Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 97 of 333
Found at i:30852247 original size:5 final size:5
Alignment explanation
Indices: 30852223--30852266 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
30852213 TAGGATTCAG
* *
30852223 TTTT- TTTTC TTCTA TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
30852267 ATCTACTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:30852289 original size:14 final size:14
Alignment explanation
Indices: 30852229--30852294 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
30852219 TCAGTTTTTT
*
30852229 TTCTTCTATT-TTC
1 TTCTTCTTTTCTTC
30852242 TT-TTCTTTTCTT-
1 TTCTTCTTTTCTTC
*
30852254 TTCTTTTCTTTTCATC
1 TTC--TTCTTTTCTTC
* *
30852270 TACTTCCTTTCTTC
1 TTCTTCTTTTCTTC
30852284 TTCTTCTTTTC
1 TTCTTCTTTTC
30852295 CTCTATAGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 18 0.44
15 9 0.22
16 2 0.05
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTCTTTTCTTC
Found at i:30857667 original size:27 final size:27
Alignment explanation
Indices: 30857636--30857696 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
30857626 TTTATTAAAC
* *
30857636 TACCCCTAAGTATG-AAAATTACTGTTT
1 TACCCCTAAG-ATGCAAAATGACTGTTA
*
30857663 TACCCCT-AGGTGCAAAATGACTGTTA
1 TACCCCTAAGATGCAAAATGACTGTTA
30857689 TACCCCTA
1 TACCCCTA
30857697 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACTGTTA
Found at i:30858042 original size:20 final size:21
Alignment explanation
Indices: 30857999--30858044 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
30857989 ACTGTTTTGT
30857999 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
30858019 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
30858038 TATGGGC
1 TATGGGC
30858045 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:30863913 original size:28 final size:29
Alignment explanation
Indices: 30863870--30863984 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
30863860 TACCTGTATC
* *
30863870 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
30863898 TGACCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
30863927 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
**
30863956 TGGCCTGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
30863984 T
1 T
30863985 TCATGCTCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:30863931 original size:57 final size:57
Alignment explanation
Indices: 30863861--30863976 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
30863851 AATTTCACAT
* *
30863861 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGACCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCC-AATC
* * * **
30863918 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCTGTTAGGCCCAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAATC
30863975 AC
1 AC
30863977 ATTCATATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 28 0.55
58 23 0.45
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAATC
Found at i:30864065 original size:17 final size:18
Alignment explanation
Indices: 30864043--30864076 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30864033 TGCCTATTAT
30864043 GGGCCCAATA-GCCCATC
1 GGGCCCAATAGGCCCATC
*
30864060 GGGCCCATTAGGCCCAT
1 GGGCCCAATAGGCCCAT
30864077 TCCCGCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (18 bp):
GGGCCCAATAGGCCCATC
Found at i:30864221 original size:16 final size:16
Alignment explanation
Indices: 30864195--30864245 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
30864185 ATAGCCAAAC
*
30864195 TTTCAGCTTTTCGGCAT
1 TTTCGGCTTTTCGGC-T
*
30864212 TTT-GGCTTTTTGGCT
1 TTTCGGCTTTTCGGCT
* *
30864227 TTTCGGCATTTCGACT
1 TTTCGGCTTTTCGGCT
30864243 TTT
1 TTT
30864246 ACCGATACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 21 0.75
17 3 0.11
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCT
Found at i:30864244 original size:24 final size:24
Alignment explanation
Indices: 30864200--30864245 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30864190 CAAACTTTCA
* *
30864200 GCTTTTCGGCATTTTGGCTTTTTG
1 GCTTTTCGGCATTTCGACTTTTTG
30864224 GCTTTTCGGCATTTCGACTTTT
1 GCTTTTCGGCATTTCGACTTTT
30864246 ACCGATACAT
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:0.07, C:0.20, G:0.22, T:0.52
Consensus pattern (24 bp):
GCTTTTCGGCATTTCGACTTTTTG
Found at i:30870238 original size:21 final size:21
Alignment explanation
Indices: 30870196--30870239 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
30870186 CATTTACAAT
* *
30870196 AAAATACATAAGATTTTAAAA
1 AAAATACATAAAATTATAAAA
30870217 AAAATACATAAAAATTATAAAA
1 AAAATACAT-AAAATTATAAAA
30870239 A
1 A
30870240 TTAGTATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATACATAAAATTATAAAA
Found at i:30879263 original size:42 final size:42
Alignment explanation
Indices: 30879217--30879334 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
30879207 GTACCAATGT
* *
30879217 CATATCCCAGATATGGTATTACACGAAGTTTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
* * * * *
30879259 CATATCTCAGATATAGTCTTACACGTAGTCTCATGTTGATGT
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
*
30879301 CATATCCCATATATGGTCTTACAC-ATAGTCTCAT
1 CATATCCCAGATATGGTCTTACACGA-AGTCTCAT
30879335 TAACCTTCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
Found at i:30885323 original size:21 final size:21
Alignment explanation
Indices: 30885299--30885343 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
30885289 TGCCAATAGA
30885299 GTTAGAAAGGATCCACAATGT
1 GTTAGAAAGGATCCACAATGT
*
30885320 GTTAGAAAGGATCCATAATGT
1 GTTAGAAAGGATCCACAATGT
30885341 GTT
1 GTT
30885344 TCATGTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTAGAAAGGATCCACAATGT
Found at i:30887834 original size:51 final size:49
Alignment explanation
Indices: 30887769--30887914 Score: 157
Period size: 49 Copynumber: 2.9 Consensus size: 49
30887759 ATAACGAACC
* * * *
30887769 TATCTGGTAGGCATAGTAGCCTGCACTCAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * *
30887820 TTTCGGGTACGCATAGTAGACTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
30887869 TATCCGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
30887915 TCACAATAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 40 0.51
50 1 0.01
51 37 0.47
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:30892820 original size:85 final size:85
Alignment explanation
Indices: 30892653--30892821 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
30892643 ACTGAGTGAC
* * * *
30892653 AGTTTGTTTAATCTGCAAATATGTTGTACACCCACAACAAGTGGCAGTAACTGCAAGTATGTGGT
1 AGTTTATTTAATATGCAAATATGTTGCACACCCACAACAAGTGGCAGTAACTGCAAATATGTGGT
**
30892718 TCAATCACTAATTAAGTGGT
66 TCAATCACTAACCAAGTGGT
* * * * *
30892738 AGTTTATTTAATATGTAAATATGTTGCGCACCTATAACAAGTGGCAGTAATTGCAAATATGTGGT
1 AGTTTATTTAATATGCAAATATGTTGCACACCCACAACAAGTGGCAGTAACTGCAAATATGTGGT
* *
30892803 TCGATTA-TGAACCAAGTGG
66 TCAATCACT-AACCAAGTGG
30892822 CAGCTTGTCT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (85 bp):
AGTTTATTTAATATGCAAATATGTTGCACACCCACAACAAGTGGCAGTAACTGCAAATATGTGGT
TCAATCACTAACCAAGTGGT
Found at i:30894534 original size:17 final size:18
Alignment explanation
Indices: 30894493--30894534 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
30894483 TAATCTGAAA
30894493 TATGAAATTCATAAAAAT
1 TATGAAATTCATAAAAAT
*
30894511 TAT-AAATT-ATAAATAT
1 TATGAAATTCATAAAAAT
*
30894527 TCTGAAAT
1 TATGAAAT
30894535 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 9 0.43
18 3 0.14
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TATGAAATTCATAAAAAT
Found at i:30907030 original size:93 final size:93
Alignment explanation
Indices: 30906923--30907093 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
30906913 GCCCCTAAGT
* * *
30906923 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30906988 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
30907016 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30907081 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30907094 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:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:30907090 original size:46 final size:46
Alignment explanation
Indices: 30906918--30907090 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
30906908 AACCCGCCCC
* * * *
30906918 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
30906964 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
30907012 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
30907057 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30907091 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:30910202 original size:21 final size:20
Alignment explanation
Indices: 30910169--30910208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30910159 CTTTGAAATA
*
30910169 GGGCACATGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
30910189 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
30910209 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:30911446 original size:47 final size:44
Alignment explanation
Indices: 30911377--30911638 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 44
30911367 GGTATGATGC
* *
30911377 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT-C-TCAAGG
* * ** *
30911424 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATC-TCAAGG
* *
30911470 CGATG-CATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-T-CATCTCAAGG
* * * * *
30911515 CTAAT-CCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 C-GATGCCATGTCCCAGACATGTCTTACACT-G-GCTCATCTCAA-GG
* *
30911562 CAATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATAATATGG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATC-TCA-A-GG
30911609 CTGATG-CATGTCCCAGACATGTCTTACACT
1 C-GATGCCATGTCCCAGACATGTCTTACACT
30911639 AGCACACGAA
Statistics
Matches: 178, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.07
45 19 0.11
46 61 0.34
47 72 0.40
48 14 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (44 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCTCAAGG
Found at i:30912091 original size:23 final size:23
Alignment explanation
Indices: 30912061--30912107 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30912051 AACTTCTTCA
30912061 TATCTTAAGCCTAGAAGAACCCT
1 TATCTTAAGCCTAGAAGAACCCT
30912084 TATCTTAAGCCTAGAAGAACCCT
1 TATCTTAAGCCTAGAAGAACCCT
30912107 T
1 T
30912108 TTTACTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (23 bp):
TATCTTAAGCCTAGAAGAACCCT
Found at i:30914622 original size:20 final size:20
Alignment explanation
Indices: 30914586--30914655 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
30914576 CGTAAAACGA
*
30914586 TATCGATACCA-AGATAAAGG
1 TATCGATACTATA-ATAAAGG
* *
30914606 TTTCGATACTATAATAAAGA
1 TATCGATACTATAATAAAGG
* * *
30914626 TATCGATACTTTGATAAATG
1 TATCGATACTATAATAAAGG
*
30914646 TGTCGATACT
1 TATCGATACT
30914656 TTGAGAAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 39 0.98
21 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
TATCGATACTATAATAAAGG
Found at i:30914656 original size:20 final size:20
Alignment explanation
Indices: 30914628--30914675 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
30914618 AATAAAGATA
* *
30914628 TCGATACTTTGATAAATGTG
1 TCGATACTTTGAGAAAAGTG
30914648 TCGATACTTTGAGAAAAGTG
1 TCGATACTTTGAGAAAAGTG
*
30914668 TTGATACT
1 TCGATACT
30914676 ATAAGCAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGATACTTTGAGAAAAGTG
Found at i:30922175 original size:24 final size:22
Alignment explanation
Indices: 30922148--30922192 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
30922138 ACATCTAACC
*
30922148 AATATATATCTTAAAGCAAGAGT
1 AATA-ATAGCTTAAAGCAAGAGT
30922171 -A-AATAGCTTAAAGCAAGAGT
1 AATAATAGCTTAAAGCAAGAGT
30922191 AA
1 AA
30922193 ATAGCTAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
20 17 0.85
21 2 0.10
22 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (22 bp):
AATAATAGCTTAAAGCAAGAGT
Found at i:30922182 original size:20 final size:20
Alignment explanation
Indices: 30922157--30922198 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30922147 CAATATATAT
30922157 CTTAAAGCAAGAGTAAATAG
1 CTTAAAGCAAGAGTAAATAG
30922177 CTTAAAGCAAGAGTAAATAG
1 CTTAAAGCAAGAGTAAATAG
30922197 CT
1 CT
30922199 AGCCATGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (20 bp):
CTTAAAGCAAGAGTAAATAG
Found at i:30934735 original size:19 final size:20
Alignment explanation
Indices: 30934711--30934749 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
30934701 TCTTATTTTT
30934711 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
30934730 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
30934750 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:30934767 original size:25 final size:23
Alignment explanation
Indices: 30934711--30934775 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
30934701 TCTTATTTTT
*
30934711 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
30934730 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
30934753 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
30934776 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:30942528 original size:30 final size:30
Alignment explanation
Indices: 30942471--30942530 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30942461 CACATGGGTA
*
30942471 GACACAGGGGCGTGTGTCTAGGCCGTGTGT
1 GACACAGGGGCGTGTGTCCAGGCCGTGTGT
*
30942501 GACACAGGGGCGTGTGATCCA-GTCGTGTGT
1 GACACAGGGGCGTGTG-TCCAGGCCGTGTGT
30942531 TCCCTGCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.15, C:0.20, G:0.42, T:0.23
Consensus pattern (30 bp):
GACACAGGGGCGTGTGTCCAGGCCGTGTGT
Found at i:30947796 original size:42 final size:42
Alignment explanation
Indices: 30947750--30947839 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
30947740 TATACGGGAC
* * * *
30947750 CTCATATCGATGCCATTTCCCAGACATAGTCTTACACGAAAT
1 CTCATATCAACGCCATATCCCAAACATAGTCTTACACGAAAT
* * *
30947792 CTCATATCAACGCCATATCCCAAATATGGTCTTACATGAAAT
1 CTCATATCAACGCCATATCCCAAACATAGTCTTACACGAAAT
*
30947834 CACATA
1 CTCATA
30947840 CCGAGGTCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (42 bp):
CTCATATCAACGCCATATCCCAAACATAGTCTTACACGAAAT
Found at i:30947917 original size:48 final size:48
Alignment explanation
Indices: 30947860--30948031 Score: 202
Period size: 48 Copynumber: 3.6 Consensus size: 48
30947850 TGCTATATCT
* * * *
30947860 CAGATATGGTCTTACATTGGCACACATATCAATGCCGGTGCCATGTCC
1 CAGACATGGTCTTACATTGGCTCTCATATCAATGCCGATGCCATGTCC
* * * **
30947908 CGGACATGGTCTTACACTAGCTCTCATATCAATGTTGATGCCATGTCC
1 CAGACATGGTCTTACATTGGCTCTCATATCAATGCCGATGCCATGTCC
* * *
30947956 CAAACATGGCCTTACACTAGG-TCTCATATCAATGCCGATGCCATGTCC
1 CAGACATGGTCTTACA-TTGGCTCTCATATCAATGCCGATGCCATGTCC
* *
30948004 CAGACATGGTCTTACACTGGTTCTCATA
1 CAGACATGGTCTTACATTGGCTCTCATA
30948032 AATCGTGGTG
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 2 0.02
48 98 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
CAGACATGGTCTTACATTGGCTCTCATATCAATGCCGATGCCATGTCC
Found at i:30951106 original size:23 final size:23
Alignment explanation
Indices: 30951076--30951125 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
30951066 AAAGATTACA
30951076 AACTCCTTTCCCGGCTCAAGTTG
1 AACTCCTTTCCCGGCTCAAGTTG
30951099 AACTCCTTTCCCGGCTCAAGTTG
1 AACTCCTTTCCCGGCTCAAGTTG
30951122 AACT
1 AACT
30951126 AACACTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (23 bp):
AACTCCTTTCCCGGCTCAAGTTG
Found at i:30955574 original size:42 final size:42
Alignment explanation
Indices: 30955528--30955699 Score: 148
Period size: 42 Copynumber: 4.0 Consensus size: 42
30955518 TCTACATACT
* * *
30955528 GATGCCATATCCCAAATATGGTCTTATAC-AAAGTCTCATGTC
1 GATGCCATATCCCAGACATGGTCTTATACGAAA-TCTCATATC
* * * *
30955570 GATGCCAATGCCATGTCCCAGACATGATCTTATACGGAACCTTATATC
1 GATGCC-AT---A--TCCCAGACATGGTCTTATACGAAATCTCATATC
* *
30955618 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
1 GATGCCATATCCCAGACATGGTCTTATACGAAATCTCATATC
* * * * *
30955660 AATGCCATATCCCAGATATGGTCTTACATGAAATCACATA
1 GATGCCATATCCCAGACATGGTCTTATACGAAATCTCATA
30955700 CCGAGGCTGA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 69 0.66
43 2 0.02
46 1 0.01
47 2 0.02
48 29 0.28
49 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTATACGAAATCTCATATC
Found at i:30955733 original size:132 final size:132
Alignment explanation
Indices: 30955490--30955733 Score: 287
Period size: 132 Copynumber: 1.8 Consensus size: 132
30955480 AATGCCAAAT
* * ** * *
30955490 CCATGTCCCCGACATGGTCTTACATGGGTCTACATACTGATGCCATATCCCAAATATGGTCTTAT
1 CCATGTCCCAGACATGGTCTTACACGAATCTACATACTAATGCCATATCCCAAATATGGTCTTAC
* ** * *
30955555 ACAAAGTCTCATGTCGATGCCAATGCCATGTCCCAGACATGATCTTATACGGAACCTTATATCGA
66 ACAAAGTCACATACCGAGGCCAATGCCATATCCCAGACATGATCTTATACGGAACCTTATATCGA
30955620 TG
131 TG
*
30955622 CCATGTCCCAGACATGGTCTTACACGAAATCT-CATA-TCAATGCCATATCCCAGATATGGTCTT
1 CCATGTCCCAGACATGGTCTTACACG-AATCTACATACT-AATGCCATATCCCAAATATGGTCTT
* ** * *
30955685 ACATGAAA-TCACATACCGAGGCTGATGCCATATCCCAGATATGGTCTTA
64 ACA-CAAAGTCACATACCGAGGCCAATGCCATATCCCAGACATGATCTTA
30955734 CACTAGCACA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
131 1 0.01
132 85 0.92
133 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (132 bp):
CCATGTCCCAGACATGGTCTTACACGAATCTACATACTAATGCCATATCCCAAATATGGTCTTAC
ACAAAGTCACATACCGAGGCCAATGCCATATCCCAGACATGATCTTATACGGAACCTTATATCGA
TG
Found at i:30955796 original size:48 final size:48
Alignment explanation
Indices: 30955616--30955891 Score: 244
Period size: 48 Copynumber: 5.9 Consensus size: 48
30955606 GAACCTTATA
* **
30955616 TCGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC-A--
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACG
* * ** * * *
30955661 ---ATGCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGA-G
1 TCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCAACG
* * * * * *
30955705 GCTGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAATG
1 TC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACG
* * * * *
30955754 CCAATGCCATGTCCTAGATATGGTCTTACACTTGCTCTCATATCAACG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACG
* * * *
30955802 TCGATGCCATGTCCCAGACATGGTCTTTCTCTGGCTCTCATATCAACA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACG
*
30955850 TCGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
30955892 AATCGTGGTG
Statistics
Matches: 192, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
42 35 0.18
43 1 0.01
48 153 0.80
49 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACG
Found at i:30957511 original size:80 final size:80
Alignment explanation
Indices: 30957318--30957519 Score: 309
Period size: 80 Copynumber: 2.5 Consensus size: 80
30957308 ACCCAAGTAT
* * *
30957318 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCGTAGCCCGTATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACGTAGCCCGGATATAGT
30957382 CACTAGCATAAATGC
66 CACTAGCATAAATGC
** * *
30957397 CTTCGGGACTTAGCCCGGATATAGTC-GTTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACGTAGCCCGGATATAG
30957461 TCACTAGCATAAATGC
65 TCACTAGCATAAATGC
*
30957477 CTTCGGGACTTAGCCCAGATATAGCAACTCGCACAAATGCCTT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTT
30957520 TGGATCTTAG
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.12
80 95 0.87
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACGTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:30957529 original size:40 final size:40
Alignment explanation
Indices: 30957318--30957519 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
30957308 ACCCAAGTAT
* *
30957318 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
30957357 CTTCGGGTCGTAGCCCGTATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
**
30957397 CTTCGGGACTTAGCCCGGATATAGTCGTTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30957437 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
30957477 CTTCGGGACTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
30957517 CTT
1 CTT
30957520 TGGATCTTAG
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 11 0.08
40 130 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30976586 original size:47 final size:47
Alignment explanation
Indices: 30976446--30976860 Score: 632
Period size: 47 Copynumber: 8.7 Consensus size: 47
30976436 TTAGGATTCT
* * *
30976446 ATGTGATGGATGTGAACATGTATATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
30976495 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
30976544 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30976591 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30976638 ATGTGATCAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30976685 ATGTGATGAATGTGAAAGTATATATATGTGATAAGACCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30976732 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
30976779 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30976826 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30976861 TCTCGAAGGG
Statistics
Matches: 341, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 279 0.82
48 1 0.00
49 61 0.18
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:30977048 original size:37 final size:37
Alignment explanation
Indices: 30976979--30977057 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30976969 CCGAGCTCTA
* * * *
30976979 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
*
30977016 AAGACCCGATAACTTCGCGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
30977053 AAGAC
1 AAGAC
30977058 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:30978327 original size:40 final size:40
Alignment explanation
Indices: 30978272--30978501 Score: 388
Period size: 40 Copynumber: 5.8 Consensus size: 40
30978262 GAGAATTGAG
30978272 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30978312 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30978352 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30978392 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30978432 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
30978472 AGTGATATATCCGTGCTAAACCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
30978502 TAATCATGCT
Statistics
Matches: 181, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:30982354 original size:47 final size:47
Alignment explanation
Indices: 30982214--30982675 Score: 717
Period size: 47 Copynumber: 9.7 Consensus size: 47
30982204 TTAGGATTCT
* *
30982214 ATGTGATGGATGTGAACATGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
30982263 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
30982312 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
30982359 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30982406 ATGTGATGAATATGAAAGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30982453 ATGTGATGAATGTGAAAGTATATATATGTGATAAGACCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30982500 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30982547 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
30982594 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
30982641 ACGTGATGGATGTGAAAGTGTATAAATGTCATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30982676 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 324 0.84
48 1 0.00
49 62 0.16
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:30982850 original size:37 final size:37
Alignment explanation
Indices: 30982794--30982872 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30982784 CCGAGCTCTA
* * *
30982794 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30982831 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30982868 AAGAC
1 AAGAC
30982873 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30987790 original size:79 final size:78
Alignment explanation
Indices: 30987689--30987911 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 78
30987679 GCTCCTCGTT
* *
30987689 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
30987754 AATTAGTATCTCGCA
64 AATTAGTATCTCGCA
*
30987769 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
30987832 AATTAGTATCTCGCA
64 AATTAGTATCTCGCA
* * * * *
30987847 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
30987910 GA
63 GA
30987912 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 49 0.39
79 57 0.45
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTATCTCGCA
Found at i:30987803 original size:39 final size:40
Alignment explanation
Indices: 30987689--30987911 Score: 284
Period size: 39 Copynumber: 5.7 Consensus size: 40
30987679 GCTCCTCGTT
* *
30987689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
*
30987729 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30987769 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30987808 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
30987847 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
30987888 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30987912 CATCATTCAA
Statistics
Matches: 168, Mismatches: 7, Indels: 17
0.88 0.04 0.09
Matches are distributed among these distances:
38 2 0.01
39 92 0.55
40 64 0.38
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:30990640 original size:47 final size:47
Alignment explanation
Indices: 30990411--30991010 Score: 809
Period size: 47 Copynumber: 12.5 Consensus size: 47
30990401 AATATAAATG
*
30990411 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
*
30990460 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
30990509 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
30990558 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
30990607 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
30990654 TGTGAAAGTGTATATATATATGTGATAAGGCCGAAT-GCCAATGTGATGAA
1 TGTGAAAGTG----TATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
30990704 TGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
1 TGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* * *
30990751 TGTGAACA-TGCATATATGAGATAAAGCCGAATGGCCAATGTGATGAA
1 TGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
*
30990798 TGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
1 TGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
30990845 TGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
1 TGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* * *
30990892 TGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATATGATGAA
1 TGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
*
30990939 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* *
30990986 TGTGGAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
30991011 TCCCGAAGGG
Statistics
Matches: 517, Mismatches: 25, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
46 22 0.04
47 294 0.57
49 156 0.30
50 22 0.04
51 23 0.04
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
Found at i:31006056 original size:47 final size:47
Alignment explanation
Indices: 31005997--31006592 Score: 676
Period size: 47 Copynumber: 12.4 Consensus size: 47
31005987 GATGTACAAG
* *
31005997 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006044 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006091 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
31006138 GTGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006185 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006232 GT-TCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGT-ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006279 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006326 GTGCATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA
1 GTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * *
31006374 GTGTGTATATGTGATAAGGCCATGGATGG-AAATGATAAGTGATAATGTGATAA
1 GTGTATATATGTGATAAGGCC-T-AATGGCCAATG-TGA-TG--AATGTGA-AA
* * * * * ** **
31006427 TGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 -GT----GTATATATGTGATA-AGGCCTAATGG-CCAATGTGATGAATGTGAAA
* * * * *
31006481 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
31006528 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
31006575 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31006593 TCCCAAAGGG
Statistics
Matches: 463, Mismatches: 66, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
46 17 0.04
47 335 0.72
48 16 0.03
49 49 0.11
51 6 0.01
53 4 0.01
54 4 0.01
55 7 0.02
57 4 0.01
58 14 0.03
59 7 0.02
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:31006162 original size:94 final size:94
Alignment explanation
Indices: 31005997--31006592 Score: 879
Period size: 94 Copynumber: 6.2 Consensus size: 94
31005987 GATGTACAAG
31005997 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
31006062 GCCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
31006091 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
*
31006156 GTCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
*
31006185 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
*
31006250 GTCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
31006279 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGTGATA
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATA--TGTGATA
31006344 AGGCCGAATGGCCAATGTGATGAATGTG-AA
64 AGGCCGAATGGCCAATGTGATGAATGTGAAA
* ** *
31006374 GTGTGTATATGTGATAAGGCCATGGATGGAAATGATAAGTGATAATGTGATAATGTGAAAGTGTA
1 GTGTGTATATGTGATAAGGCC-T-AATGG--CCGAT--GTG---A--TG--AATGTGAAAGTGCA
* * *
31006439 TATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
53 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
31006481 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
*
31006546 GCCGAATGGCCAATGTGATGGATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
* *
31006575 GTGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
31006593 TCCCAAAGGG
Statistics
Matches: 461, Mismatches: 25, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
94 307 0.67
95 23 0.05
96 37 0.08
97 4 0.01
98 1 0.00
99 3 0.01
101 6 0.01
103 3 0.01
104 1 0.00
105 4 0.01
106 35 0.08
107 20 0.04
108 17 0.04
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:31006258 original size:141 final size:141
Alignment explanation
Indices: 31005997--31006592 Score: 764
Period size: 141 Copynumber: 4.1 Consensus size: 141
31005987 GATGTACAAG
* * *
31005997 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * *
31006062 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
31006127 TGAATGTGAAA
131 TGAATGTGAAA
* * * *
31006138 GTGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * *
31006203 GCCTAATGGCCGATGTGATGAATGTGAAAGT-TCATATATGTGATAAGGTCGAATGGCCAATGTG
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGT-ATATATGTGATAAGGCCGAATGGCCAATGTG
31006267 ATGAATGTGAAA
130 ATGAATGTGAAA
* * *
31006279 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGTGATA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATA
* * **
31006344 AGGCCGAATGGCCAATGTGATGAATGTG-AAGTGTGTATATGTGATAAGGCCATGGATGGAAATG
64 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC--GAATGGCCA--
31006408 ATAAGTGATAATGTGATAATGTGAAA
125 AT--GTG---A--TG--AATGTGAAA
* * *
31006434 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * *
31006499 ACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
*
31006564 TGGATGTGAAA
131 TGAATGTGAAA
*
31006575 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31006593 TCCCAAAGGG
Statistics
Matches: 392, Mismatches: 45, Indels: 36
0.83 0.10 0.08
Matches are distributed among these distances:
140 1 0.00
141 195 0.50
142 19 0.05
143 40 0.10
144 6 0.02
145 1 0.00
146 2 0.01
148 6 0.02
150 2 0.01
151 1 0.00
152 6 0.02
153 37 0.09
154 21 0.05
155 55 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
TGAATGTGAAA
Found at i:31006443 original size:155 final size:155
Alignment explanation
Indices: 31006261--31006548 Score: 445
Period size: 155 Copynumber: 1.9 Consensus size: 155
31006251 TCGAATGGCC
* * * *
31006261 AATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 AATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * * *
31006326 GTGCATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-GTGTGTATATGTGATA
66 GTG--TATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATA
31006390 AGGCCATGGATGGAAATGATAAGTGAT
129 AGGCCATGGATGGAAATGATAAGTGAT
31006417 AATGTGAT-AATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 AATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
* * *
31006481 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAG
66 GTGTATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAAG
31006546 GCC
131 GCC
31006549 GAATGGCCAA
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
153 37 0.31
154 20 0.17
155 55 0.46
156 8 0.07
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (155 bp):
AATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
GTGTATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAGGTGTATATATGTGATAAG
GCCATGGATGGAAATGATAAGTGAT
Found at i:31006462 original size:202 final size:202
Alignment explanation
Indices: 31006215--31006592 Score: 591
Period size: 202 Copynumber: 1.9 Consensus size: 202
31006205 CTAATGGCCG
* **
31006215 ATGTGATGAATGTGAAAGTTCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTTCATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
* * * *
31006280 TGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGTGATAA
66 TGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
31006345 GGCCGAATGGCCAATGTGATGAATGTG-AAGTGTGTATATGTGATAAGGCCATGGATGGAAATGA
129 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCATGGATGGAAATGA
31006409 TAAGTGATA
194 TAAGTGATA
*
31006418 ATGTGAT-AATGTGAAAGTGT-ATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGT-TCATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAA
* *
31006481 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAG
65 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
31006546 GCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
130 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
31006593 TCCCAAAGGG
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
200 39 0.24
201 18 0.11
202 95 0.59
203 8 0.05
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (202 bp):
ATGTGATGAATGTGAAAGTTCATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAAAG
TGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCATGGATGGAAATGATA
AGTGATA
Found at i:31011387 original size:28 final size:29
Alignment explanation
Indices: 31011347--31011401 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
31011337 TACAGACTGA
31011347 GACACAGGAGTGTCGC-A-GCCGTGTGAGG
1 GACACAGGAGTGT-GCTAGGCCGTGTGAGG
* *
31011375 GACACGGGCGTGTGCTAGGCCGTGTGA
1 GACACAGGAGTGTGCTAGGCCGTGTGA
31011402 AAACCACTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 12 0.52
29 9 0.39
ACGTcount: A:0.18, C:0.22, G:0.44, T:0.16
Consensus pattern (29 bp):
GACACAGGAGTGTGCTAGGCCGTGTGAGG
Found at i:31013033 original size:29 final size:29
Alignment explanation
Indices: 31013001--31013065 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
31012991 ACAGGGCTGG
31013001 CCGTGTGTCACACACA-CTCGTGCGTCTAC
1 CCGTGTGTCACACACACCT-GTGCGTCTAC
* * *
31013030 CCGTGCGTCACACACGCCTGTGTGTCTAC
1 CCGTGTGTCACACACACCTGTGCGTCTAC
31013059 CCGTGTG
1 CCGTGTG
31013066 GACAACTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.14, C:0.37, G:0.25, T:0.25
Consensus pattern (29 bp):
CCGTGTGTCACACACACCTGTGCGTCTAC
Found at i:31017476 original size:39 final size:40
Alignment explanation
Indices: 31017376--31017560 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
31017366 TCGAATGATG
* * * *
31017376 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
31017416 TCCGAACTAAGAT-CCGAAGGCATTTGTGAGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31017456 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31017495 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
31017536 -CTGGGCTATGTCCCGAAGGCCTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31017561 AACTAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31017582 original size:79 final size:79
Alignment explanation
Indices: 31017429--31017593 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
31017419 GAACTAAGAT
* **
31017429 CCGAAGGCATTTGTGAGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
31017494 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * * *
31017508 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCCTTTGAACTAG-TAGC
1 CCGAAGGCATTTGTGAGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
31017571 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31017587 CCGAAGG
1 CCGAAGG
31017594 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31022831 original size:56 final size:56
Alignment explanation
Indices: 31022745--31022864 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
31022735 ACAAGGGATG
31022745 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31022801 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
31022857 ATGGGCAA
1 ATGGGCAA
31022865 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31024075 original size:40 final size:40
Alignment explanation
Indices: 31023991--31024215 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
31023981 TCGAATGATG
* * * *
31023991 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31024031 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31024071 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31024110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31024150 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31024191 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31024216 AATGAGTACC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31024238 original size:119 final size:119
Alignment explanation
Indices: 31023998--31024248 Score: 260
Period size: 119 Copynumber: 2.1 Consensus size: 119
31023988 ATGTCCGGGC
*
31023998 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
31024063 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
* * * **
31024117 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * * * *
31024180 AGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAATGAG-TACCTATATCC-AGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
* *
31024236 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
31024249 TACGTGATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.70
120 30 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
Found at i:31030771 original size:56 final size:56
Alignment explanation
Indices: 31030685--31030804 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
31030675 ACAAGGGATG
31030685 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
31030741 ATGGGTAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
31030797 ATGGGCAA
1 ATGGGCAA
31030805 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31032081 original size:40 final size:40
Alignment explanation
Indices: 31031933--31032157 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
31031923 TCGAATGATG
* * * *
31031933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** * * *
31031973 TCCAGAATAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31032013 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31032052 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31032092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31032133 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31032158 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.21
40 115 0.74
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31038154 original size:42 final size:42
Alignment explanation
Indices: 31038074--31038375 Score: 165
Period size: 48 Copynumber: 6.6 Consensus size: 42
31038064 TGTCGGTGCT
* * * * *
31038074 GATGCCATGTCCCAGGCTTGGTCTTATACGAGACCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
* *
31038116 GATGCCATGTCCCAAACATGGTCTTACATGAAATCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
* * * * * *
31038158 AACGCCATATCACAGATATGGTCTTACACGAAATCACATACCGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT----A--TC
* * * *
31038206 GATGCCATATCCCAAATATGGTCTTACACTGGCACACATATCA-ATGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC--G-A-A-ATCTCATAT--C
* **
31038254 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
* **
31038296 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACACC
1 ---G---ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAT------C
31038350 GATGCCATGTCCCAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
31038376 TACTAGCTCT
Statistics
Matches: 206, Mismatches: 28, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
42 67 0.33
43 4 0.02
44 2 0.01
45 2 0.01
46 2 0.01
48 120 0.58
50 1 0.00
51 2 0.01
52 1 0.00
53 4 0.02
54 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
Found at i:31038244 original size:48 final size:49
Alignment explanation
Indices: 31038161--31038375 Score: 168
Period size: 48 Copynumber: 4.5 Consensus size: 49
31038151 TCATATCAAC
* * *
31038161 GCCATATCACAGATATGGTCTTACAC-GAAATCACATACCGAGGTCGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGGCCGAT
* ** * *
31038209 GCCATATCCCAAATATGGTCTTACACTGGCA-CACATATCAATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGGCCGAT
* * ** * * * *
31038257 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCAATGCCAAT
1 GCCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGGCCGAT
* * ** * * **
31038305 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCAACACCGAT
1 GCCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGGCCGAT
* *
31038353 GCCATGTCCCAGACATGGTCTTA
1 GCCATATCCCAGATATGGTCTTA
31038376 TACTAGCTCT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
48 144 0.99
49 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACACTGAAATCACATACCAAGGCCGAT
Found at i:31038381 original size:48 final size:48
Alignment explanation
Indices: 31038205--31038389 Score: 280
Period size: 48 Copynumber: 3.9 Consensus size: 48
31038195 ATACCGAGGT
* * * * * *
31038205 CGATGCCATATCCCAAATATGGTCTTACACTGGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
31038253 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
* **
31038301 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
*
31038349 CGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
31038390 AATCGTGGTG
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGC
Found at i:31042457 original size:17 final size:17
Alignment explanation
Indices: 31042437--31042486 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
31042427 AATCATTAAA
31042437 GCCCGATAAATGA-AAGT
1 GCCCGATAAATGATAA-T
* *
31042454 GCCCGATCAATTATAAT
1 GCCCGATAAATGATAAT
*
31042471 GCCCGACAAATGATAA
1 GCCCGATAAATGATAA
31042487 ATGATAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:31046600 original size:55 final size:53
Alignment explanation
Indices: 31046513--31046766 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 53
31046503 ATTAGGGTTT
* *
31046513 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTTTCTAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-TTTTCTAAGGC
* * * * *
31046568 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAATTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGGTAATTT--TCTAAGGC
* *
31046623 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAA--TTCATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGGT-AATTTTC-TAAGGC
* * * * *
31046676 AAGGATACCATGTAAGTCCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGGTAATTTTCTAAGGC
* ** * * *
31046725 AAGGATACCACATAAGACCATGACAAGTCATGGCAATGGTAA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGGTAA
31046767 GGTAGCCGCG
Statistics
Matches: 166, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 37 0.22
52 9 0.05
53 38 0.23
54 11 0.07
55 65 0.39
56 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGGTAATTTTCTAAGGC
Found at i:31046980 original size:16 final size:16
Alignment explanation
Indices: 31046959--31046989 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31046949 ATAAATTTGA
31046959 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
31046975 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
31046990 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:31051117 original size:43 final size:43
Alignment explanation
Indices: 31050959--31051117 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
31050949 CATTGCCATA
* ** * * *
31050959 TCCCAGATATGGTCTTACATGTTATCACAT-ATCGATGCCGATAG
1 TCCCAGACATGGTCTTACACATAAACACATAAT-GATGCCAAT-G
*
31051003 -CCCAG-CTATGGTCTTACACA-AAATCAAATAATGATGCCAATG
1 TCCCAGAC-ATGGTCTTACACATAAA-CACATAATGATGCCAATG
* ** *
31051045 TCCCAAACATGGTCTTACAGGTAATCACATAATGATGCCAATG
1 TCCCAGACATGGTCTTACACATAAACACATAATGATGCCAATG
31051088 TCCCAGACATGGTCTTACACATAAACACAT
1 TCCCAGACATGGTCTTACACATAAACACAT
31051118 CTTGTCAATC
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.02
43 86 0.92
44 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAAACACATAATGATGCCAATG
Found at i:31058260 original size:43 final size:42
Alignment explanation
Indices: 31058170--31058281 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
31058160 TAAGATTACG
* *
31058170 TGTAAGACCATATCTGGCTTATGGCATCGATATGAGACTTCT
1 TGTAAGACCATATCTGGCTTATGGCATCGATACGAGACTTCA
*
31058212 TGTAAGACCATAGT-TGGGC-TATTGGCA-CTGATACGAGATTTCA
1 TGTAAGACCATA-TCT-GGCTTA-TGGCATC-GATACGAGACTTCA
* **
31058255 TGTAAGACCATATATGGGATATGGCAT
1 TGTAAGACCATATCTGGCTTATGGCAT
31058282 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGCTTATGGCATCGATACGAGACTTCA
Found at i:31066766 original size:69 final size:69
Alignment explanation
Indices: 31066655--31066796 Score: 275
Period size: 69 Copynumber: 2.1 Consensus size: 69
31066645 TGAAATTCGG
*
31066655 CCAAGGTAAAAGATGATGGACAAAATTTTGACTTGATTTTCCCTTTTTATTCTTTTATTTACCAA
1 CCAAGGTAAAAGATAATGGACAAAATTTTGACTTGATTTTCCCTTTTTATTCTTTTATTTACCAA
31066720 ATGA
66 ATGA
31066724 CCAAGGTAAAAGATAATGGACAAAATTTTGACTTGATTTTCCCTTTTTATTCTTTTATTTACCAA
1 CCAAGGTAAAAGATAATGGACAAAATTTTGACTTGATTTTCCCTTTTTATTCTTTTATTTACCAA
31066789 ATGA
66 ATGA
31066793 CCAA
1 CCAA
31066797 AATGTCCTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (69 bp):
CCAAGGTAAAAGATAATGGACAAAATTTTGACTTGATTTTCCCTTTTTATTCTTTTATTTACCAA
ATGA
Found at i:31071289 original size:43 final size:42
Alignment explanation
Indices: 31071254--31071396 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
31071244 CCAATGTACT
31071254 AGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCC
1 AGACGTGGTCTTACATGTAATCAAATAT-GATGCCAAC-GTCCC
** * * *
31071297 AGACAAGGTCTTACACGAAATCAAGTATGATGCCAACG-CCC
1 AGACGTGGTCTTACATGTAATCAAATATGATGCCAACGTCCC
31071338 AGACGTGGTCTTACATGTAAATCATAAGT-TGATGCCAACGTCCC
1 AGACGTGGTCTTACATGT-AATCA-AA-TATGATGCCAACGTCCC
*
31071382 AGATGTGGTCTTACA
1 AGACGTGGTCTTACA
31071397 CGATAACACA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
41 17 0.20
42 12 0.14
43 37 0.44
44 18 0.21
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
AGACGTGGTCTTACATGTAATCAAATATGATGCCAACGTCCC
Found at i:31078854 original size:42 final size:42
Alignment explanation
Indices: 31078789--31078900 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
31078779 AGCTCGTACA
* * * *
31078789 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATC-AATATCG
1 ATGCCAACATCCCAAACGTGGTCTTACATGAAATCAAATA-CG
31078831 ATGCC-ACTATCCCAAACAG-GGTCTTACATGAAATCAAATACG
1 ATGCCAAC-ATCCCAAAC-GTGGTCTTACATGAAATCAAATACG
*
31078873 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACATCCCAAACGTGGTCTTACA
31078901 CGATAGCACA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
41 3 0.05
42 50 0.83
43 7 0.12
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGAAATCAAATACG
Found at i:31086826 original size:41 final size:41
Alignment explanation
Indices: 31086777--31086880 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 41
31086767 CCTATATCAC
* * *
31086777 ACACCGGCACAAGGCCTGCTAGAC-TCAAAGTCTGATTTTAT
1 ACACCGGCACAAGGCCTGCTAGACAT-AAAGCCCGATTTAAT
* *
31086818 ACACCGGCA-ATAAGCCTGCTAGGCATAAAGCCCGATTTAAT
1 ACACCGGCACA-AGGCCTGCTAGACATAAAGCCCGATTTAAT
* * *
31086859 TCACCAGCACAAGGCTTGCTAG
1 ACACCGGCACAAGGCCTGCTAG
31086881 GTTGAAAGCC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.02
41 48 0.94
42 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (41 bp):
ACACCGGCACAAGGCCTGCTAGACATAAAGCCCGATTTAAT
Found at i:31096901 original size:26 final size:24
Alignment explanation
Indices: 31096871--31096920 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
31096861 TTTGGTGAAC
31096871 ATATATATAAGGTTATAGTATGGTTA
1 ATATATATAAGG-T-TAGTATGGTTA
* *
31096897 ATATATGTATGGTTAGTATGGTTA
1 ATATATATAAGGTTAGTATGGTTA
31096921 GATTGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (24 bp):
ATATATATAAGGTTAGTATGGTTA
Found at i:31099399 original size:13 final size:13
Alignment explanation
Indices: 31099381--31099435 Score: 110
Period size: 13 Copynumber: 4.2 Consensus size: 13
31099371 AATTTAAGTT
31099381 CTTTGAATTATTA
1 CTTTGAATTATTA
31099394 CTTTGAATTATTA
1 CTTTGAATTATTA
31099407 CTTTGAATTATTA
1 CTTTGAATTATTA
31099420 CTTTGAATTATTA
1 CTTTGAATTATTA
31099433 CTT
1 CTT
31099436 AATTAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (13 bp):
CTTTGAATTATTA
Found at i:31101490 original size:20 final size:20
Alignment explanation
Indices: 31101461--31101507 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
31101451 TCACATAGCA
*
31101461 TATACATTGAGGTCACATTT
1 TATACATTGAGCTCACATTT
*
31101481 TATACGTTGAGCTCACATTT
1 TATACATTGAGCTCACATTT
31101501 TATACAT
1 TATACAT
31101508 ACCAATTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
TATACATTGAGCTCACATTT
Found at i:31103984 original size:26 final size:28
Alignment explanation
Indices: 31103953--31104009 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
31103943 TTAATTAAAC
31103953 GATAATA-TT-TTTTTATATGTAATTAT
1 GATAATATTTATTTTTATATGTAATTAT
31103979 GATAATATTTTATTTTTATATGTAATTAT
1 GATAATA-TTTATTTTTATATGTAATTAT
31104008 GA
1 GA
31104010 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 7 0.25
28 2 0.07
29 19 0.68
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (28 bp):
GATAATATTTATTTTTATATGTAATTAT
Found at i:31109717 original size:3 final size:3
Alignment explanation
Indices: 31109709--31109766 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
31109699 TGCAGGACTT
31109709 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31109757 TTA TTA TTA T
1 TTA TTA TTA T
31109767 CATCTTTGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31111883 original size:22 final size:22
Alignment explanation
Indices: 31111858--31111901 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31111848 TGGAGTCTAA
31111858 AAACTCTATTAAAACTTTGCTC
1 AAACTCTATTAAAACTTTGCTC
31111880 AAACTCTATTAAAACTTTGCTC
1 AAACTCTATTAAAACTTTGCTC
31111902 GATAGAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (22 bp):
AAACTCTATTAAAACTTTGCTC
Found at i:31112997 original size:22 final size:21
Alignment explanation
Indices: 31112951--31112998 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
31112941 TGATATGCTT
*
31112951 AAAAAACTATTTACAAATATT
1 AAAAAACTATTTACAAATATG
31112972 AAAAAACTATTTACAAATATAG
1 AAAAAACTATTTACAAATAT-G
31112994 AAAAA
1 AAAAA
31112999 TGAGATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAACTATTTACAAATATG
Found at i:31112998 original size:21 final size:21
Alignment explanation
Indices: 31112949--31112991 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31112939 TTTGATATGC
31112949 TTAAAAAACTATTTACAAATA
1 TTAAAAAACTATTTACAAATA
31112970 TTAAAAAACTATTTACAAATA
1 TTAAAAAACTATTTACAAATA
31112991 T
1 T
31112992 AGAAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAAAACTATTTACAAATA
Found at i:31124519 original size:30 final size:30
Alignment explanation
Indices: 31124485--31124547 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
31124475 ACTTATTTTA
*
31124485 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
31124515 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
31124545 TTG
1 TTG
31124548 CTTGTTAAGT
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:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:31124949 original size:18 final size:17
Alignment explanation
Indices: 31124926--31124964 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
31124916 TAATCATGTT
31124926 TCAATATATTTATTTATA
1 TCAA-ATATTTATTTATA
*
31124944 TC-AATATTTATTTTTA
1 TCAAATATTTATTTATA
31124960 TCAAA
1 TCAAA
31124965 CTTCATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 14 0.74
17 3 0.16
18 2 0.11
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TCAAATATTTATTTATA
Found at i:31124952 original size:16 final size:16
Alignment explanation
Indices: 31124931--31124963 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31124921 ATGTTTCAAT
31124931 ATATTTATTTATATCA
1 ATATTTATTTATATCA
*
31124947 ATATTTATTTTTATCA
1 ATATTTATTTATATCA
31124963 A
1 A
31124964 ACTTCATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTATTTATATCA
Found at i:31125390 original size:14 final size:14
Alignment explanation
Indices: 31125371--31125398 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31125361 GATCACAAGC
31125371 TTTGTTGGTCATCA
1 TTTGTTGGTCATCA
31125385 TTTGTTGGTCATCA
1 TTTGTTGGTCATCA
31125399 ATTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTGTTGGTCATCA
Found at i:31137380 original size:27 final size:26
Alignment explanation
Indices: 31137332--31137391 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31137322 GCGAGGCTGC
*
31137332 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
31137359 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
31137385 CAAATAT
1 CAGATAT
31137392 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31138096 original size:26 final size:25
Alignment explanation
Indices: 31138067--31138118 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
31138057 ATCCACAAGT
* *
31138067 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTAACAC-CGAGGGGCAAAA
*
31138093 TAGTCATTAACACCTAGGGGCAAAA
1 TAGTCATTAACACCGAGGGGCAAAA
31138118 T
1 T
31138119 GGTAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
TAGTCATTAACACCGAGGGGCAAAA
Found at i:31138228 original size:25 final size:25
Alignment explanation
Indices: 31138136--31138303 Score: 186
Period size: 25 Copynumber: 6.8 Consensus size: 25
31138126 TTACCCCACA
* *
31138136 AGGGTATCTCGGTAATTCTACCTAT
1 AGGGTATTTCGGTAATTCTACCTAC
*
31138161 AGGGTATTT--GTATTTCTACCTAC
1 AGGGTATTTCGGTAATTCTACCTAC
* *
31138184 AAGGTATTTC-GTAATTCTACCTAT
1 AGGGTATTTCGGTAATTCTACCTAC
*
31138208 AGGGTATTTCGGTAATTCTACCTAT
1 AGGGTATTTCGGTAATTCTACCTAC
* *
31138233 AGGGGTATTTC-ATAATTCTCCCTAC
1 A-GGGTATTTCGGTAATTCTACCTAC
*
31138258 AGGGGTA-TTCGGTAATTTTACCTTAC
1 A-GGGTATTTCGGTAATTCTACC-TAC
31138284 AGGGT-TTTCGGTAATTCTAC
1 AGGGTATTTCGGTAATTCTAC
31138304 AACTTATCTA
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
23 20 0.16
24 24 0.20
25 66 0.54
26 13 0.11
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (25 bp):
AGGGTATTTCGGTAATTCTACCTAC
Found at i:31138293 original size:75 final size:73
Alignment explanation
Indices: 31138119--31138303 Score: 223
Period size: 75 Copynumber: 2.5 Consensus size: 73
31138109 GGGGCAAAAT
* * * *
31138119 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTATAGGGTATTTGTATTTCTACCTAC
1 GGTAATTTTA-CCTAC-AGGGTATTTCGGTAATTCTACCTATAGGGTATTTATAATTCTACCTAC
31138184 AAGGTATTTC
64 AAGGTATTTC
* * *
31138194 -GTAATTCTACCTATAGGGTATTTCGGTAATTCTACCTATAGGGGTATTTCATAATTCTCCCTAC
1 GGTAATTTTACCTACAGGGTATTTCGGTAATTCTACCTATA-GGGTATTT-ATAATTCTACCTAC
*
31138258 AGGGGTA-TTC
64 A-AGGTATTTC
31138268 GGTAATTTTACCTTACAGGGT-TTTCGGTAATTCTAC
1 GGTAATTTTACC-TACAGGGTATTTCGGTAATTCTAC
31138304 AACTTATCTA
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
72 25 0.26
73 11 0.12
74 23 0.24
75 29 0.31
76 7 0.07
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (73 bp):
GGTAATTTTACCTACAGGGTATTTCGGTAATTCTACCTATAGGGTATTTATAATTCTACCTACAA
GGTATTTC
Found at i:31144911 original size:27 final size:27
Alignment explanation
Indices: 31144863--31144914 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
31144853 GCGAAGCTGC
*
31144863 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
31144890 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
31144915 ATATATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:31145696 original size:27 final size:27
Alignment explanation
Indices: 31145666--31145864 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
31145656 GGGGCAAAAT
* * * *
31145666 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31145693 GGTAATTCTACCCTATAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31145719 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
31145746 CATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31145773 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
31145800 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31145827 GGTAATTCTACCTTAC-GAGGGTATTTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
31145854 GGTAATTCTAC
1 GGTAATTCTAC
31145865 AACTTATCCA
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.16
27 127 0.84
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31152711 original size:40 final size:40
Alignment explanation
Indices: 31152649--31152832 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
31152639 TATTCGAATG
*
31152649 ATATCCGGGCTAAG-TCCTGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
* * *
31152689 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
31152729 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
31152769 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
31152809 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
31152833 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.95
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:31152782 original size:80 final size:80
Alignment explanation
Indices: 31152649--31152868 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
31152639 TATTCGAATG
* * * * *
31152649 ATATCCGGGCTAAGTCCTGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
31152713 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
31152729 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
31152793 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
31152809 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
31152869 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 89 0.72
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:31155656 original size:40 final size:40
Alignment explanation
Indices: 31155596--31155779 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
31155586 TATTCGAATG
* * *
31155596 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
** * * *
31155636 ATATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
31155676 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
31155716 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
31155756 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31155780 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:31155729 original size:80 final size:80
Alignment explanation
Indices: 31155596--31155815 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
31155586 TATTCGAATG
* * * * **
31155596 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGAACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
31155660 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
*
31155676 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
31155740 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
31155756 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
31155816 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 88 0.72
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:31162312 original size:40 final size:40
Alignment explanation
Indices: 31162207--31162377 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
31162197 GCTCCTCGTT
* *
31162207 CAAATGCCTTCGGGACATAGCCC-GATTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGA-TTTAGTAACTCGCA
*
31162247 C-AATGCCTTC-GGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31162285 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
31162325 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
31162365 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31162378 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
38 23 0.20
39 20 0.17
40 70 0.60
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31162315 original size:78 final size:80
Alignment explanation
Indices: 31162207--31162377 Score: 206
Period size: 78 Copynumber: 2.2 Consensus size: 80
31162197 GCTCCTCGTT
* *
31162207 CAAATGCCTTCGGGACATAGCCCGATTTTAGTAACTCACAC-AATGCCTTC-GGACATAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
31162270 -ATTTAATAACTCGCA
66 AATTT-ATAACTCGCA
* * * * * *
31162285 CGAATGCCTTCGGGACTTAACCCGGA-TTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCG
1 CAAATGCCTTCGGGACATAACCC-GATTTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCG
* *
31162349 GAATTTGTATCTCGCA
65 GAATTTATAACTCGCA
31162365 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31162378 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 33 0.42
79 10 0.13
80 31 0.40
81 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGATTTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
AATTTATAACTCGCA
Found at i:31168786 original size:45 final size:45
Alignment explanation
Indices: 31168722--31168883 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
31168712 TATTGTACGG
* * *
31168722 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
31168767 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
31168812 TACTATCCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
31168857 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
31168884 GAAATACCGG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
43 17 0.16
44 3 0.03
45 84 0.80
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:31171310 original size:46 final size:46
Alignment explanation
Indices: 31171257--31171429 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
31171247 TATTTGGGCA
31171257 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
31171303 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
31171350 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
31171396 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31171430 CGGGCGGGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31171412 original size:93 final size:93
Alignment explanation
Indices: 31171253--31171424 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
31171243 AGGATATTTG
31171253 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
31171318 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
31171346 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTGA
31171410 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
31171425 ACTTACGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 1 0.01
93 75 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:31185588 original size:24 final size:25
Alignment explanation
Indices: 31185561--31185624 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
31185551 TCAACCAAAT
* * *
31185561 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
31185585 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
31185610 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
31185625 TGAAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:31185675 original size:24 final size:24
Alignment explanation
Indices: 31185648--31185697 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
31185638 CATGCATCAA
31185648 CATTCAAATCTC-CACACATAGTGC
1 CATTCAAATC-CGCACACATAGTGC
* *
31185672 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
31185696 CA
1 CA
31185698 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:31185770 original size:94 final size:94
Alignment explanation
Indices: 31185653--31186122 Score: 805
Period size: 94 Copynumber: 5.0 Consensus size: 94
31185643 ATCAACATTC
* * *
31185653 AAATCTCCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
31185718 GGAAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
31185747 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
31185812 GGCAATTTACTTAATTCAAACAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
31185841 AAATCTGCACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
31185906 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
31185935 AAATCTGCACACAAAGCGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
31186000 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* * * * *
31186029 AAATCTACACACAAAGCGACATTTAATTTCACACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
31186094 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
31186123 CGATCACATT
Statistics
Matches: 360, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 360 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:31189016 original size:17 final size:17
Alignment explanation
Indices: 31188994--31189037 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
31188984 AATGGGTTGT
31188994 GTGGGCCCTACGAGCTC
1 GTGGGCCCTACGAGCTC
*
31189011 GTGGGCCCTACGGGCTC
1 GTGGGCCCTACGAGCTC
31189028 GTGGGCCCTA
1 GTGGGCCCTA
31189038 TATGGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.34, G:0.39, T:0.18
Consensus pattern (17 bp):
GTGGGCCCTACGAGCTC
Found at i:31191136 original size:40 final size:40
Alignment explanation
Indices: 31191069--31191325 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
31191059 ACCCAAGTAT
* *
31191069 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
31191108 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
31191148 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* * * *
31191188 CTTCGAGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
31191228 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* *
31191268 CTTCGGGACATAGCCCGGATATAGCAACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* *
31191308 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
31191326 TTATCATCCG
Statistics
Matches: 186, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 167 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:31191202 original size:80 final size:80
Alignment explanation
Indices: 31191069--31191325 Score: 394
Period size: 80 Copynumber: 3.2 Consensus size: 80
31191059 ACCCAAGTAT
* * * * *
31191069 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
31191131 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
*
31191148 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGAGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
31191213 AACTCGCACAAATGC
66 AACTCGCACAAATGC
31191228 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
31191293 AACTAGCACAAATGC
66 AACTCGCACAAATGC
* *
31191308 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
31191326 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 152 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:31191298 original size:120 final size:120
Alignment explanation
Indices: 31191082--31191312 Score: 349
Period size: 120 Copynumber: 1.9 Consensus size: 120
31191072 CGGGATTTAG
*
31191082 CCGGATATAACAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCGGATATAACAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
* * * *
31191147 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGAGACATAGC
66 CCTTCGGGACATAGCCCGGATATAAGCACTAGCACAAATGCCTTCGAGACATAGC
* * * *
31191202 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAAT
1 CCGGATATAACAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATAT-AGCAACTAGCACAAAT
31191266 GCCTTCGGGACATAGCCCGGATAT-AGCAACTAGCACAAATGCCTTCG
65 GCCTTCGGGACATAGCCCGGATATAAGC-ACTAGCACAAATGCCTTCG
31191313 GATCTTAGTC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 2 0.02
120 96 0.96
121 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (120 bp):
CCGGATATAACAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
CCTTCGGGACATAGCCCGGATATAAGCACTAGCACAAATGCCTTCGAGACATAGC
Found at i:31194567 original size:12 final size:12
Alignment explanation
Indices: 31194539--31194567 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
31194529 TATACCTATA
31194539 TGGTAGAATTTT
1 TGGTAGAATTTT
31194551 T-GTAGAATTTT
1 TGGTAGAATTTT
31194562 TGGTAG
1 TGGTAG
31194568 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:31195952 original size:28 final size:28
Alignment explanation
Indices: 31195889--31196042 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
31195879 ATATTAAGTC
* *
31195889 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
31195916 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
31195944 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
31195972 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
31196000 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
31196028 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31196043 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:31202161 original size:40 final size:40
Alignment explanation
Indices: 31202094--31202350 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
31202084 ACCCAAGTAT
*
31202094 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
31202133 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
31202173 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
31202213 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
31202253 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
31202293 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
31202333 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
31202351 TTATCATCCG
Statistics
Matches: 187, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.07
40 168 0.90
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:31202227 original size:80 final size:80
Alignment explanation
Indices: 31202094--31202350 Score: 412
Period size: 80 Copynumber: 3.2 Consensus size: 80
31202084 ACCCAAGTAT
* * * * *
31202094 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
31202156 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
31202173 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
31202238 AACTCGCACAAATGC
66 AACTCGCACAAATGC
31202253 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
31202318 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
31202333 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
31202351 TTATCATCCG
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 155 0.92
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:31206095 original size:28 final size:28
Alignment explanation
Indices: 31206055--31206110 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31206045 TCTAGGCAGT
31206055 AGGCTTTTAAATAAAAATGGGTAAGACA
1 AGGCTTTTAAATAAAAATGGGTAAGACA
31206083 AGGCTTTTAAATAAAAATGGGTAAGACA
1 AGGCTTTTAAATAAAAATGGGTAAGACA
31206111 TGACATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (28 bp):
AGGCTTTTAAATAAAAATGGGTAAGACA
Found at i:31216484 original size:32 final size:32
Alignment explanation
Indices: 31216446--31216507 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
31216436 TATGATTGAG
31216446 TTACTATATGGTTTGATAAATATTGAACTCAC
1 TTACTATATGGTTTGATAAATATTGAACTCAC
31216478 TTACTATATGGTTTGATAAATATTGAACTC
1 TTACTATATGGTTTGATAAATATTGAACTC
31216508 GCCCTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (32 bp):
TTACTATATGGTTTGATAAATATTGAACTCAC
Found at i:31217681 original size:41 final size:39
Alignment explanation
Indices: 31217542--31217668 Score: 155
Period size: 39 Copynumber: 3.3 Consensus size: 39
31217532 ATTCACTTTT
* * *
31217542 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
** * ** * **
31217581 ATTCGTATATCACAATACTTTTATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
31217620 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
31217659 AAGCATATAT
1 AAGCATATAT
31217669 ATCGTAATAC
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:31225812 original size:12 final size:12
Alignment explanation
Indices: 31225795--31225825 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31225785 ATTTTTGTCC
31225795 ACACGGGTAGAG
1 ACACGGGTAGAG
31225807 ACACGGGTAGAG
1 ACACGGGTAGAG
31225819 ACACGGG
1 ACACGGG
31225826 CGTGTGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.42, T:0.06
Consensus pattern (12 bp):
ACACGGGTAGAG
Found at i:31242819 original size:21 final size:21
Alignment explanation
Indices: 31242781--31242821 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31242771 ATGGATGTGT
* *
31242781 GGGATTTCCATACTGGCGTGA
1 GGGATTTCCACACGGGCGTGA
*
31242802 GGGATTTCTACACGGGCGTG
1 GGGATTTCCACACGGGCGTG
31242822 TGTGATCTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (21 bp):
GGGATTTCCACACGGGCGTGA
Found at i:31245697 original size:22 final size:22
Alignment explanation
Indices: 31245669--31245715 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
31245659 GTATGTGATG
31245669 TTCATTAAAAGTGAATTTTCAC
1 TTCATTAAAAGTGAATTTTCAC
*
31245691 TTCATTAAAAGTGAATTTTGAC
1 TTCATTAAAAGTGAATTTTCAC
31245713 TTC
1 TTC
31245716 TAGAAGTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (22 bp):
TTCATTAAAAGTGAATTTTCAC
Found at i:31246055 original size:34 final size:34
Alignment explanation
Indices: 31246012--31246079 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
31246002 TCTAAATCCA
31246012 AGAAGGAATTTACTGTTTTTAGTGATACATCACT
1 AGAAGGAATTTACTGTTTTTAGTGATACATCACT
* *
31246046 AGAAGGAATTTATTGTTTTTAGTGATACGTCACT
1 AGAAGGAATTTACTGTTTTTAGTGATACATCACT
31246080 TAACGGTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (34 bp):
AGAAGGAATTTACTGTTTTTAGTGATACATCACT
Found at i:31250569 original size:43 final size:43
Alignment explanation
Indices: 31250424--31250584 Score: 186
Period size: 43 Copynumber: 3.7 Consensus size: 43
31250414 TGTGTTATCG
*
31250424 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTCTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * *
31250468 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATT-ATTTCC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-TTGATTACA
**
31250510 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGATTACA
31250553 TGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT
31250585 TTGAATTGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
42 32 0.32
43 37 0.37
44 29 0.29
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:31256313 original size:23 final size:22
Alignment explanation
Indices: 31256287--31256334 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
31256277 TTTGATGATG
31256287 ATTT-TGAGTTATGCAATTGTTCA
1 ATTTGTGAGTTATG-AATTGTT-A
*
31256310 ATTTGTGAGTTTTGAATTGTTA
1 ATTTGTGAGTTATGAATTGTTA
31256332 ATT
1 ATT
31256335 AATGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 8 0.35
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.52
Consensus pattern (22 bp):
ATTTGTGAGTTATGAATTGTTA
Found at i:31257164 original size:43 final size:43
Alignment explanation
Indices: 31257006--31257162 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
31256996 TGCGTTATCG
*
31257006 TGTAAGACCACGTCTGGGATGTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCTCGTCTGGGATGTTGGCATCGATATT-TGA-TTACA
* * * *
31257050 TGTAAGACCAT-GTCTGGGATATTGGCATCG-TATATGATTTCG
1 TGTAAGACC-TCGTCTGGGATGTTGGCATCGATATTTGATTACA
* * * *
31257092 TGTAAGACCTTGCCTGGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCTCGTCTGGGA-TGTTGGCATCGATATTTGATTACA
31257135 TGTAAGACCTCGTCTGGGATGTTGGCAT
1 TGTAAGACCTCGTCTGGGATGTTGGCAT
31257163 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 36 0.39
44 28 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCTCGTCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:31260173 original size:27 final size:27
Alignment explanation
Indices: 31260132--31260250 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
31260122 TGGATAAGTT
31260132 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
31260159 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
31260186 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
31260213 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
31260240 GTAAAATTACC
1 GTAGAATTACC
31260251 ATTTTGCCCC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:31260949 original size:26 final size:26
Alignment explanation
Indices: 31260902--31260952 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
31260892 CTCGCTGCAA
31260902 TCTGGTGCCTCGCCACATATATCTGT
1 TCTGGTGCCTCGCCACATATATCTGT
* *
31260928 TCTGGTGGCTTCGTCACA-ATATCTG
1 TCTGGT-GCCTCGCCACATATATCTG
31260953 GCATCCTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (26 bp):
TCTGGTGCCTCGCCACATATATCTGT
Found at i:31261017 original size:71 final size:66
Alignment explanation
Indices: 31260891--31261020 Score: 170
Period size: 71 Copynumber: 1.9 Consensus size: 66
31260881 GTTCTAGCAG
* * * *
31260891 CCTCGCTGCAATCTGGTGCCTCGCCACATATATCTGTTCTGGTGGCTTCGTCACAATATCTGGCA
1 CCTCGCTGCAATCTGGTGCCTCACCACATATATCTGTTCTGGTGGCCTAGCCACAATATCTGGCA
31260956 T
66 T
*
31260957 CCTCGCTGCAATCTGGTGGCTTCACCACATATATATATCTGTTCTGGTGGCCTAGCCACAATAT
1 CCTCGCTGCAATCTGGT-GCCTCACCAC----ATATATCTGTTCTGGTGGCCTAGCCACAATAT
31261021 TTGTATCTGG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
66 17 0.31
67 8 0.15
71 29 0.54
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (66 bp):
CCTCGCTGCAATCTGGTGCCTCACCACATATATCTGTTCTGGTGGCCTAGCCACAATATCTGGCA
T
Done.