Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 94 of 253
Found at i:29354885 original size:51 final size:50
Alignment explanation
Indices: 29354830--29355069 Score: 313
Period size: 51 Copynumber: 4.8 Consensus size: 50
29354820 CTAGGTCGCA
*
29354830 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCGATCACG
*
29354881 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAACC-GATAACTTCAATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGT-ACCAGATAA-TTCGATCACG
* * * * *
29354932 TGTGTAGTACTAAGTGAAGGCTACTACGCGTATCAGATAATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
* * * * * *
29354982 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
*
29355031 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
29355070 GTTTGGCTAC
Statistics
Matches: 172, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
49 42 0.24
50 47 0.27
51 80 0.47
52 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGATCACG
Found at i:29355021 original size:101 final size:100
Alignment explanation
Indices: 29354828--29355069 Score: 317
Period size: 101 Copynumber: 2.4 Consensus size: 100
29354818 AGCTAGGTCG
* * *
29354828 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTA
*
29354893 AGTGCAGGCTACTATGCGTAACCGATAACTTCAATCA
66 AGTGCAGGCTACTACGCGTAACCGATAA-TT-AATCA
* * * *
29354930 CGTGTGTAGTACTAAGTGAAGGCTACTACGCGTATCAGATAA-TTAGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTA
* ** *
29354994 AGTGCAGGCTACTACGTGT-ACCGGATAATTGGTCG
66 AGTGCAGGCTACTACGCGTAACC-GATAATTAATCA
* *
29355029 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
29355070 GTTTGGCTAC
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 38 0.31
100 5 0.04
101 42 0.34
102 37 0.30
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTAGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACGCGTAACCGATAATTAATCA
Found at i:29356989 original size:26 final size:26
Alignment explanation
Indices: 29356960--29357009 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
29356950 CAACCTTAAC
* *
29356960 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAAATTTTCT
*
29356986 CCTAGGGGTAAATCTGTAAATTTT
1 CCTAGGGGTAAATCAGTAAATTTT
29357010 GCACCTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAAATTTTCT
Found at i:29357016 original size:27 final size:26
Alignment explanation
Indices: 29356960--29357016 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
29356950 CAACCTTAAC
* * *
29356960 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
*
29356986 CCTAGGGGTAAATCTGTAAATTTTGCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
29357013 CCTA
1 CCTA
29357017 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:29359319 original size:19 final size:18
Alignment explanation
Indices: 29359282--29359325 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
29359272 ATACATACAG
29359282 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
29359299 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
29359318 TACTAATT
1 TAATAATT
29359326 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:29362338 original size:48 final size:48
Alignment explanation
Indices: 29361956--29362338 Score: 450
Period size: 48 Copynumber: 8.0 Consensus size: 48
29361946 ATTAATCCAC
* * * *
29361956 ATATCATCGCCAATGCCAT-TCCTAGACATGGTCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * *
29362003 ATATCATCGTCGATGCCATGTCCTAGACATTGTCTTACACAGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
29362051 ATATCATCGCTGATGCCATGTCCCAGACATGGTATTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * * *
29362099 ATATCATCGGTGATGCCATTTCCCAGACATAGTCTTACACAGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * *
29362147 ATATCATCGTTGATACCATGTCCCAGACATGGTCTTACACTGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
29362195 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTA-GCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCACAT
* ** * *
29362243 ATATAATCATCGATTCCATGTCCCTA-ACATGGTATTACACTA-GCACAT
1 ATATCATCGCCGATGCCATGTCCC-AGACATGGTCTTACAC-AGGCACAT
* * * * *
29362291 ATATAATCACCAATGCAATGTCTCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
29362339 TTAGCACGGT
Statistics
Matches: 295, Mismatches: 36, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
47 19 0.06
48 275 0.93
49 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:29368639 original size:21 final size:21
Alignment explanation
Indices: 29368601--29368640 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29368591 TTAGGGATTT
* *
29368601 TTTAAGGGTTAAGCAAATTGC
1 TTTAAGGGATAAGAAAATTGC
*
29368622 TTTAAGGGATATGAAAATT
1 TTTAAGGGATAAGAAAATT
29368641 AATAAAATGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (21 bp):
TTTAAGGGATAAGAAAATTGC
Found at i:29372532 original size:27 final size:26
Alignment explanation
Indices: 29372484--29372543 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
29372474 GCGAGGCTGC
*
29372484 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
29372511 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
29372537 CAGATAT
1 CAGATAT
29372544 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:29380834 original size:40 final size:39
Alignment explanation
Indices: 29380750--29380934 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
29380740 TTGAATGATG
* * * *
29380750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29380790 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
29380830 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
29380869 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
29380910 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
29380935 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29380886 original size:79 final size:81
Alignment explanation
Indices: 29380750--29380934 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
29380740 TTGAATGATG
*
29380750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29380814 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29380829 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29380891 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
29380909 ACCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29380935 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:29380956 original size:79 final size:79
Alignment explanation
Indices: 29380803--29380967 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29380793 GGACTAAGAT
* **
29380803 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
29380868 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
29380882 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
29380945 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29380961 CCGAAGG
1 CCGAAGG
29380968 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29385090 original size:26 final size:27
Alignment explanation
Indices: 29385052--29385225 Score: 151
Period size: 26 Copynumber: 6.6 Consensus size: 27
29385042 TATGTGAGTC
* *
29385052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29385079 CGCAC-CTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29385105 CTCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29385133 CGCACACTTAGTGCCGCA-GGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
29385159 CGCACACTTAGTGC-ATCAT--TCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
29385184 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
29385211 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29385226 GTACAATTTA
Statistics
Matches: 122, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
25 22 0.18
26 41 0.34
27 41 0.34
28 18 0.15
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29385191 original size:25 final size:25
Alignment explanation
Indices: 29385107--29385224 Score: 110
Period size: 25 Copynumber: 4.5 Consensus size: 25
29385097 AATCAAATCT
* *
29385107 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCAACAT--TC-AATTCG
** *
29385135 CACACTTAGTGCCGCAGGTCAATTCG
1 CACACTTAGTGCAACA-TTCAATTCG
* *
29385161 CACACTTAGTGCATCATTCATTTCG
1 CACACTTAGTGCAACATTCAATTCG
*
29385186 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCAACAT--TCAATTCG
29385213 CACACTTAGTGC
1 CACACTTAGTGC
29385225 TGTACAATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
25 23 0.30
26 19 0.25
27 20 0.26
28 14 0.18
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (25 bp):
CACACTTAGTGCAACATTCAATTCG
Found at i:29409168 original size:27 final size:27
Alignment explanation
Indices: 29409138--29409315 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29409128 ATATTGAGTC
* * * *
29409138 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29409165 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
29409192 CTCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29409220 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29409247 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29409274 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29409301 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29409316 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29409280 original size:82 final size:81
Alignment explanation
Indices: 29409159--29409314 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
29409149 TGCTATATAA
* * *
29409159 TCAACTCGCACACTTAGTGCTACGTAATCAAATCTCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29409224 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29409241 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29409305 CACTTAGTGC
65 CACTTAGTGC
29409315 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29421636 original size:28 final size:28
Alignment explanation
Indices: 29421571--29421678 Score: 166
Period size: 28 Copynumber: 3.9 Consensus size: 28
29421561 AGGAAGCGTC
*
29421571 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
*
29421598 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
29421626 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
* *
29421654 CTGGTGACTCTGTCAC-ATTATCTGT
1 CTGGTGGCTCTGCCACAATTATCTGT
29421679 TCTAGCAGCC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
27 32 0.43
28 43 0.57
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:29421674 original size:55 final size:55
Alignment explanation
Indices: 29421571--29421678 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
29421561 AGGAAGCGTC
*
29421571 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACGATTATCTGTAT
* *
29421626 CTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCAC-ATTATCTGT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACGATTATCTGT
29421679 TCTAGCAGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
55 33 0.67
56 16 0.33
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACGATTATCTGTAT
Found at i:29428719 original size:40 final size:39
Alignment explanation
Indices: 29428661--29428745 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
29428651 ACTTAATTCA
* * * *
29428661 CCAGCATTAAGCCTGCGGGACTTTAAACCTGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCGGATACAATC
* *
29428701 CCAGCATGAAGCCAGCGGGTCTCTAACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
*
29428740 TCAGCA
1 CCAGCA
29428746 CAATTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
Found at i:29428870 original size:45 final size:46
Alignment explanation
Indices: 29428816--29428924 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
29428806 TGCACACTTT
* *
29428816 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
* *
29428862 TCACATTGGCCATTTGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
29428909 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
29428925 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 26 0.47
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:29431516 original size:22 final size:20
Alignment explanation
Indices: 29431476--29431516 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
29431466 AGTCCTATTA
*
29431476 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
29431496 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
29431517 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:29441159 original size:19 final size:18
Alignment explanation
Indices: 29441124--29441195 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 18
29441114 GGATTACAAG
29441124 ATCATATCTTCAAGATTACAT
1 ATCATATC-T-AAGATT-CAT
29441145 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATT-CAT
*
29441164 ATCATATCTAAGATT-GT
1 ATCATATCTAAGATTCAT
*
29441181 ATCATTTCTAAGATT
1 ATCATATCTAAGATT
29441196 GTATATCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
17 15 0.31
19 24 0.50
20 1 0.02
21 8 0.17
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (18 bp):
ATCATATCTAAGATTCAT
Found at i:29441185 original size:17 final size:17
Alignment explanation
Indices: 29441144--29441199 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
29441134 CAAGATTACA
29441144 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
29441161 CATATCATATCTAAGATTG
1 --TATCATATCTAAGATTG
*
29441180 TATCATTTCTAAGATTG
1 TATCATATCTAAGATTG
29441197 TAT
1 TAT
29441200 ATCCTTAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 19 0.53
19 17 0.47
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:29441626 original size:45 final size:45
Alignment explanation
Indices: 29441556--29441667 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
29441546 GGAAAGCGAT
* *
29441556 ATCTACTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
29441601 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
29441646 ATTTGCT-TCTTCAATCTGCTCC
1 ATCTGCTATCTTCGATCTGCTCC
29441668 TTGCAAACTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 14 0.23
45 47 0.77
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:29442284 original size:205 final size:205
Alignment explanation
Indices: 29441741--29442454 Score: 1187
Period size: 205 Copynumber: 3.5 Consensus size: 205
29441731 AAATCTGCTT
* * * *
29441741 CTTCGATTTGTTCCCTGACAATACAAAGATGCAAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * *
29441806 GTGAAAGCCAAATCAGCTATATCTTCGATTTTCTCCTTGTAAGCACAAGGATGCCGAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
29441871 GGATCTGCTTCAGTATAAACATCTGAAAGTTGGATCTGCTATGTGTTTTCCTTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTTCCCTCCGTCGAAGTGG
29441936 AGATGCCAGA
196 AGATGCCAGA
*
29441946 CTTCGATTTGTTCTCTGACAATACAGAGA-GGCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
29442010 GTGAAAGCCAAATCAGCCATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
29442075 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACGATGTGTCTTCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTTCCCTCCGTCGAAGTGG
29442140 AGATGCCAGA
196 AGATGCCAGA
* * *
29442150 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGTTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
29442215 GTGAAAGCCAAATCAGATATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
29442280 GGATCTACTTCAGTATAAACATCTGAAGGTTGGGTCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTTCCCTCCGTCGAAGTGG
*
29442345 AGATGCTAGA
196 AGATGCCAGA
* *
29442355 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
29442420 GTGAAAGCCAAATCAGCTATGTCTTTGATATGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
29442455 TCCGCCAATA
Statistics
Matches: 474, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
204 190 0.40
205 284 0.60
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTTCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:29442508 original size:44 final size:44
Alignment explanation
Indices: 29442441--29442533 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
29442431 ATCAGCTATG
* *
29442441 TCTTTGATATGCTCTCCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATATGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
* * *
29442485 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGTTA
1 TCTTCGATATGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
29442529 TCTTC
1 TCTTC
29442534 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (44 bp):
TCTTCGATATGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
Found at i:29442561 original size:44 final size:42
Alignment explanation
Indices: 29442508--29442695 Score: 157
Period size: 43 Copynumber: 4.3 Consensus size: 42
29442498 CTCTGACAAT
* *
29442508 ACAGAGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAAAC
1 ACAGGGATGCC-AATCTG-AATCTTCAACTTGTTCCCTATAAAC
29442552 ACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAT-CTG-AATCTTCAACTTGTTCCCTATAAAC
* ** * * *
29442595 ACAGGGATGCC-ATGCTGAACTCTTCGATCTACTTCGCTGTAAGC
1 ACAGGGATGCCAAT-CTGAA-TCTTC-AACTTGTTCCCTATAAAC
* * * *
29442639 ACA-GGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAAC
1 ACAGGGA-TGCCA-ATCTG-AATCTTCAACTTGTTCCCTATAAAC
29442683 ACAGGGATGCCAA
1 ACAGGGATGCCAA
29442696 ATCTTGTTTC
Statistics
Matches: 116, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
42 4 0.03
43 53 0.46
44 45 0.39
45 11 0.09
46 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
ACAGGGATGCCAATCTGAATCTTCAACTTGTTCCCTATAAAC
Found at i:29442577 original size:43 final size:43
Alignment explanation
Indices: 29442528--29442694 Score: 176
Period size: 43 Copynumber: 3.8 Consensus size: 43
29442518 CAAATCTGTT
29442528 ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
1 ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
29442571 ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
1 ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
* * ** * * * * **
29442614 CTCTTCGATCTACTTCGCTGTAAGCACA-GGAGTGTCA-GATCTGCT
1 ATCTTC-AACTTGTTCCCTATAAACACAGGGA-TGCCATG--CTGAA
* *
29442659 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
29442695 AATCTTGTTT
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
43 52 0.53
44 36 0.36
45 11 0.11
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
ATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
Found at i:29443565 original size:7 final size:7
Alignment explanation
Indices: 29443553--29443627 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
29443543 GGCCTCTCCA
29443553 TTTTTCT
1 TTTTTCT
29443560 TTTTTC-
1 TTTTTCT
29443566 -TTTTCAT
1 TTTTTC-T
29443573 TTTTATCT
1 TTTT-TCT
29443581 TTTTTCT
1 TTTTTCT
29443588 TTTTAT-T
1 TTTT-TCT
29443595 TTTTTCT
1 TTTTTCT
*
29443602 CTTTT-T
1 TTTTTCT
29443608 TTTTTCT
1 TTTTTCT
*
29443615 TTCTTCCT
1 TT-TTTCT
29443623 TTTTT
1 TTTTT
29443628 TTAAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
5 5 0.09
6 6 0.11
7 28 0.50
8 15 0.27
9 2 0.04
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:29443581 original size:14 final size:12
Alignment explanation
Indices: 29443554--29443616 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 12
29443544 GCCTCTCCAT
29443554 TTTTCTTTTTTC
1 TTTTCTTTTTTC
29443566 TTTTCATTTTTATC
1 TTTTC-TTTTT-TC
29443580 TTTT-TTCTTTT-
1 TTTTCTT-TTTTC
*
29443591 TATTT-TTTTCTC
1 T-TTTCTTTTTTC
29443603 TTTT-TTTTTTC
1 TTTTCTTTTTTC
29443614 TTT
1 TTT
29443617 CTTCCTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
11 16 0.36
12 14 0.32
13 8 0.18
14 6 0.14
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:29443583 original size:21 final size:20
Alignment explanation
Indices: 29443553--29443627 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
29443543 GGCCTCTCCA
29443553 TTTTTCTTTTTTCTTTTCAT
1 TTTTTCTTTTTTCTTTTCAT
*
29443573 TTTTATCTTTTTTCTTTTTATT
1 TTTT-TCTTTTTTCTTTTCA-T
*
29443595 TTTTTCTCTTTTTTTTTTC-T
1 TTTTTCT-TTTTTCTTTTCAT
*
29443615 TTCTTCCTTTTTT
1 TT-TTTCTTTTTT
29443628 TTAAATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 12 0.26
21 21 0.45
22 14 0.30
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTTCAT
Found at i:29449168 original size:22 final size:21
Alignment explanation
Indices: 29449142--29449202 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
29449132 ATTAAATTTC
29449142 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
29449164 CAAGATTGCATATCATATC-T
1 CAAGATTACAGATCATATCTT
* *
29449184 -AAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
29449203 AAGATTGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 9 0.25
22 8 0.22
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:29449189 original size:19 final size:19
Alignment explanation
Indices: 29449154--29449251 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
29449144 AGATTACAAG
29449154 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
29449175 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29449194 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
29449211 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
29449230 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29449249 ATC
1 ATC
29449252 CTTAAAAATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:29449196 original size:14 final size:15
Alignment explanation
Indices: 29449176--29449232 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
29449166 AGATTGCATA
29449176 TCATATCTAAGATTG
1 TCATATCTAAGATTG
29449191 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
29449210 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
29449227 -CATATC
1 TCATATC
29449233 ATATTTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:29449218 original size:36 final size:37
Alignment explanation
Indices: 29449154--29449251 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
29449144 AGATTACAAG
29449154 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
29449194 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
29449230 ATCATATTTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
29449252 CTTAAAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:29455379 original size:40 final size:40
Alignment explanation
Indices: 29455267--29455427 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
29455257 CGGATGATAA
* *
29455267 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
*
29455307 CCGGGCTAAGTCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGT-TCCGAAGGCATTTGTGCGAGTTACTATAT
* *
29455348 CCGGGCTAAGTTCCGAAGGCATTTGTACGAGTTACTCTAT
1 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
29455388 CCGGGCTAAGTTTCGAAGGTATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
29455428 TCGACTAAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 70 0.64
41 39 0.36
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:29463402 original size:40 final size:40
Alignment explanation
Indices: 29463354--29463519 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
29463344 GGACTAAGAT
*
29463354 CCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
29463394 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
29463434 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * * *
29463474 TCGAAGGTATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
29463513 CCGAAGG
1 CCGAAGG
29463520 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 105 0.89
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:29465391 original size:51 final size:51
Alignment explanation
Indices: 29465331--29465437 Score: 160
Period size: 51 Copynumber: 2.1 Consensus size: 51
29465321 TATCAAAATA
* * * *
29465331 ACACGGGCATGCGCCTGTACACACGGGCGTGGGAGAAGCGAATGAAGATTG
1 ACACGGGCATGCACCTATACACACGAGCGTGGGAGAAGCGAACGAAGATTG
* *
29465382 ACACGGGCATGCACCTATACACACGAGTGTGGGAGAATCGAACGAAGATTG
1 ACACGGGCATGCACCTATACACACGAGCGTGGGAGAAGCGAACGAAGATTG
29465433 ACACG
1 ACACG
29465438 CGCCTGTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.22, G:0.33, T:0.14
Consensus pattern (51 bp):
ACACGGGCATGCACCTATACACACGAGCGTGGGAGAAGCGAACGAAGATTG
Found at i:29469709 original size:49 final size:47
Alignment explanation
Indices: 29469648--29469777 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 47
29469638 GAGTTGTGTT
* *
29469648 AGTGTAAGACCTGTTTGGAACCTAGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTTTGGAACATGGCATCGACACAGAT--GTGAGAGCC
* * * **
29469697 AGTGTAACACCTGTCTGGGACATGGCATCGACTTAGATGTGAGAGCC
1 AGTGTAAGACCTGTTTGGAACATGGCATCGACACAGATGTGAGAGCC
29469744 AGTGTAAGACCATGTTTGGAACATGGCATCGACA
1 AGTGTAAGACC-TGTTTGGAACATGGCATCGACA
29469778 TCGTACTCTA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 19 0.28
48 19 0.28
49 31 0.45
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCTGTTTGGAACATGGCATCGACACAGATGTGAGAGCC
Found at i:29473152 original size:51 final size:51
Alignment explanation
Indices: 29473097--29473198 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
29473087 TGAAACAGAT
29473097 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
1 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
29473148 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
1 AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
29473199 GTCAGTACCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (51 bp):
AGCTTATCTCACTTTTATGTTGAATACTCAAGTAACTGAAGTGAAGATTGA
Found at i:29490788 original size:70 final size:70
Alignment explanation
Indices: 29490674--29490808 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
29490664 TAGTTTATTA
* * * * * * *
29490674 CTAATTAATTTGCTGCTGTAATGTTGTAAAATATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
29490739 CTTAG
66 CTTAG
*
29490744 CTAATAAATATGCTACTGTAATGCTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
1 CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
29490809 TTATGTGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATAAATATGCTACTGTAATGCTGTAAAATATTGGCTATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:29500586 original size:49 final size:47
Alignment explanation
Indices: 29500529--29500644 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 47
29500519 TTAATGCAAG
*
29500529 ACCTGTCTGGGACATGGCATTGACACAGATAAGTGAGAGCCAGTGTAAA
1 ACCTGTCTGGGACATGGCATTGACACAGAT--GTGAAAGCCAGTGTAAA
** * *
29500578 ACCTGTCTGGGACATGGCATTGACTTAGATGTGAAAGCTAGTGTAAG
1 ACCTGTCTGGGACATGGCATTGACACAGATGTGAAAGCCAGTGTAAA
* *
29500625 ACCATGTTTGGAACATGGCA
1 ACC-TGTCTGGGACATGGCA
29500645 CTGGCATCGT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 17 0.29
48 14 0.24
49 28 0.47
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (47 bp):
ACCTGTCTGGGACATGGCATTGACACAGATGTGAAAGCCAGTGTAAA
Found at i:29507605 original size:48 final size:48
Alignment explanation
Indices: 29507533--29507709 Score: 282
Period size: 48 Copynumber: 3.7 Consensus size: 48
29507523 ATGATGCCTC
*
29507533 ATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACA
*
29507581 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACA
* * * **
29507629 ATGTCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCATGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACA
*
29507677 ATGCCGATGTCATGTCCCAGACATGGTCTTACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACA
29507710 CTGTTACACA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACA
Found at i:29513499 original size:35 final size:35
Alignment explanation
Indices: 29513421--29513491 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
29513411 ATATATAAGC
* *
29513421 TCAATATAAACTCACATGTAACCAAATTCACATGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
* * *
29513456 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
29513491 T
1 T
29513492 TGATATAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (35 bp):
TCAATATAAACTCACATGTAACCAAATACACAAGT
Found at i:29517102 original size:10 final size:10
Alignment explanation
Indices: 29517087--29517118 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
29517077 AAACTTCCTG
29517087 TTTCTTTCTT
1 TTTCTTTCTT
29517097 TTTCTTTCTT
1 TTTCTTTCTT
*
29517107 TTTTTTTCTT
1 TTTCTTTCTT
29517117 TT
1 TT
29517119 AAAGCTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:29517106 original size:14 final size:14
Alignment explanation
Indices: 29517087--29517117 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29517077 AAACTTCCTG
29517087 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
*
29517101 TTTCTTTTTTTTTC
1 TTTCTTTCTTTTTC
29517115 TTT
1 TTT
29517118 TAAAGCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:29519733 original size:113 final size:114
Alignment explanation
Indices: 29519525--29519738 Score: 261
Period size: 114 Copynumber: 1.9 Consensus size: 114
29519515 AGCAAAAATC
* * * *
29519525 AAAAGTATCGATACTCTGAACATAGTATCGATACCTTGCAAAAATAATCGATATCCCTGCCTGGT
1 AAAAGTATCAATACCCTGAACAAAGTATCGATACCTTGCAAAAATAATCAATATCCCTGCCTGGT
* * *
29519590 ATCAATACCGATTTGAGCTTTAATGTTTTGGAAAATTGAAAAAAAATAA
66 ATCAATACCGATTTAAGCATCAATGTTTTGGAAAATTGAAAAAAAATAA
* * * *
29519639 AAAAGTATCAATACCC-GTAACAAAGTATCGATACCTTGCAAAATTTATCAATA-CCTTTCCTGG
1 AAAAGTATCAATACCCTG-AACAAAGTATCGATACCTTGCAAAAATAATCAATATCCCTGCCTGG
* * * * *
29519702 TATCGATATCGTTTTAAGGATCGATGTTTTGGAAAAT
65 TATCAATACCGATTTAAGCATCAATGTTTTGGAAAAT
29519739 CAAAGAAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
113 38 0.46
114 45 0.54
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (114 bp):
AAAAGTATCAATACCCTGAACAAAGTATCGATACCTTGCAAAAATAATCAATATCCCTGCCTGGT
ATCAATACCGATTTAAGCATCAATGTTTTGGAAAATTGAAAAAAAATAA
Found at i:29523586 original size:40 final size:40
Alignment explanation
Indices: 29523542--29523763 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
29523532 TATTCGAATG
* *
29523542 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
29523582 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
29523622 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
29523662 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * * *
29523702 ATATCTGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
29523742 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29523764 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 147 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:29528271 original size:27 final size:26
Alignment explanation
Indices: 29528223--29528274 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29528213 GCGAGGCTGC
*
29528223 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
29528249 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
29528275 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:29528956 original size:27 final size:27
Alignment explanation
Indices: 29528926--29529260 Score: 472
Period size: 27 Copynumber: 12.4 Consensus size: 27
29528916 GGGGAAAAAT
* * * *
29528926 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29528953 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29528980 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
29529007 GGTAATTCTATTCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29529034 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
29529061 AATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29529088 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29529115 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29529142 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
29529169 AGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
29529196 GGTAATTCTATCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29529223 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29529250 GGTAATTCTAC
1 GGTAATTCTAC
29529261 AACTTATCCA
Statistics
Matches: 270, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 270 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:29533734 original size:27 final size:27
Alignment explanation
Indices: 29533696--29533748 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
29533686 ACTTGAGATG
29533696 ATGATATTTGTACATGGACTGTATTTT
1 ATGATATTTGTACATGGACTGTATTTT
* *
29533723 ATGATATTTGTATATGGACTTTATTT
1 ATGATATTTGTACATGGACTGTATTT
29533749 GATATAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (27 bp):
ATGATATTTGTACATGGACTGTATTTT
Found at i:29536642 original size:18 final size:18
Alignment explanation
Indices: 29536605--29536643 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29536595 TTGGAAATCA
*
29536605 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
29536623 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
29536641 AAA
1 AAA
29536644 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:29540988 original size:47 final size:47
Alignment explanation
Indices: 29540919--29541011 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
29540909 GGATGAGTAG
*
29540919 GATTTTCGATTACATTACTATTGCTATTATTGAAATGGGCTAAGGCA
1 GATTTTCGATTACATTACTATTGCTATTACTGAAATGGGCTAAGGCA
29540966 GATTTTCGATTACATTACTATTGCTATTACTGAAATGGGCTAAGGC
1 GATTTTCGATTACATTACTATTGCTATTACTGAAATGGGCTAAGGC
29541012 CCACACTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (47 bp):
GATTTTCGATTACATTACTATTGCTATTACTGAAATGGGCTAAGGCA
Found at i:29557885 original size:46 final size:45
Alignment explanation
Indices: 29557835--29558006 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
29557825 TGGTTGAGCA
29557835 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
29557881 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
29557927 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
29557973 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29558007 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:29557989 original size:92 final size:92
Alignment explanation
Indices: 29557832--29558001 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
29557822 GGATGGTTGA
* *
29557832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29557897 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
29557924 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29557989 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29558002 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:29574984 original size:39 final size:39
Alignment explanation
Indices: 29574898--29574989 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
29574888 GACTTTAGGC
* *
29574898 CCGGATAT-ATTCTAGCACGTAGCCTGCGAACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGAACCTCAAGT
*
29574936 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGAACCTCAAGT
*
29574975 TCGGATATGTTTCCA
1 CCGGATATGTTTCCA
29574990 AATATCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 8 0.16
39 41 0.84
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACGTAGCCTGCGAACCTCAAGT
Found at i:29575658 original size:21 final size:21
Alignment explanation
Indices: 29575634--29575674 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
29575624 TGCATATTTT
*
29575634 AATTTCATAAACTAATTTACG
1 AATTTCATAAAATAATTTACG
29575655 AATTTCATAAAATAATTTAC
1 AATTTCATAAAATAATTTAC
29575675 TAAATCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAAATAATTTACG
Found at i:29577673 original size:18 final size:18
Alignment explanation
Indices: 29577636--29577674 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29577626 TTGGAAATCA
*
29577636 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
29577654 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
29577672 AAA
1 AAA
29577675 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:29582201 original size:28 final size:28
Alignment explanation
Indices: 29582134--29582229 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
29582124 GAGATTGGCG
* * * * *
29582134 CTAAGTGTGCGGGTTTAAATTGTACAACA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
29582163 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29582191 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
29582219 CTGAGTGTGCG
1 CTAAGTGTGCG
29582230 GACTTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 45 0.75
29 15 0.25
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:29583809 original size:18 final size:18
Alignment explanation
Indices: 29583783--29583872 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
29583773 ATCATCCCAT
* *
29583783 TGCAATAACAGTAAATAG
1 TGCAGTAACAGTAAACAG
*
29583801 TGCAGTAACAAT-AACAG
1 TGCAGTAACAGTAAACAG
* * * *
29583818 AGCAGTAACAATTAATAG
1 TGCAGTAACAGTAAACAG
*
29583836 TGCCGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
*
29583854 TAC-GATAACAGTAAACAG
1 TGCAG-TAACAGTAAACAG
29583872 T
1 T
29583873 ATGCAAGTCC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
17 16 0.27
18 43 0.73
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:29584192 original size:27 final size:27
Alignment explanation
Indices: 29584174--29584277 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
29584164 ATCTTACCAT
29584174 ATAAGGGCAAAACAATCATTTTACCTC
1 ATAAGGGCAAAACAATCATTTTACCTC
* * *
29584201 ATAAGGGCGAAACAGTCATTTTACCCC
1 ATAAGGGCAAAACAATCATTTTACCTC
* *
29584228 ATAAGGGCAAAATAGTCATTTTACCTC
1 ATAAGGGCAAAACAATCATTTTACCTC
29584255 ATAAGGGCAAAACAATCATTTTA
1 ATAAGGGCAAAACAATCATTTTA
29584278 TCAATTAAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (27 bp):
ATAAGGGCAAAACAATCATTTTACCTC
Found at i:29584225 original size:54 final size:54
Alignment explanation
Indices: 29584146--29584277 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
29584136 ACATACATCA
* * * * *
29584146 CATAGGGGTAAAATAGTCATCTTACCATATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
* * * *
29584200 CATAAGGGCGAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
*
29584254 CATAAGGGCAAAACAATCATTTTA
1 CATAAGGGCAAAACAGTCATTTTA
29584278 TCAATTAAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
Found at i:29592526 original size:42 final size:43
Alignment explanation
Indices: 29592477--29592582 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
29592467 TATGATTTAT
* *
29592477 GTGTAAGACCATGTCTAGGACA-TCAACATC-TTATTTGATTTC
1 GTGTAAGACCATGTCTAGGACAGT-AACATCGATATTTGATTAC
* **
29592519 GTGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTAGGACAGTAACATCGATATTTGATTAC
* *
29592562 ATGTAAGACCACGTCTAGGAC
1 GTGTAAGACCATGTCTAGGAC
29592583 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTAACATCGATATTTGATTAC
Found at i:29594525 original size:29 final size:30
Alignment explanation
Indices: 29594478--29594626 Score: 109
Period size: 29 Copynumber: 5.3 Consensus size: 30
29594468 GTAGATCGCT
* * *
29594478 ACAAAAGC-TTCCTTATAACAAAGATTGCC
1 ACAAAGGCATTCCTTTTAACAAAGATAGCC
* **
29594507 ACAAAGGCATT-CTTTTAACTAAGATAGAA
1 ACAAAGGCATTCCTTTTAACAAAGATAGCC
* * * *
29594536 ACATAGACATT-CTTTTAATAGAGATAGCC
1 ACAAAGGCATTCCTTTTAACAAAGATAGCC
* * *
29594565 ACATA-G-ATTCCTTATAACAAAGATTGCC
1 ACAAAGGCATTCCTTTTAACAAAGATAGCC
*
29594593 ACAAAGGC-TTCCTTTT---AGAGATAGCC
1 ACAAAGGCATTCCTTTTAACAAAGATAGCC
29594619 ACAAAGGC
1 ACAAAGGC
29594627 GTTATTCATA
Statistics
Matches: 94, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
26 16 0.17
27 3 0.03
28 18 0.19
29 55 0.59
30 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (30 bp):
ACAAAGGCATTCCTTTTAACAAAGATAGCC
Found at i:29596166 original size:40 final size:40
Alignment explanation
Indices: 29596118--29596309 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
29596108 ATAACAACTC
29596118 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
29596158 GCATAAATGCCTTCGGGACTTAACCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
29596198 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* * *
29596238 GCACAAATGCCTTCAGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
29596278 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
29596310 CATTCGAATA
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:29601490 original size:24 final size:24
Alignment explanation
Indices: 29601463--29601508 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
29601453 TATGAAGTGT
*
29601463 ATCATGGAGAGATATTA-GGAGAAA
1 ATCAAGGAGAGAT-TTATGGAGAAA
*
29601487 ATCAAGGAGTGATTTATGGAGA
1 ATCAAGGAGAGATTTATGGAGA
29601509 GATTTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.24
Consensus pattern (24 bp):
ATCAAGGAGAGATTTATGGAGAAA
Found at i:29602883 original size:27 final size:27
Alignment explanation
Indices: 29602853--29602977 Score: 110
Period size: 27 Copynumber: 4.6 Consensus size: 27
29602843 AACTGTTTAG
*
29602853 ATTACCGAAATACCCTTGGTTTGTAAA
1 ATTACCGAAATACCCTTAGTTTGTAAA
* * *
29602880 ATTATCAAAATACCCTCAGTTTGTAAA
1 ATTACCGAAATACCCTTAGTTTGTAAA
** * ** *
29602907 ATTATGGAAACACCCCCAATTTGTAAA
1 ATTACCGAAATACCCTTAGTTTGTAAA
**
29602934 ATTACAAAAATACCCCTATAG--TGTAAA
1 ATTACCGAAATA-CCCT-TAGTTTGTAAA
29602961 ATTACCGAAATACCCTT
1 ATTACCGAAATACCCTT
29602978 GTAGGATAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.01
26 4 0.05
27 69 0.88
28 3 0.04
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
ATTACCGAAATACCCTTAGTTTGTAAA
Found at i:29605595 original size:26 final size:26
Alignment explanation
Indices: 29605565--29605673 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 26
29605555 CATTGCTGCT
* *
29605565 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
* *
29605591 AGAACAGATAATTATGGTAGAGCCACC
1 AGAACAGATAA-TGTGGCAGAGCCACC
*
29605618 AAAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
29605645 AGATCAGATAAATCTGGCATAGCCACC
1 AGAACAGAT-AATGTGGCAGAGCCACC
29605672 AG
1 AG
29605674 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.16
27 56 0.81
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:29605669 original size:54 final size:53
Alignment explanation
Indices: 29605567--29605672 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
29605557 TTGCTGCTAG
* * *
29605567 AACAGATAATGTGACAGAGTCACCAGAACAGATAATTATGGTAGAGCCACCAA
1 AACAGATAATGTGACAGAGCCACCAGAACAGATAAATATGGCAGAGCCACCAA
* * * *
29605620 AACAGATATATGTGGCAGAGCCACCAGATCAGATAAATCTGGCATAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGAACAGATAAATATGGCAGAGCCACCA
29605673 GGACGCTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.17
Consensus pattern (53 bp):
AACAGATAATGTGACAGAGCCACCAGAACAGATAAATATGGCAGAGCCACCAA
Found at i:29607119 original size:24 final size:24
Alignment explanation
Indices: 29607094--29607177 Score: 132
Period size: 24 Copynumber: 3.5 Consensus size: 24
29607084 CCCTAATTAG
* * *
29607094 CTCCTAAATCCTCTCTCTTATCAG
1 CTCCTAAATCCTATCCCTTATCAA
29607118 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
29607142 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
*
29607166 CTCCAAAATCCT
1 CTCCTAAATCCT
29607178 CTCCTGATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.27, C:0.38, G:0.01, T:0.33
Consensus pattern (24 bp):
CTCCTAAATCCTATCCCTTATCAA
Found at i:29613472 original size:27 final size:27
Alignment explanation
Indices: 29613416--29613530 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
29613406 TAGCATTGCT
* * **
29613416 ACCAGAATAGATAA-TGTGACAGAGTT
1 ACCAGAACAGATAATTGTGGCAGAGCC
29613442 ACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
29613469 ACCAGAACAGAT-ATATGTGGCAGAGCC
1 ACCAGAACAGATAAT-TGTGGCAGAGCC
* * *
29613496 ACCAGATCAGATAAATGTGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
29613523 ACCAGAAC
1 ACCAGAAC
29613531 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 15 0.19
27 62 0.79
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:29614972 original size:24 final size:24
Alignment explanation
Indices: 29614937--29615013 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
29614927 CCAACACTGT
*
29614937 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
**
29614961 TCTCCCTTATCAGCTCCTAAATTT
1 TCTCCCTTATCAGCTCCTAAATCC
* *
29614985 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
29615009 TCTCC
1 TCTCC
29615014 TGACAGACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.23, C:0.39, G:0.03, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:29617810 original size:21 final size:20
Alignment explanation
Indices: 29617786--29617825 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
29617776 TATGTATTTT
29617786 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
29617807 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
29617826 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:29617833 original size:20 final size:21
Alignment explanation
Indices: 29617791--29617833 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29617781 ATTTTAATGA
*
29617791 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
29617812 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
29617832 TT
1 TT
29617834 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:29618416 original size:42 final size:42
Alignment explanation
Indices: 29618323--29618432 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
29618313 ATCAGGGATA
* * *
29618323 GTTATCGAGATAGCTTTGGCTATGT-CTGGCACTTCATGTGC
1 GTTATCGAGATGGCTTTGGCTATGTATTGGCACTTCATATGC
* * * *
29618364 ATTATTGAGATGGCTTTGACTATGTATTGGCATTTCATATGC
1 GTTATCGAGATGGCTTTGGCTATGTATTGGCACTTCATATGC
*
29618406 GTTATCGAGATGGCTTCGGCTATGTAT
1 GTTATCGAGATGGCTTTGGCTATGTAT
29618433 ATTGGCAGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 21 0.37
42 36 0.63
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (42 bp):
GTTATCGAGATGGCTTTGGCTATGTATTGGCACTTCATATGC
Found at i:29624890 original size:45 final size:44
Alignment explanation
Indices: 29624732--29624890 Score: 127
Period size: 45 Copynumber: 3.7 Consensus size: 44
29624722 ATATCATACA
*
29624732 ATGCCAACGTCCCAGACGTGGTCTT-CAATGCT-ATCAC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-ACG-TAATCACAATATCG
*
29624775 ATGCC-ACTGTCCCAGACAG-GGTCATACACG-AATCA-AATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACAATATCG
* * * * * * * *
29624816 ATGTCGATGTCCTAAACATGGTTTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACA-ATATCG
29624861 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
29624891 AGAATACATA
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
41 22 0.25
42 14 0.16
43 22 0.25
44 5 0.06
45 25 0.28
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAATATCG
Found at i:29630208 original size:42 final size:42
Alignment explanation
Indices: 29630102--29630214 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
29630092 TGGAAAGCTC
* ***
29630102 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACACAAAATCAA
* *
29630144 ATATCGATGCCACTGTCTCAGACAGGGTCTTACACAAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAA
*
29630187 ATACGATGCCAATGTCCCAGACATGGTC
1 ATACGATGCCAATGTCCCAGACAGGGTC
29630215 ATCCATCACA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAA
Found at i:29632295 original size:34 final size:34
Alignment explanation
Indices: 29632231--29632295 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
29632221 CAATTTCAGT
* *
29632231 TGGGCCTTAGCCCATAGCAGTAATAGTATCAATG
1 TGGGCCTTAGCCCATAGCAGTAACAATATCAATG
29632265 TGGGCCTTAGCCCATTA-CAGTAACAATATCA
1 TGGGCCTTAGCCCA-TAGCAGTAACAATATCA
29632296 GTAATGCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATAGCAGTAACAATATCAATG
Found at i:29636634 original size:55 final size:54
Alignment explanation
Indices: 29636547--29636801 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
29636537 ATTAGGGTTT
*
29636547 AAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
29636602 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * * *
29636657 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
29636710 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-CGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
29636759 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
29636802 GTACCCGCGT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 39 0.23
54 12 0.07
55 66 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:29636753 original size:108 final size:110
Alignment explanation
Indices: 29636554--29636754 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
29636544 TTTAAGGATA
* * *
29636554 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
**
29636619 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAACGATAAGTTACTATAAGGCAAAGGTC
* *
29636664 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
29636726 ACCATGTCAAGACATGGCAACGGTAAGTT
65 ACCATGTCAAGACATGGCAACGATAAGTT
29636755 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAACGATAAGTTACTATAAGGCAAAGGTC
Found at i:29637014 original size:16 final size:16
Alignment explanation
Indices: 29636993--29637023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29636983 ATAAATTTGA
29636993 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29637009 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29637024 GGTGAAGAAG
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:29645851 original size:26 final size:27
Alignment explanation
Indices: 29645717--29645860 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 27
29645707 TCGAAAGTAA
* *
29645717 GGTAGAATTACCAAAATACCCCTGTAG
1 GGTAGAATTATCGAAATACCCCTGTAG
* *
29645744 GATAGAATTATTGAAATACCCCTGTAG
1 GGTAGAATTATCGAAATACCCCTGTAG
*
29645771 GGTAGAATTATCGAAATACTCCTGTAG
1 GGTAGAATTATCGAAATACCCCTGTAG
* * * *
29645798 GATAGAATTACCAAAATACCCTTGTAG
1 GGTAGAATTATCGAAATACCCCTGTAG
* * *
29645825 GGTAGAAATATCGGAA-ACCCTTGTAG
1 GGTAGAATTATCGAAATACCCCTGTAG
29645851 GGTAGAATTA
1 GGTAGAATTA
29645861 CCATTTTGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 19 0.19
27 80 0.81
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
GGTAGAATTATCGAAATACCCCTGTAG
Found at i:29653320 original size:27 final size:27
Alignment explanation
Indices: 29653287--29653485 Score: 238
Period size: 27 Copynumber: 7.4 Consensus size: 27
29653277 GGATAAGTTT
* *
29653287 TAGAATTATCGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
29653314 TAGAATTACCGAAATA-CCCTGGTAGGG
1 TAGAATTACCGAAATACCCCT-GTAGGG
* ** * * *
29653341 TAGAATCATTGAAATACTCGTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
29653368 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
29653395 TAGAATTACCAAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
29653422 TAGAAATACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
29653449 TAGAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
29653476 TAAAATTACC
1 TAGAATTACC
29653486 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.03
27 138 0.96
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:29654182 original size:27 final size:26
Alignment explanation
Indices: 29654138--29654188 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
29654128 CTCGCTCCAA
*
29654138 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
29654165 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
29654189 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:29659776 original size:49 final size:49
Alignment explanation
Indices: 29659555--29660060 Score: 847
Period size: 49 Copynumber: 10.6 Consensus size: 49
29659545 CCCTTCGGGA
* * * * *
29659555 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29659602 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29659649 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659696 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659743 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659792 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659841 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659890 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659937 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29659986 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29660035 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
29660061 CACAATTATC
Statistics
Matches: 440, Mismatches: 13, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 187 0.43
49 252 0.57
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29659850 original size:145 final size:144
Alignment explanation
Indices: 29659555--29660060 Score: 840
Period size: 145 Copynumber: 3.5 Consensus size: 144
29659545 CCCTTCGGGA
* * * * * * * *
29659555 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
29659619 CTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
*
29659682 ATCGGCTATTAGGC
131 ATCGGCCATTAGGC
29659696 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
29659760 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
29659825 ACATCGGCCATTAGGC
129 ACATCGGCCATTAGGC
29659841 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29659906 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
29659971 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
*
29659986 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29660051 ACATTCACAT
65 ACTTTCACAT
29660061 CACAATTATC
Statistics
Matches: 347, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
141 47 0.14
143 46 0.13
145 207 0.60
147 47 0.14
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (144 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:29663469 original size:40 final size:40
Alignment explanation
Indices: 29663394--29663660 Score: 369
Period size: 40 Copynumber: 6.7 Consensus size: 40
29663384 ACCACATGAT
* * * *
29663394 TGCTCTTCGGGACCTAG-CCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
29663433 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
29663473 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
29663513 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
29663553 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
29663593 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
29663633 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
29663661 GTCGAGACCT
Statistics
Matches: 206, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.08
40 189 0.92
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:29666103 original size:49 final size:49
Alignment explanation
Indices: 29665883--29666242 Score: 553
Period size: 49 Copynumber: 7.6 Consensus size: 49
29665873 CCCTTCGGGA
* * * * *
29665883 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29665930 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29665977 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29666024 C-TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29666070 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29666119 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29666168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29666217 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
29666243 CACAATTATC
Statistics
Matches: 294, Mismatches: 14, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
46 45 0.15
47 94 0.32
49 155 0.53
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29674298 original size:50 final size:50
Alignment explanation
Indices: 29674223--29674322 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
29674213 ATCTGTAAAA
29674223 ATAATATAACAACCCAATTTTGGGCGTAACCGGAACAGTGGTTTCGTAAC
1 ATAATATAACAACCCAATTTTGGGCGTAACCGGAACAGTGGTTTCGTAAC
* *
29674273 ATAATATAACAACCCGATTTTGGGCGTAACTGGAACAGTGGTTTCGTAAC
1 ATAATATAACAACCCAATTTTGGGCGTAACCGGAACAGTGGTTTCGTAAC
29674323 CACTAACCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (50 bp):
ATAATATAACAACCCAATTTTGGGCGTAACCGGAACAGTGGTTTCGTAAC
Found at i:29675548 original size:48 final size:48
Alignment explanation
Indices: 29675475--29675853 Score: 387
Period size: 48 Copynumber: 7.9 Consensus size: 48
29675465 GACATTTGGG
* * *
29675475 TGATATGTGTGCCAGTGTAATACCATGTCTGGGACATGGCATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * **
29675523 TGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* *
29675571 TGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* *
29675618 TTGATAT-ATG-CCCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA
1 -TGATATGA-GAGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
29675667 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
** * * *
29675715 T-AT-TGCAAGAGTTAGTGTAAGAACATTTCTAGGACATGGCATCGG-CA
1 TGATATG--AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
29675762 TTGATATGTGCA-CTAGTGTAAAACCATGTTTTGAACATGGCATCGGCCA
1 -TGATATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
*
29675811 -CATCATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
29675854 AATCTCGATA
Statistics
Matches: 272, Mismatches: 44, Indels: 30
0.79 0.13 0.09
Matches are distributed among these distances:
46 2 0.01
47 10 0.04
48 248 0.91
49 10 0.04
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:29675735 original size:144 final size:144
Alignment explanation
Indices: 29675488--29675853 Score: 536
Period size: 144 Copynumber: 2.5 Consensus size: 144
29675478 TATGTGTGCC
* * *
29675488 AGTGTAATACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
** * ** * *
29675553 GGAACATGGCATCGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
66 GGAACATGGCATCGGCAATATTGCAAGAGCCAGTGTAAGAACATGTCTAGGACATGGCATCGGCA
*
29675618 TTGATATATGCCCT
131 TTGATATATGCACT
*
29675632 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
** *
29675697 GGAACATGGCATCGGCAATATTGCAAGAGTTAGTGTAAGAACATTTCTAGGACATGGCATCGGCA
66 GGAACATGGCATCGGCAATATTGCAAGAGCCAGTGTAAGAACATGTCTAGGACATGGCATCGGCA
*
29675762 TTGATATGTGCACT
131 TTGATATATGCACT
* * *
29675776 AGTGTAAAACCATGTTTTGAACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACGAT-ATGAGAGCCAGTGTAAGACCATGTT
*
29675840 TGGGACATGGCATC
65 TGGAACATGGCATC
29675854 AATCTCGATA
Statistics
Matches: 201, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
143 2 0.01
144 199 0.99
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCGGCAATATTGCAAGAGCCAGTGTAAGAACATGTCTAGGACATGGCATCGGCA
TTGATATATGCACT
Found at i:29675864 original size:96 final size:91
Alignment explanation
Indices: 29675475--29675896 Score: 339
Period size: 96 Copynumber: 4.4 Consensus size: 91
29675465 GACATTTGGG
* * * *
29675475 TGATATGTGTGCCAGTGTAATACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGG-CA--ATATGAGAGCCAGTG
* * **
29675540 TAAGACCATGTTTGGAACATGGCATC-GG
63 TAAGACCATGTCTGGGACATGGCATCATC
* * * * * *
29675568 TGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-ATATGCCCT
1 TGAT-ATGT--GAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCAAT-ATGAGA-G-CC-
* **
29675632 AGTGTAAGACCATGTTTGGGACATGGCATCGGCC
59 AGTGTAAGACCATGTCTGGGACATGGCATC-ATC
* * * **
29675666 ACGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATATTGCAAGAGTTAGT
1 -TGATATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCAATA-TG--AGAGCCAGT
* * *
29675731 GTAAGAACATTTCTAGGACATGGCATCGGCAT-
62 GTAAGACCATGTCTGGGACATGGCAT---CATC
* *
29675763 TGATATGTGCA-CTAGTGTAAAACCATGTTTTGAACATGGCATCGGCCACATCATGAGAGCCAGT
1 TGATATGTG-AGCCAGTGTAAAACCATGTTTGGAACATGGCATCGG-CA-AT-ATGAGAGCCAGT
29675827 GTAAGACCATGTCTGGGACATGGCATCAATC
62 GTAAGACCATGTCTGGGACATGGCATC-ATC
* *
29675858 TCGATATGTGAGCCAATGTAAAAACATGTTTGGAACATG
1 T-GATATGTGAGCCAGTGTAAAACCATGTTTGGAACATG
29675897 ACAACGTCAA
Statistics
Matches: 267, Mismatches: 37, Indels: 47
0.76 0.11 0.13
Matches are distributed among these distances:
93 8 0.03
94 8 0.03
95 7 0.03
96 227 0.85
97 3 0.01
98 7 0.03
99 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (91 bp):
TGATATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCAATATGAGAGCCAGTGTAA
GACCATGTCTGGGACATGGCATCATC
Found at i:29675871 original size:48 final size:47
Alignment explanation
Indices: 29675475--29675896 Score: 293
Period size: 48 Copynumber: 8.8 Consensus size: 47
29675465 GACATTTGGG
* * * * **
29675475 TGATATGTGTGCCAGTGTAATACCATGTCTGGGACATGGCATCGGCC
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGATC
* * *
29675522 ATGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGA
1 -TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAT-C
* * *
29675571 TGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-G-ATC
* **
29675619 TGATAT-ATG-CCCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCC
1 TGATATGA-GAGCC-AGTGTAAGACCATGTTTGGGACATGGCATCGATC
* * *
29675666 ACGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG-GC
1 -TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGATC
* ** * *
29675713 -AATATTGCAAGAGTTAGTGTAAGAACAT-TTCTAGGACATGGCATCGGCAT-
1 TGATA-TG--AGAGCCAGTGTAAGACCATGTT-TGGGACATGGCATC-G-ATC
* * * * * **
29675763 TGATATGTGCA-CTAGTGTAAAACCATGTTTTGAACATGGCATCGGCC
1 TGATATGAG-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGATC
** * *
29675810 ACATCATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAATC
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGATC
* * * * *
29675858 TCGATATGTGAGCCAATGTAAAAACATGTTTGGAACATG
1 T-GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATG
29675897 ACAACGTCAA
Statistics
Matches: 294, Mismatches: 57, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
45 3 0.01
46 2 0.01
47 11 0.04
48 262 0.89
49 10 0.03
50 3 0.01
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (47 bp):
TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGATC
Found at i:29675896 original size:144 final size:140
Alignment explanation
Indices: 29675488--29675896 Score: 457
Period size: 144 Copynumber: 2.8 Consensus size: 140
29675478 TATGTGTGCC
* * *
29675488 AGTGTAATACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCA-CATATGAGAGCCAGTGTAAGACCATGTTT
** * * * *
29675553 GGAACATGGCATCGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
65 GGAACATGGCATCAAT-ATGATATG-GAGCCAGTGTAAGAACATGT-TTGGACATGGCATCGGCA
*
29675618 TTGATATATGCCCT
127 TTGATATATGCACT
*
29675632 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCAC-ATATGAGAGCCAGTGTAAGACCATGTTT
**
29675697 GGAACATGGCATCGGCAATATTGCA-A--GAGTTAGTGTAAGAACAT-TTCTAGGACATGGCATC
65 GGAACATGGCAT---CAATA-TG-ATATGGAGCCAGTGTAAGAACATGTT-T-GGACATGGCATC
*
29675758 GGCATTGATATGTGCACT
123 GGCATTGATATATGCACT
* * *
29675776 AGTGTAAAACCATGTTTTGAACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACAT-ATGAGAGCCAGTGTAAGACCATGTTT
* * * *
29675841 GGGACATGGCATCAATCTCGATATGTGAGCCAATGTAAAAACATGTTTGGAACATG
65 GGAACATGGCATCAATAT-GATATG-GAGCCAGTGTAAGAACATGTTTGG-ACATG
29675897 ACAACGTCAA
Statistics
Matches: 226, Mismatches: 23, Indels: 32
0.80 0.08 0.11
Matches are distributed among these distances:
140 2 0.01
141 6 0.03
142 1 0.00
143 5 0.02
144 205 0.91
145 2 0.01
146 1 0.00
147 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (140 bp):
AGTGTAAAACCATGTTTGGGACATGGCATCGGCCACATATGAGAGCCAGTGTAAGACCATGTTTG
GAACATGGCATCAATATGATATGGAGCCAGTGTAAGAACATGTTTGGACATGGCATCGGCATTGA
TATATGCACT
Found at i:29678748 original size:46 final size:46
Alignment explanation
Indices: 29678646--29678819 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
29678636 ACATTATCAG
* *
29678646 AGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCATTGAGAC-TA
1 AGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
* * *
29678693 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
* *
29678740 AGCCAGTGTAAGACATGTCCGGGACATGCATCGG-CTACGAGATGT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA
*
29678785 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
29678820 TACAAATATG
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 57 0.52
47 17 0.15
48 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
Found at i:29681408 original size:45 final size:46
Alignment explanation
Indices: 29681247--29681417 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
29681237 AACCCGCCCC
* * *
29681247 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
29681292 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
29681340 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29681385 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29681418 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 41 0.38
46 20 0.19
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29681409 original size:92 final size:92
Alignment explanation
Indices: 29681252--29681420 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
29681242 GCCCCTAAGT
* *
29681252 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
29681317 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
29681344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29681408 CGAGTTCGGATGC
65 CGAGTTCGGATGC
29681421 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 41 0.56
93 32 0.44
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29681873 original size:30 final size:30
Alignment explanation
Indices: 29681839--29681898 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29681829 ATTTAATACG
29681839 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29681869 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29681899 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29687788 original size:93 final size:93
Alignment explanation
Indices: 29687676--29687846 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
29687666 GCCCCTAAGT
*
29687676 GAACTCGGACTCAACTCAACGAGCTCAGG-CGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACACTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
29687740 ACGAGTTTGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
29687769 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCAGACTCAACTCAA
29687834 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29687847 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29687832 original size:46 final size:45
Alignment explanation
Indices: 29687673--29687843 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
29687663 CCCGCCCCTA
* **
29687673 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGCTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
* * *
29687718 AAGTGAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
29687766 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
29687811 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
29687844 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 55 0.54
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:29688309 original size:30 final size:30
Alignment explanation
Indices: 29688266--29688325 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
29688256 ATTTAATACG
29688266 AACTTTGGAATAATTACACTTTTGCCCCTA
1 AACTTTGGAATAATTACACTTTTGCCCCTA
* *
29688296 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAATAATTACACTTTTGCCCCTA
29688326 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAATAATTACACTTTTGCCCCTA
Found at i:29694929 original size:30 final size:30
Alignment explanation
Indices: 29694871--29694929 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
29694861 ATTTTCGAAC
* ***
29694871 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTCACCAAAGT
29694901 CTAGGGGCAAAATGGTCATTTCACCAAAG
1 CTAGGGGCAAAATGGTCATTTCACCAAAG
29694930 AAGTGAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTCACCAAAGT
Found at i:29695382 original size:46 final size:44
Alignment explanation
Indices: 29695271--29695436 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 44
29695261 CATTATGAGA
* * * *
29695271 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGAGACGA-GT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACAAGATGT
* * * *
29695319 GCTAGTGTACGACATGTCTGGGACATGCTTTGGCCT-CAAGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT
*
29695363 AAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCTACAAGATGT
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGT
*
29695409 GTCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
29695437 GCATACCCCA
Statistics
Matches: 97, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 13 0.13
45 17 0.18
46 40 0.41
47 14 0.14
48 10 0.10
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGT
Found at i:29697266 original size:34 final size:35
Alignment explanation
Indices: 29697217--29697295 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
29697207 GAATAGCACA
*
29697217 TTCAAAATAACTTCACATAAAACCAAATATAT-AAG
1 TTCAATATAACTTCACATAAAACCAAATA-ATCAAG
** * *
29697252 TTCAATATAA-TTCACATGTAATCGAATAATCAAG
1 TTCAATATAACTTCACATAAAACCAAATAATCAAG
29697286 TTCAATATAA
1 TTCAATATAA
29697296 GCTTACCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 2 0.05
34 27 0.71
35 9 0.24
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.30
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCAAATAATCAAG
Found at i:29703264 original size:19 final size:19
Alignment explanation
Indices: 29703240--29703295 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
29703230 GTATTCGACT
29703240 ACATGTGAATTTATATTGA
1 ACATGTGAATTTATATTGA
* *
29703259 ACATGTGTATTTA-GTT--
1 ACATGTGAATTTATATTGA
*
29703275 ACATGTGAGTTTATATTGA
1 ACATGTGAATTTATATTGA
29703294 AC
1 AC
29703296 TTATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (19 bp):
ACATGTGAATTTATATTGA
Found at i:29703311 original size:33 final size:35
Alignment explanation
Indices: 29703239--29703304 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
29703229 AGTATTCGAC
*
29703239 TACATGTGAATTTATATTGAACATGTGTATTTAGT
1 TACATGTGAATTTATATTGAACATGTATATTTAGT
*
29703274 TACATGTGAGTTTATATTGAAC-T-TATATTTA
1 TACATGTGAATTTATATTGAACATGTATATTTA
29703305 TATACATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.24
34 1 0.03
35 21 0.72
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (35 bp):
TACATGTGAATTTATATTGAACATGTATATTTAGT
Found at i:29704112 original size:40 final size:40
Alignment explanation
Indices: 29704057--29704263 Score: 378
Period size: 40 Copynumber: 5.2 Consensus size: 40
29704047 GAACTAAGAT
29704057 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
*
29704097 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
* *
29704137 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
*
29704177 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
29704217 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
29704257 CCGAAGG
1 CCGAAGG
29704264 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATC
Found at i:29707676 original size:16 final size:17
Alignment explanation
Indices: 29707644--29707676 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29707634 ATTGACTAAA
*
29707644 TGTTATATATGTATATT
1 TGTTATATATCTATATT
29707661 TGTTATA-ATCTATATT
1 TGTTATATATCTATATT
29707677 GGATGGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TGTTATATATCTATATT
Found at i:29707840 original size:44 final size:43
Alignment explanation
Indices: 29707788--29707885 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 43
29707778 TCTGATATAT
* *
29707788 CATGTAAGACCGTGTCTGGGACACAGGCTTCGAT-TTGAGATTTA
1 CATGTAAGACCGTGTCTAGGACACAGGCATCGATATTGA-A-TTA
* * *
29707832 CGTGTAAGACCTTGTCTAGGACAGAGGCATCGATATTGAATTA
1 CATGTAAGACCGTGTCTAGGACACAGGCATCGATATTGAATTA
29707875 CATGTAAGACC
1 CATGTAAGACC
29707886 ACGTCCAGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 13 0.28
44 30 0.64
45 4 0.09
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCGTGTCTAGGACACAGGCATCGATATTGAATTA
Found at i:29707896 original size:43 final size:44
Alignment explanation
Indices: 29707788--29707896 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
29707778 TCTGATATAT
* * *
29707788 CATGTAAGACCGTGTCTGGGACACAGGCTTCGATTTGAGATTTA
1 CATGTAAGACCATGTCTAGGACACAGGCATCGATTTGAGATTTA
* * *
29707832 CGTGTAAGACCTTGTCTAGGACAGAGGCATCGATATTGA-A-TTA
1 CATGTAAGACCATGTCTAGGACACAGGCATCGAT-TTGAGATTTA
* *
29707875 CATGTAAGACCACGTCCAGGAC
1 CATGTAAGACCATGTCTAGGAC
29707897 GTTGGGATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
43 21 0.38
44 30 0.55
45 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
CATGTAAGACCATGTCTAGGACACAGGCATCGATTTGAGATTTA
Found at i:29715755 original size:40 final size:40
Alignment explanation
Indices: 29715718--29715901 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
29715708 GCTACTCGTT
*
29715718 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
29715758 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
29715798 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
29715837 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
29715878 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
29715902 GCATCATTCA
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:29715820 original size:79 final size:81
Alignment explanation
Indices: 29715718--29715901 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
29715708 GCTACTCGTT
* *
29715718 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29715781 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
29715798 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
29715862 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
29715878 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
29715902 GCATCATTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:29718189 original size:45 final size:45
Alignment explanation
Indices: 29718125--29718298 Score: 176
Period size: 45 Copynumber: 3.9 Consensus size: 45
29718115 TATCGTACGG
* * *
29718125 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATGATGCTAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * *
29718170 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * * * *
29718215 TACTATTCAGGCCTTCGAGCTTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * * *
29718260 TGA-TA-TCGAG-CTTCGAACCTAGCAGGC-AAAATGCCAGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTG
29718299 GATGAATTCG
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
42 10 0.09
43 15 0.14
44 3 0.03
45 81 0.74
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:29730595 original size:27 final size:28
Alignment explanation
Indices: 29730511--29730608 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
29730501 CATGAGATTG
* * *
29730511 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
29730540 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29730568 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29730595 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29730609 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29730622 original size:29 final size:27
Alignment explanation
Indices: 29730539--29730623 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
29730529 TAAATTGTTC
* *
29730539 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
29730567 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
29730594 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
29730623 A
1 A
29730624 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:29737112 original size:45 final size:45
Alignment explanation
Indices: 29737043--29737160 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
29737033 AATATCGTAC
* *
29737043 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
1 GATAATATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
* * *
29737088 GATAATATTCGAGCCTTTGAGCCTAGC-GGTTATAATGCCGGTGA
1 GATAATATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
* *
29737132 AATGAA-A-TCGAG-CTTCGAGCCTAGCAGGC
1 GAT-AATATTCGAGCCTTTGAGCCTAGCAGGC
29737161 GAAATGCCGG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.19
43 7 0.11
44 17 0.27
45 27 0.43
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (45 bp):
GATAATATTCGAGCCTTTGAGCCTAGCAGGCTATAATACCCGTGA
Found at i:29738550 original size:45 final size:45
Alignment explanation
Indices: 29738482--29738689 Score: 254
Period size: 45 Copynumber: 4.6 Consensus size: 45
29738472 TTTCGACATC
* * * * *
29738482 TGATTTCGTGTAAGACAATGTCTGGGACATTGGCTTCAATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
29738527 TGATTTCATGTAAGACCACGTCTGGGATGTTGGCATTGATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
29738572 TGATTTTGTGTAAGACCACGTCTGGGATGTTGGCAACGATATATG
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * *
29738617 TTATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATATA
1 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
* * * *
29738662 TGGTTACGTGTAAGACCATGTTTGGGAC
1 TGATTTCGTGTAAGACCACGTCTGGGAC
29738690 ATCAGTATCG
Statistics
Matches: 141, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.35
Consensus pattern (45 bp):
TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATG
Found at i:29739425 original size:20 final size:20
Alignment explanation
Indices: 29739400--29739439 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29739390 CTTCGGTATT
29739400 TTATAAGCTGAATTTTTGAA
1 TTATAAGCTGAATTTTTGAA
*
29739420 TTATAAGTTGAATTTTTGAA
1 TTATAAGCTGAATTTTTGAA
29739440 ACTATGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (20 bp):
TTATAAGCTGAATTTTTGAA
Found at i:29750899 original size:28 final size:27
Alignment explanation
Indices: 29750832--29750901 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
29750822 AGAATATGAT
* *
29750832 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
29750859 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
29750887 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
29750902 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:29750917 original size:55 final size:53
Alignment explanation
Indices: 29750777--29750928 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
29750767 TAAATTGTAC
* *
29750777 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
29750830 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
29750885 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
29750929 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:29750933 original size:27 final size:27
Alignment explanation
Indices: 29750778--29750933 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
29750768 AAATTGTACA
* *
29750778 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
29750805 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
29750832 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
29750859 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
29750887 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
29750914 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
29750934 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Done.