Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 637 of 770
Found at i:199887314 original size:2 final size:2
Alignment explanation
Indices: 199887307--199887345 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
199887297 GCCCATTTTG
199887307 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
199887346 GGGTAAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:199891013 original size:40 final size:40
Alignment explanation
Indices: 199890968--199891135 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
199890958 CGGAATATAA
199890968 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
199891008 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
199891048 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
199891088 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
199891128 CCGGATAT
1 CCGGATAT
199891136 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:199908093 original size:42 final size:42
Alignment explanation
Indices: 199907978--199908112 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 42
199907968 CATAGGGTTC
* *
199907978 CGATATG-TGTTATCGTGTAAGACCACGTCTGAGAC-GTTGGCAT
1 CGATATGAT-TTA-CGTGTAAGACCATGTCTGGGACAG-TGGCAT
* * *
199908021 TGATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA--TATGATTTACGTGTAAGACCATGTCTGGGACAGTGGCAT
199908065 CGTATATGATTT-CGTGTAAGA-CATTGTCTGGGACAGTGGCAT
1 CG-ATATGATTTACGTGTAAGACCA-TGTCTGGGACAGTGGCAT
199908107 CGATAT
1 CGATAT
199908113 TTGATCACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
41 6 0.08
42 28 0.36
43 9 0.12
44 27 0.35
45 7 0.09
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
CGATATGATTTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:199908141 original size:43 final size:43
Alignment explanation
Indices: 199907978--199908149 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
199907968 CATAGGGTTC
* *
199907978 CGATATGTG-TTATCGTGTAAGACCACGTCTGAGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
199908021 TGAT-TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
199908065 CG-TATATGATTTCGTGTAAGA-CATTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCA-CGTCTGGGAC-GTTGGCAT
* * *
199908107 CGATATTTGATCACATATAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
199908150 TGTACAAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 31 0.30
43 38 0.36
44 31 0.30
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:199909769 original size:46 final size:46
Alignment explanation
Indices: 199909702--199909794 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
199909692 TATGGTTGGG
*
199909702 GATTACCTGCATTGATGAAAATAGGGGATGAGTTTGGGGAAACTCA
1 GATTACCTGCATGGATGAAAATAGGGGATGAGTTTGGGGAAACTCA
199909748 GATTACCTGCATGGATGAAAATAGGGGATGAGTTTGGGGAAACTCA
1 GATTACCTGCATGGATGAAAATAGGGGATGAGTTTGGGGAAACTCA
199909794 G
1 G
199909795 TGTGTAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (46 bp):
GATTACCTGCATGGATGAAAATAGGGGATGAGTTTGGGGAAACTCA
Found at i:199910086 original size:27 final size:27
Alignment explanation
Indices: 199910055--199910134 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
199910045 CTGCCAGAAT
* *
199910055 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
* *
199910082 AGATAATCGTGGTAGAGCCACTAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
199910109 AGATATATGTGGCAGAGCCACCAGAT
1 AGATA-ATGTGGCAGAGCCACCAGAT
199910135 CAGCATTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 29 0.66
28 15 0.34
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:199910151 original size:8 final size:8
Alignment explanation
Indices: 199910134--199910175 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
199910124 AGCCACCAGA
199910134 TCAGCATT
1 TCAGCATT
*
199910142 TCAGCGTT
1 TCAGCATT
199910150 TCAGCATT
1 TCAGCATT
199910158 TCAGCATT
1 TCAGCATT
*
199910166 TCAGCTTT
1 TCAGCATT
199910174 TC
1 TC
199910176 GACTTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (8 bp):
TCAGCATT
Found at i:199917480 original size:45 final size:45
Alignment explanation
Indices: 199917416--199917589 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
199917406 TGTAACCCGC
* *
199917416 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
*
199917461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * *
199917511 -C-TCAA--GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
199917554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
199917590 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 4 0.04
45 35 0.32
46 27 0.25
47 28 0.25
48 2 0.02
49 3 0.03
50 6 0.05
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:199917582 original size:93 final size:92
Alignment explanation
Indices: 199917424--199917593 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
199917414 GCCCATAAGC
* * *
199917424 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
199917489 GAGTTCGGATGCCTAGTTACATCTCAA
66 GAGTTCGGATGCCTAGTTACATCTCAA
*
199917516 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
199917581 CGAGTTCGGATGC
65 CGAGTTCGGATGC
199917594 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 29 0.40
93 44 0.60
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAA
Found at i:199920268 original size:28 final size:26
Alignment explanation
Indices: 199920213--199920325 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
199920203 AGCATGGCTG
* *
199920213 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
199920239 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
199920267 CCAGAACAGATATATGTGGCAGACCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
199920294 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
199920322 CCAG
1 CCAG
199920326 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.50
28 32 0.42
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:199920298 original size:55 final size:54
Alignment explanation
Indices: 199920213--199920325 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
199920203 AGCATGGCTG
**
199920213 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGACCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
199920267 CCAGAACAGATATATGTGGCAGACCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGACCCACCAGATCAGATAATTCGTGGCAGAGCCA
199920322 CCAG
1 CCAG
199920326 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGACCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:199926258 original size:759 final size:757
Alignment explanation
Indices: 199924803--199927402 Score: 3490
Period size: 759 Copynumber: 3.5 Consensus size: 757
199924793 GATGTTACAC
* * *
199924803 GTGTCTTGTGGCCGTGTGGATAAGTGAGTATGTATGCCCTGTTTTGCCACGGCCTAGACACACGG
1 GTGTCTTGTGGCCGTGTGGATAAGTTAGTATGTATGCCCTATTTCGCCACGGCCTAGACACACGG
* * * *
199924868 GCGTGTCTAATGCCGTGTGAGGCACA-AGGTCTGCTCACACGGGCATGTGATATTTGTAGCTTAG
66 GAGTGTCTAATGCCGTGTGAGGCACACA-GTCTGCTCACACGGGCGTGTGATCTTTGTAACTTAG
*
199924932 AAAAATTGTTAAGTTTC-GAAAAAATTTTGT-TGTGTTCGGTTTAGTCCCGA-CTCTTCCTAATG
130 AAAAATTGTTAAGTTTCAGAAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAATG
* * **
199924994 CATGTTTATGGTCTCATTGACCTAAGGAAGGGACTTAATGTAAATGTTTGACTATGATATGATGA
195 CATGTTTATGGTCTCATTGACCTAAGAAAGGGACTTAATGTTAATGTTTGACTATGATATGACAA
* * *
199925059 TACATGACTATTGATTTTGAAATGATTACGAAATGTTTCGATATGTCCGTTAATGCCTCTTAACC
260 TACATGACTATTGATTGTGAAATGATTGCGAAATGTTTCGATATGTCCGGTAATGCCTCTTAACC
*
199925124 CTAGTCCGACGATGGATA-----T---GG---TATATGTATCTGGCCAAGTGAAATGGTCATTTT
325 CTAGT-CTACGATGGATACGGGTTAGGGGTAATATATGTATCTGGCCAAGTGAAATGGTCATTTT
**
199925178 GGTATGTCCATAGTTTA-GAATTTGGTAATGTTTATAATGTGATTTTAATATGCTTTGATATAGA
389 GGTATGTCCATAG-TTAGGAATTTGGTAATGTTTAGCATGTGATTTTAATATGCTTTGATATAGA
*
199925242 GAATGAGCACGAAATTTC-TTGATGATATTATGAATTGATTGATACATGTTT-GAGGTTGAATTT
453 GAATGAGCATGAAA-TTCGTTGATGATATTATGAATTGATTGATACATGTTTGGA-GTTGAATTT
*
199925305 GGCTGAAAATGTTGCATATATGATGCTTGATTTTGGAATTGTAGGGAGGATCCAAATGGGTGGCA
516 GGCTGAAAATGTTGCATATATGATGCTTGATTTTGGAATTGTAGGGAGGACCCAAATGGGTGGCA
* * * * * *
199925370 TATTGTCCTTTTAAATGGCCTATTTTTGACCACACAGGCAAGGACACAGGCGTATGTCTCTGTCG
581 TATTGGCCTTGTAAATGGCCTATTTTTGCCCACAC-GGGAAGGACACGGGCGTGTGTCTCTGTCG
* *
199925435 TGTTGC-CGAGGGCCATCTCGAAATGA-CTCTTGGTAGACCACACAGT-CGAACACGCACTAGCG
645 TGTTGCTCGAGGGCCATTTCGAAATGAGCT-TGGGTAGACCACAC-GTGCGAACA--CAC-AGCG
* * *
199925497 TGTGCCAGGCTGTGTGGCCAAGTAAGTTTTGACCACGGGCTAGACACACGGGT
705 TGTGCCAGGCTATGTGGCCAAGTCAGTTTCGACCACGGGCTAGACACACGGGT
* *
199925550 GTGTCTTGTGGCCATGTGGAT-AG-TAGTATGTATGCCCTGTTTCGCCACGGCCTAGACACACGG
1 GTGTCTTGTGGCCGTGTGGATAAGTTAGTATGTATGCCCTATTTCGCCACGGCCTAGACACACGG
*
199925613 GAGTGTCTAATGCCGTGTGAGGCACACAGTCTGCTCACACGGGCGTGTGATCTTTGTAGCTTAGA
66 GAGTGTCTAATGCCGTGTGAGGCACACAGTCTGCTCACACGGGCGTGTGATCTTTGTAACTTAGA
* * * * ** *
199925678 AAAATGGTTAAGTTTCAG-AAAAATTTTGTCTGTGTTCTGTTTAGTCCTAACCTCTTCCTAATAC
131 AAAATTGTTAAGTTTCAGAAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAATGC
*
199925742 ATGTTTATGGTCTCATTGACCTAAGAAATGGACTTAATGTTAAAT-TTTGACTATGATATGACAA
196 ATGTTTATGGTCTCATTGACCTAAGAAAGGGACTTAATGTT-AATGTTTGACTATGATATGACAA
* *
199925806 TACATGACTATTGATTGTGAAATGATTGCGAAATG-TTCTGATATGCCCTGTAATGCCTCTTAAC
260 TACATGACTATTGATTGTGAAATGATTGCGAAATGTTTC-GATATGTCCGGTAATGCCTCTTAAC
*
199925870 CCTAGTCTGATGATGGATACGGGTTAGGGGTACATATATGTATCTGGCCAAGTGAAATGGTCATT
324 CCTAGTCT-ACGATGGATACGGGTTAGGGGTA-ATATATGTATCTGGCCAAGTGAAATGGTCATT
* * *
199925935 TTGGTATGTCCATAGTTGGGAATTTGGTAATGTTTAGCATTTGATTTTAATATACTTTGATATAG
387 TTGGTATGTCCATAGTTAGGAATTTGGTAATGTTTAGCATGTGATTTTAATATGCTTTGATATAG
*
199926000 AGAATGAGCATGAAATTGGTTGATGATATTATGAATTGATTGATACATGTTTGGAGTTGAATTTG
452 AGAATGAGCATGAAATTCGTTGATGATATTATGAATTGATTGATACATGTTTGGAGTTGAATTTG
199926065 GCTGAAAATGTCT-CATATATGATGCTTG-TTTTGGAATTGTAGGGAGGACCCAAATGGGTGGCA
517 GCTGAAAATGT-TGCATATATGATGCTTGATTTTGGAATTGTAGGGAGGACCCAAATGGGTGGCA
* * * * * * *
199926128 TATTGGCCTAGTAAATAGCCTATTTTTGCCCGCACGGGTAGCGGCACGGGCATGTGTCTCGGTCG
581 TATTGGCCTTGTAAATGGCCTATTTTTGCCCACACGGGAAG-GACACGGGCGTGTGTCTCTGTCG
* *
199926193 TGTTGCTCGAGGGCCATTTTGTAATGAGCTTGGGTAGACCACACGGTTGCGAACACACAAGCGTG
645 TGTTGCTCGAGGGCCATTTCGAAATGAGCTTGGGTAGACCACAC-G-TGCGAACACAC-AGCGTG
* * * *
199926258 TGCCAGGCTCTTTGGCAAAGTCAGTTTCGACCACGGGCTAGACACAC-TG-
707 TGCCAGGCTATGTGGCCAAGTCAGTTTCGACCACGGGCTAGACACACGGGT
* * *
199926307 GTGTCTTGTGGGCCGTGTGGATAAGTTAGTATGCATGCCCTATTTCGCCACAGCCTAGACACATG
1 GTGTCTTGT-GGCCGTGTGGATAAGTTAGTATGTATGCCCTATTTCGCCACGGCCTAGACACACG
* * * * *
199926372 GGCGTGTCCAATGCCGTGTAAGGCACAC-GATTTGGC-CACATGGGCGTGTGATCTTTGTAACTT
65 GGAGTGTCTAATGCCGTGTGAGGCACACAG-TCT-GCTCACACGGGCGTGTGATCTTTGTAACTT
*
199926435 AGAAAAATTGTTATGTTTC--AAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAA
128 AGAAAAATTGTTAAGTTTCAGAAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAA
* * *
199926498 TGCATGTTTATGGTCTCATTGACCTAAGGAAGGGACTTAATATTGATGTTTGACTATGATATGAC
193 TGCATGTTTATGGTCTCATTGACCTAAGAAAGGGACTTAATGTTAATGTTTGACTATGATATGAC
** * * * *
199926563 AATGGATGACT-TTCGATTGTGAAATGATTGCAAAATGTTCCAATATGTCCGGTAATGCCTCTTT
258 AATACATGACTATT-GATTGTGAAATGATTGCGAAATGTTTCGATATGTCCGGTAATGCCTCTTA
*
199926627 ACCCTAGTCTAGCGATGGATACGGGTTAGGGGTATATATATGTATATGGCCAAGTGAAATGGTCA
322 ACCCTAGTCTA-CGATGGATACGGGTTAGGGGTA-ATATATGTATCTGGCCAAGTGAAATGGTCA
* * * *
199926692 GTTTAGTATGTTCATAGCTAGGAATTTGGTAATGTTTAGCATGTGATTTTAATATGCTTTGATAT
385 TTTTGGTATGTCCATAGTTAGGAATTTGGTAATGTTTAGCATGTGATTTTAATATGCTTTGATAT
* * * *
199926757 A-TGATTGAGCATGAAATTCGTTGGTGATATTATGAATTGATTGATACATGTTTGGAGTTGAGTT
450 AGAGAATGAGCATGAAATTCGTTGATGATATTATGAATTGATTGATACATGTTTGGAGTTGAATT
* * *
199926821 TGGCTGAAAATGTTGCATATATGATGCCTGATTTTGGAGTTGCAGGGAGGACCCAAATGGGTGGC
515 TGGCTGAAAATGTTGCATATATGATGCTTGATTTTGGAATTGTAGGGAGGACCCAAATGGGTGGC
* * * *
199926886 ATATTGGCCTTGTAAATGGTCTATTTTTACCCACAC-GGCAGTGACATGGGCGTGTGTCTCTGTC
580 ATATTGGCCTTGTAAATGGCCTATTTTTGCCCACACGGGAAG-GACACGGGCGTGTGTCTCTGTC
* * *
199926950 GTGTTGCTCGAGGGCCATTTCGGAATGAGCCTGGGCAGA-CACAC--G-G--------GCGTGTG
644 GTGTTGCTCGAGGGCCATTTCGAAATGAGCTTGGGTAGACCACACGTGCGAACACACAGCGTGTG
* *
199927003 CCAGGCTATGTGGCCAAGTCAGTTCCAACCACGGGCTAGACACACGGCGT
709 CCAGGCTATGTGGCCAAGTCAGTTTCGACCACGGGCTAGACACACGG-GT
* * *
199927053 GTG--TTGTGGCCGTGTGGATAAGTTAGTATGTATTCCCTATTTCACCACGGCCTAGACACATGG
1 GTGTCTTGTGGCCGTGTGGATAAGTTAGTATGTATGCCCTATTTCGCCACGGCCTAGACACACGG
* * * *
199927116 GAGTGTCTAATGTCGTGTGAGGGACACGGTCTGCTCACATGGGCGTGTGA-CTTTGTAACTTAGA
66 GAGTGTCTAATGCCGTGTGAGGCACACAGTCTGCTCACACGGGCGTGTGATCTTTGTAACTTAGA
199927180 AAAATTGTTAAGTTTCAGAAAAAAATTT-TATGTGTTCGGTTTAGTCCCGACCTCTTCCTAATGC
131 AAAATTGTTAAGTTTCAGAAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAATGC
* * * **
199927244 AAGTTTATGGTCTCATTGACCTAAGAAAGGGTCTTAATGTTAATGTTTGACTATGATAAGATGAT
196 ATGTTTATGGTCTCATTGACCTAAGAAAGGGACTTAATGTTAATGTTTGACTATGATATGACAAT
* * * * *
199927309 GCATGACTTTTGATTGTGAAATGGTTGCGAAATGTTTCGATATGTCCGGTAATGCTTCTTAACCT
261 ACATGACTATTGATTGTGAAATGATTGCGAAATGTTTCGATATGTCCGGTAATGCCTCTTAACCC
199927374 TAGTAC-ATCGATGGATACGGGTTAGGGGT
326 TAGT-CTA-CGATGGATACGGGTTAGGGGT
199927403 GTTACATTTG
Statistics
Matches: 1650, Mismatches: 154, Indels: 102
0.87 0.08 0.05
Matches are distributed among these distances:
742 31 0.02
743 311 0.19
744 18 0.01
745 125 0.08
746 28 0.02
747 157 0.10
748 3 0.00
752 2 0.00
753 1 0.00
755 2 0.00
757 19 0.01
758 250 0.15
759 583 0.35
760 112 0.07
761 8 0.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (757 bp):
GTGTCTTGTGGCCGTGTGGATAAGTTAGTATGTATGCCCTATTTCGCCACGGCCTAGACACACGG
GAGTGTCTAATGCCGTGTGAGGCACACAGTCTGCTCACACGGGCGTGTGATCTTTGTAACTTAGA
AAAATTGTTAAGTTTCAGAAAAAAATTTGTATGTGTTCGGTTTAGTCCCGACCTCTTCCTAATGC
ATGTTTATGGTCTCATTGACCTAAGAAAGGGACTTAATGTTAATGTTTGACTATGATATGACAAT
ACATGACTATTGATTGTGAAATGATTGCGAAATGTTTCGATATGTCCGGTAATGCCTCTTAACCC
TAGTCTACGATGGATACGGGTTAGGGGTAATATATGTATCTGGCCAAGTGAAATGGTCATTTTGG
TATGTCCATAGTTAGGAATTTGGTAATGTTTAGCATGTGATTTTAATATGCTTTGATATAGAGAA
TGAGCATGAAATTCGTTGATGATATTATGAATTGATTGATACATGTTTGGAGTTGAATTTGGCTG
AAAATGTTGCATATATGATGCTTGATTTTGGAATTGTAGGGAGGACCCAAATGGGTGGCATATTG
GCCTTGTAAATGGCCTATTTTTGCCCACACGGGAAGGACACGGGCGTGTGTCTCTGTCGTGTTGC
TCGAGGGCCATTTCGAAATGAGCTTGGGTAGACCACACGTGCGAACACACAGCGTGTGCCAGGCT
ATGTGGCCAAGTCAGTTTCGACCACGGGCTAGACACACGGGT
Found at i:199931495 original size:27 final size:27
Alignment explanation
Indices: 199931441--199931551 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
199931431 AGCATGGCTG
* *
199931441 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
199931467 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
199931494 CCAGAACAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * * *
199931521 CCAGATCAAATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
199931548 CCAG
1 CCAG
199931552 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 13 0.18
27 61 0.82
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:199932986 original size:25 final size:26
Alignment explanation
Indices: 199932953--199933003 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
199932943 AACTCTTGCT
*
199932953 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTTGATCAGCTCCTAAATCATCTCC
199932979 CCTT-ATCAGCTCCTAAATCATCTCC
1 CCTTGATCAGCTCCTAAATCATCTCC
199933004 TTTATCCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.22, C:0.39, G:0.06, T:0.33
Consensus pattern (26 bp):
CCTTGATCAGCTCCTAAATCATCTCC
Found at i:199936678 original size:40 final size:40
Alignment explanation
Indices: 199936622--199936789 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
199936612 CAATTGAATG
* * *
199936622 ATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
199936663 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
199936702 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
199936742 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
199936782 ATATCCGG
1 ATATCCGG
199936790 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:199936755 original size:80 final size:79
Alignment explanation
Indices: 199936622--199936789 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
199936612 CAATTGAATG
* * *
199936622 ATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
199936687 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
199936702 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
199936766 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
199936782 ATATCCGG
1 ATATCCGG
199936790 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:199944734 original size:42 final size:39
Alignment explanation
Indices: 199944588--199944757 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 39
199944578 CAATTGAATG
* *
199944588 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG--TT
*
199944629 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* *
199944668 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
*
199944708 ATAT-CGGGCTAAGAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCT---AAGACCCGAAGGCATTCGTGCGAGT-GTT
199944750 ATATCCGG
1 ATATCCGG
199944758 TTGTATTCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
39 12 0.11
40 66 0.59
41 2 0.02
42 29 0.26
43 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Found at i:199944751 original size:82 final size:79
Alignment explanation
Indices: 199944588--199944757 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 79
199944578 CAATTGAATG
* *
199944588 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
199944653 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
199944668 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATAT-CGGGCTAAGAAGACCCGAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCT---AAGACCCGAA
**
199944731 GGCATTCGTGCGTGTGGTT
61 GGCATTCGTGCAAGTGGTT
199944750 ATATCCGG
1 ATATCCGG
199944758 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
79 8 0.10
80 35 0.45
81 1 0.01
82 34 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:199952156 original size:2 final size:2
Alignment explanation
Indices: 199952149--199952175 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
199952139 TTCAGCCTAT
199952149 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
199952176 GTTGAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:199955408 original size:21 final size:20
Alignment explanation
Indices: 199955379--199955417 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
199955369 TCTTGAAATA
199955379 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
*
199955399 GGGCAACACGCCTGTGTGG
1 GGGC-ACACGCCCGTGTGG
199955418 TTATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.28, G:0.41, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:199956482 original size:68 final size:69
Alignment explanation
Indices: 199956410--199956607 Score: 274
Period size: 71 Copynumber: 2.8 Consensus size: 69
199956400 ACACCCTGTA
* * * * *
199956410 GTAGCTAGGTCACATGTGTGAT-ATGAGATGTATC-CCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCGCATGCGTGATCAAGAGAAGGA-CACCATGTAGACAAGAGAGCTACGTGAAAGA
199956473 TAAAT
65 TAAAT
*
199956478 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGA-T-CAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
199956543 ATAAAT
64 ATAAAT
*
199956549 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGA-T-CAAGAGAAGGACACCATGTAGACAAGAGAGCTACG
199956608 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 19 0.16
69 1 0.01
70 1 0.01
71 99 0.82
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (69 bp):
GTAGCTAGGTCGCATGCGTGATCAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGAT
AAAT
Found at i:199956521 original size:41 final size:41
Alignment explanation
Indices: 199956476--199956593 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
199956466 TGAAAGATAA
199956476 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
199956517 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199956547 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199956588 ATGTAG
1 ATGTAG
199956594 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:199956532 original size:71 final size:71
Alignment explanation
Indices: 199956444--199956607 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
199956434 GAGATGTATC
199956444 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199956509 AGGACA
66 AGGACA
199956515 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199956580 AGGACA
66 AGGACA
199956586 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
199956608 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:199959774 original size:30 final size:30
Alignment explanation
Indices: 199959740--199959798 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
199959730 TCTCGAGCCC
*
199959740 AGGGGCAAAAGTGTAATTATGCAAAAGTTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTTT
* *
199959770 AGGGGCAAAAATGTAATTTTGTAAAAGTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTT
199959799 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
AGGGGCAAAAATGTAATTATGCAAAAGTTT
Found at i:199962467 original size:29 final size:29
Alignment explanation
Indices: 199962425--199962537 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
199962415 GTATGAATAT
*
199962425 AATATGATTTGGGCCTAATGGGCCATATA-
1 AATATGAATTGGGCCTAATGGGCCATA-AG
* *
199962454 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATGGGCCATAAG
* **
199962483 AATATGAACTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTA-ATGGGCCATAAG
* * *
199962512 AATAAG-ATTGGGCCTAGTAGGCCATA
1 AATATGAATTGGGCCTAATGGGCCATA
199962538 TGCATGTATG
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.24
29 52 0.76
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATAAG
Found at i:199962488 original size:58 final size:57
Alignment explanation
Indices: 199962425--199962537 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
199962415 GTATGAATAT
** ** *
199962425 AATATGATTTGGGCCTA-ATGGGCCATATAAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATAAATAAG-ATTGGGCCTAGTAGGCCATAAG
* *
199962483 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATAAATAAGATTGGGCCTAGTAGGCCATA
199962538 TGCATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATAAATAAGATTGGGCCTAGTAGGCCATAAG
Found at i:199965768 original size:40 final size:40
Alignment explanation
Indices: 199965723--199965889 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
199965713 CGGAATATAA
199965723 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
199965763 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
199965803 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
199965843 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
199965882 CCGGATAT
1 CCGGATAT
199965890 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:199965873 original size:80 final size:79
Alignment explanation
Indices: 199965739--199965889 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
199965729 ATAATCACGT
*
199965739 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
199965804 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
199965819 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
199965882 CCGGATAT
64 CCGGATAT
199965890 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:199973778 original size:40 final size:40
Alignment explanation
Indices: 199973733--199973899 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
199973723 CGGAATATAA
199973733 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
199973773 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
199973813 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
199973853 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
199973892 CCGGATAT
1 CCGGATAT
199973900 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:199973883 original size:80 final size:79
Alignment explanation
Indices: 199973749--199973899 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
199973739 ATAATCACGT
*
199973749 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
199973814 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
199973829 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
199973892 CCGGATAT
64 CCGGATAT
199973900 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:199975157 original size:56 final size:53
Alignment explanation
Indices: 199975094--199975202 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
199975084 CCCCCTTTTC
199975094 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
199975150 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
199975203 TTTTTTTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:199975832 original size:93 final size:93
Alignment explanation
Indices: 199975720--199975890 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
199975710 GCCCATAAGT
* * *
199975720 GAACTCGGACTCAACTCAACGAGTTTGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
199975785 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** *
199975813 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
199975878 CGAGTTCGGATGC
66 CGAGTTCGGATGC
199975891 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:199975887 original size:46 final size:46
Alignment explanation
Indices: 199975712--199975887 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
199975702 TGTAACCTGC
* * * *
199975712 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* *
199975758 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* * *
199975808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
199975851 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
199975888 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:199980977 original size:39 final size:39
Alignment explanation
Indices: 199980929--199981081 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
199980919 GAATGTTCGA
199980929 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
199980968 GTGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
199981007 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
199981046 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
199981082 GGTTACCATA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:199988079 original size:39 final size:39
Alignment explanation
Indices: 199988032--199988214 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
199988022 AATGTTCGAG
199988032 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
199988071 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
199988110 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
199988149 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
199988189 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
199988215 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:199995194 original size:37 final size:38
Alignment explanation
Indices: 199995136--199995285 Score: 214
Period size: 39 Copynumber: 3.9 Consensus size: 38
199995126 GAATGTTCGA
199995136 GTGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
199995173 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA-TT
* *
199995211 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-GATT
* **
199995250 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
199995286 GGTTACCATA
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
36 10 0.10
37 24 0.24
38 7 0.07
39 44 0.44
40 16 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (38 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
Found at i:199995233 original size:39 final size:39
Alignment explanation
Indices: 199995137--199995316 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
199995127 AATGTTCGAG
*
199995137 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGA-TTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
199995174 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
199995212 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
199995251 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
199995291 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
199995317 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
36 10 0.08
37 23 0.19
38 7 0.06
39 45 0.37
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:199995301 original size:79 final size:76
Alignment explanation
Indices: 199995143--199995316 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 76
199995133 CGAGTGATAT
*
199995143 CCGGGCTAAG-CCGAAGGCAATTGTGCGATTGTGATACCGGGCTAAGCCCGAAGGCAATTGTGCG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATACCGGGCTAAGCCCGAAGGCAATTGTGCG
** *
199995207 AGTTATGATAT
66 AGTTACCATAA
* **
199995218 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGCCTTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGATA-CCGGGCTAAG-CCCGAAGGCAATTGT
*
199995283 GCGGGTTACCATAA
63 GCGAGTTACCATAA
*
199995297 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAG-CCCGAAGGC
199995317 GTTTGAACGA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 10 0.12
76 16 0.19
77 9 0.11
78 9 0.11
79 32 0.38
80 9 0.11
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (76 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCAATTGTGATACCGGGCTAAGCCCGAAGGCAATTGTGCG
AGTTACCATAA
Found at i:200002477 original size:29 final size:29
Alignment explanation
Indices: 200002417--200002491 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
200002407 TGTGTAGAGT
* * *
200002417 TCGCACACATAGTGCCATATAGTCCAAAC
1 TCGCACACTTAGTGCCATACAGTACAAAC
* * *
200002446 TCGCACACTTAGTGCCGTACATTACAAGC
1 TCGCACACTTAGTGCCATACAGTACAAAC
*
200002475 TCGCACACTCAGTGCCA
1 TCGCACACTTAGTGCCA
200002492 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.21
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATACAGTACAAAC
Found at i:200009647 original size:53 final size:53
Alignment explanation
Indices: 200009506--200009656 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
200009496 ACAAGTGTGC
* **
200009506 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
200009559 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
200009612 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
200009657 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:200013843 original size:28 final size:28
Alignment explanation
Indices: 200013790--200013873 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
200013780 CACTTTGTGC
200013790 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
200013819 TATTCTAGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
200013847 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
200013874 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:200014115 original size:22 final size:23
Alignment explanation
Indices: 200014078--200014122 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
200014068 GCTTTACTGA
200014078 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
200014101 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
200014123 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:200027779 original size:17 final size:16
Alignment explanation
Indices: 200027747--200027791 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
200027737 AGCAGTGAAG
*
200027747 GAAAAAAAGAACGGCA
1 GAAAAAAAGAAAGGCA
*
200027763 GAGAAAAACGAAAGGCA
1 GA-AAAAAAGAAAGGCA
200027780 GAAAAAAAGAAA
1 GAAAAAAAGAAA
200027792 TTGTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.67, C:0.09, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAAAGGCA
Found at i:200032171 original size:40 final size:40
Alignment explanation
Indices: 200032094--200032311 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
200032084 AAACCAAGTA
* *
200032094 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
200032133 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
200032173 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
200032213 CCTTCGGGACTTAGCCAGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
200032253 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
200032293 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
200032312 TTATCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:200034385 original size:45 final size:45
Alignment explanation
Indices: 200034321--200034494 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
200034311 ATGTAACCGC
200034321 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
*
200034366 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCAT
* * * *
200034416 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCAT
*
200034459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
200034495 ATGCCCAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
45 36 0.32
46 27 0.24
47 27 0.24
48 1 0.01
50 9 0.08
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
Found at i:200034488 original size:93 final size:92
Alignment explanation
Indices: 200034330--200034499 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
200034320 CCCATAAGTG
* *
200034330 AACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 AACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAACG
200034395 AGCTCGGATGCCTAGTTACATCTCTCA
66 AGCTCGGATGCCTAGTTACATCTCTCA
*
200034422 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAAC
*
200034487 GAGTTCGGATGCC
65 GAGCTCGGATGCC
200034500 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 29 0.40
93 44 0.60
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTCA
Found at i:200036914 original size:15 final size:15
Alignment explanation
Indices: 200036861--200036934 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 15
200036851 CAAAGATAAC
*
200036861 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
200036875 AAGAAATCCA-AGAT-
1 AAGAAATCCAGA-ATA
* *
200036889 AGGAAACCCAGAATA
1 AAGAAATCCAGAATA
200036904 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
200036919 AA-AGATCCAGGATA
1 AAGAAATCCAGAATA
200036933 AA
1 AA
200036935 AAACCCAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 31 0.63
15 18 0.37
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:200036928 original size:29 final size:29
Alignment explanation
Indices: 200036862--200036946 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
200036852 AAAGATAACA
200036862 AGAAAA-CC-GAATAAAGAAATCCAAGAT
1 AGAAAACCCAGAATAAAGAAATCCAAGAT
*
200036889 AGGAAACCCAGAATAAAGAAATCC-AGAAT
1 AGAAAACCCAGAATAAAGAAATCCAAG-AT
* * *
200036918 A-AAAGATCCAGGATAAA-AAACCCAAGAT
1 AGAAA-ACCCAGAATAAAGAAATCCAAGAT
200036946 A
1 A
200036947 CGATACTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.10
28 14 0.29
29 29 0.60
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.11
Consensus pattern (29 bp):
AGAAAACCCAGAATAAAGAAATCCAAGAT
Found at i:200050205 original size:3 final size:3
Alignment explanation
Indices: 200050197--200050222 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
200050187 TATGTAAGTA
200050197 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
200050223 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:200055594 original size:25 final size:25
Alignment explanation
Indices: 200055565--200055612 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
200055555 TTATAATATG
* * *
200055565 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
200055590 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
200055613 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:200055699 original size:39 final size:40
Alignment explanation
Indices: 200055652--200055750 Score: 173
Period size: 39 Copynumber: 2.5 Consensus size: 40
200055642 TTGATAAACC
200055652 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
* *
200055692 TGA-ATGTATGATATGCACATGACATGTTTGATTTGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
200055731 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
200055751 CGAGATGTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
39 37 0.66
40 19 0.34
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (40 bp):
TGATATGTATGATATGCACATGACATGTATGATATGCACA
Found at i:200055758 original size:20 final size:20
Alignment explanation
Indices: 200055656--200055750 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
200055646 TAAACCTGAT
200055656 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
200055676 ATGTATGATATGCACATGA-
1 ATGTATGATATGCACATGAC
200055695 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* * *
200055715 ATGTTTGATTTGCACATGAT
1 ATGTATGATATGCACATGAC
200055735 ATGTATGATATGCACA
1 ATGTATGATATGCACA
200055751 CGAGATGTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
19 19 0.28
20 50 0.72
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:200055882 original size:23 final size:24
Alignment explanation
Indices: 200055803--200055947 Score: 215
Period size: 24 Copynumber: 6.0 Consensus size: 24
200055793 GGAGGAATGC
200055803 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
200055827 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
200055851 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
200055875 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
200055898 AAAAAAAGGGCTT-TGCCCCAGTTATT
1 ---AAAAGGGCTTATGCCCCAGTTATT
*
200055924 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
200055948 ATGATAAAGC
Statistics
Matches: 113, Mismatches: 1, Indels: 13
0.89 0.01 0.10
Matches are distributed among these distances:
23 29 0.26
24 54 0.48
25 8 0.07
26 13 0.12
27 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:200056175 original size:31 final size:31
Alignment explanation
Indices: 200056140--200056203 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
200056130 CGTTTACAGT
200056140 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
200056171 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
200056202 AA
1 AA
200056204 TATGAACAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:200064490 original size:70 final size:71
Alignment explanation
Indices: 200064407--200064569 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
200064397 CGATTTGTCT
200064407 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200064471 CTTTCA
66 CTTTCA
*
200064477 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200064542 CTTTCA
66 CTTTCA
200064548 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
200064570 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:200064607 original size:71 final size:70
Alignment explanation
Indices: 200064407--200064603 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
200064397 CGATTTGTCT
* * * *
200064407 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200064471 CTTTCA
65 CTTTCA
* * * *
200064477 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200064542 CTTTCA
65 CTTTCA
* *
200064548 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
200064604 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:200072020 original size:69 final size:71
Alignment explanation
Indices: 200071938--200072099 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
200071928 CGATTTGTCT
200071938 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200072001 CTTTCA
66 CTTTCA
200072007 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
200072072 CTTTCA
66 CTTTCA
200072078 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
200072100 GATACATCTC
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 27 0.30
70 24 0.26
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:200072137 original size:71 final size:70
Alignment explanation
Indices: 200071938--200072133 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
200071928 CGATTTGTCT
* * *
200071938 CGTAGCTCTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200072001 CTTTCA
65 CTTTCA
* * * *
200072007 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
200072072 CTTTCA
65 CTTTCA
* *
200072078 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
200072134 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 26 0.22
70 26 0.22
71 43 0.37
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:200074508 original size:49 final size:48
Alignment explanation
Indices: 200074396--200074710 Score: 218
Period size: 49 Copynumber: 6.7 Consensus size: 48
200074386 GGCAAGTTGC
* *
200074396 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
* * * * *
200074444 CTGATGTCATATCCCAGACAAGGTCTTACACTAGCTCTCGCAT-ATTCG-TG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATCA-TCGAGG
* *
200074494 CGATGCCATGTCCCAAACATGGTCTTACACT-GAC-A-CATC-TCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCATCG-AGG
* *
200074540 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-TCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCATCGAGG
* * * * **
200074585 TTGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTC-TCAATC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAGG
* * *
200074631 CTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCA--AT-GTGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
200074677 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCT
200074711 CACACCAGTG
Statistics
Matches: 213, Mismatches: 33, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
44 28 0.13
45 32 0.15
46 55 0.26
47 15 0.07
48 17 0.08
49 57 0.27
50 3 0.01
51 6 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
Found at i:200074581 original size:98 final size:98
Alignment explanation
Indices: 200074396--200074568 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 98
200074386 GGCAAGTTGC
** * *
200074396 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCATCGAGGCCGATGTCATATCCCAG
200074461 ACAAGGTCTTACACTAGCTCTCGCATATTCGTG
66 ACAAGGTCTTACACTAGCTCTCGCATATTCGTG
*
200074494 CGATGCCATGTCCCAAACATGGTCTTACACTGAC-A-CATC-TCGTA-GCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCATCG-AGGCCGATGTCATATCCCA
*
200074554 GAC-ATGTCTTACACT
65 GACAAGGTCTTACACT
200074569 GGCTTACGTC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
93 11 0.16
94 11 0.16
95 9 0.13
96 5 0.07
97 1 0.01
98 31 0.46
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (98 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCATCGAGGCCGATGTCATATCCCAG
ACAAGGTCTTACACTAGCTCTCGCATATTCGTG
Found at i:200074595 original size:46 final size:44
Alignment explanation
Indices: 200074397--200074711 Score: 192
Period size: 46 Copynumber: 6.8 Consensus size: 44
200074387 GCAAGTTGCC
* * *
200074397 GATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC--TCGTC-TCGAGGCT
* * * *
200074446 GATGTCATATCCCAGACAAGGTCTTACACTAGCTCTCGCATATTCG-TGC-
1 GATG-CATGTCCCAGAC-ATGTCTTACACTAG--CTCG--T-CTCGAGGCT
* * * *
200074495 GATGCCATGTCCCAAACATGGTCTTACACT-GACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCGTCTCG-AGGCT
* *
200074541 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-CGTCTCGAGGCT
* * **
200074587 GATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATCCT
1 GATGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCGAGGCT
* * *
200074633 GATGCCATGTTCCAGACATGGTCTTACACTAGCTC-TCAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTC--TCGAGGCT
200074679 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
200074712 ACACCAGTGA
Statistics
Matches: 211, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
44 29 0.14
45 33 0.16
46 59 0.28
47 16 0.08
48 15 0.07
49 51 0.24
50 3 0.01
51 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCGAGGCT
Found at i:200074652 original size:138 final size:139
Alignment explanation
Indices: 200074394--200074706 Score: 361
Period size: 138 Copynumber: 2.2 Consensus size: 139
200074384 GGGGCAAGTT
*
200074394 GCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCC
* * * *
200074459 AGACAAGGTCTTACACTAGCTCTCGCATATTCGTGCGATGCCATGTCCCAAACATGGTCTTACAC
64 AAACAAGGTCTTACACTAGCACTCGCATAATCCT-CGATGCCATGTCCCAAACATGGTCTTACAC
200074524 TGACACATCTC-GTA
128 T-A-AC-TCTCAGTA
* * *
200074538 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTC-TCGAGGTTGATG-CATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAGGCTGATGTCATATCCCA
* * *
200074600 AAC-ATGTCTTACACTAGCACTCGTC-TCAATCCT-GATGCCATGTTCCAGACATGGTCTTACAC
65 AACAAGGTCTTACACTAGCACTCG-CAT-AATCCTCGATGCCATGTCCCAAACATGGTCTTACAC
* *
200074662 TAGCTCTCAATGTG
128 TAACTCTC-A-GTA
200074676 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
200074707 AGCTCACACC
Statistics
Matches: 150, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
135 4 0.03
136 1 0.01
137 1 0.01
138 61 0.41
139 19 0.13
140 15 0.10
141 12 0.08
142 17 0.11
143 13 0.09
144 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (139 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCTGATGTCATATCCCAA
ACAAGGTCTTACACTAGCACTCGCATAATCCTCGATGCCATGTCCCAAACATGGTCTTACACTAA
CTCTCAGTA
Found at i:200076180 original size:46 final size:46
Alignment explanation
Indices: 200076060--200076307 Score: 170
Period size: 46 Copynumber: 5.3 Consensus size: 46
200076050 CATGTCCTGA
* * *
200076060 ACATGGTCTTACACTGGCTATCATCATCG-AGGCCGATGCCATGTCTCAG
1 ACAT-GTCTTACACTGGCT-TCGTC-TCGTAGGCTGATG-CATGTCCCAG
* * * * *
200076109 TCATGGTCTTACATTGAC-ACATCTCGTA-GCTGATGCATGTCCCAG
1 ACAT-GTCTTACACTGGCTTCGTCTCGTAGGCTGATGCATGTCCCAG
200076154 ACATGTCTTACACTGGCTTACGTCTCG-AGGCTGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTT-CGTCTCGTAGGCTGATGCATGTCCCAG
* * * * * *
200076200 ACATGTCTTGCACTAGCACTCGTCTC-AATGCCGATGCCATGTCCCAG
1 ACATGTCTTACACTGGC-TTCGTCTCGTAGGCTGATG-CATGTCCCAG
* * * *
200076247 GCATGGTCTTACACTGGCTCTCATAAT-GT-GG-TCGATGTATGTCCCAG
1 ACAT-GTCTTACACTGGCT-TCGT-CTCGTAGGCT-GATGCATGTCCCAG
200076294 ACATGTCTTACACT
1 ACATGTCTTACACT
200076308 AGCTCACACC
Statistics
Matches: 160, Mismatches: 27, Indels: 27
0.75 0.13 0.13
Matches are distributed among these distances:
44 11 0.07
45 13 0.08
46 70 0.44
47 31 0.19
48 19 0.12
49 16 0.10
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
ACATGTCTTACACTGGCTTCGTCTCGTAGGCTGATGCATGTCCCAG
Found at i:200081305 original size:40 final size:40
Alignment explanation
Indices: 200081250--200081413 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
200081240 TGAATGATAC
* * *
200081250 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
200081290 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
200081330 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * * *
200081370 CCGGGTTAAGACCCTAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
200081410 CCGG
1 CCGG
200081414 TTAAATCCCA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 96 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:200083489 original size:49 final size:49
Alignment explanation
Indices: 200083424--200083687 Score: 178
Period size: 49 Copynumber: 5.6 Consensus size: 49
200083414 ACATCAAAGT
* *
200083424 CAATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAG-GC
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * * *
200083473 CAATGCCGTATCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGTGT
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* * * * * *
200083522 CGATGCCATGTCCCAGACAGGTCTTACACTGACACACA-ACA-AGCTG-
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* * * * *
200083568 --ATGCCATGTCCTAGATAGGTCTTACACT-AGCT-TGTACATCTCGAG-GC
1 CAATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCG-GTGC
* * *
200083615 CAATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT--GTGG
1 CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
*
200083660 CAGATG-CATGTCCCAGACATGTCTTACA
1 CA-ATGCCATGTCCCAGACAGGTCTTACA
200083688 GTAGCACACA
Statistics
Matches: 166, Mismatches: 36, Indels: 29
0.72 0.16 0.13
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 4 0.02
46 27 0.16
47 4 0.02
48 27 0.16
49 74 0.45
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
CAATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:200083588 original size:142 final size:141
Alignment explanation
Indices: 200083381--200083687 Score: 358
Period size: 142 Copynumber: 2.2 Consensus size: 141
200083371 GATGTCGACA
* *
200083381 CCATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCAATGCCATGTCCCAGACAGGT
1 CCATGTCCCAGACA-GGTCTTACACTGAC-AACACAACAAAGTCAATGCCATGTCCCAGACAGGT
* * *
200083446 CTTACA-TTGACTT-TCATATATCGAGGCCAATGCCGTATCCCAGACAAGTCTTACACTGGCTCT
64 CTTACACTAG-CTTGT-ACATATCGAGGCCAATG-CATATCCCAGACAAGTCTTACACTGGCTCT
* *
200083509 CATCTATCGGTGTC-GATG
126 CAT-AAT--GTGGCAGATG
* * *
200083527 CCATGTCCCAGACAGGTCTTACACTGAC-ACACAAC-AAG-CTGATGCCATGTCCTAGATAGGTC
1 CCATGTCCCAGACAGGTCTTACACTGACAACACAACAAAGTC-AATGCCATGTCCCAGACAGGTC
* * *
200083589 TTACACTAGCTTGTACATCTCGAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
65 TTACACTAGCTTGTACATATCGAGGCCAATGCATATCCCAGACAAGTCTTACACTGGCTCTCATA
200083654 ATGTGGCAGATG
130 ATGTGGCAGATG
*
200083666 -CATGTCCCAGACATGTCTTACA
1 CCATGTCCCAGACAGGTCTTACA
200083688 GTAGCACACA
Statistics
Matches: 143, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
138 25 0.17
139 4 0.03
140 2 0.01
141 31 0.22
142 45 0.31
143 9 0.06
145 13 0.09
146 14 0.10
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (141 bp):
CCATGTCCCAGACAGGTCTTACACTGACAACACAACAAAGTCAATGCCATGTCCCAGACAGGTCT
TACACTAGCTTGTACATATCGAGGCCAATGCATATCCCAGACAAGTCTTACACTGGCTCTCATAA
TGTGGCAGATG
Found at i:200087885 original size:78 final size:80
Alignment explanation
Indices: 200087750--200087930 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
200087740 TCGAATGATG
* *
200087750 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
200087815 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
200087829 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
200087891 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
200087908 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
200087931 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:200087940 original size:40 final size:39
Alignment explanation
Indices: 200087751--200087933 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
200087741 CGAATGATGT
* *
200087751 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
200087790 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
200087831 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
200087868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
200087909 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
200087934 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:200100231 original size:39 final size:38
Alignment explanation
Indices: 200100141--200100364 Score: 234
Period size: 40 Copynumber: 5.7 Consensus size: 38
200100131 TCGAATGATG
* *
200100141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
* *
200100181 TCCGGACTAAGATCCGAAGGCATTTGTTCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* *
200100220 TCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
*
200100259 TCCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AA
* * *
200100299 TCCGGGTTAAGTCCCGAAGGTATTTATGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-A
* * *
200100339 ACCGGGCTATGTCCCGAAAGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
200100365 AATGAGTAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 72 0.45
40 80 0.50
41 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:200100301 original size:79 final size:78
Alignment explanation
Indices: 200100141--200100364 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 78
200100131 TCGAATGATG
* * * * *
200100141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATT
*
200100205 TGTTCGAGTTACTAA
64 TGTGCGAGTTACTAA
*
200100220 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGCTAAGACCCGAAGGCATT
200100283 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACT-AA
** * * * * * *
200100299 TCCGGGTTAAGTCCCGAAGGTATTTATGCGAGTTACTATAACCGGGCTATGTCCCGAAAGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAGACCCGAAGGCATTT
200100364 G
65 G
200100365 AATGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 26 0.21
79 75 0.61
80 22 0.18
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (78 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTACTAA
Found at i:200100386 original size:79 final size:79
Alignment explanation
Indices: 200100194--200100399 Score: 188
Period size: 79 Copynumber: 2.6 Consensus size: 79
200100184 GGACTAAGAT
* ** ** * * *
200100194 CCGAAGGCATTTGTTCGAGTTACT-AATCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACT
1 CCGAAAGCATTTGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGTATTTATGCGAGTTACT
*
200100257 AATCCCGGGCTAAGC
65 AATACCGGGCTAAGC
* ** *
200100272 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTATGCGAGTTACT-
1 CCGAAAGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGTATTTATGCGAGTTACTA
*
200100336 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
200100352 CCGAAAGCATTTGAATGAG-TAGCTATATCC-GGTTAAATTCCGAAGGTA
1 CCGAAAGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGGTA
200100400 CGTGATTTGG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 26 0.24
79 58 0.54
80 23 0.21
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (79 bp):
CCGAAAGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGTATTTATGCGAGTTACTA
ATACCGGGCTAAGC
Found at i:200118488 original size:40 final size:40
Alignment explanation
Indices: 200118344--200118481 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
200118334 TGGATCTACC
* * * * **
200118344 GTTGTGTTATCAGGAGTACAAAAGTACAGTCAGGAGCACC
1 GTTGTGCTATTAGGAGTACAAAAGTACGGTTAGGAGCATT
*
200118384 GTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGCATT
1 GTTGTGCTATTAGGAGTACAAAAGTACGGTTAGGAGCATT
* * *
200118424 CTTGAGCTATTAGGAGTACGAAAGTACGGTTAGGAGCATT
1 GTTGTGCTATTAGGAGTACAAAAGTACGGTTAGGAGCATT
200118464 GTTGTGCTATTAGGAGTA
1 GTTGTGCTATTAGGAGTA
200118482 TGAAAGTTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (40 bp):
GTTGTGCTATTAGGAGTACAAAAGTACGGTTAGGAGCATT
Found at i:200118660 original size:15 final size:15
Alignment explanation
Indices: 200118640--200118707 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
200118630 CATTAAGCCC
200118640 CCCAAAAAAACCTAA
1 CCCAAAAAAACCTAA
*
200118655 CCCAAAAAAA--AAA
1 CCCAAAAAAACCTAA
*** *
200118668 AAAAAAAAAACCTAC
1 CCCAAAAAAACCTAA
200118683 CCCAAAAAAACCTAA
1 CCCAAAAAAACCTAA
200118698 CCCAAAAAAA
1 CCCAAAAAAA
200118708 AAAGAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.22
15 32 0.78
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (15 bp):
CCCAAAAAAACCTAA
Found at i:200118688 original size:43 final size:46
Alignment explanation
Indices: 200118639--200118727 Score: 157
Period size: 43 Copynumber: 2.0 Consensus size: 46
200118629 CCATTAAGCC
200118639 CCCCAAAAAAACCTAACCC-AAAAAAAAA-AAAAAA-AAAAACCTA
1 CCCCAAAAAAACCTAACCCAAAAAAAAAAGAAAAAAGAAAAACCTA
200118682 CCCCAAAAAAACCTAACCCAAAAAAAAAAGAAAAAAGAAAAACCTA
1 CCCCAAAAAAACCTAACCCAAAAAAAAAAGAAAAAAGAAAAACCTA
200118728 ACAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
43 19 0.44
44 9 0.21
45 6 0.14
46 9 0.21
ACGTcount: A:0.69, C:0.25, G:0.02, T:0.04
Consensus pattern (46 bp):
CCCCAAAAAAACCTAACCCAAAAAAAAAAGAAAAAAGAAAAACCTA
Found at i:200118733 original size:25 final size:25
Alignment explanation
Indices: 200118703--200118752 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
200118693 CCTAACCCAA
*
200118703 AAAAAAAAGAAAAAAGAAAAACCTAAC
1 AAAAAAAA-AAATAA-AAAAACCTAAC
200118730 AAAAAAAAAAATAAAAAAACCTA
1 AAAAAAAAAAATAAAAAAACCTA
200118753 GCCACCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 8 0.36
ACGTcount: A:0.80, C:0.10, G:0.04, T:0.06
Consensus pattern (25 bp):
AAAAAAAAAAATAAAAAAACCTAAC
Found at i:200118734 original size:43 final size:42
Alignment explanation
Indices: 200118642--200118736 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 42
200118632 TTAAGCCCCC
*
200118642 CAAAAAAACCTAACCCAAAAAAAAAAAAAAAAAAAACCTACCC
1 CAAAAAAACCTAACCCAAAAAAAAAAAAAAAAAAAACCTA-CA
200118685 CAAAAAAACCTAACCCAAAAAAAAAAGAAAAAAGAAAAACCTA-A
1 CAAAAAAACCTAACCC-AAAAAAAAA-AAAAAA-AAAAACCTACA
200118729 CAAAAAAA
1 CAAAAAAA
200118737 AAAATAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
43 16 0.33
44 17 0.35
45 6 0.12
46 9 0.19
ACGTcount: A:0.73, C:0.21, G:0.02, T:0.04
Consensus pattern (42 bp):
CAAAAAAACCTAACCCAAAAAAAAAAAAAAAAAAAACCTACA
Found at i:200118735 original size:30 final size:31
Alignment explanation
Indices: 200118688--200118747 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
200118678 CCTACCCCAA
*
200118688 AAAAACCTAACCCAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCAAAAAAAAAAAGAAAAAAG
*
200118719 AAAAACCTAA-CAAAAAAAAAAATAAAAAA
1 AAAAACCTAACCAAAAAAAAAAAGAAAAAA
200118748 ACCTAGCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.78, C:0.13, G:0.03, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCAAAAAAAAAAAGAAAAAAG
Found at i:200118737 original size:15 final size:15
Alignment explanation
Indices: 200118643--200118738 Score: 60
Period size: 15 Copynumber: 6.5 Consensus size: 15
200118633 TAAGCCCCCC
200118643 AAAAAAACCTAACCCAA
1 AAAAAAACCTAA--CAA
200118660 AAAAAAA---AA-AA
1 AAAAAAACCTAACAA
* **
200118671 AAAAAAACCTACCCC
1 AAAAAAACCTAACAA
200118686 AAAAAAACCTAACCCAA
1 AAAAAAACCTAA--CAA
**
200118703 AAAAAAA-AGAA-AA
1 AAAAAAACCTAACAA
200118716 AAGAAAAACCTAACAA
1 AA-AAAAACCTAACAA
200118732 AAAAAAA
1 AAAAAAA
200118739 AATAAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
11 9 0.15
13 4 0.07
14 8 0.13
15 18 0.30
16 6 0.10
17 15 0.25
ACGTcount: A:0.74, C:0.20, G:0.02, T:0.04
Consensus pattern (15 bp):
AAAAAAACCTAACAA
Found at i:200118748 original size:31 final size:31
Alignment explanation
Indices: 200118688--200118748 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
200118678 CCTACCCCAA
* *
200118688 AAAAACCTAACCCAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCAAAAAAAAAAAAAAAAAAG
200118719 AAAAACCTAA-CAAAAAAAAAAATAAAAAAA
1 AAAAACCTAACCAAAAAAAAAAA-AAAAAAA
200118749 CCTAGCCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCAAAAAAAAAAAAAAAAAAG
Found at i:200119000 original size:16 final size:16
Alignment explanation
Indices: 200118969--200119002 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
200118959 TATTTTACTC
*
200118969 TTATTTTTTTTATTTT
1 TTATTTTTTTCATTTT
*
200118985 TTATTTTTTTCCTTTT
1 TTATTTTTTTCATTTT
200119001 TT
1 TT
200119003 CGAATCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (16 bp):
TTATTTTTTTCATTTT
Found at i:200119260 original size:29 final size:29
Alignment explanation
Indices: 200119204--200119260 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
200119194 TCTCTTCTTT
* *
200119204 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
200119233 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
200119261 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:200119523 original size:11 final size:11
Alignment explanation
Indices: 200119505--200119534 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
200119495 GTGTATATTG
200119505 TATATATTATA
1 TATATATTATA
*
200119516 TTTATATTATA
1 TATATATTATA
200119527 TATATATT
1 TATATATT
200119535 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:200123745 original size:12 final size:12
Alignment explanation
Indices: 200123728--200123763 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
200123718 AACATTTTGA
200123728 CATTCATGCATT
1 CATTCATGCATT
200123740 CATTCATGCATT
1 CATTCATGCATT
*
200123752 CATTCATACATT
1 CATTCATGCATT
200123764 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:200133835 original size:39 final size:39
Alignment explanation
Indices: 200133781--200133943 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
200133771 ATGTGATGAA
200133781 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
200133820 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
200133859 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
200133898 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
200133938 TGTGCG
1 TGTGCG
200133944 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:200133959 original size:40 final size:39
Alignment explanation
Indices: 200133781--200133973 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
200133771 ATGTGATGAA
* *
200133781 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
200133820 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
200133859 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
200133898 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
200133938 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
200133974 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:200141386 original size:38 final size:39
Alignment explanation
Indices: 200141263--200141449 Score: 301
Period size: 38 Copynumber: 4.9 Consensus size: 39
200141253 AATGTTCGAG
200141263 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200141301 TGATA-CCGGGCTAAGCCC-AAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200141338 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200141377 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200141415 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
200141450 GGTTACCATA
Statistics
Matches: 140, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
36 16 0.11
37 20 0.14
38 54 0.39
39 33 0.24
40 17 0.12
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:200141465 original size:40 final size:39
Alignment explanation
Indices: 200141263--200141479 Score: 280
Period size: 38 Copynumber: 5.6 Consensus size: 39
200141253 AATGTTCGAG
*
200141263 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200141301 TGAT-ACCGGGCTAAGCCC-AAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
200141338 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200141377 TGAT-ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * * *
200141415 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** *
200141455 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
200141480 TGTTTTGAAC
Statistics
Matches: 159, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
36 16 0.10
37 19 0.12
38 52 0.33
39 32 0.20
40 40 0.25
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:200147498 original size:40 final size:39
Alignment explanation
Indices: 200147333--200147516 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
200147323 AAATTGAATG
* * *
200147333 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
200147373 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
200147413 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
200147453 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
200147492 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
200147517 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:200147541 original size:80 final size:81
Alignment explanation
Indices: 200147373--200147561 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
200147363 GCTGGAAATT
* * * *
200147373 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
200147438 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
200147454 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
200147517 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
200147533 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
200147562 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:200151148 original size:40 final size:40
Alignment explanation
Indices: 200151093--200151342 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
200151083 AACATTGGAA
200151093 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200151133 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200151173 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200151213 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
200151253 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
200151292 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
200151333 CTATATCCGG
1 ATATATCCGG
200151343 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:200159327 original size:40 final size:40
Alignment explanation
Indices: 200159272--200159481 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
200159262 TGGAATATAT
200159272 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200159312 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
200159352 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
200159392 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
200159431 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
200159472 CTATATCCGG
1 ATATATCCGG
200159482 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:200163670 original size:40 final size:39
Alignment explanation
Indices: 200163452--200163640 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
200163442 AATGTTCGAG
200163452 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200163490 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200163528 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200163567 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200163606 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
200163641 GGTTACCATA
Statistics
Matches: 144, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
37 30 0.21
38 12 0.08
39 85 0.59
40 17 0.12
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:200171537 original size:39 final size:39
Alignment explanation
Indices: 200171439--200171628 Score: 328
Period size: 39 Copynumber: 4.9 Consensus size: 39
200171429 AATGTTCGAG
200171439 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200171478 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
200171516 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200171555 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
200171594 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
200171629 GGTTACCATA
Statistics
Matches: 145, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
38 38 0.26
39 90 0.62
40 17 0.12
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:200173190 original size:40 final size:40
Alignment explanation
Indices: 200173081--200173268 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
200173071 TATTCGGATG
* *
200173081 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
200173121 A-ATTCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
200173160 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
200173200 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
200173240 ATAACCGGGCTAAATCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
200173269 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:200173282 original size:40 final size:40
Alignment explanation
Indices: 200173081--200173293 Score: 263
Period size: 40 Copynumber: 5.4 Consensus size: 40
200173071 TATTCGGATG
* * *
200173081 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
200173121 A-ATTCCGGGCT-AAGCTCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
200173160 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACC
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
200173200 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* *
200173240 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTA-CT
*
200173280 ATATCC-GGCTAAAT
1 ATAACCGGGCTAAAT
200173294 TTCGTAGGTA
Statistics
Matches: 151, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 42 0.28
40 109 0.72
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:200176374 original size:40 final size:40
Alignment explanation
Indices: 200176315--200176522 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
200176305 CATTGGAATG
* * *
200176315 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
200176355 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
200176395 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
200176435 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
200176475 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
200176515 ATATCCGG
1 ATATCCGG
200176523 TTAAATTCGA
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:200181549 original size:31 final size:31
Alignment explanation
Indices: 200181511--200181575 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
200181501 TGTTAATATG
200181511 TCAACAAGTGAAAGCGGAACATCAAGTGCCT
1 TCAACAAGTGAAAGCGGAACATCAAGTGCCT
200181542 TCAACAAGTGAAAGCGGAACATCAAGTGCCT
1 TCAACAAGTGAAAGCGGAACATCAAGTGCCT
200181573 TCA
1 TCA
200181576 GGGTTACTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (31 bp):
TCAACAAGTGAAAGCGGAACATCAAGTGCCT
Found at i:200184373 original size:40 final size:40
Alignment explanation
Indices: 200184314--200184520 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
200184304 CATTGGAATG
* * *
200184314 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
200184354 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * * **
200184393 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
200184433 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
200184473 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
200184513 ATATCCGG
1 ATATCCGG
200184521 TTAAATTCTA
Statistics
Matches: 141, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 36 0.26
40 105 0.74
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:200184447 original size:79 final size:80
Alignment explanation
Indices: 200184314--200184501 Score: 243
Period size: 79 Copynumber: 2.4 Consensus size: 80
200184304 CATTGGAATG
* * ** *
200184314 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
***
200184378 ATTGTGCGAGTTGTT
66 ATTGTGCGAGTCACT
* * *
200184393 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
200184458 ATTGTGCGAGTCACT
66 ATTGTGCGAGTCACT
* **
200184473 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
200184502 AGCGAGTCAT
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 56 0.60
80 37 0.40
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTCACT
Found at i:200191510 original size:4 final size:4
Alignment explanation
Indices: 200191494--200191527 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
200191484 ACAAATGATA
* *
200191494 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
200191528 TTGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:200191980 original size:15 final size:14
Alignment explanation
Indices: 200191960--200191991 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
200191950 TCTTTTGTGA
200191960 CCTCTTTGTTTTGCT
1 CCTCTTTGTTTTG-T
200191975 CCTCTTTGTTTTGT
1 CCTCTTTGTTTTGT
200191989 CCT
1 CCT
200191992 TAATTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.59
Consensus pattern (14 bp):
CCTCTTTGTTTTGT
Found at i:200213514 original size:10 final size:10
Alignment explanation
Indices: 200213499--200213527 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
200213489 TATATAATGC
200213499 ACATATATAT
1 ACATATATAT
200213509 ACATATATAT
1 ACATATATAT
200213519 ACATATATA
1 ACATATATA
200213528 CGACATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (10 bp):
ACATATATAT
Found at i:200215837 original size:17 final size:18
Alignment explanation
Indices: 200215795--200215843 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
200215785 AGTTGAAAAG
200215795 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
200215814 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
200215831 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
200215844 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:200216727 original size:40 final size:40
Alignment explanation
Indices: 200216661--200216827 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
200216651 AAATTGAATG
* * *
200216661 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
200216700 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
200216740 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
200216780 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
200216820 ATATCCGG
1 ATATCCGG
200216828 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:200223835 original size:17 final size:18
Alignment explanation
Indices: 200223793--200223841 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
200223783 AGTTGAAAAG
200223793 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
200223812 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
200223829 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
200223842 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:200224728 original size:40 final size:40
Alignment explanation
Indices: 200224662--200224828 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
200224652 AAATTGAATG
* * *
200224662 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
200224701 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
200224741 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
200224781 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
200224821 ATATCCGG
1 ATATCCGG
200224829 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:200228858 original size:28 final size:28
Alignment explanation
Indices: 200228800--200228900 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
200228790 ATATAGTGAA
* *
200228800 TCGCACACTT-GTGCTATATATTTTC-AGC
1 TCGCACACTTAGTGCTATATA--ATCAAAC
200228828 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* * *
200228856 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 TCGCACACTTAGTGCTATATAA--TCAAAC
*
200228886 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
200228901 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.03
28 32 0.51
29 10 0.16
30 19 0.30
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:200236651 original size:29 final size:29
Alignment explanation
Indices: 200236619--200236719 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
200236609 ATAGTGAATC
*
200236619 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
200236648 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
200236676 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
200236706 CGCACACTTAGTGC
1 CGCACACTTAGTGC
200236720 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:200236712 original size:30 final size:29
Alignment explanation
Indices: 200236618--200236719 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
200236608 TATAGTGAAT
* * *
200236618 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
200236647 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
200236675 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
200236705 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
200236720 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:200239885 original size:25 final size:25
Alignment explanation
Indices: 200239856--200239903 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
200239846 TTATAATATG
* * *
200239856 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
200239881 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
200239904 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:200239987 original size:11 final size:11
Alignment explanation
Indices: 200239954--200240006 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
200239944 GGTATGTATA
200239954 ATATGCACATG
1 ATATGCACATG
* *
200239965 ACATG--TATG
1 ATATGCACATG
200239974 ATATGCACATG
1 ATATGCACATG
*
200239985 ATATG--TATG
1 ATATGCACATG
200239994 ATATGCACATG
1 ATATGCACATG
200240005 AT
1 AT
200240007 GTATTCATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATATGCACATG
Found at i:200240006 original size:20 final size:20
Alignment explanation
Indices: 200239940--200240006 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
200239930 ATTTTGATAA
* *
200239940 ACATGGTATGTATAATATGC
1 ACATGATATGTATGATATGC
*
200239960 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
200239980 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
200240000 ACATGAT
1 ACATGAT
200240007 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:200240082 original size:24 final size:24
Alignment explanation
Indices: 200240055--200240250 Score: 250
Period size: 24 Copynumber: 8.0 Consensus size: 24
200240045 GAGGAAGTGC
200240055 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
200240079 AAAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
200240105 AAAAAAGGGCTTATGCCCCAGTTATC
1 --AAAAGGGCTTATGCCCCAGTTATT
* *
200240131 AAAAGGTCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
200240155 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
200240179 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
200240203 AAAAGGGCTTTTGCCTCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
*
200240227 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
200240251 ATGACAAAGC
Statistics
Matches: 153, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
24 95 0.62
25 9 0.06
26 49 0.32
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:200244296 original size:22 final size:22
Alignment explanation
Indices: 200244254--200244298 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
200244244 TTATTAACCC
*
200244254 AAATTAACTTAGATATAAATTA
1 AAATTAACTTAAATATAAATTA
*
200244276 AAATTAA-TTAAATTATGAATTA
1 AAATTAACTTAAA-TATAAATTA
200244298 A
1 A
200244299 TAAACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTAACTTAAATATAAATTA
Found at i:200244447 original size:10 final size:10
Alignment explanation
Indices: 200244432--200244470 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
200244422 CGAAAATAAC
200244432 CAAAATTAAT
1 CAAAATTAAT
200244442 CAAAATTAATT
1 CAAAATTAA-T
200244453 ACAAAATTAAT
1 -CAAAATTAAT
*
200244464 TAAAATT
1 CAAAATT
200244471 CAACATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (10 bp):
CAAAATTAAT
Found at i:200244459 original size:12 final size:12
Alignment explanation
Indices: 200244432--200244465 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
200244422 CGAAAATAAC
200244432 CAAAATTAA-T-
1 CAAAATTAATTA
200244442 CAAAATTAATTA
1 CAAAATTAATTA
200244454 CAAAATTAATTA
1 CAAAATTAATTA
200244466 AAATTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
12 12 0.55
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (12 bp):
CAAAATTAATTA
Found at i:200247361 original size:37 final size:37
Alignment explanation
Indices: 200247308--200247481 Score: 312
Period size: 37 Copynumber: 4.7 Consensus size: 37
200247298 CGAATAGTCC
*
200247308 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
200247345 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
200247382 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
200247419 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
200247456 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
200247482 AGAATATATT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:200247683 original size:48 final size:48
Alignment explanation
Indices: 200247621--200247823 Score: 352
Period size: 48 Copynumber: 4.2 Consensus size: 48
200247611 CACAATATAC
*
200247621 ACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATAT
1 ACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
200247669 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
1 ACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
* * *
200247717 ACATATCTCATACATATTTCACATTAGCCATCCGGCTTTACCACATAT
1 ACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
*
200247765 ACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT
1 ACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
200247813 ACACATCTCAT
1 ACACATCTCAT
200247824 GTAACACCCC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (48 bp):
ACACATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT
Found at i:200249244 original size:40 final size:40
Alignment explanation
Indices: 200249196--200249403 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
200249186 CTCTTCGAAT
* * *
200249196 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
200249235 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
200249275 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
200249315 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
200249355 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
200249395 TTAGCCCGG
1 TTAGCCCGG
200249404 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:200253293 original size:27 final size:28
Alignment explanation
Indices: 200253263--200253332 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
200253253 ATAATAAGTC
*
200253263 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
200253290 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
200253318 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
200253333 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.