Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 97 of 297
Found at i:35026600 original size:30 final size:30
Alignment explanation
Indices: 35026554--35026610 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
35026544 CTCAGTATTC
* *
35026554 CACACAGGTAATCCACACGCCCTTGTGTGA
1 CACACAGGTAAGCCACACGCCCATGTGTGA
* *
35026584 CACACAGGTAGGCCACATGCCCATGTG
1 CACACAGGTAAGCCACACGCCCATGTG
35026611 GCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.18
Consensus pattern (30 bp):
CACACAGGTAAGCCACACGCCCATGTGTGA
Found at i:35030025 original size:27 final size:27
Alignment explanation
Indices: 35029995--35030168 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
35029985 TTGTACAGCT
*
35029995 CTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
** *
35030022 CTAAGTGTGCGAAATGAATATG-ATGCA
1 CTAAGTGTGCGATTTGACTATGTA-GCA
* * **
35030049 CTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
35030076 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGA-TTTGACTATGTAGCA
* *
35030104 CTAAGTGTGCGATTTGATTACGTAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
* * *
35030131 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
*
35030158 CTGAGTGTGCG
1 CTAAGTGTGCG
35030169 GACTAAATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CTAAGTGTGCGATTTGACTATGTAGCA
Found at i:35030105 original size:82 final size:81
Alignment explanation
Indices: 35029995--35030147 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
35029985 TTGTACAGCT
* *
35029995 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGC
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGC
35030059 GAATTGACCATGCGGCA
65 GAATTGACCATGCGGCA
** *
35030076 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
*
35030141 GAGTTGA
65 GAATTGA
35030148 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 12 0.19
82 51 0.80
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
AATTGACCATGCGGCA
Found at i:35030159 original size:82 final size:81
Alignment explanation
Indices: 35029988--35030168 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
35029978 GATTGAATTG
* * *
35029988 TACAGCTCTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35030053 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35030069 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35030133 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35030151 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35030169 GACTAAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35037656 original size:12 final size:12
Alignment explanation
Indices: 35037639--35037665 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35037629 ATTCCGAAGT
35037639 ATATATATATAC
1 ATATATATATAC
35037651 ATATATATATAC
1 ATATATATATAC
35037663 ATA
1 ATA
35037666 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:35038178 original size:27 final size:27
Alignment explanation
Indices: 35038147--35038324 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35038137 TAAATTGTAC
35038147 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35038174 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35038200 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35038228 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35038256 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35038283 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35038310 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35038325 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35038261 original size:82 final size:81
Alignment explanation
Indices: 35038148--35038303 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35038138 AAATTGTACA
* *
35038148 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35038212 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35038229 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35038294 TGCGAGTTGA
65 TGCGAATTGA
35038304 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35038315 original size:82 final size:81
Alignment explanation
Indices: 35038144--35038324 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35038134 GATTAAATTG
* *
35038144 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35038209 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35038225 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35038289 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35038307 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35038325 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35047621 original size:39 final size:40
Alignment explanation
Indices: 35047526--35047787 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
35047516 TTGAATGATG
*
35047526 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35047564 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35047605 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
35047644 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35047683 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35047722 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35047761 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35047788 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35057461 original size:40 final size:40
Alignment explanation
Indices: 35057372--35057635 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
35057362 TTGAATGATG
* *
35057372 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
35057411 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35057451 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35057490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35057530 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35057570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35057611 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35057636 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35057653 original size:120 final size:118
Alignment explanation
Indices: 35057372--35057668 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
35057362 TTGAATGATG
* *
35057372 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
35057432 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
35057490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
35057555 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
35057611 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
35057669 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:35067765 original size:19 final size:18
Alignment explanation
Indices: 35067741--35067787 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
35067731 TATTTTTACG
*
35067741 TTATTTTATTTAATTCTTT
1 TTATTTTATTTAATT-TAT
* *
35067760 TTATTTTGTTTCATTTAT
1 TTATTTTATTTAATTTAT
35067778 TT-TTTTATTT
1 TTATTTTATTT
35067788 TATAATTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 13 0.54
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (18 bp):
TTATTTTATTTAATTTAT
Found at i:35069719 original size:49 final size:49
Alignment explanation
Indices: 35069652--35069897 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
35069642 GTAGCCAAAG
* * * *
35069652 TTATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCAA
1 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCAA
*
35069701 TTATCCGGTCCACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC-AA
** * * * *
35069751 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-CCAA
* * * * * *
35069801 GTTATCGGGTACGCATAGTAGCTTGCACTTGGTACTACACATGCGACCAA
1 -TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCAA
* * *
35069851 TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACC
1 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
35069898 TCAAAATAGA
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 36 0.22
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCAA
Found at i:35069888 original size:100 final size:99
Alignment explanation
Indices: 35069666--35069897 Score: 297
Period size: 100 Copynumber: 2.3 Consensus size: 99
35069656 CTGGTACGCA
* * * *
35069666 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCGGTCCACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCTTGCACTTA
* *
35069731 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCAGATACACG
* * *
35069765 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCTTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCTTGCACT
* * **
35069830 TGGTACTACACATGCGACC-AATTATCCAG-TACACG
64 TAGTACTACACACGCGACCTAACCAT-CAGATACACG
*
35069865 TAGTAGCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
35069898 TCAAAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 30 0.26
100 43 0.37
101 42 0.37
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCTTGCACTTA
GTACTACACACGCGACCTAACCATCAGATACACG
Found at i:35088693 original size:26 final size:27
Alignment explanation
Indices: 35088664--35088717 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35088654 TCACACAAGT
*
35088664 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
35088690 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
35088717 T
1 T
35088718 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:35088766 original size:27 final size:27
Alignment explanation
Indices: 35088718--35088782 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35088708 GGGGCAAAAT
*
35088718 GGTAATTTTACCCCACTAGGGTATCTC
1 GGTAATTCTACCCCACTAGGGTATCTC
* * *
35088745 GGTAATTCTACCCTAC-AGGGGTATTTT
1 GGTAATTCTACCCCACTA-GGGTATCTC
35088772 GGTAATTCTAC
1 GGTAATTCTAC
35088783 TACATATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCCACTAGGGTATCTC
Found at i:35095084 original size:27 final size:28
Alignment explanation
Indices: 35095054--35095115 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
35095044 GTAACGAAGT
*
35095054 CACCAGATACAGATAT-TGTGGCTAGGC
1 CACCAGATACAGATATATGTGGCGAGGC
35095081 CACCAGA-ACAGATATATGTGGCGAGGC
1 CACCAGATACAGATATATGTGGCGAGGC
35095108 CACCAGAT
1 CACCAGAT
35095116 TGCAGCGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCGAGGC
Found at i:35095738 original size:26 final size:27
Alignment explanation
Indices: 35095709--35095770 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
35095699 TCACACAACT
*
35095709 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
35095735 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
35095762 TAGTCATTT
1 TAGTCATTT
35095771 TTGGTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:35095811 original size:27 final size:26
Alignment explanation
Indices: 35095770--35095837 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
35095760 AATAGTCATT
*
35095770 TTTGGTAATTTTACCCCACAAGGGTA
1 TTTGGTAATTCTACCCCACAAGGGTA
*
35095796 TCTTGGTAATTCTACCCTACAAGGGTA
1 T-TTGGTAATTCTACCCCACAAGGGTA
35095823 TTTCGGTAATTCTAC
1 TTT-GGTAATTCTAC
35095838 AACTTATCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (26 bp):
TTTGGTAATTCTACCCCACAAGGGTA
Found at i:35109413 original size:61 final size:61
Alignment explanation
Indices: 35109318--35109439 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
35109308 TTTAGCACTA
35109318 CTTTCCACCTCCAGACGGATGGTCAGTCTGAACGAATCATTCAAATACTTGAGGATATGTT
1 CTTTCCACCTCCAGACGGATGGTCAGTCTGAACGAATCATTCAAATACTTGAGGATATGTT
35109379 CTTTCCACCTCCAGACGGATGGTCAGTCTGAACGAATCATTCAAATACTTGAGGATATGTT
1 CTTTCCACCTCCAGACGGATGGTCAGTCTGAACGAATCATTCAAATACTTGAGGATATGTT
35109440 GAGATGTTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (61 bp):
CTTTCCACCTCCAGACGGATGGTCAGTCTGAACGAATCATTCAAATACTTGAGGATATGTT
Found at i:35118166 original size:18 final size:18
Alignment explanation
Indices: 35118143--35118179 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35118133 ATTTAAAGAT
35118143 AGTTTACATTCGAGATAC
1 AGTTTACATTCGAGATAC
*
35118161 AGTTTACATTCGAGTTAC
1 AGTTTACATTCGAGATAC
35118179 A
1 A
35118180 CCAACTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
AGTTTACATTCGAGATAC
Found at i:35119072 original size:24 final size:24
Alignment explanation
Indices: 35119012--35119060 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35119002 TCCCTTGGGT
35119012 CGATTGCTCTTTTGGTGTAAGTAC
1 CGATTGCTCTTTTGGTGTAAGTAC
35119036 CGATTGCTCTTTTGGTGTAAGTAC
1 CGATTGCTCTTTTGGTGTAAGTAC
35119060 C
1 C
35119061 TTATCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.41
Consensus pattern (24 bp):
CGATTGCTCTTTTGGTGTAAGTAC
Found at i:35119553 original size:16 final size:16
Alignment explanation
Indices: 35119534--35119568 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35119524 TCAAAAGCCG
*
35119534 AAATGCCAAAAAGTCA
1 AAATACCAAAAAGTCA
*
35119550 AAATACCGAAAAGTCA
1 AAATACCAAAAAGTCA
35119566 AAA
1 AAA
35119569 GTTTGGCTAC
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:0.60, C:0.17, G:0.11, T:0.11
Consensus pattern (16 bp):
AAATACCAAAAAGTCA
Found at i:35119567 original size:24 final size:23
Alignment explanation
Indices: 35119523--35119568 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
35119513 CAAGTAGATC
* *
35119523 GTCAAAAGCCGAAATGCCAAAAA
1 GTCAAAAACCGAAAAGCCAAAAA
*
35119546 GTCAAAATACCGAAAAGTCAAAA
1 GTCAAAA-ACCGAAAAGCCAAAA
35119569 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.54, C:0.20, G:0.15, T:0.11
Consensus pattern (23 bp):
GTCAAAAACCGAAAAGCCAAAAA
Found at i:35128597 original size:30 final size:30
Alignment explanation
Indices: 35128552--35128611 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35128542 ATTTAATACG
*
35128552 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
35128582 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
35128612 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:35129687 original size:29 final size:29
Alignment explanation
Indices: 35129607--35129741 Score: 150
Period size: 29 Copynumber: 4.8 Consensus size: 29
35129597 GTGAGCATGA
* **
35129607 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
*
35129635 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* *
35129663 ATTTGAATGTGAATTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
* * **
35129692 ATATGAACGTGAATTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCC
*
35129721 ATATAAATGAG-ATTGGGCCTA
1 ATATAAATGTGAATTGGGCCTA
35129742 GTGGCTCATA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
28 34 0.38
29 55 0.62
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTAATGGGCC
Found at i:35129736 original size:57 final size:57
Alignment explanation
Indices: 35129619--35129741 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 57
35129609 ATAATGTGAT
** * * * *
35129619 TTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATTTGAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGAGATTGGGCCGAATGGGCCATATAAATGAGAA
* *
35129676 TTGGGCCTAATGGGCCATATGAACGTGA-ATTGGGCCGGATGGGCCATATAAATGAG-A
1 TTGGGCCTAATGGGCCATAT-AA-ATGAGATTGGGCCGAATGGGCCATATAAATGAGAA
35129733 TTGGGCCTA
1 TTGGGCCTA
35129742 GTGGCTCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 28 0.50
58 25 0.45
59 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.25
Consensus pattern (57 bp):
TTGGGCCTAATGGGCCATATAAATGAGATTGGGCCGAATGGGCCATATAAATGAGAA
Found at i:35140872 original size:46 final size:46
Alignment explanation
Indices: 35140822--35140915 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
35140812 TTATCTATCA
35140822 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
1 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
* *
35140868 ATAACCTTTCATTTTCTGCCATAAATTTCAAAATTTCAGCATACTC
1 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
35140914 AT
1 AT
35140916 CCATGGAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (46 bp):
ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
Found at i:35145942 original size:26 final size:26
Alignment explanation
Indices: 35145920--35145970 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
35145910 GTGGAGGGAG
35145920 ACCATCTGTGGCGGAGTATGAGGCAA
1 ACCATCTGTGGCGGAGTATGAGGCAA
35145946 ACCATCTGTGGCGGAGTATGAGGCA
1 ACCATCTGTGGCGGAGTATGAGGCA
35145971 GAGTTCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (26 bp):
ACCATCTGTGGCGGAGTATGAGGCAA
Found at i:35149679 original size:999 final size:999
Alignment explanation
Indices: 35147743--35149745 Score: 3934
Period size: 999 Copynumber: 2.0 Consensus size: 999
35147733 CATTTTCATT
35147743 TGCCCGAATACTTGTTTTTTTACCCCATATTCTAGTAGTCATTACTATACTGTTCTTCCTCTCTC
1 TGCCCGAATACTTGTTTTTTTACCCCATATTCTAGTAGTCATTACTATACTGTTCTTCCTCTCTC
* *
35147808 TCTTCTTCTCTTCTTGATTCTTTCTTTTCTCTTTAGTGTTGTTTTTGTGGGGTAGCTGAATATAG
66 TCTTCTTCTCTTCTTGATTCTTTCTTTTCTCTTCAGTGTTGTTTTTGCGGGGTAGCTGAATATAG
*
35147873 AATTGATCCTCCCTTGGGGTTGTGGTTCTAGTTTGCAGAAGTTCGATAACATCCAGTAAGTTACT
131 AATTGATCCTCCCTTGGGGTTGTGGTTCTAGTTTACAGAAGTTCGATAACATCCAGTAAGTTACT
35147938 CACCACCCTCCCTATTCTATTTAAATGGTTTTCATGACACCTTCCTTTCTATTGACTAAACCGAA
196 CACCACCCTCCCTATTCTATTTAAATGGTTTTCATGACACCTTCCTTTCTATTGACTAAACCGAA
35148003 TAGTTATTATCTTTTTATCGCCAACTCTTTCTCTTAAATGGGTGGTGTGGATTCTAGCCTCACGA
261 TAGTTATTATCTTTTTATCGCCAACTCTTTCTCTTAAATGGGTGGTGTGGATTCTAGCCTCACGA
35148068 GAAGTGTAAGGACTTTCGAGGGATACAATTGTGGTGGAGATCTACTTATCTTCTGATCAATTATC
326 GAAGTGTAAGGACTTTCGAGGGATACAATTGTGGTGGAGATCTACTTATCTTCTGATCAATTATC
35148133 TGTGGTAAACGAACTTGTAGTTCTAGTGTTGGCCAATTATGAACTCTCTCTTGGGCATGTATCTT
391 TGTGGTAAACGAACTTGTAGTTCTAGTGTTGGCCAATTATGAACTCTCTCTTGGGCATGTATCTT
35148198 TTCTTTAGATTAGCGTAGGATTAACTATATGTCTTGACTGATTATAGGTTCGGAGCACGTGGATT
456 TTCTTTAGATTAGCGTAGGATTAACTATATGTCTTGACTGATTATAGGTTCGGAGCACGTGGATT
*
35148263 TGAGTGTGGTTTCGCAAAGAGGTGTGTACCCATACTAATAGATCGTAGAACGGCAAAAAGCCGAA
521 TGAGTGTGGTTTCACAAAGAGGTGTGTACCCATACTAATAGATCGTAGAACGGCAAAAAGCCGAA
35148328 GTGTCGAAATGCCAAAAAGCTGAAAGTACAGCGACAGTTGCCACACGAATGTGCGAACGCACGTG
586 GTGTCGAAATGCCAAAAAGCTGAAAGTACAGCGACAGTTGCCACACGAATGTGCGAACGCACGTG
35148393 TGGAAAATCTGATACAATAGAAGAGGCTGCCTTGAGCGATCTCATGGGATTAGGTTGATTTTTGG
651 TGGAAAATCTGATACAATAGAAGAGGCTGCCTTGAGCGATCTCATGGGATTAGGTTGATTTTTGG
35148458 GCCGAAATGGACCGTGAGGGCCCAATGGGCTCGTGGGCCTCACTTGGGTTTTTGTTGTGCAAATA
716 GCCGAAATGGACCGTGAGGGCCCAATGGGCTCGTGGGCCTCACTTGGGTTTTTGTTGTGCAAATA
35148523 TAGAGATATTGGACCAGGCTGTGTTGTTCACATGGCTAAGGTTAATTTTGGGCTTAGCAGGCTAT
781 TAGAGATATTGGACCAGGCTGTGTTGTTCACATGGCTAAGGTTAATTTTGGGCTTAGCAGGCTAT
35148588 ATGAGCATGTGGGCCTCACTTGGGCTTCGTAATAGGCTTTAGGCCCGATTGTATGTTTTGATTGG
846 ATGAGCATGTGGGCCTCACTTGGGCTTCGTAATAGGCTTTAGGCCCGATTGTATGTTTTGATTGG
35148653 TAAAGGTTGCACGAGTCGCACAAGACGACTATGGACCTACTAATAAGTCGATAAGTGTACCCAGA
911 TAAAGGTTGCACGAGTCGCACAAGACGACTATGGACCTACTAATAAGTCGATAAGTGTACCCAGA
35148718 CCCCAATTTGCGAAATGATTATTA
976 CCCCAATTTGCGAAATGATTATTA
**
35148742 TGCCCGAATACTTGTTTTTTTTTCCCATATTCTAGTAGTCATTACTATACTGTTCTTCCTCTCTC
1 TGCCCGAATACTTGTTTTTTTACCCCATATTCTAGTAGTCATTACTATACTGTTCTTCCTCTCTC
*
35148807 TCTTCTTCTCTTCTTGATTCTTTCTTTTCTCTTCAGTTTTGTTTTTGCGGGGTAGCTGAATATAG
66 TCTTCTTCTCTTCTTGATTCTTTCTTTTCTCTTCAGTGTTGTTTTTGCGGGGTAGCTGAATATAG
35148872 AATTGATCCTCCCTTGGGGTTGTGGTTCTAGTTTACAGAAGTTCGATAACATCCAGTAAGTTACT
131 AATTGATCCTCCCTTGGGGTTGTGGTTCTAGTTTACAGAAGTTCGATAACATCCAGTAAGTTACT
35148937 CACCACCCTCCCTATTCTATTTAAATGGTTTTCATGACACCTTCCTTTCTATTGACTAAACCGAA
196 CACCACCCTCCCTATTCTATTTAAATGGTTTTCATGACACCTTCCTTTCTATTGACTAAACCGAA
35149002 TAGTTATTATCTTTTTATCGCCAACTCTTTCTCTTAAATGGGTGGTGTGGATTCTAGCCTCACGA
261 TAGTTATTATCTTTTTATCGCCAACTCTTTCTCTTAAATGGGTGGTGTGGATTCTAGCCTCACGA
35149067 GAAGTGTAAGGACTTTCGAGGGATACAATTGTGGTGGAGATCTACTTATCTTCTGATCAATTATC
326 GAAGTGTAAGGACTTTCGAGGGATACAATTGTGGTGGAGATCTACTTATCTTCTGATCAATTATC
35149132 TGTGGTAAACGAACTTGTAGTTCTAGTGTTGGCCAATTATGAACTCTCTCTTGGGCATGTATCTT
391 TGTGGTAAACGAACTTGTAGTTCTAGTGTTGGCCAATTATGAACTCTCTCTTGGGCATGTATCTT
*
35149197 TTCTTTAGATTAGCGTAGGATTAACTATATGTCTTGACTGATTATAGGTTTGGAGCACGTGGATT
456 TTCTTTAGATTAGCGTAGGATTAACTATATGTCTTGACTGATTATAGGTTCGGAGCACGTGGATT
35149262 TGAGTGTGGTTTCACAAAGAGGTGTGTACCCATACTAATAGATCGTAGAACGGCAAAAAGCCGAA
521 TGAGTGTGGTTTCACAAAGAGGTGTGTACCCATACTAATAGATCGTAGAACGGCAAAAAGCCGAA
35149327 GTGTCGAAATGCCAAAAAGCTGAAAGTACAGCGACAGTTGCCACACGAATGTGCGAACGCACGTG
586 GTGTCGAAATGCCAAAAAGCTGAAAGTACAGCGACAGTTGCCACACGAATGTGCGAACGCACGTG
35149392 TGGAAAATCTGATACAATAGAAGAGGCTGCCTTGAGCGATCTCATGGGATTAGGTTGATTTTTGG
651 TGGAAAATCTGATACAATAGAAGAGGCTGCCTTGAGCGATCTCATGGGATTAGGTTGATTTTTGG
35149457 GCCGAAATGGACCGTGAGGGCCCAATGGGCTCGTGGGCCTCACTTGGGTTTTTGTTGTGCAAATA
716 GCCGAAATGGACCGTGAGGGCCCAATGGGCTCGTGGGCCTCACTTGGGTTTTTGTTGTGCAAATA
35149522 TAGAGATATTGGACCAGGCTGTGTTGTTCACATGGCTAAGGTTAATTTTGGGCTTAGCAGGCTAT
781 TAGAGATATTGGACCAGGCTGTGTTGTTCACATGGCTAAGGTTAATTTTGGGCTTAGCAGGCTAT
35149587 ATGAGCATGTGGGCCTCACTTGGGCTTCGTAATAGGCTTTAGGCCCGATTGTATGTTTTGATTGG
846 ATGAGCATGTGGGCCTCACTTGGGCTTCGTAATAGGCTTTAGGCCCGATTGTATGTTTTGATTGG
35149652 TAAAGGTTGCACGAGTCGCACAAGACGACTATGGACCTACTAATAAGTCGATAAGTGTACCCAGA
911 TAAAGGTTGCACGAGTCGCACAAGACGACTATGGACCTACTAATAAGTCGATAAGTGTACCCAGA
35149717 CCCCAATTTGCGAAATGATTATTA
976 CCCCAATTTGCGAAATGATTATTA
35149741 TGCCC
1 TGCCC
35149746 TTGAAGGACT
Statistics
Matches: 996, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
999 996 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (999 bp):
TGCCCGAATACTTGTTTTTTTACCCCATATTCTAGTAGTCATTACTATACTGTTCTTCCTCTCTC
TCTTCTTCTCTTCTTGATTCTTTCTTTTCTCTTCAGTGTTGTTTTTGCGGGGTAGCTGAATATAG
AATTGATCCTCCCTTGGGGTTGTGGTTCTAGTTTACAGAAGTTCGATAACATCCAGTAAGTTACT
CACCACCCTCCCTATTCTATTTAAATGGTTTTCATGACACCTTCCTTTCTATTGACTAAACCGAA
TAGTTATTATCTTTTTATCGCCAACTCTTTCTCTTAAATGGGTGGTGTGGATTCTAGCCTCACGA
GAAGTGTAAGGACTTTCGAGGGATACAATTGTGGTGGAGATCTACTTATCTTCTGATCAATTATC
TGTGGTAAACGAACTTGTAGTTCTAGTGTTGGCCAATTATGAACTCTCTCTTGGGCATGTATCTT
TTCTTTAGATTAGCGTAGGATTAACTATATGTCTTGACTGATTATAGGTTCGGAGCACGTGGATT
TGAGTGTGGTTTCACAAAGAGGTGTGTACCCATACTAATAGATCGTAGAACGGCAAAAAGCCGAA
GTGTCGAAATGCCAAAAAGCTGAAAGTACAGCGACAGTTGCCACACGAATGTGCGAACGCACGTG
TGGAAAATCTGATACAATAGAAGAGGCTGCCTTGAGCGATCTCATGGGATTAGGTTGATTTTTGG
GCCGAAATGGACCGTGAGGGCCCAATGGGCTCGTGGGCCTCACTTGGGTTTTTGTTGTGCAAATA
TAGAGATATTGGACCAGGCTGTGTTGTTCACATGGCTAAGGTTAATTTTGGGCTTAGCAGGCTAT
ATGAGCATGTGGGCCTCACTTGGGCTTCGTAATAGGCTTTAGGCCCGATTGTATGTTTTGATTGG
TAAAGGTTGCACGAGTCGCACAAGACGACTATGGACCTACTAATAAGTCGATAAGTGTACCCAGA
CCCCAATTTGCGAAATGATTATTA
Found at i:35153101 original size:79 final size:79
Alignment explanation
Indices: 35153006--35153163 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
35152996 ACACGGTCAA
35153006 AGGACACGGGTGTGCCTTGTGGCCATGTAAGAAAAGCAGTATTCTCCTAAAAACCACACGGTATT
1 AGGACACGGGTGTGCCTTGTGGCCATGTAAGAAAAGCAGTATTCTCCTAAAAACCACACGGTATT
35153071 GACACACGGGCATG
66 GACACACGGGCATG
35153085 AGGACACGGGTGTGCCTTGTGGCCATGTAAGAAAAGCAGTATTCTCCTAAAAACCACACGGTATT
1 AGGACACGGGTGTGCCTTGTGGCCATGTAAGAAAAGCAGTATTCTCCTAAAAACCACACGGTATT
35153150 GACACACGGGCATG
66 GACACACGGGCATG
35153164 TCATATGGCC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (79 bp):
AGGACACGGGTGTGCCTTGTGGCCATGTAAGAAAAGCAGTATTCTCCTAAAAACCACACGGTATT
GACACACGGGCATG
Found at i:35154104 original size:21 final size:21
Alignment explanation
Indices: 35154067--35154106 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35154057 AATTGGTACG
*
35154067 AAAAGATTAAGAGATGCATAT
1 AAAAGATTAAGAAATGCATAT
35154088 AAAA-ATTAAGATAATGCAT
1 AAAAGATTAAGA-AATGCAT
35154107 GGAGGCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAAGATTAAGAAATGCATAT
Found at i:35162863 original size:40 final size:40
Alignment explanation
Indices: 35162811--35163570 Score: 1088
Period size: 40 Copynumber: 19.0 Consensus size: 40
35162801 CTAAGATCCG
* * *
35162811 AAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35162851 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35162891 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35162931 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35162971 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163011 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163051 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163091 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163131 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163171 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163211 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163251 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163291 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163331 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163371 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163411 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163451 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
*
35163491 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCTA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
* * * *
35163531 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
35163571 TTGATAAGTG
Statistics
Matches: 631, Mismatches: 89, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 631 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCA
Found at i:35162944 original size:80 final size:80
Alignment explanation
Indices: 35162811--35163570 Score: 1457
Period size: 80 Copynumber: 9.5 Consensus size: 80
35162801 CTAAGATCCG
* * * * * * *
35162811 AAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35162876 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35162891 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35162956 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35162971 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163036 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163051 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163116 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163131 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163196 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163211 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163276 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163291 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163356 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163371 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163436 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163451 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
35163516 CCGGGTTAAGTCCTA
66 CCGGGTTAAGTCCTA
35163531 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
1 AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCA
35163571 TTGATAAGTG
Statistics
Matches: 673, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 673 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (80 bp):
AAGGCATTTGTACGATTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
CCGGGTTAAGTCCTA
Found at i:35163733 original size:40 final size:39
Alignment explanation
Indices: 35163678--35163763 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
35163668 GGACTAAGAT
* * *
35163678 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
*
35163718 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
35163757 CCGAAGG
1 CCGAAGG
35163764 TACTTGGGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 14 0.34
40 25 0.61
41 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
Found at i:35169183 original size:55 final size:56
Alignment explanation
Indices: 35169118--35169232 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
35169108 AGCATGGCTG
*
35169118 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGAT-ATTCTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATT-TGTGGCA-TAGCCA
* * *
35169174 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
35169229 CCAG
1 CCAG
35169233 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 26 0.50
56 25 0.48
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:35169195 original size:27 final size:27
Alignment explanation
Indices: 35169143--35169232 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
35169133 GTGACAGAGT
*
35169143 CACCAGATACAGATATTCTGTGGCAGTGC
1 CACCAGA-ACAGATA-TATGTGGCAGTGC
*
35169172 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATATGTGGCAGTGC
*
35169199 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATATGTGGCAGT-GC
35169227 CACCAG
1 CACCAG
35169233 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGTGC
Found at i:35169228 original size:28 final size:26
Alignment explanation
Indices: 35169143--35169232 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 26
35169133 GTGACAGAGT
35169143 CACCAGATACAGATATTCTGTGGCAGTGC
1 CACCAGA-ACAGATATT-TGTGGCA-TGC
* *
35169172 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
35169199 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
35169227 CACCAG
1 CACCAG
35169233 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:35169385 original size:28 final size:28
Alignment explanation
Indices: 35169338--35169405 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
35169328 AAATTAACCC
* *
35169338 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
35169366 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
35169394 TAGGGGTATAAT
1 TAGGGGTATAAT
35169406 AGTACATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:35170479 original size:12 final size:13
Alignment explanation
Indices: 35170460--35170492 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35170450 GGGTTCAGCT
35170460 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
35170473 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
35170485 ATGGAGAA
1 ATGGAGAA
35170493 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:35175828 original size:79 final size:81
Alignment explanation
Indices: 35175726--35175909 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 81
35175716 GCTCCTCGTT
* *
35175726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
35175788 CGGAT-TTAGTAACTT-GCA
63 CGGATATT-GTAACTTAGCA
**
35175806 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
35175870 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
35175886 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35175910 CATCATTCAA
Statistics
Matches: 93, Mismatches: 5, Indels: 13
0.84 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 58 0.62
80 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:35175846 original size:39 final size:41
Alignment explanation
Indices: 35175726--35175909 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
35175716 GCTCCTCGTT
* *
35175726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* * *
35175766 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
35175806 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
35175845 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
35175886 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35175910 CATCATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.02
39 47 0.37
40 65 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:35180167 original size:55 final size:56
Alignment explanation
Indices: 35180102--35180216 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
35180092 AGCATGGCTG
*
35180102 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGAT-ATTCTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATT-TGTGGCA-TAGCCA
* * *
35180158 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
35180213 CCAG
1 CCAG
35180217 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 26 0.50
56 25 0.48
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:35180179 original size:27 final size:27
Alignment explanation
Indices: 35180127--35180216 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
35180117 GTGACAGAGT
*
35180127 CACCAGATACAGATATTCTGTGGCAGTGC
1 CACCAGA-ACAGATA-TATGTGGCAGTGC
*
35180156 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATATGTGGCAGTGC
*
35180183 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATATGTGGCAGT-GC
35180211 CACCAG
1 CACCAG
35180217 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGTGC
Found at i:35180212 original size:28 final size:26
Alignment explanation
Indices: 35180127--35180216 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 26
35180117 GTGACAGAGT
35180127 CACCAGATACAGATATTCTGTGGCAGTGC
1 CACCAGA-ACAGATATT-TGTGGCA-TGC
* *
35180156 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
35180183 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
35180211 CACCAG
1 CACCAG
35180217 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:35180369 original size:28 final size:28
Alignment explanation
Indices: 35180322--35180389 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
35180312 AAATTAACCC
* *
35180322 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
35180350 TAGGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
35180378 TAGGGGTATAAT
1 TAGGGGTATAAT
35180390 AGTACATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:35181463 original size:12 final size:13
Alignment explanation
Indices: 35181444--35181476 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35181434 TGGTTCAGCT
35181444 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
35181457 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
35181469 ATGGAGAA
1 ATGGAGAA
35181477 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:35183474 original size:40 final size:40
Alignment explanation
Indices: 35183384--35183568 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
35183374 TCGAATGATG
* *
35183384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AT
** *
35183425 T-CGAACTAAGAT-CCGAAGGCATTTGTCCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35183464 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
35183503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35183542 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35183569 AATGAGTTGC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:35183590 original size:79 final size:79
Alignment explanation
Indices: 35183437--35183591 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 79
35183427 GAACTAAGAT
* **
35183437 CCGAAGGCATTTGTCCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
35183502 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * * *
35183516 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAGTTGCT
1 CCGAAGGCATTTGTCCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTACT
*
35183580 ATATCC-GGTTAA
64 AAATCCGGGTTAA
35183592 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:35191734 original size:22 final size:23
Alignment explanation
Indices: 35191687--35191774 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
35191677 AGCTCATTGG
35191687 AGCTTACTGTTTCAGCTCG-TATA
1 AGCTTACTGTTTCAGCTCGATA-A
*
35191710 AGCTTACTGTTT-AGCTTGATAA
1 AGCTTACTGTTTCAGCTCGATAA
* * *
35191732 AGCTTACCGTTTCAGCTCAATAG
1 AGCTTACTGTTTCAGCTCGATAA
35191755 AGCTTACTGTTCATCAGCTC
1 AGCTTACTGTT--TCAGCTC
35191775 TGGAGGAGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.31
23 31 0.56
25 7 0.13
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCGATAA
Found at i:35196243 original size:46 final size:44
Alignment explanation
Indices: 35196153--35196318 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 44
35196143 GTGTCGATTC
* * * *
35196153 CATGTCCTAGACATGGTCTTACACTAACTATCATCCCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTA-CGTCTCG-AGCCGATG
35196200 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TACGTCTCGA-GCCGATG
* * * *
35196246 AATGACCCAGACATGTCTTACACTAGCCCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTACGTCTCGA-GCCGATG
35196292 CCATGTCCCAGACATGCTCTTACACTG
1 -CATGTCCCAGACATG-TCTTACACTG
35196319 GCTCTCATAA
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
45 1 0.01
46 60 0.59
47 31 0.30
48 10 0.10
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACTACGTCTCGAGCCGATG
Found at i:35196353 original size:93 final size:92
Alignment explanation
Indices: 35196193--35196365 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 92
35196183 TCATCCCGTA
* * *
35196193 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCCGATGAATGACCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATATCGAGGCCGATGAATGACCCAAAC
35196258 ATGTCTTACACTAGCCCTCGTCTCAAT
66 ATGTCTTACACTAGCCCTCGTCTCAAT
* * *
35196285 GCCGATGCCATGTCCCAGACATGCTCTTACACTGGCTCT-CATAAT-GTGGCCGATGGATG-CCC
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGACT-TACAT-ATCGAGGCCGATGAATGACCC
35196347 AAACATGTCTTACACTAGC
62 AAACATGTCTTACACTAGC
35196366 TCACACAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
92 7 0.10
93 36 0.51
94 26 0.37
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATATCGAGGCCGATGAATGACCCAAAC
ATGTCTTACACTAGCCCTCGTCTCAAT
Found at i:35196746 original size:30 final size:31
Alignment explanation
Indices: 35196703--35196762 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35196693 GAAAATTCAC
* *
35196703 ATTTTCGGTAAAATAACCATTTTGCCCCTAG
1 ATTTTCGGCAAAATAACCATTTTACCCCTAG
*
35196734 ATTTT-GGCAAAATGACCATTTTACCCCTA
1 ATTTTCGGCAAAATAACCATTTTACCCCTA
35196763 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (31 bp):
ATTTTCGGCAAAATAACCATTTTACCCCTAG
Found at i:35205428 original size:47 final size:47
Alignment explanation
Indices: 35205322--35205451 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 47
35205312 TGGGTAAGGT
* *
35205322 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATATCGCAA
**
35205369 GTTGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCAT-GCAGTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCAT-ATCGCA--A
* *
35205417 GCCGTTG-CATGTCCCAGACAT-GTCTTACACTGACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACT
35205452 TATGTCTCGA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
46 18 0.25
47 49 0.68
48 5 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATATCGCAA
Found at i:35205472 original size:46 final size:47
Alignment explanation
Indices: 35205322--35205489 Score: 150
Period size: 47 Copynumber: 3.6 Consensus size: 47
35205312 TGGGTAAGGT
* * * * *
35205322 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTATGTCTCGA
** * *
35205369 GTTGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATG-C-AGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-T-ATGTCTCG-A
*
35205417 GCCGTTG-CATGTCCCAGACAT-GTCTTACACTGACTTATGTCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTATGTCTCGA
* *
35205462 GGCCGATG-CATGACCCAAACAT-GTCTTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTA
35205490 AAGTAGCCCT
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 39 0.39
47 47 0.47
48 6 0.06
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTATGTCTCGA
Found at i:35215659 original size:49 final size:49
Alignment explanation
Indices: 35215499--35215945 Score: 763
Period size: 49 Copynumber: 9.0 Consensus size: 49
35215489 GAAATGATAG
35215499 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT--ATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
* *
35215546 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TACATATATGTGA
35215597 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
*
35215646 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
* *
35215695 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TACATATA--TGTGA
*
35215748 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
35215797 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
35215846 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
35215895 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATAT-GTGA
35215945 T
1 T
35215946 GAATGTGGAA
Statistics
Matches: 384, Mismatches: 7, Indels: 15
0.95 0.02 0.04
Matches are distributed among these distances:
47 35 0.09
49 243 0.63
50 5 0.01
51 61 0.16
53 40 0.10
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
Found at i:35215841 original size:200 final size:198
Alignment explanation
Indices: 35215499--35215939 Score: 782
Period size: 200 Copynumber: 2.2 Consensus size: 198
35215489 GAAATGATAG
*
35215499 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG---TATATATGTGATAGGGCCTAATGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCC
35215561 GATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATGTGATGAATGTGAAAGTG-ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
35215626 GAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
130 GAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATAT
35215691 GTGA
195 GTGA
*
35215695 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGTGATAAGGCCTAATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-ATATATA--TGTGATAAGGCCTAATG
35215760 GCCGATGTGATGAATGTGAAAGTG-TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
63 GCCGATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
35215824 GTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATAT
128 GTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATAT
35215889 ATGTGA
193 ATGTGA
35215895 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-ATATAT
35215940 GGTGATGAAT
Statistics
Matches: 234, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
196 35 0.15
200 159 0.68
202 40 0.17
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (198 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATG
TGA
Found at i:35215946 original size:28 final size:28
Alignment explanation
Indices: 35215913--35215968 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
35215903 AATGGCCGAT
35215913 GTGATGAATGTGAAAGTGTACATATATG
1 GTGATGAATGTGAAAGTGTACATATATG
* *
35215941 GTGATGAATGTGGAAGTGTATATATATG
1 GTGATGAATGTGAAAGTGTACATATATG
35215969 TGACAGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
GTGATGAATGTGAAAGTGTACATATATG
Found at i:35215952 original size:77 final size:77
Alignment explanation
Indices: 35215864--35216009 Score: 211
Period size: 77 Copynumber: 1.9 Consensus size: 77
35215854 AATGGCCGAT
* * * *
35215864 GTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTGTACATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
35215929 TGTACATATATG
66 TGTACATATATG
* * * * *
35215941 GTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 GTGATGAATGTGAAAGTGTACATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
35216006 TGTA
66 TGTA
35216010 TAAATGTGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 60 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (77 bp):
GTGATGAATGTGAAAGTGTACATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
TGTACATATATG
Found at i:35216119 original size:37 final size:37
Alignment explanation
Indices: 35216063--35216141 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35216053 CCGAGCTCTA
* * *
35216063 AAGACCCGATGACTACGTGTGAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
*
35216100 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
35216137 AAGAC
1 AAGAC
35216142 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:35220379 original size:25 final size:25
Alignment explanation
Indices: 35220350--35220397 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
35220340 TATTAGCTCA
35220350 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
35220375 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
35220398 AATCTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:35222064 original size:9 final size:9
Alignment explanation
Indices: 35222047--35222121 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
35222037 AACTTTGGAT
*
35222047 CATAGCTTA
1 CATAACTTA
35222056 CATAACTTA
1 CATAACTTA
35222065 CATAACTTA
1 CATAACTTA
*
35222074 TATAA--TA
1 CATAACTTA
*
35222081 CATAA-ATA
1 CATAACTTA
* * *
35222089 TATATCATA
1 CATAACTTA
35222098 TCATAACTTA
1 -CATAACTTA
35222108 CATAACTTA
1 CATAACTTA
35222117 CATAA
1 CATAA
35222122 ATATATATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
7 6 0.11
8 5 0.09
9 38 0.69
10 6 0.11
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:35222110 original size:43 final size:36
Alignment explanation
Indices: 35222065--35222148 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
35222055 ACATAACTTA
*
35222065 CATAACTTATATAA--TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
35222099 CATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
*
35222135 CATCACTTACATAA
1 CATAACTTACATAA
35222149 AACTTTGGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 13 0.28
36 33 0.72
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (36 bp):
CATAACTTACATAACTTACATAAATATATATCATAT
Found at i:35225489 original size:53 final size:53
Alignment explanation
Indices: 35225423--35225535 Score: 138
Period size: 53 Copynumber: 2.1 Consensus size: 53
35225413 ACACATAATA
* ** * *
35225423 CCATACCAATGCCATATCTTAGATATGGTCTTACATG-GGATCTCAAATCGATG
1 CCATATCAATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCAAATCGATG
* * *
35225476 CCATATCAATGCCATGTCCCAGATATGGTCTTATACGAAGTCTCATATCGATG
1 CCATATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAAATCGATG
35225529 CCATATC
1 CCATATC
35225536 CCAGATATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 50 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (53 bp):
CCATATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAAATCGATG
Found at i:35225551 original size:30 final size:30
Alignment explanation
Indices: 35225515--35225578 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
35225505 CTTATACGAA
35225515 GTCTCATATCGATGCCATATCCCAGATATG
1 GTCTCATATCGATGCCATATCCCAGATATG
35225545 GTCTCATATCGATGCCATATCCCAGATATG
1 GTCTCATATCGATGCCATATCCCAGATATG
35225575 GTCT
1 GTCT
35225579 TACACGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
GTCTCATATCGATGCCATATCCCAGATATG
Found at i:35233332 original size:21 final size:20
Alignment explanation
Indices: 35233308--35233347 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
35233298 CATGTATTTT
35233308 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
35233329 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
35233348 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:35233355 original size:20 final size:21
Alignment explanation
Indices: 35233313--35233355 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35233303 ATTTTAATGA
*
35233313 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
35233334 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
35233354 TT
1 TT
35233356 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:35239135 original size:43 final size:43
Alignment explanation
Indices: 35239074--35239337 Score: 196
Period size: 43 Copynumber: 6.2 Consensus size: 43
35239064 GTCGCTAGGT
* ** * * * *
35239074 CATGTTCTCTAGTGGCGTTTGTGGGGAAAGCACCGCTAAAGAC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * *
35239117 CATGTTCTTTAGCAGCGTTTGTGGGAAAAATGCTGCT--AGGT
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * ** *
35239158 CATGCTCTTTAGCAGCATTTGTGAGG-AAAACGCTACTAAGGGC
1 CATGTTCTTTAGCAGCGTTTGTG-GGAAAAACGCCGCTAAAGGC
** **
35239201 CATGTTCTTTAGTGGCGTTTGT-GGAAAAAGCGCCGCTAAAAAC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAA-CGCCGCTAAAGGC
* * * ** ** *
35239244 CATGCTCTTTAGCAGCATTTGTGGGGAAAGTGCTACCAAAGGC
1 CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
* * *
35239287 CATGTTCTTTAGC-GACGGTTGTGGGAAAAACACCGCTAAAGGT
1 CATGTTCTTTAGCAG-CGTTTGTGGGAAAAACGCCGCTAAAGGC
35239330 CATGTTCT
1 CATGTTCT
35239338 ATAGTGGCAT
Statistics
Matches: 166, Mismatches: 48, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
41 34 0.20
42 7 0.04
43 120 0.72
44 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
CATGTTCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGC
Found at i:35239349 original size:86 final size:86
Alignment explanation
Indices: 35239091--35239333 Score: 278
Period size: 86 Copynumber: 2.8 Consensus size: 86
35239081 TCTAGTGGCG
* ** * * *
35239091 TTTGTGGGGAAAGCACCGCTAAAGACCATGTTCTTTAGC-AGCGTTTGTGGGAAAAATGCTGCT-
1 TTTGTGGGGAAAGCGCTACTAAAGGCCATGTTCTTTAGCGA-CGTTTGTGGGAAAAACGCCGCTA
35239154 -AGGTCATGCTCTTTAGCAGCA
65 AAGGTCATGCTCTTTAGCAGCA
* * * * *
35239175 TTTGTGAGGAAAACGCTACTAAGGGCCATGTTCTTTAGTGGCGTTTGT-GGAAAAAGCGCCGCTA
1 TTTGTGGGGAAAGCGCTACTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAA-CGCCGCTA
***
35239239 AAAACCATGCTCTTTAGCAGCA
65 AAGGTCATGCTCTTTAGCAGCA
* * * *
35239261 TTTGTGGGGAAAGTGCTACCAAAGGCCATGTTCTTTAGCGACGGTTGTGGGAAAAACACCGCTAA
1 TTTGTGGGGAAAGCGCTACTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAACGCCGCTAA
35239326 AGGTCATG
66 AGGTCATG
35239334 TTCTATAGTG
Statistics
Matches: 128, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
83 7 0.05
84 43 0.34
86 71 0.55
87 7 0.05
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
TTTGTGGGGAAAGCGCTACTAAAGGCCATGTTCTTTAGCGACGTTTGTGGGAAAAACGCCGCTAA
AGGTCATGCTCTTTAGCAGCA
Found at i:35244539 original size:49 final size:49
Alignment explanation
Indices: 35244406--35244557 Score: 187
Period size: 49 Copynumber: 3.0 Consensus size: 49
35244396 ACTCATCCAT
* * * *
35244406 CTGAAACACCATTTGTGGACAAGCCACCACTGATTTGCAGGTAAATTGCCA
1 CTGAAACA-C-TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
* * *
35244457 CTGATGACGCTTTATGGACAAGCCACCACTGATATGCAGATATACTGCCA
1 CTGA-AACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
* * *
35244507 CTGAAACACTTTGTGGATAAGCCACCATTGATATGCAGATATACTACCA
1 CTGAAACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
35244556 CT
1 CT
35244558 TACTTTCTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 41 0.47
50 39 0.45
51 5 0.06
52 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
CTGAAACACTTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCA
Found at i:35252392 original size:15 final size:16
Alignment explanation
Indices: 35252366--35252395 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35252356 TTTGCCCGGG
35252366 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
35252382 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
35252396 ACCTCCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:35252498 original size:13 final size:13
Alignment explanation
Indices: 35252480--35252713 Score: 150
Period size: 13 Copynumber: 17.8 Consensus size: 13
35252470 TCTTCACTCC
35252480 AACCACCCCACTA
1 AACCACCCCACTA
*
35252493 AACCACTCCACTA
1 AACCACCCCACTA
*
35252506 AACCA-CTC-C--
1 AACCACCCCACTA
35252515 AACCACCCCACTA
1 AACCACCCCACTA
*
35252528 AACCACCCCAACCA
1 AACCACCCC-ACTA
35252542 CCCCAACCACCCCACTA
1 ----AACCACCCCACTA
*
35252559 AACCACTCCACTA
1 AACCACCCCACTA
*
35252572 AACCA-CTC-C--
1 AACCACCCCACTA
35252581 AACCACCCCACTA
1 AACCACCCCACTA
*
35252594 AACCACCCCAACCA
1 AACCACCCC-ACTA
35252608 CCCCAACCACCCCACTA
1 ----AACCACCCCACTA
*
35252625 AACCACTCCACTA
1 AACCACCCCACTA
*
35252638 AACCA-CTC-C--
1 AACCACCCCACTA
35252647 AACCACCCCACTA
1 AACCACCCCACTA
*
35252660 AACCACCCCAACCA
1 AACCACCCC-ACTA
35252674 CCCCAACCACCCCACTA
1 ----AACCACCCCACTA
*
35252691 AACCACTCCACTA
1 AACCACCCCACTA
*
35252704 AACCATCCCA
1 AACCACCCCA
35252714 ACCACTCCAC
Statistics
Matches: 173, Mismatches: 21, Indels: 54
0.70 0.08 0.22
Matches are distributed among these distances:
9 15 0.09
10 6 0.03
11 6 0.03
12 3 0.02
13 98 0.57
14 9 0.05
17 9 0.05
18 27 0.16
ACGTcount: A:0.37, C:0.55, G:0.00, T:0.08
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:35252584 original size:66 final size:66
Alignment explanation
Indices: 35252478--35252724 Score: 469
Period size: 66 Copynumber: 3.7 Consensus size: 66
35252468 TATCTTCACT
35252478 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
1 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
35252543 C
66 C
35252544 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
1 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
35252609 C
66 C
35252610 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
1 CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
35252675 C
66 C
*
35252676 CCAACCACCCCACTAAACCACTCCACTAAACCA-TCCCAACCACTCCACT
1 CCAACCACCCCACTAAACCACTCCACTAAACCACT-CCAACCACCCCACT
35252725 TGCCTACAAA
Statistics
Matches: 179, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
65 1 0.01
66 178 0.99
ACGTcount: A:0.36, C:0.55, G:0.00, T:0.09
Consensus pattern (66 bp):
CCAACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTAAACCACCCCAACCAC
C
Found at i:35252723 original size:22 final size:21
Alignment explanation
Indices: 35252493--35252724 Score: 194
Period size: 22 Copynumber: 10.6 Consensus size: 21
35252483 CACCCCACTA
*
35252493 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCAC-CC
35252515 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCA-CCC
* ** **
35252537 AACCACCCCAACCACCCCACTA
1 AACCACCCC-ACTAAACCACCC
*
35252559 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCAC-CC
35252581 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCA-CCC
* ** **
35252603 AACCACCCCAACCACCCCACTA
1 AACCACCCC-ACTAAACCACCC
*
35252625 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCAC-CC
35252647 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCA-CCC
* ** **
35252669 AACCACCCCAACCACCCCACTA
1 AACCACCCC-ACTAAACCACCC
*
35252691 AACCACTCCACTAAACCATCCC
1 AACCACCCCACTAAACCA-CCC
*
35252713 AACCACTCCACT
1 AACCACCCCACT
35252725 TGCCTACAAA
Statistics
Matches: 165, Mismatches: 36, Indels: 18
0.75 0.16 0.08
Matches are distributed among these distances:
21 20 0.12
22 124 0.75
23 21 0.13
ACGTcount: A:0.36, C:0.55, G:0.00, T:0.09
Consensus pattern (21 bp):
AACCACCCCACTAAACCACCC
Found at i:35253106 original size:3 final size:3
Alignment explanation
Indices: 35253074--35253209 Score: 55
Period size: 3 Copynumber: 45.3 Consensus size: 3
35253064 GGAGAGAGTG
* * * *
35253074 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * ** * * * * * *
35253120 CTA ATA CCA CTA TTA TCA TCA TTA TTA CTA TTA -TA TTA TAA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
35253165 TT- TTCA TTA TTA TTA CTA TTG TGT- TT- TTA CTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
35253209 T
1 T
35253210 ATTTCCCTTT
Statistics
Matches: 100, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
2 7 0.07
3 86 0.86
4 7 0.07
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:35253111 original size:19 final size:18
Alignment explanation
Indices: 35253074--35253115 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
35253064 GGAGAGAGTG
*
35253074 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
35253092 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
35253111 TTATT
1 TTATT
35253116 ATTACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:35253177 original size:33 final size:39
Alignment explanation
Indices: 35253100--35253184 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 39
35253090 TATTATTTTC
*
35253100 TATTATTATTATTATTATTACTAATACCACTATTATCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
*
35253139 CATTATTACTATTA-TATTA-TAATA-CA-T-TT-TCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
35253172 TATTATTACTATT
1 TATTATTACTATT
35253185 GTGTTTTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 16 0.37
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.12
38 5 0.12
39 12 0.28
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (39 bp):
TATTATTACTATTATTATTACTAATACCACTATTATCAT
Found at i:35255996 original size:19 final size:19
Alignment explanation
Indices: 35255974--35256016 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35255964 CTTTCTTTTC
35255974 CATT-CATTCCATACATTTG
1 CATTACATTCCA-ACATTTG
*
35255993 CATTACATTGCAACATTTG
1 CATTACATTCCAACATTTG
35256012 CATTA
1 CATTA
35256017 AACTTTCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (19 bp):
CATTACATTCCAACATTTG
Found at i:35256184 original size:24 final size:24
Alignment explanation
Indices: 35256149--35256199 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
35256139 TAGAAAGGAT
*
35256149 AGAACAAATACAAAG-GGAGATGCA
1 AGAACAAATAC-AAGCGCAGATGCA
*
35256173 AGAACAATTACAAGCGCAGATGCA
1 AGAACAAATACAAGCGCAGATGCA
35256197 AGA
1 AGA
35256200 GCAACTGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.10
Consensus pattern (24 bp):
AGAACAAATACAAGCGCAGATGCA
Found at i:35260505 original size:65 final size:60
Alignment explanation
Indices: 35260395--35260519 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 60
35260385 TCTACAATAA
*
35260395 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACAT-AAGCAT
* *
35260456 CACATTTAGTTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAGCAT
35260520 GGATACATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 29 0.51
62 2 0.04
63 1 0.02
64 7 0.12
65 18 0.32
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (60 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAGCAT
Found at i:35261028 original size:205 final size:205
Alignment explanation
Indices: 35260664--35261152 Score: 789
Period size: 205 Copynumber: 2.4 Consensus size: 205
35260654 ATCAGGCGGA
*
35260664 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
35260729 TTGGCATCTCTGTATTCTCAGAGAACAAATCAAAGTCTAGCATCTACATTTCGACGGAAGGCAGA
66 TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
* *
35260794 CACATAGTAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
35260859 TGCTTACAAG
196 TGCTTACAAG
* * *
35260869 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * ** * * * * * *
35260934 TTGGCATCTCTGTATTGTTAAAGAACAAATTGAAGTCTGGTATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
35260999 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
35261064 TGCTTACAAG
196 TGCTTACAAG
* * *
35261074 GAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
35261139 TTGGCATCTCTGTA
66 TTGGCATCTCTGTA
35261153 GCGGCGGAGA
Statistics
Matches: 260, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 260 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTCTCAAAGAACAAATCAAAGTCTAGCATCTACACTTCGACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:35261342 original size:53 final size:53
Alignment explanation
Indices: 35261240--35261344 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
35261230 GCATTCCTGT
* *
35261240 GCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGG
1 GCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATACTTATAGG
* * * *
35261293 GCTTACAGTGAATCAGATCGAAGATTTTAGCATGGCATCCTTATACTTATAG
1 GCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATACTTATAG
35261345 AGAACAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (53 bp):
GCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATACTTATAGG
Found at i:35264117 original size:395 final size:396
Alignment explanation
Indices: 35263393--35264264 Score: 1476
Period size: 395 Copynumber: 2.2 Consensus size: 396
35263383 ATCGCAGATT
*
35263393 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
35263458 GAATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTCCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAATGAAACAGATCGAAGATTCCAG
* * *
35263523 CATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCATATA
* * *
35263588 GGGAATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTCC
196 GGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAACAGATCGAAGATTCC
* *
35263653 AGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTA
261 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATA
* *
35263718 TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGGTCGAAGATT
326 TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATT
*
35263783 TCAGCA
391 CCAGCA
* * *
35263789 TGGCATCCCTATGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * **
35263854 GAACCGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGATTTTAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAATGAAACAGATCGAAGATTCCAG
*
35263918 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCATATA
* **
35263983 GGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAGCAGATCGAAGATTTT
196 GGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAACAGATCGAAGATTCC
35264048 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATA
261 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATA
*
35264113 TAGGGAATAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATT
326 TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATT
35264178 CCAGCA
391 CCAGCA
* *
35264184 TGGTATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
35264249 GAACAGCTCGAAGATA
66 GAACAGATCGAAGATA
35264265 ACGGATTTGG
Statistics
Matches: 442, Mismatches: 33, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
395 368 0.83
396 74 0.17
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (396 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAATGAAACAGATCGAAGATTCCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCATATA
GGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAACAGATCGAAGATTCC
AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATA
TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATT
CCAGCA
Found at i:35264272 original size:44 final size:44
Alignment explanation
Indices: 35261361--35264275 Score: 2078
Period size: 44 Copynumber: 66.3 Consensus size: 44
35261351 AGTTGAAAAC
* * *
35261361 AGCAGATTTGGCATCCCTGTGCTTGTAGGGAATAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
** * * * * * *
35261405 AATAGATCTGACATTCATGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35261450 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35261493 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35261537 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35261582 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35261625 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35261669 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35261714 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35261757 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35261801 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35261846 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35261889 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35261933 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35261978 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35262021 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35262065 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * * *
35262110 TTCAGCA--TGGCATCCTTGTACTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35262153 AACAGATTTGGCATCCCCGAGCTTATAGGGAACAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35262197 AGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
35262242 TTCAGCA--TGGCATCCCTGTGCTTTTAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
35262285 CGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * * *
35262329 AACATATATGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
*** * *
35262374 TTTAGCA--TGGCATGCCTGTGCTTATAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
35262417 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
35262461 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
35262505 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
35262549 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
35262593 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35262637 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * *
35262682 TTCAGCA--TGACATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
*
35262725 AGCAGATTTGGCATCCCCGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
35262769 AGCAGATCTGACA-CTCCTATGCTTA-CGGTGAAGTAGATCGAAGAT
1 AGCAGATTTGGCATC-CCTGTGCTTATAGG-GAA-CAGATCGAAGAT
** * *
35262814 TTCAGCA--TGGCATCCCTGTACTTATAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
35262857 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * * * *
35262901 AGCAGATCTGACTTTCCTGTGCTTACAGTGAAGTAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * *
35262946 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
35262989 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35263033 AGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
*** * *
35263078 TTTAGCA--TGGCATGCCTGTGCTTATAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
35263121 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * * *
35263165 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGACCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** *
35263210 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
35263253 CGCAGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35263297 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
35263342 TTCAGCA--TGGCATCCCTGTGCTTTTAGGGAACA-AGTTGAAGAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * * *
35263385 CGCAGATTTGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
35263429 AGCAGATTTGGCATCCCTGTGCATATAGGGAATAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
35263473 AGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGAT
** * * * *
35263518 TCCAGCA--TGGTATCCCTGTGTTTATAGGGAACA-AGTTGAAAAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
35263561 AGCAGATTTGGCATCCCTGTGCATATAGGGAATAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
35263605 AGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGAT
** * * * *
35263650 TCCAGCA--TGGTATCCCTGTGTTTATAGGGAACA-AGTTGAAAAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
35263693 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
35263737 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGGTCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * * *
35263782 TTCAGCA--TGGCATCCCTATGCTTATAGGGAACA-AGTTGAAAAC
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
*
35263825 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACCGATCG-AGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * **
35263868 AGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
*** * *
35263913 TTTAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
*
35263956 AGCAGATTTGGCATCCCTATGCTTATAGGGAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * * *
35264000 AACAGATCTGACATTCATGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
*** * * *
35264045 TTTAGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
35264088 AGCAGATTTGGCATCCCTGTGCATATAGGGAATAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
35264132 AGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGAT
** * * * *
35264177 TCCAGCA--TGGTATCCCTGTGTTTATAGGGAACA-AGTTGAAAAT
1 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
35264220 AGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGCTCGAAGAT
1 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* *
35264264 AACGGATTTGGC
1 AGCAGATTTGGC
35264276 GTCTCTGTAT
Statistics
Matches: 2227, Mismatches: 519, Indels: 250
0.74 0.17 0.08
Matches are distributed among these distances:
42 39 0.02
43 245 0.11
44 1627 0.73
45 296 0.13
46 20 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
Found at i:35264307 original size:44 final size:45
Alignment explanation
Indices: 35264259--35264358 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
35264249 GAACAGCTCG
* * *
35264259 AAGATAACGGATTTGGCGTCTCTGTATTA-ACAGAGAGCAGATCA
1 AAGATAACAGACTTGGCGTCTCTGTATTAGACAGAGAGCAAATCA
* * *
35264303 AAGATGACAGACTTGGCGTCTCTGTATTAGACGGGGAGCAAATCA
1 AAGATAACAGACTTGGCGTCTCTGTATTAGACAGAGAGCAAATCA
*
35264348 AAGATAGCAGA
1 AAGATAACAGA
35264359 TATCGCCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 26 0.55
45 21 0.45
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (45 bp):
AAGATAACAGACTTGGCGTCTCTGTATTAGACAGAGAGCAAATCA
Found at i:35264572 original size:15 final size:16
Alignment explanation
Indices: 35264546--35264575 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35264536 TTTGCCCGGG
35264546 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
35264562 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
35264576 GCCCAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:35264682 original size:13 final size:13
Alignment explanation
Indices: 35264664--35264699 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
35264654 TCTTCACTCC
35264664 AACCACCCCACTA
1 AACCACCCCACTA
*
35264677 AACCACTCCACTA
1 AACCACCCCACTA
*
35264690 AACCATCCCA
1 AACCACCCCA
35264700 ACCACTCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:35272229 original size:29 final size:29
Alignment explanation
Indices: 35272186--35272341 Score: 172
Period size: 29 Copynumber: 5.3 Consensus size: 29
35272176 CAACAACGTA
*
35272186 TCGACCCATCGAATATAAAAAGGGATGATT
1 TCGA-CCATCGAATATAAAAAGGGATGGTT
* * *
35272216 TCGACCATCAAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
* * *
35272245 ACAACTATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
* * *
35272274 TTGACCATCGAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
*
35272303 ACGACCATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
35272332 TCGACCATCG
1 TCGACCATCG
35272342 TTTAACACAC
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
28 4 0.04
29 86 0.84
30 12 0.12
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (29 bp):
TCGACCATCGAATATAAAAAGGGATGGTT
Found at i:35272288 original size:58 final size:58
Alignment explanation
Indices: 35272191--35272341 Score: 241
Period size: 58 Copynumber: 2.6 Consensus size: 58
35272181 ACGTATCGAC
* *
35272191 CCATCGAATAT-AAAAAGGGATGATTTCGACCATCAAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAA-GGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
* * *
35272249 CTATCGAATATGAAAAAGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
35272307 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
35272342 TTTAACACAC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
58 80 0.94
59 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (58 bp):
CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
Found at i:35277630 original size:18 final size:18
Alignment explanation
Indices: 35277607--35277641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35277597 GTTTCAGTCG
*
35277607 AAAACCCTAAACCCTAAA
1 AAAACCCCAAACCCTAAA
*
35277625 AAAACCCCAAATCCTAA
1 AAAACCCCAAACCCTAA
35277642 TCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.34, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACCCCAAACCCTAAA
Found at i:35283420 original size:140 final size:140
Alignment explanation
Indices: 35283168--35283443 Score: 471
Period size: 140 Copynumber: 2.0 Consensus size: 140
35283158 AGTGTGTTGC
* *
35283168 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCTAAGATGTAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
* *
35283233 AGGCTCAGTTATAGGGTTTCGAGAGAATTTCAAAGGAAACCTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGAATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
35283298 CTACCTCCTT
131 CTACCTCCTT
* * *
35283308 AGTAGGAAATGTTAAAGATCCAAGGGAGTTGTCTCAACTTGATGCCAAGATGGAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
* *
35283373 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACTTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGAATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
35283438 CTACCT
131 CTACCT
35283444 TCTCGAGTAC
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (140 bp):
AGTAGGAAATGTGAAAGATCCAAAGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
AGGCTCAATTATAGGGTTTCGAGAGAATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
CTACCTCCTT
Found at i:35293068 original size:24 final size:24
Alignment explanation
Indices: 35293041--35293088 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35293031 ACTTATAAGA
*
35293041 TAAGATAAGTGTGTTAAGACAAGT
1 TAAGATAAGTATGTTAAGACAAGT
*
35293065 TAAGATAAGTATGTTAAGATAAGT
1 TAAGATAAGTATGTTAAGACAAGT
35293089 GCGAGAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (24 bp):
TAAGATAAGTATGTTAAGACAAGT
Found at i:35293578 original size:20 final size:21
Alignment explanation
Indices: 35293533--35293579 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
35293523 ATTATGAGGT
*
35293533 ATTACTGGATAATTCGTAACA
1 ATTACTGGATAATTCATAACA
* *
35293554 TTTAC-GGATAATTCATGACA
1 ATTACTGGATAATTCATAACA
35293574 ATTACT
1 ATTACT
35293580 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
ATTACTGGATAATTCATAACA
Found at i:35296534 original size:40 final size:40
Alignment explanation
Indices: 35296464--35296641 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
35296454 AAACCAAGTA
* * *
35296464 CCTTCGGGATTTAG-TCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
35296503 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35296543 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35296583 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35296623 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35296642 TTATCATCCG
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 15 0.12
40 109 0.88
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35299458 original size:34 final size:34
Alignment explanation
Indices: 35299413--35299486 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
35299403 GCATACTATG
* * *
35299413 CTGAAAAGGGCTAAGGCCCAGATTGCCACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
* *
35299447 CTGAAATGGGCTCAGGCCCAGACTACTACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
35299481 CT-AAAT
1 CTGAAAT
35299487 TAGGCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
Found at i:35309304 original size:40 final size:40
Alignment explanation
Indices: 35309227--35309432 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
35309217 AAACCAAGTA
* * *
35309227 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
35309266 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35309306 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
35309346 CCTTCGGGACTTAGCCCGGATATAATCGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35309386 CCTTCGGGACATAGCCCGGATATAGCAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35309426 CCTTCGG
1 CCTTCGG
35309433 ATCTTAGTCC
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 14 0.10
40 133 0.90
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35318084 original size:27 final size:27
Alignment explanation
Indices: 35318054--35318231 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35318044 ATATTGAGTC
* * * *
35318054 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35318081 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35318108 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35318136 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35318163 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35318190 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35318217 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35318232 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35318193 original size:82 final size:81
Alignment explanation
Indices: 35318075--35318230 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35318065 TGCTATATAA
* *
35318075 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35318140 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35318157 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35318221 CACTTAGTGC
65 CACTTAGTGC
35318231 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35319072 original size:37 final size:37
Alignment explanation
Indices: 35319031--35319101 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
35319021 AAACACAACC
*
35319031 AAACTCACATTCGGCCCTAGCTCATAACAAGGTAACA
1 AAACTCACATTCGGCCCTAGCCCATAACAAGGTAACA
35319068 AAACTCACATTCGGCCCTAGCCCATAACAAGGTA
1 AAACTCACATTCGGCCCTAGCCCATAACAAGGTA
35319102 GCCGATTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.18
Consensus pattern (37 bp):
AAACTCACATTCGGCCCTAGCCCATAACAAGGTAACA
Found at i:35319533 original size:12 final size:12
Alignment explanation
Indices: 35319516--35319542 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35319506 ATGGCATACT
35319516 TATGTATATATA
1 TATGTATATATA
35319528 TATGTATATATA
1 TATGTATATATA
35319540 TAT
1 TAT
35319543 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:35322321 original size:34 final size:34
Alignment explanation
Indices: 35322273--35322350 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
35322263 TGCTAAAAAA
35322273 GGCTAAGGCCCAGACTACCACTGTTACTAAAATG
1 GGCTAAGGCCCAGACTACCACTGTTACTAAAATG
* * * * *
35322307 GGCTCAGGCGCAGACTACTACTGTTACTAAATTA
1 GGCTAAGGCCCAGACTACCACTGTTACTAAAATG
35322341 GGCTAAGGCC
1 GGCTAAGGCC
35322351 TAACTGATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTACCACTGTTACTAAAATG
Found at i:35326882 original size:57 final size:58
Alignment explanation
Indices: 35326794--35326924 Score: 133
Period size: 57 Copynumber: 2.3 Consensus size: 58
35326784 AGGATTACTT
* * * * *
35326794 GTCCAAGCTAAATCCTGTTTCA-AACATATGCTCATA-AGAGCTTA-ATCAGGATTACCC
1 GTCCAGGCTAAATCCTATCT-ATAACAAATGCTCA-AGAGAGCTTATATCAGAATTACCC
** * * *
35326851 GTCTGGGCTAAATCCTATCTATAACAAATGCTCAAGAGGGCTTATATTAGAATTACCG
1 GTCCAGGCTAAATCCTATCTATAACAAATGCTCAAGAGAGCTTATATCAGAATTACCC
35326909 GTCCAGGCTAAATCCT
1 GTCCAGGCTAAATCCT
35326925 TTATGTAATG
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.56
58 24 0.41
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (58 bp):
GTCCAGGCTAAATCCTATCTATAACAAATGCTCAAGAGAGCTTATATCAGAATTACCC
Found at i:35328515 original size:42 final size:43
Alignment explanation
Indices: 35328454--35328559 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
35328444 TAATTCTGTT
* * * *
35328454 TTACGTGTAAGACCATGTCTTGGACATTGGCATC-GTATCTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATCAATATCTGA
* * * *
35328496 TTTCATGTAAGACCCTGTCTGGGACAATGGCATCAATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATCAATATCTGA
*
35328539 TTACATGTAAGACCACGTCTG
1 TTACATGTAAGACCATGTCTG
35328560 TGACGTTGGC
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 29 0.56
43 23 0.44
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAATGGCATCAATATCTGA
Found at i:35328570 original size:43 final size:42
Alignment explanation
Indices: 35328415--35328571 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
35328405 TGTGATTTCG
* * * * *
35328415 TGTAAGACCACATCTGGGACGTTGGCATTTAATTCTGTTTTACG
1 TGTAAGACCACGTCTGGGACATTGGCA-TCAATTCTG-ATTACA
* * * *
35328459 TGTAAGACCATGTCTTGGACATTGGCATC-GTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCAAT-TCTGATTACA
* *
35328501 TGTAAGACC-CTGTCTGGGACAATGGCATCAATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCAAT-TCTGATTACA
* *
35328544 TGTAAGACCACGTCTGTGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
35328572 TGTATATGTT
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.32
43 37 0.41
44 24 0.27
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCAATTCTGATTACA
Found at i:35334532 original size:13 final size:13
Alignment explanation
Indices: 35334516--35334540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35334506 AAATAATTTC
35334516 TTGAAAATTTTGT
1 TTGAAAATTTTGT
35334529 TTGAAAATTTTG
1 TTGAAAATTTTG
35334541 ACGTTCGGGC
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:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTGAAAATTTTGT
Found at i:35335922 original size:24 final size:24
Alignment explanation
Indices: 35335858--35335927 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 24
35335848 CACACCCGAG
35335858 CTCATTGAGTTGAGTCCGAGTTCA
1 CTCATTGAGTTGAGTCCGAGTTCA
*
35335882 CTTATGGGTGAGTTGAGTCCGAGTTCA
1 CTCAT---TGAGTTGAGTCCGAGTTCA
35335909 CTCATTGAGTTGAGTCCGA
1 CTCATTGAGTTGAGTCCGA
35335928 TTATATTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 18 0.44
27 23 0.56
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (24 bp):
CTCATTGAGTTGAGTCCGAGTTCA
Found at i:35339129 original size:45 final size:45
Alignment explanation
Indices: 35339079--35339166 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
35339069 AAACATGTGC
* *
35339079 CACATACATCATGAACTCAGACCACTACTCAATGAGTTTAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
* * *
35339124 CACATATATCATGAACTCAGACCACAATTTAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
35339167 CACATAGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
Found at i:35341278 original size:40 final size:40
Alignment explanation
Indices: 35341219--35341332 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
35341209 GATTAGGGGC
*
35341219 ACAGATGTGCCTTCAGGGGTACCGAAGTACAAACAGAGGCA
1 ACAGATGTGCATTCAGGGGTACCGAAGTACAAACA-AGGCA
** * *
35341260 TA-A-ATGTGCATTCAGGGGTATTGAAGTACAAATAAGGGA
1 -ACAGATGTGCATTCAGGGGTACCGAAGTACAAACAAGGCA
35341299 ACAGATGTGCATTCAGGGGTACCGAAGTACAAAC
1 ACAGATGTGCATTCAGGGGTACCGAAGTACAAAC
35341333 TGGGGCACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 54 0.87
41 1 0.02
42 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (40 bp):
ACAGATGTGCATTCAGGGGTACCGAAGTACAAACAAGGCA
Found at i:35347232 original size:34 final size:34
Alignment explanation
Indices: 35347166--35347232 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
35347156 TTGGAAAATA
* *
35347166 TTAAGTTCTGTTTGAATAATGAATTTTAATGGAG
1 TTAAGTTCCGTTTGAATAATGAATTTCAATGGAG
** *
35347200 TTAAGTTCCGTTTGAATGGTGAATTTCGATGGA
1 TTAAGTTCCGTTTGAATAATGAATTTCAATGGA
35347233 TATATGTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (34 bp):
TTAAGTTCCGTTTGAATAATGAATTTCAATGGAG
Found at i:35355150 original size:49 final size:48
Alignment explanation
Indices: 35355092--35355192 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 48
35355082 TTATAATTAA
35355092 TGATGTTATTTTTCAGCATCAATATATTTATTTTGTAAATTTATTCCT
1 TGATGTTATTTTTCAGCATCAATATATTTATTTTGTAAATTTATTCCT
* *
35355140 TGATGGTTATTTTTTAGCATCTATATATTTATTTTGTAAATTTATTCCT
1 TGAT-GTTATTTTTCAGCATCAATATATTTATTTTGTAAATTTATTCCT
35355189 TGAT
1 TGAT
35355193 TATTCAAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 4 0.08
49 46 0.92
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.55
Consensus pattern (48 bp):
TGATGTTATTTTTCAGCATCAATATATTTATTTTGTAAATTTATTCCT
Found at i:35355471 original size:53 final size:53
Alignment explanation
Indices: 35355289--35355492 Score: 185
Period size: 53 Copynumber: 3.8 Consensus size: 53
35355279 AGGGTTTAAG
* * * * * *
35355289 GATACCAAGTAAGACCATGCCAAGGCATGGCACTGGTAAGCTTTACAAGG-AAA
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * *
35355342 GGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGCAAA
1 -GATACCACGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * *
35355398 GATCCCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGCAAA
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
35355451 GATACCACGTAAGACTATGTCAAGACATTGCAATGGTAAGTT
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
35355493 TAAAAAGAAA
Statistics
Matches: 119, Mismatches: 28, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 46 0.39
54 33 0.28
55 37 0.31
56 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:35357478 original size:27 final size:28
Alignment explanation
Indices: 35357394--35357490 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
35357384 CATGAGATTG
* * * *
35357394 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35357423 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35357451 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35357478 GCACTGAGTGTGC
1 GCACTAAGTGTGC
35357491 AGACTTAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35357502 original size:27 final size:27
Alignment explanation
Indices: 35357422--35357504 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
35357412 TAAATTGTAC
* *
35357422 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
35357450 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
35357477 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
35357504 A
1 A
35357505 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:35357505 original size:29 final size:27
Alignment explanation
Indices: 35357394--35357505 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
35357384 CATGAGATTG
** * *
35357394 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
35357423 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
35357451 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
35357478 GCACTGAGTGTGCAGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
35357506 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:35360143 original size:16 final size:16
Alignment explanation
Indices: 35360122--35360152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35360112 ATTGGCAAAA
35360122 GCCAAAATGCCGAAAT
1 GCCAAAATGCCGAAAT
*
35360138 GCCAAAATGTCGAAA
1 GCCAAAATGCCGAAA
35360153 AGCTGAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (16 bp):
GCCAAAATGCCGAAAT
Found at i:35360406 original size:28 final size:29
Alignment explanation
Indices: 35360370--35360431 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
35360360 GTAAGCATGA
*
35360370 ATATGAATGTGA-CTAGGCCTAATGAGCC
1 ATATAAATGTGATCTAGGCCTAATGAGCC
* * *
35360398 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATCTAGGCCTAATGAGCC
35360427 ATATA
1 ATATA
35360432 CAGGTGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATCTAGGCCTAATGAGCC
Found at i:35360427 original size:29 final size:29
Alignment explanation
Indices: 35360385--35360484 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
35360375 AATGTGACTA
*
35360385 GGCCTAATGAGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
35360414 GGCCTAATGGGCCATATACAGGTGGTTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * * *
35360443 AGCCTAATCGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
35360471 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
35360485 GATATAGGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 14 0.25
29 43 0.75
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:35363647 original size:16 final size:16
Alignment explanation
Indices: 35363626--35363656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35363616 ATCGGCAAAA
35363626 GCCAAAATGCCGAAAT
1 GCCAAAATGCCGAAAT
*
35363642 GCCAAAATGTCGAAA
1 GCCAAAATGCCGAAA
35363657 GTTTGGCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (16 bp):
GCCAAAATGCCGAAAT
Found at i:35363923 original size:29 final size:29
Alignment explanation
Indices: 35363880--35363981 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
35363870 TGAATGTGGC
*
35363880 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
35363909 TGGGCGTAATAGGCCATATACAA-GTGGTT
1 TGGGCCTAATGGGCCATATA-AATGTGATT
* * *
35363938 TGAGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
35363966 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
35363982 GATATAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
28 17 0.29
29 40 0.68
30 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:35371011 original size:27 final size:26
Alignment explanation
Indices: 35370967--35371018 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
35370957 CTCGCTGCAA
35370967 TTTGGTGGCCTCGCCACATATATCTGT
1 TTTGGTGGCCTCGCCACA-ATATCTGT
* *
35370994 TTTGGTGGCTTCGTCACAATATCTG
1 TTTGGTGGCCTCGCCACAATATCTG
35371019 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TTTGGTGGCCTCGCCACAATATCTGT
Done.