Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 81 of 250
Found at i:25581913 original size:33 final size:33
Alignment explanation
Indices: 25581876--25581947 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
25581866 CACACAATGC
*
25581876 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
* **
25581909 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
25581942 TACTGT
1 TACTGT
25581948 GTTGTTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:25583392 original size:374 final size:374
Alignment explanation
Indices: 25582703--25583454 Score: 1441
Period size: 374 Copynumber: 2.0 Consensus size: 374
25582693 AAATCCATGG
25582703 TAGTCTTCGAAATTTTAATTTTATGAACAGGTGATGCAATTGGCATTTGGGCTTTTAAGAGTAAA
1 TAGTCTTCGAAATTTTAATTTTATGAACAGGTGATGCAATTGGCATTTGGGCTTTTAAGAGTAAA
*
25582768 GGGGTAAAAGATGACATAAAAAGGAGTGTGGTGTAGTGGCAAGGTGGTTGTAACACCCCAAAATC
66 GGGGTAAAAGATGACATAAAAAGGAGTGTGGTGTAGTGGCAAGGTGGTTGTAACACCCCAAAACC
*
25582833 GTGGCCGTCACCGGGATCGAACACGAGGTGTAATCTGGCTTAATTGATCACTTATCCAGCTCAAA
131 GTGGCCGTCACCGGGATCGAACACGAGGTGTAATCTGGCTTAATTCATCACTTATCCAGCTCAAA
*
25582898 CAATTTATTTTAAAACTCCCAGACAAACTGTCAATCTGCGTTATAGTCACTTCAAAATTCGTATC
196 CAATTTATTTTAAAACTCCCAGACAAACAGTCAATCTGCGTTATAGTCACTTCAAAATTCGTATC
25582963 TTGAGTTCTGAAACTCAAAATTTAATTCCACAATTTTTTCCTGAAACTAGACTCATATATCTATC
261 TTGAGTTCTGAAACTCAAAATTTAATTCCACAATTTTTTCCTGAAACTAGACTCATATATCTATC
25583028 TACTAAAATTTTTCCACAATTTTTGGTCTGTCCAATTAGTACAGTTTAT
326 TACTAAAATTTTTCCACAATTTTTGGTCTGTCCAATTAGTACAGTTTAT
25583077 TAGTCTTCGAAATTTTAATTTTATGAACAGGTGATGCAATTGGCATTTGGGCTTTTAAGAGTAAA
1 TAGTCTTCGAAATTTTAATTTTATGAACAGGTGATGCAATTGGCATTTGGGCTTTTAAGAGTAAA
*
25583142 GGGGTAAAAGATGACATAAAAAGGAGTGTGGTGTAGTGGCAAGGTGGTTGTAACACCCCGAAACC
66 GGGGTAAAAGATGACATAAAAAGGAGTGTGGTGTAGTGGCAAGGTGGTTGTAACACCCCAAAACC
*
25583207 GTGGTCGTCACCGGGATCGAACACGAGGTGTAATCTGGCTTAATTCATCACTTATCCAGCTCAAA
131 GTGGCCGTCACCGGGATCGAACACGAGGTGTAATCTGGCTTAATTCATCACTTATCCAGCTCAAA
*
25583272 CAATTTGTTTTAAAACTCCCAGACAAACAGTCAATCTGCGTTATAGTCACTTCAAAATTCGTATC
196 CAATTTATTTTAAAACTCCCAGACAAACAGTCAATCTGCGTTATAGTCACTTCAAAATTCGTATC
*
25583337 TTGAGTTCTGAAACTCAAAATTTAATTCTACAATTTTTTCCTGAAACTAGACTCATATATCTATC
261 TTGAGTTCTGAAACTCAAAATTTAATTCCACAATTTTTTCCTGAAACTAGACTCATATATCTATC
25583402 TACTAAAATTTTTCCACAATTTTTGGTCTGTCCAATTAGTACAGTTTAT
326 TACTAAAATTTTTCCACAATTTTTGGTCTGTCCAATTAGTACAGTTTAT
25583451 TAGT
1 TAGT
25583455 TAAAGTCTCC
Statistics
Matches: 371, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
374 371 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (374 bp):
TAGTCTTCGAAATTTTAATTTTATGAACAGGTGATGCAATTGGCATTTGGGCTTTTAAGAGTAAA
GGGGTAAAAGATGACATAAAAAGGAGTGTGGTGTAGTGGCAAGGTGGTTGTAACACCCCAAAACC
GTGGCCGTCACCGGGATCGAACACGAGGTGTAATCTGGCTTAATTCATCACTTATCCAGCTCAAA
CAATTTATTTTAAAACTCCCAGACAAACAGTCAATCTGCGTTATAGTCACTTCAAAATTCGTATC
TTGAGTTCTGAAACTCAAAATTTAATTCCACAATTTTTTCCTGAAACTAGACTCATATATCTATC
TACTAAAATTTTTCCACAATTTTTGGTCTGTCCAATTAGTACAGTTTAT
Found at i:25584605 original size:28 final size:28
Alignment explanation
Indices: 25584573--25584642 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
25584563 ATAGTAAGTC
25584573 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
25584601 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
25584629 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25584643 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:25588032 original size:93 final size:93
Alignment explanation
Indices: 25587865--25588035 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
25587855 GCCCATAAGT
* * * * * *
25587865 GAACTCGGACTCAACTCAATGAGCTCGGTCGCTCGCATCCATAAGTGAACTTGGACTCAACTAAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTAAACTCGGACTCAACTAAA
*
25587930 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
25587958 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTAAACTCGGACTCAACTAAA
*
25588023 CGAGTTCGGATGC
66 CGAGCTCGGATGC
25588036 TCAACCATCC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTAAACTCGGACTCAACTAAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25589464 original size:27 final size:27
Alignment explanation
Indices: 25589387--25589524 Score: 141
Period size: 27 Copynumber: 5.1 Consensus size: 27
25589377 GATAAGTCAG
*
25589387 ACCGAAATACCACTGTAGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * *
25589414 ACCCAAATACCCCTATAAGATAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * *
25589441 ATCGAAATACTCTTGTAGGGTAGAAAT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* *
25589468 ACTGAAATACCCCTGTCGGGTAGAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
* * * *
25589495 ACCGAGATACCCTTGTGGGGTAAAATT
1 ACCGAAATACCCCTGTAGGGTAGAATT
25589522 ACC
1 ACC
25589525 ATTTTGCCCC
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
ACCGAAATACCCCTGTAGGGTAGAATT
Found at i:25592239 original size:19 final size:20
Alignment explanation
Indices: 25592215--25592252 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25592205 GGTACCACCA
25592215 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
25592234 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
25592253 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:25592547 original size:46 final size:44
Alignment explanation
Indices: 25592480--25592645 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 44
25592470 CACCCCTAAG
*
25592480 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTC-GACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
25592526 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTC-GACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
25592573 CGAACTCGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
25592618 TGAACTCGACTCAACTCAACGAGTTCGG
1 TGAACTCGACTCAACTCAACGAGTTCGG
25592646 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 1 0.01
45 27 0.26
46 49 0.48
47 7 0.07
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
TGAACTCGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:25592595 original size:92 final size:92
Alignment explanation
Indices: 25592481--25592649 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
25592471 ACCCCTAAGT
* *
25592481 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTC-GACTCAACTCAA
25592546 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
25592574 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
25592638 GAGTTCGGATGC
66 GAGTTCGGATGC
25592650 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 25 0.35
92 40 0.56
93 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25603372 original size:49 final size:51
Alignment explanation
Indices: 25603307--25603432 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 51
25603297 TCAAGTCGAT
25603307 GCCATGTCCCAGACATGGTCTTACACTAA-CTATCGA-A-AT-TGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAAGCTATC-ACATATCTG-GGCCGAC
* * * *
25603356 GCCATGTCCCAGACATGGTCTTACAC-AAGCTCTCACATATCTGTGCGGAT
1 GCCATGTCCCAGACATGGTCTTACACTAAGCTATCACATATCTGGGCCGAC
*
25603406 GCCAAGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
25603433 GACACATCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
48 3 0.04
49 31 0.46
50 31 0.46
51 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACACTAAGCTATCACATATCTGGGCCGAC
Found at i:25603486 original size:46 final size:44
Alignment explanation
Indices: 25603411--25603528 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 44
25603401 CGGATGCCAA
* *
25603411 GTCCCAGACATGGTCTTACACTGACACATCTCTTAGTC-GATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCACATCTC-AAGTCTGATGCAT
* *
25603456 GTCCGAGACATGTCTCACACTGGCTTACATCTCAAGTCTGATGCAT
1 GTCCCAGACATGTCTTACACTGGC--ACATCTCAAGTCTGATGCAT
*
25603502 GTCCCAGACATGTCTTATACTGGCACA
1 GTCCCAGACATGTCTTACACTGGCACA
25603529 CAAATAACCC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.22
45 14 0.22
46 35 0.56
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGTCTTACACTGGCACATCTCAAGTCTGATGCAT
Found at i:25607672 original size:40 final size:40
Alignment explanation
Indices: 25607635--25607818 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
25607625 GCTACTCGTT
*
25607635 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
25607675 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
25607715 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
25607754 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
25607795 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
25607819 ACATCATTCG
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:25607746 original size:79 final size:81
Alignment explanation
Indices: 25607637--25607819 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
25607627 TACTCGTTCA
* *
25607637 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
25607700 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
25607717 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACCAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
25607780 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
25607796 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25607820 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:25610214 original size:25 final size:26
Alignment explanation
Indices: 25610170--25610218 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
25610160 CCTCGTAAGG
25610170 TGCCATCTTAATACTTGATTGAAAAC
1 TGCCATCTTAATACTTGATTGAAAAC
25610196 TGCCATCTT-ATACTTGATTGAAA
1 TGCCATCTTAATACTTGATTGAAA
25610219 CTGTTGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (26 bp):
TGCCATCTTAATACTTGATTGAAAAC
Found at i:25614125 original size:20 final size:20
Alignment explanation
Indices: 25614100--25614144 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
25614090 AGAAAGCTGT
25614100 CTAGCTCATCATTCGGATTA
1 CTAGCTCATCATTCGGATTA
25614120 CTAGCTCATCATTCGGATTA
1 CTAGCTCATCATTCGGATTA
25614140 CTAGC
1 CTAGC
25614145 AATAGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (20 bp):
CTAGCTCATCATTCGGATTA
Found at i:25615881 original size:79 final size:81
Alignment explanation
Indices: 25615772--25615954 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
25615762 TACTCGTTCA
* *
25615772 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
25615835 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
25615852 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
25615915 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
25615931 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25615955 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:25615954 original size:40 final size:40
Alignment explanation
Indices: 25615751--25615954 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
25615741 CGGAATTTAA
** *
25615751 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25615791 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25615831 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25615870 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25615910 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25615950 CCGGA
1 CCGGA
25615955 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25625518 original size:22 final size:21
Alignment explanation
Indices: 25625464--25625518 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
25625454 ACAGACTCCA
**
25625464 ACACGGGCGTGTCCTAGGGTC
1 ACACGGGCGTGTCCTAGGACC
* * *
25625485 AGACGGGAGTGTCCCTTGGACC
1 ACACGGGCGTGT-CCTAGGACC
25625507 ACACGGGCGTGT
1 ACACGGGCGTGT
25625519 GAGCCCTGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.18
Consensus pattern (21 bp):
ACACGGGCGTGTCCTAGGACC
Found at i:25626978 original size:21 final size:21
Alignment explanation
Indices: 25626949--25626988 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25626939 AGTCAGGTCG
*
25626949 AATCTAACTAAACAGAATTGA
1 AATCCAACTAAACAGAATTGA
*
25626970 AATCCAACTAATCAGAATT
1 AATCCAACTAAACAGAATT
25626989 CAACCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
AATCCAACTAAACAGAATTGA
Found at i:25631751 original size:29 final size:29
Alignment explanation
Indices: 25631687--25631751 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
25631677 TGTGAACAGG
25631687 CCGTGTGCCTCACACGGCCTTAGACACGC
1 CCGTGTGCCTCACACGGCCTTAGACACGC
**
25631716 CATTGTGCCTCACACGGCCTTAGACACGC
1 CCGTGTGCCTCACACGGCCTTAGACACGC
25631745 CCGTGTG
1 CCGTGTG
25631752 TCTAAGCCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.17, C:0.38, G:0.25, T:0.20
Consensus pattern (29 bp):
CCGTGTGCCTCACACGGCCTTAGACACGC
Found at i:25634225 original size:108 final size:108
Alignment explanation
Indices: 25634036--25634250 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
25634026 CTTTTGCAAA
*
25634036 ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
1 ATACACAGTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
25634101 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
66 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
25634144 ATACACAGTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
1 ATACACAGTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
25634209 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATG
66 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATG
25634251 TAGAGAGCAT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (108 bp):
ATACACAGTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
Found at i:25641949 original size:9 final size:9
Alignment explanation
Indices: 25641924--25641957 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25641914 AGTCGGTTAA
*
25641924 AAATTCTGT
1 AAATTTTGT
25641933 AAATTTTTGT
1 AAA-TTTTGT
25641943 AAATTTTGT
1 AAATTTTGT
25641952 AAATTT
1 AAATTT
25641958 GAAATCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
AAATTTTGT
Found at i:25647789 original size:87 final size:87
Alignment explanation
Indices: 25647643--25647817 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
25647633 ATTTTACACG
25647643 TTACTCGAAGAATTTCTTCATGAAATTTTAACACATGTATATACTCATATTCTAGGCCTCATAAT
1 TTACTCGAAGAATTTCTTCATGAAATTTTAACACATGTATATACTCATATTCTAGGCCTCATAAT
25647708 AATCATAAAATAAATATTTTGA
66 AATCATAAAATAAATATTTTGA
25647730 TTACTCGAAGAATTTCTTCATGAAATTTTAACACATGTATATACTCATATTCTAGGCCTCATAAT
1 TTACTCGAAGAATTTCTTCATGAAATTTTAACACATGTATATACTCATATTCTAGGCCTCATAAT
*
25647795 AATCATAAAGTAAATATTTTGA
66 AATCATAAAATAAATATTTTGA
25647817 T
1 T
25647818 GTTAGATTTG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (87 bp):
TTACTCGAAGAATTTCTTCATGAAATTTTAACACATGTATATACTCATATTCTAGGCCTCATAAT
AATCATAAAATAAATATTTTGA
Found at i:25651220 original size:21 final size:21
Alignment explanation
Indices: 25651194--25651236 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25651184 TATGGTAAAC
25651194 CATGAAATTGGTGTGGAATGA
1 CATGAAATTGGTGTGGAATGA
25651215 CATGAAATTGGTGTGGAATGA
1 CATGAAATTGGTGTGGAATGA
25651236 C
1 C
25651237 TAAAAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (21 bp):
CATGAAATTGGTGTGGAATGA
Found at i:25655626 original size:27 final size:27
Alignment explanation
Indices: 25655596--25655773 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
25655586 ATATTGAGCC
* *
25655596 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
25655623 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25655650 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
25655678 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
25655705 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
25655732 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
25655759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25655774 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25655708 original size:55 final size:54
Alignment explanation
Indices: 25655596--25655773 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
25655586 ATATTGAGCC
* * *
25655596 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
25655650 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
25655705 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
25655759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25655774 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:25663634 original size:27 final size:27
Alignment explanation
Indices: 25663604--25663781 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
25663594 ATATTGAGCC
* *
25663604 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
25663631 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25663658 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
25663686 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
25663713 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
25663740 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
25663767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25663782 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25663716 original size:55 final size:54
Alignment explanation
Indices: 25663604--25663781 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
25663594 ATATTGAGCC
* * *
25663604 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
25663658 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
25663713 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
25663767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25663782 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:25666152 original size:40 final size:39
Alignment explanation
Indices: 25666097--25666237 Score: 203
Period size: 40 Copynumber: 3.6 Consensus size: 39
25666087 TATTCGGATG
25666097 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CT
**
25666137 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CT
* *
25666177 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCT
*
25666217 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
25666238 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.14
40 76 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCT
Found at i:25674262 original size:40 final size:40
Alignment explanation
Indices: 25674208--25674430 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
25674198 TATTCGGATG
25674208 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
25674247 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
25674290 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
25674330 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
25674370 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
25674410 ATATCC-GACTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
25674431 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.10
40 109 0.67
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:25674351 original size:83 final size:80
Alignment explanation
Indices: 25674212--25674430 Score: 291
Period size: 83 Copynumber: 2.7 Consensus size: 80
25674202 CGGATGATAT
* **
25674212 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
25674277 GCGAGTAGTTG-CTATACC
66 GC---TAG-TGACTATACC
*
25674295 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
*
25674360 GCTAGTGACTATATC
66 GCTAGTGACTATACC
* * * *
25674375 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GACTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
25674431 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 15 0.12
80 45 0.36
81 2 0.02
83 63 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTATACC
Found at i:25680025 original size:40 final size:41
Alignment explanation
Indices: 25679954--25680046 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
25679944 CGACTATGCT
* * *
25679954 TGGCACTAAGTGTGCGGTTTAACATAGCTTCAGCTACA-AA
1 TGGCACTAAGTGTGCAGTTGAACATAACTTCAGCTACATAA
* *
25679994 TGGCACTAAGTGTGCAAGTTGGA-ATAACTTCAGCTATATAA
1 TGGCACTAAGTGTGC-AGTTGAACATAACTTCAGCTACATAA
25680035 --GCACTAAGTGTG
1 TGGCACTAAGTGTG
25680047 TGATACCGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 12 0.26
40 28 0.61
41 6 0.13
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCAGTTGAACATAACTTCAGCTACATAA
Found at i:25681009 original size:22 final size:22
Alignment explanation
Indices: 25680981--25681023 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
25680971 GAGACACGGG
25680981 CGTGTCTCAGCCCTATGCGATC
1 CGTGTCTCAGCCCTATGCGATC
*
25681003 CGTGTCTCAGCCCTGTGCGAT
1 CGTGTCTCAGCCCTATGCGAT
25681024 ATATGGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.35, G:0.26, T:0.28
Consensus pattern (22 bp):
CGTGTCTCAGCCCTATGCGATC
Found at i:25690708 original size:46 final size:46
Alignment explanation
Indices: 25690658--25690926 Score: 242
Period size: 46 Copynumber: 5.8 Consensus size: 46
25690648 TATTTTGGCA
*
25690658 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
*** * * *
25690704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGAATG
* *
25690749 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* *** * *
25690797 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TACG-AATG
* * * *
25690845 -CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* * *
25690890 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25690927 GCGGGTTACA
Statistics
Matches: 175, Mismatches: 36, Indels: 24
0.74 0.15 0.10
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 3 0.02
46 98 0.56
47 63 0.36
48 3 0.02
49 2 0.01
50 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
Found at i:25690771 original size:47 final size:47
Alignment explanation
Indices: 25690704--25690872 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 47
25690694 GATACGAATG
25690704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *** * *
25690751 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
*
25690795 TGTCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* * *
25690844 ACTGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
25690873 ACTTGTGGAT
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.32
47 57 0.58
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:25690813 original size:93 final size:93
Alignment explanation
Indices: 25690654--25690918 Score: 449
Period size: 93 Copynumber: 2.8 Consensus size: 93
25690644 AGGATATTTT
* * *
25690654 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
25690719 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
25690747 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
25690812 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
25690840 GGCAACTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
25690905 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25690919 CCTTATGGGC
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:25696007 original size:39 final size:40
Alignment explanation
Indices: 25695962--25696127 Score: 102
Period size: 40 Copynumber: 4.2 Consensus size: 40
25695952 CGGGGTTTAG
* * *
25695962 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
25696001 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
25696041 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
25696081 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
25696122 CCGGAT
1 CCGGAT
25696128 GTCATTCGAG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 26 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:25696032 original size:40 final size:40
Alignment explanation
Indices: 25695985--25696127 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
25695975 CTCGCACAAG
* * * * *
25695985 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
25696025 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
25696065 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
25696106 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
25696128 GTCATTCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:25699034 original size:68 final size:68
Alignment explanation
Indices: 25698884--25699041 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
25698874 CTAGCCAGTT
* * *
25698884 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
25698949 TTTA
65 CATA
* * *
25698953 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
25699015 CTACATA
63 C-ACATA
*
25699022 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
25699042 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:25704720 original size:12 final size:12
Alignment explanation
Indices: 25704703--25704728 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25704693 AGGTATTACC
25704703 CGTGTTCCACAT
1 CGTGTTCCACAT
25704715 CGTGTTCCACAT
1 CGTGTTCCACAT
25704727 CG
1 CG
25704729 AGCTGTAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.19, T:0.31
Consensus pattern (12 bp):
CGTGTTCCACAT
Found at i:25712679 original size:46 final size:46
Alignment explanation
Indices: 25712629--25712804 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
25712619 TGGTTGAGCA
25712629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25712675 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25712720 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
25712768 CCCGAGCTCGTTGTGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25712805 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25712786 original size:93 final size:93
Alignment explanation
Indices: 25712626--25712797 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25712616 GGATGGTTGA
* *
25712626 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25712691 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
25712719 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGTGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25712784 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25712798 CTTATGGGCG
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:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25713347 original size:46 final size:46
Alignment explanation
Indices: 25713295--25713418 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
25713285 TTTTTGTGTA
25713295 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
25713341 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
*
25713387 AATGA---TA---AATGGTGATGGAATGGTTGAGGAAA
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAA
25713419 GGCTCAGTCA
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
40 24 0.31
43 2 0.03
46 51 0.66
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.32
Consensus pattern (46 bp):
AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
Found at i:25725472 original size:40 final size:40
Alignment explanation
Indices: 25725402--25725567 Score: 140
Period size: 39 Copynumber: 4.2 Consensus size: 40
25725392 CGAGGTTTAG
** * *
25725402 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
25725441 CCGGATATGGTCACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
25725480 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* ** * * *
25725520 CCGGATGTAGTTGCTTAGCACAAAAGCCTTCGGGACTT-AG
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
25725560 CCGGATAT
1 CCGGATAT
25725568 CATTCGAGTA
Statistics
Matches: 102, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 49 0.48
40 33 0.32
41 20 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:25725483 original size:39 final size:40
Alignment explanation
Indices: 25725425--25725567 Score: 166
Period size: 39 Copynumber: 3.6 Consensus size: 40
25725415 CTCGCACAAG
* * * * *
25725425 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
25725465 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
25725504 GCCTTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
25725545 GCCTTCGGGACTTAG-CCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
25725568 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 37 0.41
40 30 0.33
41 20 0.22
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:25729257 original size:40 final size:40
Alignment explanation
Indices: 25729202--25729428 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
25729192 AACATTGGAT
25729202 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
25729242 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
25729282 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
25729322 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
25729362 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
25729402 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
25729429 ATGTGTTTGC
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:25733136 original size:43 final size:43
Alignment explanation
Indices: 25733046--25733142 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
25733036 TGAGCTTATG
* * * ** *
25733046 TGTAAAACCATGTCTGGGACATTGGCATCGTTAATTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGATAACA
*
25733089 TGTAAGACCCTGTCTGGGACAGTGGCATCGAT-ATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATAAT-TGATAACA
*
25733132 TGTAAGGCCAT
1 TGTAAGACCAT
25733143 CTTTGGGATA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGATAACA
Found at i:25743496 original size:33 final size:34
Alignment explanation
Indices: 25743442--25743506 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
25743432 CTATTTCAAC
*
25743442 AAATATTAAAAAATTATAAAAATAAAATTTATTA
1 AAATATTAAAAAATTATAAAAATAAAAATTATTA
*
25743476 AAATTTTAAAAACA-TA-AAAAATAAAAATTAT
1 AAATATTAAAAA-ATTATAAAAATAAAAATTAT
25743507 AGAAAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 13 0.46
35 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATATTAAAAAATTATAAAAATAAAAATTATTA
Found at i:25743561 original size:16 final size:16
Alignment explanation
Indices: 25743525--25743561 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
25743515 ATATTTTTAA
*
25743525 AAAAAATTAAAATTAT
1 AAAAAATTAAAACTAT
25743541 AAAAAATTAAAACTATT
1 AAAAAATTAAAACTA-T
25743558 AAAA
1 AAAA
25743562 GTTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAAATTAAAACTAT
Found at i:25743572 original size:25 final size:25
Alignment explanation
Indices: 25743530--25743577 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
25743520 TTTAAAAAAA
*
25743530 ATTAAAATTATAAAAAATTAAAACT
1 ATTAAAATTATAAAAAATAAAAACT
25743555 ATTAAAAGTTAT-AAAAATAAAAA
1 ATTAAAA-TTATAAAAAATAAAAA
25743578 TCAATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
ATTAAAATTATAAAAAATAAAAACT
Found at i:25747124 original size:43 final size:43
Alignment explanation
Indices: 25746958--25747122 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
25746948 ATCTGATATG
* *
25746958 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TC
1 TGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TGTC
* * *
25747001 TGTTTTACGTGTAAGACCATGTCTGGGACATAGGCATCG-TGTC
1 TG-ATTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATGTC
* * * * * *
25747044 TGATTTCGTGTAAGACCCTGTCTGGGAAAG-TGACATTGATGTT
1 TGATTACGTGTAAGACCATGTCTGGG-ACGTTGGCATCGATGTC
*
25747087 TGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
25747123 TGTATATGTT
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 31 0.32
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATGTC
Found at i:25758804 original size:41 final size:41
Alignment explanation
Indices: 25758744--25758865 Score: 190
Period size: 41 Copynumber: 3.0 Consensus size: 41
25758734 AAAGGCACCA
* * *
25758744 GTGGATCCACGGTCATCAAGCCACCATGCAATCCTTAATTG
1 GTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATTG
* * *
25758785 GTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATTG
25758826 GTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATT
1 GTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATT
25758866 TCTTCCTCCG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATTG
Found at i:25759154 original size:27 final size:27
Alignment explanation
Indices: 25759124--25759542 Score: 249
Period size: 27 Copynumber: 15.6 Consensus size: 27
25759114 GGTAAATATA
*
25759124 CAAATCAAGGGTATTTCGGTAAATTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * **
25759151 CAAACCAATGGTATTTCTATAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
25759178 -AAAGTCAAAGGTATTTCTGTAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* * * * *
25759205 TAAATTAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
25759232 CAAATCAAGGGTGTTTCGGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
25759259 CAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** *
25759286 AAAATCAAGGGTATTTTAGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * * * ** *
25759313 TAAGTCGAGGGCATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** * * *
25759340 TAGGTCGAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** * * *
25759367 CAAGTTGAGTGTA-TTCTAGTAATTTTA
1 CAAATCAAGGGTATTTC-GGTAATTTTG
* **
25759394 CAAGT-AGAGGG-ATTTCGGTAATTTCA
1 CAAATCA-AGGGTATTTCGGTAATTTTG
* * * *
25759420 CAAATTAAGGGGATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
25759447 CAAA-CCAGGGTTATTTTGGTAATTTTG
1 CAAATCAAGGG-TATTTCGGTAATTTTG
* * *
25759474 CTAATCGAGGGTATTTTGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
25759501 CAAACCAAGGGTATTT-AGTAATTTT-
1 CAAATCAAGGGTATTTCGGTAATTTTG
*
25759526 CTAAACCAAGGGTATTT
1 C-AAATCAAGGGTATTT
25759543 TAATAACACT
Statistics
Matches: 328, Mismatches: 54, Indels: 21
0.81 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 50 0.15
27 269 0.82
28 8 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:25759442 original size:53 final size:54
Alignment explanation
Indices: 25759320--25759449 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 54
25759310 TTTTAAGTCG
* * * * * *
25759320 AGGGCATTTTAGTAATTTTATAGGTCGAGGGTATTTCAGTAATTTTACAAGTTG
1 AGGGCATTTTAGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTA
* * * *
25759374 AGTGTATTCTAGTAATTTTACAAGTAGAGGG-ATTTCGGTAATTTCACAAATTA
1 AGGGCATTTTAGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTA
* *
25759427 AGGGGATTTTGGTAATTTTACAA
1 AGGGCATTTTAGTAATTTTACAA
25759450 ACCAGGGTTA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 37 0.60
54 25 0.40
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGCATTTTAGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTA
Found at i:25759562 original size:27 final size:27
Alignment explanation
Indices: 25759532--25759642 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 27
25759522 TTTTCTAAAC
* *
25759532 CAAGGGTATTTTAATAACACTACCCTA
1 CAAGGGCATTTCAATAACACTACCCTA
* *
25759559 CAAGGGCATTTCAGTAATACTACCCTA
1 CAAGGGCATTTCAATAACACTACCCTA
* * ** *
25759586 CAGGGGCATTTCAGTAATTCTACCCTG
1 CAAGGGCATTTCAATAACACTACCCTA
* * * *
25759613 CAGGGGCATTTCAGTAACTCTATCCTA
1 CAAGGGCATTTCAATAACACTACCCTA
25759640 CAA
1 CAA
25759643 ATATGAGATT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (27 bp):
CAAGGGCATTTCAATAACACTACCCTA
Found at i:25766557 original size:82 final size:81
Alignment explanation
Indices: 25766441--25766596 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
25766431 AAATTGTACA
* * * *
25766441 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
25766505 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25766522 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
25766587 TGCGAGTTGA
65 TGCGAATTGA
25766597 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25766564 original size:55 final size:52
Alignment explanation
Indices: 25766440--25766593 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
25766430 TAAATTGTAC
* *
25766440 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
25766493 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
25766548 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
25766594 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:25766598 original size:27 final size:27
Alignment explanation
Indices: 25766441--25766596 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
25766431 AAATTGTACA
*
25766441 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
25766468 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
25766495 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
25766522 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
25766550 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
25766577 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
25766597 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:25766607 original size:27 final size:27
Alignment explanation
Indices: 25766433--25766617 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
25766423 GCGGGATTAA
*
25766433 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
25766460 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
25766487 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
25766514 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
25766542 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
25766569 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
25766596 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
25766618 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:25766608 original size:82 final size:81
Alignment explanation
Indices: 25766433--25766617 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
25766423 GCGGGATTAA
* * * *
25766433 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
25766498 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
25766514 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
25766578 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
25766596 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
25766618 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:25768006 original size:27 final size:27
Alignment explanation
Indices: 25767968--25768068 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
25767958 GGGTGTTACA
25767968 GTATTTCTGTAATTTTACAAGTCGAGG
1 GTATTTCTGTAATTTTACAAGTCGAGG
* *
25767995 GTATTTCGGTAATTTTACAAGTCGAAG
1 GTATTTCTGTAATTTTACAAGTCGAGG
* * *
25768022 GTATTTCAGTAATTTCACAAATC-AGGG
1 GTATTTCTGTAATTTTACAAGTCGA-GG
*
25768049 GTATTTTTGTAATTTTACAA
1 GTATTTCTGTAATTTTACAA
25768069 AATAATGGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
GTATTTCTGTAATTTTACAAGTCGAGG
Found at i:25768069 original size:27 final size:27
Alignment explanation
Indices: 25767968--25768119 Score: 112
Period size: 27 Copynumber: 5.6 Consensus size: 27
25767958 GGGTGTTACA
* *
25767968 GTATTTCTGTAATTTTACAAGTC-GAGG
1 GTATTTCGGTAATTTTACAAATCAG-GG
* *
25767995 GTATTTCGGTAATTTTACAAGTC-GAAG
1 GTATTTCGGTAATTTTACAAATCAG-GG
* *
25768022 GTATTTCAGTAATTTCACAAATCAGGG
1 GTATTTCGGTAATTTTACAAATCAGGG
** * *
25768049 GTATTTTTGTAATTTTACAAAATAATGG
1 GTATTTCGGTAATTTTAC-AAATCAGGG
* * *
25768077 GTATTTTGGTAATTTTGCTAATCTA-GG
1 GTATTTCGGTAATTTTACAAATC-AGGG
* *
25768104 GTATTTTGGAAATTTT
1 GTATTTCGGTAATTTT
25768120 GTATACCAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAAATCAGGG
Found at i:25768080 original size:28 final size:27
Alignment explanation
Indices: 25768021--25768092 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
25768011 ACAAGTCGAA
* * *
25768021 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTAGTAATTTTACAAATAAGG
* *
25768048 GGTATTTTTGTAATTTTACAAAATAATG
1 GGTATTTTAGTAATTTTAC-AAATAAGG
*
25768076 GGTATTTTGGTAATTTT
1 GGTATTTTAGTAATTTT
25768093 GCTAATCTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAATAAGG
Found at i:25768131 original size:27 final size:27
Alignment explanation
Indices: 25768075--25768136 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
25768065 ACAAAATAAT
* * *
25768075 GGGTATTTTGGTAATTTTGCTAATCTA
1 GGGTATTTTGGAAATTTTGCTAACCAA
25768102 GGGTATTTTGGAAATTTTG-TATACCAA
1 GGGTATTTTGGAAATTTTGCTA-ACCAA
25768129 GGGTATTT
1 GGGTATTT
25768137 CAATAATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (27 bp):
GGGTATTTTGGAAATTTTGCTAACCAA
Found at i:25768163 original size:27 final size:27
Alignment explanation
Indices: 25768133--25768233 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
25768123 TACCAAGGGT
* * *
25768133 ATTTCAATAATTCTACTCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
25768160 ATTTTAGTAATTCTATCCTACAGAGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
25768187 ATTTCAGTAATTCTACCCTACAAGGAC
1 ATTTCAGTAATTCTACCCTACAGGGGC
25768214 ATTTCAGTAATTCTACCCTA
1 ATTTCAGTAATTCTACCCTA
25768234 TAGATATGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:25772570 original size:12 final size:12
Alignment explanation
Indices: 25772553--25772581 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25772543 CTGTAAAAAG
25772553 AATTATTTATGA
1 AATTATTTATGA
25772565 AATTATTTATGA
1 AATTATTTATGA
25772577 AATTA
1 AATTA
25772582 ATTGTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTATTTATGA
Found at i:25772756 original size:23 final size:23
Alignment explanation
Indices: 25772730--25772776 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25772720 ATACTTGTGT
*
25772730 TGGATTAATTACATTTTTTTAAC
1 TGGATTAATTACATTTTCTTAAC
25772753 TGGATTAATTACATTTTCTTAAC
1 TGGATTAATTACATTTTCTTAAC
25772776 T
1 T
25772777 TAGAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (23 bp):
TGGATTAATTACATTTTCTTAAC
Found at i:25784250 original size:3 final size:3
Alignment explanation
Indices: 25784242--25784270 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25784232 ATAAAAATAA
25784242 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25784271 GAGTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25788029 original size:17 final size:17
Alignment explanation
Indices: 25788007--25788039 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25787997 CAGTAACATT
*
25788007 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
25788024 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
25788040 GTTCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:25795474 original size:40 final size:40
Alignment explanation
Indices: 25795313--25795467 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
25795303 ATTCGGATTG
*
25795313 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
25795352 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
25795392 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
25795432 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
25795468 AGCTATATCC
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 12 0.12
40 91 0.88
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:25803412 original size:40 final size:40
Alignment explanation
Indices: 25803351--25803571 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
25803341 ATTCGGATTG
*
25803351 ATAACCGGGCTAA-TCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
25803390 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25803430 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
25803470 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
25803510 ATAACCGGGCTAAGTCCCGAAGGCATTAGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
25803550 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
25803572 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 28 0.17
40 140 0.83
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:25805557 original size:43 final size:43
Alignment explanation
Indices: 25805498--25805645 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
25805488 CAATTCCATA
* * ** *
25805498 TCCCAGATATGGTCTTACATGTTATCATAA-ATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGAAATCATAATA-CGATGCCAATG
* *
25805541 TTCCAGACATGATCTTACACGAAATCATAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCATAATACGATGCCAATG
* * * *
25805584 TCCCAAACATGGTCTTACAC-ATAATCACAATACAATGCTAATG
1 TCCCAGACATGGTCTTACACGA-AATCATAATACGATGCCAATG
*** *
25805627 TTTTAGACATGATCTTACA
1 TCCCAGACATGGTCTTACA
25805646 TGTAATCACA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.01
43 83 0.98
44 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCATAATACGATGCCAATG
Found at i:25805652 original size:43 final size:43
Alignment explanation
Indices: 25805532--25805655 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
25805522 TCATAAATCG
* * * * *
25805532 ATGCCATTGTTCCAGACATGATCTTACACGAAATCATAATACG
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACAATACA
* * *
25805575 ATGCCAATGTCCCAAACATGGTCTTACACATAATCACAATACA
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACAATACA
* *** *
25805618 ATGCTAATGTTTTAGACATGATCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGATCTTACACGTAATCACA
25805656 TCTCGATAAC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGATCTTACACGTAATCACAATACA
Found at i:25810743 original size:40 final size:40
Alignment explanation
Indices: 25810674--25810809 Score: 247
Period size: 40 Copynumber: 3.4 Consensus size: 40
25810664 AACCCAAGTA
* *
25810674 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
25810713 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
25810753 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
25810793 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
25810810 AGTTATCATC
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 13 0.14
40 81 0.86
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:25812342 original size:13 final size:13
Alignment explanation
Indices: 25812324--25812349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25812314 ATTTTTATTT
25812324 TTAACATAAAATA
1 TTAACATAAAATA
25812337 TTAACATAAAATA
1 TTAACATAAAATA
25812350 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:25815472 original size:40 final size:40
Alignment explanation
Indices: 25815405--25815584 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
25815395 CGAATGATAC
* * *
25815405 CCGGGCGAAGTCCCGAAGGCTTTTGTGCTAGCGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
* * * ***
25815445 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTTCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
*
25815485 CCGGGCTAAGACCCGAAGGCATTTGTGGTAGCGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
* * * *
25815525 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
25815565 CCGGGCTAAGACCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
25815585 CTTGTGTGAG
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
Found at i:25832626 original size:10 final size:10
Alignment explanation
Indices: 25832611--25832636 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25832601 TTCGGGTATG
25832611 CTCTTTCTCT
1 CTCTTTCTCT
25832621 CTCTTTCTCT
1 CTCTTTCTCT
25832631 CTCTTT
1 CTCTTT
25832637 ATCTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTCTTTCTCT
Found at i:25841055 original size:29 final size:29
Alignment explanation
Indices: 25840992--25841099 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 29
25840982 TTCACATACC
* * *
25840992 TGTATCTGGCCCACTAAGCCC-AATCATA
1 TGTATATGGCCCATTAAGCCCAAATCACA
* *
25841020 TTTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAAGCCCAAATCACA
* * *
25841049 TGTATATGGTCCTTTAGGCCCAAATCACA
1 TGTATATGGCCCATTAAGCCCAAATCACA
*
25841078 TTTATATGGCCCATTAAGCCCA
1 TGTATATGGCCCATTAAGCCCA
25841100 GTCACATTCA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAAGCCCAAATCACA
Found at i:25849295 original size:27 final size:28
Alignment explanation
Indices: 25849263--25849504 Score: 225
Period size: 27 Copynumber: 9.0 Consensus size: 28
25849253 CCTTAATCGA
* *
25849263 TAAAATGACTA-CTTTGCCCTTATGAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
25849290 TGAAATGAC-AGTTTTGCCCTTATATGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*
25849317 TAAAATGAC-AGTTTTGCCCCTA-GTTGG
1 TAAAATGACTAGTTTTGCCCTTATG-TGG
*
25849344 TAAAATGAC-AGTTTTGCCCTTATGAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* * *
25849371 TGAAATAACT-GTTTTGCTCTTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*
25849398 TAAAATGA-TAGTTTTGCCCCTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
25849425 TAAAATGACTA-TTTTTCCTTTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*** ***
25849452 TAAAATGACT-GAAATGCCCTTACAAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
25849479 TAAAGTGACTA-TTTTGCCCCTATGTG
1 TAAAATGACTAGTTTTGCCCTTATGTG
25849505 AGGTATTTAT
Statistics
Matches: 171, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.01
27 166 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (28 bp):
TAAAATGACTAGTTTTGCCCTTATGTGG
Found at i:25849399 original size:81 final size:81
Alignment explanation
Indices: 25849275--25849504 Score: 259
Period size: 81 Copynumber: 2.8 Consensus size: 81
25849265 AAATGACTAC
*
25849275 TTTGCCCTTATGAGGTGAAATGACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTA-
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
25849339 GTTGGTAAAATGACAGT
66 G-TGGTAAAATGACAGT
* * * *
25849356 TTTGCCCTTATGAGGTGAAATAACTGTTTTGCTCTTATGTGGTAAAATGATAGTTTTGCCCCTAT
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
25849421 GTGGTAAAATGACTA-T
66 GTGGTAAAATGAC-AGT
* * * * * * *** * * *
25849437 TTTTCCTTTATGTGGTAAAATGACTGAAATGCCCTTACAAGGTAAAGTGACTA-TTTTGCCCCTA
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGAC-AGTTTTGCCCCTA
25849501 TGTG
65 TGTG
25849505 AGGTATTTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
81 124 0.98
82 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (81 bp):
TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
GTGGTAAAATGACAGT
Found at i:25849879 original size:18 final size:18
Alignment explanation
Indices: 25849856--25849919 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
25849846 CTGTTTAAAT
*
25849856 TGTTACTACACTAATTAC
1 TGTTACTACACTGATTAC
*
25849874 TGTTACTGCACTGATTAC
1 TGTTACTACACTGATTAC
* * *
25849892 TGTTACTGCCCTGTTTAC
1 TGTTACTACACTGATTAC
25849910 TGTTACTACA
1 TGTTACTACA
25849920 AGAGGCCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTACTACACTGATTAC
Found at i:25863137 original size:27 final size:27
Alignment explanation
Indices: 25863080--25863230 Score: 137
Period size: 27 Copynumber: 5.6 Consensus size: 27
25863070 TTAGTTTACC
* * * *
25863080 AAATTACCAAAATA-CGCTCGATTAGAA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * *
25863107 AAATTACCAAATTACCCTTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
*
25863134 AAATTACTAAAATACCCCTTA-TTTGTA
1 AAATTACCAAAATACCCC-TAGTTTGTA
* *
25863161 AAATTACC-ATATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
25863187 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
**
25863214 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
25863231 TCGACCTGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.01
26 22 0.22
27 72 0.72
28 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:25863164 original size:54 final size:53
Alignment explanation
Indices: 25863106--25863285 Score: 175
Period size: 53 Copynumber: 3.3 Consensus size: 53
25863096 CTCGATTAGA
* *
25863106 AAAATTACCAAATTACCCTTAGTTTGTGAAATTACTAAAATACCCCTTATTTGT
1 AAAATTACCAAA-TACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTGT
* * * *
25863160 AAAATTACCATATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTGT
* * * ** * * *
25863213 GAAATTACTGAAATACCC-TCGACCTGTAAAATTATTGAAATA-CCCTCAACTTGT
1 AAAATTAC-CAAATACCCTTAG-TTTGTAAAATTACTAAAATACCCCT-AATTTGT
25863267 AAAATTACCAAATTACCCT
1 AAAATTACCAAA-TACCCT
25863286 CTATTTATAG
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 52 0.50
54 51 0.50
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATTACCAAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTAATTTGT
Found at i:25863199 original size:53 final size:54
Alignment explanation
Indices: 25863080--25863302 Score: 170
Period size: 54 Copynumber: 4.1 Consensus size: 54
25863070 TTAGTTTACC
* * * * * *
25863080 AAATTACCAAAATA-CGCTCGATTAGAAAAATTACCAAATTACCCTTAGTTTGTG
1 AAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAATTACCCCTAGTTTGTA
* * * *
25863134 AAATTACTAAAATACCCCTTATTTGTAAAATTACCATA-TACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAATTACCCCTAGTTTGTA
* * * **
25863187 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAA-TA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTAC-CAAATTACCCCTAG-TTTGTA
*** * *
25863241 AAATTATTGAAATA-CCCTCAACTTGTAAAATTACCAAATTACCCTCTA-TTTATA
1 AAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAATTACCC-CTAGTTTGTA
*
25863295 GAATTACC
1 AAATTACC
25863303 GTTTTACCCT
Statistics
Matches: 132, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
53 55 0.42
54 70 0.53
55 5 0.04
56 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAATTACCCCTAGTTTGTA
Found at i:25863340 original size:27 final size:27
Alignment explanation
Indices: 25863106--25863340 Score: 156
Period size: 27 Copynumber: 8.7 Consensus size: 27
25863096 CTCGATTAGA
*
25863106 AAAATTACC-AAATTACCCTTAGTTTGT
1 AAAATTACCGAAA-TACCCTTAATTTGT
* **
25863133 GAAATTACTAAAATACCCCTT-ATTTGT
1 AAAATTACCGAAATA-CCCTTAATTTGT
* * **
25863160 AAAATTACC-ATATACCCCTGGTTTGT
1 AAAATTACCGAAATACCCTTAATTTGT
* *
25863186 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCGAAATACCCTTAATTTGT
* * ** **
25863213 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTTAATTTGT
** * *
25863240 AAAATTATTGAAATACCCTCAACTTGT
1 AAAATTACCGAAATACCCTTAATTTGT
*
25863267 AAAATTACC-AAATTACCCTCT-ATTTAT
1 AAAATTACCGAAA-TACCCT-TAATTTGT
* *** **
25863294 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCGAAATACCCTTAATTTGT
25863321 AAAATTACCGAAATACCCTT
1 AAAATTACCGAAATACCCTT
25863341 GTAGGGTAGA
Statistics
Matches: 163, Mismatches: 37, Indels: 16
0.75 0.17 0.07
Matches are distributed among these distances:
25 4 0.02
26 22 0.13
27 129 0.79
28 8 0.05
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTAATTTGT
Found at i:25863353 original size:27 final size:27
Alignment explanation
Indices: 25863323--25863465 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
25863313 TAATTTACAA
25863323 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
25863350 AATTATCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
*
25863377 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
25863404 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * * *
25863431 AATTACCCAGATACCTTTTGTGGGGTAA
1 AATTACCGAAATACC-CTTGTAGGGTAG
25863459 AATTACC
1 AATTACC
25863466 ATTTTTCCCA
Statistics
Matches: 94, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 80 0.85
28 14 0.15
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:25863445 original size:54 final size:54
Alignment explanation
Indices: 25863321--25863437 Score: 180
Period size: 54 Copynumber: 2.2 Consensus size: 54
25863311 CTTAATTTAC
* * * *
25863321 AAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
*
25863375 AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
*
25863429 AGAATTACC
1 AAAATTACC
25863438 CAGATACCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
Found at i:25864095 original size:27 final size:27
Alignment explanation
Indices: 25864065--25864172 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
25864055 ATTCTGTTAA
* *
25864065 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
25864092 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * * * *
25864119 ATGGCTCTGTCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
25864146 GTGACTCTGTCACGATATCT-TTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
25864172 G
1 G
25864173 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 48 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:25864297 original size:6 final size:6
Alignment explanation
Indices: 25864286--25864409 Score: 67
Period size: 6 Copynumber: 20.2 Consensus size: 6
25864276 GGGATTGCAT
* * *
25864286 TTCTGA TTCTGA TTCTG- TCATCTGA TACTGA TTCTGA TTCTG- TCACCTAA
1 TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA TTCTGA T--TCTGA
* * * * *
25864336 TTTTGA TTCTGA TTTTGA TTCTGA TTCTG- TCACCTGA TTCTGG TTCTAA
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA
* *
25864385 TTCTCA TTTTGA TTCT-A GTTCTGA T
1 TTCTGA TTCTGA TTCTGA -TTCTGA T
25864410 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 4 0.05
6 71 0.81
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
TTCTGA
Found at i:25864321 original size:31 final size:31
Alignment explanation
Indices: 25864286--25864388 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 31
25864276 GGGATTGCAT
*
25864286 TTCTGATTCTGATTCTGTCATCTGATACTGA
1 TTCTGATTCTGATTCTGTCATCTGATTCTGA
** * *
25864317 TTCTGATTCTG--TCACCTAATTTTGATTCTGA
1 TTCTGATTCTGATTC-TGTCA-TCTGATTCTGA
* * *
25864348 TTTTGATTCTGATTCTGTCACCTGATTCTGG
1 TTCTGATTCTGATTCTGTCATCTGATTCTGA
*
25864379 TTCTAATTCT
1 TTCTGATTCT
25864389 CATTTTGATT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 46 0.85
32 2 0.04
33 2 0.04
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTCATCTGATTCTGA
Found at i:25864322 original size:25 final size:25
Alignment explanation
Indices: 25864288--25864349 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
25864278 GATTGCATTT
* *
25864288 CTGATTCTGATTCTGTCATCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
25864313 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
25864338 TTGATTCTGATT
1 CTGATTCTGATT
25864350 TTGATTCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:25864398 original size:37 final size:37
Alignment explanation
Indices: 25864316--25864400 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
25864306 TCTGATACTG
* * * *
25864316 ATTCTGATTCTGTCACCTAATTTTGATTCTGATTTTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
* *
25864353 ATTCTGATTCTGTCACCTGATTCTGGTTCTAATTCTC
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
*
25864390 ATTTTGATTCT
1 ATTCTGATTCT
25864401 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.51
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
Found at i:25867582 original size:22 final size:23
Alignment explanation
Indices: 25867540--25867592 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
25867530 TTGCAAGGTA
*
25867540 GAATTTGTGTACCGAAAAATGAT
1 GAATTTATGTACCGAAAAATGAT
*
25867563 GAATTTATGTATC-AAAAATGAT
1 GAATTTATGTACCGAAAAATGAT
*
25867585 GAACTTAT
1 GAATTTAT
25867593 TCAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (23 bp):
GAATTTATGTACCGAAAAATGAT
Found at i:25867596 original size:19 final size:21
Alignment explanation
Indices: 25867554--25867599 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
25867544 TTGTGTACCG
*
25867554 AAAAATGATGAATTTATGTATC
1 AAAAATGATGAACTTA-GTATC
25867576 AAAAATGATGAACTTA-T-TC
1 AAAAATGATGAACTTAGTATC
25867595 AAAAA
1 AAAAA
25867600 ATTCATCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
22 15 0.65
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAAATGATGAACTTAGTATC
Found at i:25875044 original size:24 final size:24
Alignment explanation
Indices: 25875017--25875066 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
25875007 TAGATTTCCC
**
25875017 CCCTTATCTGCTCCTAAATCCTAT
1 CCCTTATCAACTCCTAAATCCTAT
25875041 CCCTTATCAACTCCTAAATCCTAT
1 CCCTTATCAACTCCTAAATCCTAT
25875065 CC
1 CC
25875067 TGACAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.40, G:0.02, T:0.34
Consensus pattern (24 bp):
CCCTTATCAACTCCTAAATCCTAT
Found at i:25881283 original size:27 final size:26
Alignment explanation
Indices: 25881247--25881362 Score: 90
Period size: 28 Copynumber: 4.2 Consensus size: 26
25881237 CAGCATGGCT
* *
25881247 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGAC
25881273 ACCAGATACAGATAATCGTGGCAGA-AC
1 ACCAGA-ACAGATAAT-GTGGCAGAGAC
*
25881300 TACCAGAACAGATATATATGTGGCAGAGCC
1 -ACCAGAACAG--ATA-ATGTGGCAGAGAC
* * * *
25881330 ACTAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA--TGTGGCAGAGAC
25881358 ACCAG
1 ACCAG
25881363 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
26 7 0.09
27 17 0.23
28 28 0.38
29 19 0.26
30 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGAC
Found at i:25881362 original size:57 final size:54
Alignment explanation
Indices: 25881247--25881362 Score: 126
Period size: 57 Copynumber: 2.1 Consensus size: 54
25881237 CAGCATGGCT
* *
25881247 ACCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACT
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACC
* * * * *
25881301 ACCAGAACAGATATATATGTGGCAGAGCCACTAGAT-CAGATAATTTGTGGCATAGCC
1 ACCAGAACAG--ATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAACC
25881358 ACCAG
1 ACCAG
25881363 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 10 0.20
56 10 0.20
57 31 0.61
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACC
Found at i:25882808 original size:24 final size:24
Alignment explanation
Indices: 25882792--25882851 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
25882782 CCCTGATCTG
25882792 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
25882816 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
25882840 CTCCTAAATCCT
1 CTCCTAAATCCT
25882852 CTCCTGACAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.33
Consensus pattern (24 bp):
CTCCTAAATCCTATCCCTTATCAA
Found at i:25894866 original size:37 final size:37
Alignment explanation
Indices: 25894824--25894896 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
25894814 TATCGAGGGT
*
25894824 TCATCACATAACGAGCTCATCACATATGAGTTTTTTA
1 TCATCACATAACAAGCTCATCACATATGAGTTTTTTA
25894861 TCATCACATAACAAGCTCATCACATATGAGTTTTTT
1 TCATCACATAACAAGCTCATCACATATGAGTTTTTT
25894897 GTACATACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.36
Consensus pattern (37 bp):
TCATCACATAACAAGCTCATCACATATGAGTTTTTTA
Found at i:25895107 original size:42 final size:42
Alignment explanation
Indices: 25895026--25895178 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
25895016 TACCATACCA
* * *
25895026 ATGCCATATCCCAGATATGGTCTTACATG-GGATCACTTATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGAAG-TCTCTTATCG
* *
25895068 ATGCCAATAGCCTAGCTATGGTCTT-CATGAAGTCTCTTATCG
1 ATGCC-ATAGCCCAGATATGGTCTTACATGAAGTCTCTTATCG
* *
25895110 ATGCCATATCCCAGATATGGTCTTACATGAAGTCT-TATATAG
1 ATGCCATAGCCCAGATATGGTCTTACATGAAGTCTCT-TATCG
* * * *
25895152 ATGCGATATCTCAAATATGGTCTTACA
1 ATGCCATAGCCCAGATATGGTCTTACA
25895179 CATAGTCTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 17 0.18
42 61 0.64
43 17 0.18
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGAAGTCTCTTATCG
Found at i:25902212 original size:37 final size:37
Alignment explanation
Indices: 25902162--25902240 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25902152 TTATTACGAA
* * *
25902162 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25902199 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25902236 GTCTT
1 GTCTT
25902241 GAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25902507 original size:47 final size:47
Alignment explanation
Indices: 25902358--25902885 Score: 729
Period size: 47 Copynumber: 11.4 Consensus size: 47
25902348 CCCTTCGGGA
** * * * * * * *
25902358 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
25902405 C-TGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
25902450 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
25902497 CTTATTACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
25902544 CTTATCACACATATACACTTTCGCATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
25902591 CTTATCACACATATACACTTTTACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25902638 CTTATCAC-CTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACAC-ATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
25902685 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
25902732 CTAATCA-ACATATACACTTTCACATTCATCA-ATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25902777 CTTATCAC-CTATATACACTTT-ACATTCAT--CATC-GCTATTAGGC
1 CTTATCACAC-ATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
25902820 CTTATCAC-C-TATACACTTTCACATTCATCACATCGGCTATTAGGA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
25902865 CTTATCACACATATACACTTT
1 CTTATCACACATATACACTTT
25902886 TATAAGAAAC
Statistics
Matches: 438, Mismatches: 30, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
41 10 0.02
42 8 0.02
43 19 0.04
44 7 0.02
45 58 0.13
46 86 0.20
47 249 0.57
48 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:25908587 original size:28 final size:28
Alignment explanation
Indices: 25908555--25908620 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
25908545 CTAGTGCACT
25908555 AAGTGTCATACTCAATATCTTGCACACC
1 AAGTGTCATACTCAATATCTTGCACACC
* * * *
25908583 AAGTGTCATTCTTAATATTTTGCACACT
1 AAGTGTCATACTCAATATCTTGCACACC
*
25908611 AAGTGCCATA
1 AAGTGTCATA
25908621 TACATATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGTGTCATACTCAATATCTTGCACACC
Found at i:25908693 original size:40 final size:40
Alignment explanation
Indices: 25908629--25908704 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
25908619 TATACATATA
*
25908629 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
* * *
25908669 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCA
25908705 TTTTTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
Found at i:25912512 original size:48 final size:48
Alignment explanation
Indices: 25912408--25912597 Score: 242
Period size: 48 Copynumber: 3.9 Consensus size: 48
25912398 TCTACCAAGC
*
25912408 CATATCCCAGATATGGTCTTACAC-AGAATCTCCATATCGATGCCGATGT
1 CATATCCCAGATATGGTCTTACACAAG-ATCT-CATATCGATGCTGATGT
* * *
25912457 CACTAT-CCAGATCTGGTCTTACACAATATCTCATATCGATGTTGATTGT
1 CA-TATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGA-TGT
*
25912506 CATATCCCAGATATGGTGTCTTACACAAGAACTCATATCGATGCTGATG-
1 CATATCCCAGATAT-G-GTCTTACACAAGATCTCATATCGATGCTGATGT
*
25912555 CAATATCCCAGATATGGTCTTACACAGGATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGC
25912598 CATGTCCCAG
Statistics
Matches: 124, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
48 40 0.32
49 37 0.30
50 20 0.16
51 27 0.22
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
Found at i:25912578 original size:99 final size:98
Alignment explanation
Indices: 25912408--25912596 Score: 276
Period size: 99 Copynumber: 1.9 Consensus size: 98
25912398 TCTACCAAGC
* *
25912408 CATATCCCAGATATGGTCTTACACAGAATCTCCATATCGATGCCGATGTCACTATCCAGATCTGG
1 CATATCCCAGATATGGTCTTACACAGAATCTCCATATCGATGCCGATGTCAATATCCAGATATGG
*
25912473 TCTTACACAATATCTCATATCGATGTTGATTGT
66 TCTTACACAAGATCTCATATCGATGTTGATTGT
*
25912506 CATATCCCAGATATGGTGTCTTACACAAGAA-CT-CATATCGATGCTGATG-CAATATCCCAGAT
1 CATATCCCAGATAT-G-GTCTTACAC-AGAATCTCCATATCGATGCCGATGTCAATAT-CCAGAT
*
25912568 ATGGTCTTACACAGGATCTCATATCGATG
62 ATGGTCTTACACAAGATCTCATATCGATG
25912597 CCATGTCCCA
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
98 19 0.23
99 48 0.59
100 11 0.13
101 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (98 bp):
CATATCCCAGATATGGTCTTACACAGAATCTCCATATCGATGCCGATGTCAATATCCAGATATGG
TCTTACACAAGATCTCATATCGATGTTGATTGT
Found at i:25912721 original size:37 final size:36
Alignment explanation
Indices: 25912592--25912731 Score: 142
Period size: 37 Copynumber: 3.8 Consensus size: 36
25912582 GATCTCATAT
*
25912592 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGTATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACATGTATCA
* *
25912628 CAATGCCATAG-CCAGCTATGTTCTTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTC-TTACATGT-ATCA
* *
25912665 CGAATGCCATAGCCTAGCTATGGTCTTACATGCTATTA
1 CG-ATGCCATAGCCCAGCTATGGTCTTACATG-TATCA
* *
25912703 CGATGCCATAGCCCAGCTATAGTATTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
25912732 CGTACCCACA
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
34 1 0.01
35 9 0.10
36 15 0.17
37 30 0.34
38 21 0.24
39 11 0.13
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (36 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTATCA
Found at i:25918792 original size:42 final size:41
Alignment explanation
Indices: 25918704--25919041 Score: 191
Period size: 48 Copynumber: 7.7 Consensus size: 41
25918694 CGTTTACTTG
* *
25918704 ATGCCATAGT-CCA-ACTATGGTCTTACACAAAGTCTCACATCG
1 ATGCCAT-GTCCCAGAC-ATGGTCTTACACAAA-TCTCATATCA
* * *
25918746 ATGCCATGTTCCAGACATGGTCTTATACGAAATCACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACAC-AAATCTCATATCA
* * * *
25918788 ATGCCGTATCCCAGACA--GTCTTACAAGAAATCTCATACCGA
1 ATGCCATGTCCCAGACATGGTCTTAC-ACAAATCTCATATC-A
* * *
25918829 A-GCCATATCCCAGATATGGTCTTACACAGAATCTCATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-AATCTCATATCA
*
25918870 ATGCCGATGTCATATCCCAGATATGGTCTTACACAATATCTCATATCGA
1 ATGCC-ATG-----TCCCAGACATGGTCTTACACAA-ATCTCATATC-A
* * * *
25918919 TGTTGATGTCATATCCCAGATATGGTCTTACACAAGAACTCATATCGA
1 -----ATGCCATGTCCCAGACATGGTCTTACACAA-ATCTCATATC-A
* * * * *
25918967 TGCTGATGGCATATCCCAGATATGGTCTTACACAGGATCTCATATCG
1 -----ATGCCATGTCCCAGACATGGTCTTACACA-AATCTCATATCA
25919014 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
25919042 GTATCACAAT
Statistics
Matches: 243, Mismatches: 30, Indels: 46
0.76 0.09 0.14
Matches are distributed among these distances:
40 29 0.12
41 8 0.03
42 87 0.36
43 7 0.03
47 1 0.00
48 105 0.43
53 2 0.01
54 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAATCTCATATCA
Found at i:25918809 original size:40 final size:41
Alignment explanation
Indices: 25918756--25918859 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 41
25918746 ATGCCATGTT
* * * *
25918756 CCAGACATGGTCTTATACGAAATCACATATC-AATGCCGTATC
1 CCAGACA-GGTCTTACAAGAAATCACATACCGAA-GCCATATC
*
25918798 CCAGACA-GTCTTACAAGAAATCTCATACCGAAGCCATATC
1 CCAGACAGGTCTTACAAGAAATCACATACCGAAGCCATATC
*
25918838 CCAGATATGGTCTTACACAGAA
1 CCAGACA-GGTCTTACA-AGAA
25918860 TCTCATATCG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 31 0.60
41 2 0.04
42 15 0.29
43 4 0.08
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (41 bp):
CCAGACAGGTCTTACAAGAAATCACATACCGAAGCCATATC
Found at i:25918887 original size:48 final size:48
Alignment explanation
Indices: 25918832--25919023 Score: 300
Period size: 48 Copynumber: 4.0 Consensus size: 48
25918822 ATACCGAAGC
25918832 CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGT
1 CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGT
**
25918880 CATATCCCAGATATGGTCTTACACA-ATATCTCATATCGATGTTGATGT
1 CATATCCCAGATATGGTCTTACACAGA-ATCTCATATCGATGCCGATGT
* *
25918928 CATATCCCAGATATGGTCTTACACAAGAA-CTCATATCGATGCTGATGG
1 CATATCCCAGATATGGTCTTACAC-AGAATCTCATATCGATGCCGATGT
*
25918976 CATATCCCAGATATGGTCTTACACAGGATCTCATATCGATGCC-ATGT
1 CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGT
25919023 C
1 C
25919024 CCAGACATGG
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
47 8 0.06
48 122 0.92
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGT
Found at i:25919093 original size:37 final size:37
Alignment explanation
Indices: 25919012--25919150 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
25919002 GATCTCATAT
*
25919012 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACATGTCATCA
* *
25919048 CAATGCCATAGCCCAGCTATGTTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* *
25919085 CGATGCCATAGCCTAGCTATGGTCTTACATG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTC-ATCA
* *
25919122 CGATGCCATAGCCCAGCTATAGTATTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
25919151 CGTACCACAT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.01
36 26 0.29
37 62 0.70
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
Found at i:25921749 original size:40 final size:40
Alignment explanation
Indices: 25921685--25921760 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
25921675 TATACATATA
* *
25921685 TAGCCGACGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
* * *
25921725 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCA
25921761 TTTTGTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
Found at i:25932195 original size:56 final size:56
Alignment explanation
Indices: 25932106--25932212 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
25932096 TTACATGTAA
* * * *
25932106 TCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCGCACACATATATTAGAG
1 TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATATTAGAG
* * * *
25932162 TCACATATCGATGCCAATGTATAAAACATGGTCTTACTCGTACATATATAT
1 TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATAT
25932213 CGATGCCATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (56 bp):
TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATATTAGAG
Found at i:25945751 original size:64 final size:64
Alignment explanation
Indices: 25945595--25945852 Score: 220
Period size: 68 Copynumber: 3.9 Consensus size: 64
25945585 TGGATGATAC
* ** * * *
25945595 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGA-GTGGACATCATGT-GTACAAGAGAGCTA
1 AGATAG-ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
25945658 CAAG
63 C--G
* *
25945662 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TA-GATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
25945727 G
64 G
* * * * * * *
25945728 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTAC
1 AGATAGATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTAC
25945793 G
64 G
* * *
25945794 AGATAGAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATAGATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
25945853 CGAACTATAT
Statistics
Matches: 156, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 23 0.15
66 35 0.22
67 3 0.02
68 48 0.31
69 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
AGATAGATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:25948602 original size:27 final size:26
Alignment explanation
Indices: 25948546--25948602 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
25948536 TAACATTAAC
* * *
25948546 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
25948572 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
25948599 CCTA
1 CCTA
25948603 TAGAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:25956751 original size:43 final size:43
Alignment explanation
Indices: 25956663--25956764 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
25956653 TACGGCTAAA
* * ** * *
25956663 GACATGGGCGTGTGTCTCAGCCGTGTGTTACACATGGTCAAGC
1 GACACGGGCATGTGTCTCAGCCGTGTGCGACAAATAGTCAAGC
* * *
25956706 GACACGGGCATGTGTCTTAGCCTTGTGCGACAAATAGTCAGGC
1 GACACGGGCATGTGTCTCAGCCGTGTGCGACAAATAGTCAAGC
*
25956749 GACACGGTCATGTGTC
1 GACACGGGCATGTGTC
25956765 CGCTATATCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (43 bp):
GACACGGGCATGTGTCTCAGCCGTGTGCGACAAATAGTCAAGC
Found at i:25958737 original size:23 final size:21
Alignment explanation
Indices: 25958670--25958744 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
25958660 CTAGGAATTA
*
25958670 TGTGATATGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
25958691 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAACTCATTGA-GT
25958712 TGTGACATCTGAACTCATTGAGT
1 TGTG--ATCTGAACTCATTGAGT
*
25958735 TGTGGTCTGA
1 TGTGATCTGA
25958745 GTTCGTGATA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 3 0.08
21 21 0.52
23 13 0.32
24 3 0.08
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:25961411 original size:66 final size:66
Alignment explanation
Indices: 25961302--25961426 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
25961292 TTACTAACAG
* *
25961302 AGTTCCTGTCAATCACAGCGCACAACAAGTGAGTAATGATCAAACAA-TATTACAAATCAATTCC
1 AGTTCCTGTCAATCACAACGCACAACAAGTGAGTAATGATCAAA-AATTAGTACAAATCAATTCC
25961366 TC
65 TC
* * *
25961368 AGTTCCTAG-CAATCACAACTCACAAC-AGTTGTGTAATGCTCAAAAATTAGTACAAATCA
1 AGTTCCT-GTCAATCACAACGCACAACAAG-TGAGTAATGATCAAAAATTAGTACAAATCA
25961427 TTTTCTCACA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
65 4 0.08
66 46 0.90
67 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (66 bp):
AGTTCCTGTCAATCACAACGCACAACAAGTGAGTAATGATCAAAAATTAGTACAAATCAATTCCT
C
Found at i:25963384 original size:27 final size:27
Alignment explanation
Indices: 25963354--25963405 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25963344 AAACCCCTCA
25963354 TATATGATAAAATGACTATTTTGCCCT
1 TATATGATAAAATGACTATTTTGCCCT
* *
25963381 TATATGGTAAGATGACTATTTTGCC
1 TATATGATAAAATGACTATTTTGCC
25963406 ACTATGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (27 bp):
TATATGATAAAATGACTATTTTGCCCT
Found at i:25963385 original size:29 final size:27
Alignment explanation
Indices: 25963354--25963415 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
25963344 AAACCCCTCA
*
25963354 TATATGATAAAATGACTATTTTGCCCT
1 TATATGATAAAATGACTATTTTGCCCC
* * *
25963381 TATATGGTAAGATGACTATTTTGCCAC
1 TATATGATAAAATGACTATTTTGCCCC
*
25963408 TATGTGAT
1 TATATGAT
25963416 GTACATGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (27 bp):
TATATGATAAAATGACTATTTTGCCCC
Found at i:25966693 original size:64 final size:64
Alignment explanation
Indices: 25966592--25966722 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
25966582 ACTGATGATA
25966592 AGTGTCACTGTAAGAATGTTTACATTGCGAGAAAGACAATTTACTTCGGTAAATAATCTAAACG
1 AGTGTCACTGTAAGAATGTTTACATTGCGAGAAAGACAATTTACTTCGGTAAATAATCTAAACG
*
25966656 AGTGTCACTGTAAGAATGTTTACATTGCGAGAAAGACAATTTACTTCTGTAAATAATCTAAACG
1 AGTGTCACTGTAAGAATGTTTACATTGCGAGAAAGACAATTTACTTCGGTAAATAATCTAAACG
25966720 AGT
1 AGT
25966723 TCATAATCCC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
AGTGTCACTGTAAGAATGTTTACATTGCGAGAAAGACAATTTACTTCGGTAAATAATCTAAACG
Done.