indices: 13327459--13327516 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13327449 TAAATTTGGA
13327459 AGGAATTTGAGAGCAAATTAAG
1 AGGAATTTGAGAGCAAATTAAG
* *
13327481 AGGAAATTT-AGAGGAAATTGAG
1 AGG-AATTTGAGAGCAAATTAAG
*
13327503 ATGAAATTTGAGAG
1 A-GGAATTTGAGAG
13327517 AAGATTAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (22 bp):
AGGAATTTGAGAGCAAATTAAG
Found at i:13328801 original size:5 final size:5
Alignment explanation
Indices: 13328788--13328822 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
13328778 AAGGTAATGA
* *
13328788 ACTGT ACTGC ACTGC ACTGT ACTGT ACTGT ACTGT
1 ACTGT ACTGT ACTGT ACTGT ACTGT ACTGT ACTGT
13328823 CACCTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (5 bp):
ACTGT
Found at i:13338314 original size:29 final size:28
Alignment explanation
Indices: 13338270--13338324 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
13338260 TTGAAATTCA
* *
13338270 TTAATATTATGATATATTAAAGATTGTG
1 TTAATAATATGATATATTAAAAATTGTG
13338298 TTAATAATATTGATATATTAAAAATTG
1 TTAATAATA-TGATATATTAAAAATTG
13338325 AGAGAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (28 bp):
TTAATAATATGATATATTAAAAATTGTG
Found at i:13338332 original size:29 final size:27
Alignment explanation
Indices: 13338272--13338339 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
13338262 GAAATTCATT
* * **
13338272 AATATTATGATATATTAAAGATTGTGTT
1 AATATT-TGATATATTAAAAATTGAGAG
13338300 AATAATATTGATATATTAAAAATTGAGAG
1 AAT-AT-TTGATATATTAAAAATTGAGAG
13338329 AATATTTGATA
1 AATATTTGATA
13338340 AATAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.18
28 5 0.15
29 22 0.65
30 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (27 bp):
AATATTTGATATATTAAAAATTGAGAG
Found at i:13340984 original size:21 final size:21
Alignment explanation
Indices: 13340945--13341006 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
13340935 CTAATACCGA
*
13340945 CAACCAG-ATCCCCTACCGGATG
1 CAACCAGAATCCCC-GCCGGA-G
13340967 -AACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCGCCGGAG
*
13340987 CAACCACAA-CCTCCGCCGGA
1 CAACCAGAATCC-CCGCCGGA
13341007 AGCTGGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 3 0.09
21 26 0.74
22 6 0.17
ACGTcount: A:0.29, C:0.44, G:0.19, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCGGAG
Found at i:13341176 original size:49 final size:49
Alignment explanation
Indices: 13341117--13341480 Score: 710
Period size: 49 Copynumber: 7.4 Consensus size: 49
13341107 ACAAAATAGT
*
13341117 TTATATTAATGTAATAAAATATAAAATAGTTTATTTTGAATATTTTGATA
1 TTAT-TTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341167 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341216 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341265 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341314 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341363 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341412 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
13341461 TTATTTAATGTAATAAAATA
1 TTATTTAATGTAATAAAATA
13341481 TAAATGAATA
Statistics
Matches: 313, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
49 309 0.99
50 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (49 bp):
TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
Found at i:13344760 original size:125 final size:124
Alignment explanation
Indices: 13344518--13345170 Score: 1054
Period size: 125 Copynumber: 5.2 Consensus size: 124
13344508 CCCAAACATG
* * *
13344518 CTACTGTAGCAAAAACTCGTCCACGTGGGAGCGATTTCAGAGATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
13344583 TTGAAGCGTTTTTTATCCTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGAC
66 TTCAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13344643 CTACTGTAGCAATAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
13344708 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTCAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
13344767 CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
13344832 TTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTCAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
**
13344892 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGTAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
13344957 TTCAAGCGTCTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
66 TTCAAGCGT-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * * * * *
13345017 CTACTGTAGCAAAAGTGCATCCATGTAGGAGCGATTTCAAAAATTCTTCTGATTAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
13345082 TTCAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTCAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
13345141 CTACTGTAGCAAAAGCACGTCCACGTGGGA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGA
13345171 ACAATTTCCT
Statistics
Matches: 491, Mismatches: 35, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
124 191 0.39
125 300 0.61
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTCAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:13345096 original size:249 final size:249
Alignment explanation
Indices: 13344518--13345178 Score: 1083
Period size: 249 Copynumber: 2.7 Consensus size: 249
13344508 CCCAAACATG
* *
13344518 CTACTGTAGCAAAAACT-CGTCCACGTGGGAGCGATTTCAGAGATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGC-AAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
* * *
13344582 CTTGAAGCGTTTTTTATCCTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTAC
65 CTTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTAC
* * * *
13344647 TGTAGCAATAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAACATTCTGCTTGA
130 TGTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAACATCCTGCTTCA
* *
13344712 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
195 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
*
13344767 CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGTATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
13344832 TTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
66 TTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
* *
13344897 GTAGCAAAAGCGCGTCCACGTGGGAGTAATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTCAA
131 GTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAACATCCTGCTTCAA
13344962 GCGTCTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
196 GCGT-TTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
* * * * *
13345017 CTACTGTAGCAAAAGTGCATCCATGTAGGAGCGATTTCAAAAATTCTTCTGATTAAGCATCCTGC
1 CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
13345082 TTCAAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGACCTACT
66 TTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
* *
13345146 GTAGCAAAAGCACGTCCACGTGGGAACAATTTC
131 GTAGCAAAAGCGCGTCCACGTGGGAGCAATTTC
13345179 CTTAATAAAT
Statistics
Matches: 385, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
248 5 0.01
249 266 0.69
250 114 0.30
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (249 bp):
CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTCAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
GTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAACATCCTGCTTCAA
GCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
Found at i:13345401 original size:21 final size:22
Alignment explanation
Indices: 13345361--13345402 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13345351 CCTAAAAATT
*
13345361 CTAAAAACCCTAAACCCTAACC
1 CTAAAAACCCTAAAACCTAACC
*
13345383 CTAAAAACCC-AAAATCTAAC
1 CTAAAAACCCTAAAACCTAAC
13345403 GTGGGGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (22 bp):
CTAAAAACCCTAAAACCTAACC
Found at i:13348746 original size:73 final size:74
Alignment explanation
Indices: 13348627--13348767 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 74
13348617 TTTTCAAACT
* *
13348627 CAAGTTTTAAACGATCTCGGAAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGAT-CCTT
1 CAAGTTTTAAACGATCTCGGAAATTAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATACCTT
13348691 TTTTTTCCC
66 TTTTTTCCC
**
13348700 CAAGTTTTAAACGATCTC-GAGAATTAAAAAAAGATCGTGTCCTAACTTACTGGGTGTGATACCT
1 CAAGTTTTAAACGATCTCGGA-AATTAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATACCT
13348764 TTTT
65 TTTT
13348768 CTAAAATCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 2 0.03
73 53 0.85
74 7 0.11
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (74 bp):
CAAGTTTTAAACGATCTCGGAAATTAAAAAAAGATCGTGTCCTAACTTACTGGGCATGATACCTT
TTTTTTCCC
Found at i:13353482 original size:10 final size:10
Alignment explanation
Indices: 13353467--13353533 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
13353457 TATATTTTAA
13353467 AAAAAGAAAG
1 AAAAAGAAAG
13353477 AAAAAGAAA-
1 AAAAAGAAAG
13353486 AAAAAG-AAG
1 AAAAAGAAAG
*
13353495 AAAATA-AAAT
1 AAAA-AGAAAG
13353505 AAAAAGAAA-
1 AAAAAGAAAG
*
13353514 AAGAAGGAAAG
1 AA-AAAGAAAG
*
13353525 GAAAAGAAA
1 AAAAAGAAA
13353534 AATAAAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
8 2 0.04
9 13 0.28
10 31 0.66
11 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:13353484 original size:6 final size:6
Alignment explanation
Indices: 13353473--13353541 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
13353463 TTAAAAAAAG
* *
13353473 AAAGAA AAAGAA AAA-AA AGAAG-A AAA-TA AAATAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* *
13353519 GGAAAGGA AAAGAA AAATAA AAA
1 --AAAGAA AAAGAA AAAGAA AAA
13353542 TGAGAGGCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
5 9 0.17
6 38 0.73
8 5 0.10
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAGAA
Found at i:13353489 original size:19 final size:19
Alignment explanation
Indices: 13353465--13353513 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13353455 AATATATTTT
13353465 AAAAAAAGAAAGAAAA-AGA
1 AAAAAAAGAAAGAAAATA-A
13353484 AAAAAAAG-AAGAAAATAA
1 AAAAAAAGAAAGAAAATAA
13353502 AATAAAAAGAAA
1 AA-AAAAAGAAA
13353514 AAGAAGGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.37
19 15 0.56
20 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAAAGAAAATAA
Found at i:13353495 original size:22 final size:22
Alignment explanation
Indices: 13353465--13353535 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 22
13353455 AATATATTTT
13353465 AAAAA-AAGAAAGAAAAAGAAA
1 AAAAAGAAGAAAGAAAAAGAAA
* *
13353486 AAAAAGAAGAAAATAAAATAAAAA
1 AAAAAGAAG-AAAGAAAA-AGAAA
*
13353510 GAAAAAGAAGGAAAGGAAAAGAAA
1 -AAAAAGAA-GAAAGAAAAAGAAA
13353534 AA
1 AA
13353536 TAAAAATGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 5 0.12
22 3 0.08
23 9 0.22
24 8 0.20
25 14 0.35
26 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (22 bp):
AAAAAGAAGAAAGAAAAAGAAA
Found at i:13355464 original size:13 final size:13
Alignment explanation
Indices: 13355432--13355464 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13355422 AAAAAAAAAG
13355432 AAAAAAA-CGCAA
1 AAAAAAAGCGCAA
13355444 AAAAAAAGCGCAA
1 AAAAAAAGCGCAA
13355457 AAAAAAAG
1 AAAAAAAG
13355465 TTGCCTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGCGCAA
Found at i:13363596 original size:89 final size:89
Alignment explanation
Indices: 13363436--13363936 Score: 759
Period size: 89 Copynumber: 5.6 Consensus size: 89
13363426 AACAGATCAA
* *
13363436 TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
13363501 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
13363525 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACGGCGAAGCAAATCGAAGACACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
13363590 TTCTGTACTGACAGCGGAACAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * ** *
13363614 TGAAAATAGTAGATCTTGCCTTCCTGTACCAACGGCGAAGCAGATCGAAGACAACAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
13363679 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* *
13363703 TGAAGATAGTAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
13363768 TCCTGTACTGACAGCAGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * **
13363792 TGAAGACAGCAGATCTTGCCTTCTTGTGCTGACAGCGAAGCAGATCGAAGACACTGGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
13363857 TCCTGTACTGATAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * **
13363881 TGAAAATAGCAGATATTGCCTTCCTGTACTGACGGTGAATTAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCA
13363937 TAGTTTGCAG
Statistics
Matches: 368, Mismatches: 44, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 368 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:13364021 original size:50 final size:50
Alignment explanation
Indices: 13363951--13364186 Score: 186
Period size: 50 Copynumber: 4.7 Consensus size: 50
13363941 TTGCAGCAAA
* * * * *
13363951 GCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAGT
1 GCAGTGAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAGT
* * * * *
13364001 GCAGTGGAATAGATTGAAGCTACAA-TGACGAATCTTGCTTCCCCGAAATT
1 GCAGTGAAATAGATTGAAGCTACAACAG-CGAATCTTACTTCCCCGACAGT
* * * * * * ** * *
13364051 GCAATTAAAAAGATGGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGT
1 GCAGTGAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAGT
* * * * * * * *
13364101 GTAGTGCAACAGATTGAAGCTACAATAGCAAATCTTGCTTCCCCGATATT
1 GCAGTGAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAGT
* *
13364151 GCAGTTAAATAGATTGAAGCTACAACAACGAATCTT
1 GCAGTGAAATAGATTGAAGCTACAACAGCGAATCTT
13364187 TTTTTCCTGG
Statistics
Matches: 136, Mismatches: 48, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
49 1 0.01
50 134 0.99
51 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
GCAGTGAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAGT
Found at i:13364135 original size:100 final size:100
Alignment explanation
Indices: 13363955--13364186 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 100
13363945 AGCAAAGCAG
* * *
13363955 TTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAG
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTGCAACAGATTGAAG
*
13364020 CTACAATGACGAATCTTGCTTCCCCGAAATTGCAA
66 CTACAATGACAAATCTTGCTTCCCCGAAATTGCAA
* * * * * *
13364055 TTAAAAAGATGGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGCAACAGATTGAAG
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTGCAACAGATTGAAG
* *
13364120 CTACAAT-AGCAAATCTTGCTTCCCCGATATTGCAG
66 CTACAATGA-CAAATCTTGCTTCCCCGAAATTGCAA
* *
13364155 TTAAATAGATTGAAGCTACAACAACGAATCTT
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTT
13364187 TTTTTCCTGG
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 113 0.99
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (100 bp):
TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTGCAACAGATTGAAG
CTACAATGACAAATCTTGCTTCCCCGAAATTGCAA
Found at i:13364434 original size:44 final size:45
Alignment explanation
Indices: 13364223--13364473 Score: 187
Period size: 44 Copynumber: 5.7 Consensus size: 45
13364213 ATAAAGACAA
* * * *
13364223 AAGATAGCAAGCCTTATCCCCCTAAAGTTGCAGTTGG-GCAGGTTA
1 AAGATAGCAAGCCTTATCTCCCTGAAGTTGCAG-TGGAGCAAGTTG
* * * * * * *
13364268 AAGATA-AAAGTCTTATCTCCTTGAAGTTACAATGGAG-TAGACTG
1 AAGATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTG
* * ** * *
13364312 AAGATAGCAAACCTTATCTCTCTGAAGTTATAGTAGAGCAGGTTG
1 AAGATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTG
* *
13364357 AAG-TAGCAAACCTTATC-CCCATGAAGTTGCAGTGGGGCAAGTTG
1 AAGATAGCAAGCCTTATCTCCC-TGAAGTTGCAGTGGAGCAAGTTG
* **
13364401 AAGATA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACAG
1 AAGATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTG
*
13364445 AAGA-AGTCAA-TCTTATCTCCCTGAAGTTG
1 AAGATAG-CAAGCCTTATCTCCCTGAAGTTG
13364474 TTGTGTAGTG
Statistics
Matches: 163, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
43 9 0.06
44 111 0.68
45 42 0.26
46 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTG
Found at i:13364573 original size:129 final size:129
Alignment explanation
Indices: 13364407--13364828 Score: 525
Period size: 129 Copynumber: 3.3 Consensus size: 129
13364397 GTTGAAGATA
* *
13364407 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGTCAATCTTATCTCCCTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCCCTGAAGT
** * * *
13364472 TGTTGTGTAGTGGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT
66 TGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT
* * *
13364536 CTAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAGTCAATCCTATCTACCTGAAGT
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCCCTGAAGT
* *
13364601 TGCAGTGGAGCGGATTAAAACCAC-AGT-TATATCTCTCTGAAGTTGTAGTAGAGCAGATCGCAT
66 TGCAGTGGAGCGGATTAAAACCACAAATCT-TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT
* * * * **
13364664 CCAA-CCTTATCCCCCT-AAG-CAGTAGTGGAGCAGACAGAAGAAACCAATCCTATC-CCTCTGA
1 -CAAGTCTTATCTCCCTGAAGTTA-CAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCC-CTGA
* *
13364725 AGTTGCAGTGGAGCGGATTAAAAACCACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
63 AGTTGCAGTGGAGCGGATT-AAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCG
13364790 CAT
127 CAT
* * * *
13364793 AAACTCTTATCTCCCTGACGTTGCAGTAGG-GCAGAC
1 CAAGTCTTATCTCCCTGAAGTTACAGT-GGAGCAGAC
13364829 CAAAATCACA
Statistics
Matches: 250, Mismatches: 32, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
126 2 0.01
127 55 0.22
128 55 0.22
129 124 0.50
130 12 0.05
131 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCCCTGAAGT
TGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT
Found at i:13364737 original size:44 final size:45
Alignment explanation
Indices: 13364687--13364789 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
13364677 CCTAAGCAGT
13364687 AGTGGAGCAGA-CAGAAGAAAC-CA-ATCCTATCCCTCTGAAGTTGC
1 AGTGGAGCAGATCA-AA-AAACACATATCCTATCCCTCTGAAGTTGC
* * * * *
13364731 AGTGGAGCGGATTAAAAACCACATATCTTATCTCTCTGAAGTTGC
1 AGTGGAGCAGATCAAAAAACACATATCCTATCCCTCTGAAGTTGC
*
13364776 AGTAGAGCAGATCA
1 AGTGGAGCAGATCA
13364790 CATAAACTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.06
44 14 0.29
45 31 0.65
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGGAGCAGATCAAAAAACACATATCCTATCCCTCTGAAGTTGC
Found at i:13367917 original size:20 final size:18
Alignment explanation
Indices: 13367880--13367918 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13367870 AATGCACTTG
*
13367880 ATTTTTATTTTGTTTAAA
1 ATTTTTATTCTGTTTAAA
*
13367898 ATTTATTATTCTGTTTTAA
1 ATTT-TTATTCTGTTTAAA
13367917 AT
1 AT
13367919 ATATATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATTCTGTTTAAA
Found at i:13371380 original size:12 final size:13
Alignment explanation
Indices: 13371347--13371371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13371337 TTAATTAAAA
13371347 ATATATTTTTATC
1 ATATATTTTTATC
13371360 ATATATTTTTAT
1 ATATATTTTTAT
13371372 ATCAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATATTTTTATC
Found at i:13371417 original size:38 final size:37
Alignment explanation
Indices: 13371375--13371452 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
13371365 TTTTTATATC
* *
13371375 AATTTTAAAAAATATAAAAGTAAA-TATAAATATATAAA
1 AATTTCAAAAAATATAAAA-TAAAGTATAAA-AAATAAA
* *
13371413 AATTTCAGAAAATATATAATAAAGTATAAAAAATAAA
1 AATTTCAAAAAATATAAAATAAAGTATAAAAAATAAA
13371450 AAT
1 AAT
13371453 ACATTAATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 13 0.37
38 22 0.63
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (37 bp):
AATTTCAAAAAATATAAAATAAAGTATAAAAAATAAA
Found at i:13372989 original size:20 final size:21
Alignment explanation
Indices: 13372957--13372997 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
13372947 TATGTAGATG
13372957 ATTATTGTTATTAAATTATAT
1 ATTATTGTTATTAAATTATAT
13372978 ATTATT-TTATTAAATTATAT
1 ATTATTGTTATTAAATTATAT
13372998 TTAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTATTGTTATTAAATTATAT
Found at i:13373074 original size:24 final size:23
Alignment explanation
Indices: 13373029--13373096 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
13373019 TAATAACATT
* *
13373029 ATTAAT-AATATTATTAAAATATGA
1 ATTAATAAAAATTA-TAATATAT-A
13373053 ATTAATAAAAATTATAATATATA
1 ATTAATAAAAATTATAATATATA
* *
13373076 ATATTATAAAAATAAT-ATATA
1 AT-TAATAAAAATTATAATATA
13373097 ACTTACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 8 0.21
24 24 0.63
25 6 0.16
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATTAATAAAAATTATAATATATA
Found at i:13375564 original size:14 final size:17
Alignment explanation
Indices: 13375545--13375580 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
13375535 TTCATTACCA
13375545 TATTTCAC-T-TC-AAT
1 TATTTCACATATCAAAT
13375559 TATTTCACATATCAAAT
1 TATTTCACATATCAAAT
13375576 TATTT
1 TATTT
13375581 TACACTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 2 0.11
17 8 0.42
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTCACATATCAAAT
Found at i:13380363 original size:15 final size:15
Alignment explanation
Indices: 13380343--13380371 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13380333 CTGGTTTTCA
13380343 TGGCAAATTCAACAT
1 TGGCAAATTCAACAT
13380358 TGGCAAATTCAACA
1 TGGCAAATTCAACA
13380372 AACCAAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
TGGCAAATTCAACAT
Found at i:13382051 original size:6 final size:6
Alignment explanation
Indices: 13382040--13382070 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13382030 TTGGTGTCAT
13382040 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
13382071 AGTAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:13385443 original size:40 final size:39
Alignment explanation
Indices: 13385384--13385626 Score: 155
Period size: 40 Copynumber: 6.0 Consensus size: 39
13385374 TTAGCTACGC
*
13385384 TTTTTTAAAAACGCCGCTATAGATCAAGCATTAGCGGCGT
1 TTTTTTAAAAACGCCACTATAGATCAAGCATTAGCGGC-T
* ** ** * *
13385424 TTTTTTAAAATCGCTGCTATAGAATTGAGCATTAGTGGCAC
1 TTTTTTAAAAACGCCACTATAG-ATCAAGCATTAGCGGC-T
* * * * *
13385465 TTTTTGATAAACGCCACTATAGATCGAGTATTAGTGGCT
1 TTTTTTAAAAACGCCACTATAGATCAAGCATTAGCGGCT
** * * * * *
13385504 CTTTTTTAAAATTGTCGC-AAAAATCTTTAGAGGCATTAGCGGCGC
1 -TTTTTTAAAAACGCCACTATAGATC---A-A-GCATTAGCGGC-T
* * *
13385549 TTTTTGAAAAACGCCACTATAGGTCGAGCATTAGCGGCT
1 TTTTTTAAAAACGCCACTATAGATCAAGCATTAGCGGCT
* *
13385588 TTTTTTAAGAAACGCCACTATAGATCAAGAAATAGCGGC
1 TTTTTTAA-AAACGCCACTATAGATCAAGCATTAGCGGC
13385627 ACTTTCTGAA
Statistics
Matches: 151, Mismatches: 42, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
39 12 0.08
40 82 0.54
41 31 0.21
43 1 0.01
44 21 0.14
45 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (39 bp):
TTTTTTAAAAACGCCACTATAGATCAAGCATTAGCGGCT
Found at i:13385469 original size:41 final size:40
Alignment explanation
Indices: 13385356--13385631 Score: 146
Period size: 40 Copynumber: 6.8 Consensus size: 40
13385346 GGATAAAAAA
* * * * *
13385356 GCCGCTATAAATCGAGAATTAGCT-ACGCTTTTTTAAAAAC
1 GCCGCTATAGATCGAGCATTAG-TGGCACTTTTTTAAAATC
* * **
13385396 GCCGCTATAGATCAAGCATTAGCGGCGTTTTTTTAAAATC
1 GCCGCTATAGATCGAGCATTAGTGGCACTTTTTTAAAATC
* * *
13385436 GCTGCTATAGAATTGAGCATTAGTGGCACTTTTTGATAAA-C
1 GCCGCTATAG-ATCGAGCATTAGTGGCACTTTTTTA-AAATC
* * * *
13385477 GCCACTATAGATCGAGTATTAGTGGCTCTTTTTTAAAATT
1 GCCGCTATAGATCGAGCATTAGTGGCACTTTTTTAAAATC
* * * * * * *
13385517 GTCGC-AAAAATCTTTAGAGGCATTAGCGGCGCTTTTTGAAAAAC
1 GCCGCTATAGATC----GA-GCATTAGTGGCACTTTTTTAAAATC
* * * * *
13385561 GCCACTATAGGTCGAGCATTAGCGGC-TTTTTTTAAGAAAC
1 GCCGCTATAGATCGAGCATTAGTGGCACTTTTTTAA-AATC
* * * * *
13385601 GCCACTATAGATCAAGAAATAGCGGCACTTT
1 GCCGCTATAGATCGAGCATTAGTGGCACTTT
13385632 CTGAAAAACA
Statistics
Matches: 181, Mismatches: 43, Indels: 23
0.73 0.17 0.09
Matches are distributed among these distances:
39 15 0.08
40 102 0.56
41 33 0.18
42 3 0.02
43 2 0.01
44 22 0.12
45 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (40 bp):
GCCGCTATAGATCGAGCATTAGTGGCACTTTTTTAAAATC
Found at i:13385486 original size:81 final size:81
Alignment explanation
Indices: 13385383--13385595 Score: 236
Period size: 81 Copynumber: 2.6 Consensus size: 81
13385373 ATTAGCTACG
* * * *
13385383 CTTTTTTAAAAACGCCGCTATAGATCAAGCATTAGCGGCGTTTTTTTAAAATCG-CTGCTATAGA
1 CTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGC-TTTTTTTAAAATCGTC-GC-A-AAA
*
13385447 A-TT-GA-GCATTAGTGGCA
62 ATTTAGAGGCATTAGCGGCA
* * * *
13385464 CTTTTTGATAAACGCCACTATAGATCGAGTATTAGTGGCTCTTTTTTAAAATTGTCGCAAAAATC
1 CTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCT-TTTTTTAAAATCGTCGCAAAAA--
*
13385529 TTTAGAGGCATTAGCGGCG
63 TTTAGAGGCATTAGCGGCA
*
13385548 CTTTTTGAAAAACGCCACTATAGGTCGAGCATTAGCGGCTTTTTTTAA
1 CTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCTTTTTTTAA
13385596 GAAACGCCAC
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
79 3 0.03
80 2 0.02
81 47 0.42
82 3 0.03
83 10 0.09
84 46 0.41
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (81 bp):
CTTTTTGAAAAACGCCACTATAGATCGAGCATTAGCGGCTTTTTTTAAAATCGTCGCAAAAATTT
AGAGGCATTAGCGGCA
Found at i:13402906 original size:43 final size:43
Alignment explanation
Indices: 13402845--13402966 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
13402835 ACAATGCAAC
* * * *
13402845 GTCCCAGATGAGGTCTTACATGTAATCAAATATCGATACCATT
1 GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATACCAAT
* *
13402888 GTCCCAGACAG-GGTCTTACACGTAAATCTCAA-ATCGATGCCAAT
1 GTCCCAGAC-GTGGTCTTACACGT-AATC-AAATATCGATACCAAT
* *
13402932 GTCCCAGACGTGGTCTTACACGAAATCACATATCG
1 GTCCCAGACGTGGTCTTACACGTAATCAAATATCG
13402967 GAATCCTATG
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
42 1 0.02
43 28 0.42
44 35 0.53
45 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATACCAAT
Found at i:13423947 original size:28 final size:30
Alignment explanation
Indices: 13423913--13423990 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 30
13423903 CACATGCACA
* *
13423913 AGATAGCCATAGAGGCGTCCATACAA-AT-
1 AGATAGCCATAAAGGCGTCCACACAACATC
* *
13423941 AGATAGCCACAAAGGCGTCCACATAACATC
1 AGATAGCCATAAAGGCGTCCACACAACATC
* *
13423971 AGATAGCCATGAAGGTGTCC
1 AGATAGCCATAAAGGCGTCC
13423991 TCATATAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 22 0.54
29 2 0.05
30 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (30 bp):
AGATAGCCATAAAGGCGTCCACACAACATC
Found at i:13424075 original size:19 final size:19
Alignment explanation
Indices: 13424046--13424091 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
13424036 GGATATATTT
13424046 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
13424064 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
*
13424083 TAATTCTTA
1 TAAATCTTA
13424092 GAATAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:13428649 original size:15 final size:15
Alignment explanation
Indices: 13428626--13428656 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13428616 ATTTTAACAT
13428626 AGATAATAATATATA
1 AGATAATAATATATA
*
13428641 AGATGATAATATATA
1 AGATAATAATATATA
13428656 A
1 A
13428657 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:13430395 original size:44 final size:43
Alignment explanation
Indices: 13430300--13430545 Score: 159
Period size: 44 Copynumber: 5.7 Consensus size: 43
13430290 TGTGGTTTTA
** * *
13430300 GTCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTT-TTA
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGAT-TG-GTTTCTTC
* * *
13430343 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTTT-CTTC
** * *
13430387 GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G---ATGC
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGA-TTGGTTTCTTC
** * * * *
13430426 GATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTA
1 G-TCTGCTCCACTACAACTTCAGGGAGATAAGAT-TG-GTTTCTTC
* * *
13430471 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTTT-CTTC
**
13430515 GTCTGCTCCACTACTGCTT-AGGGAGATAAGA
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGA
13430546 CTTGATGCGA
Statistics
Matches: 153, Mismatches: 36, Indels: 28
0.71 0.17 0.13
Matches are distributed among these distances:
39 3 0.02
40 14 0.09
41 12 0.08
42 6 0.04
43 43 0.28
44 74 0.48
45 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (43 bp):
GTCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTTTCTTC
Found at i:13430457 original size:41 final size:42
Alignment explanation
Indices: 13430388--13430586 Score: 113
Period size: 44 Copynumber: 4.7 Consensus size: 42
13430378 GTTTCCTTCG
** *
13430388 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTGGATGCGA
** * * ***
13430428 TCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACAACTTCAGAGAGATAAGA-CT-TGGATGCGA
* * * * *
13430472 TCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGGTTTCCTTCG-
1 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTGG----ATGCGA
** *
13430516 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTGGATGCGA
** *
13430556 TCTGCTTTACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTACAACTTCAGAGAGATAAGA
13430587 TCTGTGGTTT
Statistics
Matches: 117, Mismatches: 31, Indels: 21
0.69 0.18 0.12
Matches are distributed among these distances:
39 3 0.03
40 26 0.22
41 25 0.21
42 3 0.03
43 13 0.11
44 45 0.38
45 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
TCTGCTCCACTACAACTTCAGAGAGATAAGACTTGGATGCGA
Found at i:13430461 original size:128 final size:128
Alignment explanation
Indices: 13430322--13430610 Score: 578
Period size: 128 Copynumber: 2.3 Consensus size: 128
13430312 ACTGCTTAGG
13430322 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
13430387 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTTTACTGCAACTTCAGA
66 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTTTACTGCAACTTCAGA
13430450 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
13430515 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTTTACTGCAACTTCAGA
66 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTTTACTGCAACTTCAGA
13430578 GAGATAAGATCTGTGGTTTTAATCCGCTCCACT
1 GAGATAAGATCTGTGGTTTTAATCCGCTCCACT
13430611 NNNNNNNNNN
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 161 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (128 bp):
GAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCCTTC
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTTTACTGCAACTTCAGA
Found at i:13430468 original size:87 final size:87
Alignment explanation
Indices: 13430300--13430459 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
13430290 TGTGGTTTTA
* **
13430300 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGCAATCCGCTCCACTACAACTTCAG
* *
13430365 GGAGATAGGATTGGTTTCCTTC
66 AGAGATAAGATTGGTTTCCTTC
* * ** *
13430387 GTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTTTACTGCAACTTCAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGCAATCCGCTCCACTACAACTTCAG
13430449 AGAGATAAGAT
66 AGAGATAAGAT
13430460 CTGTGGTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 29 0.46
85 1 0.02
86 2 0.03
87 31 0.49
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGCAATCCGCTCCACTACAACTTCAG
AGAGATAAGATTGGTTTCCTTC
Found at i:13430892 original size:39 final size:39
Alignment explanation
Indices: 13430761--13430909 Score: 190
Period size: 39 Copynumber: 3.7 Consensus size: 39
13430751 NNNNNNNNTT
* * *
13430761 TGCTCCACTACTGCTTAGGGAGATAAAAAACTGTTTCTTTCATC
1 TGCTCCACTACTGCTTAGGGAGAT--AAAACTG---ATGTGATC
*
13430805 TGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
1 TGCTCCACTACTGCTTAGGGAGATAAAAC-TGATGTGATC
* *
13430845 TGCTCCACTACTGCTTAGGGAGATAAAACTGGTGTGATT
1 TGCTCCACTACTGCTTAGGGAGATAAAACTGATGTGATC
13430884 TGCTCCACTACTGCTTAGGGAGATAA
1 TGCTCCACTACTGCTTAGGGAGATAA
13430910 GATCTGGTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
39 34 0.35
40 33 0.34
42 4 0.04
43 2 0.02
44 24 0.25
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
TGCTCCACTACTGCTTAGGGAGATAAAACTGATGTGATC
Found at i:13431272 original size:87 final size:88
Alignment explanation
Indices: 13431140--13431500 Score: 340
Period size: 87 Copynumber: 4.1 Consensus size: 88
13431130 TCAGAGAGAT
* * * * *** *
13431140 AAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGGGAAGACAAGACCTGC-ATCTTCGATC
1 AAGATCTGCTTTCTTCGATCTACTTT-ACGCTAATACATGAAGACAAGATCTGCTATCTTCGATC
13431204 CACTTCCTACCAATATAGGAAGAC
65 CACTTCCTACCAATATAGGAAGAC
* * * * * *
13431228 ATGACCTACTATT-TTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTTTGTTCGATC
1 AAGATCTGCT-TTCTTCGATCTACTTTACGCTAATACATGAAGACAAGATCTGCTATCTTCGATC
* * * *
13431292 TACTTCGCCACCAGTATGGGAAGAC
65 CACTTC-CTACCAATATAGGAAGAC
** **
13431317 AAGATCTGCTTTCTTCGATCTAC-TT-CGCTACCAGTTTGGAAAGACAAGATCTGC-ATCTTCGA
1 AAGATCTGCTTTCTTCGATCTACTTTACGCTAATA-CAT-G-AAGACAAGATCTGCTATCTTCGA
13431379 TCCACTTCCTACCAATATA-GAAGAC
63 TCCACTTCCTACCAATATAGGAAGAC
* * * *
13431404 AGGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGCTTTCTTCGATCTACTTTACGCTAATACATGAAGACAAGATCTGCTATCTTCGATCC
* * * *
13431469 ACTTCAC-GCCGATACATGAAGAC
66 ACTTC-CTACCAATATAGGAAGAC
13431492 AAGATCTGC
1 AAGATCTGC
13431501 ATCTTTTATG
Statistics
Matches: 219, Mismatches: 42, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
86 14 0.06
87 75 0.34
88 62 0.28
89 54 0.25
90 14 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (88 bp):
AAGATCTGCTTTCTTCGATCTACTTTACGCTAATACATGAAGACAAGATCTGCTATCTTCGATCC
ACTTCCTACCAATATAGGAAGAC
Found at i:13431402 original size:132 final size:132
Alignment explanation
Indices: 13431140--13431473 Score: 383
Period size: 132 Copynumber: 2.5 Consensus size: 132
13431130 TCAGAGAGAT
* * * *
13431140 AAGATCTGTTTTCTTCGATCTACTTTGCCACCAATATGGGAAGACAAGACCTGC-ATCTTCGATC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATC
* * * *
13431204 CACTTCCTACCAATATAGGAAGACATGACCTACTATTTTCGATCTACTTTACGCCAATACATGAA
66 TACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTCGATCCACTTTAC-CCAATACATGAA
13431269 GAC
130 GAC
* *
13431272 AAGATCTGCTTTGTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATC
* * * * *
13431337 TACTTCGCTACCAGT-TTGGAAAGACAAGATCTGC-ATCTTCGATCCACTTCCTA-CCAATATA-
66 TACTTC-CTACCAATATAGG-AAGACAAGACCTACTATCTTCGATCCACTT--TACCCAATACAT
13431398 GAAGAC
127 GAAGAC
* * * * ***
13431404 AGGATCTGCTTTCTTCGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCTTTCTTCGATC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATC
13431468 TACTTC
66 TACTTC
13431474 ACGCCGATAC
Statistics
Matches: 173, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
131 37 0.21
132 79 0.46
133 37 0.21
134 18 0.10
135 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (132 bp):
AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATC
TACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTCGATCCACTTTACCCAATACATGAAG
AC
Found at i:13431473 original size:44 final size:44
Alignment explanation
Indices: 13431140--13431500 Score: 281
Period size: 44 Copynumber: 8.2 Consensus size: 44
13431130 TCAGAGAGAT
* * ***
13431140 AAGATCTGTTTTCTTCGATCTACTTTGC-CACCAATATGGGAAGAC
1 AAGATCTGCTTTCTTCGATCTAC-TT-CACGCCAATACATGAAGAC
* * * * * *
13431185 AAGACCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* * * *
13431228 ATGACCTACTATT-TTCGATCTACTTTACGCCAATACATGAAGAC
1 AAGATCTGCT-TTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * ***
13431272 AAGATCTGCTTTGTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGAC
* * * *
13431317 AAGATCTGCTTTCTTCGATCTACTTCGCTACCAGT--TTGGAAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAT-G-AAGAC
* * * *
13431362 AAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATA-GAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* *
13431404 AGGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
*
13431448 AAGATCTGCTTTCTTCGATCTACTTCACGCCGATACATGAAGAC
1 AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
13431492 AAGATCTGC
1 AAGATCTGC
13431501 ATCTTTTATG
Statistics
Matches: 262, Mismatches: 40, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
42 15 0.06
43 54 0.21
44 127 0.48
45 66 0.25
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
Found at i:13443154 original size:115 final size:115
Alignment explanation
Indices: 13442952--13443187 Score: 384
Period size: 115 Copynumber: 2.1 Consensus size: 115
13442942 TTTAACAGGA
* * *
13442952 TATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGTACGTTTCCTCGATTTT
1 TATTTGACTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTT
* *
13443017 CCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGATATTTGGT
66 CCAAACACGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGATATTTGGC
* * *
13443067 TATTTGACTATTTGGTCGAACGAGAAATCGAAATCCAGA-ACGTTAGGGCACGTTTTCTCGATTT
1 TATTTGACTATTTGGTCAAACGAGAAATCGAAACCCA-ACACGTTAGGGCACGTTTCCTCGATTT
13443131 TCCAAACACGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGATATTTGGC
65 TCCAAACACGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGATATTTGGC
13443182 TATTTG
1 TATTTG
13443188 GTCGAANNNN
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
115 111 0.99
116 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (115 bp):
TATTTGACTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTT
CCAAACACGAAATATTGCCTTATTTTAAAAGTTTAAAAAGGATATTTGGC
Found at i:13443809 original size:15 final size:15
Alignment explanation
Indices: 13443786--13443816 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13443776 ATTTTAACAT
13443786 AGATAATAATATATA
1 AGATAATAATATATA
*
13443801 AGATGATAATATATA
1 AGATAATAATATATA
13443816 A
1 A
13443817 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:13448550 original size:30 final size:30
Alignment explanation
Indices: 13448495--13448556 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
13448485 CACTAAGCAA
13448495 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
13448524 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
13448555 GT
1 GT
13448557 ATCTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:13448757 original size:25 final size:25
Alignment explanation
Indices: 13448709--13448814 Score: 96
Period size: 25 Copynumber: 4.3 Consensus size: 25
13448699 GTACATATAT
* * * *
13448709 GCTCATACGAGCTTTGAATTGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
13448734 GCTC-TCACGAGCTATAAATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
*
13448759 GCTCATACGAG-T-TGAGAATCAGTAA
1 GCTCATACGAGCTAT-A-AATCGGTAA
13448784 GCTC-TCACGAGCTAT-AATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
13448808 GCTCATA
1 GCTCATA
13448815 TGAGTTGAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 46 0.69
26 2 0.03
27 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:13448820 original size:49 final size:50
Alignment explanation
Indices: 13448734--13448832 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 50
13448724 GAATTGGTAT
13448734 GCTCTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAGAATCAGTAA
1 GCTCTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAGAATCAGTAA
* *
13448784 GCTCTCACGAGCTAT-AATCGGTAAGCTCATATGAGTTGAGAATCGGTAA
1 GCTCTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAGAATCAGTAA
13448833 TCCCTGATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 32 0.68
50 15 0.32
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (50 bp):
GCTCTCACGAGCTATAAATCGGTAAGCTCATACGAGTTGAGAATCAGTAA
Done.