Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 198 of 345
Found at i:56571053 original size:49 final size:49
Alignment explanation
Indices: 56570979--56571285 Score: 519
Period size: 49 Copynumber: 6.3 Consensus size: 49
56570969 CCCTTCGGGA
* * * * *
56570979 CTTATCACAT-T-TACACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
56571026 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
56571075 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56571124 CTTATCACATATATACACACTTTCTCATTCATCACATCGGCCATTATGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
56571173 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
56571222 CTTATCACATATATACACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
56571271 CTTATCACATATATA
1 CTTATCACATATATA
56571286 TATCTCATAC
Statistics
Matches: 246, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
47 10 0.04
48 1 0.00
49 235 0.96
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56573887 original size:46 final size:46
Alignment explanation
Indices: 56573820--56573937 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
56573810 TGTCACAAGC
* * *
56573820 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCATATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
* *
56573866 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
56573912 GAACTCGGACTCAACTCAACGAGCTC
1 GAACTCGGACTCAACTCAACGAGCTC
56573938 AGATGCCCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGT
Found at i:56575769 original size:2 final size:2
Alignment explanation
Indices: 56575762--56575795 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
56575752 TTGTGTTAAT
56575762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56575796 CGATTGTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56580642 original size:43 final size:44
Alignment explanation
Indices: 56580594--56580708 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 44
56580584 ATATCCTGGA
* *
56580594 TATGGTCTTACAAGTTATCACATATCGATGCCAATAG-CCCA-AC
1 TATGGTCTTACAAGTAATCACATAACGATGCCAAT-GTCCCAGAC
* * *
56580637 TATGGTCTTACATGAAATCAAATAACGATGCCAATGTCCCAGAC
1 TATGGTCTTACAAGTAATCACATAACGATGCCAATGTCCCAGAC
*
56580681 -ATGGTCTTACACGTAATCACATAACGAT
1 TATGGTCTTACAAGTAATCACATAACGAT
56580709 AATCCTAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.95
44 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (44 bp):
TATGGTCTTACAAGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:56587715 original size:14 final size:14
Alignment explanation
Indices: 56587696--56587722 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56587686 CTATTAGGGA
56587696 TGAAAAGGATTAAT
1 TGAAAAGGATTAAT
56587710 TGAAAAGGATTAA
1 TGAAAAGGATTAA
56587723 ATCGCTAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (14 bp):
TGAAAAGGATTAAT
Found at i:56590618 original size:46 final size:45
Alignment explanation
Indices: 56590533--56590704 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
56590523 ATCTCGTAGC
* * *
56590533 CGATGCATGTTCCAGACATGTCTTACACTAACTTACGTCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTCGAGGT
* * **
56590579 CGATGCATGTCCCGGACATGTCTTACACTAGCGCTCGTCTCAATTT
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCGAGGT
* * * *
56590625 CGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGT
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTAGC-CTCGT-CTCGAGGT
56590673 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
56590705 TCACAATAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 55 0.52
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCGAGGT
Found at i:56593020 original size:101 final size:101
Alignment explanation
Indices: 56592830--56593020 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 101
56592820 TCCATTGTGA
* * * * * *
56592830 ATCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACTATATTGATAGGTCACATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACTAGATGGATAAGTCACATGTGTAGTA
* * *
56592895 CTAAGTGCAGGCTGCTATGCGTACCCGTTAACTTTG
66 CTAAGTACAGGCTACTACGCGTACCCGTTAACTTTG
* * *
56592931 ATCACGTGTGTTGTACTAAGTACAGGCTACTACATGTA-TCAGATGGTTAAGTCACGTGTGTAGT
1 ATCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACT-AGATGGATAAGTCACATGTGTAGT
*
56592995 ACTAAGTACAGGCTACTACGTGTACC
65 ACTAAGTACAGGCTACTACGCGTACC
56593021 AGATTGATAG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 1 0.01
101 75 0.99
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
ATCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACTAGATGGATAAGTCACATGTGTAGTA
CTAAGTACAGGCTACTACGCGTACCCGTTAACTTTG
Found at i:56593027 original size:151 final size:145
Alignment explanation
Indices: 56592831--56593166 Score: 485
Period size: 151 Copynumber: 2.3 Consensus size: 145
56592821 CCATTGTGAA
* *
56592831 TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACTATATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* * *
56592896 TAAGTGCAGGCTGCTATGCGTACCCGTTAACTTTGATCACGTGTGTTGTACTAAGTACAGGCTAC
66 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCAC--GTG-TG---T-AGTACAGGCTAC
*
56592961 TACATGTATCAGAT-GGTTAAG
124 TACATGTATCAAATAGGTTAAG
* * *
56592982 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* * *
56593047 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTGCAGGCTACTACGTGT
66 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACAGGCTACTACATGT
56593112 ATCAAATAGGTTAAG
131 ATCAAATAGGTTAAG
*
56593127 TCACGTGTGTAGTACTAAGTGCAGGTTACTATGTGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCA
56593167 AAGAGCTTTA
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
144 23 0.14
145 45 0.27
148 2 0.01
149 3 0.02
151 96 0.57
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (145 bp):
TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACAGGCTACTACATGT
ATCAAATAGGTTAAG
Found at i:56593070 original size:50 final size:50
Alignment explanation
Indices: 56592831--56593062 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 50
56592821 CCATTGTGAA
* * * *
56592831 TCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACTATATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* * * * * * *
56592881 TCACATGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCCG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGG
* * * * * * * *
56592932 TCACGTGTGTTGTACTAAGTACAGGCTACTACATGTATCAGATGGTTAAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* *
56592982 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
* *
56593032 TCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
56593063 TGCGTACCCA
Statistics
Matches: 143, Mismatches: 36, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
49 3 0.02
50 105 0.73
51 34 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
Found at i:56594020 original size:180 final size:179
Alignment explanation
Indices: 56593667--56594025 Score: 441
Period size: 180 Copynumber: 2.0 Consensus size: 179
56593657 CATCCGAGAG
* * *
56593667 CTGTACCATGAGATAAATAATTTTTAGTGACGAGAGGTCGGAATTGTTAGACAGTGAAACAAGGG
1 CTGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTTAGACAGTGAAACAAGGG
* * * *
56593732 TCTATTTATTGAATAAATTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAAAA
66 TATATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATAGTAAAAA
* * * * * * *
56593797 TATATACGAATTTATTTTCTTGAAAAATTAGCGGTTCTCAATTTGGAGTC
131 GATATACGAATCTAGTTTC-TAAAAAATTAACAGATCTCAATTTGGAGTC
* * *
56593847 CTGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTTAGATAGTGAAATAGGGG
1 CTGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTTAGACAGTGAAACAAGGG
* * * * * * *
56593912 TATCTTTAATGAATAAACTGTACTTATTGGCTTAACCAAAAATTTTTAAAATTTTATAGTAAGAA
66 TATATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATAGTAAAAA
* * *
56593977 GATATATGAGTCTAGTTTC-AAAGACAATTAACAGATGTCAATTTGGAGT
131 GATATACGAATCTAGTTTCTAAA-A-AATTAACAGATCTCAATTTGGAGT
56594026 TTCGTAGCTC
Statistics
Matches: 150, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
178 2 0.01
179 1 0.01
180 147 0.98
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (179 bp):
CTGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTTAGACAGTGAAACAAGGG
TATATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATAGTAAAAA
GATATACGAATCTAGTTTCTAAAAAATTAACAGATCTCAATTTGGAGTC
Found at i:56606080 original size:30 final size:30
Alignment explanation
Indices: 56606029--56606214 Score: 183
Period size: 30 Copynumber: 6.4 Consensus size: 30
56606019 AACCAAAATG
*
56606029 AGAATCA-AATCAGA-ATCAGTAACAGAATC
1 AGAATCAGAATCA-ATATTAGTAACAGAATC
56606058 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* *
56606088 AGAATCAGAAT---TA--GGTGACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* **
56606113 AGAATCAGAATCAGTAACAG-AATCAGAATC
1 AGAATCAGAATCAATATTAGTAA-CAGAATC
*
56606143 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* * *
56606173 AAAATCAGAATCAGA-ATTACGTGACAGAATT
1 AGAATCAGAATCA-ATATTA-GTAACAGAATC
56606204 AGAATCAGAAT
1 AGAATCAGAAT
56606215 ATGAATGCAA
Statistics
Matches: 134, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
25 21 0.16
27 2 0.01
28 2 0.01
29 9 0.07
30 79 0.59
31 21 0.16
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:56606208 original size:6 final size:6
Alignment explanation
Indices: 56606029--56606189 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
56606019 AACCAAAATG
*
56606029 AGAATC A-AATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
56606076 AGTAA-C AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
56606125 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
56606173 AAAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
56606190 TACGTGACAG
Statistics
Matches: 129, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
5 15 0.12
6 104 0.81
7 8 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56606363 original size:27 final size:26
Alignment explanation
Indices: 56606307--56606372 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
56606297 ATCCGCTACA
* *
56606307 CACCAGAACAGATATCGTGACAGAGT
1 CACCAGAACAGATATCGTGACAAAGC
* * *
56606333 CACCAGATACAGATTTTGTGGCAAAGC
1 CACCAGA-ACAGATATCGTGACAAAGC
56606360 CACCAGAATCAGA
1 CACCAGAA-CAGA
56606373 CAATGTGGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
CACCAGAACAGATATCGTGACAAAGC
Found at i:56606595 original size:22 final size:22
Alignment explanation
Indices: 56606547--56606605 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56606537 GTAAATACGT
*
56606547 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56606569 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56606591 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56606606 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56606772 original size:27 final size:26
Alignment explanation
Indices: 56606693--56606775 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
56606683 TCGATCGGTC
* * *
56606693 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
56606719 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
56606746 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
56606773 AAC
1 AAC
56606776 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:56607004 original size:27 final size:27
Alignment explanation
Indices: 56606974--56607168 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
56606964 GGGGCAAAAT
* * *
56606974 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56607001 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56607028 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56607055 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56607082 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56607109 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56607136 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56607162 AGTAATT
1 GGTAATT
56607169 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56607675 original size:27 final size:27
Alignment explanation
Indices: 56607173--56607658 Score: 686
Period size: 27 Copynumber: 18.2 Consensus size: 27
56607163 GTAATTTCAC
*
56607173 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56607200 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56607227 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56607254 AATCAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56607281 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56607308 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607335 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56607362 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607389 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
56607416 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56607443 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56607470 AATCGAGGGTAAAAC-ATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607496 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607523 AA-CTGA-GGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
56607549 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607576 AAT--AGGGTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
56607600 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607627 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56607654 AATCG
1 AATCG
56607659 GGAGTACTTT
Statistics
Matches: 413, Mismatches: 31, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
23 1 0.00
24 5 0.01
25 17 0.04
26 69 0.17
27 317 0.77
28 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56609684 original size:6 final size:6
Alignment explanation
Indices: 56609673--56609857 Score: 179
Period size: 6 Copynumber: 30.8 Consensus size: 6
56609663 AACCAAAATG
*
56609673 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
56609721 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
56609770 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGAA-C AGAAT-
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
56609816 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
56609858 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 14, Indels: 32
0.76 0.07 0.16
Matches are distributed among these distances:
5 18 0.12
6 119 0.80
7 9 0.06
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:56609845 original size:30 final size:30
Alignment explanation
Indices: 56609673--56609857 Score: 244
Period size: 30 Copynumber: 6.4 Consensus size: 30
56609663 AACCAAAATG
*
56609673 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
56609703 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
56609733 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
56609758 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
56609788 AGAATCAGAATCAGTATTAG-AACAGAAT-
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
56609816 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
56609847 AGAATCAGAAT
1 AGAATCAGAAT
56609858 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 6, Indels: 23
0.83 0.04 0.14
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 19 0.14
29 11 0.08
30 70 0.51
31 14 0.10
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:56610011 original size:27 final size:26
Alignment explanation
Indices: 56609974--56610039 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
56609964 AGCATGGCTG
*
56609974 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
56610000 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
56610027 CCAGAATCAGATA
1 CCAGAA-CAGATA
56610040 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:56610044 original size:27 final size:27
Alignment explanation
Indices: 56609974--56610047 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
56609964 AGCATGGCTG
* *
56609974 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
56610000 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56610027 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56610048 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56610054 original size:27 final size:27
Alignment explanation
Indices: 56609998--56610055 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56609988 GTGACAGAGT
* * *
56609998 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
56610025 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
56610052 CACC
1 CACC
56610056 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:56610260 original size:22 final size:22
Alignment explanation
Indices: 56610212--56610270 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56610202 GTAAATACGT
*
56610212 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56610234 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56610256 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56610271 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56610437 original size:27 final size:26
Alignment explanation
Indices: 56610358--56610440 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
56610348 TCGATCGGTC
* * *
56610358 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
56610384 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
56610411 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
56610438 AAC
1 AAC
56610441 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:56610669 original size:27 final size:27
Alignment explanation
Indices: 56610639--56610833 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
56610629 GGGGCAAAAT
* * *
56610639 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56610666 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56610693 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56610720 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56610747 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56610774 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56610801 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56610827 AGTAATT
1 GGTAATT
56610834 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56610868 original size:27 final size:27
Alignment explanation
Indices: 56610838--56611322 Score: 653
Period size: 27 Copynumber: 18.1 Consensus size: 27
56610828 GTAATTTCAC
*
56610838 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56610865 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56610892 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
56610919 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56610946 AATCGAGGGTAAAACGGTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56610972 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56610999 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56611026 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56611053 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
56611080 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56611107 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56611134 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56611161 AA-CTAGGGTAAAACGGTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56611186 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56611213 AA-CTGAGGGTAAAA-AGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56611239 AATCGAGGGTAAAACGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56611266 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56611293 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56611320 AAT
1 AAT
56611323 GGGAGTGCTT
Statistics
Matches: 402, Mismatches: 44, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
25 6 0.01
26 85 0.21
27 308 0.77
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56611354 original size:107 final size:109
Alignment explanation
Indices: 56610838--56611321 Score: 677
Period size: 107 Copynumber: 4.5 Consensus size: 109
56610828 GTAATTTCAC
* * *
56610838 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
* * * * *
56610903 AACCAGTAATTCTGTAAATCAAGGGTAAAATG-GTAATTTTACA
66 AAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTTTAAA
*
56610946 AATCGAGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
56611010 AAACGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGT-AA
66 AAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATT-T-TAAA
* * *
56611054 ACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATT-T-TACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-AACT-GAGGG
* * **
56611116 TAAAACGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTGTA
64 TAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTTTAAA
*
56611161 AA-CTAGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
56611224 AAA-AGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTAAA
66 AAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTTTAAA
56611266 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
56611322 TGGGAGTGCT
Statistics
Matches: 336, Mismatches: 26, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
105 34 0.10
106 57 0.17
107 150 0.45
108 94 0.28
109 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (109 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTTTAAA
Found at i:56612488 original size:6 final size:6
Alignment explanation
Indices: 56612477--56612633 Score: 162
Period size: 6 Copynumber: 25.8 Consensus size: 6
56612467 AACCAAAATG
*
56612477 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
56612525 AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * *
56612574 AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
56612623 AGAATC AGAAT
1 AGAATC AGAAT
56612634 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
5 8 0.06
6 108 0.85
7 9 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:56612587 original size:85 final size:85
Alignment explanation
Indices: 56612477--56612633 Score: 287
Period size: 85 Copynumber: 1.8 Consensus size: 85
56612467 AACCAAAATG
*
56612477 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAA
56612542 TCAGAATCAGTAACAGAATC
66 TCAGAATCAGTAACAGAATC
* *
56612562 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAA
56612627 TCAGAAT
66 TCAGAAT
56612634 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGAATCAGAA
TCAGAATCAGTAACAGAATC
Found at i:56612821 original size:27 final size:27
Alignment explanation
Indices: 56612751--56612824 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
56612741 AGCATGGCTG
* *
56612751 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
56612777 CCAG-ATGCAAATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56612804 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56612825 AACGCACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56613037 original size:22 final size:22
Alignment explanation
Indices: 56612989--56613047 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56612979 GTAAATACGT
*
56612989 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56613011 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56613033 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56613048 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56613214 original size:27 final size:26
Alignment explanation
Indices: 56613135--56613217 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
56613125 TCGATCGGTC
* * *
56613135 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
56613161 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
56613188 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
56613215 AAC
1 AAC
56613218 GCTTCTCCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:56613447 original size:27 final size:27
Alignment explanation
Indices: 56613417--56613602 Score: 182
Period size: 27 Copynumber: 6.9 Consensus size: 27
56613407 GGCAAAATGG
* * *
56613417 TAATTTTACCCCACATGGGTATCTT-GA
1 TAATTCTACCCTACAAGGGTAT-TTCGA
* *
56613444 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
56613471 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
56613498 TAATTCTACCTTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
56613525 TAATTCTATCCTATAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
56613551 GTAATTCTACCCTATAGGGGTATTTCGGA
1 -TAATTCTACCCTACAAGGGTATTTC-GA
*
56613580 -AATTTTACCCTAC-AGGGTATTTC
1 TAATTCTACCCTACAAGGGTATTTC
56613603 AGTAATTTCA
Statistics
Matches: 132, Mismatches: 23, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
26 11 0.08
27 120 0.91
29 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:56613559 original size:81 final size:80
Alignment explanation
Indices: 56613418--56613601 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 80
56613408 GCAAAATGGT
* * * * * *
56613418 AATTTTACCCCACATGGGTATCTTGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACA-GGGTATTTTGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
56613483 ACAAGGGTATTTC-GA
65 ACAAGGGTATTTCGGA
* * * *
56613498 TAATTCTACCTTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 -AATTCTACCCTACA-GGGTATTTTGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
56613563 TATAGGGGTATTTCGGA
64 TACAAGGGTATTTCGGA
*
56613580 AATTTTACCCTACAGGGTATTT
1 AATTCTACCCTACAGGGTATTT
56613602 CAGTAATTTC
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 8 0.09
81 77 0.89
82 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (80 bp):
AATTCTACCCTACAGGGTATTTTGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTA
CAAGGGTATTTCGGA
Found at i:56613571 original size:54 final size:53
Alignment explanation
Indices: 56613444--56613609 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 53
56613434 GGTATCTTGA
*
56613444 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTCAG
* * *
56613497 ATAATTCTACCTTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAG
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTCAG
* * * *
56613552 TAATTCTACCCTATAGGGGTATTTCGGAAATTTTACCCTACAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGTATTTCAG
56613605 TAATT
1 TAATT
56613610 TCACAATCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
53 17 0.17
54 81 0.82
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGTATTTCAG
Found at i:56614067 original size:27 final size:27
Alignment explanation
Indices: 56613614--56614050 Score: 594
Period size: 27 Copynumber: 16.2 Consensus size: 27
56613604 GTAATTTCAC
*
56613614 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56613641 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
56613668 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56613695 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56613722 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56613749 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56613776 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
56613803 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56613830 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56613857 AATCGAGGGTGAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56613884 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56613911 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56613938 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56613965 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56613992 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56614019 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56614046 AATCG
1 AATCG
56614051 GGAGTACTTT
Statistics
Matches: 361, Mismatches: 41, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 353 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56620029 original size:21 final size:21
Alignment explanation
Indices: 56620004--56620044 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56619994 GCAACTCAAC
56620004 TCTTTGCCATGATTTTCACCT
1 TCTTTGCCATGATTTTCACCT
56620025 TCTTTGCCATGATTTTCACC
1 TCTTTGCCATGATTTTCACC
56620045 CTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.10, T:0.46
Consensus pattern (21 bp):
TCTTTGCCATGATTTTCACCT
Found at i:56620646 original size:14 final size:15
Alignment explanation
Indices: 56620619--56620647 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56620609 TGATTTGTAG
56620619 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
56620634 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
56620648 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:56624620 original size:28 final size:28
Alignment explanation
Indices: 56624588--56624688 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
56624578 CATGACTGTA
*
56624588 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATAGGCCATATG
* * * *
56624616 AATGTGATTTGAGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATAGGCCATATG
* *
56624645 AATGTGAATGGGCCTAATAGGCCATGTG
1 AATGTGATTGGGCCTAATAGGCCATATG
* *
56624673 AAAGAGATTGGGCCTA
1 AATGTGATTGGGCCTA
56624689 GTGGGCTATA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
28 45 0.76
29 14 0.24
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATAGGCCATATG
Found at i:56624694 original size:56 final size:57
Alignment explanation
Indices: 56624586--56624694 Score: 132
Period size: 56 Copynumber: 1.9 Consensus size: 57
56624576 AGCATGACTG
* * * *
56624586 TAAATGTGATTTGGGCCTAGTGGCCATATGAATGTGATTTGAGCCTAATGGGCCACA
1 TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGATTTGAGCCTAATGGGCCACA
* * *
56624643 TAAATGTGA-ATGGGCCTAATAGGCCATGTGAAAGAGA-TTGGGCCTAGTGGGC
1 TAAATGTGATATGGGCCTAAT-GGCCATATGAAAGAGATTTGAGCCTAATGGGC
56624695 TATATATAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
56 22 0.50
57 22 0.50
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGATTTGAGCCTAATGGGCCACA
Found at i:56627779 original size:46 final size:46
Alignment explanation
Indices: 56627712--56627811 Score: 191
Period size: 46 Copynumber: 2.2 Consensus size: 46
56627702 GAAAGTCACA
56627712 TAGCCATAAAATTTGTTTCCTTTAAATCTAGACTCAATAAGGAATC
1 TAGCCATAAAATTTGTTTCCTTTAAATCTAGACTCAATAAGGAATC
56627758 TAGCCATAAAATTTGTTTCCTTTAAATCTAGACTCAATAAGGAATC
1 TAGCCATAAAATTTGTTTCCTTTAAATCTAGACTCAATAAGGAATC
*
56627804 TAGGCATA
1 TAGCCATA
56627812 TAAACTATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (46 bp):
TAGCCATAAAATTTGTTTCCTTTAAATCTAGACTCAATAAGGAATC
Found at i:56642026 original size:40 final size:40
Alignment explanation
Indices: 56641953--56642173 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
56641943 TATTCGAATG
56641953 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
56641992 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
56642032 ATATCTGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
56642072 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
56642112 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
56642152 ATATCC-GGCTAAATCCCCAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56642174 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 28 0.17
40 137 0.82
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:56644511 original size:16 final size:16
Alignment explanation
Indices: 56644490--56644532 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
56644480 GTAGATCGGC
*
56644490 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGCCG
* *
56644506 AAAAGCCGTATTGCCG
1 AAAAGCCGAAATGCCG
*
56644522 AAAAGCTGAAA
1 AAAAGCCGAAA
56644533 GTTTGGCTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:56644787 original size:28 final size:28
Alignment explanation
Indices: 56644747--56644858 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 28
56644737 CATGACTGTA
*
56644747 AATGTGATATGGGCCTAGT-GGCCATATG
1 AATGTGA-ATGGGCCTAATGGGCCATATG
* * *
56644775 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-ATGGGCCTAATGGGCCATATG
**
56644804 AATGTGAATGAACCTAATGGGCCATATG
1 AATGTGAATGGGCCTAATGGGCCATATG
* * * * *
56644832 AAAGAGATTGGGCCTAGTGGGCTATAT
1 AATGTGAATGGGCCTAATGGGCCATAT
56644859 ATGTATGTGG
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 53 0.79
29 14 0.21
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTGAATGGGCCTAATGGGCCATATG
Found at i:56646953 original size:40 final size:40
Alignment explanation
Indices: 56646898--56647115 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
56646888 CGGATGATAA
* * * *
56646898 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
56646938 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56646978 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56647018 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56647058 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
56647098 CC-GGCAAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56647116 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56656528 original size:42 final size:43
Alignment explanation
Indices: 56656440--56656541 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
56656430 CTGATGTCCC
* * *
56656440 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCT
1 AGACGTGGTCTTACACGAAATCAAATATCGATGCCACTATCCT
*
56656483 AGACAG-GGTTTTACACGAAATCAAATAT-GATGCCAAC-ATCCT
1 AGAC-GTGGTCTTACACGAAATCAAATATCGATGCC-ACTATCCT
56656525 AGACGTGGTCTTACACG
1 AGACGTGGTCTTACACG
56656542 TAAAACATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.47
43 25 0.49
44 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
AGACGTGGTCTTACACGAAATCAAATATCGATGCCACTATCCT
Found at i:56666637 original size:39 final size:40
Alignment explanation
Indices: 56666583--56666736 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
56666573 TGTGTATGAA
*
56666583 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
56666622 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
56666661 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
56666701 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
56666737 TGTTTGAACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:56666722 original size:79 final size:79
Alignment explanation
Indices: 56666583--56666736 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
56666573 TGTGTATGAA
* * *
56666583 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
56666648 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
56666661 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTA
*
56666726 TGTCCCGAAGG
65 AGTCCCGAAGG
56666737 TGTTTGAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:56678711 original size:24 final size:26
Alignment explanation
Indices: 56678665--56678729 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
56678655 CGATCAATTG
56678665 AAATTGAAAGAAAAAGTACAAGA-AAAA
1 AAATTG-AA-AAAAAGTACAAGATAAAA
*
56678692 AAGATTGAAAAAAAG-A-AAGATAAGA
1 AA-ATTGAAAAAAAGTACAAGATAAAA
56678717 AAATTGAAAAAAA
1 AAATTGAAAAAAA
56678730 AAAAAAGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 15 0.43
25 6 0.17
26 6 0.17
27 4 0.11
28 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (26 bp):
AAATTGAAAAAAAGTACAAGATAAAA
Found at i:56681035 original size:34 final size:34
Alignment explanation
Indices: 56680952--56681037 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 34
56680942 CAGTATCGAG
* *
56680952 CAGTCTGGGCCTAAGCCCATATCAGTAACAATAT
1 CAGTGTGGGCCTTAGCCCATATCAGTAACAATAT
* * *
56680986 CAGTGT-GGCCTTAGCCTATCA-CAGTAGCAGTAT
1 CAGTGTGGGCCTTAGCCCAT-ATCAGTAACAATAT
56681019 CAGTGTGGGCCTTAGCCCA
1 CAGTGTGGGCCTTAGCCCA
56681038 AATTAGTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
33 27 0.61
34 17 0.39
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATATCAGTAACAATAT
Found at i:56682612 original size:40 final size:40
Alignment explanation
Indices: 56682567--56682733 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56682557 CGGAATATAA
56682567 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56682607 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56682647 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56682687 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56682726 CCGGATAT
1 CCGGATAT
56682734 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56682717 original size:80 final size:79
Alignment explanation
Indices: 56682567--56682733 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56682557 CGGAATATAA
* *
56682567 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
56682632 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
56682647 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
56682709 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56682726 CCGGATAT
1 CCGGATAT
56682734 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56683581 original size:17 final size:19
Alignment explanation
Indices: 56683558--56683603 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
56683548 AAGAAGCATG
56683558 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
56683576 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
56683594 AATCATGCTC
1 AATCATGCTC
56683604 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:56688338 original size:40 final size:40
Alignment explanation
Indices: 56688293--56688459 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56688283 CGGAATATAA
56688293 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56688333 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56688373 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56688413 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56688452 CCGGATAT
1 CCGGATAT
56688460 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56688443 original size:80 final size:79
Alignment explanation
Indices: 56688293--56688459 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56688283 CGGAATATAA
* *
56688293 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
56688358 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
56688373 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
56688435 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56688452 CCGGATAT
1 CCGGATAT
56688460 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56689308 original size:17 final size:19
Alignment explanation
Indices: 56689285--56689330 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
56689275 AAGAAGCATG
56689285 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
56689303 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
56689321 AATCATGCTC
1 AATCATGCTC
56689331 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:56692457 original size:39 final size:39
Alignment explanation
Indices: 56692403--56692555 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
56692393 GAATGTTCGA
*
56692403 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
56692442 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
56692481 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
56692520 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56692556 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:56692571 original size:40 final size:39
Alignment explanation
Indices: 56692404--56692585 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
56692394 AATGTTCGAG
* *
56692404 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56692443 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56692482 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
56692521 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
56692561 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
56692586 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:56697052 original size:19 final size:18
Alignment explanation
Indices: 56697023--56697062 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
56697013 TTTATTTAAG
* *
56697023 TGTTTAATGTGTTTTATA
1 TGTTTAATGTGATTAATA
56697041 TGTTTAAATGTGATTAATA
1 TGTTT-AATGTGATTAATA
56697060 TGT
1 TGT
56697063 CTATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (18 bp):
TGTTTAATGTGATTAATA
Found at i:56712051 original size:40 final size:40
Alignment explanation
Indices: 56711992--56712133 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
56711982 AAATTGAATG
* * *
56711992 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
56712032 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
56712072 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
56712112 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56712134 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56712157 original size:40 final size:39
Alignment explanation
Indices: 56712030--56712159 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
56712020 ATGCTGGAAA
* * *
56712030 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
56712071 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
56712109 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
56712150 TTATATCCGG
1 TTATATCCGG
56712160 TTATATTCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:56713753 original size:44 final size:42
Alignment explanation
Indices: 56713682--56713779 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 42
56713672 ATATGTGTTA
*
56713682 TCGTGTAAGACCACATCTAGGATGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACATCTAGGACGTTGGCATCGTAC-T-TGATT
*
56713725 TACGTGTAAGACCACATCT-GGTACGTTGGTATCGTACTTGATT
1 T-CGTGTAAGACCACATCTAGG-ACGTTGGCATCGTACTTGATT
56713768 TCGTGTAAGACC
1 TCGTGTAAGACC
56713780 CTGTTTGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
42 11 0.22
43 9 0.18
44 28 0.56
45 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACATCTAGGACGTTGGCATCGTACTTGATT
Found at i:56719214 original size:70 final size:71
Alignment explanation
Indices: 56719064--56719226 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
56719054 GAGATGTATC
56719064 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56719129 AGGACA
66 AGGACA
56719135 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56719199 AGGACA
66 AGGACA
56719205 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56719227 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56726679 original size:41 final size:41
Alignment explanation
Indices: 56726634--56726751 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56726624 TGAAAGATAA
56726634 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56726675 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56726705 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56726746 ATGTAG
1 ATGTAG
56726752 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56726690 original size:71 final size:71
Alignment explanation
Indices: 56726602--56726765 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56726592 GAGATGTATC
56726602 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56726667 AGGACA
66 AGGACA
56726673 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56726738 AGGACA
66 AGGACA
56726744 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56726766 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56733193 original size:39 final size:39
Alignment explanation
Indices: 56733148--56733310 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
56733138 TGTGTATGAA
*
56733148 TGTGCGAATTGTTATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56733187 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56733226 TGTGC-AAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56733265 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56733305 TGTGCG
1 TGTGCG
56733311 GGTTACCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.02
39 93 0.82
40 18 0.16
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56733326 original size:40 final size:40
Alignment explanation
Indices: 56733165--56733340 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
56733155 ATTGTTATAT
* *** *
56733165 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
56733204 CCGGGCTAAG-CCCGAAGGCAATTGTGCAAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
56733243 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
56733282 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
56733322 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56733341 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 80 0.67
40 40 0.33
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:56737393 original size:56 final size:54
Alignment explanation
Indices: 56737288--56737422 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 54
56737278 ACCATGGCAT
*
56737288 CGATATATGTGTGAGAGTAAGACCAATTTAATTCGTTGGCATCAATATGTGACTC
1 CGATATATGTGTGA-AGTAAGACCAATTTAATACGTTGGCATCAATATGTGACTC
* * *
56737343 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTG-AAGTAAGACCA-ATTTAATACGTTGGCATCAATATGTGACTC
*
56737399 CGATATATGTGTGTGAGTAAGACC
1 CGATATATGTGTG-AAGTAAGACC
56737423 CTGTCTAGGA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
55 22 0.31
56 49 0.69
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (54 bp):
CGATATATGTGTGAAGTAAGACCAATTTAATACGTTGGCATCAATATGTGACTC
Found at i:56737440 original size:56 final size:56
Alignment explanation
Indices: 56737288--56737451 Score: 174
Period size: 56 Copynumber: 2.9 Consensus size: 56
56737278 ACCATGGCAT
* * ** *
56737288 CGATATATGTGTG-AGAGTAAGACCA-ATTTAATTCGTTGGCATCAATATGTGACTC
1 CGATATATGTGTGCA-AGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGACTC
* * *
56737343 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCAAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGACTC
** *
56737399 CGATATATGTGTGTGAGTAAGACC-CTGTCTAGGAC-TGTGGCATCGATATGTGA
1 CGATATATGTGTGCAAGTAAGACCAC-GTCTAAGACGT-TGGCATCGATATGTGA
56737452 TTACATGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
55 24 0.25
56 71 0.75
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCAAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGACTC
Found at i:56740463 original size:12 final size:12
Alignment explanation
Indices: 56740448--56740477 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56740438 ACAGTGTGTT
56740448 ACACAGCCTGCC
1 ACACAGCCTGCC
*
56740460 ACACAGCCTGGC
1 ACACAGCCTGCC
56740472 ACACAG
1 ACACAG
56740478 TCGTGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.43, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACAGCCTGCC
Found at i:56740464 original size:63 final size:62
Alignment explanation
Indices: 56740179--56740457 Score: 240
Period size: 63 Copynumber: 4.5 Consensus size: 62
56740169 GTGTGGTCCT
* * * * * * *
56740179 AATGTATATACAGTGTGTTACA-TGACCTGGACACACGCCTGTGTCTTTGGCCCGTGTGTCTCT
1 AATGTACAAACAGTGTGTTACACAG-CCTGGACACACG-CTCTGTCCTTGGCCCGTATGTCTCC
* * * *
56740242 AATGTACAAACAGTGTGTCACATAGCCTGGATC-CATGCTCTGTCCTTGGCCCGTGTGTCTCC
1 AATGTACAAACAGTGTGTTACACAGCCTGGA-CACACGCTCTGTCCTTGGCCCGTATGTCTCC
** * * * * * * *
56740304 AAACTACAAACAGTATGTTATATAGTCTGGACACACGTTCATGTCCTTGGCCCGTATGTTTTC
1 AATGTACAAACAGTGTGTTACACAGCCTGGACACACGCTC-TGTCCTTGGCCCGTATGTCTCC
* * * * * * * *
56740367 AATGTACAAACACTCTGTTTCACAACCTAGACACACACTCGTGTCCTTAGCCCATATGTCTCC
1 AATGTACAAACAGTGTGTTACACAGCCTGGACACACGCTC-TGTCCTTGGCCCGTATGTCTCC
56740430 AA-GTACAAACAGTGTGTTACACAGCCTG
1 AATGTACAAACAGTGTGTTACACAGCCTG
56740458 CCACACAGCC
Statistics
Matches: 171, Mismatches: 41, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
61 1 0.01
62 73 0.43
63 95 0.56
64 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (62 bp):
AATGTACAAACAGTGTGTTACACAGCCTGGACACACGCTCTGTCCTTGGCCCGTATGTCTCC
Found at i:56744078 original size:80 final size:79
Alignment explanation
Indices: 56743894--56744118 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 79
56743884 GTGCTAAGTG
* **
56743894 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA-ATCCGAAG
*
56743959 GCATTTGTGCGAGTT
65 GCATTTGTACGAGTT
56743974 ACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAG
1 ACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAAT-CCGAAG
56744039 GCATTTGTACGAGTT
65 GCATTTGTACGAGTT
* ** ** *
56744054 ACTATAA-CTGGGCTTTG-TCTCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCG
1 ACTA-AATCTGGACTAAGATC-CGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAA-TCCG
56744115 AAGG
62 AAGG
56744119 TACGTGATTC
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 20 0.15
80 108 0.83
81 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (79 bp):
ACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCGAAGG
CATTTGTACGAGTT
Found at i:56744085 original size:40 final size:40
Alignment explanation
Indices: 56743876--56744057 Score: 278
Period size: 40 Copynumber: 4.5 Consensus size: 40
56743866 CTAAGTCCCA
* *
56743876 AAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCG
1 AAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCG
56743916 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
*
56743956 AAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
**
56743996 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA-ATCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCG
*
56744036 AAGGCATTTGTACGAGTTACTA
1 AAGGCATTTGTGCGAGTTACTA
56744058 TAACTGGGCT
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.93
41 7 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
Found at i:56744092 original size:120 final size:120
Alignment explanation
Indices: 56743876--56744092 Score: 271
Period size: 120 Copynumber: 1.8 Consensus size: 120
56743866 CTAAGTCCCA
*
56743876 AAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAAT
1 AAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAAT
**
56743941 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCTGGACTAAGATCCG
66 CCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCTGGACTAAGATCCG
* * **
56743996 AAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTACGAGTTACTAT
1 AAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-
* * **
56744059 AA-CTGGGCTTTG-TCTCGAAGGCATTTGAACGAGT
63 AATCCGGACTAAGATC-CGAAGGCATTTGAACGAGT
56744093 AGCTATATCC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
119 4 0.05
120 69 0.84
121 9 0.11
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (120 bp):
AAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAAT
CCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCTGGACTAAGATCCG
Found at i:56747247 original size:26 final size:28
Alignment explanation
Indices: 56747212--56747266 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
56747202 ATCACACATA
56747212 ACATAGGGGCA-ATACAGTCA-TTTTATC
1 ACATAGGGGCATA-ACAGTCATTTTTATC
56747239 ACATA-GGGCATAACAGTCATTTTTATC
1 ACATAGGGGCATAACAGTCATTTTTATC
56747266 A
1 A
56747267 ATTAGATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (28 bp):
ACATAGGGGCATAACAGTCATTTTTATC
Found at i:56750619 original size:47 final size:47
Alignment explanation
Indices: 56750244--56750584 Score: 601
Period size: 47 Copynumber: 7.3 Consensus size: 47
56750234 ATTTAGGATT
*
56750244 CAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
56750291 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
56750338 CAATGTGATGAATGTAAACATGCATATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
56750385 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
56750432 CAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
56750479 CAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
**
56750526 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
56750573 CAATGTGATGAA
1 CAATGTGATGAA
56750585 CGTGGAAGTG
Statistics
Matches: 285, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 285 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
Found at i:56755691 original size:40 final size:40
Alignment explanation
Indices: 56755590--56755877 Score: 332
Period size: 40 Copynumber: 7.2 Consensus size: 40
56755580 TATTCGAATG
* * *
56755590 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
56755631 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* ** * * * *
56755671 ATATCCGGGCCAAAACCCGAAGGCATCTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56755711 AGT-TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACT
1 A-TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56755750 AAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
56755790 AAATCCGAGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * *
56755830 TTAACAGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
56755870 ATATCCGG
1 ATATCCGG
56755878 TTAAATTTCG
Statistics
Matches: 209, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.16
40 146 0.70
41 29 0.14
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56755813 original size:119 final size:121
Alignment explanation
Indices: 56755593--56755814 Score: 324
Period size: 119 Copynumber: 1.9 Consensus size: 121
56755583 TCGAATGATA
* *
56755593 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* *
56755658 TGTGCGAGTTACTATATCCGGGCCAAAACCCGAAGGCATCTGCGCTAGTGACTAGT
66 TGTGCGAGTTACTAAATCCGAGCCAAAACCCGAAGGCATCTGCGCTAGTGACTAGT
* * *
56755714 TCCGGGC-AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* **
56755776 TTGTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGGCA
65 TTGTGCGAGTTACTAAATCCGAGCCAAAACCCGAAGGCA
56755815 ATTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
118 1 0.01
119 62 0.69
120 20 0.22
121 7 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTAAATCCGAGCCAAAACCCGAAGGCATCTGCGCTAGTGACTAGT
Found at i:56755890 original size:119 final size:118
Alignment explanation
Indices: 56755596--56755891 Score: 298
Period size: 119 Copynumber: 2.5 Consensus size: 118
56755586 AATGATATCC
* *
56755596 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGA-TCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-CTAA-ATTCCGAAGGCATTT
* * * *
56755659 GTGCGAGTTACTATATCCGGGCCAAAACCCGAAGGCATCTGCGCTAGTGACTAGTTCC
62 GTGCGAGTTACTAAATCCGAGCCAAAACCCGAAGGCATCTGCGCGAGTGACTA-TTCA
* * *
56755717 GGGC-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGCTAAATTCCGAAGGCATTTGT
* ** * *
56755780 GCGAGTTACTAAATCCGAGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACT-TTAACA
64 GCGAGTTACTAAATCCGAGCCAAAACCCGAAGGC-ATCTGCGCGAGTGACTATT--CA
* * * *
56755836 GGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAATTTCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGCTAAATTCCGAAGG
56755892 TACGTGATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
117 2 0.01
119 85 0.59
120 54 0.37
121 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGCTAAATTCCGAAGGCATTTGTGC
GAGTTACTAAATCCGAGCCAAAACCCGAAGGCATCTGCGCGAGTGACTATTCA
Found at i:56757615 original size:13 final size:13
Alignment explanation
Indices: 56757597--56757624 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56757587 TGTTCTTGTT
56757597 TGGCCAAAATAAA
1 TGGCCAAAATAAA
56757610 TGGCCAAAATAAA
1 TGGCCAAAATAAA
56757623 TG
1 TG
56757625 TGGTATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (13 bp):
TGGCCAAAATAAA
Found at i:56769290 original size:16 final size:16
Alignment explanation
Indices: 56769271--56769302 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56769261 CAATACTTAA
56769271 TCAGTTCATGTTTATT
1 TCAGTTCATGTTTATT
56769287 TCAGTTCATGTTTATT
1 TCAGTTCATGTTTATT
56769303 CTTCTAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (16 bp):
TCAGTTCATGTTTATT
Found at i:56770263 original size:21 final size:23
Alignment explanation
Indices: 56770228--56770269 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
56770218 AACACTCCCA
56770228 CCTCCTTCAAAATCCCACAAATT
1 CCTCCTTCAAAATCCCACAAATT
*
56770251 CCTCC-TC-AAATCCCTCAAA
1 CCTCCTTCAAAATCCCACAAA
56770270 CCGACTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (23 bp):
CCTCCTTCAAAATCCCACAAATT
Found at i:56770572 original size:17 final size:17
Alignment explanation
Indices: 56770547--56770581 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
56770537 CCAAGGCTTA
*
56770547 AACCTAAGACTTCTCAG
1 AACCCAAGACTTCTCAG
56770564 AACCCAAGACTTCTCAG
1 AACCCAAGACTTCTCAG
56770581 A
1 A
56770582 CTCTTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (17 bp):
AACCCAAGACTTCTCAG
Found at i:56775301 original size:18 final size:18
Alignment explanation
Indices: 56775284--56775317 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56775274 CAAAAGAAGA
56775284 AAAAG-GAAAAGAAAAAG
1 AAAAGTGAAAAGAAAAAG
56775301 AAAAGTGAAAAGAAAAA
1 AAAAGTGAAAAGAAAAA
56775318 AATGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGTGAAAAGAAAAAG
Found at i:56784608 original size:93 final size:93
Alignment explanation
Indices: 56784496--56784667 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56784486 GCCCATAAGT
* *
56784496 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56784561 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
56784589 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56784654 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56784668 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56784663 original size:46 final size:45
Alignment explanation
Indices: 56784491--56784663 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
56784481 AACCCGCCCA
* * *
56784491 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
* *
56784536 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCC
* *
56784585 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
56784629 GTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56784664 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
Found at i:56787788 original size:40 final size:40
Alignment explanation
Indices: 56787687--56787865 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
56787677 TGAATGGTAT
* * * *
56787687 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
56787728 CTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
56787768 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
56787808 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
56787848 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
56787866 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 92 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:56787834 original size:80 final size:81
Alignment explanation
Indices: 56787687--56787865 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
56787677 TGAATGGTAT
* * *
56787687 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCTGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
56787752 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
56787768 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
56787831 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
56787848 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
56787866 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 58 0.68
81 26 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:56787886 original size:40 final size:40
Alignment explanation
Indices: 56787808--56787891 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
56787798 GTTACTAAAT
* * *
56787808 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
56787848 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
56787888 CCGG
1 CCGG
56787892 TTAAATTCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:56787900 original size:80 final size:80
Alignment explanation
Indices: 56787721--56787891 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 80
56787711 GTGCTAAGTG
* * * * *
56787721 ACTAAATCTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * * *
56787785 GGCATTTGTGCGAGTT
65 GACAATCGAGCGAGTC
* * *
56787801 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
56787866 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
56787881 GCTATATCCGG
1 ACTAAATCCGG
56787892 TTAAATTCCA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:56789861 original size:18 final size:18
Alignment explanation
Indices: 56789840--56789884 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
56789830 TTCTTGTCGA
56789840 AAAATAAATAAATATTAT
1 AAAATAAATAAATATTAT
* * *
56789858 AAAATAATTAAATTTTGT
1 AAAATAAATAAATATTAT
*
56789876 AAAAAAAAT
1 AAAATAAAT
56789885 GAACATGGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATAAATAAATATTAT
Found at i:56791237 original size:14 final size:14
Alignment explanation
Indices: 56791218--56791246 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56791208 TCAAGAGATT
56791218 GATTAATTTAATAA
1 GATTAATTTAATAA
56791232 GATTAATTTAATAA
1 GATTAATTTAATAA
56791246 G
1 G
56791247 TATGTATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (14 bp):
GATTAATTTAATAA
Found at i:56803583 original size:2 final size:2
Alignment explanation
Indices: 56803576--56803603 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56803566 GCTTCGCCAC
56803576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56803604 GTTCTGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56813306 original size:49 final size:47
Alignment explanation
Indices: 56813189--56813502 Score: 190
Period size: 49 Copynumber: 6.7 Consensus size: 47
56813179 GGTATGTTGT
* * *
56813189 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
* *
56813236 CGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCGAAATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAGG
* * *
56813284 CTGATGCCATGTTCCAGACATGGTGTTACACT-AGCTCCA-CATATC-TGTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGA-CT-CATCA-ATCAAG-G
* * * * * *
56813333 CTGATGCCATGTCCTAGACGTGGTCTTACACTAACACATC--TCGTAGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAGG
* * *
56813380 CGATG-CATGTCCCAGACAT-GTCTTACAGTGGCTTACATC--TCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCAATCAAGG
* ** *
56813425 TCGAT-CCATGTTCC-GAACAT-GTCTTACACT-AGCTC-TCGTCTCAATGC
1 -CGATGCCATGTCCCAG-ACATGGTCTTACACTGA-CTCATC-AATCAA-GG
56813472 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
56813503 AGAGTACAAA
Statistics
Matches: 212, Mismatches: 30, Indels: 49
0.73 0.10 0.17
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 16 0.08
46 47 0.22
47 47 0.22
48 23 0.11
49 63 0.30
50 2 0.01
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGG
Found at i:56817147 original size:46 final size:45
Alignment explanation
Indices: 56817091--56817261 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
56817081 TATGTGAGTA
*
56817091 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CAATATGAGAGCC
* * * *
56817137 AGTGTAAGACATATCTGGGGCATGCATCGGCCTTGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TCA-ATA-TGAGAGCC
* ** * * *
56817185 AGAGTAAGACATGTCTGGGACATGCATCGGCGTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TCAATATGAGAGCC
56817231 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
56817262 CTCACGATAC
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.60
47 4 0.04
48 35 0.34
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCAATATGAGAGCC
Found at i:56817286 original size:94 final size:94
Alignment explanation
Indices: 56817091--56817310 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 94
56817081 TATGTGAGTA
* *
56817091 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAATATGAGAGCCAGTGTAAGACATATCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGAGAGCCAGTGTAAGACATATCTGGG
* * ***
56817156 GCATGCATCGGCCTTGAGATATTTAAGCC
66 ACATGCATCGGCCTTCAGATACACAAGCC
* * ** * *
56817185 AGAGTAAGACATGTCTGGGACATGCATCGGCGT-TGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-TACAAGACGAGAGCCAGTGTAAGACATATCTGG
*
56817249 GACATGCATCGGCC-TCACGATACACAAGCT
65 GACATGCATCGGCCTTCA-GATACACAAGCC
* * *
56817279 AGTGTAAGACCT-TATGGGACATGGCTTCAGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCT
56817311 TATAGTGTGT
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
93 12 0.12
94 91 0.88
95 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGAGAGCCAGTGTAAGACATATCTGGG
ACATGCATCGGCCTTCAGATACACAAGCC
Found at i:56821223 original size:18 final size:18
Alignment explanation
Indices: 56821200--56821235 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56821190 GAGATGGTTG
56821200 GAGTTGATAAAAGACTAT
1 GAGTTGATAAAAGACTAT
*
56821218 GAGTTGATAATAGACTAT
1 GAGTTGATAAAAGACTAT
56821236 CACCCAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAT
Found at i:56824319 original size:30 final size:30
Alignment explanation
Indices: 56824264--56824423 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
56824254 ATAGTGAATC
56824264 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56824293 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
56824323 CGCACACTTAGTGTTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
56824352 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
56824380 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56824410 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56824424 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 47 0.40
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56824356 original size:59 final size:57
Alignment explanation
Indices: 56824264--56824423 Score: 207
Period size: 59 Copynumber: 2.8 Consensus size: 57
56824254 ATAGTGAATC
* *
56824264 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
56824323 CGCACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * *
56824380 CGCACACTTAGTGCTGTACA-ATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTG-T-TATATATTTTCAGCTCGCACACTTAGTGC
56824424 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
56 2 0.02
57 16 0.17
58 22 0.24
59 52 0.57
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGTTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:56825762 original size:19 final size:18
Alignment explanation
Indices: 56825738--56825773 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56825728 CCCCCTTTTT
*
56825738 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
56825757 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
56825774 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:56827532 original size:44 final size:44
Alignment explanation
Indices: 56827475--56827637 Score: 157
Period size: 44 Copynumber: 3.6 Consensus size: 44
56827465 TACACAAGCT
*
56827475 AGTGTAAGACCTGTATGGGACATGGCTTCAGCTTATAGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCTTCAGCTTATAGTGTGTC
* ** * * *
56827519 AGTGTGAGACCTGTCTGGGACATGGCATTGACA-CCGAGAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGC-TT--CAGCTTATAG-T--GTGTC
* * *
56827568 AATGTAACACCTGTTTGGGACATGGCTTCAGCTTATAGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCTTCAGCTTATAGTGTGTC
* *
56827612 AGTGTGAGACCTGTCTAGGACATGGC
1 AGTGTAAGACCTGTCTGGGACATGGC
56827638 ATCGACACCG
Statistics
Matches: 91, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
44 48 0.53
45 2 0.02
46 7 0.08
47 7 0.08
48 2 0.02
49 25 0.27
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (44 bp):
AGTGTAAGACCTGTCTGGGACATGGCTTCAGCTTATAGTGTGTC
Found at i:56827587 original size:49 final size:49
Alignment explanation
Indices: 56827518--56827732 Score: 183
Period size: 49 Copynumber: 4.5 Consensus size: 49
56827508 TATAGTGTGT
* * *
56827518 CAGTGTGAGACCTGTCTGGGACATGGCATTGACACCGAGAGATGAGAGC
1 CAGTGTAACACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGC
* * ** * *
56827567 CAATGTAACACCTGTTTGGGACATGGC-TT--CAGCTTATAG-T--GTGT
1 CAGTGTAACACCTGTCTGGGACATGGCATTGACA-CCGATAGATGAGAGC
* * * * *
56827611 CAGTGTGAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAAC
1 CAGTGTAACACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGC
* * * * *
56827660 CAGTGTAACACCTGTCTGGGACATGGCATCGGCATCG-TAAATGAAAGC
1 CAGTGTAACACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGC
*
56827708 CAGTGTAAGACCATGTCTGGGACAT
1 CAGTGTAACACC-TGTCTGGGACAT
56827733 AACGTCAGCA
Statistics
Matches: 129, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
44 24 0.19
45 1 0.01
46 8 0.06
47 7 0.05
48 21 0.16
49 68 0.53
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
CAGTGTAACACCTGTCTGGGACATGGCATTGACACCGATAGATGAGAGC
Found at i:56827590 original size:93 final size:93
Alignment explanation
Indices: 56827477--56827686 Score: 348
Period size: 93 Copynumber: 2.3 Consensus size: 93
56827467 CACAAGCTAG
* *
56827477 TGTAAGACCTGTATGGGACATGGCTTCAGCTTATAGTGTGTCAGTGTGAGACCTGTCTGGGACAT
1 TGTAACACCTGTATGGGACATGGCTTCAGCTTATAGTGTGTCAGTGTGAGACCTGTCTAGGACAT
* *
56827542 GGCATTGACACCGAGAGATGAGAGCCAA
66 GGCATCGACACCGAGAGATGAGAACCAA
*
56827570 TGTAACACCTGTTTGGGACATGGCTTCAGCTTATAGTGTGTCAGTGTGAGACCTGTCTAGGACAT
1 TGTAACACCTGTATGGGACATGGCTTCAGCTTATAGTGTGTCAGTGTGAGACCTGTCTAGGACAT
* *
56827635 GGCATCGACACCGATAGATGAGAACCAG
66 GGCATCGACACCGAGAGATGAGAACCAA
*
56827663 TGTAACACCTGTCTGGGACATGGC
1 TGTAACACCTGTATGGGACATGGC
56827687 ATCGGCATCG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 109 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (93 bp):
TGTAACACCTGTATGGGACATGGCTTCAGCTTATAGTGTGTCAGTGTGAGACCTGTCTAGGACAT
GGCATCGACACCGAGAGATGAGAACCAA
Found at i:56839512 original size:39 final size:39
Alignment explanation
Indices: 56839458--56839609 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
56839448 AATGTTCGAG
*
56839458 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
56839497 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56839536 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56839575 TGAAATCCGAGTTAAGTCCCGAAGGCAATTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56839610 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 86 0.83
40 18 0.17
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:56839634 original size:40 final size:39
Alignment explanation
Indices: 56839466--56839637 Score: 211
Period size: 39 Copynumber: 4.4 Consensus size: 39
56839456 AGTGATATCT
*
56839466 GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCC
1 GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACC
*
56839505 GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCC
1 GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACC
* *
56839544 GGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGA-AATCC
1 GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAA-CC
* * * * **
56839583 GAGTTAAGTCCCGAAGGCAATTGTGCGGGTTACCATAACC
1 GGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATAACC
*
56839623 GGGCTATGTCCCGAA
1 GGGCTAAG-CCCGAA
56839638 AGTGTTTTGA
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 78 0.67
40 36 0.31
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (39 bp):
GGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAACC
Found at i:56846914 original size:38 final size:39
Alignment explanation
Indices: 56846863--56846961 Score: 146
Period size: 38 Copynumber: 2.5 Consensus size: 39
56846853 GGGTTAAGAN
56846863 AAGCCCGAAGGCAATTGTGCGAGCTATGATA-CCGGGCT
1 AAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCT
* * *
56846901 AAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTT
1 AAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCT
*
56846940 AAGTCCCGAAGGCATTTGTGCG
1 AAG-CCCGAAGGCAATTGTGCG
56846962 GGTTACCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 29 0.53
39 9 0.16
40 17 0.31
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.22
Consensus pattern (39 bp):
AAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCT
Found at i:56846977 original size:40 final size:40
Alignment explanation
Indices: 56846866--56846991 Score: 157
Period size: 40 Copynumber: 3.2 Consensus size: 40
56846856 TTAAGANAAG
*
56846866 CCCGAAGGCAATTGTGCGAGCTATGAT-ACCGGGCTAAG-
1 CCCGAAGGCAATTGTGCGAGTTATGATAACCGGGCTAAGT
* * *
56846904 CCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGT
1 CCCGAAGGCAATTGTGCGAGTTATGATAACCGGGCTAAGT
* * ** *
56846944 CCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGT
1 CCCGAAGGCAATTGTGCGAGTTATGATAACCGGGCTAAGT
56846984 CCCGAAGG
1 CCCGAAGG
56846992 TGTTTGAACG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 25 0.34
39 9 0.12
40 40 0.54
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCCGAAGGCAATTGTGCGAGTTATGATAACCGGGCTAAGT
Found at i:56854917 original size:40 final size:39
Alignment explanation
Indices: 56854768--56854919 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
56854758 AATGTTCGAG
56854768 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
56854807 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56854846 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56854885 TGAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56854920 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:56854935 original size:40 final size:39
Alignment explanation
Indices: 56854768--56854949 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
56854758 AATGTTCGAG
*
56854768 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
56854807 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56854846 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
56854885 TGA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAA-CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** *
56854925 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
56854950 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 87 0.68
40 38 0.30
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:56859941 original size:14 final size:14
Alignment explanation
Indices: 56859891--56859948 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
56859881 TTTTTATTTA
56859891 ATATGTATA-ATATAT
1 ATATGTATATA-AT-T
*
56859906 ATATGTTATAATAATA
1 ATATG-TAT-ATAATT
*
56859922 AAATGTATATAATT
1 ATATGTATATAATT
56859936 ATATGTATATAAT
1 ATATGTATATAAT
56859949 ATAAGTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 17 0.47
15 8 0.22
16 7 0.19
17 3 0.08
18 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATGTATATAATT
Found at i:56861065 original size:43 final size:43
Alignment explanation
Indices: 56861003--56861087 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
56860993 ATGTGATTCT
*
56861003 GATATGTGTTTACGAGTAAGACC-CTGTTTGGGACAG-TGGCATC
1 GATATGTGGTTACGAGTAAGACCAC-GTTTGGGAC-GTTGGCATC
56861046 GATATGTGGTTAC-ATGTAAGACCACGTTTGGGACGTTGGCAT
1 GATATGTGGTTACGA-GTAAGACCACGTTTGGGACGTTGGCAT
56861088 TGTACGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
GATATGTGGTTACGAGTAAGACCACGTTTGGGACGTTGGCATC
Found at i:56864408 original size:93 final size:93
Alignment explanation
Indices: 56864296--56864467 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56864286 GCCCATAAGT
* * *
56864296 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCAA
56864361 CGAGTTCGGATGCCTAGTTACATCTCAG
66 CGAGTTCGGATGCCTAGTTACATCTCAG
*
56864389 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCAA
56864454 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56864468 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAG
Found at i:56864463 original size:46 final size:45
Alignment explanation
Indices: 56864289--56864463 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 45
56864279 TGTAACCGCC
* * *
56864289 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
56864334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
56864384 C-TCAG-GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
56864427 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56864464 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 67 0.59
47 32 0.28
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:56864482 original size:46 final size:46
Alignment explanation
Indices: 56864339--56864482 Score: 163
Period size: 46 Copynumber: 3.1 Consensus size: 46
56864329 CGCATCCATA
* * *
56864339 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA-TAATATC-C
*
56864387 AG-GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCAATA---
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-C-CAT-AATATCC
56864432 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA-AATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAATAT-CC
56864478 AGTGA
1 AGTGA
56864483 CATGTCACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
42 4 0.05
44 2 0.02
45 3 0.04
46 36 0.43
47 31 0.37
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAATATCC
Found at i:56865836 original size:49 final size:49
Alignment explanation
Indices: 56865780--56865905 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
56865770 AGTGTGTCAG
56865780 TGTAAGACCTGTCTAGGACATGGCATCAACAC-CGATAG-ATGAGAA-CCAC
1 TGTAAGACCTGTCTAGGACATGGCATCAAC-CTCGAT-GTATGA-AAGCCAC
* * * * * *
56865829 TGTAAGACCTGTCTGGGACATGACATCAGCCTCGCTGTATGAAAGCTAG
1 TGTAAGACCTGTCTAGGACATGGCATCAACCTCGATGTATGAAAGCCAC
56865878 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGACC-TGTCTAGGACATGGCATC
56865906 GGCATCTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.06
49 45 0.69
50 16 0.25
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTAGGACATGGCATCAACCTCGATGTATGAAAGCCAC
Found at i:56868790 original size:47 final size:47
Alignment explanation
Indices: 56868736--56868925 Score: 281
Period size: 47 Copynumber: 4.0 Consensus size: 47
56868726 GATTTTATGC
** * *
56868736 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
56868783 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGC
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
56868830 GATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * *
56868877 GATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
56868924 GA
1 GA
56868926 AATATGTATG
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:56869186 original size:37 final size:37
Alignment explanation
Indices: 56869136--56869239 Score: 199
Period size: 37 Copynumber: 2.8 Consensus size: 37
56869126 ATATATTCCA
56869136 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
56869173 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
56869210 GGTAAGACCCGATAACTACGTGTGGAGATT
1 GGTAAGACCCGATGACTACGTGTGGAGATT
56869240 TCGTTTGAAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:56870292 original size:39 final size:39
Alignment explanation
Indices: 56870238--56870317 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
56870228 CCATAGTAGC
* *
56870238 TCGAGGATCATCTCTACGTCGGGGAAGCCTGTCAGACTA
1 TCGAGGATCATCTCTACATAGGGGAAGCCTGTCAGACTA
56870277 TCGAGGATCATCTCTACATAGGGGAAGCCTGTCAGACTA
1 TCGAGGATCATCTCTACATAGGGGAAGCCTGTCAGACTA
56870316 TC
1 TC
56870318 ATCCGAAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (39 bp):
TCGAGGATCATCTCTACATAGGGGAAGCCTGTCAGACTA
Found at i:56879392 original size:48 final size:46
Alignment explanation
Indices: 56879178--56879449 Score: 198
Period size: 48 Copynumber: 5.7 Consensus size: 46
56879168 AAGGTATGCT
* * *
56879178 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACAT-C-TCGTA
* * ** *
56879225 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATTG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-C-ATCTCGTA
* * * * *
56879273 GGTCGACGCCATGTCCCAAACATCGG-CTTACACTAGCTCTCACATATCCGTA
1 -GCCGATGCCATGTCCCAGACAT-GGTCTTACACTA----ACACATCT-CGTA
*
56879325 -CCGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATC--T-CGTA
** * *
56879372 GTTGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTA
56879418 GCCGATG-CATGTCCCAGACAT-GTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
56879450 GTCGATACGT
Statistics
Matches: 179, Mismatches: 29, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 10 0.06
47 33 0.18
48 41 0.23
49 31 0.17
50 33 0.18
51 2 0.01
52 2 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTA
Found at i:56885250 original size:40 final size:39
Alignment explanation
Indices: 56885152--56885299 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 39
56885142 TGAATGATAC
* * * * * *
56885152 CCGGGCTAAGTCCCGAAGCCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTATTATAT
* *
56885192 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTATTATAT
* ** *
56885232 CCGGGCTAAGACTCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTATTATAT
*
56885272 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGC-ATTGTGC
56885300 TTGTGGTTAT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCAAGTTATTATAT
Done.