Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 74 of 316
Found at i:22030456 original size:12 final size:12
Alignment explanation
Indices: 22030410--22030457 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
22030400 CTTATAAACT
22030410 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
22030422 TTCTATTAGGACT
1 TTAAATTAGGA-A
22030435 TTAAATTAGGAA
1 TTAAATTAGGAA
*
22030447 TTAGATTAGGA
1 TTAAATTAGGA
22030458 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:22033083 original size:38 final size:38
Alignment explanation
Indices: 22033028--22033107 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
22033018 TAGTTACAAA
*
22033028 AAATTTTAAATAATTATATGTAGGATGATAAAAGAAAT
1 AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
*
22033066 AAATTATAAATAGTTATATGTAGGATGATAAAAGAAAT
1 AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
22033104 AAAT
1 AAAT
22033108 GATTCAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.33
Consensus pattern (38 bp):
AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
Found at i:22044980 original size:18 final size:18
Alignment explanation
Indices: 22044957--22044999 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22044947 AAATAATTAC
22044957 GTAAGC-AATGAATGCTTA
1 GTAAGCTAA-GAATGCTTA
*
22044975 GTAAGCTCAGAATGCTTA
1 GTAAGCTAAGAATGCTTA
22044993 GTAAGCT
1 GTAAGCT
22045000 CATATAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (18 bp):
GTAAGCTAAGAATGCTTA
Found at i:22045000 original size:18 final size:18
Alignment explanation
Indices: 22044966--22045001 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22044956 CGTAAGCAAT
22044966 GAATGCTTAGTAAGCTCA
1 GAATGCTTAGTAAGCTCA
22044984 GAATGCTTAGTAAGCTCA
1 GAATGCTTAGTAAGCTCA
22045002 TATAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GAATGCTTAGTAAGCTCA
Found at i:22045707 original size:35 final size:35
Alignment explanation
Indices: 22045645--22045726 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
22045635 AATCTAACTG
22045645 AAACACACCAGATGCTCATAAGAGCTAATCCATCCC
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCC
* **
22045681 AAACACACCAATGCTCATAAGGGCTAATCCATCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCC
22045716 AAACACACCAA
1 AAACACACCAA
22045727 AACATAGAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
35 33 0.77
36 10 0.23
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCC
Found at i:22047076 original size:28 final size:29
Alignment explanation
Indices: 22047021--22047077 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22047011 TACAAGGGTT
*
22047021 TTCACATGACCAAGCACACGCCTGTGTCC
1 TTCACACGACCAAGCACACGCCTGTGTCC
*
22047050 TTCACACGACCTAGACACAC-CC-GTGTCC
1 TTCACACGACCAAG-CACACGCCTGTGTCC
22047078 AAAAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.25, C:0.40, G:0.16, T:0.19
Consensus pattern (29 bp):
TTCACACGACCAAGCACACGCCTGTGTCC
Found at i:22049860 original size:12 final size:12
Alignment explanation
Indices: 22049843--22049874 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22049833 ATATAACTTT
22049843 AATATTTATTAA
1 AATATTTATTAA
*
22049855 AATATTTATTAC
1 AATATTTATTAA
22049867 AATATTTA
1 AATATTTA
22049875 CAGCTCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTATTAA
Found at i:22052046 original size:16 final size:17
Alignment explanation
Indices: 22052025--22052094 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 17
22052015 TTTGGTTCAC
*
22052025 TGTAATGGAATAAG-GT
1 TGTAATTGAATAAGAGT
22052041 TGTAATTGAAT-AGAGT
1 TGTAATTGAATAAGAGT
*
22052057 TGTAATTGAAT-AGAGC
1 TGTAATTGAATAAGAGT
* *
22052073 TGTAATAGAAT-AGAGC
1 TGTAATTGAATAAGAGT
22052089 TGTAAT
1 TGTAAT
22052095 AAGTAATTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
15 2 0.04
16 48 0.96
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.33
Consensus pattern (17 bp):
TGTAATTGAATAAGAGT
Found at i:22052068 original size:32 final size:32
Alignment explanation
Indices: 22052024--22052094 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
22052014 GTTTGGTTCA
* *
22052024 CTGTAATGGAATA-AGGTTGTAATTGAATAGAG
1 CTGTAATGGAATAGA-GCTGTAATAGAATAGAG
* *
22052056 TTGTAATTGAATAGAGCTGTAATAGAATAGAG
1 CTGTAATGGAATAGAGCTGTAATAGAATAGAG
22052088 CTGTAAT
1 CTGTAAT
22052095 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.32
Consensus pattern (32 bp):
CTGTAATGGAATAGAGCTGTAATAGAATAGAG
Found at i:22052095 original size:16 final size:16
Alignment explanation
Indices: 22052041--22052095 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
22052031 GGAATAAGGT
* *
22052041 TGTAATTGAATAGAGT
1 TGTAATAGAATAGAGC
*
22052057 TGTAATTGAATAGAGC
1 TGTAATAGAATAGAGC
22052073 TGTAATAGAATAGAGC
1 TGTAATAGAATAGAGC
22052089 TGTAATA
1 TGTAATA
22052096 AGTAATTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:22052165 original size:44 final size:46
Alignment explanation
Indices: 22052080--22052169 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
22052070 AGCTGTAATA
*
22052080 GAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
***
22052126 GAATAGAACTGTAAT-AGT-ATTCTTTTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
22052170 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (46 bp):
GAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:22052779 original size:18 final size:18
Alignment explanation
Indices: 22052756--22052791 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22052746 ACGTGGTAGT
22052756 CCAACTAGATTTTAAGTA
1 CCAACTAGATTTTAAGTA
22052774 CCAACTAGATTTTAAGTA
1 CCAACTAGATTTTAAGTA
22052792 TATCTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTA
Found at i:22052875 original size:40 final size:40
Alignment explanation
Indices: 22052798--22052875 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
22052788 AGTATATCTG
* *
22052798 TTAATACATACTTCATCCGGTTAAATTATACAGTTTTCTA
1 TTAATACATACTTCATCCGGCTAAATTATACAATTTTCTA
*
22052838 TTAATACATACTTCATCCGGCTAAATTATATAATTTTC
1 TTAATACATACTTCATCCGGCTAAATTATACAATTTTC
22052876 ACGCAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (40 bp):
TTAATACATACTTCATCCGGCTAAATTATACAATTTTCTA
Found at i:22052998 original size:9 final size:10
Alignment explanation
Indices: 22052979--22053004 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22052969 ATCAAGAATC
22052979 AAACAAAAAA
1 AAACAAAAAA
22052989 AAACAAAAAA
1 AAACAAAAAA
22052999 AAACAA
1 AAACAA
22053005 CAGGTGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAACAAAAAA
Found at i:22054779 original size:17 final size:16
Alignment explanation
Indices: 22054759--22054817 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
22054749 ATATTTAATG
22054759 ATATAATATAT-AAAT
1 ATATAATATATAAAAT
*
22054774 ATAT-ATTTATAAGAAT
1 ATATAATATATAA-AAT
22054790 A-ATAATTATATAAAA-
1 ATATAA-TATATAAAAT
*
22054805 ATATAAAATATAA
1 ATATAATATATAA
22054818 TGGTTTAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 5 0.14
15 14 0.39
16 11 0.31
17 6 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
ATATAATATATAAAAT
Found at i:22055125 original size:18 final size:19
Alignment explanation
Indices: 22055098--22055206 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
22055088 ATTTAATGAC
22055098 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
*
22055117 ATAATATATAATATGAA-AGT
1 ATAATATATAAAAT-AATA-T
* *
22055137 AT-GTATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
22055156 ATAATATAT-AAATAATAT
1 ATAATATATAAAATAATAT
22055174 GAGTAATATATAAAATAATCAT
1 -A-TAATATATAAAATAAT-AT
22055196 ATAATATATAA
1 ATAATATATAA
22055207 TTTAAAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
18 17 0.23
19 18 0.24
20 30 0.40
21 8 0.11
22 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:22055161 original size:7 final size:7
Alignment explanation
Indices: 22055149--22055207 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
22055139 GTATGTGAAA
22055149 ATAATAT
1 ATAATAT
22055156 ATAATAT
1 ATAATAT
22055163 AT-A-A-
1 ATAATAT
22055167 ATAATAT
1 ATAATAT
22055174 GAGTAATAT
1 -A-TAATAT
22055183 ATAA-A-
1 ATAATAT
22055188 ATAATCAT
1 ATAAT-AT
22055196 ATAATAT
1 ATAATAT
22055203 ATAAT
1 ATAAT
22055208 TTAAAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
4 2 0.05
5 6 0.14
6 3 0.07
7 20 0.45
8 7 0.16
9 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:22055207 original size:27 final size:27
Alignment explanation
Indices: 22055149--22055222 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
22055139 GTATGTGAAA
*
22055149 ATAATATATAATAT-ATAAATAATATG
1 ATAATATATAAAATAATAAATAATATG
*
22055175 AGTAATATATAAAATAATCATATAATAT-
1 A-TAATATATAAAATAAT-AAATAATATG
* *
22055203 ATAATTTAAAAAATAA-AAAT
1 ATAATATATAAAATAATAAAT
22055223 GAAGCAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.08
26 1 0.03
27 25 0.62
28 3 0.08
29 8 0.20
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
ATAATATATAAAATAATAAATAATATG
Found at i:22062749 original size:17 final size:19
Alignment explanation
Indices: 22062727--22062772 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
22062717 TAATTACAAC
22062727 ATAATTTAATAA-A-TAAA
1 ATAATTTAATAACATTAAA
*
22062744 ATAA-TTACATAACATTAAT
1 ATAATTTA-ATAACATTAAA
22062763 ATAATTTAAT
1 ATAATTTAAT
22062773 GATTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 1 0.04
19 9 0.38
20 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATTTAATAACATTAAA
Found at i:22064721 original size:21 final size:20
Alignment explanation
Indices: 22064688--22064749 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
22064678 ATTGGGTGGA
22064688 TCAGCTTTCACGAGCTTCTGT
1 TCAGCTTT-ACGAGCTTCTGT
* *
22064709 TTAGCTCTTACGAGCTTATGT
1 TCAGCT-TTACGAGCTTCTGT
*
22064730 TCAGCTTT-CGAGATTCTGT
1 TCAGCTTTACGAGCTTCTGT
22064749 T
1 T
22064750 GGCGTATTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 21 0.60
22 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (20 bp):
TCAGCTTTACGAGCTTCTGT
Found at i:22079587 original size:16 final size:17
Alignment explanation
Indices: 22079555--22079587 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22079545 TTTATAAGTA
*
22079555 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
22079572 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22079588 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22080030 original size:92 final size:92
Alignment explanation
Indices: 22079883--22080093 Score: 341
Period size: 92 Copynumber: 2.3 Consensus size: 92
22079873 TGCCATAGTG
* * *
22079883 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
22079948 TTCTTTTCATGTCACGTTGCCACGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
22079975 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
22080040 TTCGTTTCATATCACGTTGTCATGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
22080067 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
22080094 ATATCAGAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCGTTTCATATCACGTTGCCACGGTA
Found at i:22080099 original size:46 final size:46
Alignment explanation
Indices: 22079873--22080095 Score: 295
Period size: 46 Copynumber: 4.8 Consensus size: 46
22079863 TTTGACATGA
* * * * *
22079873 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
*
22079919 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** *
22079965 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
22080011 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* **
22080057 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
22080096 ATCAGAGAGC
Statistics
Matches: 155, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 151 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:22086105 original size:13 final size:13
Alignment explanation
Indices: 22086087--22086123 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22086077 GCCTGAGACA
22086087 CGGGCGTGTGTCT
1 CGGGCGTGTGTCT
22086100 CGGGCGTGTGTCT
1 CGGGCGTGTGTCT
* *
22086113 CAGCCGTGTGT
1 CGGGCGTGTGT
22086124 GACACAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.24, G:0.43, T:0.30
Consensus pattern (13 bp):
CGGGCGTGTGTCT
Found at i:22086244 original size:30 final size:30
Alignment explanation
Indices: 22086208--22086264 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
22086198 GCACGTGGTA
22086208 GTGTGAGATCATTTCGAAGGGTACACGAGC
1 GTGTGAGATCATTTCGAAGGGTACACGAGC
* *
22086238 GTGTGAGATTATTTTGAAGGGTACACG
1 GTGTGAGATCATTTCGAAGGGTACACG
22086265 GCCTGACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.28
Consensus pattern (30 bp):
GTGTGAGATCATTTCGAAGGGTACACGAGC
Found at i:22091362 original size:26 final size:25
Alignment explanation
Indices: 22091281--22091362 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
22091271 CAACTACCTA
* *
22091281 TAAATAATTCAAATAAAAT-TATATT
1 TAAAAAATTAAAATAAAATCTA-ATT
*
22091306 TAGAAAATTAAAAT--AATCTAACTT
1 TAAAAAATTAAAATAAAATCTAA-TT
*
22091330 CCTAAAAGATTAAAATAAAATCTAATT
1 --TAAAAAATTAAAATAAAATCTAATT
22091357 TAAAAA
1 TAAAAA
22091363 TAAATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 16 0.36
26 12 0.27
27 2 0.04
28 7 0.16
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (25 bp):
TAAAAAATTAAAATAAAATCTAATT
Found at i:22092079 original size:29 final size:30
Alignment explanation
Indices: 22092037--22092095 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
22092027 ACTTAACAAG
22092037 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
22092066 CAAATTCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
22092096 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:22093279 original size:64 final size:64
Alignment explanation
Indices: 22093178--22093303 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
22093168 GGATAACTTT
** ** *
22093178 AGTCAAAAGTATAAAATGGCATGTATCAATTATTCAATAGATTAATGTGCCACATCAATAATAG
1 AGTCAAAAGTATAAAATGGCACATATCAAAAATTCAATAAATTAATGTGCCACATCAATAATAG
* * *
22093242 AGTCAAAAGTATAAAATGGCACATGTCAAAAATTCAATAAATTAATGTGTCACATCAGTAAT
1 AGTCAAAAGTATAAAATGGCACATATCAAAAATTCAATAAATTAATGTGCCACATCAATAAT
22093304 CTATTGGTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (64 bp):
AGTCAAAAGTATAAAATGGCACATATCAAAAATTCAATAAATTAATGTGCCACATCAATAATAG
Found at i:22094913 original size:31 final size:31
Alignment explanation
Indices: 22094878--22094965 Score: 74
Period size: 31 Copynumber: 2.8 Consensus size: 31
22094868 AAAGTTTTAG
22094878 TTTCACCCAATAAGTATTTTTGAAAG-TCTGA
1 TTTCA-CCAATAAGTATTTTTGAAAGTTCTGA
* * ** *
22094909 TTTCA--ACTATGTTCATTTTCAAAAGTTCTGG
1 TTTCACCAATAAG-T-ATTTTTGAAAGTTCTGA
22094940 TTTCACCTAATAAGTATTTTTGAAAG
1 TTTCACC-AATAAGTATTTTTGAAAG
22094966 CTCATCTTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 11
0.68 0.15 0.18
Matches are distributed among these distances:
28 4 0.10
29 1 0.02
30 9 0.21
31 14 0.33
32 9 0.21
33 1 0.02
34 4 0.10
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (31 bp):
TTTCACCAATAAGTATTTTTGAAAGTTCTGA
Found at i:22095142 original size:60 final size:60
Alignment explanation
Indices: 22095028--22095143 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
22095018 TTTATCCTGT
* * * ** *
22095028 TTCATTTTCAAAAGTTTTGGTTCAATCCAGTAAGTATTTTTGAAAGTTTGGTTCCGCAAG
1 TTCATTTTCAAAAGTTCTAGTTCAATCCAGTAAGTATTTTAGAAAGACTAGTTCCGCAAG
*
22095088 TTCATTTTCAAAAGTTCTAGTTCCA-CCTAGT-AGATATTTTAGAAAGACTAGTTCCG
1 TTCATTTTCAAAAGTTCTAGTTCAATCC-AGTAAG-TATTTTAGAAAGACTAGTTCCG
22095144 TCTAGGTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (60 bp):
TTCATTTTCAAAAGTTCTAGTTCAATCCAGTAAGTATTTTAGAAAGACTAGTTCCGCAAG
Found at i:22109098 original size:71 final size:71
Alignment explanation
Indices: 22108979--22109111 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
22108969 ATATTGGGAG
*
22108979 AATGGATATTATCCAAAAGAGATTAAGCATATCTTACGAGAGTAACTCATTTATAACAAGGTCAG
1 AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGTCAG
22109044 TGGACA
66 TGGACA
* * * *
22109050 AATGGATATTATCCCAAAGAGATTAAGCTTATCCTATGAGAGTCACTCATTTATAACAAGGT
1 AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGT
22109112 TATTAGACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (71 bp):
AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGTCAG
TGGACA
Found at i:22109415 original size:6 final size:6
Alignment explanation
Indices: 22109404--22109438 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
22109394 GGTTTTCTCC
22109404 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
22109439 TCATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:22109462 original size:63 final size:63
Alignment explanation
Indices: 22109359--22109489 Score: 178
Period size: 63 Copynumber: 2.1 Consensus size: 63
22109349 AGAATTGGTG
* * *
22109359 AAATGGAGAAATAGGAAACATTTGAAAATGATTAAGGTTTTCTCCAAAATGAAAATGAAAATGA
1 AAATGGAGAAATA-GAAACATTTAAAAATGATTAAGGTTTTCTCCAAAATAAAAATAAAAATGA
22109423 AAATGGAGAAAT-GAAATCATTTAAAAATGAATGT-A-GTTTTCTCCAAAATAAAAATAAAAATG
1 AAATGGAGAAATAGAAA-CATTTAAAAATG-AT-TAAGGTTTTCTCCAAAATAAAAATAAAAATG
22109485 A
63 A
22109486 AAAT
1 AAAT
22109490 AAAAAATGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
62 4 0.07
63 41 0.67
64 15 0.25
65 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (63 bp):
AAATGGAGAAATAGAAACATTTAAAAATGATTAAGGTTTTCTCCAAAATAAAAATAAAAATGA
Found at i:22109488 original size:12 final size:13
Alignment explanation
Indices: 22109467--22109502 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22109457 AGTTTTCTCC
*
22109467 AAAATAAAAAT-A
1 AAAATGAAAATAA
22109479 AAAATGAAAATAA
1 AAAATGAAAATAA
22109492 AAAATGAAAAT
1 AAAATGAAAAT
22109503 GTCCTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAATGAAAATAA
Found at i:22112316 original size:12 final size:12
Alignment explanation
Indices: 22112272--22112319 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
22112262 TATTTAAATT
*
22112272 TTTTATTAATTA
1 TTTTATTAATAA
*
22112284 TTGTATT--TAA
1 TTTTATTAATAA
22112294 TTTTATTAATAA
1 TTTTATTAATAA
22112306 TTTTATTAATAA
1 TTTTATTAATAA
22112318 TT
1 TT
22112320 AAAATGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 8 0.26
12 23 0.74
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTTTATTAATAA
Found at i:22112846 original size:59 final size:59
Alignment explanation
Indices: 22112771--22112895 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 59
22112761 AGGGTTTGAA
*
22112771 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCTCACATTGGAGCCTAAAC
1 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
* * ** * *
22112830 TTTTTTTTGTCTAAGTTAGGCCTTGAACTTGAAAATTGTTCCCACATTGGAGCTTAAAC
1 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
22112889 TTTTTTT
1 TTTTTTT
22112896 CATGTCCAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (59 bp):
TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
Found at i:22116138 original size:12 final size:12
Alignment explanation
Indices: 22116121--22116155 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22116111 GACCTTATAA
* *
22116121 TATATATGTGTG
1 TATATATATATG
22116133 TATATATATATG
1 TATATATATATG
22116145 TATATATATAT
1 TATATATATAT
22116156 AAATGCAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:22116139 original size:14 final size:14
Alignment explanation
Indices: 22116120--22116156 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22116110 AGACCTTATA
* *
22116120 ATATATATGTGTGT
1 ATATATATATGTAT
22116134 ATATATATATGTAT
1 ATATATATATGTAT
22116148 ATATATATA
1 ATATATATA
22116157 AATGCAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:22120328 original size:21 final size:21
Alignment explanation
Indices: 22120302--22120341 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22120292 CATTTGGGTG
*
22120302 TTCGATGCTTTTGAGAAAACT
1 TTCGATGCTTTTGAAAAAACT
22120323 TTCGATGCTTTTGAAAAAA
1 TTCGATGCTTTTGAAAAAA
22120342 GTCTAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
TTCGATGCTTTTGAAAAAACT
Found at i:22122284 original size:110 final size:110
Alignment explanation
Indices: 22122091--22122311 Score: 442
Period size: 110 Copynumber: 2.0 Consensus size: 110
22122081 TATATGTTTA
22122091 TGAATTTTTTCTCCTTTTCGTTTATCTTGTCTGTTCTTTATTTTATAGTCTTAGGGTGTTCTCAT
1 TGAATTTTTTCTCCTTTTCGTTTATCTTGTCTGTTCTTTATTTTATAGTCTTAGGGTGTTCTCAT
22122156 TTTTTTCTTCGTTGTTTATTACTAGCAGTTTTAACTTTAGGATGT
66 TTTTTTCTTCGTTGTTTATTACTAGCAGTTTTAACTTTAGGATGT
22122201 TGAATTTTTTCTCCTTTTCGTTTATCTTGTCTGTTCTTTATTTTATAGTCTTAGGGTGTTCTCAT
1 TGAATTTTTTCTCCTTTTCGTTTATCTTGTCTGTTCTTTATTTTATAGTCTTAGGGTGTTCTCAT
22122266 TTTTTTCTTCGTTGTTTATTACTAGCAGTTTTAACTTTAGGATGT
66 TTTTTTCTTCGTTGTTTATTACTAGCAGTTTTAACTTTAGGATGT
22122311 T
1 T
22122312 TTCGTGTTGA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (110 bp):
TGAATTTTTTCTCCTTTTCGTTTATCTTGTCTGTTCTTTATTTTATAGTCTTAGGGTGTTCTCAT
TTTTTTCTTCGTTGTTTATTACTAGCAGTTTTAACTTTAGGATGT
Found at i:22125117 original size:44 final size:44
Alignment explanation
Indices: 22125029--22125119 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
22125019 ATAGGTCAAA
* **
22125029 TAATATTAAAATAACCTACACTAATAAGAGTTTAGGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAAAAC
*
22125073 TAATATTAAAATAATCTACACTAATCAA-AGTTTAAGTGAAAAAC
1 TAATATTAAAATAACCTACACTAAT-AAGAGTTTAAGTGAAAAAC
22125117 TAA
1 TAA
22125120 AAATAGAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAAAAC
Found at i:22126293 original size:102 final size:103
Alignment explanation
Indices: 22126123--22126310 Score: 229
Period size: 102 Copynumber: 1.8 Consensus size: 103
22126113 TATCAATACA
* * * * * **
22126123 GTATCGATACTTTGTAGGTTTTGTGAGAAACATAATGCTATTTTGATATTGCTTTTAAGAAGGGG
1 GTATCGATACTTTGTAGGGTTTGTGAGAAACAAAATGCCACTTTGATATCGCTTTTAAGAAAAGG
22126188 TATCGA-AATTTCAAAAAATATTGACACTTAATCAAAAG
66 TATCGATAA-TTCAAAAAATATTGACACTTAATCAAAAG
* * * *
22126226 GTATCGATACTTAT-TAGGGTTTGTGA-AAACAAAATTCCACTTTGGTATCGTTTTTAAGAAAAT
1 GTATCGATACTT-TGTAGGGTTTGTGAGAAACAAAATGCCACTTTGATATCGCTTTTAAGAAAAG
*
22126289 GTATCGATAATTCAGAAAATAT
65 GTATCGATAATTCAAAAAATAT
22126311 CAATACTTGG
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
102 45 0.63
103 25 0.35
104 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (103 bp):
GTATCGATACTTTGTAGGGTTTGTGAGAAACAAAATGCCACTTTGATATCGCTTTTAAGAAAAGG
TATCGATAATTCAAAAAATATTGACACTTAATCAAAAG
Found at i:22128728 original size:36 final size:37
Alignment explanation
Indices: 22128660--22128734 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
22128650 AAAGAACCAT
22128660 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
1 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
22128697 TTTACATAGTTTAGAAATACAAAAAAA-GGCCTCTCA
1 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
22128733 TT
1 TT
22128735 AAATCATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (37 bp):
TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
Found at i:22137849 original size:25 final size:25
Alignment explanation
Indices: 22137818--22137867 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
22137808 CAGCATTGAG
**
22137818 AAAATCTGGGAAAGCATTGAGAAAA
1 AAAATCTAAGAAAGCATTGAGAAAA
22137843 AAAATCTAAGAAAGCATTGAGAAAA
1 AAAATCTAAGAAAGCATTGAGAAAA
22137868 TTTTTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (25 bp):
AAAATCTAAGAAAGCATTGAGAAAA
Found at i:22137867 original size:21 final size:21
Alignment explanation
Indices: 22137809--22137868 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
22137799 CTCCAAATTC
**
22137809 AGCATTGAGAAAATCTGGGAA
1 AGCATTGAGAAAATCTAAGAA
22137830 AGCATTGAGAAAAAAAATCTAAGAA
1 AGCATTGAG----AAAATCTAAGAA
22137855 AGCATTGAGAAAAT
1 AGCATTGAGAAAAT
22137869 TTTTTTGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 14 0.42
25 19 0.58
ACGTcount: A:0.52, C:0.08, G:0.22, T:0.18
Consensus pattern (21 bp):
AGCATTGAGAAAATCTAAGAA
Found at i:22138415 original size:10 final size:10
Alignment explanation
Indices: 22138400--22138429 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22138390 GAGAGAAGAA
22138400 GAAAAAAAAT
1 GAAAAAAAAT
*
22138410 GGAAAAAAAT
1 GAAAAAAAAT
22138420 GAAAAAAAAT
1 GAAAAAAAAT
22138430 TATTTTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:22139487 original size:38 final size:37
Alignment explanation
Indices: 22139405--22139510 Score: 115
Period size: 38 Copynumber: 2.8 Consensus size: 37
22139395 ACAATACATA
22139405 AACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
1 AACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
* * *
22139442 AGGCAGTAGACATGCTTAATATGTATTCAAT-TCAACAG
1 A-ACAGTAGACATGCTTAACATGTATTCAGTCT-AACAG
* * * *
22139480 TAACAGTAGGCATGCTGAGCATGTAATCAGT
1 -AACAGTAGACATGCTTAACATGTATTCAGT
22139511 AATACAGTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 2 0.04
38 53 0.95
39 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (37 bp):
AACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
Found at i:22144018 original size:26 final size:26
Alignment explanation
Indices: 22143987--22144041 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
22143977 CTTTCATTTT
* *
22143987 CATGTTGAACATCTCTCTGCCTTCAA
1 CATGTTGAACACCTCTCTACCTTCAA
22144013 CATGTTGAACACCTCTCTACCTTCAA
1 CATGTTGAACACCTCTCTACCTTCAA
22144039 CAT
1 CAT
22144042 CTCTAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.09, T:0.33
Consensus pattern (26 bp):
CATGTTGAACACCTCTCTACCTTCAA
Found at i:22166661 original size:19 final size:20
Alignment explanation
Indices: 22166637--22166693 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
22166627 CAATGACTAA
22166637 AATGGAAATGAGAAA-AATT
1 AATGGAAATGAGAAATAATT
*
22166656 AATGG--ATGATAAATAATT
1 AATGGAAATGAGAAATAATT
*
22166674 AATAGGAAAT-AAAAATAATT
1 AAT-GGAAATGAGAAATAATT
22166694 TTATGTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.22
18 7 0.22
19 7 0.22
20 9 0.28
21 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (20 bp):
AATGGAAATGAGAAATAATT
Found at i:22169438 original size:40 final size:40
Alignment explanation
Indices: 22169394--22169506 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
22169384 GTAATTTGGT
* * *
22169394 CAAGCCACTAGTAATGCAGATAAATTGCCAGTGGTACAGA
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
* * * *
22169434 CAAGCTACCAGTAATGCAAATAAACTGCTAGTAGTGCAGA
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
* * *
22169474 AAAGCTGCCAGAAATGCAGATAAACTGCCAGTG
1 CAAGCTACCAGTAATGCAGATAAACTGCCAGTG
22169507 ATGTAAAAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (40 bp):
CAAGCTACCAGTAATGCAGATAAACTGCCAGTGGTACAGA
Found at i:22182004 original size:20 final size:21
Alignment explanation
Indices: 22181965--22182004 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22181955 CACGCCACAC
22181965 GCCCGTGCTCGCCACCAACAT
1 GCCCGTGCTCGCCACCAACAT
22181986 GCCCGTG-T-GCCACCCAACA
1 GCCCGTGCTCGCCA-CCAACA
22182005 GCAGCTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (21 bp):
GCCCGTGCTCGCCACCAACAT
Found at i:22189318 original size:45 final size:45
Alignment explanation
Indices: 22189254--22189344 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
22189244 TGCTCGAGAG
22189254 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
1 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
22189299 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
1 TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
22189344 T
1 T
22189345 TGAATAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (45 bp):
TATGTGTCTACTGAGGAGATCATGTGTAAACGATTCGTTGACAGA
Found at i:22192000 original size:20 final size:20
Alignment explanation
Indices: 22191977--22192035 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
22191967 TAAACATGGT
22191977 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
22191997 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
22192017 AAGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
22192036 TGTATTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:22192169 original size:24 final size:24
Alignment explanation
Indices: 22192085--22192230 Score: 179
Period size: 25 Copynumber: 6.0 Consensus size: 24
22192075 GGAGGAAGTG
22192085 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
22192109 GATAAATGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
22192134 GATATAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
22192159 TAATAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
22192183 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
22192206 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
22192231 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 18 0.17
24 38 0.35
25 53 0.49
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:22192229 original size:72 final size:74
Alignment explanation
Indices: 22192089--22192230 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 74
22192079 GAAGTGTAAA
* * *
22192089 AGGGCTTATGCCCCAGTTATGATAAATGGCTTATGCCCCAGTTATGATATAGGGCTTATGCCCCA
1 AGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCA
22192154 GTTATTAAT
66 GTTATTAAT
* * *
22192163 AGGGCTTATGCCCTAGTTATTA-AAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCCTC
1 AGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-C
22192224 CAGTTAT
64 CAGTTAT
22192231 ATGATAAAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
71 8 0.13
72 24 0.40
73 8 0.13
74 20 0.33
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (74 bp):
AGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCA
GTTATTAAT
Found at i:22192459 original size:31 final size:31
Alignment explanation
Indices: 22192424--22192487 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
22192414 CGTTTACAGT
22192424 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
22192455 AAAGGCTTCGGCCTAGTGTTATGAAATCTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22192486 AA
1 AA
22192488 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22200221 original size:33 final size:34
Alignment explanation
Indices: 22200165--22200232 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
22200155 TGGTTAGATT
22200165 AAGTTAACTTTAATATATAAAATGATAAATAAAA
1 AAGTTAACTTTAATATATAAAATGATAAATAAAA
*
22200199 AAGTTAACTTTCA-ATATAAAATGATAAATAAAA
1 AAGTTAACTTTAATATATAAAATGATAAATAAAA
22200232 A
1 A
22200233 TTAAAGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (34 bp):
AAGTTAACTTTAATATATAAAATGATAAATAAAA
Found at i:22202955 original size:21 final size:21
Alignment explanation
Indices: 22202929--22202974 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
22202919 TGTTACATAG
* *
22202929 TGACTGTTTGAAAGCTGTTTC
1 TGACTGGTTGAAAGATGTTTC
22202950 TGACTGGTTGAAAGATGTTTC
1 TGACTGGTTGAAAGATGTTTC
22202971 TGAC
1 TGAC
22202975 CGTCAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (21 bp):
TGACTGGTTGAAAGATGTTTC
Found at i:22225988 original size:14 final size:14
Alignment explanation
Indices: 22225969--22225995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22225959 CTGTTTTTAT
22225969 TATGTGTGAAATTC
1 TATGTGTGAAATTC
22225983 TATGTGTGAAATT
1 TATGTGTGAAATT
22225996 TTCGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGTGTGAAATTC
Found at i:22226528 original size:15 final size:15
Alignment explanation
Indices: 22226508--22226537 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22226498 ATTATGAAAT
22226508 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
22226523 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
22226538 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:22228513 original size:3 final size:3
Alignment explanation
Indices: 22228505--22228539 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22228495 ACATACCTCA
* *
22228505 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTT TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
22228540 TGAGGAACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:22231932 original size:24 final size:22
Alignment explanation
Indices: 22231896--22231942 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
22231886 TATATAAGAT
**
22231896 TTTTAAATAAATTTGTTTAAAA
1 TTTTAAATAAATTAATTTAAAA
22231918 TTTTAATATTAAATTAATTTAAAA
1 TTTTAA-A-TAAATTAATTTAAAA
22231942 T
1 T
22231943 ATAAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTAAATAAATTAATTTAAAA
Found at i:22231979 original size:21 final size:22
Alignment explanation
Indices: 22231937--22231992 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
22231927 TAAATTAATT
* *
22231937 TAAAATATAAACATAATTTTTTA
1 TAAAA-ATAAAAATAATATTTTA
22231960 TAAAAATAAAAAT-ATATTTTA
1 TAAAAATAAAAATAATATTTTA
* *
22231981 AAAAAATTAAAA
1 TAAAAATAAAAA
22231993 CAATTTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.59
22 7 0.24
23 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAATAATATTTTA
Found at i:22231998 original size:20 final size:21
Alignment explanation
Indices: 22231955--22231998 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22231945 AAACATAATT
* *
22231955 TTTTATAAAAATAAAAATATA
1 TTTTAAAAAAATAAAAACATA
*
22231976 TTTTAAAAAAATTAAAACA-A
1 TTTTAAAAAAATAAAAACATA
22231996 TTT
1 TTT
22231999 AACAAGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTTAAAAAAATAAAAACATA
Found at i:22234079 original size:12 final size:12
Alignment explanation
Indices: 22234057--22234093 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
22234047 AATGATTAAT
22234057 TAAGTTCAAGTGG
1 TAAG-TCAAGTGG
22234070 TAAGTCAAGTGG
1 TAAGTCAAGTGG
22234082 TAAGTCAAGTGG
1 TAAGTCAAGTGG
22234094 CTTTTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (12 bp):
TAAGTCAAGTGG
Found at i:22242939 original size:19 final size:19
Alignment explanation
Indices: 22242915--22242952 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22242905 AATTTGTCAC
22242915 TGTTATTGGAGTATGCTAA
1 TGTTATTGGAGTATGCTAA
22242934 TGTTATTGGAGTATGCTAA
1 TGTTATTGGAGTATGCTAA
22242953 GGGCTTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TGTTATTGGAGTATGCTAA
Found at i:22243288 original size:131 final size:131
Alignment explanation
Indices: 22243054--22243316 Score: 490
Period size: 131 Copynumber: 2.0 Consensus size: 131
22243044 AGGCACTTTT
*
22243054 CAATCAGCTGAAGTTGGTGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGACGTCA
1 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGACGTCA
*
22243119 GGACCGTCAGGTAGAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
66 GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
22243184 G
131 G
*
22243185 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGAGGTCA
1 CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGACGTCA
*
22243250 GGACTGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
66 GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
22243315 G
131 G
22243316 C
1 C
22243317 CTCATACATA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (131 bp):
CAATCAGCTGAAGTTGGAGAGATGGTTATAATTTGTAGTAGGTTTTAAGCTGAAAAATGACGTCA
GGACCGTCAGGTAAAGCTTTAGGTTGAAAAGTTTGGGCATTGAGATGGACCATAGAAGTGTTTTG
G
Found at i:22248218 original size:12 final size:12
Alignment explanation
Indices: 22248201--22248252 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
22248191 CTGTTATGAG
22248201 TAGCAA-TTCTGT
1 TAGCAAGTT-TGT
22248213 TAGCAAGTTTGT
1 TAGCAAGTTTGT
*
22248225 TAGCTAAGCTTGT
1 TAGC-AAGTTTGT
*
22248238 TAGCTAAGTCTGT
1 TAGC-AAGTTTGT
22248251 TA
1 TA
22248253 ACTAAGTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.37
13 22 0.63
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (12 bp):
TAGCAAGTTTGT
Found at i:22248260 original size:13 final size:13
Alignment explanation
Indices: 22248208--22248261 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
22248198 GAGTAGCAAT
22248208 TCTGTTAGC-AAG
1 TCTGTTAGCTAAG
*
22248220 TTTGTTAGCTAAG
1 TCTGTTAGCTAAG
22248233 -CTTGTTAGCTAAG
1 TC-TGTTAGCTAAG
*
22248246 TCTGTTAACTAAG
1 TCTGTTAGCTAAG
22248259 TCT
1 TCT
22248262 ATAAATACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.22
13 27 0.75
14 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (13 bp):
TCTGTTAGCTAAG
Found at i:22251917 original size:25 final size:26
Alignment explanation
Indices: 22251889--22251950 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
22251879 TTGTTATGAG
*
22251889 TAGCTAAGTCTGTTAGC-AAGTTTGT
1 TAGCTAAGTCTGTTAGCTAAGTCTGT
*
22251914 TAGCTAAGTTTGTTAGCTAAGTCTGT
1 TAGCTAAGTCTGTTAGCTAAGTCTGT
*
22251940 TAACTAAGTCT
1 TAGCTAAGTCT
22251951 ATAAATACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
TAGCTAAGTCTGTTAGCTAAGTCTGT
Found at i:22251922 original size:13 final size:13
Alignment explanation
Indices: 22251889--22251950 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
22251879 TTGTTATGAG
22251889 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
22251902 TAGC-AAGTTTGT
1 TAGCTAAGTCTGT
*
22251914 TAGCTAAGTTTGT
1 TAGCTAAGTCTGT
22251927 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
22251940 TAACTAAGTCT
1 TAGCTAAGTCT
22251951 ATAAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
12 11 0.24
13 34 0.76
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (13 bp):
TAGCTAAGTCTGT
Found at i:22253971 original size:13 final size:13
Alignment explanation
Indices: 22253914--22253969 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
22253904 TATGAGTAGT
22253914 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
22253927 -AAGTTTGTTAGC
1 TAAGTTTGTTAGC
22253939 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
* *
22253952 TAAGTCTGTTAAC
1 TAAGTTTGTTAGC
22253965 TAAGT
1 TAAGT
22253970 CTATAAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.30
13 28 0.70
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (13 bp):
TAAGTTTGTTAGC
Found at i:22259421 original size:18 final size:18
Alignment explanation
Indices: 22259382--22259424 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22259372 ATATTTTTAA
*
22259382 AAAAATATTAATTACCAT
1 AAAAATATTAAGTACCAT
*
22259400 AAAAATATT-AGTACGAT
1 AAAAATATTAAGTACCAT
22259417 GAAAAATA
1 -AAAAATA
22259425 ATTTCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (18 bp):
AAAAATATTAAGTACCAT
Found at i:22260666 original size:14 final size:13
Alignment explanation
Indices: 22260648--22260681 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22260638 CTTTTCTTCT
22260648 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
*
22260661 TCTCTTTCTTTTTG
1 T-TCTTTTTTTTTG
22260675 TTCTTTT
1 TTCTTTT
22260682 CCCTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTG
Found at i:22264782 original size:30 final size:30
Alignment explanation
Indices: 22264748--22264807 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22264738 ACTTAACAAG
*
22264748 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
22264778 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
22264808 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:22268846 original size:15 final size:15
Alignment explanation
Indices: 22268816--22268846 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22268806 TAATTGTAAT
22268816 AAATATTTATTATGA
1 AAATATTTATTATGA
*
22268831 AAATATTTATTTTGA
1 AAATATTTATTATGA
22268846 A
1 A
22268847 TATTTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
AAATATTTATTATGA
Found at i:22269829 original size:24 final size:24
Alignment explanation
Indices: 22269797--22269846 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
22269787 TCATAATCAA
* * *
22269797 ATACAAATGCATATACAGATTTAG
1 ATACAAATGCAGACACAGATATAG
22269821 ATACAAATGCAGACACAGATATAG
1 ATACAAATGCAGACACAGATATAG
22269845 AT
1 AT
22269847 GTAGTCATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (24 bp):
ATACAAATGCAGACACAGATATAG
Found at i:22272736 original size:18 final size:18
Alignment explanation
Indices: 22272713--22272748 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22272703 AATAAAGTTC
*
22272713 ATCATTTAAATTAATTAA
1 ATCATTTAAATCAATTAA
22272731 ATCATTTAAATCAATTAA
1 ATCATTTAAATCAATTAA
22272749 TAATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCATTTAAATCAATTAA
Found at i:22274996 original size:20 final size:21
Alignment explanation
Indices: 22274964--22275012 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
22274954 TGAAATACAT
22274964 AACAT-AT-ATATAAAAA-AA
1 AACATAATAATATAAAAATAA
22274982 CAACA-AATAATATAAAAATAA
1 -AACATAATAATATAAAAATAA
22275003 AACATAATAA
1 AACATAATAA
22275013 AGATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AACATAATAATATAAAAATAA
Found at i:22275112 original size:24 final size:25
Alignment explanation
Indices: 22275053--22275115 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 25
22275043 ATAAGAAAAA
22275053 TAATAAATATAATATA-AAGTAACG
1 TAATAAATATAATATATAAGTAACG
* *
22275077 T-ATAAA-AAAATATATAAGTAA-T
1 TAATAAATATAATATATAAGTAACG
22275099 TAATAAATATAATATAT
1 TAATAAATATAATATAT
22275116 GTGAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 8 0.24
23 16 0.48
24 9 0.27
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
TAATAAATATAATATATAAGTAACG
Found at i:22275123 original size:17 final size:18
Alignment explanation
Indices: 22275103--22275139 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22275093 AGTAATTAAT
*
22275103 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
22275120 AAATATAATAATATATGA
1 AAATATAATAATATATGA
22275138 AA
1 AA
22275140 GAGCTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:22277208 original size:83 final size:83
Alignment explanation
Indices: 22277069--22277590 Score: 785
Period size: 83 Copynumber: 6.2 Consensus size: 83
22277059 TTCGATTTGT
* *
22277069 AAGGATGTCAAATCATCTTGAATCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22277134 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
22277152 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22277217 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
22277235 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATAACTGCAATGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22277300 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
22277318 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
22277383 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
22277401 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
22277466 TTTGTTCTTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * * * * * * *
22277484 AAGGATACCAAATCATCTTAAATCTGCTTCAGTATAAACATCTGA-AGGTTAGATCTGCTATGTC
1 AAGGATGCCAAATCATCTTGAGTCTG-TT-TG-A-GAACATTTGAGA-GTCATATCTGCAATGTC
* *
22277548 CTCGATTTGTTTCTTGTAAACAC
61 CTCGATTTGTTCCTTGTAAGCAC
* *
22277571 AAGAATACCAAATCATCTTG
1 AAGGATGCCAAATCATCTTG
22277591 GATCTGCTTC
Statistics
Matches: 409, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
83 345 0.84
84 2 0.00
85 1 0.00
86 2 0.00
87 59 0.14
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:22283159 original size:45 final size:46
Alignment explanation
Indices: 22283092--22283215 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
22283082 CATATGACCT
*
22283092 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
22283135 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
22283181 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
22283216 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:22283198 original size:46 final size:45
Alignment explanation
Indices: 22283092--22283326 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
22283082 CATATGACCT
*
22283092 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
22283135 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
22283181 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
22283218 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
22283255 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
22283292 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
22283327 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:22283219 original size:37 final size:37
Alignment explanation
Indices: 22283177--22283353 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
22283167 AGCTGAAGCT
* **
22283177 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
22283214 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
22283251 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
22283288 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
22283325 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
22283354 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:22290853 original size:45 final size:46
Alignment explanation
Indices: 22290786--22290909 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
22290776 CATATGACCT
*
22290786 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
22290829 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
22290875 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
22290910 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:22290892 original size:46 final size:45
Alignment explanation
Indices: 22290786--22291020 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
22290776 CATATGACCT
*
22290786 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
22290829 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
22290875 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
22290912 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
22290949 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
22290986 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
22291021 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:22290913 original size:37 final size:37
Alignment explanation
Indices: 22290871--22291045 Score: 287
Period size: 37 Copynumber: 4.7 Consensus size: 37
22290861 AGCTGAAGCT
* *
22290871 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
22290908 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
22290945 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
22290982 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
* *
22291019 GCCACTTATCACTTTGTTTCTTGATCA
1 ACCACTTATCACTTTGTCTCTTGATCA
22291046 AAGTACTCAA
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:22299510 original size:16 final size:17
Alignment explanation
Indices: 22299479--22299512 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22299469 AATAAAAAAT
*
22299479 GAATACTACGATATAAA
1 GAATAATACGATATAAA
22299496 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
22299512 G
1 G
22299513 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:22300078 original size:21 final size:21
Alignment explanation
Indices: 22300047--22300096 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22300037 TGATATACAT
22300047 AACAT-AT-ATATAAAAAAAA
1 AACATAATAATATAAAAAAAA
*
22300066 CAACA-AATAATATAAAAATAA
1 -AACATAATAATATAAAAAAAA
22300087 AACATAATAA
1 AACATAATAA
22300097 AGATTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AACATAATAATATAAAAAAAA
Found at i:22300213 original size:17 final size:18
Alignment explanation
Indices: 22300193--22300229 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22300183 AGTAATTAAT
*
22300193 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
22300210 AAATATAATAATATATGA
1 AAATATAATAATATATGA
22300228 AA
1 AA
22300230 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:22305668 original size:29 final size:32
Alignment explanation
Indices: 22305636--22305703 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 32
22305626 TTAATTAAAA
22305636 TTTTAAAAAATA-TTTTTA-AAATTTTT-AAT
1 TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
**
22305665 TTTT-AAAAATAGTTTTTATATTTTTTTGAAT
1 TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
22305696 TTTTAAAA
1 TTTTAAAA
22305704 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 7 0.21
29 10 0.30
30 6 0.18
31 7 0.21
32 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
Found at i:22305687 original size:28 final size:30
Alignment explanation
Indices: 22305634--22305703 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
22305624 AATTAATTAA
*
22305634 AATTTTAAAAAATATTTTTAAAA-TTTTT-
1 AATTTTTAAAAATATTTTTAAAATTTTTTG
* *
22305662 AATTTTTAAAAATAGTTTTTATATTTTTTTG
1 AATTTTTAAAAATA-TTTTTAAAATTTTTTG
22305693 AATTTTTAAAA
1 AATTTTTAAAA
22305704 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.36
29 7 0.19
30 5 0.14
31 11 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
AATTTTTAAAAATATTTTTAAAATTTTTTG
Found at i:22307146 original size:16 final size:16
Alignment explanation
Indices: 22307086--22307147 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
22307076 TTTTGAAAAT
*
22307086 AATTTTTAAAATTCTA
1 AATTTTAAAAATTCTA
22307102 AATATTTATAGAAATTCTA
1 AAT-TTTA-A-AAATTCTA
* * *
22307121 AAATTCAAAAATTATA
1 AATTTTAAAAATTCTA
22307137 AATTTTAAAAA
1 AATTTTAAAAA
22307148 AAATCTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 19 0.51
17 4 0.11
18 4 0.11
19 10 0.27
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTTAAAAATTCTA
Found at i:22308883 original size:22 final size:22
Alignment explanation
Indices: 22308840--22308884 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22308830 GGCCTATTAT
* *
22308840 AAACCAAAGATAATAAATATAA
1 AAACCAAAGATAAAAAAAATAA
22308862 AAACCAAA-ATAAAAAACAATAA
1 AAACCAAAGATAAAAAA-AATAA
22308884 A
1 A
22308885 CGACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCAAAGATAAAAAAAATAA
Found at i:22309766 original size:19 final size:20
Alignment explanation
Indices: 22309724--22309767 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
22309714 ACACAACCCT
*
22309724 CGTACGCCACGCCACACCTC
1 CGTACGCCACGCCACACATC
22309744 CGTACGCCA-G-CACAGCATC
1 CGTACGCCACGCCACA-CATC
22309763 CGTAC
1 CGTAC
22309768 CTGCAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (20 bp):
CGTACGCCACGCCACACATC
Found at i:22312402 original size:132 final size:133
Alignment explanation
Indices: 22312109--22312392 Score: 421
Period size: 132 Copynumber: 2.2 Consensus size: 133
22312099 TCATTCATTC
* * *
22312109 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTG
* *
22312174 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
22312239 TTT
131 TTT
* * *
22312242 -AAAGTTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATTGTGCCATAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTG
* * *
22312306 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAA-TTTCATTCATAT-T
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
22312369 TTCT
131 TT-T
* *
22312373 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
22312393 GCAATATTCG
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
130 3 0.02
131 11 0.08
132 120 0.90
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (133 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
TTT
Found at i:22312415 original size:132 final size:133
Alignment explanation
Indices: 22312109--22312465 Score: 418
Period size: 132 Copynumber: 2.7 Consensus size: 133
22312099 TCATTCATTC
* *
22312109 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCATAACGTG
* *
22312174 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
22312239 TTT
131 TTT
* * * *
22312242 -AAAGTTCTTCAAAATGAAGACGAGATTCGATATTT-AGCAATTCGCGGAATTGTGCCATAACGT
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGA-CAATTCGCGGAATCGTGCCATAACGT
* * *
22312305 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAA-TTTCATTCATAT-
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATC
22312368 TTTCT
130 TTT-T
* * * * * ** * * * *
22312373 AAAAATTATTTAAAACGAAGGCAATATTCGGCGTTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCATAACGTG
* * ** *
22312437 CTGGGTCGTGATTTCTCGTTTGCTCAAAA
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAA
22312466 CGATCGAACA
Statistics
Matches: 189, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
130 3 0.02
131 49 0.26
132 136 0.72
133 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (133 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCATAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTTCACTCATATCT
TTT
Found at i:22316007 original size:41 final size:41
Alignment explanation
Indices: 22315962--22316183 Score: 324
Period size: 41 Copynumber: 5.4 Consensus size: 41
22315952 CGTTCCAAAA
* * * * *
22315962 AAAACGTCGGTAAAAA-CAGAGCATTCGCGGCGTTTTTTA-CT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGGT
* *
22316003 AAAACGCCGCTAAAAA-TAGAGCATTAGTGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
22316043 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* *
22316084 AAAACGCCGCTAAAAACCAGAGCATTAGCCGCGCTTTATGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
22316125 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
22316166 AAAACGCCGCTAAAAACC
1 AAAACGCCGCTAAAAACC
22316184 CCATAACCCC
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 4 0.02
40 17 0.10
41 145 0.87
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:22320242 original size:134 final size:133
Alignment explanation
Indices: 22320019--22320271 Score: 461
Period size: 134 Copynumber: 1.9 Consensus size: 133
22320009 ATGGTGATCC
22320019 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGCTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGCTTCTATCCAACTTATGTGTTTAGTG
22320084 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
22320149 TAT
131 TAT
* * *
22320152 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATTCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGCTTCTATCCAACTTATGTGTTTAGT
*
22320217 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTTACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
22320272 TGTTGAATTC
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 30 0.26
134 85 0.74
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGCTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:22322210 original size:24 final size:24
Alignment explanation
Indices: 22322183--22322250 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
22322173 ATTATTATTG
*
22322183 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
22322207 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
22322231 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
22322251 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:22322471 original size:15 final size:15
Alignment explanation
Indices: 22322427--22322482 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
22322417 AACGACATGT
22322427 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
22322443 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
22322456 ATATTATTTAATTAA
1 ATATTATTTAATTAA
22322471 ATATTATTTAAT
1 ATATTATTTAAT
22322483 CTCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:22322599 original size:9 final size:9
Alignment explanation
Indices: 22322587--22322760 Score: 120
Period size: 9 Copynumber: 19.6 Consensus size: 9
22322577 TATTTGATAT
*
22322587 CATAATTTA
1 CATAACTTA
22322596 CATAACTTA
1 CATAACTTA
* *
22322605 TATAACATA
1 CATAACTTA
*
22322614 TATAACTTA
1 CATAACTTA
22322623 CATAACTTA
1 CATAACTTA
* * *
22322632 TACAACCTA
1 CATAACTTA
22322641 CATAACTTA
1 CATAACTTA
*
22322650 TATAACTTA
1 CATAACTTA
*
22322659 TATAACTTA
1 CATAACTTA
* *
22322668 GATAA-ATA
1 CATAACTTA
*
22322676 TATAACTTA
1 CATAACTTA
22322685 CATAACTTA
1 CATAACTTA
*
22322694 TATAACTTA
1 CATAACTTA
* *
22322703 GATAA-ATA
1 CATAACTTA
* *
22322711 TATAATTTA
1 CATAACTTA
*
22322720 CATAA-ATA
1 CATAACTTA
* * *
22322728 TATATCATA
1 CATAACTTA
*
22322737 TCATAAATTA
1 -CATAACTTA
22322747 CATAACTTA
1 CATAACTTA
22322756 CATAA
1 CATAA
22322761 TACTTAAATA
Statistics
Matches: 130, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
8 17 0.13
9 108 0.83
10 5 0.04
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:22322609 original size:18 final size:18
Alignment explanation
Indices: 22322588--22322760 Score: 145
Period size: 18 Copynumber: 9.7 Consensus size: 18
22322578 ATTTGATATC
*
22322588 ATAATTTACATAACTTAT
1 ATAACTTACATAACTTAT
* * *
22322606 ATAACATATATAACTTAC
1 ATAACTTACATAACTTAT
* * * *
22322624 ATAACTTATACAACCTAC
1 ATAACTTACATAACTTAT
*
22322642 ATAACTTATATAACTTAT
1 ATAACTTACATAACTTAT
* *
22322660 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
22322677 ATAACTTACATAACTTAT
1 ATAACTTACATAACTTAT
* *
22322695 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
* *
22322712 ATAATTTACATAA-ATAT
1 ATAACTTACATAACTTAT
* * * *
22322729 ATATCATATCATAAATTAC
1 ATAACTTA-CATAACTTAT
22322748 ATAACTTACATAA
1 ATAACTTACATAA
22322761 TACTTAAATA
Statistics
Matches: 127, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
17 38 0.30
18 81 0.64
19 8 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAACTTACATAACTTAT
Found at i:22322679 original size:17 final size:17
Alignment explanation
Indices: 22322642--22322760 Score: 121
Period size: 17 Copynumber: 6.8 Consensus size: 17
22322632 TACAACCTAC
* *
22322642 ATAACTTATATAACTTAT
1 ATAACTTACATAA-ATAT
*
22322660 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
*
22322677 ATAACTTACATAACTTAT
1 ATAACTTACATAA-ATAT
*
22322695 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
*
22322712 ATAATTTACATAAATAT
1 ATAACTTACATAAATAT
* * *
22322729 ATATCATATCATAAATTAC
1 ATAACTTA-CATAAA-TAT
22322748 ATAACTTACATAA
1 ATAACTTACATAA
22322761 TACTTAAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
17 38 0.45
18 38 0.45
19 8 0.10
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAACTTACATAAATAT
Found at i:22328438 original size:21 final size:21
Alignment explanation
Indices: 22328405--22328455 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22328395 ACAACTTAGA
*
22328405 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
22328426 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
22328447 GCAGAGGCA
1 GCAGAGGCA
22328456 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:22328755 original size:31 final size:31
Alignment explanation
Indices: 22328709--22328775 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
22328699 TGGTTGTATT
* *
22328709 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
22328740 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
22328771 TTTTA
1 TTTTA
22328776 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:22328875 original size:43 final size:43
Alignment explanation
Indices: 22328849--22329012 Score: 240
Period size: 43 Copynumber: 3.8 Consensus size: 43
22328839 GTAAAAAAAG
* *
22328849 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
* *
22328892 CACCGCTAAAAGCCTTGACCTATAGCGGCGCTTTT-ACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCA-CACAAA
* * *
22328935 CGCCGGTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
*
22328978 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
22329013 TTCCAATAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
Found at i:22328973 original size:86 final size:86
Alignment explanation
Indices: 22328849--22329012 Score: 274
Period size: 86 Copynumber: 1.9 Consensus size: 86
22328839 GTAAAAAAAG
* *
22328849 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
1 CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
22328914 TAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAA
* * *
22328935 CGCCGGTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
*
22329000 TAGCGGCGTTTTT
66 TAGCGGCGCTTTT
22329013 TTCCAATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
TAGCGGCGCTTTTACCACAAA
Found at i:22329231 original size:16 final size:16
Alignment explanation
Indices: 22329200--22329283 Score: 64
Period size: 16 Copynumber: 5.1 Consensus size: 16
22329190 ACCTTTTACA
*
22329200 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
22329217 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** * *
22329233 ATCTTAATGAAAAAAT
1 AAAATACTAAAAAAAT
22329249 AAAATA-TGAAAAGAAAT
1 AAAATACT-AAAA-AAAT
22329266 AAAATAC-AAAAGAAAT
1 AAAATACTAAAA-AAAT
22329282 AA
1 AA
22329284 TTTTTTTGGG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.02
16 35 0.65
17 18 0.33
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:22329779 original size:151 final size:150
Alignment explanation
Indices: 22329330--22329832 Score: 684
Period size: 149 Copynumber: 3.4 Consensus size: 150
22329320 CTAAAAAAAT
22329330 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACTTAAAAAAATACAAAC
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA--TAAAAAAATAC-AAC
* * * * *
22329395 AAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACACTAAAATAATAAATTTAAA
63 AAATGGCCAAAATCAGAGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATAAATTTGAA
* *
22329460 ATACTATGTACTAAAATAATAT-A
127 ACATTATGTACTAAAATAATATAA
* ** *
22329483 AAAAATAAAATACGAAAATAGTATATTTTAAAAGATAAAATCTGAAAAT-AAAAAATAACAAAAA
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAAT-ACAACAA
* * *
22329547 AT-GTCAAAATCA-AGGTTATTTATTAAATTAATATAAAAAACACTTAAACAATACATTTGAAAC
65 ATGGCCAAAATCAGA-GTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAAC
22329610 ATTATGTACTAAAATAATATAA
129 ATTATGTACTAAAATAATATAA
*
22329632 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATGAAATCCAAAAATAAAAAAATTATCAACA
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAA-TA-CAACA
* *
22329697 AATGGCCAAAATCAGAGTTATTTATTAAATTAATAT-AAAAACAATTAAATAATATATTTGAAAC
64 AATGGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAAC
22329761 ATTATGTACTAAAAT-A-ATAA
129 ATTATGTACTAAAATAATATAA
* *
22329781 AAAAAT-AAATA-TAAAATAAGTATATTTTAAAAAATAAAATCCGAAAA-AAAAA
1 AAAAATAAAATACGAAAAT-AGTATATTTTAAAAAATAAAATCCAAAAATAAAAA
22329833 CCAACAAAGG
Statistics
Matches: 315, Mismatches: 26, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
147 10 0.03
148 75 0.24
149 84 0.27
150 20 0.06
151 51 0.16
152 29 0.09
153 46 0.15
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACAACAAA
TGGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAACAT
TATGTACTAAAATAATATAA
Found at i:22336005 original size:24 final size:23
Alignment explanation
Indices: 22335961--22336005 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
22335951 TATAAAAAAT
**
22335961 AATTATATTAAGAATTGTTATTA
1 AATTATATTAAGAATAATTATTA
*
22335984 AATTATATTTAATAATAATTAT
1 AATTATA-TTAAGAATAATTAT
22336006 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATTATATTAAGAATAATTATTA
Found at i:22336008 original size:26 final size:25
Alignment explanation
Indices: 22335978--22336069 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 25
22335968 TTAAGAATTG
22335978 TTATTAAATTATATTTAATAATAAT
1 TTATTAAATTATATTTAATAATAAT
* * * *
22336003 TATATTAAAATATGATTAAATTATTTTTTATTT
1 T-TATTAAATTAT-ATTTAA-TA----ATA-AT
22336036 TTATTAAATTATATTTAATAATAAT
1 TTATTAAATTATATTTAATAATAAT
22336061 CTTATTAAA
1 -TTATTAAA
22336070 CTTTAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 17
0.67 0.11 0.23
Matches are distributed among these distances:
25 2 0.04
26 20 0.40
27 5 0.10
28 2 0.04
30 2 0.04
31 5 0.10
32 12 0.24
33 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
TTATTAAATTATATTTAATAATAAT
Found at i:22336272 original size:16 final size:16
Alignment explanation
Indices: 22336225--22336275 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
22336215 TGAATTACTT
* *
22336225 ATTACAGTCCTATTCT
1 ATTACAGCCCTATTCC
22336241 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
22336257 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
22336273 ATT
1 ATT
22336276 CCAGTGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:22336425 original size:26 final size:26
Alignment explanation
Indices: 22336343--22336426 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
22336333 GGAACAAACT
* *
22336343 TTAAATACATTACAATATTAATCTAA
1 TTAAATACATTACAACATTAACCTAA
* * *
22336369 TTAAATAAATTA-ATCTAATTGGAACATTAA
1 TTAAATACATTACAAC--ATT--AAC-CTAA
22336399 TTAAATACATTACAACATTAACCTAA
1 TTAAATACATTACAACATTAACCTAA
22336425 TT
1 TT
22336427 GGAACAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
27 6 0.14
29 5 0.11
30 14 0.32
31 2 0.05
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAACCTAA
Found at i:22339385 original size:13 final size:13
Alignment explanation
Indices: 22339367--22339405 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
22339357 TTTTAGTTAC
22339367 TAATAATATATTA
1 TAATAATATATTA
*
22339380 TAATAATTTATTTA
1 TAATAATATA-TTA
22339394 TATATAATATAT
1 TA-ATAATATAT
22339406 AAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:22343529 original size:33 final size:33
Alignment explanation
Indices: 22343463--22343529 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
22343453 AAAAGTTTAA
**
22343463 TTATTATTTAATATAAAATAATTTATACGTATT
1 TTATTATTTAATATAAAATAATTTATAAATATT
* *
22343496 TTATTATTTATTATGAATATAATTTA-AAATATT
1 TTATTATTTAATAT-AAAATAATTTATAAATATT
22343529 T
1 T
22343530 AAATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TTATTATTTAATATAAAATAATTTATAAATATT
Found at i:22343637 original size:24 final size:23
Alignment explanation
Indices: 22343604--22343652 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
22343594 AGGTTATATT
22343604 ATTTAATATTAATATTAATATAA
1 ATTTAATATTAATATTAATATAA
* * *
22343627 ATTTAATTATTTATTTTATTATAA
1 ATTTAA-TATTAATATTAATATAA
22343651 AT
1 AT
22343653 ACATTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAATATTAATATTAATATAA
Found at i:22354812 original size:15 final size:15
Alignment explanation
Indices: 22354792--22354827 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
22354782 CTCGGTAGGA
*
22354792 GCTATTTTGTAAGGT
1 GCTATTATGTAAGGT
22354807 GCTATTATGTAAGGT
1 GCTATTATGTAAGGT
22354822 GCTATT
1 GCTATT
22354828 GATATCGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (15 bp):
GCTATTATGTAAGGT
Found at i:22358485 original size:25 final size:25
Alignment explanation
Indices: 22358432--22358485 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
22358422 GAATCAGTGT
* * * *
22358432 GCTCTCTCGAGTTGTAAATTGGTAT
1 GCTCTCACGAGTTGTAAATCGATAA
22358457 GCTCTCACGAGTTGTAAATCGATAA
1 GCTCTCACGAGTTGTAAATCGATAA
22358482 GCTC
1 GCTC
22358486 ATATGAGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GCTCTCACGAGTTGTAAATCGATAA
Done.