Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 129 of 320
Found at i:42237511 original size:50 final size:48
Alignment explanation
Indices: 42237456--42237599 Score: 157
Period size: 50 Copynumber: 3.0 Consensus size: 48
42237446 AAAATATATA
* *
42237456 CTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAATAAATCAC
1 CTATGAAAGATTTATAA-AAATAAAATAAACAAGTTTAAT-ATAAATAAC
* *
42237506 CTATGAAAAGATCTA-AAATAATAAAATAAACAAGTTTAATATAAATAAT
1 CTATG-AAAGATTTATAAA-AATAAAATAAACAAGTTTAATATAAATAAC
* * * * *
42237555 ATATGAGATATTT-TAAAAATAAAATAAACAGGCTTAATATAAATA
1 CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATA
42237600 GTATCTGAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
47 26 0.32
48 8 0.10
49 12 0.15
50 27 0.33
51 8 0.10
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (48 bp):
CTATGAAAGATTTATAAAAATAAAATAAACAAGTTTAATATAAATAAC
Found at i:42237579 original size:47 final size:47
Alignment explanation
Indices: 42237447--42237628 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 47
42237437 AAACTGTTCA
*
42237447 AAATATATACTATGAAAGATTTATAACAAATAAAATAAATAAGTTTAATAAT
1 AAATA-ATA-TATGAAAGATTTA-AA-AAATAAAATAAACAAGTTTAAT-AT
* ** *
42237499 AAATCACCTATGAAAAGATCTAAAATAATAAAATAAACAAGTTTAATAT
1 AAATAATATATG-AAAGATTTAAAA-AATAAAATAAACAAGTTTAATAT
* * * * *
42237548 AAATAATATATGAGATATTTTAAAAATAAAATAAACAGGCTTAATAT
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
* * * *
42237595 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAAAGATTTAAAAAATAAAATAAA
42237629 ATAAATGATA
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
46 7 0.06
47 45 0.41
48 8 0.07
49 12 0.11
50 26 0.23
51 9 0.08
52 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (47 bp):
AAATAATATATGAAAGATTTAAAAAATAAAATAAACAAGTTTAATAT
Found at i:42238802 original size:15 final size:15
Alignment explanation
Indices: 42238754--42238806 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
42238744 TTGGGCTATT
*
42238754 GGTTTAGGTTATTTA
1 GGTTTAGGTTATTTG
*
42238769 GG-TTAGGGCTTAATTG
1 GGTTTA-GG-TTATTTG
42238785 GGTTTAGGTTATTTG
1 GGTTTAGGTTATTTG
42238800 GGTTTAG
1 GGTTTAG
42238807 TTGGGTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 9 0.28
17 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (15 bp):
GGTTTAGGTTATTTG
Found at i:42238823 original size:19 final size:19
Alignment explanation
Indices: 42238801--42238866 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
42238791 GGTTATTTGG
42238801 GTTTAGTTGGGTTTGGGTA
1 GTTTAGTTGGGTTTGGGTA
42238820 GTTTAGTT-GGTTGATGGGT-
1 GTTTAGTTGGGTT--TGGGTA
* *
42238839 TTTTAGTTTGGATTTGGGTA
1 GTTTAG-TTGGGTTTGGGTA
*
42238859 TTTTAGTT
1 GTTTAGTT
42238867 TGGGCCTAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 4 0.10
19 20 0.50
20 13 0.32
21 3 0.08
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (19 bp):
GTTTAGTTGGGTTTGGGTA
Found at i:42238849 original size:20 final size:20
Alignment explanation
Indices: 42238802--42238869 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
42238792 GTTATTTGGG
* *
42238802 TTTAG-TTGGGTTTGGGTAG
1 TTTAGTTTGGATTTGGGTAT
42238821 TTTAG-TTGG-TTGATGGGT-T
1 TTTAGTTTGGATT--TGGGTAT
42238840 TTTAGTTTGGATTTGGGTAT
1 TTTAGTTTGGATTTGGGTAT
42238860 TTTAGTTTGG
1 TTTAGTTTGG
42238870 GCCTAGGCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 2 0.05
19 19 0.44
20 20 0.47
21 2 0.05
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (20 bp):
TTTAGTTTGGATTTGGGTAT
Found at i:42240558 original size:2 final size:2
Alignment explanation
Indices: 42240553--42240591 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
42240543 TAAAAAATAA
42240553 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
42240592 TTCGTAGAGA
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42250910 original size:15 final size:15
Alignment explanation
Indices: 42250890--42250922 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
42250880 TTCTTAGGCA
42250890 AAGCATATTCCATTG
1 AAGCATATTCCATTG
42250905 AAGCATATTCCATTG
1 AAGCATATTCCATTG
42250920 AAG
1 AAG
42250923 TGTTCTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (15 bp):
AAGCATATTCCATTG
Found at i:42251179 original size:25 final size:25
Alignment explanation
Indices: 42251151--42251198 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
42251141 TATGTAATTT
42251151 ATAATAAATACAAATTA-AATATATA
1 ATAATAAATA-AAATTATAATATATA
* *
42251176 ATAATATATAATATTATAATATA
1 ATAATAAATAAAATTATAATATA
42251199 AACATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATAAATAAAATTATAATATATA
Found at i:42253813 original size:18 final size:19
Alignment explanation
Indices: 42253787--42253826 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
42253777 CAATCAGGGC
* *
42253787 ATTATGGACTTGA-ATTTG
1 ATTAGGGACTTCAGATTTG
42253805 ATTAGGGACTTCAGATTTG
1 ATTAGGGACTTCAGATTTG
42253824 ATT
1 ATT
42253827 GCCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGACTTCAGATTTG
Found at i:42260472 original size:48 final size:48
Alignment explanation
Indices: 42260354--42260462 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
42260344 CCGTAATGGT
* * * * *
42260354 AACAGTCTCAGTCATGGTACACAAAGTACTTCATCGGATCGAATCCGG
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
* * *
42260402 AACAGTCCCAGTCACGGTACACTAAGTACCTCATTGGAACGAATCCGA
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
42260450 AACAGTCACAGTC
1 AACAGTCACAGTC
42260463 TGGCGACACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (48 bp):
AACAGTCACAGTCATGGTACACTAAGTACCTCATCGGAACGAATCCGA
Found at i:42262278 original size:80 final size:79
Alignment explanation
Indices: 42262016--42262318 Score: 385
Period size: 80 Copynumber: 3.8 Consensus size: 79
42262006 TCCTCGTTCA
* * * ** *
42262016 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
42262081 TAACAACTCGCACG
66 TAACAACTCGCACG
42262095 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
42262160 TTAACAACTCGCACG
65 TTAACAACTCGCACG
42262175 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
** * *
42262240 TTAGTATCTCGCACA
65 TTAACAACTCGCACG
* ** * * * * *
42262255 AAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
42262318 A
63 A
42262319 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 36 0.18
80 160 0.79
81 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:42262278 original size:120 final size:120
Alignment explanation
Indices: 42262046--42262318 Score: 381
Period size: 120 Copynumber: 2.3 Consensus size: 120
42262036 CGGTTTTAGT
*
42262046 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
42262111 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
42262165 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
42262230 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
42262286 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
42262319 CAGCATTCAA
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
119 11 0.08
120 120 0.88
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:42262279 original size:40 final size:40
Alignment explanation
Indices: 42262016--42262265 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
42262006 TCCTCGTTCA
* * * ** *
42262016 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42262055 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42262095 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42262135 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42262175 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
42262215 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
42262255 AAGGCCTTCGG
1 AATGCCTTCGG
42262266 ATCTTAGTCC
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 33 0.17
40 166 0.83
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:42262327 original size:41 final size:41
Alignment explanation
Indices: 42262250--42262327 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42262240 TTAGTATCTC
* * *
42262250 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42262291 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42262328 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42270452 original size:55 final size:54
Alignment explanation
Indices: 42270357--42270506 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
42270347 CTACTTTGTT
* ** * *
42270357 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
42270411 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
42270466 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
42270507 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:42270469 original size:27 final size:27
Alignment explanation
Indices: 42270329--42270506 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
42270319 TAAATTGTAC
42270329 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
42270356 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
42270382 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
42270410 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
42270438 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
42270465 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
42270492 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42270507 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:42270470 original size:82 final size:81
Alignment explanation
Indices: 42270330--42270485 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
42270320 AAATTGTACA
* * * *
42270330 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
42270395 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
42270411 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
42270474 TGTGCGAGTTGA
63 TGTGCGAATTGA
42270486 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:42273478 original size:80 final size:79
Alignment explanation
Indices: 42273216--42273518 Score: 385
Period size: 80 Copynumber: 3.8 Consensus size: 79
42273206 TCCTCGTTCA
* * * ** *
42273216 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
42273281 TAACAACTCGCACG
66 TAACAACTCGCACG
42273295 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
42273360 TTAACAACTCGCACG
65 TTAACAACTCGCACG
42273375 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
** * *
42273440 TTAGTATCTCGCACA
65 TTAACAACTCGCACG
* ** * * * * *
42273455 AAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
42273518 A
63 A
42273519 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 36 0.18
80 160 0.79
81 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:42273478 original size:120 final size:120
Alignment explanation
Indices: 42273246--42273518 Score: 381
Period size: 120 Copynumber: 2.3 Consensus size: 120
42273236 CGGTTTTAGT
*
42273246 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
42273311 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
42273365 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
42273430 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
42273486 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
42273519 CAGCATTCAA
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
119 11 0.08
120 120 0.88
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:42273479 original size:40 final size:40
Alignment explanation
Indices: 42273216--42273465 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
42273206 TCCTCGTTCA
* * * ** *
42273216 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42273255 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42273295 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42273335 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42273375 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
42273415 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
42273455 AAGGCCTTCGG
1 AATGCCTTCGG
42273466 ATCTTAGTCC
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 33 0.17
40 166 0.83
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:42273527 original size:41 final size:41
Alignment explanation
Indices: 42273450--42273527 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42273440 TTAGTATCTC
* * *
42273450 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42273491 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42273528 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42281246 original size:39 final size:40
Alignment explanation
Indices: 42281203--42281409 Score: 287
Period size: 39 Copynumber: 5.3 Consensus size: 40
42281193 TCCTCGTTCA
* * * ** *
42281203 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42281242 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42281281 AATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42281320 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
42281359 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
42281399 AAGGCCTTCGG
1 AATGCCTTCGG
42281410 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 23 0.15
39 95 0.61
40 37 0.24
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:42281423 original size:79 final size:79
Alignment explanation
Indices: 42281203--42281409 Score: 303
Period size: 79 Copynumber: 2.6 Consensus size: 79
42281193 TCCTCGTTCA
* * * *
42281203 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGAC-TAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
42281267 TAACAACTCGCACG
66 TAACAACTCGCACG
**
42281281 AATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
42281345 TTAA-AACTCGCACG
65 TTAACAACTCGCACG
* *
42281359 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGG
42281410 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
77 23 0.20
78 42 0.37
79 50 0.43
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:42281471 original size:41 final size:41
Alignment explanation
Indices: 42281394--42281471 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42281384 TTAGTATCTC
* * *
42281394 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42281435 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42281472 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42294430 original size:126 final size:128
Alignment explanation
Indices: 42294206--42294627 Score: 591
Period size: 126 Copynumber: 3.3 Consensus size: 128
42294196 GTCGATCTGC
* * * * * *
42294206 TTCTTCGATCTACTT-ACCACCAGTAT-GGAAGAC-AGATCTGCGTCGTCGATCCACTT-CAATC
1 TTCTGCGATCTACTTCGCCACCA-TATGGGAAGACAAGATCTGC-ACTTCGATCCACTTCCTACC
* *
42294267 ATTATAGGAAGATA-GA-CTTG-TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
64 A-TATAGGAAGATAGGATC-TGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
42294329 ACT
127 -CT
42294332 TTCTGCGATCTACTT-GCCACCATAT-GGAAGACAAGATCTGCACTTCGATCCACTTCCTACCAT
1 TTCTGCGATCTACTTCGCCACCATATGGGAAGACAAGATCTGCACTTCGATCCACTTCCTACCAT
42294395 ATAGG-AGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC-CT
66 ATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTCT
42294456 TTCTGCGATCTA-TTCGCCACCA-ATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TTCTGCGATCTACTTCGCCACCATATGGGAAGACAAGATCTGCA-CTTCGATCCACTTCCTACC-
42294519 ATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
64 ATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-C
42294584 T
128 T
*
42294585 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
1 TTCTGCGATCTACTTCGCCACC-ATATGGGAAGACAAGATCTG
42294628 TTTTCTGCGA
Statistics
Matches: 272, Mismatches: 9, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
123 4 0.01
124 43 0.16
125 51 0.19
126 79 0.29
127 54 0.20
129 13 0.05
130 9 0.03
131 1 0.00
132 18 0.07
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (128 bp):
TTCTGCGATCTACTTCGCCACCATATGGGAAGACAAGATCTGCACTTCGATCCACTTCCTACCAT
ATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTCT
Found at i:42294673 original size:175 final size:175
Alignment explanation
Indices: 42294199--42295169 Score: 847
Period size: 175 Copynumber: 5.6 Consensus size: 175
42294189 CGCCATCGTC
* * * * *
42294199 GATCTGCT-TCTTCGATCTACTT--ACCACCAGTA-TGGAAGAC-AGATCTGC-GTCGTCGATCC
1 GATCTGCTATCTTCGATCTACTTCGA-CACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCT
* * * * * * * * *
42294258 ACTT-CAATCATTATAGGAAGA-TAGA-CTTGTATCTTTGATCTACTTCACGCCAATACATGAAG
65 ACTTCCCACCAATATAGGAAGACAAGATC-TGTATCTTCGATCTACTTCCCACCAATATAGGAAG
* * * * * *
42294320 ACAAGATCTACTTTCTGCGATCTACTTGC-CACC-ATA-TGGAAGACAA
129 ACAGGATCTGC-ATCTTCGATCCACTT-CACACCAATACAGGAAGACAA
* * * * **
42294366 GATCTGC-A-CTTCGATCCACTTC--CTACC-ATATAGG-AGATAGGATCTGCTACCTTCGATCT
1 GATCTGCTATCTTCGATCTACTTCGAC-ACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCT
* * * * * *
42294425 ACTTCACGCCAATACATGAAGACAAGATCCT-T-TCTGCGATCTA-TTCGCCACC-A-ATGGGAA
65 ACTTCCCACCAATATAGGAAGACAAGAT-CTGTATCTTCGATCTACTTC-CCACCAATATAGGAA
* * * *
42294485 GACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
128 GACAGGATCTGCATCTTCGATCCACTTCAC-ACCAATACAGGAAGACAA
* * *
42294533 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTA
* * *
42294597 CTTCGCCACCAATATGGGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATAT-GGAA
66 CTTC-CCACCAATATAGGAAGACAAGATCTG-TATCTTCGATCTACTTC-CCACCAATATAGGAA
* * *
42294661 GACA-GATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
128 GACAGGATCTGCATCTTCGATCCACTTCAC-ACCAATACAGGAAGACAA
* * *
42294708 GATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTA
* * * *
42294772 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
66 CTTC-CCACCAATATAGGAAGACAAGATCTGTATCTTCGATCTACTTCCCACCAATATAGGAAGA
* * *
42294837 TAGGATCTGC-TACTTCGATCTACTTCACACCAATACATGAAGACAA
130 CAGGATCTGCAT-CTTCGATCCACTTCACACCAATACAGGAAGACAA
* * ** *
42294883 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TTTCTGCGATCTA
1 GATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTA
* * *
42294947 CTTCACCACCAATAT-GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
66 CTTC-CCACCAATATAGGAAGACAAGATCTGTATCTTCGATCTACTTCCCACCAATATAGGAAGA
* * * * *
42295011 TAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
130 CAGGATCTG-CATCTTCGATCCACTTCACACCAATACAGGAAGACAA
* * ** * *
42295058 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
1 GATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTA
* * * * *
42295122 TTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
66 CTTCCCACCAATATAGGAAGACAAGATCTG-TATCTTCGATCTACTTC
42295170 TTGCCCCGGG
Statistics
Matches: 690, Mismatches: 78, Indels: 63
0.83 0.09 0.08
Matches are distributed among these distances:
164 2 0.00
165 21 0.03
166 42 0.06
167 36 0.05
168 23 0.03
169 19 0.03
170 7 0.01
171 29 0.04
172 18 0.03
173 10 0.01
174 99 0.14
175 335 0.49
176 47 0.07
177 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (175 bp):
GATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTA
CTTCCCACCAATATAGGAAGACAAGATCTGTATCTTCGATCTACTTCCCACCAATATAGGAAGAC
AGGATCTGCATCTTCGATCCACTTCACACCAATACAGGAAGACAA
Found at i:42294712 original size:131 final size:132
Alignment explanation
Indices: 42294199--42295169 Score: 915
Period size: 131 Copynumber: 7.5 Consensus size: 132
42294189 CGCCATCGTC
* * * * *
42294199 GATCTGC-TTCTTCGATCTACTTACCACCAGTAT-GGAAGAC-AGATCTGC-GTCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * * * * *
42294260 TT-CAATCATTATAGGAAGA-TAGA-CTTG-TATCTTTGATCTACTTCACGCCAATACATGAAGA
66 TTCCCACCAATATAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
42294321 CAA
130 CAA
* * * *
42294324 GATCTACTTTCTGCGATCTACTTGCCACC-ATAT-GGAAGACAAGATCTGC-A-CTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * * * *
42294385 TTCCTACC-ATATAGG-AGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
42294448 AA
131 AA
* * *
42294450 GATC--CTTTCTGCGATCTA-TTCGCCACC-A-ATGGGAAGACAAGATCTGC-ATCTTCGATCCA
1 GATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * * *
42294509 CTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGA
42294574 CAA
130 CAA
* * * *
42294577 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTTTTCTGCGATCTA
1 GATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
*
42294642 CTTCGCCACCAATAT-GGAAGAC-AGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
65 CTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* *
42294703 GATAG
128 GACAA
* * * * * * *
42294708 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
* *
42294773 TTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAG
66 TTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAG
* *
42294836 ATAG
129 ACAA
* * * * *
42294840 GATCTGC-TACTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
42294904 TTCGCCACCAATATGGGAAGACAAGATCTG-TTTCTGCGATCTACTTCACCACCAATAT-GGAAG
66 TTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAG
42294967 ACAA
129 ACAA
* * * * * *
42294971 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * * * *
42295035 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGA
42295100 CAA
130 CAA
* * * * * * *
42295103 GATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
42295167 TTC
66 TTC
42295170 TTGCCCCGGG
Statistics
Matches: 751, Mismatches: 68, Indels: 47
0.87 0.08 0.05
Matches are distributed among these distances:
123 4 0.01
124 40 0.05
125 57 0.08
126 77 0.10
127 54 0.07
129 13 0.02
130 79 0.11
131 242 0.32
132 156 0.21
133 20 0.03
134 9 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
TTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
AA
Found at i:42294914 original size:306 final size:307
Alignment explanation
Indices: 42294316--42295169 Score: 1525
Period size: 306 Copynumber: 2.8 Consensus size: 307
42294306 GCCAATACAT
*
42294316 GAAGACAAGATCTACTTTCTGCGATCTACTT-GCCACC-ATATGGAAGACAAGATCTGCA-CTTC
1 GAAGACAAGATCT-GTTTCTGCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTC
* *
42294378 GATCCACTTCCTACC-ATATAGG-AGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
65 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACA
*
42294441 TGAAGACAAGATC--CTTTCTGCGATCTA-TTCGCCACC-A-ATGGGAAGACAAGATCTGCATCT
130 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
*
42294501 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATA
195 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACACCAATA
42294566 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
260 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
42294614 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATGGAAGAC-AGATCTGCATCTTC
1 GAAGACAAGATCTG-TTTCTGCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTC
42294678 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACA
65 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACA
42294743 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
130 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
42294808 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTA-CTTCGATCTACTTCACACCAATA
195 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACACCAATA
42294872 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
260 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
*
42294920 GAAGACAAGATCTGTTTCTGCGATCTACTTCACCACCAATATGGAAGACAAGATCTGCATCTTCG
1 GAAGACAAGATCTGTTTCTGCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTCG
42294985 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
66 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
42295050 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
131 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* * *
42295115 CGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
196 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC
42295170 TTGCCCCGGG
Statistics
Matches: 535, Mismatches: 8, Indels: 17
0.96 0.01 0.03
Matches are distributed among these distances:
298 29 0.05
299 15 0.03
300 30 0.06
301 7 0.01
302 52 0.10
304 13 0.02
305 43 0.08
306 268 0.50
307 78 0.15
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (307 bp):
GAAGACAAGATCTGTTTCTGCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTCG
ATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACACCAATAC
ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
Found at i:42295519 original size:133 final size:132
Alignment explanation
Indices: 42295371--42295643 Score: 512
Period size: 133 Copynumber: 2.1 Consensus size: 132
42295361 GCCATCTTTG
42295371 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
42295436 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTG-CTAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTT-GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
42295500 TGC
130 TGC
42295503 AATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACT
1 -ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACT
42295568 GTGGTCAGGGAGGTAAAATCTGCCATCTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
65 GTGGTCAGGGAGGTAAAATCTGCCATCTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
42295633 TGC
130 TGC
42295636 ATCTTCAA
1 ATCTTCAA
42295644 CCAGCTCTAC
Statistics
Matches: 138, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
132 22 0.16
133 116 0.84
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (132 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GC
Found at i:42295713 original size:41 final size:41
Alignment explanation
Indices: 42295666--42295799 Score: 96
Period size: 41 Copynumber: 3.2 Consensus size: 41
42295656 CAAACGAGAG
42295666 AGGCAAGGTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * *
42295707 AGGCAAGATCTGATAACTTCAACCAGC-T--CTG-CTACGACCGAGA
1 AGGCAAGGT-TG-T--CTTCGATCTGCTTCGCTGTCAATG-CAG-GA
*
42295750 GAGGCAAGGTTTGTCTTCGATCTGTTTCGCTGTCAATGCAGGA
1 -AGGCAAGG-TTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
42295793 AGGCAAG
1 AGGCAAG
42295800 ATCTGATAAC
Statistics
Matches: 66, Mismatches: 15, Indels: 23
0.63 0.14 0.22
Matches are distributed among these distances:
41 18 0.27
42 15 0.23
43 6 0.09
44 15 0.23
45 12 0.18
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
AGGCAAGGTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:42295790 original size:86 final size:86
Alignment explanation
Indices: 42295593--42295853 Score: 413
Period size: 86 Copynumber: 3.1 Consensus size: 86
42295583 AAATCTGCCA
* * *
42295593 TCTT-GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAT--CTTCAACCAGCTCTACT
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTG-ATAACTTCAACCAGCTCTGCT
* *
42295655 ACAAACGAGAGAGGCAAGG-TTG
64 ACGACCGAGAGAGGCAAGGTTTG
42295677 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
42295742 GACCGAGAGAGGCAAGGTTTG
66 GACCGAGAGAGGCAAGGTTTG
*
42295763 TCTTCGATCTGTTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
*
42295828 GACCGAGAGAGGCAAGGTTTA
66 GACCGAGAGAGGCAAGGTTTG
42295849 TCTTC
1 TCTTC
42295854 AATTTTTACT
Statistics
Matches: 166, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
83 2 0.01
84 24 0.14
85 48 0.29
86 92 0.55
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
GACCGAGAGAGGCAAGGTTTG
Found at i:42299996 original size:19 final size:20
Alignment explanation
Indices: 42299972--42300015 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
42299962 CGTGAAAGTC
* *
42299972 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
42299991 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
42300011 -AATGC
1 TAATGC
42300016 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:42302205 original size:22 final size:23
Alignment explanation
Indices: 42302170--42302212 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
42302160 AGAAGTAAAC
*
42302170 ATATATGTTATATAAATAACAAA
1 ATATATGTTATATAAAAAACAAA
42302193 ATATAT-TTATATAAAAAACA
1 ATATATGTTATATAAAAAACA
42302213 TAAGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATATGTTATATAAAAAACAAA
Found at i:42303624 original size:11 final size:12
Alignment explanation
Indices: 42303599--42303623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42303589 AAAATCCCCG
42303599 AAGAGAAAAAAA
1 AAGAGAAAAAAA
42303611 AAGAGAAAAAAA
1 AAGAGAAAAAAA
42303623 A
1 A
42303624 GCAGTCCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAGAGAAAAAAA
Found at i:42321800 original size:13 final size:13
Alignment explanation
Indices: 42321782--42321806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42321772 ATTTCCCCTT
42321782 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
42321795 TTTCCTTTCTTT
1 TTTCCTTTCTTT
42321807 TTCTTCTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:42323415 original size:25 final size:24
Alignment explanation
Indices: 42323373--42323488 Score: 83
Period size: 25 Copynumber: 4.7 Consensus size: 24
42323363 GGGTTACCGA
42323373 TTTCAGCTCGTGA-GAGCTTACTAAT
1 TTTCAGCTCGT-ATGAGCTTACT-AT
* *
42323398 TTTCAGCTCGTATTAGCTTACTGT
1 TTTCAGCTCGTATGAGCTTACTAT
* *
42323422 TACTCAGCTCGTATGAGCTTATCGA-
1 T-TTCAGCTCGTATGAGCTTA-CTAT
* * *
42323447 TTACAGCTCGTAAGAGCATACTGAT
1 TTTCAGCTCGTATGAGCTTACT-AT
** *
42323472 TTAGAGCTCATATGAGC
1 TTTCAGCTCGTATGAGC
42323489 ATACATGTAC
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.01
24 19 0.26
25 51 0.71
26 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
TTTCAGCTCGTATGAGCTTACTAT
Found at i:42329257 original size:20 final size:19
Alignment explanation
Indices: 42329221--42329270 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
42329211 TATAGCAACT
*
42329221 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
42329240 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
42329260 CA-ACTTTACAA
1 CACA-TTTACAA
42329271 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:42330942 original size:28 final size:28
Alignment explanation
Indices: 42330910--42330971 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
42330900 TAAAATCCAC
*
42330910 TGGGATAGTAAACACGAGGTAAGTCTGT
1 TGGGATAGTAAACACGAGGTAAGTCTGA
* *
42330938 TGGGACAGTAAACACGAGGTAAGTTTGA
1 TGGGATAGTAAACACGAGGTAAGTCTGA
42330966 TGGGAT
1 TGGGAT
42330972 GCAAAGAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.34, T:0.24
Consensus pattern (28 bp):
TGGGATAGTAAACACGAGGTAAGTCTGA
Found at i:42334842 original size:21 final size:21
Alignment explanation
Indices: 42334818--42334886 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
42334808 TATAATGATT
42334818 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
42334839 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
42334859 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
42334879 ATTATTAT
1 ATTATTAT
42334887 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:42334845 original size:27 final size:29
Alignment explanation
Indices: 42334796--42334852 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
42334786 ATTTTATTTA
*
42334796 GGTTTTATATACTATAATGATTATTATTAT
1 GGTTTTATATA-TATAATGATTATAATTAT
*
42334826 GGTTTTATAT-TA-AATTATTATAATTAT
1 GGTTTTATATATATAATGATTATAATTAT
42334853 TAATTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.52
28 2 0.08
30 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (29 bp):
GGTTTTATATATATAATGATTATAATTAT
Found at i:42334899 original size:15 final size:14
Alignment explanation
Indices: 42334873--42334903 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
42334863 TATGGTTTTA
42334873 TATTAGATTATTAT
1 TATTAGATTATTAT
42334887 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
42334902 TA
1 TA
42334904 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:42341928 original size:44 final size:45
Alignment explanation
Indices: 42341833--42341947 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
42341823 ACAGGACAGA
* *
42341833 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAG
* * *
42341879 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
* **
42341923 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
42341948 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
Found at i:42353156 original size:20 final size:20
Alignment explanation
Indices: 42353131--42353168 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42353121 GTCACATATA
42353131 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
42353151 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
42353169 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:42354400 original size:30 final size:30
Alignment explanation
Indices: 42354365--42354424 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42354355 TATTTTATTA
*
42354365 TTAATTTTGTTATTATTTTAAACGTATTTT
1 TTAATTTTATTATTATTTTAAACGTATTTT
* *
42354395 TTAATTTTATTATTATTTTAGAGGTATTTT
1 TTAATTTTATTATTATTTTAAACGTATTTT
42354425 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAACGTATTTT
Found at i:42362671 original size:14 final size:14
Alignment explanation
Indices: 42362635--42362663 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42362625 ATATTATATA
42362635 TATAATTTTTTAAC
1 TATAATTTTTTAAC
42362649 TATAATTTTTTAAC
1 TATAATTTTTTAAC
42362663 T
1 T
42362664 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TATAATTTTTTAAC
Found at i:42368351 original size:31 final size:31
Alignment explanation
Indices: 42368283--42368356 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
42368273 ATTTAGTGCG
* * * *
42368283 ATTATACACATAAAACTTTGATTGTGGTTCA
1 ATTATATACATTAAACTTTAATTGTGATTCA
* * *
42368314 AATATATACATTAAATTTTAATTTTGATTCA
1 ATTATATACATTAAACTTTAATTGTGATTCA
42368345 ATTATATACATT
1 ATTATATACATT
42368357 TGAAGACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (31 bp):
ATTATATACATTAAACTTTAATTGTGATTCA
Found at i:42369685 original size:21 final size:22
Alignment explanation
Indices: 42369645--42369691 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
42369635 CTCTGCTCAA
*
42369645 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
42369666 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
42369688 ACTC
1 ACTC
42369692 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:42375922 original size:15 final size:15
Alignment explanation
Indices: 42375904--42375955 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
42375894 TGTAAAAGCT
42375904 AATATTATGAATAAG
1 AATATTATGAATAAG
*
42375919 AATAATTCTGTAA-AAGG
1 AAT-ATTATG-AATAA-G
42375936 TAATATTATGAATAAG
1 -AATATTATGAATAAG
42375952 AATA
1 AATA
42375956 ATGCTTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 7 0.23
16 10 0.33
17 10 0.33
18 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.13, T:0.33
Consensus pattern (15 bp):
AATATTATGAATAAG
Found at i:42375934 original size:33 final size:33
Alignment explanation
Indices: 42375892--42375957 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
42375882 CAACGCTATC
42375892 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
*
42375925 TCTGTAAAAGGTAATATTATGAATAAGAATAAT
1 TCTGTAAAAGCTAATATTATGAATAAGAATAAT
42375958 GCTTCTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (33 bp):
TCTGTAAAAGCTAATATTATGAATAAGAATAAT
Found at i:42378693 original size:43 final size:43
Alignment explanation
Indices: 42378596--42378707 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
42378586 ACCGAGATGT
* *
42378596 GATTATATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTATATGTAAGACCATGTCTGGGACATTGGCATTGTAATGC
*
42378639 GATTATATGTAAAACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTATATGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGC
* *
42378682 GATT-TCGTGTAAGACCCTGTCTGGGA
1 GATTAT-ATGTAAGACCATGTCTGGGA
42378708 TAGTGGCGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 55 0.92
44 3 0.05
45 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTATATGTAAGACCATGTCTGGGACATTGGCATTGTAATGC
Found at i:42393460 original size:29 final size:29
Alignment explanation
Indices: 42393427--42393500 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
42393417 GTTGTGAGAT
* *
42393427 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
42393456 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
42393485 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42393501 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:42413887 original size:17 final size:17
Alignment explanation
Indices: 42413865--42413900 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42413855 TGCATATATC
42413865 TAATTATTAATTGTTGT
1 TAATTATTAATTGTTGT
42413882 TAATTATTAATTGTTGT
1 TAATTATTAATTGTTGT
42413899 TA
1 TA
42413901 TCTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (17 bp):
TAATTATTAATTGTTGT
Found at i:42416578 original size:5 final size:6
Alignment explanation
Indices: 42416549--42416576 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
42416539 GCTCGTATTA
42416549 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
42416577 GAGAGCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:42419804 original size:40 final size:40
Alignment explanation
Indices: 42419774--42419983 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
42419764 GGACTAAGAT
* * * **
42419774 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
42419814 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
42419854 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
42419894 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
42419934 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
42419973 CCGAAGGCATT
1 CCGAAGGCATT
42419984 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 33 0.21
40 124 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:42426126 original size:43 final size:43
Alignment explanation
Indices: 42426068--42426154 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
42426058 TTCTACCATA
42426068 AATTTCAAAATTTCAGCATATTCATCCATGAAAAAATTTTCAT
1 AATTTCAAAATTTCAGCATATTCATCCATGAAAAAATTTTCAT
42426111 AATTTCAAAATTTCAGCATATTCATCCATGAAAAAATTTTCAT
1 AATTTCAAAATTTCAGCATATTCATCCATGAAAAAATTTTCAT
42426154 A
1 A
42426155 CTTTGATAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.37
Consensus pattern (43 bp):
AATTTCAAAATTTCAGCATATTCATCCATGAAAAAATTTTCAT
Found at i:42428226 original size:40 final size:41
Alignment explanation
Indices: 42428141--42428256 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 41
42428131 GATAAATGAA
*
42428141 ATAGCTAC-GACTAATTAATAGGCACTAAGTGTACGATACAATT
1 ATAGCTACAG-CTAATTAATTGGCACTAAGTGT--GATACAATT
*
42428184 ATAGCCT-CGGCTAA-TAATTGGCACTAAGTGTGATACAATT
1 ATAG-CTACAGCTAATTAATTGGCACTAAGTGTGATACAATT
*
42428224 ATAGCTACAGCTAATTAATTAGCACTAAGTGTG
1 ATAGCTACAGCTAATTAATTGGCACTAAGTGTG
42428257 CGAGTTTGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
39 2 0.03
40 19 0.29
41 17 0.26
42 16 0.24
43 9 0.14
44 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
ATAGCTACAGCTAATTAATTGGCACTAAGTGTGATACAATT
Found at i:42430072 original size:13 final size:13
Alignment explanation
Indices: 42430056--42430080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42430046 GCATGACTTT
42430056 TGATTATGAAATA
1 TGATTATGAAATA
42430069 TGATTATGAAAT
1 TGATTATGAAAT
42430081 GTTCCGATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TGATTATGAAATA
Found at i:42430189 original size:28 final size:28
Alignment explanation
Indices: 42430149--42430203 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
42430139 GGTGTTACAA
42430149 TTATAATTGATTTATTGTAACAGCCCAG
1 TTATAATTGATTTATTGTAACAGCCCAG
*
42430177 TTATAATTGATTTATTGTAATAGCCCA
1 TTATAATTGATTTATTGTAACAGCCCA
42430204 TTTTTCAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (28 bp):
TTATAATTGATTTATTGTAACAGCCCAG
Found at i:42440288 original size:108 final size:108
Alignment explanation
Indices: 42440099--42440309 Score: 413
Period size: 108 Copynumber: 2.0 Consensus size: 108
42440089 AAAAAGTTAC
42440099 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
1 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
42440164 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
66 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
*
42440207 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGATAGTTTGAAAGCA
1 ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
42440272 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACA
66 GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACA
42440310 AAAAGAAATA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (108 bp):
ACAGAGTTGATTTGGTCTGAGAGACCGAGGAAAAAGTGAAAGTAATTCGAGACAGTTTGAAAGCA
GCCTCTGATCGTTAAAAGTCCTATGATGATCTAAAACATTTTT
Found at i:42444183 original size:40 final size:40
Alignment explanation
Indices: 42444066--42444176 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
42444056 GTGCAGGTTT
*
42444066 CACACGGCTAAGACACATGCCCGTGTTCTAGGCCGTGTAG
1 CACACGGCTGAGACACATGCCCGTGTTCTAGGCCGTGTAG
*
42444106 CACACGGCTGAGACACACGCCCGTGTTCTAGGCCGTGTAG
1 CACACGGCTGAGACACATGCCCGTGTTCTAGGCCGTGTAG
42444146 CACACGGCTGAGACACATGCCCGTGTCTCTA
1 CACACGGCTGAGACACATGCCCGTGT-TCTA
42444177 CCCGTGTGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 63 0.94
41 4 0.06
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (40 bp):
CACACGGCTGAGACACATGCCCGTGTTCTAGGCCGTGTAG
Found at i:42449838 original size:29 final size:29
Alignment explanation
Indices: 42449771--42449924 Score: 247
Period size: 29 Copynumber: 5.3 Consensus size: 29
42449761 AAGTCTACAT
* *
42449771 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
42449799 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
42449828 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
42449857 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
42449886 ACATTCATTTGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
42449915 ACATTCATAT
1 ACATTCATAT
42449925 TCATGCTTTC
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 21 0.18
29 95 0.82
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:42459208 original size:22 final size:23
Alignment explanation
Indices: 42459174--42459218 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
42459164 ATAATTAGAA
42459174 CAAAAATACCCCCCA-AAAAAAC
1 CAAAAATACCCCCCACAAAAAAC
* *
42459196 CAAATATATCCCCCACAAAAAAC
1 CAAAAATACCCCCCACAAAAAAC
42459219 TTAGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.56, C:0.36, G:0.00, T:0.09
Consensus pattern (23 bp):
CAAAAATACCCCCCACAAAAAAC
Found at i:42460890 original size:13 final size:14
Alignment explanation
Indices: 42460857--42460884 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42460847 GTCCCTCAAC
42460857 TAGGCAAATTTTTG
1 TAGGCAAATTTTTG
42460871 TAGGCAAATTTTTG
1 TAGGCAAATTTTTG
42460885 ATGCAACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TAGGCAAATTTTTG
Found at i:42465608 original size:21 final size:21
Alignment explanation
Indices: 42465584--42465624 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42465574 TTTACCTAGA
*
42465584 TGTGAATTGAATTAAATTGAG
1 TGTGAAATGAATTAAATTGAG
*
42465605 TGTGAAATGGATTAAATTGA
1 TGTGAAATGAATTAAATTGA
42465625 CATTAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (21 bp):
TGTGAAATGAATTAAATTGAG
Found at i:42471683 original size:41 final size:40
Alignment explanation
Indices: 42471513--42471690 Score: 213
Period size: 40 Copynumber: 4.5 Consensus size: 40
42471503 AAGCCAAGTA
* * *
42471513 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
42471551 CCTTCAGGACATAGCTCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42471591 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42471631 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
42471672 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42471691 TTATCATCCA
Statistics
Matches: 123, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 11 0.09
39 17 0.14
40 67 0.54
41 24 0.20
42 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42474460 original size:34 final size:34
Alignment explanation
Indices: 42474413--42474477 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
42474403 TGAAATAGTC
*
42474413 TTGGGCCTAAGCCCCT-TTCAGTATCAGTAACGGT
1 TTGGGCCTAAGCCCATCTT-AGTATCAGTAACGGT
*
42474447 TTGGGCCTTAGCCCATCTTAGTATCAGTAAC
1 TTGGGCCTAAGCCCATCTTAGTATCAGTAAC
42474478 AGTCATCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTTAGTATCAGTAACGGT
Found at i:42490328 original size:29 final size:29
Alignment explanation
Indices: 42490243--42490349 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
42490233 TACATCCATG
*
42490243 CATATGGCCCACTAGGGCTAA-TCTTATT
1 CATATGGCCCACTAGGCCTAATTCTTATT
* * *
42490271 CAAATGGCCCATCTA-GCCTAGTTCATATT
1 CATATGGCCCA-CTAGGCCTAATTCTTATT
* *
42490300 CTTATGGCCCACTAGGCCCAATTCTTATT
1 CATATGGCCCACTAGGCCTAATTCTTATT
* *
42490329 CATATAGCCCATTAGGCCTAA
1 CATATGGCCCACTAGGCCTAA
42490350 ATCATATTAT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCTAATTCTTATT
Found at i:42490339 original size:58 final size:57
Alignment explanation
Indices: 42490245--42490357 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
42490235 CATCCATGCA
* * * **
42490245 TATGGCCCACTAGGGCTAATCTTATTCAAATGGCCCATCTA-GCCTAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTTATTCAAATAGCCCAT-TAGGCCTAAATCATATTCT
*
42490302 TATGGCCCACTAGGCCCAATTCTTATTCATATAGCCCATTAGGCCTAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTTATTCAAATAGCCCATTAGGCCTAAATCATATT
42490358 ATATCCATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.40
58 29 0.60
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTTATTCAAATAGCCCATTAGGCCTAAATCATATTCT
Found at i:42490357 original size:29 final size:29
Alignment explanation
Indices: 42490243--42490361 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 29
42490233 TACATCCATG
* *
42490243 CATATGGCCCACTAGGGCT-AATCTTATT
1 CATATGGCCCACTAGGCCTAAATCATATT
* **
42490271 CAAATGGCCCATCTA-GCCTAGTTCATATT
1 CATATGGCCCA-CTAGGCCTAAATCATATT
* * * *
42490300 CTTATGGCCCACTAGGCCCAATTCTTATT
1 CATATGGCCCACTAGGCCTAAATCATATT
* *
42490329 CATATAGCCCATTAGGCCTAAATCATATT
1 CATATGGCCCACTAGGCCTAAATCATATT
42490358 -ATAT
1 CATAT
42490362 CCATGCTCAC
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 20 0.28
29 52 0.72
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCTAAATCATATT
Found at i:42490463 original size:19 final size:19
Alignment explanation
Indices: 42490439--42490476 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42490429 CAGCCCATCA
*
42490439 GGCCCATTTAGCCTATTCT
1 GGCCCATTTAGCCAATTCT
*
42490458 GGCCCATTTGGCCAATTCT
1 GGCCCATTTAGCCAATTCT
42490477 CAACCCAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCT
Found at i:42491886 original size:9 final size:8
Alignment explanation
Indices: 42491870--42491902 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
42491860 AAAAATTCAA
*
42491870 GATTTTGG
1 GATTTTTG
42491878 GATTTTTG
1 GATTTTTG
42491886 GATTTTTG
1 GATTTTTG
42491894 GATTTTTG
1 GATTTTTG
42491902 G
1 G
42491903 GGCATTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.58
Consensus pattern (8 bp):
GATTTTTG
Found at i:42494568 original size:23 final size:24
Alignment explanation
Indices: 42494539--42494624 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
42494529 CCATTACATT
42494539 GCTCTTTGTGAGCTTCCTGATA-G
1 GCTCTTTGTGAGCTTCCTGATATG
* **
42494562 GCTCTTTGTGACCTTCCCAATATG
1 GCTCTTTGTGAGCTTCCTGATATG
* *
42494586 GTTCTTTGTGAACTTCCTGATTATG
1 GCTCTTTGTGAGCTTCCTGA-TATG
*
42494611 GCTC-TTATGAGCTT
1 GCTCTTTGTGAGCTT
42494625 TCCGTTTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
23 19 0.37
24 25 0.49
25 7 0.14
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (24 bp):
GCTCTTTGTGAGCTTCCTGATATG
Found at i:42494595 original size:24 final size:23
Alignment explanation
Indices: 42494539--42494602 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
42494529 CCATTACATT
* **
42494539 GCTCTTTGTGAGCTTCCTGATAG
1 GCTCTTTGTGAACTTCCCAATAG
*
42494562 GCTCTTTGTGACCTTCCCAATATG
1 GCTCTTTGTGAACTTCCCAATA-G
*
42494586 GTTCTTTGTGAACTTCC
1 GCTCTTTGTGAACTTCC
42494603 TGATTATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (23 bp):
GCTCTTTGTGAACTTCCCAATAG
Found at i:42496395 original size:68 final size:65
Alignment explanation
Indices: 42496268--42496442 Score: 163
Period size: 68 Copynumber: 2.6 Consensus size: 65
42496258 GAAGTCCACG
** * * *
42496268 AGGATGTTAAACATGGGATAAAACTGTGTAAGACCATCGTTTAGCTGTGGCAACTTAGAGGGTCC
1 AGGATGTTAAACATGGG-TAAAA-TGTGTAAGACCAT-GGCTAGATGTGACAACATAGAGGGT-C
*
42496333 T-CT
62 TGCC
* *
42496336 AGGATGTTAAACATGGTGTAAAGATATGTAAGACCATGGCTAGGATGTGACAACATAGAGGGTTT
1 AGGATGTTAAACATGG-GTAAA-ATGTGTAAGACCATGGCTA-GATGTGACAACATAGAGGGTCT
42496401 GCC
63 GCC
* * *
42496404 ATGACGTTAAAAATGGGGTAAAAATGTGTAAGACCATGG
1 AGGATGTTAAACAT-GGGT-AAAATGTGTAAGACCATGG
42496443 TTCTCGGCTA
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
67 4 0.04
68 78 0.88
69 7 0.08
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (65 bp):
AGGATGTTAAACATGGGTAAAATGTGTAAGACCATGGCTAGATGTGACAACATAGAGGGTCTGCC
Found at i:42496493 original size:70 final size:68
Alignment explanation
Indices: 42496401--42496530 Score: 188
Period size: 70 Copynumber: 1.9 Consensus size: 68
42496391 TAGAGGGTTT
* * *
42496401 GCCATGACGTTAAAAATGGGGTAAAAATGTGTAAGACCATGGTTCTCGGCTATGGCAACATAAAT
1 GCCAAGACGTTAAAAATGGGGTAAAAATATGTAAGACCAT--TTCTCGGCCATGGCAACATAAAT
42496466 CATCC
64 CATCC
* * *
42496471 GCCAAGACGTTAAACATTGGGTAAAAATATGTATGACCATTTCTCGGCCATGGCAACATA
1 GCCAAGACGTTAAAAATGGGGTAAAAATATGTAAGACCATTTCTCGGCCATGGCAACATA
42496531 GAGATTCCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 19 0.35
70 35 0.65
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (68 bp):
GCCAAGACGTTAAAAATGGGGTAAAAATATGTAAGACCATTTCTCGGCCATGGCAACATAAATCA
TCC
Found at i:42496552 original size:68 final size:68
Alignment explanation
Indices: 42496410--42496556 Score: 154
Period size: 68 Copynumber: 2.1 Consensus size: 68
42496400 TGCCATGACG
* * * *
42496410 TTAAAAATGGGGTAAAAATGTGTAAGACCATGGTTCTCGGCTATGGCAACATAAATCATCCGCCA
1 TTAAACATGGGGTAAAAATATGTAAGACCAT-GTTCTCGGCCATGGCAACATAAAT-ATCCACCA
*
42496475 AGACG
64 AGACA
* * *
42496480 TTAAACATTGGGTAAAAATATGTATGACCAT-TTCTCGGCCATGGCAACATAGAGAT-TCCATCA
1 TTAAACATGGGGTAAAAATATGTAAGACCATGTTCTCGGCCATGGCAACATA-A-ATATCCACCA
* *
42496543 GGGCA
64 AGACA
42496548 TTAAACATG
1 TTAAACATG
42496557 TGGTCTGAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
68 34 0.53
69 1 0.02
70 29 0.45
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (68 bp):
TTAAACATGGGGTAAAAATATGTAAGACCATGTTCTCGGCCATGGCAACATAAATATCCACCAAG
ACA
Found at i:42497976 original size:27 final size:27
Alignment explanation
Indices: 42497941--42498011 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
42497931 AAAAGAAAAT
*
42497941 CTTTGTGGTGATCTATGAAAAGGAAGC
1 CTTTATGGTGATCTATGAAAAGGAAGC
*
42497968 TTTTATGGTGATCTATGAAAAGGAAGC
1 CTTTATGGTGATCTATGAAAAGGAAGC
* *
42497995 CTTTGTGGCGATCTATG
1 CTTTATGGTGATCTATG
42498012 GAGGAAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (27 bp):
CTTTATGGTGATCTATGAAAAGGAAGC
Found at i:42501367 original size:47 final size:47
Alignment explanation
Indices: 42501314--42501424 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
42501304 TTTAGGATTT
* * * * * *
42501314 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGACA
**
42501361 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGACA
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGACA
*
42501408 AATGTGATGAACGTGAA
1 AATGTGATGAATGTGAA
42501425 AGTGTATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGACA
Found at i:42503214 original size:40 final size:40
Alignment explanation
Indices: 42503020--42503298 Score: 290
Period size: 40 Copynumber: 7.0 Consensus size: 40
42503010 TTGAGAGTGA
* * * ** *
42503020 TATACCCGGGCTAAGTCCCGAAGAGCATGCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
* ** *
42503060 TATA-CCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCC-GGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
* * * ** *
42503100 TATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
* * *
42503140 TATATCAGGGTTAAGTCTCGAAGGGCATTCGTGCCGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
42503180 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
* * * * * *
42503220 TATATCCAGGCTAAATCCTGAAGGGTATTCGTTCCGATGT
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
* * *
42503260 TATATTCGGGCTAAGTCTCGAAAGGCATTCGTGCCGGTG
1 TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
42503299 ATGTGTATTC
Statistics
Matches: 208, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.01
40 205 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGT
Found at i:42507481 original size:47 final size:47
Alignment explanation
Indices: 42507428--42507538 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
42507418 TTTAGGATTT
* * * *
42507428 AATGTGATAAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* **
42507475 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* *
42507522 AATGTGATGAACGTGAA
1 AATGTGATAAATGTGAA
42507539 AGTGTATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
Found at i:42507492 original size:22 final size:22
Alignment explanation
Indices: 42507467--42507538 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
42507457 TGATAAGGCC
*
42507467 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAACGT
* * * *
42507489 GAATGTGCATATATGAGAT-AAGGCA
1 GAATG-GC-CA-ATGTGATGAACG-T
42507514 GAATGGCCAATGTGATGAACGT
1 GAATGGCCAATGTGATGAACGT
42507536 GAA
1 GAA
42507539 AGTGTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 6 0.16
25 11 0.30
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.24
Consensus pattern (22 bp):
GAATGGCCAATGTGATGAACGT
Found at i:42507548 original size:47 final size:47
Alignment explanation
Indices: 42507447--42507550 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
42507437 AATGTGAGCA
* * * * *
42507447 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
42507494 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
*
42507541 TGTATATATG
1 TGCATATATG
42507551 TGGCAAAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
Found at i:42507565 original size:47 final size:47
Alignment explanation
Indices: 42507464--42507572 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 47
42507454 GTGTGATAAG
* * * *
42507464 GCCGAATGGCCAATGTGATGAATGTGAATGTGCATATATGAGATAAG
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
* * * *
42507511 GCAGAATGGCCAATGTGATGAACGTGAAAGTGTATATATGTGGCAAA
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
*
42507558 GCCGAATGGCTAATG
1 GCCGAATGGCCAATG
42507573 CGAAACGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
Found at i:42509272 original size:77 final size:75
Alignment explanation
Indices: 42509134--42509388 Score: 284
Period size: 77 Copynumber: 3.4 Consensus size: 75
42509124 GTGATATACC
* * *
42509134 CGGGCTAAGTCCGAAGAGCA-TCGTG-TAGTGATATACCGGGCTAAGTCCCGAAGAGCATTCGTG
1 CGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGTTATATCGGGCTAAGT-CCGAAGGGCATTCGTG
*
42509197 CTAGTGATATAT
65 C-AGTGTTATAT
* *
42509209 C-GGCTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATATCAGGGTTAAGTCCGAAGGGCATTCGT
1 CGGGCTAAGTC-CGAAGAGCATTCGTGCTAGTGTTATATC-GGGCTAAGTCCGAAGGGCATTCGT
*
42509273 GCCGGTGTTATAT
64 G-CAGTGTTATAT
* ** * * * *
42509286 CCGGGCTAAGTCCGAAGGGCATTCGTGCCGGTGTTATATCCGGCTAAATCCGAAGGGTATTCGTT
1 -CGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGTTATATCGGGCTAAGTCCGAAGGGCATTCGTG
*
42509351 CCGATGTTATAT
65 CAG-TGTTATAT
42509363 CGGGCTAAGTCCGAAG-GCATTCGTGC
1 CGGGCTAAGTCCGAAGAGCATTCGTGC
42509389 CGGTGATTGT
Statistics
Matches: 155, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
74 9 0.06
75 20 0.13
76 23 0.15
77 60 0.39
78 34 0.22
79 9 0.06
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (75 bp):
CGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGTTATATCGGGCTAAGTCCGAAGGGCATTCGTGC
AGTGTTATAT
Found at i:42509274 original size:39 final size:38
Alignment explanation
Indices: 42509134--42509388 Score: 277
Period size: 38 Copynumber: 6.7 Consensus size: 38
42509124 GTGATATACC
* * *
42509134 CGGGCTAAGTCCGAAGAGCA-TCGTG-TAGTGATATAC
1 CGGGCTAAGTCCGAAGGGCATTCGTGCTAGTGTTATAT
* *
42509170 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CGGGCTAAGT-CCGAAGGGCATTCGTGCTAGTGTTATAT
* *
42509209 C-GGCTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATAT
1 CGGGCTAAGTC-CGAAGGGCATTCGTGCTAGTGTTATAT
* **
42509247 CAGGGTTAAGTCCGAAGGGCATTCGTGCCGGTGTTATAT
1 C-GGGCTAAGTCCGAAGGGCATTCGTGCTAGTGTTATAT
**
42509286 CCGGGCTAAGTCCGAAGGGCATTCGTGCCGGTGTTATAT
1 -CGGGCTAAGTCCGAAGGGCATTCGTGCTAGTGTTATAT
* * * * *
42509325 CCGGCTAAATCCGAAGGGTATTCGTTC-CGATGTTATAT
1 CGGGCTAAGTCCGAAGGGCATTCGTGCTAG-TGTTATAT
42509363 CGGGCTAAGTCCGAA-GGCATTCGTGC
1 CGGGCTAAGTCCGAAGGGCATTCGTGC
42509389 CGGTGATTGT
Statistics
Matches: 193, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
36 10 0.05
37 21 0.11
38 83 0.43
39 70 0.36
40 9 0.05
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
CGGGCTAAGTCCGAAGGGCATTCGTGCTAGTGTTATAT
Found at i:42513557 original size:47 final size:47
Alignment explanation
Indices: 42513505--42513615 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
42513495 TTTAGGATTT
* * * *
42513505 AATGTGATAAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* **
42513552 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* *
42513599 AATGTGATGAACGTGAA
1 AATGTGATAAATGTGAA
42513616 AGTGTATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
Found at i:42513569 original size:22 final size:22
Alignment explanation
Indices: 42513544--42513615 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
42513534 TGATAAGGCC
*
42513544 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAACGT
* * * *
42513566 GAATGTGCATATATGAGAT-AAGGCA
1 GAATG-GC-CA-ATGTGATGAACG-T
42513591 GAATGGCCAATGTGATGAACGT
1 GAATGGCCAATGTGATGAACGT
42513613 GAA
1 GAA
42513616 AGTGTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 6 0.16
25 11 0.30
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.24
Consensus pattern (22 bp):
GAATGGCCAATGTGATGAACGT
Found at i:42513625 original size:47 final size:47
Alignment explanation
Indices: 42513524--42513627 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
42513514 AATGTGAGCA
* * * * *
42513524 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
42513571 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
*
42513618 TGTATATATG
1 TGCATATATG
42513628 TGGCAAAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
Found at i:42513642 original size:47 final size:47
Alignment explanation
Indices: 42513541--42513649 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 47
42513531 GTGTGATAAG
* * * *
42513541 GCCGAATGGCCAATGTGATGAATGTGAATGTGCATATATGAGATAAG
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
* * * *
42513588 GCAGAATGGCCAATGTGATGAACGTGAAAGTGTATATATGTGGCAAA
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
*
42513635 GCCGAATGGCTAATG
1 GCCGAATGGCCAATG
42513650 CGAAACGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
Found at i:42515272 original size:40 final size:39
Alignment explanation
Indices: 42515185--42515447 Score: 230
Period size: 40 Copynumber: 7.0 Consensus size: 39
42515175 GAGAATTGAG
42515185 AGTGATATACCCGGGCTAAGTCCCGAAGAGCA-TCGTGCT
1 AGTGATATA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
42515224 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42515264 AGTGATATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
42515304 AGAGTTATATCGGGCTAAGT-CCGAAG-GCATTCGTG-T
1 AGTGATATACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42515340 --T-ATAT--CGGGCTAAGT-CCGAAGGGCATTCGTGCC
1 AGTGATATACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * * * * *
42515373 GGTGTTATATCCAGGCTAAATCCTGAAGGGTATTCGTTC-
1 AGTGATATA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42515412 CGATGTTATA-CGGGCTAAGT-CCGAAG-GCATTCGTGC
1 AG-TGATATACCGGGCTAAGTCCCGAAGAGCATTCGTGC
42515448 CGGTGATTGT
Statistics
Matches: 190, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
31 16 0.08
32 9 0.05
33 3 0.02
35 1 0.01
36 12 0.06
37 14 0.07
38 13 0.07
39 50 0.26
40 72 0.38
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
AGTGATATACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:42515345 original size:31 final size:32
Alignment explanation
Indices: 42515307--42515370 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
42515297 TCGTGCTAGA
42515307 GTTATATCGGGCTAAGTCCGAA-GGCATTCGT
1 GTTATATCGGGCTAAGTCCGAAGGGCATTCGT
42515338 GTTATATCGGGCTAAGTCCGAAGGGCATTCGT
1 GTTATATCGGGCTAAGTCCGAAGGGCATTCGT
42515370 G
1 G
42515371 CCGGTGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (32 bp):
GTTATATCGGGCTAAGTCCGAAGGGCATTCGT
Found at i:42519618 original size:47 final size:47
Alignment explanation
Indices: 42519565--42519675 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
42519555 TTTAGGATTT
* * * *
42519565 AATGTGATAAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* **
42519612 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
* *
42519659 AATGTGATGAACGTGAA
1 AATGTGATAAATGTGAA
42519676 AGTGTATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGATAAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
Found at i:42519629 original size:22 final size:22
Alignment explanation
Indices: 42519604--42519675 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
42519594 TGATAAGGCC
*
42519604 GAATGGCCAATGTGATGAATGT
1 GAATGGCCAATGTGATGAACGT
* * * *
42519626 GAATGTGCATATATGAGAT-AAGGCA
1 GAATG-GC-CA-ATGTGATGAACG-T
42519651 GAATGGCCAATGTGATGAACGT
1 GAATGGCCAATGTGATGAACGT
42519673 GAA
1 GAA
42519676 AGTGTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 6 0.16
25 11 0.30
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.24
Consensus pattern (22 bp):
GAATGGCCAATGTGATGAACGT
Found at i:42519685 original size:47 final size:47
Alignment explanation
Indices: 42519584--42519687 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
42519574 AATGTGAGCA
* * * * *
42519584 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
42519631 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
1 TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
*
42519678 TGTATATATG
1 TGCATATATG
42519688 TGGCAAAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TGCATATATGAGATAAGGCAGAATGGCCAATGTGATGAACGTGAAAG
Found at i:42519702 original size:47 final size:47
Alignment explanation
Indices: 42519601--42519709 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 47
42519591 GTGTGATAAG
* * * *
42519601 GCCGAATGGCCAATGTGATGAATGTGAATGTGCATATATGAGATAAG
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
* * * *
42519648 GCAGAATGGCCAATGTGATGAACGTGAAAGTGTATATATGTGGCAAA
1 GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
*
42519695 GCCGAATGGCTAATG
1 GCCGAATGGCCAATG
42519710 CGAAACGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAACGTGAAAGTGCATATATGAGACAAA
Found at i:42521414 original size:40 final size:40
Alignment explanation
Indices: 42521263--42521574 Score: 343
Period size: 40 Copynumber: 8.0 Consensus size: 40
42521253 GAGAATTGAG
* *
42521263 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTG-T
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* *
42521302 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
42521342 AG-GATATA-CC-GGCT-AGT-CCGAA-GGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * *
42521376 AGTGATATATCCGAGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * * *
42521416 AGAGTTATATCAGGGTTAAGTCCCGAAGGGCATTCGTGCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
42521456 GGTGTTATATCCGGGCTAAGTCTCGAAGGGCATTCGTGCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
42521496 GGTGTTATATCCGGGCTAAATCCCGAAGGGTATTCGTGC-
1 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
* * * *
42521535 CGATGTTATACCCGGGCTAATTCCCGAAGGGCATTCGTGC
1 AG-TGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGC
42521575 CGGTGATTTG
Statistics
Matches: 241, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
34 13 0.05
35 11 0.05
36 5 0.02
37 7 0.03
38 5 0.02
39 49 0.20
40 151 0.63
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
Found at i:42521514 original size:120 final size:115
Alignment explanation
Indices: 42521263--42521581 Score: 383
Period size: 120 Copynumber: 2.7 Consensus size: 115
42521253 GAGAATTGAG
* * *
42521263 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTG-TAGTGATATACCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGAGTTATACCCGGGCTAAGTCCCG
* ** *
42521327 AAGAGCATTCGTGCTAG-GATATACCGGCTAGTCCGAAGGCATTCGTGCT
66 AAGGGCATTCGTGCCGGTGATATACCGGCTAGTCCGAAGGCATTCGTGCC
* * * * *
42521376 AGTGATATATCCGAGCTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATATCAGGGTTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGAGTTATACCCGGGCTAAGTCCCG
*
42521441 AAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCTCGAAGGGCATTCGTGCC
66 AAGGGCATTCGTGCCGGTGATATA-CC-GGCT-AGTC-CGAA-GGCATTCGTGCC
* * * * * * *
42521496 GGTGTTATATCCGGGCTAAATCCCGAAGGGTATTCGTGC-CGATGTTATACCCGGGCTAATTCCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGA-GTTATACCCGGGCTAAGTCCC
42521560 GAAGGGCATTCGTGCCGGTGAT
65 GAAGGGCATTCGTGCCGGTGAT
42521582 TTGTATTCGG
Statistics
Matches: 172, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
113 35 0.20
114 35 0.20
115 5 0.03
116 2 0.01
117 4 0.02
118 4 0.02
119 6 0.03
120 81 0.47
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (115 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGAGTTATACCCGGGCTAAGTCCCG
AAGGGCATTCGTGCCGGTGATATACCGGCTAGTCCGAAGGCATTCGTGCC
Found at i:42525760 original size:47 final size:47
Alignment explanation
Indices: 42525707--42525817 Score: 159
Period size: 47 Copynumber: 2.4 Consensus size: 47
42525697 TTTAGGATTT
* * * *
42525707 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
**
42525754 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
*
42525801 AATGTGATGAACGTGAA
1 AATGTGATGAATGTGAA
42525818 AGTGTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCC
Found at i:42525761 original size:22 final size:22
Alignment explanation
Indices: 42525734--42525808 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
42525724 CATGCATATG
*
42525734 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * *
42525756 TGTGATGAATG-TGAATGTGCATATA
1 TGTGAT-AAGGCAGAATG-GC-CA-A
*
42525781 TGAGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
42525803 TGTGAT
1 TGTGAT
42525809 GAACGTGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:42525844 original size:47 final size:47
Alignment explanation
Indices: 42525707--42525851 Score: 141
Period size: 47 Copynumber: 3.1 Consensus size: 47
42525697 TTTAGGATTT
* * * * *
42525707 AATGTGATGAATGTGAGCA-TGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAACGTGA-AAGTGCATATATGAGAGAAGGCCGAATGGCC
* * * *
42525754 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCAGAATGGCC
1 AATGTGATGAACGTGAAAGTGCATATATGAGAGAAGGCCGAATGGCC
* * * *
42525801 AATGTGATGAACGTGAAAGTGTATATATGTGGCGAA-GCCGAATGGCT
1 AATGTGATGAACGTGAAAGTGCATATATG-AGAGAAGGCCGAATGGCC
42525848 AATG
1 AATG
42525852 CGAAACGTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 80 0.96
48 3 0.04
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAACGTGAAAGTGCATATATGAGAGAAGGCCGAATGGCC
Found at i:42525909 original size:46 final size:46
Alignment explanation
Indices: 42525825--42525913 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
42525815 GAAAGTGTAT
* * *
42525825 ATATGTGGCGAAGCCGAATGGCTAATGCGAAACGTGTATGAGACGG
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
* * * *
42525871 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGA
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGA
42525914 TGTGTATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
Found at i:42527672 original size:25 final size:27
Alignment explanation
Indices: 42527612--42527673 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
42527602 GTTAGATTGT
42527612 TAGGGCAATAAACACGAGGTAGTCCAC
1 TAGGGCAATAAACACGAGGTAGTCCAC
*
42527639 -AGGGACAATAAA-ATGAGGTAG-CCAC
1 TAGGG-CAATAAACACGAGGTAGTCCAC
42527664 TAGGGCAATA
1 TAGGGCAATA
42527674 TTCGTGGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 9 0.28
26 16 0.50
27 7 0.22
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (27 bp):
TAGGGCAATAAACACGAGGTAGTCCAC
Found at i:42528594 original size:15 final size:14
Alignment explanation
Indices: 42528574--42528607 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
42528564 AATAAATGAA
42528574 ATGAAAGTGATGGTT
1 ATGAAAG-GATGGTT
42528589 ATGAAAAGGATGGTT
1 ATG-AAAGGATGGTT
42528604 ATGA
1 ATGA
42528608 GGTATGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.06
15 13 0.72
16 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (14 bp):
ATGAAAGGATGGTT
Found at i:42529921 original size:29 final size:29
Alignment explanation
Indices: 42529827--42529962 Score: 88
Period size: 29 Copynumber: 4.8 Consensus size: 29
42529817 TGCTATCTCT
* *
42529827 AAAAGGAGGCCTTTGTGG-T-TATCTAT-
1 AAAAGGATGCCTTTGTGGCTATCTCTATC
* * *
42529853 GAAAGGATGCCTTT-TTGCTATCT-TAGTT
1 AAAAGGATGCCTTTGTGGCTATCTCTA-TC
* *
42529881 ATAAA-AAAGCCTTTGTGGCTATCTCTGA-C
1 A-AAAGGATGCCTTTGTGGCTATCTCT-ATC
* * *
42529910 AAAATGATGCCTTTCTGGCTATCTCTATT
1 AAAAGGATGCCTTTGTGGCTATCTCTATC
**
42529939 AAAAGGATATCTTTGTGGCTATCT
1 AAAAGGATGCCTTTGTGGCTATCT
42529963 ATGTTAAAGG
Statistics
Matches: 83, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
25 2 0.02
26 15 0.18
27 3 0.04
28 11 0.13
29 50 0.60
30 1 0.01
31 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (29 bp):
AAAAGGATGCCTTTGTGGCTATCTCTATC
Found at i:42529969 original size:29 final size:29
Alignment explanation
Indices: 42529890--42529970 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
42529880 TATAAAAAAG
** * *
42529890 CCTTTGTGGCTATCTCTGACAAAATGATG
1 CCTTTGTGGCTATCTCTGTTAAAAGGATA
* *
42529919 CCTTTCTGGCTATCTCTATTAAAAGGATA
1 CCTTTGTGGCTATCTCTGTTAAAAGGATA
* *
42529948 TCTTTGTGGCTATCTATGTTAAA
1 CCTTTGTGGCTATCTCTGTTAAA
42529971 GGAATGCCTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (29 bp):
CCTTTGTGGCTATCTCTGTTAAAAGGATA
Found at i:42530361 original size:31 final size:31
Alignment explanation
Indices: 42530326--42530520 Score: 372
Period size: 31 Copynumber: 6.3 Consensus size: 31
42530316 TAAGGATAAT
*
42530326 GTAAAGGTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
42530357 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
42530388 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
42530419 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
*
42530450 GTAAAGCTAAGGTTTAAGAAAATAGATAAAT
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
42530481 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
1 GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
42530512 GTAAAGCTA
1 GTAAAGCTA
42530521 TGTTAAGTAT
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 161 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (31 bp):
GTAAAGCTAAGGTTTAAGAAAATAGATAAAA
Found at i:42536731 original size:29 final size:29
Alignment explanation
Indices: 42536698--42536770 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
42536688 GTGCCATTTC
*
42536698 GTGTGAGCCACACGGTCGTGTGCTAGGTCA
1 GTGTGAGCCACACGGTCGTGTGCCAGGT-A
* **
42536728 -TGTGAGTCACATAGTCGTGTGCCAGGTA
1 GTGTGAGCCACACGGTCGTGTGCCAGGTA
42536756 GTGTCG-GCCACACGG
1 GTGT-GAGCCACACGG
42536771 GTGTGTGAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (29 bp):
GTGTGAGCCACACGGTCGTGTGCCAGGTA
Found at i:42537298 original size:15 final size:16
Alignment explanation
Indices: 42537266--42537297 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42537256 CGGAGATGGT
*
42537266 GTGTAGCAAATGGGGG
1 GTGTAGAAAATGGGGG
42537282 GTGTAGAAAATGGGGG
1 GTGTAGAAAATGGGGG
42537298 TAGGATCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.03, G:0.50, T:0.19
Consensus pattern (16 bp):
GTGTAGAAAATGGGGG
Found at i:42553091 original size:21 final size:21
Alignment explanation
Indices: 42553066--42553142 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
42553056 TCTTTAATTT
42553066 TTAATTTTAATTTTATTTATTA
1 TTAATTTT-ATTTTATTTATTA
*
42553088 -TAATTATTATTTTATTTCTTA
1 TTAATT-TTATTTTATTTATTA
*
42553109 TTTTATTTTATTTTATTTCATT-
1 -TTAATTTTATTTTATTT-ATTA
*
42553131 TT-GTTTTATTTT
1 TTAATTTTATTTT
42553143 TAATTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 9 0.19
21 19 0.40
22 13 0.28
23 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (21 bp):
TTAATTTTATTTTATTTATTA
Found at i:42553102 original size:5 final size:5
Alignment explanation
Indices: 42553064--42553155 Score: 71
Period size: 5 Copynumber: 17.4 Consensus size: 5
42553054 AATCTTTAAT
*
42553064 TTTTAA TTTTAA TTTTA -TTTA TTATAA TTATTA TTTTA TTTCTTA TTTTA
1 TTTT-A TTTT-A TTTTA TTTTA TT-TTA TT-TTA TTTTA -TT-TTA TTTTA
* * *
42553114 TTTTA TTTTA TTTCA TTTTG TTTTA TTTT- TAATTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TT
42553156 ATTTTAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
4 5 0.07
5 40 0.56
6 24 0.33
7 3 0.04
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:42556579 original size:10 final size:10
Alignment explanation
Indices: 42556564--42556623 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
42556554 AAATTTTAGG
42556564 ATTTAT-TTT
1 ATTTATCTTT
42556573 CATTTATCTTT
1 -ATTTATCTTT
42556584 ATTTATCTTT
1 ATTTATCTTT
*
42556594 AATTATCTTT
1 ATTTATCTTT
42556604 ATTTAT-TTGT
1 ATTTATCTT-T
42556614 ATTTATCTTT
1 ATTTATCTTT
42556624 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:42562860 original size:27 final size:27
Alignment explanation
Indices: 42562829--42562886 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
42562819 ACAATCATAC
*
42562829 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACAAAGGGGCATAACAGTCATTTT
*
42562856 ATCACAAAGGGGCATAATAGTCATTTT
1 ATCACAAAGGGGCATAACAGTCATTTT
42562883 ATCA
1 ATCA
42562887 ATTAAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACAAAGGGGCATAACAGTCATTTT
Found at i:42564984 original size:46 final size:46
Alignment explanation
Indices: 42564823--42565044 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 46
42564813 GGGATAAGAT
* * * **
42564823 GCCGATGCCTGTCCCAGATATGATCTTACACTGGCTAGCA-CATCAAA
1 GCCGATGCATGTCCCAGACATG-TCTTACACTAGCTCTCATC-TCAAA
* * * * *
42564870 GTCGATGCCATGTCCCAGATA-GCTCTTACACTAGCTTGTATATCTC-GA
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGC-TCT-CATCTCAAA
* *
42564918 GCCTGATGCATGTACCAGACATGTCTTACACTAGCTCTCGTCTCAAA
1 GCC-GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAA
* * **
42564965 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-ATG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAA
*
42565011 GCCGATGCATGTCCCAGACATGTCTTACGCTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
42565045 ACACATATCA
Statistics
Matches: 144, Mismatches: 23, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
46 71 0.49
47 25 0.17
48 39 0.27
49 8 0.06
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAA
Found at i:42565215 original size:52 final size:52
Alignment explanation
Indices: 42565137--42565241 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
42565127 CAACATGCAT
42565137 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
1 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
42565189 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
1 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
42565241 A
1 A
42565242 TAACAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (52 bp):
ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
Found at i:42578551 original size:16 final size:16
Alignment explanation
Indices: 42578530--42578580 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
42578520 TTCTGGATTA
42578530 CCAGTCCAGGCTAAAT
1 CCAGTCCAGGCTAAAT
*
42578546 CCAGT-CA-GCTAGGATT
1 CCAGTCCAGGCTA--AAT
42578562 ACCAGTCCAGGCTAAAT
1 -CCAGTCCAGGCTAAAT
42578579 CC
1 CC
42578581 TAATTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 9 0.32
17 7 0.25
18 2 0.07
19 4 0.14
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (16 bp):
CCAGTCCAGGCTAAAT
Found at i:42580401 original size:46 final size:46
Alignment explanation
Indices: 42580343--42580513 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
42580333 ACGTCCCATA
*
42580343 GCCGATACATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGAG
* * * ** * *
42580389 GCCGATGCATGTCCCAGACATGTCTTGCACTAGCTCTGGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
* * * * * *
42580435 GTCGAAGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAG
*
42580483 GCCGATGCATGTCCCAAACATGTTTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
42580514 AGCGCACAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
46 50 0.52
47 26 0.27
48 20 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:42581237 original size:13 final size:13
Alignment explanation
Indices: 42581219--42581243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42581209 CTAAAAGTGA
42581219 AAAAATCATCAAG
1 AAAAATCATCAAG
42581232 AAAAATCATCAA
1 AAAAATCATCAA
42581244 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:42583859 original size:27 final size:27
Alignment explanation
Indices: 42583829--42583884 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
42583819 AATCTCATAT
* *
42583829 TTGTAGGCTAGTATTATTGAAATACCC
1 TTGTAGGCTAGAATTACTGAAATACCC
*
42583856 TTGTAGGGTAGAATTACTGAAATACCC
1 TTGTAGGCTAGAATTACTGAAATACCC
42583883 TT
1 TT
42583885 AGTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (27 bp):
TTGTAGGCTAGAATTACTGAAATACCC
Found at i:42583986 original size:81 final size:80
Alignment explanation
Indices: 42583874--42584152 Score: 307
Period size: 81 Copynumber: 3.4 Consensus size: 80
42583864 TAGAATTACT
* ** * *
42583874 GAAATACCCTTAGTTTAAAAAATTA-CGAAAATACCCTCG-ATTAGTAAAATTACTAAAATACCC
1 GAAATACCCTGA-TTTGTAAAATTATC-AAAATACCCTTGTATT-GTAGAATTACTAAAATACCC
*
42583937 CTAGTTTGTAAAATTATC
63 CTAATTTGTAAAATTATC
* * ** *
42583955 GAAATACCACTAATTTGTAAAATTATCAAAATACCCTTGTAGTGTAGAATTACCGAAATACCCCC
1 GAAATACC-CTGATTTGTAAAATTATCAAAATACCCTTGTATTGTAGAATTACTAAAATACCCCT
*
42584020 AATTTGTAAAATTATT
65 AATTTGTAAAATTATC
* *
42584036 GAAATATCCCCGATTTGTTAAAATT-TTAAAATACCCTTGTATTGTAGAATTA-TCAAAATACCC
1 GAAATA-CCCTGATTTG-TAAAATTATCAAAATACCCTTGTATTGTAGAATTACT-AAAATACCC
42584099 CTAATTTGTAAAATTA-C
63 CTAATTTGTAAAATTATC
*
42584116 TGAAATACCCTCGATTTGTAAAATTATCGAAATACCC
1 -GAAATACCCT-GATTTGTAAAATTATCAAAATACCC
42584153 CCCAATTTAT
Statistics
Matches: 167, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
80 10 0.06
81 142 0.85
82 15 0.09
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (80 bp):
GAAATACCCTGATTTGTAAAATTATCAAAATACCCTTGTATTGTAGAATTACTAAAATACCCCTA
ATTTGTAAAATTATC
Found at i:42584202 original size:27 final size:27
Alignment explanation
Indices: 42583848--42584209 Score: 160
Period size: 27 Copynumber: 13.4 Consensus size: 27
42583838 AGTATTATTG
* ** * *
42583848 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTATATTGTAAAATTACTA
** *
42583875 AAATACCCTTAGT-TTAAAAAATTACGA
1 AAATACCCTTA-TATTGTAAAATTACTA
* *
42583902 AAATACCCTCGAT-TAGTAAAATTACTA
1 AAATACCCT-TATATTGTAAAATTACTA
* *
42583929 AAATACCCCTAGT-TTGTAAAATTA-TCG
1 AAATACCCTTA-TATTGTAAAATTACT-A
*
42583956 AAATACCACTAAT-TTGTAAAATTA-TCA
1 AAATACC-CTTATATTGTAAAATTACT-A
* * * **
42583983 AAATACCCTTGTAGTGTAGAATTACCG
1 AAATACCCTTATATTGTAAAATTACTA
** * *
42584010 AAATACCCCCA-ATTTGTAAAATTATTG
1 AAATACCCTTATA-TTGTAAAATTACTA
** *
42584037 AAATATCCCCGAT-TTGTTAAAATT-TTA
1 AAATA-CCCTTATATTG-TAAAATTACTA
* *
42584064 AAATACCCTTGTATTGTAGAATTA-TCA
1 AAATACCCTTATATTGTAAAATTACT-A
* *
42584091 AAATACCCCTA-ATTTGTAAAATTACTG
1 AAATACCCTTATA-TTGTAAAATTACTA
* *
42584118 AAATACCCTCGAT-TTGTAAAATTA-TCG
1 AAATACCCT-TATATTGTAAAATTACT-A
** *
42584145 AAATACCCCCCA-ATTTATAAAATTA-TCA
1 AAATA-CCCTTATA-TTGTAAAATTACT-A
*
42584173 AAATACCCTTATAGTGTAAAATTACTA
1 AAATACCCTTATATTGTAAAATTACTA
42584200 AAATACCCTT
1 AAATACCCTT
42584210 GTAGTATAAA
Statistics
Matches: 258, Mismatches: 53, Indels: 48
0.72 0.15 0.13
Matches are distributed among these distances:
26 19 0.07
27 199 0.77
28 40 0.16
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTATATTGTAAAATTACTA
Done.