Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 157 of 335
Found at i:46083229 original size:21 final size:21
Alignment explanation
Indices: 46083201--46083252 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
46083191 TTTTGCCTAA
*
46083201 GATG-TAAATTGGATTGAATT
1 GATGTTAAATTGGATTAAATT
*
46083221 GA-GTTTAAATTGTATTAAATT
1 GATG-TTAAATTGGATTAAATT
46083242 GATGTTAAATT
1 GATGTTAAATT
46083253 TACTCATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 23 0.85
22 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (21 bp):
GATGTTAAATTGGATTAAATT
Found at i:46083476 original size:17 final size:17
Alignment explanation
Indices: 46083454--46083486 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46083444 AACCAAAAAA
*
46083454 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
46083471 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
46083487 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:46091939 original size:16 final size:16
Alignment explanation
Indices: 46091918--46091948 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46091908 TTCACTATTA
46091918 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
46091934 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
46091949 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:46093587 original size:37 final size:36
Alignment explanation
Indices: 46093534--46093609 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
46093524 ATTCCAAAAA
*
46093534 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATATTAATAGTATT-ATATT-AATTTAATAT
*
46093570 TAATATTTATATTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATATTAATAGTATTATATTAATTTAATAT
46093607 TAA
1 TAA
46093610 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATATTAATAGTATTATATTAATTTAATAT
Found at i:46096127 original size:51 final size:51
Alignment explanation
Indices: 46096051--46096158 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
46096041 GATTGAGATA
46096051 AAGAAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCC
1 AAGAAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCC
46096102 AAGAAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCC
1 AAGAAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCC
46096153 AAGAAA
1 AAGAAA
46096159 ATCGAGTGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (51 bp):
AAGAAATTGGGAGATGAATAGAATGTCTCAATGGAGACTCATAGGAGGTCC
Found at i:46109813 original size:93 final size:93
Alignment explanation
Indices: 46109654--46109824 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
46109644 GCCCATAAGT
* * *
46109654 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46109719 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46109747 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46109812 CGAGTTCGGATGC
66 CGAGTTCGGATGC
46109825 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46109840 original size:46 final size:46
Alignment explanation
Indices: 46109646--46109826 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
46109636 TGTAACCCGC
* * *
46109646 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
46109692 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
46109742 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
46109785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
46109827 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 1 0.01
49 1 0.01
50 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:46112559 original size:22 final size:22
Alignment explanation
Indices: 46112497--46112560 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
46112487 AGAGGAAGTG
* * *
46112497 TATGGCTTGTAGCTGTTCTGTT
1 TATGGCTTCTAGCCGTTCTGCT
* *
46112519 TAAGGCTTACT-GCCTTTCTGCT
1 TATGGCTT-CTAGCCGTTCTGCT
*
46112541 TATGGCTTTTAGCCGTTCTG
1 TATGGCTTCTAGCCGTTCTG
46112561 TTAACTGGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.45
Consensus pattern (22 bp):
TATGGCTTCTAGCCGTTCTGCT
Found at i:46112820 original size:28 final size:27
Alignment explanation
Indices: 46112773--46112834 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
46112763 TCTGATACTA
* *
46112773 ATTCTG-TATTGGGCTTAGGCCCACCTG
1 ATTCTGTTAATGGGCTAAGG-CCACCTG
46112800 ATTCTGTTAATGGGCTAAGGCCACCTG
1 ATTCTGTTAATGGGCTAAGGCCACCTG
*
46112827 ATACTGTT
1 ATTCTGTT
46112835 TTTCTGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
ATTCTGTTAATGGGCTAAGGCCACCTG
Found at i:46122905 original size:27 final size:26
Alignment explanation
Indices: 46122865--46123005 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
46122855 AGGAAGCGTC
* *
46122865 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46122892 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46122919 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
**
46122946 CTGGTGGCTCTGCCACATATATCTCTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46122973 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
46123000 CTGGTG
1 CTGGTG
46123006 ACTTCGTCAT
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 88 0.89
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46122947 original size:54 final size:53
Alignment explanation
Indices: 46122865--46123005 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
46122855 AGGAAGCGTC
* *
46122865 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTCTT
46122919 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTCTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTCTT
* *
46122973 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
46123006 ACTTCGTCAT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTCTT
Found at i:46129771 original size:13 final size:13
Alignment explanation
Indices: 46129753--46129777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46129743 ATATTCCAGC
46129753 AGCTTGATCTTCT
1 AGCTTGATCTTCT
46129766 AGCTTGATCTTC
1 AGCTTGATCTTC
46129778 AACACTTCAT
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:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (13 bp):
AGCTTGATCTTCT
Found at i:46132677 original size:13 final size:13
Alignment explanation
Indices: 46132659--46132684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46132649 GATATTCCAA
46132659 CAGCTTGATCTTC
1 CAGCTTGATCTTC
46132672 CAGCTTGATCTTC
1 CAGCTTGATCTTC
46132685 TGCTTCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGCTTGATCTTC
Found at i:46133277 original size:14 final size:14
Alignment explanation
Indices: 46133239--46133277 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
46133229 TTTAAATTAA
* *
46133239 AACAAAAGAAAATC
1 AACAATAGAATATC
46133253 AACAATAGAATATC
1 AACAATAGAATATC
46133267 AACAATAGAAT
1 AACAATAGAAT
46133278 CATCTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.13, G:0.08, T:0.15
Consensus pattern (14 bp):
AACAATAGAATATC
Found at i:46139178 original size:36 final size:36
Alignment explanation
Indices: 46139131--46139203 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
46139121 AAACTATTTT
46139131 GAATTAATTTCATCAGTTTAAG-TTCTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAGCTT-TTTTTTCCGAA
46139167 GAATTAATTTCATCAGTTTAAGCCTTTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAG-CTTTTTTTTCCGAA
46139204 CTTAGCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 22 0.63
37 11 0.31
38 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (36 bp):
GAATTAATTTCATCAGTTTAAGCTTTTTTTTCCGAA
Found at i:46140821 original size:16 final size:15
Alignment explanation
Indices: 46140802--46140844 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
46140792 GTCAAGACTC
46140802 TTTATAACAATCATGT
1 TTTATAACAA-CATGT
*
46140818 TTTATAACAACATTT
1 TTTATAACAACATGT
46140833 TATTATAACAAC
1 T-TTATAACAAC
46140845 TAAATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTATAACAACATGT
Found at i:46142394 original size:20 final size:20
Alignment explanation
Indices: 46142369--46142418 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
46142359 GGGTACACAC
*
46142369 CCGTGTGGCCTGGGATATGG
1 CCGTGTGGCCTGGGACATGG
46142389 CCGTGTGGCCTGGGACATGG
1 CCGTGTGGCCTGGGACATGG
*
46142409 CCGTGAGGCC
1 CCGTGTGGCC
46142419 AGGCCATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.26, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGG
Found at i:46143543 original size:93 final size:94
Alignment explanation
Indices: 46143446--46143637 Score: 377
Period size: 93 Copynumber: 2.1 Consensus size: 94
46143436 ATAGAAACTA
46143446 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
1 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
46143511 TCATGTTT-AATAAAATATGCAAACTTCG
66 TCATGTTTAAATAAAATATGCAAACTTCG
46143539 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
1 CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
46143604 TCATGTTTAAATAAAATATGCAAACTTCG
66 TCATGTTTAAATAAAATATGCAAACTTCG
46143633 CCATA
1 CCATA
46143638 TTCAAATATC
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 73 0.74
94 25 0.26
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (94 bp):
CCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTAT
TCATGTTTAAATAAAATATGCAAACTTCG
Found at i:46147121 original size:41 final size:41
Alignment explanation
Indices: 46147064--46147145 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
46147054 ATGGAAAGTG
* *
46147064 TATGTTTAAGCCTAGTATTATGTTAATCTATTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
46147105 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
46147146 CTCCATGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (41 bp):
TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
Found at i:46147880 original size:22 final size:23
Alignment explanation
Indices: 46147846--46147894 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
46147836 CAAAAATACT
46147846 AAAAATATCAAAATAAATATTCA
1 AAAAATATCAAAATAAATATTCA
* * *
46147869 AAAAAT-TGAAAATAAATTTTGA
1 AAAAATATCAAAATAAATATTCA
46147891 AAAA
1 AAAA
46147895 TATGTAGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (23 bp):
AAAAATATCAAAATAAATATTCA
Found at i:46147974 original size:30 final size:30
Alignment explanation
Indices: 46147938--46148000 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
46147928 ACTTAAAAAG
*
46147938 CAAATGCTTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
*
46147968 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
46147998 CAA
1 CAA
46148001 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:46150169 original size:32 final size:32
Alignment explanation
Indices: 46150129--46150209 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
46150119 TGAAATTAGT
*
46150129 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
46150161 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
46150193 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
46150210 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:46151361 original size:46 final size:46
Alignment explanation
Indices: 46151294--46151381 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
46151284 TACTAATTTG
* **
46151294 TAATATTAGTTATGCACTTGGACGATATTGCAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGTGGTA
*
46151340 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGT
1 TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGT
46151382 AGTGTACTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGTGGTA
Found at i:46151374 original size:24 final size:24
Alignment explanation
Indices: 46151300--46151376 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
46151290 TTTGTAATAT
**
46151300 TAGTTATGCACTTGGACGATATTG
1 TAGTTATGCACTTGGAAAATATTG
* * *
46151324 CAGTTAT-CA-TGTGGTATAATA--C
1 TAGTTATGCACT-TGG-AAAATATTG
46151346 TAGTTATGCACTTGGAAAATATTG
1 TAGTTATGCACTTGGAAAATATTG
46151370 TAGTTAT
1 TAGTTAT
46151377 CATGTAGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
22 12 0.30
23 10 0.25
24 18 0.45
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (24 bp):
TAGTTATGCACTTGGAAAATATTG
Found at i:46151393 original size:46 final size:46
Alignment explanation
Indices: 46151294--46151393 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
46151284 TACTAATTTG
* ** *
46151294 TAATATTAGTTATGCACTTGGACGATATTGCAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGTAGTA
* *
46151340 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTG
1 TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGTAGTA
*
46151386 TACTACTA
1 TAATACTA
46151394 ATTTGTAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGCAGTTATCATGTAGTA
Found at i:46151759 original size:19 final size:20
Alignment explanation
Indices: 46151735--46151780 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46151725 CATCCAAACA
46151735 CCAGAAAA-T-ATTAACTTTT
1 CCAGAAAAGTAATTAA-TTTT
*
46151754 CCAGAAAAGTAATTTATTTT
1 CCAGAAAAGTAATTAATTTT
46151774 CCAGAAA
1 CCAGAAA
46151781 TCATTTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
CCAGAAAAGTAATTAATTTT
Found at i:46155437 original size:25 final size:25
Alignment explanation
Indices: 46155409--46155458 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
46155399 CAAGTAAGGC
*
46155409 TCATTCTCCTTCTTCCGTTCTTCAT
1 TCATTCTCCTTATTCCGTTCTTCAT
* * *
46155434 TCATTTTCCTTATTTCGTTTTTCAT
1 TCATTCTCCTTATTCCGTTCTTCAT
46155459 CTTCTCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.10, C:0.28, G:0.04, T:0.58
Consensus pattern (25 bp):
TCATTCTCCTTATTCCGTTCTTCAT
Found at i:46157248 original size:2 final size:2
Alignment explanation
Indices: 46157241--46157267 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46157231 GCATGTAGCT
46157241 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46157268 GAAATTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46158491 original size:20 final size:20
Alignment explanation
Indices: 46158466--46158505 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
46158456 ATAATTTAAA
46158466 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
46158486 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
46158506 GTAAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:46158612 original size:19 final size:19
Alignment explanation
Indices: 46158588--46158624 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
46158578 TCCAAACACC
46158588 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
46158607 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
46158625 CCAGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:46158634 original size:14 final size:14
Alignment explanation
Indices: 46158615--46158652 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
46158605 TTAGAAAAGT
46158615 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
46158629 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
46158643 AAAGCATTTT
1 AAATCATTTT
46158653 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:46173888 original size:45 final size:45
Alignment explanation
Indices: 46173794--46173903 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 45
46173784 CAGTAATCAG
* *
46173794 TAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTA
1 TAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCTA
* * * *
46173839 TAACAGTTACGGTAACAGTATTCGACATACAAAGTG-TCGAAT-TGG
1 TAACAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCT-A
*
46173884 TAACAGTAATGGTAACAGTA
1 TAACAGTAACGGTAACAGTA
46173904 ACAGTAGTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
TAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCTA
Found at i:46174160 original size:40 final size:40
Alignment explanation
Indices: 46174116--46174197 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
46174106 TTTCATTAGA
* *
46174116 AATTTTACAGTTCAATGCAGTATACATAACAATATTCAGT
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
* * *
46174156 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAGT
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
46174196 AA
1 AA
46174198 CCTATAATCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
Found at i:46175025 original size:18 final size:18
Alignment explanation
Indices: 46175004--46175046 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
46174994 TATTAACTTA
46175004 ATAATAATAATTATTATT
1 ATAATAATAATTATTATT
*
46175022 ATAATAATTATTATTATT
1 ATAATAATAATTATTATT
46175040 ATAATAA
1 ATAATAA
46175047 ATATCTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATAATAATTATTATT
Found at i:46175027 original size:15 final size:15
Alignment explanation
Indices: 46175007--46175044 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
46174997 TAACTTAATA
46175007 ATAATAATTATTATT
1 ATAATAATTATTATT
46175022 ATAATAATTATTATT
1 ATAATAATTATTATT
*
46175037 ATTATAAT
1 ATAATAAT
46175045 AAATATCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATAATTATTATT
Found at i:46175305 original size:3 final size:3
Alignment explanation
Indices: 46175297--46175372 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
46175287 AATTTATTTT
* * * *
46175297 TAA TAA TAA TAA TCA TAA T-T TAA TAT TAA TAC TAA TAA TAA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
46175342 TAA TTA TAA TAA TCAA TTA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
46175373 TATATAATCT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 5 0.09
3 46 0.81
4 6 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:46175325 original size:26 final size:26
Alignment explanation
Indices: 46175286--46175335 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
46175276 GTCTTTATTT
* *
46175286 TAATTTATTTTTAATAATAATAATCA
1 TAATTTAATATTAATAATAATAATCA
*
46175312 TAATTTAATATTAATACTAATAAT
1 TAATTTAATATTAATAATAATAAT
46175336 AACTAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATTTAATATTAATAATAATAATCA
Found at i:46175334 original size:20 final size:20
Alignment explanation
Indices: 46175295--46175354 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
46175285 TTAATTTATT
*
46175295 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
* *
46175315 TTTAATATTAATACTAATAA
1 TTTAATAATAATAATAATAA
*
46175335 --TAACTAATAATTATAATAA
1 TTTAA-TAATAATAATAATAA
46175354 T
1 T
46175355 CAATTATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 17 0.53
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:46177951 original size:13 final size:13
Alignment explanation
Indices: 46177933--46177957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46177923 ATAAAAGAAC
46177933 ATATAGAATACCA
1 ATATAGAATACCA
46177946 ATATAGAATACC
1 ATATAGAATACC
46177958 CAGAAGAGAT
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ATATAGAATACCA
Found at i:46183068 original size:15 final size:15
Alignment explanation
Indices: 46183048--46183079 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46183038 ATTATAGGTA
*
46183048 TATCATGACCTTTTC
1 TATCATGACCTCTTC
46183063 TATCATGACCTCTTC
1 TATCATGACCTCTTC
46183078 TA
1 TA
46183080 AATAAAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (15 bp):
TATCATGACCTCTTC
Found at i:46185078 original size:45 final size:45
Alignment explanation
Indices: 46185021--46185109 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46185011 AAGTTCTTTA
*
46185021 TAGGATTGAAAATCATAATTTTGTTGAGTAATATATTTTCTTTTC
1 TAGGATTGAAAATCATAATTTTGTGGAGTAATATATTTTCTTTTC
*
46185066 TAGGATTGAAAATCATATTTTTGTGGAGTAATATATTTTCTTTT
1 TAGGATTGAAAATCATAATTTTGTGGAGTAATATATTTTCTTTT
46185110 TTGTTTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (45 bp):
TAGGATTGAAAATCATAATTTTGTGGAGTAATATATTTTCTTTTC
Found at i:46189087 original size:16 final size:16
Alignment explanation
Indices: 46189066--46189096 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46189056 TTTTGTATTA
*
46189066 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
46189082 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
46189097 ATACTAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:46189105 original size:25 final size:25
Alignment explanation
Indices: 46189073--46189139 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
46189063 TTATTTTAAT
46189073 ATTAAATATTTTTAAAATTAAA-TA
1 ATTAAATATTTTTAAAATTAAATTA
* * **
46189097 A-TACTAATAATATTAATTTTAAATTA
1 ATTA--AATATTTTTAAAATTAAATTA
46189123 ATTAAATATTTTTAAAA
1 ATTAAATATTTTTAAAA
46189140 GTATTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 23 0.74
26 3 0.10
27 2 0.06
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTAAATATTTTTAAAATTAAATTA
Found at i:46189860 original size:107 final size:108
Alignment explanation
Indices: 46189653--46189880 Score: 361
Period size: 107 Copynumber: 2.1 Consensus size: 108
46189643 TAAAAAAGAG
* *
46189653 ATACAAAT-AACATGAAGTTACTATTTTATACAATTATTTCCCTATGCATTTATGCCATAAATGG
1 ATACAAATAAACATG-AGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATGG
46189717 AATCCAACGTGCTTTAACTATTTATTCACGCAGATTTGAAATTA
65 AATCCAACGTGCTTTAACTATTTATTCACGCAGATTTGAAATTA
*
46189761 ATACAAATAAACATG-GTTATTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATGGA
1 ATACAAATAAACATGAGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATGGA
* * * *
46189825 ATCCAACGTGCTTTAGCTATTTATTCTCGCGGATTTGGAATTA
66 ATCCAACGTGCTTTAACTATTTATTCACGCAGATTTGAAATTA
*
46189868 ATGCAAATAAACA
1 ATACAAATAAACA
46189881 ACATAACCGA
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 97 0.87
108 8 0.07
109 6 0.05
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (108 bp):
ATACAAATAAACATGAGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATGGA
ATCCAACGTGCTTTAACTATTTATTCACGCAGATTTGAAATTA
Found at i:46190481 original size:21 final size:21
Alignment explanation
Indices: 46190447--46190490 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
46190437 AAATTTCTAC
*
46190447 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
46190468 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
46190489 AA
1 AA
46190491 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:46194554 original size:7 final size:7
Alignment explanation
Indices: 46194544--46194568 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46194534 ATTCATTTCA
46194544 TATTTAG
1 TATTTAG
46194551 TATTTAG
1 TATTTAG
46194558 TATTTAG
1 TATTTAG
46194565 TATT
1 TATT
46194569 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:46198462 original size:30 final size:30
Alignment explanation
Indices: 46198406--46198462 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
46198396 ACGGCCATGA
* *
46198406 CACATGGGCGTGTGGTCTGCCGATGTGCCT
1 CACATGGGCGTGTGGTCTACCCATGTGCCT
*
46198436 CACATGGGCGTGTGGTTTACCCATGTG
1 CACATGGGCGTGTGGTCTACCCATGTG
46198463 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28
Consensus pattern (30 bp):
CACATGGGCGTGTGGTCTACCCATGTGCCT
Found at i:46200253 original size:126 final size:126
Alignment explanation
Indices: 46200027--46200529 Score: 668
Period size: 126 Copynumber: 4.0 Consensus size: 126
46200017 GGCCAATCAT
* * * *
46200027 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* *
46200092 CTGCTTGAAGCATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAA
* * *
46200153 GAACTACTGTAGAATAAGAGCGTCCACGTGAGAGCTTTTTTCTGTAAGTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
** * * *
46200218 CTGCTTGAAATATTTTTGACACTATTTGTTAAGAAACATCTTTTCAAAATTA-TTTTTCAT
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAA
* * * * * *
46200278 GAACTACTGTAGAAAAAGAGCATCCACGTGGTAGTTTTTTTCCGTAATTTTACTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* ** * *
46200343 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAA
* * * * *
46200404 GAACTATTGTAGAAAAAGAGCGTCTC-CGTGGGAGTTTTTTTTTTGTATTTTTGCTGATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTC-CACGTGGGAG-CTTTTTTCTGTAATTTTGCTGACAGTGCA
* * * *
46200468 TCTTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCA
64 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
46200530 GGGTACAAAA
Statistics
Matches: 329, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
125 107 0.33
126 140 0.43
127 82 0.25
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAA
Found at i:46200639 original size:30 final size:30
Alignment explanation
Indices: 46200599--46200665 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
46200589 AACCCTAATT
*
46200599 TAATTAAATTTAACCTT-AAACACT-AAACCC
1 TAATTTAATTT-A-CTTAAAACACTAAAACCC
* *
46200629 TAATTTAATTTATTTAAAACCCTAAAACCC
1 TAATTTAATTTACTTAAAACACTAAAACCC
46200659 TAATTTA
1 TAATTTA
46200666 CTTAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 7 0.22
30 23 0.72
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (30 bp):
TAATTTAATTTACTTAAAACACTAAAACCC
Found at i:46200695 original size:33 final size:34
Alignment explanation
Indices: 46200633--46200696 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
46200623 AAACCCTAAT
*
46200633 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
1 TTAATTTATTTAAAACCATAAAACCCTAATTTAC
46200667 TTAATTTATTTAAAACCAT-AAACCCTAATT
1 TTAATTTATTTAAAACCATAAAACCCTAATT
46200697 ATTTAATACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (34 bp):
TTAATTTATTTAAAACCATAAAACCCTAATTTAC
Found at i:46200701 original size:23 final size:23
Alignment explanation
Indices: 46200672--46200725 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
46200662 TTTACTTAAT
46200672 TTATTTAAAACCATAAACCCTAA-
1 TTATTTAAAACCAT-AACCCTAAC
* *
46200695 TTATTTAATACCCTAACCCTAAC
1 TTATTTAAAACCATAACCCTAAC
46200718 TTAATTTA
1 TT-ATTTA
46200726 TTTAAAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 14 0.52
24 5 0.19
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (23 bp):
TTATTTAAAACCATAACCCTAAC
Found at i:46200746 original size:85 final size:84
Alignment explanation
Indices: 46200624--46200780 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 84
46200614 TTAAACACTA
* * *
46200624 AACCCTAATTTAATTTATTTAAAACCCTAAAACCCTAATTTA-CTTAATTTATTTAAAACCATA-
1 AACCCTAACTTAATTTATTTAAAACCATAAAACCCTAA---ACCCTAATTTATTTAAAACCATAG
*
46200687 AACCCTAATTATTTAATACCCT
63 AACACTAATTATTTAATACCCT
* *
46200709 AACCCTAACTTAATTTATTTAAAAACCAT-AAATCCTAAACCCTAATTTATTTAAAACCCTAGAA
1 AACCCTAACTTAATTTATTT-AAAACCATAAAACCCTAAACCCTAATTTATTTAAAACCATAGAA
46200773 CACTAATT
65 CACTAATT
46200781 TACTTAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
82 1 0.02
83 19 0.30
84 9 0.14
85 27 0.43
86 7 0.11
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.35
Consensus pattern (84 bp):
AACCCTAACTTAATTTATTTAAAACCATAAAACCCTAAACCCTAATTTATTTAAAACCATAGAAC
ACTAATTATTTAATACCCT
Found at i:46200794 original size:34 final size:31
Alignment explanation
Indices: 46200685--46200836 Score: 136
Period size: 32 Copynumber: 4.9 Consensus size: 31
46200675 TTTAAAACCA
* *
46200685 TAAACCCTAA-TTATTTAATACCCT-AACCC
1 TAAACCCTAATTTATTTAAAACCCTAAACAC
* *
46200714 T-AA-CTTAATTTATTTAAAAACCATAAATC-C
1 TAAACCCTAATTTATTT-AAAACCCTAAA-CAC
46200744 TAAACCCTAATTTATTTAAAACCCTAGAACAC
1 TAAACCCTAATTTATTTAAAACCCTA-AACAC
* * *
46200776 TAATTTA-CTTAATTTATTTAAAAACCATAAACTC
1 TAA---ACCCTAATTTATTT-AAAACCCTAAACAC
46200810 TAAACCCTAATTTATTTAAAACCCTAA
1 TAAACCCTAATTTATTTAAAACCCTAA
46200837 CTTAATTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
27 4 0.04
28 8 0.08
29 7 0.07
30 4 0.04
31 22 0.22
32 28 0.28
34 18 0.18
35 9 0.09
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (31 bp):
TAAACCCTAATTTATTTAAAACCCTAAACAC
Found at i:46200845 original size:22 final size:23
Alignment explanation
Indices: 46200817--46200896 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 23
46200807 CTCTAAACCC
46200817 TAATTTATTTAAAACCCT-AACT
1 TAATTTATTTAAAACCCTAAACT
*
46200839 TAATTTATTTAAACCCCTAAAAACT
1 TAATTTATTTAAAACCCT--AAACT
*
46200864 CTAATTTACTTAAAAACCCTAAACCT
1 -TAATTTA-TTTAAAACCCTAAA-CT
46200890 TAATTTA
1 TAATTTA
46200897 AATAGTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 17 0.35
25 14 0.29
26 9 0.18
27 9 0.18
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATTTATTTAAAACCCTAAACT
Found at i:46204711 original size:45 final size:45
Alignment explanation
Indices: 46204647--46204738 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
46204637 AAAAATGAAG
46204647 TAAGGGTTAAGAGATGCTCAGAAATACGAGGACTTTGAAGCTTGA
1 TAAGGGTTAAGAGATGCTCAGAAATACGAGGACTTTGAAGCTTGA
46204692 TAAGGGTTAAGAGATGCTCAGAAATACGAGGACTTTGAAGCTTGA
1 TAAGGGTTAAGAGATGCTCAGAAATACGAGGACTTTGAAGCTTGA
46204737 TA
1 TA
46204739 TCACTTGGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (45 bp):
TAAGGGTTAAGAGATGCTCAGAAATACGAGGACTTTGAAGCTTGA
Found at i:46205811 original size:20 final size:18
Alignment explanation
Indices: 46205764--46205812 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
46205754 CAAGATAAAC
46205764 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
46205781 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
46205801 ATTAAATTAATA
1 ATTAAATTAATA
46205813 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:46206297 original size:94 final size:94
Alignment explanation
Indices: 46206136--46206324 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
46206126 AATTCAATCA
* *
46206136 CCCATTGAGCCAATTGTCTGACTTAAAAATTAGTTTCCAAAAATATCTTATTAATTTGATTAATT
1 CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAATATATTATTAATTTGATTAATT
46206201 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
* *
46206230 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAATATATTATTAATTTGCTTAATT
1 CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAATATATTATTAATTTGATTAATT
46206295 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
46206324 C
1 C
46206325 TAAAATCATT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.43
Consensus pattern (94 bp):
CCCATTGAGCCAATTGTCTGACTTAAAAATTAATTTCCAAAAATATATTATTAATTTGATTAATT
TAATTTTACTTTATCAAAATTAATTTTCC
Found at i:46208064 original size:57 final size:58
Alignment explanation
Indices: 46207984--46208103 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
46207974 AAATTGGTGA
* * * * *
46207984 AAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
* * *
46208042 AAAATAGAGAAATG-GAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
46208099 AAAAT
1 AAAAT
46208104 GACCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
Found at i:46209618 original size:17 final size:16
Alignment explanation
Indices: 46209598--46209636 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
46209588 AAATCCAATT
46209598 CAATATTATAATTCCAA
1 CAATATT-TAATTCCAA
46209615 CAATAATTTAATTCCAA
1 CAAT-ATTTAATTCCAA
*
46209632 TAATA
1 CAATA
46209637 GAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.80
18 3 0.15
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
CAATATTTAATTCCAA
Found at i:46215870 original size:5 final size:5
Alignment explanation
Indices: 46215860--46215891 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
46215850 TGAGCGTTCG
46215860 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA AT
46215892 AAAAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:46216366 original size:17 final size:16
Alignment explanation
Indices: 46216325--46216370 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
46216315 AATTCAATTT
46216325 TAATATAAAT-ATTCA
1 TAATATAAATAATTCA
46216340 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTC-A
46216358 TAATATAAATAAT
1 TAATATAAATAAT
46216371 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.12
15 1 0.04
16 5 0.19
17 12 0.46
18 2 0.08
19 3 0.12
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (16 bp):
TAATATAAATAATTCA
Found at i:46216672 original size:29 final size:30
Alignment explanation
Indices: 46216630--46216687 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
46216620 GGAGGTGGGA
46216630 TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
1 TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
* *
46216660 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTAGGGGAAA
46216688 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.21
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
Found at i:46219886 original size:43 final size:43
Alignment explanation
Indices: 46219838--46219941 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
46219828 AAAGATACAG
* *
46219838 GAGACAAACGGCCGTGTCACTTGGCTGTGTGTCACACACAGCT
1 GAGACACACGCCCGTGTCACTTGGCTGTGTGTCACACACAGCT
46219881 GAGACACACGCCCGTGTCACTTGGCTGTGTGTCACACACAGCT
1 GAGACACACGCCCGTGTCACTTGGCTGTGTGTCACACACAGCT
46219924 GAGACACACGCCCGTGTC
1 GAGACACACGCCCGTGTC
46219942 TCTACCCATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (43 bp):
GAGACACACGCCCGTGTCACTTGGCTGTGTGTCACACACAGCT
Found at i:46220250 original size:23 final size:21
Alignment explanation
Indices: 46220218--46220259 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
46220208 ACATATAACA
46220218 CTCATACTCATATCACAATATAC
1 CTCATACTCATA-C-CAATATAC
*
46220241 CTCATTCTCATACCAATAT
1 CTCATACTCATACCAATAT
46220260 GTAAGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACTCATACCAATATAC
Found at i:46220752 original size:21 final size:21
Alignment explanation
Indices: 46220712--46220776 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
46220702 CAAATATGCC
*
46220712 AACAGAAGTTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
46220731 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
46220752 AACAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
46220773 AACA
1 AACA
46220777 TAAAGTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.26
20 2 0.05
21 29 0.69
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:46224016 original size:18 final size:18
Alignment explanation
Indices: 46223984--46224018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46223974 TAAAATTTTT
**
46223984 AATTTTTTTGGAAAAATC
1 AATTTTTTTAAAAAAATC
46224002 AATTTTTTTAAAAAAAT
1 AATTTTTTTAAAAAAAT
46224019 AAGGAATTAA
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:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
AATTTTTTTAAAAAAATC
Found at i:46228602 original size:23 final size:22
Alignment explanation
Indices: 46228576--46228618 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46228566 CTCGTGATTG
*
46228576 GTATTTAATTTTATTATTAAAAT
1 GTATCTAATTTT-TTATTAAAAT
*
46228599 GTATCTAATTTTTTTTTAAA
1 GTATCTAATTTTTTATTAAA
46228619 TTGATGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
GTATCTAATTTTTTATTAAAAT
Found at i:46229628 original size:22 final size:22
Alignment explanation
Indices: 46229603--46229670 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
46229593 GTAAAAAAAT
46229603 TAAAATCCTTGAAATAAAAGTA
1 TAAAATCCTTGAAATAAAAGTA
* * *
46229625 TAAAA---ATAAAATAAAA-AA
1 TAAAATCCTTGAAATAAAAGTA
46229643 TTAAAATCCTTGAAATAAAAGTA
1 -TAAAATCCTTGAAATAAAAGTA
46229666 TAAAA
1 TAAAA
46229671 ACTAAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
22 19 0.54
23 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAATCCTTGAAATAAAAGTA
Found at i:46229641 original size:41 final size:42
Alignment explanation
Indices: 46229596--46229676 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 42
46229586 CTGAAAAGTA
46229596 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAA-TAAAAT
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
46229637 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
46229677 TTCTAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.23
Consensus pattern (42 bp):
AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
Found at i:46235835 original size:17 final size:17
Alignment explanation
Indices: 46235813--46235848 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46235803 TTATGGAGCT
46235813 GATTGGAGTGGGTGAGA
1 GATTGGAGTGGGTGAGA
46235830 GATTGGAGTGGGTGAGA
1 GATTGGAGTGGGTGAGA
46235847 GA
1 GA
46235849 CGGGATGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.53, T:0.22
Consensus pattern (17 bp):
GATTGGAGTGGGTGAGA
Found at i:46237580 original size:33 final size:32
Alignment explanation
Indices: 46237494--46237621 Score: 89
Period size: 33 Copynumber: 3.9 Consensus size: 32
46237484 CGTTTTCTTG
** *
46237494 ATGCCATAGTCCAGCTATGGTCTTACAC-AAA
1 ATGCCATAACCCAGCTATGGTCTTACACTAGA
** * *
46237525 TATTGCCATGGCCCTA-CCATGGTCTTACACTCGTA
1 -A-TGCCATAACCC-AGCTATGGTCTTACACTAG-A
* * *
46237560 ATGCCATAACCCAGTTATGGTCTTATCATTAGG
1 ATGCCATAACCCAGCTATGGTCTTA-CACTAGA
* *
46237593 ATGCTATAGCCCAGCTATGGTCTTACACT
1 ATGCCATAACCCAGCTATGGTCTTACACT
46237622 TATACATATA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
32 5 0.07
33 62 0.84
34 6 0.08
35 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (32 bp):
ATGCCATAACCCAGCTATGGTCTTACACTAGA
Found at i:46237682 original size:105 final size:105
Alignment explanation
Indices: 46237560--46237829 Score: 452
Period size: 105 Copynumber: 2.6 Consensus size: 105
46237550 TACACTCGTA
* * * * * *
46237560 ATGCCATAACCCAGTTATGGTCTTATCA-TTAGGATGCTATAGCCCAGCTATGGTCTTACACTTA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGA-AATGCCATAGCCCAGCTATGGTCTTACACTTA
46237624 TACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
65 TACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
*
46237665 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCTCAGCTATGGTCTTACACTTAT
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACACTTAT
*
46237730 ACATATACTGTTGTGGTTCAATCATGGTCTTACGTTCACG
66 ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
46237770 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
46237830 TTTAACACTT
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
105 153 0.99
106 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (105 bp):
ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACACTTAT
ACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
Found at i:46238974 original size:38 final size:38
Alignment explanation
Indices: 46238927--46239002 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
46238917 ATCAAAATGT
46238927 TAAAATTTTCTAACGAAAATTTAATACTAATTCACTAA
1 TAAAATTTTCTAACGAAAATTTAATACTAATTCACTAA
*
46238965 TAAAATTTTCTAACGAAACTTTAATACTAATTCACTAA
1 TAAAATTTTCTAACGAAAATTTAATACTAATTCACTAA
46239003 CACTTCGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (38 bp):
TAAAATTTTCTAACGAAAATTTAATACTAATTCACTAA
Found at i:46241813 original size:56 final size:56
Alignment explanation
Indices: 46241723--46241876 Score: 229
Period size: 56 Copynumber: 2.8 Consensus size: 56
46241713 AGGGTGTTAA
*
46241723 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* ** *
46241779 GATATTATTATGAGATATTATCTCATAG-ATATTTGATTCCTAATGGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCA-ATTTGATTCCTAATAGGATATTATAG
* *
46241835 AATATTATTACGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
46241877 CGTAACTACT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 84 0.98
57 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
Found at i:46244654 original size:39 final size:39
Alignment explanation
Indices: 46244608--46244825 Score: 357
Period size: 39 Copynumber: 5.6 Consensus size: 39
46244598 GCTCTGATGA
*
46244608 GCTTCAGTTAGCCTTCTGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
46244647 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
46244686 GCTTCAGTTAGCATTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
46244725 GCTTCAGTTAG-CTTCTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
46244764 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
46244803 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
46244826 AGATCACGAT
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
38 3 0.02
39 161 0.96
40 4 0.02
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:46248740 original size:24 final size:24
Alignment explanation
Indices: 46248687--46248732 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46248677 TATTTTTAGA
* * *
46248687 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATGTATTAGCATAAT
46248711 ATATTTAGCATGTATTAGCATA
1 ATATTTAGCATGTATTAGCATA
46248733 GTTTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (24 bp):
ATATTTAGCATGTATTAGCATAAT
Found at i:46250707 original size:24 final size:24
Alignment explanation
Indices: 46250654--46250699 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46250644 TCTTTCTAGA
* *
46250654 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
46250678 ATATTTAGCATTTATTAGCATA
1 ATATTTAGCATTTATTAGCATA
46250700 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:46257569 original size:2 final size:2
Alignment explanation
Indices: 46257562--46257589 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46257552 TATTTTAGAA
46257562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46257590 GTAGTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46258334 original size:5 final size:5
Alignment explanation
Indices: 46258324--46258356 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
46258314 ATTATAAAAA
*
46258324 AATTT AATTT AATTT AA-TT AATTT AATTA AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATT
46258357 GAATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:46258346 original size:9 final size:9
Alignment explanation
Indices: 46258324--46258353 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
46258314 ATTATAAAAA
46258324 AATTTAATTT
1 AATTTAA-TT
46258334 AATTTAATT
1 AATTTAATT
46258343 AATTTAATT
1 AATTTAATT
46258352 AA
1 AA
46258354 ATTGAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTAATT
Found at i:46258346 original size:14 final size:14
Alignment explanation
Indices: 46258327--46258356 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46258317 ATAAAAAAAT
*
46258327 TTAATTTAATTTAA
1 TTAATTTAATTAAA
46258341 TTAATTTAATTAAA
1 TTAATTTAATTAAA
46258355 TT
1 TT
46258357 GAATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTAATTAAA
Found at i:46258366 original size:19 final size:19
Alignment explanation
Indices: 46258324--46258360 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46258314 ATTATAAAAA
* *
46258324 AATTTAATTTAATTTAATT
1 AATTTAATTAAATTGAATT
46258343 AATTTAATTAAATTGAAT
1 AATTTAATTAAATTGAAT
46258361 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTAATTAAATTGAATT
Found at i:46268383 original size:22 final size:21
Alignment explanation
Indices: 46268347--46268395 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
46268337 AAATCTTGGG
*
46268347 ACGAAACAAGGTGTGCGTGTT
1 ACGACACAAGGTGTGCGTGTT
* *
46268368 GCGACACAAGGGTGTGTGTGTT
1 ACGACACAA-GGTGTGCGTGTT
46268390 ACGACA
1 ACGACA
46268396 TAGACACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.27, C:0.16, G:0.35, T:0.22
Consensus pattern (21 bp):
ACGACACAAGGTGTGCGTGTT
Found at i:46275485 original size:14 final size:15
Alignment explanation
Indices: 46275466--46275494 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46275456 AAATAAAGGC
46275466 AAGATTAAAT-AAAA
1 AAGATTAAATCAAAA
46275480 AAGATTAAATCAAAA
1 AAGATTAAATCAAAA
46275495 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCAAAA
Found at i:46277349 original size:94 final size:93
Alignment explanation
Indices: 46277274--46277718 Score: 568
Period size: 94 Copynumber: 4.7 Consensus size: 93
46277264 ACTCACTGTC
** * ** *
46277274 ACTTCAGAGAGATAAGATTTGCTATGATAACTTCAATCCAACCCATTGCAACTTTAGGGGTATAG
1 ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
* *
46277339 GACTTGTAGTTTTATCTTGCTCCGCTGCA
66 GATTTGTAG-TTTATCTTGCTCCACTGCA
* * * *
46277368 ACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCACTGCAACTTTAGGGGTATAG
1 ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
*
46277433 GATTTGTAGCTTTTTCTTGC-CCTACTGCA
66 GATTTGTAG-TTTATCTTGCTCC-ACTGCA
* * ** * * * * *
46277462 ACTTCATAGAGATAAGAATCGTTATGGTAACTTCAATCTGATCCACTACAACTTTAAGGATACAG
1 ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
*
46277527 GATTTGTAGCTTTATCTTGCTCCACTCCA
66 GATTTGTAG-TTTATCTTGCTCCACTGCA
* *
46277556 ACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAG
1 ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
* *
46277621 GATTTGTCACTTTATCTTTCTCCACTGCA
66 GATTTGT-AGTTTATCTTGCTCCACTGCA
* * *
46277650 ACTTCAGGGAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAG
1 ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
46277715 GATT
66 GATT
46277719 AGCTATGGCA
Statistics
Matches: 307, Mismatches: 41, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
93 2 0.01
94 302 0.98
95 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (93 bp):
ACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGGGGTATAG
GATTTGTAGTTTATCTTGCTCCACTGCA
Found at i:46277753 original size:144 final size:144
Alignment explanation
Indices: 46277577--46277852 Score: 412
Period size: 144 Copynumber: 1.9 Consensus size: 144
46277567 ATAAGATTCA
* * *
46277577 CTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTCA-CTTTATCTTTC
1 CTATGGCAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGT-AGCTTCATCTTGC
* * * *
46277641 TCCACTGCAACTTCAGGGAGGTAAGATTCA-CTATGGTAACTTCAATCTGACCCACTGCAACTTC
65 TCCACTGCAACTTCAAGGAGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTTC
46277705 AGGGGTATAGGATTAG
129 AGGGGTATAGGATTAG
* * *
46277721 CTATGGCAACTTCAATCTGACCTACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CTATGGCAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
* *
46277786 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
66 CCACTGCAACTTCAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
46277851 GG
131 GG
46277853 AGATAAGATT
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
143 2 0.02
144 116 0.98
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (144 bp):
CTATGGCAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
CCACTGCAACTTCAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
GGGTATAGGATTAG
Found at i:46277855 original size:50 final size:49
Alignment explanation
Indices: 46277363--46277943 Score: 250
Period size: 50 Copynumber: 12.2 Consensus size: 49
46277353 TCTTGCTCCG
* * *
46277363 CTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCA
1 CTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGACCCA
* * * **
46277413 CTGCAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTT-TTTCTTG-CCCTA
1 CTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGACCC-A
** * *
46277457 CTGCAACTTCATAGAGATAAGAAT-CGTTATGGTAACTTCAATCTGATCCA
1 CTGCAACTTCAGGGAGATAAGATTAC--TATGGTAACTTCAATCTGACCCA
* * * * * * * *
46277507 CTACAACTTTAAGGATACAGGA-T--T-T-GTAGCTT-TATCTTG-CTCCA
1 CTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC-CCA
* **
46277551 CTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCA
1 CTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGACCCA
* * * **
46277601 CTGCAACTTCAGGG-GTATAGGA-T--T-T-GTCACTT-TATCTTTCTCCA
1 CTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATCTGAC-CCA
*
46277645 CTGCAACTTCAGGGAGGTAAGATTCACTATGGTAACTTCAATCTGACCCA
1 CTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGACCCA
* * *
46277695 CTGCAACTTCAGGG-GTATAGGATTAGCTATGGCAACTTCAATCTGACCTA
1 CTGCAACTTCAGGGAG-ATAAGATTA-CTATGGTAACTTCAATCTGACCCA
* * * *
46277745 CTGTAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTTC-ATCTTG-CTCCA
1 CTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC-CCA
* * * *
46277789 CTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAA
1 CTGCAACTTCAGGGAGATAAGATTA-CTATGGTAACTTCAATCTGACCCA
* *
46277839 CTACAACTTCAGGGAGATAAGA-T--T-T-GTAGCTTC-ATCTTG-CTCCA
1 CTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC-CCA
* * ** * ** *
46277883 CTGCAACTTCAAGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGACCCA
1 CTGCAACTTCAGGGAGATAAGA-TTACTATGGTAACTTCAATCTGACCCA
46277933 CTGCAACTTCA
1 CTGCAACTTCA
46277944 AAGGTATAAG
Statistics
Matches: 405, Mismatches: 71, Indels: 110
0.69 0.12 0.19
Matches are distributed among these distances:
43 21 0.05
44 137 0.34
45 12 0.03
46 5 0.01
48 4 0.01
49 14 0.03
50 192 0.47
51 20 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (49 bp):
CTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATCTGACCCA
Found at i:46277884 original size:238 final size:238
Alignment explanation
Indices: 46277484--46277943 Score: 622
Period size: 238 Copynumber: 1.9 Consensus size: 238
46277474 TAAGAATCGT
* *
46277484 TATGGTAACTTCAATCTGATCCACTACAACTTTAAGGATACAGGATTTGTAGCTTTATCTTGCTC
1 TATGGCAACTTCAATCTGATCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
* *
46277549 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
66 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
* * * * * * *
46277614 GGTATAGGATTTGTCACTTTATCTTTCTCCACTGCAACTTCAGGGAGGTAAGATTCACTATGGTA
131 GGTATAAGATTTGTCACTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCGTA
46277679 ACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
196 ACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
** * * *
46277722 TATGGCAACTTCAATCTGA-CCTACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 TATGGCAACTTCAATCTGATCC-ACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCT
** * *
46277786 CCACTGTAACTTTAAGGAGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTTCA
65 CCACTCCAACTTCAAAGAGATAAGATTCA-CTATGGTAACTTCAATCTGACCAACTACAACTTCA
** *
46277850 GGGAG-ATAAGATTTGT-AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCCT
129 GGG-GTATAAGATTTGTCA-CTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCAT
** *
46277913 CGTAGTTTCATTCTGACCCACTGCAACTTCA
192 CGTAACTTCAATCTGACCCACTGCAACTTCA
46277944 AAGGTATAAG
Statistics
Matches: 192, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
237 4 0.02
238 187 0.97
239 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (238 bp):
TATGGCAACTTCAATCTGATCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
GGTATAAGATTTGTCACTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATCGTA
ACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
Found at i:46277953 original size:94 final size:94
Alignment explanation
Indices: 46277692--46277964 Score: 298
Period size: 94 Copynumber: 2.9 Consensus size: 94
46277682 TCAATCTGAC
* * * * * * * *
46277692 CCACTGCAACTTC-AGGGGTATAGGATTAGCTATGGCAACTTCAATCTGACCTACTGTAACTTTA
1 CCACTGCAACTTCAAGGAG-ATAAGATTAGCCATCGTAACTTCAATCTGACCAACTGCAACTTCA
* *
46277756 GGGGTATAGGATTTGTAGCTTCATCTTGCT
65 AGGGTATAAGATTTGTAGCTTCATCTTGCT
* * * * *
46277786 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTC-A
1 CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTGCAACTTCAA
*
46277850 GGGAGATAAGATTTGTAGCTTCATCTTGCT
66 GGG-TATAAGATTTGTAGCTTCATCTTGCT
* * ** * *
46277880 CCACTGCAACTTCAAGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGACCCACTGCAACTTCAA
1 CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTGCAACTTCAA
* *
46277945 AGGTATAAGAATTGTAGCTT
66 GGGTATAAGATTTGTAGCTT
46277965 TAATCCAATC
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
93 3 0.02
94 140 0.93
95 7 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (94 bp):
CCACTGCAACTTCAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCAACTGCAACTTCAA
GGGTATAAGATTTGTAGCTTCATCTTGCT
Found at i:46280161 original size:18 final size:18
Alignment explanation
Indices: 46280138--46280179 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
46280128 GTAACAACAG
46280138 AGTAAGCTTTCAAGGCTT
1 AGTAAGCTTTCAAGGCTT
46280156 AGTAAGCTTTCAAGGCTT
1 AGTAAGCTTTCAAGGCTT
46280174 AGTAAG
1 AGTAAG
46280180 TCTTAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (18 bp):
AGTAAGCTTTCAAGGCTT
Found at i:46290146 original size:5 final size:5
Alignment explanation
Indices: 46290135--46290200 Score: 78
Period size: 5 Copynumber: 12.6 Consensus size: 5
46290125 AAATAGAAAG
* *
46290135 ATTTT GTTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTATTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT A-TTTT
*
46290183 ATTTT ATTTG ATTTT ATT
1 ATTTT ATTTT ATTTT ATT
46290201 AATTTAGGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
5 44 0.80
6 5 0.09
7 6 0.11
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:46290187 original size:28 final size:28
Alignment explanation
Indices: 46290147--46290206 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
46290137 TTTGTTTTGT
*
46290147 TTTATTTTATTTTATTTTATTTTATT-A
1 TTTATTTTATTTTATTTGATTTTATTAA
46290174 TTTATTTTTATTTTATTTGATTTTATTAA
1 TTTA-TTTTATTTTATTTGATTTTATTAA
46290203 TTTA
1 TTTA
46290207 GGTTAAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 21 0.70
29 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTATTTTATTTTATTTGATTTTATTAA
Found at i:46298376 original size:5 final size:5
Alignment explanation
Indices: 46298362--46298432 Score: 106
Period size: 5 Copynumber: 13.6 Consensus size: 5
46298352 AAATAGAAAG
*
46298362 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTATTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT A-TTTT
46298415 ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATT
46298433 AATTTAGGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
5 51 0.82
6 5 0.08
7 6 0.10
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:46314342 original size:40 final size:40
Alignment explanation
Indices: 46314214--46314344 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
46314204 TATGCTGGAA
* * * *
46314214 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
46314254 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
46314294 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
46314334 ATTATATCCGG
1 ATTATATCCGG
46314345 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:46321045 original size:16 final size:16
Alignment explanation
Indices: 46321026--46321056 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46321016 ATAATTGTCG
*
46321026 ATATTTATAATTTTTT
1 ATATTTAAAATTTTTT
46321042 ATATTTAAAATTTTT
1 ATATTTAAAATTTTT
46321057 ATCACTATGG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTAAAATTTTTT
Found at i:46321057 original size:15 final size:16
Alignment explanation
Indices: 46321026--46321058 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46321016 ATAATTGTCG
*
46321026 ATATTTATAATTTTTT
1 ATATTTATAAATTTTT
46321042 ATATTTA-AAATTTTT
1 ATATTTATAAATTTTT
46321057 AT
1 AT
46321059 CACTATGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTATAAATTTTT
Found at i:46324638 original size:41 final size:40
Alignment explanation
Indices: 46324562--46324647 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
46324552 CAAATACATT
*
46324562 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * **
46324603 TAAAACAATTATTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
46324643 TAAAA
1 TAAAA
46324648 AGTGATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:46324697 original size:34 final size:33
Alignment explanation
Indices: 46324628--46324697 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
46324618 AACAATACAC
* * *
46324628 AAATTGAAAATATAATAAAAAGTGATTATATTA
1 AAATTGAAAATAAAATAAAAAGTGATTAAAATA
*
46324661 AAATTGAAAATAAAATGTAAATA-TGATTAAAATA
1 AAATTGAAAATAAAA--TAAAAAGTGATTAAAATA
46324695 AAA
1 AAA
46324698 AAAAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 14 0.45
34 12 0.39
35 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (33 bp):
AAATTGAAAATAAAATAAAAAGTGATTAAAATA
Found at i:46328418 original size:142 final size:142
Alignment explanation
Indices: 46328218--46328501 Score: 532
Period size: 142 Copynumber: 2.0 Consensus size: 142
46328208 ATGTTGATAT
46328218 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
1 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
* * *
46328283 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGTGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTAAGTATAGCGCTATATTG
46328348 TAAAGTTGAAAA
131 TAAAGTTGAAAA
46328360 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
1 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
*
46328425 TATTTGAAATGAATTATATTATTATAAGGTATGCTAATGACCATGTTAAGTATAGCGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTAAGTATAGCGCTATATTG
46328490 TAAAGTTGAAAA
131 TAAAGTTGAAAA
46328502 GAATATGGGA
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (142 bp):
TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTAAGTATAGCGCTATATTG
TAAAGTTGAAAA
Found at i:46331217 original size:48 final size:46
Alignment explanation
Indices: 46331137--46331263 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 46
46331127 AGGGTATAAT
* * *
46331137 GCCGATGCCATGCCCCAGACATGGTCTTACACTGACTTTAACATATCCG-T
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGAC-TT-ACATAT-CGAG
* * * *
46331187 GCCGATGCATGTCTCAAACATTTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACATATCGAG
*
46331233 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
46331264 AGCTCTCGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
45 2 0.03
46 33 0.50
47 2 0.03
48 11 0.17
49 11 0.17
50 7 0.11
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACATATCGAG
Found at i:46331295 original size:47 final size:46
Alignment explanation
Indices: 46331232--46331360 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
46331222 TACATCTCGA
* *
46331232 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-TTCCAT
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAAT--AT
* * * *
46331279 -GCCAATGCCATGTCCCAGACATGGTCTTATATTGGCTCTCGTAATGT
1 GGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATAT
* *
46331326 GGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GGCCAATGCATGTCCCAGACATGTCTTACACTAGC
46331361 ATAGAATTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
46 16 0.24
47 29 0.43
48 21 0.31
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATAT
Found at i:46337655 original size:40 final size:40
Alignment explanation
Indices: 46337600--46337817 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
46337590 TGGATGATAA
* * *
46337600 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
46337640 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46337680 CCGAGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
46337720 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
46337760 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46337800 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46337818 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.11
40 140 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46355983 original size:43 final size:43
Alignment explanation
Indices: 46355934--46356049 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
46355924 CAATACGTAT
* *
46355934 CAATGCCATTGTCCCAGACAGGGCCTTACACGAAATCAT-AATA
1 CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATC-TCAATA
* * *
46355977 CGATGCCAATGTCTCAGAC-GTGGTCTTACACGCAATCTCAATA
1 CAATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCTCAATA
*
46356020 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACAGGGTCTTACA
46356050 TGTAATCACA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 60 0.97
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCTCAATA
Found at i:46360158 original size:40 final size:40
Alignment explanation
Indices: 46360113--46360279 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46360103 CGGAATATAA
46360113 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46360153 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46360193 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46360233 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46360272 CCGGATAT
1 CCGGATAT
46360280 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46368621 original size:40 final size:40
Alignment explanation
Indices: 46368576--46368742 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46368566 CGGAATATAA
46368576 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46368616 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46368656 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46368696 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46368735 CCGGATAT
1 CCGGATAT
46368743 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46376607 original size:40 final size:40
Alignment explanation
Indices: 46376562--46376729 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46376552 CGGAATATAA
46376562 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46376602 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46376642 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46376682 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46376722 CCGGATAT
1 CCGGATAT
46376730 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46391803 original size:12 final size:12
Alignment explanation
Indices: 46391788--46391818 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46391778 AACCACACAC
46391788 CCGTGTGCCAAG
1 CCGTGTGCCAAG
*
46391800 CCGTGTACCAAG
1 CCGTGTGCCAAG
46391812 CCGTGTG
1 CCGTGTG
46391819 AAATCTAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (12 bp):
CCGTGTGCCAAG
Found at i:46393059 original size:43 final size:42
Alignment explanation
Indices: 46392945--46393101 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
46392935 AGCTCGTACA
* *
46392945 ATGCC-ATATCCCAGATATGGTCTTACATGTAAATACGT-AT-CG
1 ATGCCAATATCCCAGACATGGTCTTACACG-AAAT-C-TAATACG
* *
46392987 ATGCCACTATCCCAAGACAAGGTCTTACACGAAATCATAATACG
1 ATGCCAATATCCC-AGACATGGTCTTACACGAAATC-TAATACG
* *
46393031 ATGCCAATGTCCCAGACATGGTCTTACAC-ACAATCTCAATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGA-AATCT-AATACG
* *
46393074 ATACCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATATCCCAGACATGGTCTTACA
46393102 TGTAATCACA
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
42 9 0.09
43 63 0.64
44 27 0.27
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCTAATACG
Found at i:46393702 original size:27 final size:27
Alignment explanation
Indices: 46393664--46393717 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46393654 TCAAAAATCC
46393664 CAATAGAAAACATATTAACACATATCT
1 CAATAGAAAACATATTAACACATATCT
*
46393691 CAATAGAAAACATATTAACATATATCT
1 CAATAGAAAACATATTAACACATATCT
46393718 TTCATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.28
Consensus pattern (27 bp):
CAATAGAAAACATATTAACACATATCT
Found at i:46395182 original size:30 final size:30
Alignment explanation
Indices: 46395146--46395208 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
46395136 GGGTCATACA
* *
46395146 CCCATGTATGTTGCCTGTGTGTGACACATG
1 CCCATGTATGTTGCCCGTGTGTGACACACG
*
46395176 CCCATGTGTGTTGCCCGTGTGTGACACACG
1 CCCATGTATGTTGCCCGTGTGTGACACACG
46395206 CCC
1 CCC
46395209 GTGTGGCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.14, C:0.30, G:0.27, T:0.29
Consensus pattern (30 bp):
CCCATGTATGTTGCCCGTGTGTGACACACG
Found at i:46404322 original size:15 final size:15
Alignment explanation
Indices: 46404302--46404333 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46404292 CATTTCACTA
*
46404302 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
46404317 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
46404332 TT
1 TT
46404334 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:46406106 original size:20 final size:20
Alignment explanation
Indices: 46406083--46406120 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
46406073 TTTTATTAAA
46406083 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
46406103 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
46406121 AGTTTAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:46407273 original size:30 final size:33
Alignment explanation
Indices: 46407239--46407302 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
46407229 AATATTAAAA
* *
46407239 TAAATCTT-TTTTATCTTAA-ATTTA-ATTATT
1 TAAATCTTATTTTATCGTAATATTCATATTATT
*
46407269 TAAATTTTATTTTATCGTAATATTCATATTATT
1 TAAATCTTATTTTATCGTAATATTCATATTATT
46407302 T
1 T
46407303 TGCCTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 10 0.36
32 4 0.14
33 7 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (33 bp):
TAAATCTTATTTTATCGTAATATTCATATTATT
Found at i:46408867 original size:2 final size:2
Alignment explanation
Indices: 46408855--46408900 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
46408845 AACATTTAAC
46408855 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46408897 -T AT A
1 AT AT A
46408901 ATTATATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 37 0.90
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46409429 original size:21 final size:22
Alignment explanation
Indices: 46409374--46409429 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
46409364 TTATGAATTG
*
46409374 TTAAAATATAATTAAAAATGTT
1 TTAAAACATAATTAAAAATGTT
*
46409396 TTAAAACATAATTAATAGA-GTT
1 TTAAAACATAATTAA-AAATGTT
46409418 TTAAAA-ATAATT
1 TTAAAACATAATT
46409430 TATTTCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 23 0.74
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAAAACATAATTAAAAATGTT
Found at i:46410109 original size:17 final size:19
Alignment explanation
Indices: 46410089--46410125 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46410079 ATTTGAAATC
46410089 TTTAAAA-AT-ATATAAAA
1 TTTAAAACATAATATAAAA
46410106 TTTAAAACATAATATAAAA
1 TTTAAAACATAATATAAAA
46410125 T
1 T
46410126 CAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAACATAATATAAAA
Found at i:46416222 original size:18 final size:18
Alignment explanation
Indices: 46416186--46416310 Score: 182
Period size: 18 Copynumber: 6.9 Consensus size: 18
46416176 AATCATATCT
*
46416186 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
46416205 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
46416223 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
46416240 TCTAATATTGCAATCATA
1 TCTAAGATTGCAATCATA
46416258 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
46416276 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
46416293 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
46416311 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
17 31 0.32
18 49 0.51
19 16 0.17
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:46416244 original size:35 final size:36
Alignment explanation
Indices: 46416186--46416310 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
46416176 AATCATATCT
46416186 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
46416223 TCTAAGATTG-TATCATATCTAATATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
46416258 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
46416293 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
46416311 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 52 0.63
36 20 0.24
37 10 0.12
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:46416265 original size:53 final size:54
Alignment explanation
Indices: 46416186--46416310 Score: 225
Period size: 53 Copynumber: 2.3 Consensus size: 54
46416176 AATCATATCT
*
46416186 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
46416240 TCTAATATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
46416293 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
46416311 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 52 0.78
54 15 0.22
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:46416916 original size:83 final size:83
Alignment explanation
Indices: 46416696--46417048 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
46416686 TTCGATTTGT
* * *
46416696 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
46416761 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
46416779 AAGGATGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTAAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
46416844 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* * *
46416863 AAGGATGCCAAACCATCTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCATCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
46416928 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
46416946 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
46417011 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
46417029 AAGGATGCCAAATCATCTTG
1 AAGGATGCCAAACCATCTTG
46417049 GATCTGCTTC
Statistics
Matches: 253, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
83 176 0.70
84 77 0.30
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Done.