Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 76 of 320
Found at i:23833094 original size:96 final size:94
Alignment explanation
Indices: 23832860--23833380 Score: 871
Period size: 96 Copynumber: 5.5 Consensus size: 94
23832850 CCCTTCGGGA
* * * * * * * * *
23832860 CTTATCACATTTATACGCTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23832925 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
23832954 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23833019 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
23833048 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
23833113 ACTTTCACATTTATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23833144 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
23833209 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23833240 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23833305 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
23833334 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAG
23833381 ATCACATCGG
Statistics
Matches: 404, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
94 185 0.46
96 219 0.54
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:23833116 original size:143 final size:143
Alignment explanation
Indices: 23832860--23833380 Score: 920
Period size: 143 Copynumber: 3.7 Consensus size: 143
23832850 CCCTTCGGGA
* * * * * * * * *
23832860 CTTATCACATTTATACGCTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
23832923 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
23832988 TCGGCCATTAGGC
131 TCGGCCATTAGGC
23833001 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
23833066 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
23833131 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
23833144 CTTATCACATATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23833209 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
23833274 TCGGCCATTAGGC
131 TCGGCCATTAGGC
23833287 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23833352 ACTTTCACATTCATCACATCGGCCATTAG
66 ACTTTCACATTCATCACATCGGCCATTAG
23833381 ATCACATCGG
Statistics
Matches: 364, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
141 46 0.13
143 318 0.87
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
TCGGCCATTAGGC
Found at i:23833386 original size:17 final size:17
Alignment explanation
Indices: 23833364--23833397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23833354 TTTCACATTC
23833364 ATCACATCGGCCATTAG
1 ATCACATCGGCCATTAG
*
23833381 ATCACATCGGCTATTAG
1 ATCACATCGGCCATTAG
23833398 GCCTTATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (17 bp):
ATCACATCGGCCATTAG
Found at i:23833441 original size:64 final size:65
Alignment explanation
Indices: 23833315--23833444 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 65
23833305 TTTCACATTC
23833315 ATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 ATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTA
23833380 G
65 G
* *
23833381 ATCACATCGGCTATTAGGCCTTATCAC-ATATATACACTTTCACATTTATCACATCGGCCATTAG
1 ATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
23833445 GCCTTATCAC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 36 0.58
66 26 0.42
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (65 bp):
ATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
Found at i:23841836 original size:19 final size:19
Alignment explanation
Indices: 23841812--23841850 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23841802 CAATGAGTTA
23841812 TGCCAAGGTTGCCTAAGAG
1 TGCCAAGGTTGCCTAAGAG
23841831 TGCCAAGGTTGCCTAAGAG
1 TGCCAAGGTTGCCTAAGAG
23841850 T
1 T
23841851 ATAATTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (19 bp):
TGCCAAGGTTGCCTAAGAG
Found at i:23854141 original size:20 final size:20
Alignment explanation
Indices: 23854116--23854161 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
23854106 TGTGATTCTG
* *
23854116 TTTTATATCCAATTTCCCCA
1 TTTTATAGCCAATTTCACCA
23854136 TTTTATAGCCAATTTCACCA
1 TTTTATAGCCAATTTCACCA
23854156 TTTTAT
1 TTTTAT
23854162 GGATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTTATAGCCAATTTCACCA
Found at i:23857720 original size:50 final size:50
Alignment explanation
Indices: 23857546--23857775 Score: 248
Period size: 50 Copynumber: 4.6 Consensus size: 50
23857536 ATTGTGAATA
* * ** *
23857546 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACAGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
** * * * * * *
23857596 CAAATGTGTAGTACTAAGTGCAGACTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG-GTTAGGT
* *
23857647 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * *
23857697 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGTT-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
23857746 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
23857776 TACGTATCAG
Statistics
Matches: 148, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 31 0.21
50 78 0.53
51 39 0.26
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:23857784 original size:99 final size:100
Alignment explanation
Indices: 23857550--23857789 Score: 279
Period size: 101 Copynumber: 2.4 Consensus size: 100
23857540 TGAATACACG
* * * *
23857550 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACAGTTAAGTCAAATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAGTGAAGTCAAATGTGTAGTACTAAGT
*
23857615 GCAGACTACTATGCGTACTCAATGACTTCGATCACG
66 GCAGACTACTATGCGTACTCAATGA-TTCGATCACA
* * * **
23857651 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAGTGAAGTCAAATGTGTAGTACTAAGT
* * * * *
23857716 GCAGGCTACTATGTGTAC-CGGATTG-TT-GGTCGCA
66 GCAGACTACTATGCGTACTC--AATGATTCGATCACA
* *
23857750 TGTGTAGTACTAAGTGCAGGCTACTATACGTATCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAG
23857790 CTTCGGCTAT
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 40 0.34
100 3 0.03
101 72 0.61
102 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAGTGAAGTCAAATGTGTAGTACTAAGT
GCAGACTACTATGCGTACTCAATGATTCGATCACA
Found at i:23861863 original size:9 final size:9
Alignment explanation
Indices: 23861846--23861875 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23861836 GTTGAGGAAT
*
23861846 TGGGGGAGG
1 TGGGAGAGG
23861855 TGGGAGAGG
1 TGGGAGAGG
23861864 TGGGAGAGG
1 TGGGAGAGG
23861873 TGG
1 TGG
23861876 AGTATTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.70, T:0.13
Consensus pattern (9 bp):
TGGGAGAGG
Found at i:23864869 original size:24 final size:24
Alignment explanation
Indices: 23864837--23864883 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23864827 GACACACGGG
*
23864837 CGTGTGTCTAGGTCGTGTGTGGCC
1 CGTGTGTCTAGGCCGTGTGTGGCC
23864861 CGTGTGTCTAGGCCGTGTGTGGC
1 CGTGTGTCTAGGCCGTGTGTGGC
23864884 ACACATTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.21, G:0.43, T:0.32
Consensus pattern (24 bp):
CGTGTGTCTAGGCCGTGTGTGGCC
Found at i:23873224 original size:15 final size:16
Alignment explanation
Indices: 23873204--23873233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23873194 AATCGGTTAT
23873204 TTTTTTGT-TTTGTTC
1 TTTTTTGTGTTTGTTC
23873219 TTTTTTGTGTTTGTT
1 TTTTTTGTGTTTGTT
23873234 AGTTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.80
Consensus pattern (16 bp):
TTTTTTGTGTTTGTTC
Found at i:23882712 original size:24 final size:24
Alignment explanation
Indices: 23882679--23882768 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
23882669 CCCATAGGAG
*
23882679 CCATAATCGGGAAGTTCACAAAGAA
1 CCAT-ATCGGGAAGCTCACAAAGAA
*
23882704 CCATATCGGGAAGCTCATAAAGAGA
1 CCATATCGGGAAGCTCACAAAGA-A
* *
23882729 -C-TATCGGAAAGCTCACAAAGAG
1 CCATATCGGGAAGCTCACAAAGAA
23882751 CCATATAACGGGAAGCTC
1 CCATAT--CGGGAAGCTC
23882769 TGGATAGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 19 0.35
24 21 0.39
25 5 0.09
26 9 0.17
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (24 bp):
CCATATCGGGAAGCTCACAAAGAA
Found at i:23882740 original size:23 final size:23
Alignment explanation
Indices: 23882684--23882750 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
23882674 AGGAGCCATA
* *
23882684 ATCGGGAAGTTCACAAAGA-ACCAT
1 ATCGGAAAGCTCACAAAGAGA-C-T
* *
23882708 ATCGGGAAGCTCATAAAGAGACT
1 ATCGGAAAGCTCACAAAGAGACT
23882731 ATCGGAAAGCTCACAAAGAG
1 ATCGGAAAGCTCACAAAGAG
23882751 CCATATAACG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 19 0.50
24 18 0.47
25 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (23 bp):
ATCGGAAAGCTCACAAAGAGACT
Found at i:23884661 original size:39 final size:39
Alignment explanation
Indices: 23884607--23884683 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
23884597 GCCAATATCA
**
23884607 AATTCCTTTCATAAACTTTCTTATCTGAGTCATTTCCAT
1 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCAT
23884646 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCA
1 AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCA
23884684 CAAAAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (39 bp):
AATTCCTTTCATAAACTTTCTTATCCAAGTCATTTCCAT
Found at i:23889135 original size:19 final size:20
Alignment explanation
Indices: 23889092--23889135 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
23889082 ATAGATTTCA
23889092 ATTAAAAATTTAATAAATCG
1 ATTAAAAATTTAATAAATCG
* *
23889112 GTTAAAAA-TTAATAAATTG
1 ATTAAAAATTTAATAAATCG
23889131 ATTAA
1 ATTAA
23889136 TGAGGTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTAAAAATTTAATAAATCG
Found at i:23891423 original size:486 final size:486
Alignment explanation
Indices: 23890511--23891480 Score: 1288
Period size: 486 Copynumber: 2.0 Consensus size: 486
23890501 GATTAGTTAT
*
23890511 GCAATCTGGAACATACTTCTCCAGTATCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
1 GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
* * * * * * *
23890576 ACCTATTATGCATATTCTTTAATGCCTTCTACTCTGTGATCCATGTTTTGCGATATGACGACGTG
66 ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
*
23890641 TAATCGAACTAGCTACAGCTATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
131 TAATCGAACTAGCTACAGATATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
* * * *
23890706 CATAGGTAGTATTATATTTACGATCATCTCTGAATTCAATTTTAGATGATCCCGTGAAATACCTG
196 CATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTTGAGATGATCCCGGGAAATACCTG
*
23890771 CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAATATAGTACAGTCTTGACACAGTA
261 CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAATATAATACAGTCTTGACACAGTA
** * ** * *
23890836 CCCATGACAACACATGTATGTGAAGCAATAAATCATTTTATGGTTCACAACCTTATCTTCTTCTT
326 CCCACAACAACACACGTATCAGAAGCAATAAATCATTTTATGGTCCACAACCCTATCTTCTTCTT
* * * ** **
23890901 AACATAAGCTGTGATTTTCCATGCACATCAGTTGTCTCGCATTGCACATTTTTCCTTGAACTTAT
391 AACAGAAGCTATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCAAACTTAT
* *
23890966 CAGACTAAGATTTAACAATGTTGAAGTTTAC
456 CAGACTAAGATTTAACAACGTGGAAGTTTAC
* * * * *
23890997 GCAATCTGGAACGTACTTCTCTAGTACCTGACACCACTGCCACAAATCATTGTATGACACATCCC
1 GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
* * * ** * * *
23891062 ACCCATTATGCATCTTCTCTAGTGCTTTATGTTTTGTGATCCACGCTTTGCGGTACGATGACATG
66 ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
*
23891127 TAATCGAACTGGCTAC-GAATATTTGTAATTAAAATTGACAC-AGCAATCCTAGG-ACTCATTTT
131 TAATCGAACTAGCTACAG-ATATTTGTAATTAAAATTGACACAAG-AATCCT-GGTACTCATTTT
** ***
23891189 CACCATAGGTAGTATTATATTTATTATCATCTCCGAATCCAATTTCGA-ATGATTTTGGGAAATA
193 CACCATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTT-GAGATGATCCCGGGAAATA
* * * * *
23891253 CTTGCAATAACACGAGTACGTTAAAGTTAGGAATTCAACACCCAAATATAATACAGTCTTGACAC
257 CCTGCAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAATATAATACAGTCTTGACAC
** *
23891318 AGTACCCACAACAACACACGTATACAG-AGCGGTAAA-CTTATTTATGGTCCACAACCCTATCTT
322 AGTACCCACAACAACACACGTAT-CAGAAGCAATAAATCAT-TTTATGGTCCACAACCCTATCTT
** *
23891381 CTTCTTAACAGAAG-TCATGATTTTCCATGCACATTTGTTGTCTCACATTGTACATAATTCCTCA
385 CTTCTTAACAGAAGCT-ATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCA
23891445 AACTTATCAGACTAAGATTTAACAACGTGGAAGTTT
449 AACTTATCAGACTAAGATTTAACAACGTGGAAGTTT
23891481 CCCCCGTTCT
Statistics
Matches: 417, Mismatches: 60, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
485 6 0.01
486 407 0.98
487 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (486 bp):
GCAATCTGGAACATACTTCTCCAGTACCTAACACCACTGCCACAAAGCATTGTACGACACATCCC
ACCCATTATGCATATTCTCTAATGCCTTATACTCTGTGATCCACGCTTTGCGATACGACGACATG
TAATCGAACTAGCTACAGATATTTGTAATTAAAATTGACACAAGAATCCTGGTACTCATTTTCAC
CATAGGTAGTATTATATTTACGATCATCTCCGAATCCAATTTGAGATGATCCCGGGAAATACCTG
CAACAACACAAGTACCTTAAAATTAGGAATTCAACACCCAAATATAATACAGTCTTGACACAGTA
CCCACAACAACACACGTATCAGAAGCAATAAATCATTTTATGGTCCACAACCCTATCTTCTTCTT
AACAGAAGCTATGATTTTCCATGCACATCAGTTGTCTCACATTGCACATAATTCCTCAAACTTAT
CAGACTAAGATTTAACAACGTGGAAGTTTAC
Found at i:23893477 original size:15 final size:15
Alignment explanation
Indices: 23893457--23893489 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23893447 TAATTCGAAT
23893457 ATACGATTGGTGTAA
1 ATACGATTGGTGTAA
*
23893472 ATACGATTGTTGTAA
1 ATACGATTGGTGTAA
23893487 ATA
1 ATA
23893490 TCGAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (15 bp):
ATACGATTGGTGTAA
Found at i:23893534 original size:9 final size:9
Alignment explanation
Indices: 23893522--23893564 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
23893512 TTATATCTCA
23893522 AAAAAATAT
1 AAAAAATAT
*
23893531 AAAAAATCT
1 AAAAAATAT
23893540 AAAGAATATAT
1 AAA-AA-ATAT
23893551 AAAAAA-AT
1 AAAAAATAT
23893559 AAAAAA
1 AAAAAA
23893565 AACCTAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.27
9 12 0.40
10 4 0.13
11 6 0.20
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAATAT
Found at i:23898706 original size:129 final size:128
Alignment explanation
Indices: 23898469--23898725 Score: 381
Period size: 129 Copynumber: 2.0 Consensus size: 128
23898459 TAACACCTTT
* * * *
23898469 GATCTTGTATGTCATTGATGCCATTCTTGCTATTTATTTCTTGAGCCTTCCTTTTCCTACATGAT
1 GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAGCCTTCC-TTCCCTACATGAT
23898534 TTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
65 TTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
* * *
23898598 GATCTTGCATGCCATTGATGCCATTCTTGCTCTCTATTTGTTGAGTCTTTCC-TCCCTTACATGA
1 GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAG-CCTTCCTTCCC-TACATGA
* * * *
23898662 TTTGGATCTAAAATTTTCCATGGAATTGTTCTAAGAGAAGAAAAATGGAATTGAAATTTGAATA
64 TTTGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATA
23898726 CCTTTGTTCT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
128 3 0.03
129 107 0.93
130 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (128 bp):
GATCTTGCATGCCATTGATGCCATTCTTGCTATCTATTTCTTGAGCCTTCCTTCCCTACATGATT
TGAATCTAAAATTTTCCATGGAATTGTTCTAAAAGAACAAAAAGGGAATTGAAATTTGAATAA
Found at i:23914643 original size:86 final size:87
Alignment explanation
Indices: 23914461--23914689 Score: 257
Period size: 86 Copynumber: 2.6 Consensus size: 87
23914451 TTTCAACCTA
* *
23914461 CTCCACTACTACTTAGTGAGACAAGA-CTTGTAATTCTCAGCCTGTTACCCTACTGTTTAGGGGG
1 CTCCACTACTACTTAGGGAGACAAGATC-TGTAATT-TCAGCCTGTTACCCTACTGTTTAAGGGG
* * ***
23914525 TTAAGGTTCATTGTCTTTGATCCT
64 TCAAGGCTCACCATCTTTGATCCT
* *
23914549 CTCAACTACTACTTAGGGAGATAAGATCTGTAATTT-AGCCTGTTACCCTACTGTTTAAGGGGTC
1 CTCCACTACTACTTAGGGAGACAAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAAGGGGTC
23914613 AAGGCTCACCATCTTTGAT-CT
66 AAGGCTCACCATCTTTGATCCT
* * * * **
23914634 GTTCCACTACAACTTCTGGGAGACAAGATCTGCAATCTTCAGCCCATTACCCTACT
1 -CTCCACTACTACTT-AGGGAGACAAGATCTGTAAT-TTCAGCCTGTTACCCTACT
23914690 ACTTAGGGGG
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
85 2 0.02
86 52 0.44
87 18 0.15
88 32 0.27
89 15 0.13
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (87 bp):
CTCCACTACTACTTAGGGAGACAAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAAGGGGTC
AAGGCTCACCATCTTTGATCCT
Found at i:23914788 original size:44 final size:44
Alignment explanation
Indices: 23914738--23914866 Score: 113
Period size: 44 Copynumber: 2.9 Consensus size: 44
23914728 ACAAAATCTA
23914738 CAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGT-T-
1 CAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGTCTG
* * * * ** *
23914780 CACCGTCTT-TGATCTGTT-CCACTACAACTTCAGGGAGACAAGATCTG
1 CA--GTCTTCAG-CCTGTTACC-CTACTACTT-AGGGGGTTAAGGTCTG
*
23914827 CAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGG
1 CAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGG
23914867 CTTACTGTCT
Statistics
Matches: 63, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
42 2 0.03
43 3 0.05
44 26 0.41
45 26 0.41
46 4 0.06
47 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (44 bp):
CAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGTCTG
Found at i:23914850 original size:89 final size:89
Alignment explanation
Indices: 23914702--23915268 Score: 755
Period size: 89 Copynumber: 6.4 Consensus size: 89
23914692 TTAGGGGGTT
** * * *
23914702 GATTTGCTCCACTAC-TGTTTAGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
*
23914766 AGGGGGTTAAGG-TTCACCGTCTTT
66 AGGGGGTTAAGGCTT-ACCGTCTTC
* * *
23914790 GATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
* *
23914855 AGGGGGTTAAGGCTTACTGTCTTT
66 AGGGGGTTAAGGCTTACCGTCTTC
** * **
23914879 GATTTGCTCCACTAC-TGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTGTTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
* *
23914943 AGGGGGTTAAGGCTTGCCGTATTC
66 AGGGGGTTAAGGCTTACCGTCTTC
* * * *
23914967 GATTTGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTATTACCCTACTACTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
* * *
23915032 AGGGGATTAAGGCTTGCCGTCTTT
66 AGGGGGTTAAGGCTTACCGTCTTC
* * * * *
23915056 GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTACTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
*
23915121 AGGAGGTTAAGGCTTACCGTCTTC
66 AGGGGGTTAAGGCTTACCGTCTTC
** *
23915145 GATTTGCTCCACTAC-TGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
*
23915209 AGGGGGTTAAAGCTTACCGTCTTC
66 AGGGGGTTAAGGCTTACCGTCTTC
* * *
23915233 GATTTGCTCCGCTGCAACTTCAAGGAGACAAGATCT
1 GATTTGCTCCACTACAACTTCAGGGAGACAAGATCT
23915269 GTGAATTAAC
Statistics
Matches: 415, Mismatches: 60, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
88 168 0.40
89 245 0.59
90 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (89 bp):
GATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTT
AGGGGGTTAAGGCTTACCGTCTTC
Found at i:23914996 original size:177 final size:177
Alignment explanation
Indices: 23914700--23915242 Score: 775
Period size: 177 Copynumber: 3.1 Consensus size: 177
23914690 ACTTAGGGGG
* *
23914700 TTGATTTGCTCCACTACTGTTTAGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACT
1 TTGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
* * * *
23914765 TAGGGGGTTAAGG-TTCACCGTCTTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCA
66 TAGGGGGTTAAGGCTT-ACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACA
*
23914829 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACTGTCT
130 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
**
23914877 TTGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTGTT
1 TTGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
* * * *
23914942 TAGGGGGTTAAGGCTTGCCGTATTCGATTTGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAA
66 TAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAA
* * * *
23915007 TCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGCCGTCT
131 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
* * * ** * * *
23915054 TTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTAC
1 TTGATTTGCTCCACTAC-TGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
* ** *
23915119 TTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTAC-TGTTTAGGGAGACAAGATCTACA
65 TTAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACA
*
23915183 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCGTCT
130 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
*
23915231 TCGATTTGCTCC
1 TTGATTTGCTCC
23915243 GCTGCAACTT
Statistics
Matches: 321, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
177 243 0.76
178 78 0.24
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (177 bp):
TTGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACT
TAGGGGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACAACTTCAGGGAGACAAGATCTACAA
TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACCGTCT
Found at i:23915196 original size:266 final size:266
Alignment explanation
Indices: 23914722--23915268 Score: 925
Period size: 266 Copynumber: 2.1 Consensus size: 266
23914712 ACTACTGTTT
* * * *
23914722 AGGGAGACAAAATCTACAGTCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGTTCACCGTC
1 AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGTTCACCGTC
*
23914787 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTA
66 TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTA
* * *
23914852 CTTAGGGGGTTAAGGCTTACTGTCTTTGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACA
131 CTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACA
** * *
23914917 ATCTTCAGCCTGTTACCCTACTGTTTAGGGGGTTAAGGCTTGCCGTATTCGATTTGCTCCGCTGC
196 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCGTATTCGATTTGCTCCGCTGC
23914982 AACTTC
261 AACTTC
* *
23914988 AGGGAGACAAGATCTACAATCTTTAGCCTATTACCCTACTACTTAGGGGATTAAGGCTT-GCCGT
1 AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGG-TTCACCGT
*
23915052 CTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACT
65 CTTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACT
23915117 ACTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTAC
130 ACTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTAC
*
23915182 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCGTCTTCGATTTGCTCCGCTG
195 AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCGTATTCGATTTGCTCCGCTG
23915247 CAACTTC
260 CAACTTC
*
23915254 AAGGAGACAAGATCT
1 AGGGAGACAAGATCT
23915269 GTGAATTAAC
Statistics
Matches: 263, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
266 261 0.99
267 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (266 bp):
AGGGAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGTTCACCGTC
TTTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGCTACCCTACTA
CTTAGGAGGTTAAGGCTTACCGTCTTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACA
ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCGTATTCGATTTGCTCCGCTGC
AACTTC
Found at i:23915232 original size:44 final size:44
Alignment explanation
Indices: 23915096--23915232 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 44
23915086 AGATCTGCAA
* *
23915096 TCTTCAGCCTGCTACCCTACTACTTAGGAGGTTAAGGCTTACCG
1 TCTTCAGCCTGCTACCCTACTACTTAGGGGGTTAAAGCTTACCG
** ** * * **
23915140 TCTTC-GATTTGCT-CCACTACTGTTTAGGGAG--ACAAGATCTACAA
1 TCTTCAG-CCTGCTACC-CTACTACTTAGGGGGTTA-AAGCT-TACCG
*
23915184 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCTTACCG
1 TCTTCAGCCTGCTACCCTACTACTTAGGGGGTTAAAGCTTACCG
23915228 TCTTC
1 TCTTC
23915233 GATTTGCTCC
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 1 0.02
43 6 0.09
44 51 0.77
45 7 0.11
46 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTTCAGCCTGCTACCCTACTACTTAGGGGGTTAAAGCTTACCG
Found at i:23915438 original size:64 final size:64
Alignment explanation
Indices: 23915347--23915527 Score: 326
Period size: 64 Copynumber: 2.8 Consensus size: 64
23915337 TGCTTTTTCC
*
23915347 AAATAATTAGGATGCTATGATCAAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
23915411 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
* * *
23915475 AAATAATTAGGATGCTATAATCGAAATGAGTCAAATGCTCCTAACTAGATGTG
1 AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
23915528 TTATGAATAT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 113 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (64 bp):
AAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGCTTATGTT
Found at i:23925346 original size:49 final size:49
Alignment explanation
Indices: 23925183--23925380 Score: 191
Period size: 49 Copynumber: 4.0 Consensus size: 49
23925173 GGCTATGATT
*** *
23925183 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
1 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
** * * * * *
23925232 ACTTCAATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-ATCAGATG
1 A-TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
* * * * *
23925282 GTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATA
1 ATT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
* * *
23925332 ATTGGTTGCATGTGTAGTACTAAGTGCAGGCAACTATATGTACCAGATA
1 ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
23925381 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 75 0.62
50 14 0.12
51 31 0.26
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
ATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
Found at i:23928559 original size:81 final size:82
Alignment explanation
Indices: 23928460--23928625 Score: 298
Period size: 81 Copynumber: 2.0 Consensus size: 82
23928450 GAACTTCACC
*
23928460 CATGGATATGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCTAGG
1 CATGGATATGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
23928525 GGCACCCAAATAGGGCA
66 GGCACCCAAATAGGGCA
*
23928542 CATGGATA-GTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCGATCAATTCATATCCAGG
1 CATGGATATGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
*
23928606 GGTACCCAAATAGGGCA
66 GGCACCCAAATAGGGCA
23928623 CAT
1 CAT
23928626 AATTAGGAAG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 73 0.90
82 8 0.10
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (82 bp):
CATGGATATGTTCAAGTAGTACACTTAAAGTGTACAAAACTGAAATCCATCAATTCATATCCAGG
GGCACCCAAATAGGGCA
Found at i:23928672 original size:25 final size:25
Alignment explanation
Indices: 23928644--23928692 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23928634 AGCACACTCT
23928644 TGAGCCATATATC-AGAATGCTCATG
1 TGAGCCATATATCAAGAA-GCTCATG
*
23928669 TGAGCCATGTATCAAGAAGCTCAT
1 TGAGCCATATATCAAGAAGCTCAT
23928693 CCAGGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGCCATATATCAAGAAGCTCATG
Found at i:23928810 original size:18 final size:18
Alignment explanation
Indices: 23928787--23928824 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23928777 AGCTCTAGAT
23928787 AGCATAACAAGGAGTTCA
1 AGCATAACAAGGAGTTCA
*
23928805 AGCATAACAGGGAGTTCA
1 AGCATAACAAGGAGTTCA
23928823 AG
1 AG
23928825 TGAGCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (18 bp):
AGCATAACAAGGAGTTCA
Found at i:23938397 original size:17 final size:17
Alignment explanation
Indices: 23938372--23938405 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23938362 GGGATGTAAA
*
23938372 TAAGATATTGGTGTTTG
1 TAAGATATTGGAGTTTG
*
23938389 TAAGTTATTGGAGTTTG
1 TAAGATATTGGAGTTTG
23938406 ATTTGAAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (17 bp):
TAAGATATTGGAGTTTG
Found at i:23938734 original size:20 final size:22
Alignment explanation
Indices: 23938706--23938747 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
23938696 ATATTTAAAC
23938706 ATAAAATA-TATTA-ATTTTTT
1 ATAAAATATTATTATATTTTTT
*
23938726 ATAATATATTATTATATTTTTT
1 ATAAAATATTATTATATTTTTT
23938748 TCCCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATAAAATATTATTATATTTTTT
Found at i:23950605 original size:22 final size:18
Alignment explanation
Indices: 23950580--23950631 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 18
23950570 TTATTTTAAA
23950580 AAATATATAAAAATAACTTTAT
1 AAATATATAAAAAT-A--TT-T
* *
23950602 AAATTTATAGAAATATTT
1 AAATATATAAAAATATTT
23950620 AAATATATAAAA
1 AAATATATAAAA
23950632 GCCTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
21 1 0.04
22 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATATAAAAATATTT
Found at i:23950778 original size:33 final size:32
Alignment explanation
Indices: 23950721--23950783 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
23950711 TTTATATTTT
* *
23950721 TATAAATTTACATGCTTTTTTATATTTATATA
1 TATAAATTTACAAGCTTTTATATATTTATATA
*
23950753 TATAAATATTATAAGCTTTTATATATTTATA
1 TATAAAT-TTACAAGCTTTTATATATTTATA
23950784 AAAATTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (32 bp):
TATAAATTTACAAGCTTTTATATATTTATATA
Found at i:23960363 original size:18 final size:19
Alignment explanation
Indices: 23960331--23960368 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23960321 ATGAGGTACT
23960331 CTGTGTACCGCTACTATTA
1 CTGTGTACCGCTACTATTA
*
23960350 CTGT-TACCGTTACTATTA
1 CTGTGTACCGCTACTATTA
23960368 C
1 C
23960369 CGATACGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (19 bp):
CTGTGTACCGCTACTATTA
Found at i:23969455 original size:9 final size:8
Alignment explanation
Indices: 23969424--23969457 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
23969414 AGTCCCTAAT
23969424 TCACAAAA
1 TCACAAAA
23969432 TCACAAAA
1 TCACAAAA
23969440 TCACAAAA
1 TCACAAAA
23969448 TACACAAAA
1 T-CACAAAA
23969457 T
1 T
23969458 TTCTTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
TCACAAAA
Found at i:23971491 original size:40 final size:40
Alignment explanation
Indices: 23971454--23971679 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
23971444 GCTACTCGTT
* *
23971454 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
23971494 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23971534 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
23971574 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
23971614 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
23971655 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23971680 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23975534 original size:5 final size:5
Alignment explanation
Indices: 23975524--23975577 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
23975514 TCATCCTATA
* * *
23975524 TTTCT TTTCT TTTCT TTTCT TTTC- TTT-T TATCT TTTCT TGTCCT CTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T-TTCT TTTCT
23975573 TTTCT
1 TTTCT
23975578 ATCATATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
4 5 0.12
5 32 0.80
6 3 0.08
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTCT
Found at i:23975561 original size:23 final size:25
Alignment explanation
Indices: 23975531--23975580 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
23975521 ATATTTCTTT
* *
23975531 TCTTTTCTT-TTCTTTTCTTTT-TA
1 TCTTTTCTTGTCCTCTTCTTTTCTA
23975554 TCTTTTCTTGTCCTCTTCTTTTCTA
1 TCTTTTCTTGTCCTCTTCTTTTCTA
23975579 TC
1 TC
23975581 ATATTTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 10 0.43
25 4 0.17
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (25 bp):
TCTTTTCTTGTCCTCTTCTTTTCTA
Found at i:23976747 original size:21 final size:21
Alignment explanation
Indices: 23976715--23976769 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
23976705 CTGATGAGCA
*
23976715 GTTTATCTACAACGACGAGT-
1 GTTTATCCACAACGACGAGTG
*
23976735 GTTTCATCCACAACGATGAGTG
1 GTTT-ATCCACAACGACGAGTG
23976757 GTTTATCCACAAC
1 GTTTATCCACAAC
23976770 ATGGTGTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (21 bp):
GTTTATCCACAACGACGAGTG
Found at i:23981222 original size:40 final size:41
Alignment explanation
Indices: 23981123--23981274 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 41
23981113 GTTATAGCGG
*
23981123 AAACGCCACAAAAGGTCAAGCATTAACT-GCGTTTATGATAA
1 AAACGCCACAAAAGGTCAAGCATT-AGTGGCGTTTATGATAA
* *
23981164 AAACGCCGCAAAATGTCAAGCATTAGTGGCGTTTATGAT-A
1 AAACGCCACAAAAGGTCAAGCATTAGTGGCGTTTATGATAA
* * *
23981204 AAACTCCACAAAAGGTCAAGCATTAGGGGCGTTTATGGTAA
1 AAACGCCACAAAAGGTCAAGCATTAGTGGCGTTTATGATAA
* * * *
23981245 AAACACCGCAAAAGGCCAAGCAGTAGTGGC
1 AAACGCCACAAAAGGTCAAGCATTAGTGGC
23981275 CGCAAAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 37 0.39
41 59 0.61
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (41 bp):
AAACGCCACAAAAGGTCAAGCATTAGTGGCGTTTATGATAA
Found at i:23981265 original size:81 final size:81
Alignment explanation
Indices: 23981123--23981274 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
23981113 GTTATAGCGG
* * * * *
23981123 AAACGCCACAAAAGGTCAAGCATTAACTGCGTTTATGATAAAAACGCCGCAAAATGTCAAGCATT
1 AAACGCCACAAAAGGTCAAGCATTAACGGCGTTTATGATAAAAACACCGCAAAAGGCCAAGCAGT
23981188 AGTGGCGTTTATGATA
66 AGTGGCGTTTATGATA
* ** *
23981204 AAACTCCACAAAAGGTCAAGCATTAGGGGCGTTTATGGTAAAAACACCGCAAAAGGCCAAGCAGT
1 AAACGCCACAAAAGGTCAAGCATTAACGGCGTTTATGATAAAAACACCGCAAAAGGCCAAGCAGT
23981269 AGTGGC
66 AGTGGC
23981275 CGCAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (81 bp):
AAACGCCACAAAAGGTCAAGCATTAACGGCGTTTATGATAAAAACACCGCAAAAGGCCAAGCAGT
AGTGGCGTTTATGATA
Found at i:23981309 original size:7 final size:7
Alignment explanation
Indices: 23981297--23981385 Score: 54
Period size: 7 Copynumber: 12.6 Consensus size: 7
23981287 GTAATTTTAT
*
23981297 TTTAGGG
1 TTTAAGG
23981304 TTT-AGG
1 TTTAAGG
*
23981310 TTTTAAGA
1 -TTTAAGG
*
23981318 TTTAATG
1 TTTAAGG
23981325 TTTAAGG
1 TTTAAGG
23981332 TTTAAGG
1 TTTAAGG
* *
23981339 TCTATGG
1 TTTAAGG
*
23981346 TTTATGG
1 TTTAAGG
*
23981353 TTTTAGGG
1 -TTTAAGG
*
23981361 TTTATGG
1 TTTAAGG
*
23981368 TTTATGG
1 TTTAAGG
* *
23981375 CTTAATG
1 TTTAAGG
23981382 TTTA
1 TTTA
23981386 GTATTTTAGA
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
6 2 0.03
7 55 0.85
8 8 0.12
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:23981405 original size:21 final size:22
Alignment explanation
Indices: 23981381--23981426 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
23981371 ATGGCTTAAT
23981381 GTTTAGTATTTT-AGATTTATG
1 GTTTAGTATTTTAAGATTTATG
*
23981402 GTTTAGTGTTTTAAGATTTATG
1 GTTTAGTATTTTAAGATTTATG
23981424 GTT
1 GTT
23981427 AGGGTCTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (22 bp):
GTTTAGTATTTTAAGATTTATG
Found at i:23981450 original size:57 final size:57
Alignment explanation
Indices: 23981319--23981450 Score: 126
Period size: 57 Copynumber: 2.3 Consensus size: 57
23981309 GTTTTAAGAT
* * * * * *
23981319 TTAATGTTTAAGG-TTTAAGGTCTATGGTTTATGGTTTTAGGGTTTATGGTTTATGGC
1 TTAATGTTT-AGGATTTTAGATTTATGGTTTATGGTTTTAAGATTTATGGTTTAGGGC
*
23981376 TTAATGTTTAGTATTTTAGATTTATGGTTTA-GTGTTTTAAGATTTATGG-TTAGGGTC
1 TTAATGTTTAGGATTTTAGATTTATGGTTTATG-GTTTTAAGATTTATGGTTTAGGG-C
* * *
23981433 TTAGTGTTTGGGGTTTTA
1 TTAATGTTTAGGATTTTA
23981451 AGAGTCAAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
56 8 0.13
57 53 0.87
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.52
Consensus pattern (57 bp):
TTAATGTTTAGGATTTTAGATTTATGGTTTATGGTTTTAAGATTTATGGTTTAGGGC
Found at i:23981643 original size:14 final size:14
Alignment explanation
Indices: 23981624--23981679 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
23981614 GAAGTGTATA
23981624 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
* **
23981638 GTTTAGGGTATATT
1 GTTTAGGGTTTAAG
* *
23981652 ATTTTGGGTTTAAG
1 GTTTAGGGTTTAAG
*
23981666 GTCTAGGGTTTAAG
1 GTTTAGGGTTTAAG
23981680 CTTCAAGGTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:23982423 original size:238 final size:237
Alignment explanation
Indices: 23981990--23982428 Score: 564
Period size: 240 Copynumber: 1.8 Consensus size: 237
23981980 GCACTAGGCA
* * **
23981990 AAAAACACCACAATAGATCGAGTATTAGCGGCGCTTGGTTAAAAAAAGCCCACGAAACAATTTAC
1 AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTAAAAAAAGCCCAAAAAACAATTTAC
**
23982055 TTTAAAAAAACTGCACCGTTTTAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
66 TTTAAAAAAACTGCACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
* * *
23982120 CCGCAAAAGATCGACCTTCAGTGGCACTTTTGAGAAAACGCCACAAAAAAACATTTTACTTTAAT
131 CCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCAC-AAAAAACATGTTACTTTAAT
23982185 TAAAACGACATTAGTTTAGGTAGGGAATTAGCGGCGCTACATG
195 TAAAACGACATTAGTTTAGGTAGGGAATTAGCGGCGCTACATG
** * *
23982228 AAAAACACCGTAATAGATCGAGAATTAGCGGTGCTAGG-TAGAAAAACA-CCGCAAAAAATAATT
1 AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTA-AAAAA-AGCC-CAAAAAACAATT
* * * * *
23982291 TACTTTAAGTAAAAC-GACGCCGTTCAAATTTGCATCTTTAGTGGCTTTAGCGGTG-CTTTATAA
63 TACTTTAA-AAAAACTG-CACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTT-TAA
* * * * * *
23982354 AAAACGCCGCAATAGATAGACCTTTAGTGGCGCTTTTTAAAAAACGCCAC-AAAAACATGTTAGT
125 AAAAAGCCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCACAAAAAACATGTTACT
23982418 TTAATTAAAAC
190 TTAATTAAAAC
23982429 ATCGCCGTTT
Statistics
Matches: 171, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
237 2 0.01
238 63 0.37
239 23 0.13
240 83 0.49
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (237 bp):
AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTAAAAAAAGCCCAAAAAACAATTTAC
TTTAAAAAAACTGCACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
CCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCACAAAAAACATGTTACTTTAATT
AAAACGACATTAGTTTAGGTAGGGAATTAGCGGCGCTACATG
Found at i:23982443 original size:238 final size:237
Alignment explanation
Indices: 23981990--23982461 Score: 553
Period size: 238 Copynumber: 2.0 Consensus size: 237
23981980 GCACTAGGCA
* * **
23981990 AAAAACACCACAATAGATCGAGTATTAGCGGCGCTTGGTTAAAAAAAGCCCACGAAACAATTTAC
1 AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTAAAAAAAGCCCAAAAAACAATTTAC
**
23982055 TTTAAAAAAACTGCACCGTTTTAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
66 TTTAAAAAAACTGCACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
* * *
23982120 CCGCAAAAGATCGACCTTCAGTGGCACTTTTGAGAAAACGCCACAAAAAAACATTTTACTTTAAT
131 CCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCAC-AAAAAACATGTTACTTTAAT
**
23982185 TAAAACGACATTAGTTTAGGTAGGGAATTAGCGGCGCTACATG
195 TAAAACGACAGCAGTTTAGGTAGGGAATTAGCGGCGCTACATG
** * *
23982228 AAAAACACCGTAATAGATCGAGAATTAGCGGTGCTAGG-TAGAAAAACA-CCGCAAAAAATAATT
1 AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTA-AAAAA-AGCC-CAAAAAACAATT
* * * * *
23982291 TACTTTAAGTAAAAC-GACGCCGTTCAAATTTGCATCTTTAGTGGCTTTAGCGGTG-CTTTATAA
63 TACTTTAA-AAAAACTG-CACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTT-TAA
* * * * * *
23982354 AAAACGCCGCAATAGATAGACCTTTAGTGGCGCTTTTTAAAAAACGCCAC-AAAAACATGTTAGT
125 AAAAAGCCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCACAAAAAACATGTTACT
* * *
23982418 TTAATTAAAAC-ATC-GCCGTTTTAGGTAGGGTATTAGTGGCGCTA
190 TTAATTAAAACGA-CAGCAG-TTTAGGTAGGGAATTAGCGGCGCTA
23982462 TGTAAAAGTG
Statistics
Matches: 197, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
237 4 0.02
238 87 0.44
239 23 0.12
240 83 0.42
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (237 bp):
AAAAACACCACAATAGATCGAGAATTAGCGGCGCTAGGTTAAAAAAAGCCCAAAAAACAATTTAC
TTTAAAAAAACTGCACCGTTCAAAGTTGCATCTTTAGTGGCTTTAACGGCGCCTTTTAAAAAAAG
CCGCAAAAGATAGACCTTCAGTGGCACTTTTGAAAAAACGCCACAAAAAACATGTTACTTTAATT
AAAACGACAGCAGTTTAGGTAGGGAATTAGCGGCGCTACATG
Found at i:23984644 original size:9 final size:9
Alignment explanation
Indices: 23984630--23984871 Score: 191
Period size: 9 Copynumber: 26.9 Consensus size: 9
23984620 TTCTTTAAAA
23984630 TTACATAAC
1 TTACATAAC
*
23984639 TTACATACC
1 TTACATAAC
23984648 TTACATAA-
1 TTACATAAC
* * *
23984656 ATATATATC
1 TTACATAAC
*
23984665 ATATCATAAC
1 TTA-CATAAC
*
23984675 TTACATACC
1 TTACATAAC
*
23984684 TCACATAAC
1 TTACATAAC
*
23984693 ATACATAAC
1 TTACATAAC
23984702 TTACATAAC
1 TTACATAAC
*
23984711 TTATATAA-
1 TTACATAAC
* * *
23984719 ATATATATC
1 TTACATAAC
*
23984728 ATATCATAAC
1 TTA-CATAAC
23984738 TTACATAAC
1 TTACATAAC
*
23984747 TTACATAAT
1 TTACATAAC
23984756 TTACATAAC
1 TTACATAAC
*
23984765 TTACATAAT
1 TTACATAAC
*
23984774 TTACATAAT
1 TTACATAAC
*
23984783 TTACATAAT
1 TTACATAAC
* *
23984792 TTTCGTAAC
1 TTACATAAC
***
23984801 TTACATTTT
1 TTACATAAC
*
23984810 TTACATAAT
1 TTACATAAC
23984819 TTACATAAC
1 TTACATAAC
*
23984828 TTACATAAT
1 TTACATAAC
*
23984837 TTTCATAAC
1 TTACATAAC
***
23984846 TTACATTTT
1 TTACATAAC
23984855 TTACATAAC
1 TTACATAAC
*
23984864 TAACATAA
1 TTACATAA
23984872 ATAAATATCG
Statistics
Matches: 184, Mismatches: 45, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
8 11 0.06
9 161 0.88
10 12 0.07
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (9 bp):
TTACATAAC
Found at i:23984801 original size:63 final size:63
Alignment explanation
Indices: 23984630--23984844 Score: 252
Period size: 63 Copynumber: 3.4 Consensus size: 63
23984620 TTCTTTAAAA
* * * * *
23984630 TTACATAACTTACATACCTTACATAAATATATATCATATCATAACTTACATACCTCACATAAC
1 TTACATAACTTACATAACTTACATAAATATACATCATATCATAACTTACATAACTTACATAAT
* * *
23984693 ATACATAACTTACATAACTTATATAAATATATATCATATCATAACTTACATAACTTACATAAT
1 TTACATAACTTACATAACTTACATAAATATACATCATATCATAACTTACATAACTTACATAAT
* * * * * ***
23984756 TTACATAACTTACATAATTTACAT-AATTTACATAATTTTCGTAACTTACATTTTTTACATAAT
1 TTACATAACTTACATAACTTACATAAATATACATCA-TATCATAACTTACATAACTTACATAAT
* *
23984819 TTACATAACTTACATAATTTTCATAA
1 TTACATAACTTACATAACTTACATAA
23984845 CTTACATTTT
Statistics
Matches: 132, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
62 8 0.06
63 123 0.93
64 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (63 bp):
TTACATAACTTACATAACTTACATAAATATACATCATATCATAACTTACATAACTTACATAAT
Found at i:23990679 original size:3 final size:3
Alignment explanation
Indices: 23990665--23990709 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
23990655 TTCTTAGATT
* *
23990665 TTA TTAA TTA TTA TTA TTG TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23990710 TCTATTTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23991182 original size:12 final size:12
Alignment explanation
Indices: 23991161--23991191 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23991151 ACGAAAACAG
*
23991161 GGGAAGAAAAAA
1 GGGAAAAAAAAA
23991173 GGGAAAAAAAAA
1 GGGAAAAAAAAA
23991185 GGGAAAA
1 GGGAAAA
23991192 TTGGGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
GGGAAAAAAAAA
Found at i:23991580 original size:17 final size:18
Alignment explanation
Indices: 23991560--23991593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23991550 TAAAAGAGTT
*
23991560 AATTA-GGATTAAATTGG
1 AATTAGGGAATAAATTGG
23991577 AATTAGGGAATAAATTG
1 AATTAGGGAATAAATTG
23991594 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (18 bp):
AATTAGGGAATAAATTGG
Found at i:23991724 original size:13 final size:13
Alignment explanation
Indices: 23991706--23991732 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23991696 AGGAAAAGAA
23991706 AAGATCGTTGAGG
1 AAGATCGTTGAGG
23991719 AAGATCGTTGAGG
1 AAGATCGTTGAGG
23991732 A
1 A
23991733 GTAAACGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (13 bp):
AAGATCGTTGAGG
Found at i:23992147 original size:27 final size:27
Alignment explanation
Indices: 23992107--23992202 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 27
23992097 AATGCCTTAT
* *
23992107 TGGTGTGTTAGGGAGGATATAATATAC
1 TGGTGTGTTTGGGAGGATATATTATAC
*
23992134 TGGTGTGTTTGGGAGGCTATATTATAC
1 TGGTGTGTTTGGGAGGATATATTATAC
* *
23992161 TAGGTGT-TAT-GGAGGATTTATATTATTC
1 T-GGTGTGTTTGGGAGGA--TATATTATAC
23992189 TGAGTGTGTTTGGG
1 TG-GTGTGTTTGGG
23992203 TTGGATATTC
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 5 0.09
27 28 0.50
28 19 0.34
29 2 0.04
30 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (27 bp):
TGGTGTGTTTGGGAGGATATATTATAC
Found at i:23993356 original size:38 final size:32
Alignment explanation
Indices: 23993305--23993387 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 32
23993295 ATTTTCTTGC
23993305 TGTAAGAATATTTTTAACATTGTAACTTTAAACATTAT
1 TGTAAGAATATTTTTAA-A-T-T-A-TTT-AACATTAT
*
23993343 TGTAAGAATA-TTTTGAATTATTTAACATTAT
1 TGTAAGAATATTTTTAAATTATTTAACATTAT
23993374 TGTAAGAATATTTT
1 TGTAAGAATATTTT
23993388 GAATTATACT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
31 18 0.42
32 6 0.14
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
37 5 0.12
38 10 0.23
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.47
Consensus pattern (32 bp):
TGTAAGAATATTTTTAAATTATTTAACATTAT
Found at i:23993370 original size:31 final size:31
Alignment explanation
Indices: 23993335--23993394 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
23993325 TGTAACTTTA
23993335 AACATTATTGTAAGAATATTTTGAATTATTT
1 AACATTATTGTAAGAATATTTTGAATTATTT
23993366 AACATTATTGTAAGAATATTTTGAATTAT
1 AACATTATTGTAAGAATATTTTGAATTAT
23993395 ACTTCAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (31 bp):
AACATTATTGTAAGAATATTTTGAATTATTT
Found at i:23994866 original size:35 final size:35
Alignment explanation
Indices: 23994662--23994866 Score: 214
Period size: 35 Copynumber: 5.8 Consensus size: 35
23994652 TGACATTTAC
*
23994662 AAAAGGTTGGGATAGACTCGTCTAAGACAACCTTA
1 AAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
* *
23994697 AAAAGGTTGGGATAGACCCGTCTAAGACAACCTTA
1 AAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
* * * *
23994732 AAAAGGTTGGGATAAACCTTGTCTAAAGTAACCTTTAA
1 AAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC-TT-A
* * *
23994770 AAAAGATTAGAATAGACTCGTCTAAGGCAA-CTTA
1 AAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
* ** * * *
23994804 AAAAAGTTGAAATAAGCCTTGTCTAAGGCATCCTTA
1 AAAAGGTTGGGAT-AGACTCGTCTAAGGCAACCTTA
*
23994840 AAAAGGTTGGGATAGACACGTCTAAGG
1 AAAAGGTTGGGATAGACTCGTCTAAGG
23994867 TAATTTTTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
34 10 0.07
35 76 0.55
36 26 0.19
37 13 0.09
38 13 0.09
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (35 bp):
AAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTA
Found at i:23997740 original size:2 final size:2
Alignment explanation
Indices: 23997733--23997757 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23997723 TGATCACATA
23997733 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23997758 AGTTGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24005599 original size:44 final size:44
Alignment explanation
Indices: 24005536--24005619 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
24005526 GTGCCAATGT
* *
24005536 ATATATATAATCAAAGCTATCTCAGTCTCGCATACTAAGTGCAA
1 ATATATATAATCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
* *
24005580 ATATATGTAA-CATAAGCTATCTCAATTTCGCACACTAAGT
1 ATATATATAATCA-AAGCTATCTCAATCTCGCACACTAAGT
24005620 ACCCAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (44 bp):
ATATATATAATCAAAGCTATCTCAATCTCGCACACTAAGTGCAA
Found at i:24007311 original size:23 final size:22
Alignment explanation
Indices: 24007278--24007326 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
24007268 TTTTAAAAAG
*
24007278 AAATTGAAATGAAATGAAATTA
1 AAATTGAAATGAAATGAAAATA
24007300 AAATTGGAAATGAAATGAAAATA
1 AAATT-GAAATGAAATGAAAATA
24007323 AAAT
1 AAAT
24007327 GTAATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.24
Consensus pattern (22 bp):
AAATTGAAATGAAATGAAAATA
Found at i:24007472 original size:16 final size:16
Alignment explanation
Indices: 24007453--24007494 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24007443 ATTTAAAAAG
24007453 AAATTGAAATAAAATA
1 AAATTGAAATAAAATA
*
24007469 AAATTGAAATTGAAATA
1 AAATTGAAA-TAAAATA
24007486 AAA-TGAAAT
1 AAATTGAAAT
24007495 TCAAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 14 0.58
17 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAATTGAAATAAAATA
Found at i:24007478 original size:6 final size:6
Alignment explanation
Indices: 24007452--24007521 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
24007442 TATTTAAAAA
* * *
24007452 GAAATT GAAA-T -AAAAT AAAATT GAAATT GAAA-T -AAAAT GAAATT
1 GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT
* *
24007496 CAAATT G-AATA GAAATT GAAA-T GAAA
1 GAAATT GAAATT GAAATT GAAATT GAAA
24007522 ATATAATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
4 6 0.12
5 13 0.25
6 33 0.63
ACGTcount: A:0.60, C:0.01, G:0.13, T:0.26
Consensus pattern (6 bp):
GAAATT
Found at i:24007478 original size:22 final size:22
Alignment explanation
Indices: 24007452--24007504 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
24007442 TATTTAAAAA
24007452 GAAATTGAAATAAAATAAAATT
1 GAAATTGAAATAAAATAAAATT
*
24007474 GAAATTGAAATAAAATGAAATT
1 GAAATTGAAATAAAATAAAATT
*
24007496 CAAATTGAA
1 GAAATTGAA
24007505 TAGAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.26
Consensus pattern (22 bp):
GAAATTGAAATAAAATAAAATT
Found at i:24007511 original size:22 final size:22
Alignment explanation
Indices: 24007453--24007517 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
24007443 ATTTAAAAAG
* *
24007453 AAATTGAAATAAAATAAAATTG
1 AAATTGAAATAAAATGAAATTC
24007475 AAATTGAAATAAAATGAAATTC
1 AAATTGAAATAAAATGAAATTC
24007497 AAATTG-AATAGAAATTGAAAT
1 AAATTGAAATA-AAA-TGAAAT
24007518 GAAAATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 4 0.10
22 29 0.74
23 6 0.15
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.28
Consensus pattern (22 bp):
AAATTGAAATAAAATGAAATTC
Found at i:24007909 original size:17 final size:17
Alignment explanation
Indices: 24007887--24007920 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24007877 AAAAAAAAGG
*
24007887 TGAAATGAAGTTCAAAT
1 TGAAATGAAATTCAAAT
24007904 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
24007921 AAAATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (17 bp):
TGAAATGAAATTCAAAT
Found at i:24008159 original size:18 final size:17
Alignment explanation
Indices: 24008136--24008212 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
24008126 TAAATTCAAA
24008136 TGAAATTTAAAAATAAAT
1 TGAAA-TTAAAAATAAAT
24008154 TGAAATTACAAAATAAAAT
1 TGAAATTA-AAAAT-AAAT
* *
24008173 TGACATTCAAAATAAAGT
1 TGAAATTAAAAATAAA-T
** *
24008191 TTTAATTAAAAA-AAAG
1 TGAAATTAAAAATAAAT
24008207 TGAAAT
1 TGAAAT
24008213 GAAATTCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
16 4 0.09
17 9 0.19
18 24 0.51
19 10 0.21
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (17 bp):
TGAAATTAAAAATAAAT
Found at i:24008211 original size:115 final size:113
Alignment explanation
Indices: 24007967--24008223 Score: 304
Period size: 115 Copynumber: 2.2 Consensus size: 113
24007957 ATTAAAAAAG
* * * *
24007967 AAAAAAAAAGTAAAATGAAATTTAAAGAAAATGAGAAAAAAATGAACTTCAAATGAAATTTAAAA
1 AAAAAAAAAGTGAAATGAAATTCAAATAAAATGAGAAAAAAATGAAATTCAAATGAAATTTAAAA
* * **
24008032 AGAAATTGAAATGAAAAAAATCGACATGAGAAAATGAATTTTTTAATT
66 AGAAATTGAAATAAAAAAAATCGACATGACAAAATGAAAGTTTTAATT
* * *
24008080 AAAAATAAAAAATGAAATGAAATTCAAATAACATGAGAAAAAAAATTAAATTCAAATGAAATTTA
1 -AAAA-AAAAAGTGAAATGAAATTCAAATAAAATGAG-AAAAAAATGAAATTCAAATGAAATTTA
* * *
24008145 AAAATAAATTGAAATTACAAAATAAAATTGACAT-TCAAAAT-AAAGTTTTAATT
63 AAAAGAAATTGAAA-T--AAAA-AAAATCGACATGACAAAATGAAAGTTTTAATT
24008198 -AAAAAAAAGTGAAATGAAATTCAAAT
1 AAAAAAAAAGTGAAATGAAATTCAAAT
24008224 TGAGATGAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
114 4 0.03
115 48 0.39
116 41 0.34
117 1 0.01
118 10 0.08
119 8 0.07
120 10 0.08
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (113 bp):
AAAAAAAAAGTGAAATGAAATTCAAATAAAATGAGAAAAAAATGAAATTCAAATGAAATTTAAAA
AGAAATTGAAATAAAAAAAATCGACATGACAAAATGAAAGTTTTAATT
Found at i:24008273 original size:11 final size:11
Alignment explanation
Indices: 24008253--24008294 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
24008243 CATGAGAAAA
*
24008253 AAATGGAATTT
1 AAATGAAATTT
24008264 AAATGAAATTT
1 AAATGAAATTT
24008275 GAAATG-AATATT
1 -AAATGAAAT-TT
24008287 AAATGAAA
1 AAATGAAA
24008295 AGGAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (11 bp):
AAATGAAATTT
Found at i:24008317 original size:17 final size:17
Alignment explanation
Indices: 24008273--24008318 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
24008263 TAAATGAAAT
*
24008273 TTGAAATGAATATTAAA
1 TTGAAATGAAAATTAAA
*
24008290 -TGAAAAGGAAAATTAAA
1 TTG-AAATGAAAATTAAA
24008307 TTGAAATGAAAA
1 TTGAAATGAAAA
24008319 AAAAAGGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (17 bp):
TTGAAATGAAAATTAAA
Found at i:24010237 original size:17 final size:18
Alignment explanation
Indices: 24010224--24010346 Score: 96
Period size: 18 Copynumber: 6.8 Consensus size: 18
24010214 TAATCTTCAA
24010224 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
24010243 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
24010260 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
24010279 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
24010295 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
24010314 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
24010332 TGATATACAATCTTA
1 TGATATGCAATCTTA
24010347 AAAGATATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.27
18 28 0.31
19 28 0.31
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:24010293 original size:35 final size:35
Alignment explanation
Indices: 24010231--24010346 Score: 196
Period size: 35 Copynumber: 3.2 Consensus size: 35
24010221 CAATGATATG
*
24010231 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
24010267 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
24010302 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
24010339 CAATCTTA
1 CAATCTTA
24010347 AAAGATATGA
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.66
36 15 0.19
37 11 0.14
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:24016123 original size:21 final size:22
Alignment explanation
Indices: 24016093--24016167 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
24016083 CTTCTATTTC
24016093 AAAA-AAAAAG-GCAAAAAAAT-
1 AAAAGAAAAAGAG-AAAAAAATA
24016113 AAAAGAAAAAGAGAAAAAAATA
1 AAAAGAAAAAGAGAAAAAAATA
**
24016135 AAAAGAAAAAAGAGAAAAAAGGA
1 AAAAG-AAAAAGAGAAAAAAATA
24016158 AAAAGAAAAA
1 AAAAGAAAAA
24016168 TGAAGAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.08
21 14 0.29
22 11 0.22
23 20 0.41
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (22 bp):
AAAAGAAAAAGAGAAAAAAATA
Found at i:24016132 original size:16 final size:16
Alignment explanation
Indices: 24016113--24016167 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 16
24016103 GCAAAAAAAT
24016113 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
24016129 AAAATAAAAAGA-AAA
1 AAAAGAAAAAGAGAAA
* *
24016144 AAGAGAAAAA-AG-GA
1 AAAAGAAAAAGAGAAA
24016158 AAAAGAAAAA
1 AAAAGAAAAA
24016168 TGAAGAGGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 11 0.33
15 11 0.33
16 11 0.33
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:24017154 original size:43 final size:41
Alignment explanation
Indices: 24017107--24017249 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 41
24017097 CGCCTTAACC
24017107 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TAAAATTAC-GATCTTATCT
* * **
24017150 CCCTAAGCAGTAGTGG-AACAGAT-CAACGACGACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTAAAATTACGA-T---CTT-ATCT
24017194 CCCTAAGCAGTAGGGTAACAGGTCAAAATTACGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGT-AAAATTAC-GATCTTATCT
24017237 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
24017250 TGGAGCAGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
40 2 0.02
41 5 0.06
42 4 0.05
43 36 0.44
44 24 0.30
45 3 0.04
46 5 0.06
47 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTAAAATTACGATCTTATCT
Found at i:24017243 original size:87 final size:84
Alignment explanation
Indices: 24017096--24017303 Score: 298
Period size: 87 Copynumber: 2.5 Consensus size: 84
24017086 ACAAAATTCA
24017096 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAG
1 GCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAG
*
24017160 TAGTGGAACAGATC-AACGAC
65 TAGTGGAACAGATCGAA-GAT
*
24017180 GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATTACGGATCTTATCTCCCTAAG
1 G---CGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAG
*
24017244 CAGTAGTGGAGCAGATCGAAGAT
62 CAGTAGTGGAACAGATCGAAGAT
*
24017267 GCGCCTTAACCTCTAAGCAGTAGGGTAACAGGT-TAAA
1 GCGCCTTAACCCCTAAGCAGTAGGGTAACAGGTCTAAA
24017304 GTATAGCAGA
Statistics
Matches: 113, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
83 26 0.23
84 9 0.08
87 75 0.66
88 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (84 bp):
GCGCCTTAACCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAACAGATCGAAGAT
Found at i:24017787 original size:207 final size:207
Alignment explanation
Indices: 24017428--24018969 Score: 2665
Period size: 207 Copynumber: 7.5 Consensus size: 207
24017418 CGGAGAGCAG
*** *
24017428 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATAATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
24017493 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* * *
24017558 AGCAGATCTGACCTTTAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCGTCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
24017623 TACAAGTAACAA
196 TACAAGGAACAA
24017635 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
24017700 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGTAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
24017765 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
24017830 TACAAGGAGA-AA
196 TACAAGGA-ACAA
* * *
24017842 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGTAAGTCTAAGATGATTTGGTA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
24017907 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
24017972 AGCAGATTTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAAATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
24018037 TACAAGGAACAA
196 TACAAGGAACAA
24018049 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
24018114 TCTCTGTATTGTCAGAGAACAAATAGAAGTTTGGCGTATCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
24018179 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTACT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
24018244 TACAAGGAAAAA
196 TACAAGGAACAA
24018256 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
24018321 TCTTTGTATTGTCAGAGAAAAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
24018386 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCGAAGATGGTTTGGCATCGTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
24018451 TACAAGGAACAA
196 TACAAGGAACAA
*
24018463 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTTTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
24018528 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
24018593 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATTCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
24018658 TACAAGGAACAA
196 TACAAGGAACAA
*
24018670 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
24018735 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * * * *
24018800 AGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAATATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
24018864 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
24018876 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
24018941 TCTCTGTATTGTCAGGGAACAAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
24018970 AAGCAGATTT
Statistics
Matches: 1267, Mismatches: 66, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
206 126 0.10
207 1140 0.90
208 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:24019388 original size:19 final size:19
Alignment explanation
Indices: 24019363--24019486 Score: 170
Period size: 19 Copynumber: 6.8 Consensus size: 19
24019353 ATAATCTTCA
24019363 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24019382 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24019401 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24019418 ATGAT-TGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24019436 AT-A-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24019453 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24019471 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
24019487 AAATATATGA
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
17 30 0.33
18 30 0.33
19 32 0.35
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:24019431 original size:18 final size:18
Alignment explanation
Indices: 24019363--24019486 Score: 153
Period size: 18 Copynumber: 6.8 Consensus size: 18
24019353 ATAATCTTCA
24019363 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
24019382 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
24019401 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
24019418 ATGATTGTAATCTTAGAT
1 ATGATTGCAATCTTAGAT
* *
24019436 AT-AATACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
24019453 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
24019471 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
24019487 AAATATATGA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
17 30 0.33
18 31 0.34
19 30 0.33
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:24019436 original size:35 final size:35
Alignment explanation
Indices: 24019371--24019486 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 35
24019361 CAATGATATG
*
24019371 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
* *
24019407 CAATCTTAGATATGATTGTAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
24019442 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
24019479 CAATCTTA
1 CAATCTTA
24019487 AAATATATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 47 0.64
36 15 0.21
37 11 0.15
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:24020550 original size:88 final size:89
Alignment explanation
Indices: 24020418--24020648 Score: 338
Period size: 88 Copynumber: 2.6 Consensus size: 89
24020408 GGTTTCGACA
* * ** * *
24020418 CAAATAACAAATAATACGGACTAAATTAAATTTACAGACCCAAAAAAATACAAATATTCTAAAAT
1 CAAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAA
* *
24020483 TTTAATACATGAAAATATAAAATT
66 ATTAATACACGAAAATATAAAATT
*
24020507 CAAACAACAAATAATACAAACT-AATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAA
1 CAAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAA
24020571 ATTAATACACGAAAATATAAAATT
66 ATTAATACACGAAAATATAAAATT
* **
24020595 CGAACAACAAATAATACAGACTAAATTTGATTTACAGATACAAAAATAATACAA
1 CAAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAA-AATACAA
24020649 TTTTTTTAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
88 80 0.63
89 40 0.31
90 7 0.06
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.24
Consensus pattern (89 bp):
CAAACAACAAATAATACAGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAA
ATTAATACACGAAAATATAAAATT
Found at i:24020980 original size:26 final size:25
Alignment explanation
Indices: 24020915--24020985 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
24020905 AATTCGGTTG
*
24020915 TACACTACAAAACACTCCCATTTGCAA
1 TACACTACAAAACACT--CATTTGAAA
* *
24020942 TCCACTACAAAAAAACTCATTTGAAGA
1 TACACTAC-AAAACACTCATTTGAA-A
24020969 TACACTACAAAACACTC
1 TACACTACAAAACACTC
24020986 TCATTTTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 15 0.41
27 15 0.41
28 7 0.19
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (25 bp):
TACACTACAAAACACTCATTTGAAA
Found at i:24023113 original size:31 final size:29
Alignment explanation
Indices: 24023078--24023150 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
24023068 ATTTAATCAC
24023078 TTAGGATTTTCCTTGATGGATATTTATTATA
1 TTAGGATTTTCCTTG-T-GATATTTATTATA
** **
24023109 TTAGG-TTTTTTTTGTTTTATTTATTATA
1 TTAGGATTTTCCTTGTGATATTTATTATA
*
24023137 TTAAGATTTTCCTT
1 TTAGGATTTTCCTT
24023151 TAATTATAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
28 15 0.44
29 7 0.21
30 7 0.21
31 5 0.15
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.60
Consensus pattern (29 bp):
TTAGGATTTTCCTTGTGATATTTATTATA
Found at i:24024939 original size:10 final size:10
Alignment explanation
Indices: 24024924--24024991 Score: 72
Period size: 10 Copynumber: 6.9 Consensus size: 10
24024914 TAATTAATTA
24024924 ATTTTTAAAT
1 ATTTTTAAAT
24024934 ATTTTTAAAT
1 ATTTTTAAAT
*
24024944 ATTTCTT-TAT
1 ATTT-TTAAAT
24024954 ATGTTTTATAAT
1 AT-TTTTA-AAT
24024966 -TTTTTAAA-
1 ATTTTTAAAT
24024974 ATTTTTAAA-
1 ATTTTTAAAT
24024983 ATTTTTAAA
1 ATTTTTAAA
24024992 AAATAATTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
9 19 0.37
10 25 0.49
11 5 0.10
12 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:24024969 original size:9 final size:9
Alignment explanation
Indices: 24024966--24024992 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
24024956 GTTTTATAAT
24024966 TTTTTAAAA
1 TTTTTAAAA
24024975 TTTTTAAAA
1 TTTTTAAAA
24024984 TTTTTAAAA
1 TTTTTAAAA
24024993 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:24030035 original size:62 final size:59
Alignment explanation
Indices: 24029910--24030036 Score: 132
Period size: 62 Copynumber: 2.1 Consensus size: 59
24029900 AATTAATAGG
* * * * *
24029910 GTGACCAAATTAAAAAAATTGATAGTTGGATGACAAAAAAGAAAATGGACAATAAATGG
1 GTGACCAAATTAAAAAAAATAATAATTGGATCACAAAAAAGAAAATGGACAATAAATGA
* *
24029969 GTGACCAAATTAAAAAATAATAATAATTGGGTCACTAAAAAA-ATTAAAT-GAGCAATAATTGA
1 GTGACCAAATTAAAAAA-AATAATAATTGGATCAC-AAAAAAGA--AAATGGA-CAATAAATGA
24030031 GTGACC
1 GTGACC
24030037 CATGATGTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 17 0.30
60 13 0.23
61 8 0.14
62 18 0.32
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (59 bp):
GTGACCAAATTAAAAAAAATAATAATTGGATCACAAAAAAGAAAATGGACAATAAATGA
Found at i:24030498 original size:16 final size:15
Alignment explanation
Indices: 24030471--24030502 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
24030461 GAATAAATTG
24030471 ATAATAAATAATTAT
1 ATAATAAATAATTAT
24030486 ATAATAGAATAATTAT
1 ATAATA-AATAATTAT
24030502 A
1 A
24030503 CATATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
ATAATAAATAATTAT
Found at i:24031109 original size:61 final size:61
Alignment explanation
Indices: 24031026--24031146 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
24031016 ATAACAGACG
*
24031026 ATTTAAACATATAAACAATTGATCCAAAAGAAGAAGATGTAATATTCCAACATAACAATCA
1 ATTTAAACATATAAACAATTGATCCAAAAGAAGAAGAAGTAATATTCCAACATAACAATCA
* * * * *
24031087 ATTTAAACATATAAACAATTGATTCAAAAGAATAAGAAGTAGTATTCTACCATAACAATC
1 ATTTAAACATATAAACAATTGATCCAAAAGAAGAAGAAGTAATATTCCAACATAACAATC
24031147 GATTCAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.26
Consensus pattern (61 bp):
ATTTAAACATATAAACAATTGATCCAAAAGAAGAAGAAGTAATATTCCAACATAACAATCA
Found at i:24033543 original size:42 final size:43
Alignment explanation
Indices: 24033466--24033569 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 43
24033456 TCTTACATGT
*
24033466 AATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACACA-A
1 AATCAAATA-CGATGCCACTGTCCCAAACAAGGTCTTACACATA
* *
24033509 AATCAAATACGATGCCGA-TGTCCCAAACATGGTCTTACGCATA
1 AATCAAATACGATGCC-ACTGTCCCAAACAAGGTCTTACACATA
24033552 AATCTCAAAT-CGATGCCA
1 AA--TCAAATACGATGCCA
24033570 ACATCCCAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
42 27 0.50
43 14 0.26
44 7 0.13
45 6 0.11
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (43 bp):
AATCAAATACGATGCCACTGTCCCAAACAAGGTCTTACACATA
Found at i:24042739 original size:15 final size:15
Alignment explanation
Indices: 24042721--24042764 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
24042711 GAAGCCCAGA
24042721 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
24042736 ATAAATAAATCCATG
1 ATAAAGAAATCCAAG
*
24042751 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
24042765 TTTACAAGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:24043535 original size:39 final size:39
Alignment explanation
Indices: 24043488--24043567 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
24043478 ACCATTCTAT
24043488 CATTGAACTCTTTGGTTTCTCACCCAGAAACTCATTCAA
1 CATTGAACTCTTTGGTTTCTCACCCAGAAACTCATTCAA
24043527 CATTGAACTCTTTGGTTTCTCACCCAGAAACTCATTCAA
1 CATTGAACTCTTTGGTTTCTCACCCAGAAACTCATTCAA
24043566 CA
1 CA
24043568 AAAATCTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (39 bp):
CATTGAACTCTTTGGTTTCTCACCCAGAAACTCATTCAA
Found at i:24045003 original size:27 final size:27
Alignment explanation
Indices: 24044973--24045149 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
24044963 ATATTGAGTC
* *
24044973 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24045000 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24045027 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24045055 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24045082 CGCACACTTAGTGC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
24045108 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24045135 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24045150 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 82 0.65
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24045132 original size:53 final size:54
Alignment explanation
Indices: 24044973--24045149 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
24044963 ATATTGAGTC
* * * * * *
24044973 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
24045027 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* * *
24045082 CGCACACTTAGTGC-ATCATATTC-ATTTGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
24045135 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24045150 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 38 0.37
54 21 0.20
55 45 0.43
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:24047998 original size:20 final size:20
Alignment explanation
Indices: 24047973--24048016 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
24047963 TGTGGGTGGG
24047973 CCGTGTGGCTTGGGACACGC
1 CCGTGTGGCTTGGGACACGC
24047993 CCGTGTGGCTTGGGACACGC
1 CCGTGTGGCTTGGGACACGC
24048013 CCGT
1 CCGT
24048017 ATCCTCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.32, G:0.39, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCTTGGGACACGC
Found at i:24054991 original size:43 final size:42
Alignment explanation
Indices: 24054936--24055042 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
24054926 TGCCAACGTT
24054936 CCAGACATGGTCTTACATGTAATCAAATATCGATGC-CACTATC
1 CCAGACATGGTCTTACATGTAATCAAATA-CGATGCTCA-TATC
* *** * *
24054979 CCAGACAGGGTCTTACACAAAATCAAATACGATGCTGATGTC
1 CCAGACATGGTCTTACATGTAATCAAATACGATGCTCATATC
*
24055021 CCAGGCATGGTCTTACATGTAA
1 CCAGACATGGTCTTACATGTAA
24055043 ATCTCAAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
CCAGACATGGTCTTACATGTAATCAAATACGATGCTCATATC
Found at i:24055045 original size:43 final size:44
Alignment explanation
Indices: 24054936--24055097 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 44
24054926 TGCCAACGTT
24054936 CCAGACATGGTCTTACATGT-AATCAAATATCGATGCCACTATC
1 CCAGACATGGTCTTACATGTAAATCAAATATCGATGCCACTATC
* ** * *
24054979 CCAGACAGGGTCTTACA-CAAAATCAAATA-CGATGCTGA-TGTC
1 CCAGACATGGTCTTACATGTAAATCAAATATCGATGC-CACTATC
* * * * *
24055021 CCAGGCATGGTCTTACATGTAAATCTCAA-ATCGATGACAATGTC
1 CCAGACATGGTCTTACATGTAAATC-AAATATCGATGCCACTATC
* * * *
24055065 CCAAACGTGGTCTTACACG-AAATCATATATCGA
1 CCAGACATGGTCTTACATGTAAATCAAATATCGA
24055098 AATCCTATGT
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
42 25 0.27
43 43 0.46
44 26 0.28
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (44 bp):
CCAGACATGGTCTTACATGTAAATCAAATATCGATGCCACTATC
Found at i:24055066 original size:44 final size:43
Alignment explanation
Indices: 24054936--24055081 Score: 122
Period size: 42 Copynumber: 3.4 Consensus size: 43
24054926 TGCCAACGTT
* * *
24054936 CCAGACATGGTCTTACATGT-AATC-AAATATCGATGCCACTATC
1 CCAGACATGGTCTTACATGTAAATCTCAA-ATCGATG-CAATGTC
* * * *
24054979 CCAGACAGGGTCTTACA--CAAA-ATCAAATACGATGCTGATGTC
1 CCAGACATGGTCTTACATGTAAATCTCAAAT-CGATGC-AATGTC
*
24055021 CCAGGCATGGTCTTACATGTAAATCTCAAATCGATGACAATGTC
1 CCAGACATGGTCTTACATGTAAATCTCAAATCGATG-CAATGTC
* *
24055065 CCAAACGTGGTCTTACA
1 CCAGACATGGTCTTACA
24055082 CGAAATCATA
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
41 3 0.04
42 27 0.34
43 16 0.20
44 27 0.34
45 7 0.09
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAAATCTCAAATCGATGCAATGTC
Found at i:24060881 original size:12 final size:11
Alignment explanation
Indices: 24060863--24060914 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
24060853 AGAAGGGAAT
*
24060863 GAAAAAAAAAG
1 GAAAAAAAAAA
24060874 GAAAAAAAAAA
1 GAAAAAAAAAA
**
24060885 GAAAATTAAAA
1 GAAAAAAAAAA
* *
24060896 G-AACATAAAA
1 GAAAAAAAAAA
24060906 GAAAAAAAA
1 GAAAAAAAA
24060915 TTAAATTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:24060889 original size:10 final size:10
Alignment explanation
Indices: 24060863--24060914 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
24060853 AGAAGGGAAT
24060863 GAAAAAAAAA
1 GAAAAAAAAA
24060873 GGAAAAAAAAAA
1 -G-AAAAAAAAA
*
24060885 GAAAATTAAAA
1 GAAAA-AAAAA
* *
24060896 GAACATAAAA
1 GAAAAAAAAA
24060906 GAAAAAAAA
1 GAAAAAAAA
24060915 TTAAATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.46
11 10 0.29
12 9 0.26
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:24063194 original size:28 final size:28
Alignment explanation
Indices: 24063149--24063214 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
24063139 GCATCTGATA
*
24063149 CTGATTCTG-TATTGGGCTTAGGCCCAC
1 CTGATTCTGTTATTGGGCTAAGGCCCAC
*
24063176 TTGATTCTGTTATTGGGCTAAGGCCCAC
1 CTGATTCTGTTATTGGGCTAAGGCCCAC
*
24063204 CTGATACTGTT
1 CTGATTCTGTT
24063215 TCTGTAATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (28 bp):
CTGATTCTGTTATTGGGCTAAGGCCCAC
Found at i:24069082 original size:27 final size:27
Alignment explanation
Indices: 24069052--24069229 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
24069042 ATATTGAGTC
* *
24069052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24069079 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24069106 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24069134 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
24069161 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24069188 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24069215 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24069230 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24077349 original size:27 final size:27
Alignment explanation
Indices: 24077159--24077336 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 27
24077149 ATATTGAGTC
* * * * *
24077159 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAAAT
* * *
24077186 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAAAT
*
24077213 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCAACATAGTCAAA-T
** * *
24077241 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAAAT
* * ***
24077268 CGCACACTTAGTGCATCATATTCGTTT
1 CGCACACTTAGTGCAACATAGTCAAAT
24077295 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAAAT
24077322 CGCACACTTAGTGCA
1 CGCACACTTAGTGCA
24077337 GTACAATTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAAAT
Found at i:24084019 original size:17 final size:17
Alignment explanation
Indices: 24083987--24084020 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24083977 TGAATGACAA
24083987 ACACATAAACCGAAAAC
1 ACACATAAACCGAAAAC
24084004 ACACGATAAACC-AAAAC
1 ACAC-ATAAACCGAAAAC
24084021 TACGCCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.29, G:0.06, T:0.06
Consensus pattern (17 bp):
ACACATAAACCGAAAAC
Found at i:24085397 original size:45 final size:45
Alignment explanation
Indices: 24085309--24085526 Score: 343
Period size: 45 Copynumber: 4.9 Consensus size: 45
24085299 CTAAATTCAT
24085309 TCACCGGCATT-TCA-CCTGCTAGGCTC-AAGGCCCGAATAATATC
1 TCACCGGCATTAT-AGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
24085352 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
24085397 TCACCTGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * *
24085442 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
24085487 TCACCGGCGTTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
24085527 GTACTGTACA
Statistics
Matches: 161, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
43 11 0.07
44 13 0.08
45 137 0.85
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:24093014 original size:30 final size:30
Alignment explanation
Indices: 24092978--24093037 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24092968 TTCCCGAGCC
*
24092978 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
24093008 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
24093038 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:24096197 original size:87 final size:90
Alignment explanation
Indices: 24096106--24096305 Score: 219
Period size: 90 Copynumber: 2.3 Consensus size: 90
24096096 GCATGCAGCC
* * * * *
24096106 TGCTAGGTTTAAAAACCCGAAT-TCAT-TC-ACTGGTATT-TTGCCTGCTAGGCTCAAAGGCTCG
1 TGCTAGGCTCAAAAACCCGAATATCATCTCTACT-GCATTATAGCCTGCTAGGCTCAAAGGCCCG
* *
24096167 AATATTATCTCACCGGCAGTATAGCT
65 AATAGTATCTCACCAGCAGTATAGCT
** * *
24096193 TGCTAGGCTCAAAGGCCCGAATATTATCTCTCCTGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 TGCTAGGCTCAAAAACCCGAATATCATCTCTACTGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
* *
24096258 ATAGTATCTCACCAGCATTATAGCC
66 ATAGTATCTCACCAGCAGTATAGCT
* **
24096283 TACTAGGCTCAAAGGCCCGAATA
1 TGCTAGGCTCAAAAACCCGAATA
24096306 GTACTGTACA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
87 18 0.19
88 3 0.03
89 6 0.06
90 68 0.72
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (90 bp):
TGCTAGGCTCAAAAACCCGAATATCATCTCTACTGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
ATAGTATCTCACCAGCAGTATAGCT
Found at i:24096199 original size:45 final size:45
Alignment explanation
Indices: 24096145--24096305 Score: 250
Period size: 45 Copynumber: 3.6 Consensus size: 45
24096135 CTGGTATTTT
* * *
24096145 GCCTGCTAGGCTCAAAGGCTCGAATATTATCTCACCGGCAGTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATATTATCTCACCAGCATTATA
* * *
24096190 GCTTGCTAGGCTCAAAGGCCCGAATATTATCTCTCCTGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATATTATCTCACCAGCATTATA
*
24096235 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATATTATCTCACCAGCATTATA
*
24096280 GCCTACTAGGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
24096306 GTACTGTACA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 106 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATATTATCTCACCAGCATTATA
Found at i:24104704 original size:49 final size:47
Alignment explanation
Indices: 24104390--24104841 Score: 683
Period size: 47 Copynumber: 9.6 Consensus size: 47
24104380 CCCTTCGGGA
* * * * ** *
24104390 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCCCTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24104436 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
24104484 CTCATCACATATATACACTTTCACATTCATCACATCGGCTGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24104531 CTTATCACATATATACACTTTCACA-TCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24104577 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24104624 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24104671 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24104720 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24104769 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24104816 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
24104842 CACAATTATC
Statistics
Matches: 375, Mismatches: 26, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
46 45 0.12
47 234 0.62
48 2 0.01
49 94 0.25
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24132615 original size:43 final size:43
Alignment explanation
Indices: 24132563--24132711 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 43
24132553 TTTTTTGAAA
* *
24132563 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCAC
* * * * * ** *
24132606 AAATGCCGCTAAAGACTAAGACTTTTAGCGGCGC-TTTTAAAA
1 AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCAC
*
24132648 AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCTC
1 AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCAC
24132691 AAACGCCGCTAAAAACCATGA
1 AAACGCCGCTAAAAACCATGA
24132712 TCTTAAAAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 33 0.38
43 55 0.62
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:24132675 original size:42 final size:43
Alignment explanation
Indices: 24132543--24132711 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
24132533 GCTGCAAAAA
* * *
24132543 TTAGTGGCGATTTTTTGAAAAAACGCCGCTAAAGACCATGACCT
1 TTAGCGGCGCTTTTTT-AAAAAACGCCGCTAAAAACCATGACCT
*** * * * * *
24132587 TTAGCGGCGCTTTTTTCGCAAATGCCGCTAAAGACTAAGACTT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCATGACCT
*
24132630 TTAGCGGCGC-TTTTAAAAAAACGCCGCTAAAAACCATGACCT
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCATGACCT
***
24132672 TTAGCGGCGCTTTTTTCTCAAACGCCGCTAAAAACCATGA
1 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCATGA
24132712 TCTTAAAAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
42 33 0.32
43 55 0.54
44 14 0.14
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCATGACCT
Found at i:24133052 original size:17 final size:18
Alignment explanation
Indices: 24133025--24133058 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24133015 ATGCCAAAAT
24133025 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
24133043 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
24133059 CCCACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:24134371 original size:20 final size:20
Alignment explanation
Indices: 24134346--24134386 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24134336 CAGGACAGAT
24134346 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
24134366 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
24134386 A
1 A
24134387 TTTATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (20 bp):
AGCAAAATTTTACCAATAAG
Found at i:24136945 original size:22 final size:21
Alignment explanation
Indices: 24136919--24136980 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
24136909 CATAAACACT
*
24136919 AACCCTTAAACCTTTAACCCC
1 AACCCTTAAACCTTAAACCCC
* *
24136940 AAACCCTTACACCTTAAACTCC
1 -AACCCTTAAACCTTAAACCCC
* *
24136962 AACCC-TAACCCCTAAACCC
1 AACCCTTAAACCTTAAACCC
24136981 ATAATTCATC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 10 0.30
21 5 0.15
22 18 0.55
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTTAAACCTTAAACCCC
Found at i:24137047 original size:21 final size:22
Alignment explanation
Indices: 24137023--24137103 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
24137013 ACTCCTAAAC
24137023 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * *
24137044 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
24137069 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
24137090 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
24137104 CTTAAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:24137060 original size:46 final size:46
Alignment explanation
Indices: 24137007--24137097 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
24136997 CTTCAAATAC
*
24137007 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAAACCA
24137053 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
24137098 CTAAACCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACCA
Found at i:24137154 original size:25 final size:25
Alignment explanation
Indices: 24137120--24137169 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24137110 CTATAATGAT
24137120 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
24137145 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
24137170 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:24137392 original size:40 final size:41
Alignment explanation
Indices: 24137298--24137445 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
24137288 GTTATATGAC
* * *
24137298 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
24137339 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
24137379 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* *
24137420 TTTCAGCGGCGTTTTGCCAAGAGCGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGC
24137446 TCTGTTTTTA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 38 0.39
41 59 0.61
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:24145962 original size:16 final size:16
Alignment explanation
Indices: 24145923--24145964 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24145913 AAGGAAGATA
*
24145923 TTATTTTATTTTTGTT
1 TTATTTTATTTTTATT
24145939 TT-TATTTATTTTTATT
1 TTAT-TTTATTTTTATT
24145955 TTATTTTATT
1 TTATTTTATT
24145965 ATTAAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:24154713 original size:21 final size:21
Alignment explanation
Indices: 24154689--24154732 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24154679 CTTTTATGTC
*
24154689 TTATTCTAAGAAAATATTCTT
1 TTATCCTAAGAAAATATTCTT
* *
24154710 TTATCCTGAGCAAATATTCTT
1 TTATCCTAAGAAAATATTCTT
24154731 TT
1 TT
24154733 CTTGCATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TTATCCTAAGAAAATATTCTT
Found at i:24160940 original size:44 final size:43
Alignment explanation
Indices: 24160803--24161141 Score: 182
Period size: 44 Copynumber: 7.7 Consensus size: 43
24160793 AAATTGCAGA
* * * *
24160803 TCTTATCTCCCT-AAGTAGTAGTGGAGCAGATCAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGTTC-AAGATA-CAAG
* * ** * * * ** *
24160847 TCTTATCTCCATGTAGCGGCAATGGACCAGATTTAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-TTCAAGATACAAG
*
24160891 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTCAAGATACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGTTCAAGATACAAG
* * * * *
24160935 TCTTATCTCCTTGAAGTTACAGTGGAGCAGACTGAAAATTAC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-TTCAAGA-TACAAG
* ** * * **
24160979 ATTTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGTGAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGTTC-AAGAT--ACAAG
* * ** * * * *
24161024 TCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCTACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-TTCAAGATACAAG
* * *
24161068 CCTTATCTCCCTGAAGTTACAGTGGAGCAAGTTCAAGAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGTTCAAGATACAAG
* *
24161112 TCTTATCTCCCTGAAGTTGCAATAGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
24161142 GCTAAAAATT
Statistics
Matches: 213, Mismatches: 68, Indels: 29
0.69 0.22 0.09
Matches are distributed among these distances:
43 7 0.03
44 154 0.72
45 49 0.23
46 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGTTCAAGATACAAG
Done.