Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 97 of 216
Found at i:30100611 original size:97 final size:97
Alignment explanation
Indices: 30100428--30100617 Score: 265
Period size: 98 Copynumber: 1.9 Consensus size: 97
30100418 AAAACACCGT
* *** * **
30100428 AAAAAATAAATCAATTTATAAAAAACAAAATAAATTTTTTTTGATAAGAAGAACGGTGTCATTTT
1 AAAAAATAAATCAATTTATAAAAAACAAAATAAAATTTTTACCATAAGAAAAACGGCATCATTTT
*
30100493 GTTCAAAATGAAATAATTTTTTGCGGCATTTC
66 ATTCAAAATGAAATAATTTTTTGCGGCATTTC
* *
30100525 AAAAATTAAATCAATTTATAAAAAATAAAATAAAAAATTTTTACCAT-AGAAAAACGGCATCATT
1 AAAAAATAAATCAATTTATAAAAAACAAAAT--AAAATTTTTACCATAAGAAAAACGGCATCATT
30100589 TTATTCAAAATGAAATAATTTTTTGCGGC
64 TTATTCAAAATGAAATAATTTTTTGCGGC
30100618 GTGTTTATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
97 29 0.36
98 42 0.52
99 10 0.12
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (97 bp):
AAAAAATAAATCAATTTATAAAAAACAAAATAAAATTTTTACCATAAGAAAAACGGCATCATTTT
ATTCAAAATGAAATAATTTTTTGCGGCATTTC
Found at i:30102271 original size:24 final size:24
Alignment explanation
Indices: 30102239--30102288 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30102229 GTAACGAGTC
30102239 TAATTTGATGCTTGAATTTATATG
1 TAATTTGATGCTTGAATTTATATG
30102263 TAATTTGATGCTTGAATTTATATG
1 TAATTTGATGCTTGAATTTATATG
30102287 TA
1 TA
30102289 TAGGTAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (24 bp):
TAATTTGATGCTTGAATTTATATG
Found at i:30104633 original size:43 final size:43
Alignment explanation
Indices: 30104538--30104846 Score: 347
Period size: 43 Copynumber: 7.3 Consensus size: 43
30104528 GATATGTTTT
* *
30104538 TAGCGGCGTTTGTGGAAAAAGCGTCGCCAAAGGT-TTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
30104580 TAGTGGCGTTTGTGGAAAATGCGCCGCTAAAGGTCTTGATTTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
30104623 TAGCAGCGTTTGTGG-GAAATCGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
30104665 TAGCGGCGTTTTTGTAAAAAGCGCCGCTAAAGGT-TCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCT-TGATCTA
* * * *
30104708 TAGTGGTGTTTGT-GAAAAAGCACCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * **
30104750 CAGCGTCGTTTGTTGAAAAAGCGCCGCTAAAGGTCCCGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
30104793 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
30104836 TAGCGGCGTTT
1 TAGCGGCGTTT
30104847 TTAGAAATAA
Statistics
Matches: 223, Mismatches: 39, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
42 98 0.44
43 125 0.56
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:30104689 original size:85 final size:84
Alignment explanation
Indices: 30104538--30104863 Score: 341
Period size: 85 Copynumber: 3.8 Consensus size: 84
30104528 GATATGTTTT
* * * * *
30104538 TAGCGGCGTTTGTGGAAAAAGCGTCGCCAAAGGT-TTGATCTATAGTGGCGTTTGTGGAAAATGC
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT-TTGAAAAAGC
*
30104602 GCCGCTAAAGGTCTTGATTTA
64 GCCGCTAAAGGTCTTGATCTA
* * * * *
30104623 TAGCAGCGTTTGTGGGAAATCGCCGCTAAAGATCTTGAGCTATAGCGGCGTTTTTGTAAAAAGCG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTTG-AAAAAGCG
30104688 CCGCTAAAGGT-TCTGATCTA
65 CCGCTAAAGGTCT-TGATCTA
* * * * * * *
30104708 TAGTGGTGTTTGTGAAAAAGCACCGCTAAAGGTCCTGATCTACAGCGTCGTTTGTTGAAAAAGCG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT-TTGAAAAAGCG
**
30104773 CCGCTAAAGGTCCCGATCTA
65 CCGCTAAAGGTCTTGATCTA
* * * * *
30104793 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTTTAGAAATAAA
1 TAGCGGCGTTTG-TGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTT-GAAA-AAG
30104858 CGCCGC
63 CGCCGC
30104864 AAACGTTTGC
Statistics
Matches: 198, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
84 16 0.08
85 133 0.67
86 41 0.21
87 8 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (84 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTTGAAAAAGCGC
CGCTAAAGGTCTTGATCTA
Found at i:30115539 original size:3 final size:3
Alignment explanation
Indices: 30115531--30115593 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
30115521 TTAAAATTTT
* * * * * *
30115531 ATA ATA ATA ATA ATA ATA ATA TTTC ATA ATA ATA ATA GTA TTA GTG
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
30115577 ATG ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
30115594 TTGCGGCCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
3 48 0.98
4 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:30116087 original size:42 final size:42
Alignment explanation
Indices: 30116027--30116413 Score: 472
Period size: 42 Copynumber: 9.2 Consensus size: 42
30116017 CTTCATATAC
* * *
30116027 AATGCAATGAAGAGTAAATGGACCTCCACACCTGTGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
30116069 AATGTAATGAAAAATAAATGGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ** *
30116111 AATGCAATGAAAAGTAAATGGACCTTCAGGCCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
30116153 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
30116195 ACTGCAATGAAAAGTGAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * *
30116237 AATGCAATG-ACAGTTAATGGACCTCCACACTTAGG-TTCCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCT-CTA
* * *
30116278 AATGCAATGAAAAATGAATGGACCTCCACACCTGGGACTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
30116320 AATGCAATGAAAAGTGAATAGACCTCCACACATGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
30116362 AATGCAATAAAAAGTTAATGGACCTCCACACCTAAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
30116404 AATGCAATGA
1 AATGCAATGA
30116414 TTGCTTTCCT
Statistics
Matches: 296, Mismatches: 46, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 35 0.12
42 259 0.88
43 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:30116321 original size:167 final size:167
Alignment explanation
Indices: 30116027--30116413 Score: 508
Period size: 167 Copynumber: 2.3 Consensus size: 167
30116017 CTTCATATAC
* * * *
30116027 AATGCAATGAAGAGTAAATGGACCTCCACACCTGTGCCTTTAAATGTAATGAAAAATAAATGGAC
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATGCAATG-AAAATAAATGGAC
* * ** *
30116092 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTTCAGGCCTGGGTCTCTAAATG
65 CTCCACACCTAGGCCTCTAAATGCAATGAAAAATAAATGGACCTCCACACCTGGGACTCTAAATG
* *
30116157 CAATGAAAAGTAAATGGACCTCCACACTTGGG-CTTCTA
130 CAATGAAAAGTAAATAGACCTCCACACATGGGCCTT-TA
* * * * * * *
30116195 ACTGCAATGAAAAGTGAATGGACCTCCACACTTGGGCCTCTAAATGCAATGACAGTTAATGGACC
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATGCAATGAAAATAAATGGACC
* * *
30116260 TCCACACTTAGG-TTCCTAAATGCAATGAAAAATGAATGGACCTCCACACCTGGGACTCTAAATG
66 TCCACACCTAGGCCT-CTAAATGCAATGAAAAATAAATGGACCTCCACACCTGGGACTCTAAATG
*
30116324 CAATGAAAAGTGAATAGACCTCCACACATGGGCCTTTA
130 CAATGAAAAGTAAATAGACCTCCACACATGGGCCTTTA
* * *
30116362 AATGCAATAAAAAGTTAATGGACCTCCACACCTAAGCCTCTAAATGCAATGA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATGCAATGA
30116414 TTGCTTTCCT
Statistics
Matches: 190, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
166 1 0.01
167 142 0.75
168 47 0.25
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (167 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATGCAATGAAAATAAATGGACC
TCCACACCTAGGCCTCTAAATGCAATGAAAAATAAATGGACCTCCACACCTGGGACTCTAAATGC
AATGAAAAGTAAATAGACCTCCACACATGGGCCTTTA
Found at i:30116835 original size:9 final size:10
Alignment explanation
Indices: 30116821--30116846 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30116811 TCTCTCTTTA
30116821 TTTTTTGGTT
1 TTTTTTGGTT
30116831 TTTTTTGGTT
1 TTTTTTGGTT
30116841 TTTTTT
1 TTTTTT
30116847 CTTGATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTGGTT
Found at i:30122287 original size:28 final size:28
Alignment explanation
Indices: 30122219--30122317 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
30122209 TCATGAGATG
* * * *
30122219 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
30122248 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
30122276 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30122304 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
30122318 GACTTAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 47 0.72
29 18 0.28
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30122331 original size:57 final size:57
Alignment explanation
Indices: 30122219--30122332 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 57
30122209 TCATGAGATG
* * * *
30122219 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTAATTATATA
* * *
30122276 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTGAGTGTGCG-GACTTAATATATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-CTTAAT-TATATA
30122333 TTTTTGAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
55 1 0.02
56 23 0.48
57 24 0.50
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTAATTATATA
Found at i:30125534 original size:50 final size:50
Alignment explanation
Indices: 30125469--30125808 Score: 333
Period size: 51 Copynumber: 6.7 Consensus size: 50
30125459 TATCATTCGA
* *
30125469 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
30125519 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCATGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
30125569 TTCACGTAGTAGCCTTCACATAGAACTACACAAGTGACCAAAGCTTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * ** * *** *
30125620 TACACATAGTAGCCTTCACTTATTACTATTCATGTGACCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGG
* * *
30125671 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * * * *** *
30125722 TACACATTGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGG
*
30125773 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
30125809 TTCATCGATA
Statistics
Matches: 233, Mismatches: 49, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
49 5 0.02
50 85 0.36
51 136 0.58
52 5 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
Found at i:30125699 original size:102 final size:102
Alignment explanation
Indices: 30125465--30125808 Score: 469
Period size: 102 Copynumber: 3.4 Consensus size: 102
30125455 CTTTTATCAT
* * * * *
30125465 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACAGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * **
30125528 TAGCCTTCACATAGTACTACACACGTGATCATGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGATCATCATTTA
* * * * *
30125566 -CGGTTCACGTAGTAGCCTTCACATAGAACTACACAAGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* ** *
30125630 AGCCTTCACTTATTACTATTCATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGATCATCATTTA
* * *
30125667 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
30125732 AGCCTTCACTTAGTACTACACATGTGATCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGATCATCATTTA
30125769 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
30125809 TTCATCGATA
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
100 37 0.17
101 42 0.20
102 134 0.63
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGATCATCATTTA
Found at i:30143764 original size:17 final size:17
Alignment explanation
Indices: 30143738--30143770 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
30143728 TCAGGCCGTT
30143738 ATGGGCCTCATTGGGCCA
1 ATGGGCCTCA-TGGGCCA
30143756 ATGGG-CTCATGGGCC
1 ATGGGCCTCATGGGCC
30143771 CCACATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.21
Consensus pattern (17 bp):
ATGGGCCTCATGGGCCA
Found at i:30143996 original size:26 final size:26
Alignment explanation
Indices: 30143957--30144023 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
30143947 TGTAAAAGGT
30143957 AAGGTAAAATGACTGTAGTGCCCCTAG
1 AAGGT-AAATGACTGTAGTGCCCCTAG
** *
30143984 AAGGTAAATGACTGTTTTGCCCCTCG
1 AAGGTAAATGACTGTAGTGCCCCTAG
*
30144010 AGGGTAAATGACTG
1 AAGGTAAATGACTG
30144024 ATTTGTGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 31 0.86
27 5 0.14
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (26 bp):
AAGGTAAATGACTGTAGTGCCCCTAG
Found at i:30152964 original size:5 final size:5
Alignment explanation
Indices: 30152954--30152978 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30152944 CATTGGAACT
30152954 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
30152979 CTTAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:30163885 original size:182 final size:183
Alignment explanation
Indices: 30163578--30163929 Score: 634
Period size: 182 Copynumber: 1.9 Consensus size: 183
30163568 TTGGGCTGTG
30163578 TAATGGAGTATTTATTTTACTGCTTGAGCTATGTAGGTAGTGGAGTTGGACTGAAATATAGCTAT
1 TAATGGAGTATTTATTTTACTGCTTGAGCTATGTAGGTAGTGGAGTTGGACTGAAATATAGCTAT
*
30163643 GGGGAGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAGGAGAAATTGGTGGAGTAATC
66 GGGGAGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAAGAGAAATTGGTGGAGTAATC
30163708 CAAGGA-GGATAAGGGGAGAGATTTTAGGAGAAAATCGTGGGAGTATGTTGTA
131 CAAGGAGGGATAAGGGGAGAGATTTTAGGAGAAAATCGTGGGAGTATGTTGTA
* * *
30163760 TAATGGAGTATTTATTTTGCTGCTTGAGTTGTGTAGGTAGTGGAGTTGGACTGAAATATAGCTAT
1 TAATGGAGTATTTATTTTACTGCTTGAGCTATGTAGGTAGTGGAGTTGGACTGAAATATAGCTAT
* *
30163825 GGGGGGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAAGAGAAATTGGTGGAGTACTC
66 GGGGAGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAAGAGAAATTGGTGGAGTAATC
*
30163890 CAATGAGGGATAAGGGGAGAGATTTTAGGAGAAAATCGTG
131 CAAGGAGGGATAAGGGGAGAGATTTTAGGAGAAAATCGTG
30163930 AAAGTGGGGT
Statistics
Matches: 162, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
182 129 0.80
183 33 0.20
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.32
Consensus pattern (183 bp):
TAATGGAGTATTTATTTTACTGCTTGAGCTATGTAGGTAGTGGAGTTGGACTGAAATATAGCTAT
GGGGAGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAAGAGAAATTGGTGGAGTAATC
CAAGGAGGGATAAGGGGAGAGATTTTAGGAGAAAATCGTGGGAGTATGTTGTA
Found at i:30164888 original size:20 final size:21
Alignment explanation
Indices: 30164863--30164904 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30164853 TTTCATGAGC
30164863 TTGGGCC-GTAATGGGCCTTG
1 TTGGGCCAGTAATGGGCCTTG
*
30164883 TTGGGCCGAGTACTGGGCCTTG
1 TTGGGCC-AGTAATGGGCCTTG
30164905 AGCCCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.21, G:0.40, T:0.29
Consensus pattern (21 bp):
TTGGGCCAGTAATGGGCCTTG
Found at i:30165013 original size:27 final size:28
Alignment explanation
Indices: 30164981--30165097 Score: 136
Period size: 27 Copynumber: 4.3 Consensus size: 28
30164971 GGAGGTCAAC
*
30164981 AAATGACTGACAT-CCCTCTATAGGGTA
1 AAATGACTGAAATACCCTCTATAGGGTA
*
30165008 AAATGACCGAAATACCCTC-ATAGGGTA
1 AAATGACTGAAATACCCTCTATAGGGTA
*
30165035 AAATGA-TCGAAATACCC-CCATAGGGTA
1 AAATGACT-GAAATACCCTCTATAGGGTA
* **
30165062 AAATAACCCAAATA-CCTCTATAGGGTA
1 AAATGACTGAAATACCCTCTATAGGGTA
30165089 AAATGACTG
1 AAATGACTG
30165098 TTATACTCCT
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.04
27 67 0.89
28 5 0.07
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (28 bp):
AAATGACTGAAATACCCTCTATAGGGTA
Found at i:30165292 original size:26 final size:26
Alignment explanation
Indices: 30165257--30165358 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 26
30165247 ATGGAGGAAG
* * * *
30165257 AATATTGTTACTGGCAGTTTTGGTGC
1 AATACTGTTACTGGCAGCTCTGCTGC
* * *
30165283 GATACTGTTATTGGAAGCTCTGCTGC
1 AATACTGTTACTGGCAGCTCTGCTGC
*
30165309 AATCCTGTTACTGGCAGCTCTGCTGC
1 AATACTGTTACTGGCAGCTCTGCTGC
* * * * *
30165335 GATATTATTACTGACAGCTTTGCT
1 AATACTGTTACTGGCAGCTCTGCT
30165359 ACGATATTGG
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (26 bp):
AATACTGTTACTGGCAGCTCTGCTGC
Found at i:30165363 original size:26 final size:26
Alignment explanation
Indices: 30165316--30165366 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30165306 TGCAATCCTG
* *
30165316 TTACTGGCAGCTCTGCTGCGATATTA
1 TTACTGACAGCTCTGCTACGATATTA
*
30165342 TTACTGACAGCTTTGCTACGATATT
1 TTACTGACAGCTCTGCTACGATATT
30165367 GGTGTCTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TTACTGACAGCTCTGCTACGATATTA
Found at i:30170451 original size:23 final size:23
Alignment explanation
Indices: 30170425--30170468 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
30170415 ATTACAGTTG
* *
30170425 TAATATCCTGAAAATTACTACCA
1 TAATACCCCGAAAATTACTACCA
30170448 TAATACCCCGAAAATTACTAC
1 TAATACCCCGAAAATTACTAC
30170469 AGCGAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (23 bp):
TAATACCCCGAAAATTACTACCA
Found at i:30190631 original size:23 final size:23
Alignment explanation
Indices: 30190600--30190650 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
30190590 ACATACTTCC
* *
30190600 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
30190623 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
30190646 TTACA
1 TTACA
30190651 CAATAGCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:30191956 original size:53 final size:53
Alignment explanation
Indices: 30191863--30191977 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 53
30191853 CGTGTGGCTT
* **
30191863 GGCCGTGTAACCCAAGTCAAAGAGTTACAGGACATGGACACAGGCTGGGACAC
1 GGCCGTGTGACCCAAGTCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
* ** * * *
30191916 GGCTGTGTGACCCAAGTCAAAGAGTTTTAGGGCACAGACACATGCTGGGACAT
1 GGCCGTGTGACCCAAGTCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
30191969 GGCCGTGTG
1 GGCCGTGTG
30191978 TCCCTGCTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (53 bp):
GGCCGTGTGACCCAAGTCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
Found at i:30196178 original size:8 final size:8
Alignment explanation
Indices: 30196165--30196190 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30196155 AATTTCAATT
30196165 TTATTTAA
1 TTATTTAA
30196173 TTATTTAA
1 TTATTTAA
30196181 TTATTTAA
1 TTATTTAA
30196189 TT
1 TT
30196191 TATTGAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:30204064 original size:23 final size:24
Alignment explanation
Indices: 30204011--30204064 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
30204001 TATCTTTGTT
** *
30204011 TTAATTATTTTACTATATTAATCC
1 TTAATTAAATTACTAAATTAATCC
*
30204035 -TATTTAAATTACTAAATTAA-CC
1 TTAATTAAATTACTAAATTAATCC
30204057 TTAATTAA
1 TTAATTAA
30204065 TAGCCTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATTAAATTACTAAATTAATCC
Found at i:30204312 original size:11 final size:11
Alignment explanation
Indices: 30204296--30204320 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30204286 TAACTTTGAG
30204296 TAATAATAAAA
1 TAATAATAAAA
30204307 TAATAATAAAA
1 TAATAATAAAA
30204318 TAA
1 TAA
30204321 ATTTTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:30215323 original size:22 final size:22
Alignment explanation
Indices: 30215298--30215342 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
30215288 ATTATGATGA
30215298 TTGATAAGT-TGAGATTAATATT
1 TTGATAAGTATGAGATT-ATATT
*
30215320 TTGATATGTATGAGATTATATT
1 TTGATAAGTATGAGATTATATT
30215342 T
1 T
30215343 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (22 bp):
TTGATAAGTATGAGATTATATT
Found at i:30218448 original size:98 final size:100
Alignment explanation
Indices: 30218333--30218530 Score: 346
Period size: 98 Copynumber: 2.0 Consensus size: 100
30218323 TATAAAATGC
* * * *
30218333 AACTTTGAACAATTTGGTGTTGAAAGCAAATGTTGATATTAAAAAGTGTTATGAAAACTAAAAGT
1 AACTTTAAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
30218398 TAACTAAAT-ATTTAACTAA-AAAAAATGTTCCAA
66 TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
30218431 AACTTTAAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
1 AACTTTAAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
30218496 TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
66 TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
30218531 TGCATGATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 70 0.74
99 10 0.11
100 14 0.15
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (100 bp):
AACTTTAAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
Found at i:30222340 original size:20 final size:20
Alignment explanation
Indices: 30222317--30222367 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
30222307 GTATACATTT
* *
30222317 CGGTGTCCCTGTTTGCACTA
1 CGGTGCCCCTGCTTGCACTA
*
30222337 CGGTGCCCCTGCTTGCACATT
1 CGGTGCCCCTGCTTGCAC-TA
30222358 C-GTGCCCCTG
1 CGGTGCCCCTG
30222368 TTCGCACTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.08, C:0.37, G:0.25, T:0.29
Consensus pattern (20 bp):
CGGTGCCCCTGCTTGCACTA
Found at i:30223851 original size:16 final size:16
Alignment explanation
Indices: 30223807--30223854 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
30223797 TGCTAAGGTG
* *
30223807 AACTGATGAGCTAGCA
1 AACTGACGAGCTCGCA
* *
30223823 AAATAACGAGCTCGCA
1 AACTGACGAGCTCGCA
30223839 AACTGACGAGCTCGCA
1 AACTGACGAGCTCGCA
30223855 CAGCGATAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (16 bp):
AACTGACGAGCTCGCA
Found at i:30226389 original size:20 final size:21
Alignment explanation
Indices: 30226350--30226392 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
30226340 CGATGCTTAC
*
30226350 TATTATTCGCACTTCAGTTCT
1 TATTATTCGCACTCCAGTTCT
*
30226371 TATTATT-GCACTCCGGTTCT
1 TATTATTCGCACTCCAGTTCT
30226391 TA
1 TA
30226393 ATGCTACTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (21 bp):
TATTATTCGCACTCCAGTTCT
Found at i:30231209 original size:107 final size:108
Alignment explanation
Indices: 30230927--30231250 Score: 445
Period size: 107 Copynumber: 3.0 Consensus size: 108
30230917 GGAACTTATT
* * *
30230927 AACAACATTGATGCAAAACTTAATTCAATGTAATTAAGGAGGATGGTTCAAACTAACACA-AATG
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACA-AGAAAG
* *
30230991 AAAGATTCAAAAGTTATTTGCCCAGCTAGCTCTAGCATTTGGCA
65 AAAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
* * ** *
30231035 AGCAACATTGATGCAAAACTTAATTCAGTATAATTAAGGATGACAGTTCAAACTAATAAGAAAGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
* * *
30231100 AAGTTTCAAGAGTTATTTGCTCAGCTTGCCCTAGCATTTGG-A
66 AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
* * * * *
30231142 AACAAAATTGATGCAAATCTTAATTCAATATAATTATGGATGATGGTTCAAACTAACATGAACGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
* *
30231207 AAGCTTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTCGGCA
66 AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
30231250 A
1 A
30231251 TTTCTAATTT
Statistics
Matches: 187, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
107 94 0.50
108 93 0.50
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (108 bp):
AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
Found at i:30235910 original size:18 final size:18
Alignment explanation
Indices: 30235889--30235928 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30235879 CTTTCTTCAA
* *
30235889 TTTCTATTTCACTTTTCT
1 TTTCTATTTCACATTCCT
*
30235907 TTTCTGTTTCACATTCCT
1 TTTCTATTTCACATTCCT
30235925 TTTC
1 TTTC
30235929 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.25, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTCTATTTCACATTCCT
Found at i:30257969 original size:49 final size:44
Alignment explanation
Indices: 30257777--30258478 Score: 332
Period size: 44 Copynumber: 15.6 Consensus size: 44
30257767 AATCCACTCT
* *
30257777 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * * * * * *
30257821 ATTGTAACTTCAGAGATATAAGATTGGTATCTTTAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * * * * *
30257865 ACTACAACTTCAAGAAAATAAGGTTTGTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
*
30257909 ACTGCAGCTTCAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTGCTCC
* * ** * * *
30257958 ATTGCAACTTCAGGGAGATAAGATTGATTTATTTTTAACCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATT--TGTAGCTTCAATCTGCTCC
* *
30258004 ACTGCAACTTCAGGGAGATGAAG-TTTG-A--TAT-GATCTGCTCT
1 ACTGCAACTTCAGGGAGAT-AAGATTTGTAGCT-TCAATCTGCTCC
** * * *
30258045 ACTGCAACTTCAAAGAGATAAGATTTGTAATTTATAGCTTTAATTTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTGCTCC
* * * * * * *
30258096 ACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCC
* * * *
30258141 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * *
30258185 ACTACAACTTCAAGGG-GATAAG-GTT-T-GCTAT-GATCTGCTCT
1 ACTGCAACTTC-AGGGAGATAAGATTTGTAGCT-TCAATCTGCTCC
* * * **
30258226 ACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAACTTCAATCTGTTTT
1 ACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTGCTCC
* * * * *
30258277 ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCC
* * * * * * *
30258322 ACTACAACTTCAGGGAGATAAAACTCGTAACTTCAACCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * * * * *
30258366 ACTACAACTTAAAGGAGATAAGACTCGTAACTTCAACCT-C-CC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* ** * * * *
30258408 TTATTGCAACTTCAAGGG-GATCTGAATTGTGGCTTTAATCTACTCC
1 --ACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
*
30258454 ACTGTAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
30258479 CGTCATGATG
Statistics
Matches: 497, Mismatches: 120, Indels: 82
0.71 0.17 0.12
Matches are distributed among these distances:
40 6 0.01
41 52 0.10
42 7 0.01
43 7 0.01
44 205 0.41
45 79 0.16
46 32 0.06
47 3 0.01
48 1 0.00
49 37 0.07
50 3 0.01
51 65 0.13
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
Found at i:30258169 original size:96 final size:95
Alignment explanation
Indices: 30257943--30258351 Score: 318
Period size: 92 Copynumber: 4.5 Consensus size: 95
30257933 TTGTAGCCCG
* * * * * *
30257943 TCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGA-TTG--ATTTAT-TTTTAACCTGTTCC
1 TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTATACTTCAATCTGTTCC
* * *
30258004 ACTGCAACTTCAGGGAGATGAAG-TTTG--A
66 ACTACAACTTCAGGGAAAT-AAGATTCGCTA
* * * * * * *
30258032 T-ATGA-TCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTAATTTATAGCTTTAATTTGTTC
1 TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTATA-CTTCAATCTGTTC
30258095 CACTACAACTTCAGGGAAATAAGATTCGCTA
65 CACTACAACTTCAGGGAAATAAGATTCGCTA
* * * * **
30258126 TCTTCAGTTTACTCCACTGCAACTTCAGGGAGATAAGACTTG-----TA-ACTTCAACCTGCCCC
1 TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTATACTTCAATCTGTTCC
* * *
30258185 ACTACAACTTCAAGGG-GATAAGGTTTGCTA
66 ACTACAACTTC-AGGGAAATAAGATTCGCTA
* * * *
30258215 ---TGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAACTTCAATCTGTTT
1 TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTAT-ACTTCAATCTGTTC
* *
30258276 TACTGCAACTTCAGGGAAATAAGATTCGCTA
65 CACTACAACTTCAGGGAAATAAGATTCGCTA
* * * * *
30258307 TCTTCAGTCTGTTCCACTACAACTTCAGGGAGATAAAACTCGTAA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAA
30258352 CTTCAACCTG
Statistics
Matches: 246, Mismatches: 51, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
85 30 0.12
86 2 0.01
87 27 0.11
88 5 0.02
89 32 0.13
90 13 0.05
91 9 0.04
92 62 0.25
94 2 0.01
95 4 0.02
96 60 0.24
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (95 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTATACTTCAATCTGTTCC
ACTACAACTTCAGGGAAATAAGATTCGCTA
Found at i:30258229 original size:181 final size:181
Alignment explanation
Indices: 30257943--30258387 Score: 599
Period size: 181 Copynumber: 2.4 Consensus size: 181
30257933 TTGTAGCCCG
* * * ** *
30257943 TCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGA-TTGATTTATTTTTAACCTGTTCCACT
1 TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTG---TAACTTCAACCTGTTCCACT
*
30258007 GCAACTTC-AGGGAGATGAA-GTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATT
63 ACAACTTCAAGGG-GAT-AAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATT
* * *
30258070 TGTAATTTATAGCTTTAATTTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA
126 TGTAATTTATAACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA
* **
30258126 TCTTCAGTTTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTACA
1 TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCACTACA
* *
30258191 ACTTCAAGGGGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAA
66 ACTTCAAGGGGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTAA
** *
30258256 TTTATAACTTCAATCTGTTTTACTGCAACTTCAGGGAAATAAGATTCGCTA
131 TTTATAACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA
** * * *
30258307 TCTTCAGTCTGTTCCACTACAACTTCAGGGAGATAAAACTCGTAACTTCAACCTGTTCCACTACA
1 TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCACTACA
* *
30258372 ACTTAAAGGAGATAAG
66 ACTTCAAGGGGATAAG
30258388 ACTCGTAACT
Statistics
Matches: 231, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
180 2 0.01
181 188 0.81
182 4 0.02
183 34 0.15
184 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (181 bp):
TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCACTACA
ACTTCAAGGGGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTAA
TTTATAACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA
Found at i:30258374 original size:89 final size:89
Alignment explanation
Indices: 30258090--30258375 Score: 285
Period size: 89 Copynumber: 3.2 Consensus size: 89
30258080 AGCTTTAATT
* *
30258090 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGCAACTTCAGG
1 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
30258155 GAGATAAGACTTGTAACTTCAACC
66 GAGATAAAACTTGTAACTTCAACC
** * * * * *
30258179 TGCCCCACTACAACTTCAAGGG-GATAAGGTTTGCTA---TGA-TCTGCTCTACTGCAACTTCAG
1 TGTTCCACTACAACTTC-AGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* * * *
30258239 AGAGATAAGATTTGTAATTTATAACTTCAATC
65 GGAGAT-A-A-----AACTTGTAACTTCAACC
** * * *
30258271 TGTTTTACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCACTACAACTTCAGG
1 TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
30258336 GAGATAAAACTCGTAACTTCAACC
66 GAGATAAAACTTGTAACTTCAACC
30258360 TGTTCCACTACAACTT
1 TGTTCCACTACAACTT
30258376 AAAGGAGATA
Statistics
Matches: 150, Mismatches: 34, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
85 23 0.15
86 3 0.02
87 1 0.01
89 52 0.35
90 4 0.03
91 4 0.03
92 36 0.24
94 1 0.01
95 3 0.02
96 23 0.15
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (89 bp):
TGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAAACTTGTAACTTCAACC
Found at i:30264467 original size:27 final size:27
Alignment explanation
Indices: 30264437--30264495 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
30264427 AATTAATAAT
30264437 CAAAGACAAATGAAA-TAAAATAATATA
1 CAAAGACAAATGAAAGT-AAATAATATA
* * *
30264464 CAAAAACAATTTAAAGTAAATAATATA
1 CAAAGACAAATGAAAGTAAATAATATA
*
30264491 AAAAG
1 CAAAG
30264496 GTTTAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (27 bp):
CAAAGACAAATGAAAGTAAATAATATA
Found at i:30264630 original size:26 final size:26
Alignment explanation
Indices: 30264449--30264865 Score: 251
Period size: 26 Copynumber: 16.1 Consensus size: 26
30264439 AAGACAAATG
*
30264449 AAATAAAATAATATACAAAAACAATTTA
1 AAAT-AAATAATATA-TAAAACAATTTA
* **
30264477 AAGTAAATAATATA-AAAA-GGTTT-
1 AAATAAATAATATATAAAACAATTTA
*
30264500 AAATAAAATAATACA-AAAA-AATGTTCA
1 AAAT-AAATAATATATAAAACAAT-TT-A
* * ****
30264527 AAATAAACAATATGTGAAATTTTTTTTA
1 AAATAAATAATATAT-AAA-ACAATTTA
* ** *
30264555 ACATAAATCAA-ATATAAAACTGTTTG
1 AAATAAAT-AATATATAAAACAATTTA
*
30264581 AAATAAATAAT-T-TAAAGCAATTTA
1 AAATAAATAATATATAAAACAATTTA
* * *
30264605 AAATAAACAATACATAAAACACTTTA
1 AAATAAATAATATATAAAACAATTTA
* * * *
30264631 AAAGAAATAATATGTGAAAAAAATCTA
1 AAATAAATAATATAT-AAAACAATTTA
30264658 AAATAAATAATATATATAAA-ATAGTTTA
1 AAATAAATAATATATA-AAACA-A-TTTA
* *
30264686 AAATAAAATAATATATAAAGCAATTCA
1 AAAT-AAATAATATATAAAACAATTTA
30264713 AAATAAATAATATATGAAAA-AATTTA
1 AAATAAATAATATAT-AAAACAATTTA
*
30264739 AAATAAAT-A-ATATAAAATAATTTA
1 AAATAAATAATATATAAAACAATTTA
* *
30264763 ATATACATAATATAT--AA-AATTTA
1 AAATAAATAATATATAAAACAATTTA
* ** *
30264786 AAATAAATAAAATATAAAACCGTTAA
1 AAATAAATAATATATAAAACAATTTA
30264812 AAATAAATAATATATAAAAACAA-TTA
1 AAATAAATAATATAT-AAAACAATTTA
*
30264838 AAA-AGAATAA-ATA-AATAACAAATTA
1 AAATA-AATAATATATAA-AACAATTTA
30264863 AAA
1 AAA
30264866 GGTTAAAATC
Statistics
Matches: 305, Mismatches: 55, Indels: 61
0.72 0.13 0.14
Matches are distributed among these distances:
23 27 0.09
24 58 0.19
25 23 0.08
26 96 0.31
27 57 0.19
28 26 0.09
29 17 0.06
30 1 0.00
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATAAATAATATATAAAACAATTTA
Found at i:30264667 original size:81 final size:81
Alignment explanation
Indices: 30264581--30264758 Score: 198
Period size: 82 Copynumber: 2.2 Consensus size: 81
30264571 AAACTGTTTG
* * * * *
30264581 AAATAAATAATTTAAAGCAATTTAAAAT-AAACAATACATAAAACACTTTAAAAGAAATAATATG
1 AAATAAATAATATAAAACAATTTAAAATAAAACAATACATAAAACAATTCAAAAGAAATAATATA
30264645 TGAAAAAAATCTAAAAT
66 TG-AAAAAATCTAAAAT
* * * * * *
30264662 AAAT-AATATATATAAAATAGTTTAAAATAAAATAATATATAAAGCAATTCAAAATAAATAATAT
1 AAATAAATA-ATATAAAACAATTTAAAATAAAACAATACATAAAACAATTCAAAAGAAATAATAT
*
30264726 ATGAAAAAATTTAAAAT
65 ATGAAAAAATCTAAAAT
*
30264743 AAATAATATAAAATAA
1 AAATAA-ATAATATAA
30264759 TTTAATATAC
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.05
81 36 0.45
82 37 0.46
83 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (81 bp):
AAATAAATAATATAAAACAATTTAAAATAAAACAATACATAAAACAATTCAAAAGAAATAATATA
TGAAAAAATCTAAAAT
Found at i:30264686 original size:55 final size:53
Alignment explanation
Indices: 30264618--30264847 Score: 158
Period size: 55 Copynumber: 4.4 Consensus size: 53
30264608 TAAACAATAC
* *
30264618 ATAAAACACTTTAAAAGAAATAATATGTGAAAAAAA-TCTAAAATAAATAATATAT-
1 ATAAAA-A-TTTAAAAAAAATAATATAT-AAAAAAATTC-AAAATAAATAATATATG
**
30264673 ATAAAATAGTTTAAAATAAAATAATATATAAAGCAATTCAAAATAAATAATATATG
1 ATAAAA-A-TTTAAAA-AAAATAATATATAAAAAAATTCAAAATAAATAATATATG
* * * * *
30264729 A-AAAAATTTAAAATAAAT-A-ATATAAAATAATTTAATATACAT-A-ATAT-
1 ATAAAAATTTAAAAAAAATAATATATAAAAAAATTCAAAATAAATAATATATG
* * *** *
30264776 AT-AAAATTTAAAATAAATAAAATATAAAACCGTTAAAAATAAATAATATAT-
1 ATAAAAATTTAAAAAAAATAATATATAAAAAAATTCAAAATAAATAATATATG
* *
30264827 A-AAAACAATTAAAAAGAATAA
1 ATAAAA-ATTTAAAAAAAATAA
30264848 ATAAATAACA
Statistics
Matches: 144, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
47 17 0.12
48 5 0.03
49 18 0.12
50 19 0.13
51 9 0.06
52 16 0.11
53 7 0.05
54 1 0.01
55 39 0.27
56 13 0.09
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (53 bp):
ATAAAAATTTAAAAAAAATAATATATAAAAAAATTCAAAATAAATAATATATG
Found at i:30264731 original size:82 final size:79
Alignment explanation
Indices: 30264599--30264865 Score: 241
Period size: 82 Copynumber: 3.4 Consensus size: 79
30264589 AATTTAAAGC
* * * * *
30264599 AATTTAAAATAAACAATACATAAAACACTTTAAAAGAAATAATATGTGAAAAAAATCTAAAATAA
1 AATTTAAAATAAATAATATAT-AAACAATTTAAAATAAATAATATATGAAAAAAAT-TAAAATAA
30264664 ATAATATATATAAAAT
64 ATAATATATATAAAAT
* * *
30264680 AGTTTAAAATAAAATAATATATAAAGCAATTCAAAATAAATAATATATGAAAAAATTTAAAAT--
1 AATTTAAAAT-AAATAATATATAAA-CAATTTAAAATAAATAATATATGAAAAAAATTAAAATAA
30264743 A-AATA-ATATAAAAT
64 ATAATATATATAAAAT
* * * ***
30264757 AATTTAATATACATAATATAT-AA-AATTTAAAATAAATAAAATAT-AAAACCGTTAAAAATAAA
1 AATTTAAAATAAATAATATATAAACAATTTAAAATAAATAATATATGAAAAAAATT-AAAATAAA
*
30264819 TAATATATA-AAAAC
65 TAATATATATAAAAT
* *
30264833 AA-TTAAAA-AGAATAA-ATAAATAACAAATTAAAA
1 AATTTAAAATA-AATAATATATA-AACAATTTAAAA
30264866 GGTTAAAATC
Statistics
Matches: 154, Mismatches: 21, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
72 6 0.04
73 24 0.16
74 4 0.03
75 12 0.08
76 22 0.14
77 28 0.18
78 4 0.03
79 1 0.01
81 18 0.12
82 35 0.23
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (79 bp):
AATTTAAAATAAATAATATATAAACAATTTAAAATAAATAATATATGAAAAAAATTAAAATAAAT
AATATATATAAAAT
Found at i:30264766 original size:15 final size:14
Alignment explanation
Indices: 30264656--30264795 Score: 60
Period size: 14 Copynumber: 9.9 Consensus size: 14
30264646 GAAAAAAATC
30264656 TAAAATAAATAATA
1 TAAAATAAATAATA
* * *
30264670 T-ATATAAAATAGTT
1 TAAAAT-AAATAATA
30264684 TAAAATAAAATAATA
1 TAAAAT-AAATAATA
*
30264699 T---ATAAAGCAAT-
1 TAAAATAAA-TAATA
30264710 TCAAAATAAATAATA
1 T-AAAATAAATAATA
** *
30264725 TATGA-AAA-AATT
1 TAAAATAAATAATA
30264737 TAAAATAAATAATA
1 TAAAATAAATAATA
*
30264751 TAAAATAATTTAATA
1 TAAAATAA-ATAATA
* *
30264766 TACATAATATATAAAATT
1 TA-A-AATA-A-ATAATA
30264784 TAAAATAAATAA
1 TAAAATAAATAA
30264796 AATATAAAAC
Statistics
Matches: 93, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
11 4 0.04
12 11 0.12
13 9 0.10
14 27 0.29
15 25 0.27
16 5 0.05
17 5 0.05
18 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
TAAAATAAATAATA
Found at i:30264785 original size:47 final size:49
Alignment explanation
Indices: 30264581--30264831 Score: 199
Period size: 50 Copynumber: 4.9 Consensus size: 49
30264571 AAACTGTTTG
* * * *
30264581 AAATAAATAAT-TTAAAGCAATTTAAAATAAACAATACATAAAACACTTTA
1 AAATAAATAATATAAAAGCAATTCAAAATAAATAATATATAAAA-A-TTTA
* *
30264631 AAAGAAATAATATGTGAAAA--AAATCTAAAATAAATAATATATATAAAATAGTTTA
1 AAATAAATAATA--T-AAAAGCAATTC-AAAATAAAT-A-ATATATAAAA-A-TTTA
30264686 AAATAAAATAATATATAAAGCAATTCAAAATAAATAATATATGAAAAAATTTA
1 AAAT-AAATAATATA-AAAGCAATTCAAAATAAATAATATAT--AAAAATTTA
* * * *
30264739 AAATAAATAATATAAAA-TAATTTAATATACATAATATAT-AAAATTTA
1 AAATAAATAATATAAAAGCAATTCAAAATAAATAATATATAAAAATTTA
** *
30264786 AAATAAATAAAATATAAAA-CCGTTAAAAATAAATAATATATAAAAA
1 AAATAAAT--AATATAAAAGCAATTCAAAATAAATAATATATAAAAA
30264832 CAATTAAAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 32
0.76 0.09 0.15
Matches are distributed among these distances:
47 16 0.10
49 25 0.15
50 32 0.19
51 3 0.02
52 13 0.08
53 24 0.15
54 10 0.06
55 30 0.18
56 12 0.07
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.29
Consensus pattern (49 bp):
AAATAAATAATATAAAAGCAATTCAAAATAAATAATATATAAAAATTTA
Found at i:30264850 original size:27 final size:26
Alignment explanation
Indices: 30264628--30264855 Score: 67
Period size: 27 Copynumber: 8.8 Consensus size: 26
30264618 ATAAAACACT
*
30264628 TTAAAAGAAAT-AATATGTGAAAAA-AA
1 TTAAAA-AAATAAATATAT-AAAAACAA
**
30264654 TCTAAAATAAATAATATATATAAAATA-GT
1 T-TAAAA-AAATAA-ATATATAAAA-ACAA
*
30264683 TTAAAATAAA-ATAATATAT-AAAGCAA
1 TTAAAA-AAATA-AATATATAAAAACAA
*
30264709 TTCAAAATAAAT-AATATATGAAAAA-AT
1 TT-AAAA-AAATAAATATAT-AAAAACAA
* *
30264736 TTAAAATAAAT-AATATA-AAATA-AT
1 TTAAAA-AAATAAATATATAAAAACAA
* * *
30264760 TTAATATACAT-AATATAT--AAA-AT
1 TTAA-AAAAATAAATATATAAAAACAA
**
30264783 TTAAAATAAATAAA-ATAT-AAAACCG
1 TTAAAA-AAATAAATATATAAAAACAA
30264808 TTAAAAATAA-ATAATATATAAAAACAA
1 TTAAAAA-AATA-AATATATAAAAACAA
*
30264835 TTAAAAAGAATAAATAAATAA
1 TTAAAAA-AATAAATATATAA
30264856 CAAATTAAAA
Statistics
Matches: 160, Mismatches: 21, Indels: 41
0.72 0.09 0.18
Matches are distributed among these distances:
22 1 0.01
23 15 0.09
24 26 0.16
25 11 0.07
26 32 0.20
27 49 0.31
28 19 0.12
29 7 0.04
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (26 bp):
TTAAAAAAATAAATATATAAAAACAA
Found at i:30264851 original size:23 final size:25
Alignment explanation
Indices: 30264820--30264865 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
30264810 AAAAATAAAT
*
30264820 AATATATAAA-AAC-AATTAAAAAG
1 AATAAATAAATAACAAATTAAAAAG
30264843 AATAAATAAATAACAAATTAAAA
1 AATAAATAAATAACAAATTAAAA
30264866 GGTTAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (25 bp):
AATAAATAAATAACAAATTAAAAAG
Found at i:30277834 original size:27 final size:27
Alignment explanation
Indices: 30277777--30277851 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
30277767 AAAATCATTC
30277777 AAATACCCTCGAA-GGTAAAATTATCG
1 AAATACCCTCGAAGGGTAAAATTATCG
30277803 AAATACCCTCGAAGGGTAAAATTA-CTG
1 AAATACCCTCGAAGGGTAAAATTATC-G
* * *
30277830 GAATACTCTCAAAGGGTAAAAT
1 AAATACCCTCGAAGGGTAAAAT
30277852 GATCACAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.32
27 30 0.68
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATTATCG
Found at i:30277872 original size:27 final size:27
Alignment explanation
Indices: 30277842--30278123 Score: 354
Period size: 27 Copynumber: 10.4 Consensus size: 27
30277832 ATACTCTCAA
** *
30277842 AGGGTAAAATGATCACAATTCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
* *
30277869 AGGGTAAAATGA-CTATAATGCCCTTGT
1 AGGGTAAAATGATC-GTAATGCCCCTGT
* *
30277896 AGGGTAAAATGA-CTATAATGCCCTTGT
1 AGGGTAAAATGATC-GTAATGCCCCTGT
* *
30277923 AGGGTAAAATGA-CTATAATGCCCTTGT
1 AGGGTAAAATGATC-GTAATGCCCCTGT
*
30277950 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
*
30277977 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
*
30278004 AGGGTAAAATGATCGTAATGCCCCTAT
1 AGGGTAAAATGATCGTAATGCCCCTGT
*
30278031 AGGGTAAAATGATCGTAATGCCCCAGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
* * * *
30278058 AGGGTAAAATGGTCGTAATACTCCTAT
1 AGGGTAAAATGATCGTAATGCCCCTGT
*
30278085 AGGGTTAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
30278112 AGGGTAAAATGA
1 AGGGTAAAATGA
30278124 CTATTTTGCC
Statistics
Matches: 233, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
26 1 0.00
27 231 0.99
28 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (27 bp):
AGGGTAAAATGATCGTAATGCCCCTGT
Found at i:30277904 original size:81 final size:82
Alignment explanation
Indices: 30277815--30278152 Score: 334
Period size: 81 Copynumber: 4.2 Consensus size: 82
30277805 ATACCCTCGA
* * * * *
30277815 AGGGTAAAATTACTGGAATACTCTC-AAAGGGTAAAATGATCACAATTCCCCTGTAGGGTAAAAT
1 AGGGTAAAATGACTGTAATACTCTCTATAGGGTAAAATGATCATAATGCCCCTGTAGGGTAAAAT
*
30277879 GACTATAATGCCCTTGT
66 GACTATAATGCCCCTGT
* * * * *
30277896 AGGGTAAAATGACTATAATGCCCT-TGTAGGGTAAAATGA-CTATAATGCCCTTGTAGGGTAAAA
1 AGGGTAAAATGACTGTAATACTCTCTATAGGGTAAAATGATC-ATAATGCCCCTGTAGGGTAAAA
**
30277959 TGACCGTAATGCCCCTGT
65 TGACTATAATGCCCCTGT
* * * * * *
30277977 AGGGTAAAATGACCGTAATGC-CCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAAT
1 AGGGTAAAATGACTGTAATACTCTCTATAGGGTAAAATGATCATAATGCCCCTGTAGGGTAAAAT
* *
30278041 GA-TCGTAATGCCCCAGT
66 GACT-ATAATGCCCCTGT
* * *
30278058 AGGGTAAAATG-GTCGTAATACTC-CTATAGGGTTAAATGATCGTAATGCCCCTGTAGGGTAAAA
1 AGGGTAAAATGACT-GTAATACTCTCTATAGGGTAAAATGATCATAATGCCCCTGTAGGGTAAAA
**
30278121 TGACTATTTTGCCCCTCG-
65 TGACTATAATGCCCCT-GT
*
30278139 -GGGTTAAATGACTG
1 AGGGTAAAATGACTG
30278153 ATTTGTCTGT
Statistics
Matches: 214, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
80 12 0.06
81 198 0.93
82 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (82 bp):
AGGGTAAAATGACTGTAATACTCTCTATAGGGTAAAATGATCATAATGCCCCTGTAGGGTAAAAT
GACTATAATGCCCCTGT
Found at i:30278177 original size:24 final size:24
Alignment explanation
Indices: 30278142--30278239 Score: 99
Period size: 24 Copynumber: 4.1 Consensus size: 24
30278132 CCCCTCGGGG
*
30278142 TTAAATGACTGATTTGTCTGTAAT
1 TTAAAAGACTGATTTGTCTGTAAT
*
30278166 TTAAAAGGCTGATTTGTCTGTAAT
1 TTAAAAGACTGATTTGTCTGTAAT
* * * **
30278190 TTAAATGACTGATTTATCTATGGT
1 TTAAAAGACTGATTTGTCTGTAAT
* *
30278214 TTAAATA-ACTAATTTGTCTGTGAT
1 TTAAA-AGACTGATTTGTCTGTAAT
30278238 TT
1 TT
30278240 GTATGACTGA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (24 bp):
TTAAAAGACTGATTTGTCTGTAAT
Found at i:30278217 original size:48 final size:48
Alignment explanation
Indices: 30278142--30278251 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
30278132 CCCCTCGGGG
* * * *
30278142 TTAAATGACTGATTTGTCTGTAATTTAAA-AGGCTGATTTGTCTGTAAT
1 TTAAATGACTGATTTATCTATAATTTAAATA-ACTAATTTGTCTGTAAT
** *
30278190 TTAAATGACTGATTTATCTATGGTTTAAATAACTAATTTGTCTGTGAT
1 TTAAATGACTGATTTATCTATAATTTAAATAACTAATTTGTCTGTAAT
**
30278238 TTGTATGACTGATT
1 TTAAATGACTGATT
30278252 CCATGCATGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 51 0.98
49 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.45
Consensus pattern (48 bp):
TTAAATGACTGATTTATCTATAATTTAAATAACTAATTTGTCTGTAAT
Found at i:30278352 original size:27 final size:27
Alignment explanation
Indices: 30278315--30278379 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
30278305 ATGGAGGAAG
30278315 TACTG-TACTGGTGGCTCT-GCAACA-A
1 TACTGTTACTGGTGGCT-TGGCAACATA
*
30278340 TTACTGTTACTGGTGGCTTGGCCACATA
1 -TACTGTTACTGGTGGCTTGGCAACATA
30278368 TACTGTTACTGG
1 TACTGTTACTGG
30278380 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCAACATA
Found at i:30278471 original size:32 final size:32
Alignment explanation
Indices: 30278426--30278593 Score: 212
Period size: 32 Copynumber: 5.3 Consensus size: 32
30278416 ATGATGCTAT
* *
30278426 TGATGGCTTTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* *
30278458 TGATGGCTGTGTGCCGATCATATTACTACTAT
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* * * *
30278490 TGATGGCTTTGTACTGATCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* *
30278522 TGATGGCTGTGTGCCGATCATATTATTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* *
30278554 TGATGGCTTTGCGCCAATCATATTACTA-TAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
*
30278585 TTATGGCTT
1 TGATGGCTT
30278594 GTAGCCATTC
Statistics
Matches: 115, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 11 0.10
32 104 0.90
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTACTAC
Found at i:30278501 original size:64 final size:64
Alignment explanation
Indices: 30278422--30278592 Score: 254
Period size: 64 Copynumber: 2.7 Consensus size: 64
30278412 TGCTATGATG
*
30278422 CTATTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATCATATTACTA
1 CTATTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGCTGTGTGCCGATCATATTACTA
* * * *
30278486 CTATTGATGGCTTTGTACTGATCATACTACTATTACTGATGGCTGTGTGCCGATCATATTATTA
1 CTATTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGCTGTGTGCCGATCATATTACTA
* * * *
30278550 CTACTGATGGCTTTGCGCCAATCATATTACTA-TACTTATGGCT
1 CTATTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGCT
30278593 TGTAGCCATT
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 10 0.11
64 85 0.89
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (64 bp):
CTATTGATGGCTTTGTGCCGATCATATTACTATTACTGATGGCTGTGTGCCGATCATATTACTA
Found at i:30278620 original size:22 final size:22
Alignment explanation
Indices: 30278595--30278654 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
30278585 TTATGGCTTG
*
30278595 TAGCCATTCTGTTTATAGCTAA
1 TAGCCATTCTGTTTACAGCTAA
* * * **
30278617 TAGCTATCCTGTTTACGGCTCT
1 TAGCCATTCTGTTTACAGCTAA
*
30278639 TAGCCATTCTGGTTAC
1 TAGCCATTCTGTTTAC
30278655 TGGCAGCTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTAA
Found at i:30290707 original size:11 final size:11
Alignment explanation
Indices: 30290693--30290717 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30290683 TACCAATAAT
30290693 AATTCAATTCC
1 AATTCAATTCC
30290704 AATTCAATTCC
1 AATTCAATTCC
30290715 AAT
1 AAT
30290718 AATAAAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTCAATTCC
Found at i:30300193 original size:27 final size:25
Alignment explanation
Indices: 30300157--30300206 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30300147 ATTTTTGATA
* *
30300157 ATTTTACCCTCGATAAAATTTTGACG
1 ATTTTACCCT-AATAAAAATTTGACG
30300183 ATTTTACCCCTAATAAAAATTTGA
1 ATTTTA-CCCTAATAAAAATTTGA
30300207 GAAATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (25 bp):
ATTTTACCCTAATAAAAATTTGACG
Found at i:30306530 original size:41 final size:41
Alignment explanation
Indices: 30306473--30306567 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
30306463 ATTGAAATTT
30306473 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
30306514 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
30306555 GTGATCTGAATCA
1 GTGATCTGAATCA
30306568 AAGGAACGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:30306794 original size:41 final size:41
Alignment explanation
Indices: 30306737--30306912 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
30306727 GTTTGGAATT
30306737 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
30306778 GGTGATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
30306819 GGTGATCTGAATCAAGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * * *
30306860 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCT
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
30306901 GGTGATCTGAAT
1 GGTGATCTGAAT
30306913 ATGTTAAATT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 122 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:30309401 original size:23 final size:23
Alignment explanation
Indices: 30309375--30309473 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
30309365 ATAAGTGTCA
30309375 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30309398 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30309421 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
30309444 CACTGAAATGTAGCTTAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30309467 CACTGAT
1 CACTGAT
30309474 CAATAACACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:30316346 original size:23 final size:23
Alignment explanation
Indices: 30316320--30316413 Score: 152
Period size: 23 Copynumber: 4.1 Consensus size: 23
30316310 TGCCATACTA
*
30316320 ATATGTAGCCGAAGCTACCACTG
1 ATATGTAGCCAAAGCTACCACTG
30316343 ATATGTAGCCAAAGCTACCACTG
1 ATATGTAGCCAAAGCTACCACTG
*
30316366 AAATGTAGCCAAAGCTACCACTG
1 ATATGTAGCCAAAGCTACCACTG
* *
30316389 AAATGTAGCCGAAGCTACCACTG
1 ATATGTAGCCAAAGCTACCACTG
30316412 AT
1 AT
30316414 CAATAACACT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (23 bp):
ATATGTAGCCAAAGCTACCACTG
Found at i:30324030 original size:50 final size:50
Alignment explanation
Indices: 30323955--30324147 Score: 273
Period size: 50 Copynumber: 3.8 Consensus size: 50
30323945 ATTTGGGTAA
*
30323955 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
*
30324005 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
30324055 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA-TCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACT-GAGATG
**
30324105 AGAACATCCCATGTAAGACCATGTCTGGGACATGG-ATTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
30324148 TGTTATTATC
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
50 95 0.74
51 33 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:30334834 original size:25 final size:25
Alignment explanation
Indices: 30334806--30334858 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
30334796 TATAAGGGAG
*
30334806 AAAGCAAAACGAGGTAAGCTTATGT
1 AAAGCAAAACGAGGTAAGCTTACGT
***
30334831 AAAGTTTAACGAGGTAAGCTTACGT
1 AAAGCAAAACGAGGTAAGCTTACGT
30334856 AAA
1 AAA
30334859 ACTTAGTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAGCAAAACGAGGTAAGCTTACGT
Found at i:30338361 original size:36 final size:36
Alignment explanation
Indices: 30338314--30338397 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
30338304 TACTCTCTAT
* *
30338314 TTTGGTGTGTTTCGGATGGA-TGAGGTCTTATGAACA
1 TTTGGTGTGTTTCAGATGGACT-AGCTCTTATGAACA
*
30338350 TTTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
1 TTTGGTGTGTTTCAGATGGACTAGCTCTTATGAACA
*
30338386 TCTGGTGTGTTT
1 TTTGGTGTGTTT
30338398 TGGTAGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.42
Consensus pattern (36 bp):
TTTGGTGTGTTTCAGATGGACTAGCTCTTATGAACA
Found at i:30343984 original size:20 final size:20
Alignment explanation
Indices: 30343959--30343998 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30343949 CGTAAAATGA
*
30343959 TTTCTGAAAAATATTTTACT
1 TTTCTGAAAAATAATTTACT
*
30343979 TTTCTGTAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
30343999 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:30344007 original size:35 final size:33
Alignment explanation
Indices: 30343945--30344010 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
30343935 AGTAAAATAT
*
30343945 TTTTCGTAAAATGATTTCTGAAAAATATTTTAC
1 TTTTCGTAAAATAATTTCTGAAAAATATTTTAC
*
30343978 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATAATTT-CTGAAAAATATTTT
30344011 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.38
35 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTTCGTAAAATAATTTCTGAAAAATATTTTAC
Found at i:30348971 original size:23 final size:23
Alignment explanation
Indices: 30348945--30348990 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30348935 AACAAGTAAA
30348945 AGAGATTTCAAAGTATATAAGCT
1 AGAGATTTCAAAGTATATAAGCT
30348968 AGAGATTTCAAAGTATATAAGCT
1 AGAGATTTCAAAGTATATAAGCT
30348991 CTTCTATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
AGAGATTTCAAAGTATATAAGCT
Found at i:30355377 original size:30 final size:30
Alignment explanation
Indices: 30355333--30355395 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
30355323 ACTTAACAAG
*
30355333 CAAATGCCTCTAAAATAATAACAAAAATAA
1 CAAATGCCTCTAAAATAAAAACAAAAATAA
* * * *
30355363 CAAATGTCTTTAAAATAAAAACAATATTAA
1 CAAATGCCTCTAAAATAAAAACAAAAATAA
30355393 CAA
1 CAA
30355396 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAAAAACAAAAATAA
Found at i:30355445 original size:14 final size:14
Alignment explanation
Indices: 30355426--30355455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30355416 ATTCAAACAA
30355426 TAGCAACAAAATAG
1 TAGCAACAAAATAG
*
30355440 TAGCAACATAATAG
1 TAGCAACAAAATAG
30355454 TA
1 TA
30355456 AAATGGTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (14 bp):
TAGCAACAAAATAG
Found at i:30358940 original size:42 final size:42
Alignment explanation
Indices: 30358881--30359026 Score: 177
Period size: 42 Copynumber: 3.5 Consensus size: 42
30358871 AGGGTTTATA
* * *
30358881 CTTTGGTTTAGCCGATGATGCACTTACGTGCTAGTTTG-TTCG
1 CTTTGGTTTATCCGATGATGCACTTATGTGCTAGTATGATT-G
* * *
30358923 CTTTGGTTTATCCGATGATGAACTTATGTGCTAGTATGAATA
1 CTTTGGTTTATCCGATGATGCACTTATGTGCTAGTATGATTG
* * ** *
30358965 CTTCGATTTATCTAATGATGCATTTATGTGCTAGTATGATTG
1 CTTTGGTTTATCCGATGATGCACTTATGTGCTAGTATGATTG
30359007 CTTTGGTTTATCCGATGATG
1 CTTTGGTTTATCCGATGATG
30359027 TAACACCCCT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 84 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (42 bp):
CTTTGGTTTATCCGATGATGCACTTATGTGCTAGTATGATTG
Found at i:30360964 original size:23 final size:23
Alignment explanation
Indices: 30360938--30361033 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
30360928 AGTGCCACAT
30360938 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
30360961 TGATATGTAGCCAAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
30360984 TGAAATGTAGCTGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
30361007 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
30361030 TGAT
1 TGAT
30361034 CAATAACACT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:30368364 original size:23 final size:23
Alignment explanation
Indices: 30368335--30368433 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
30368325 ATAAGTGCCA
*
30368335 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30368358 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30368381 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30368404 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30368427 CACTGAT
1 CACTGAT
30368434 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:30370634 original size:25 final size:25
Alignment explanation
Indices: 30370616--30370738 Score: 117
Period size: 25 Copynumber: 4.9 Consensus size: 25
30370606 ACGAGTAGTA
*
30370616 AATCAGTAAGCTCATACGAGTTGAG
1 AATCAGTAAGCTCATACGAGCTGAG
* *
30370641 AATCGGTAAGCTCTTACGAGCTGTA-
1 AATCAGTAAGCTCATACGAGCTG-AG
**
30370666 AATTGGTAAGCTCATACGAGCTGAG
1 AATCAGTAAGCTCATACGAGCTGAG
*
30370691 AATCAGTAAGCTC-TCACGACCTGCA-
1 AATCAGTAAGCTCAT-ACGAGCTG-AG
* * *
30370716 AATCGGTAAGCCCGTACGAGCTG
1 AATCAGTAAGCTCATACGAGCTG
30370739 TGGTGTGTCC
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
24 2 0.02
25 77 0.94
26 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (25 bp):
AATCAGTAAGCTCATACGAGCTGAG
Found at i:30370654 original size:50 final size:50
Alignment explanation
Indices: 30370590--30370738 Score: 174
Period size: 50 Copynumber: 3.0 Consensus size: 50
30370580 TATGAGATAT
* * *
30370590 GAATTGGTATGCTCTTACGAG-TAGTAAATCAGTAAGCTCATACGAGTTGA
1 GAATCGGTAAGCTCTTACGAGCT-GTAAATCAGTAAGCTCATACGAGCTGA
**
30370640 GAATCGGTAAGCTCTTACGAGCTGTAAATTGGTAAGCTCATACGAGCTGA
1 GAATCGGTAAGCTCTTACGAGCTGTAAATCAGTAAGCTCATACGAGCTGA
* * * * * * *
30370690 GAATCAGTAAGCTCTCACGACCTGCAAATCGGTAAGCCCGTACGAGCTG
1 GAATCGGTAAGCTCTTACGAGCTGTAAATCAGTAAGCTCATACGAGCTG
30370739 TGGTGTGTCC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 85 0.99
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
GAATCGGTAAGCTCTTACGAGCTGTAAATCAGTAAGCTCATACGAGCTGA
Found at i:30370720 original size:75 final size:74
Alignment explanation
Indices: 30370591--30370739 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 74
30370581 ATGAGATATG
* * ** * *
30370591 AATTGGTATGCTCTTACGAGTAGTAAATCAGTAAGCTCATACGAGTTGAGAATCGGTAAGCTCTT
1 AATTGGTAAGCTCATACGAGTAG-AAATCAGTAAGCTCATACGACCTGAGAATCGGTAAGCCCGT
30370656 ACGAGCTGTA
65 ACGAGCTGTA
30370666 AATTGGTAAGCTCATACGAGCT-GAGAATCAGTAAGCTC-TCACGACCTGCA-AATCGGTAAGCC
1 AATTGGTAAGCTCATACGAG-TAGA-AATCAGTAAGCTCAT-ACGACCTG-AGAATCGGTAAGCC
30370728 CGTACGAGCTGT
62 CGTACGAGCTGT
30370740 GGTGTGTCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
74 2 0.03
75 60 0.94
76 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (74 bp):
AATTGGTAAGCTCATACGAGTAGAAATCAGTAAGCTCATACGACCTGAGAATCGGTAAGCCCGTA
CGAGCTGTA
Found at i:30372069 original size:43 final size:42
Alignment explanation
Indices: 30371966--30372070 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
30371956 AGCTGTTACA
* * *
30371966 GATGATGCACTACATATGCCAGTATAATTGCTTCAGTTCATCT
1 GATGATGCACTACGTGTGCCAGTATAATTGCTTCAGTTCA-CC
* *
30372009 GATGATGCACGT-CGTGTGCCAGTATAATTTCTTCGGCTTGC-CC
1 GATGATGCAC-TACGTGTGCCAGTATAATTGCTTCAG-TT-CACC
*
30372052 GATGATGCACTATGTGTGC
1 GATGATGCACTACGTGTGC
30372071 AAGCATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 47 0.90
44 3 0.06
45 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (42 bp):
GATGATGCACTACGTGTGCCAGTATAATTGCTTCAGTTCACC
Found at i:30372890 original size:25 final size:25
Alignment explanation
Indices: 30372856--30372907 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30372846 GTGGGTCTTA
30372856 TACGAGCTTATGAAAGCTCTAAAGC
1 TACGAGCTTATGAAAGCTCTAAAGC
30372881 TACGAGCTTATGAAAGCTCTAAAGC
1 TACGAGCTTATGAAAGCTCTAAAGC
30372906 TA
1 TA
30372908 ACTCAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (25 bp):
TACGAGCTTATGAAAGCTCTAAAGC
Found at i:30378346 original size:56 final size:56
Alignment explanation
Indices: 30378284--30378398 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
30378274 CAACACGTGC
30378284 AATTTTTTAATCCAAAGGGCATGACCAAAAATTCATAATGCTCATACATTGTTCTA
1 AATTTTTTAATCCAAAGGGCATGACCAAAAATTCATAATGCTCATACATTGTTCTA
30378340 AATTTTTTAATCCAAAGGGCATGACCAAAAATTCATAATGCTCATACATTGTTCTA
1 AATTTTTTAATCCAAAGGGCATGACCAAAAATTCATAATGCTCATACATTGTTCTA
30378396 AAT
1 AAT
30378399 GTTGTCTTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (56 bp):
AATTTTTTAATCCAAAGGGCATGACCAAAAATTCATAATGCTCATACATTGTTCTA
Found at i:30380628 original size:27 final size:26
Alignment explanation
Indices: 30380594--30380685 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 26
30380584 TAAGCTTAAC
* *
30380594 AAACACATTTGTGAACGTAGTTCACAA
1 AAACACATCTGTGAACATAGTTCAC-A
30380621 AAACACATCTGTGAACATAGTTCATCA
1 AAACACATCTGTGAACATAGTTCA-CA
30380648 AAACACATCTGTGAACATAGTTCACCA
1 AAACACATCTGTGAACATAGTTCA-CA
*
30380675 AAACAAATCTG
1 AAACACATCTG
30380686 CAAGCACAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (26 bp):
AAACACATCTGTGAACATAGTTCACA
Found at i:30383989 original size:29 final size:29
Alignment explanation
Indices: 30383955--30384027 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
30383945 ATGTATTAGT
* * *
30383955 TTAGGACACATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
30383984 TTAGGACATATTTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
30384013 TTAGGACATATTTAA
1 TTAGGACATATTTAA
30384028 TAATATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:30394673 original size:48 final size:48
Alignment explanation
Indices: 30394606--30394707 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
30394596 AAAATTTTTA
*
30394606 ACTA-TAAGATAAACATTAAATTCAATTTAATATTAAATTAATAAACT
1 ACTATTAAGATAAACATTAAATTCAATTTAATATTAAATTAATAAAAT
** * *
30394653 ACTATTAAGATAAGTATTAAATTTAATTTAATATTAAATTATTAAAAT
1 ACTATTAAGATAAACATTAAATTCAATTTAATATTAAATTAATAAAAT
*
30394701 AATATTA
1 ACTATTA
30394708 TTTTGGAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 4 0.08
48 44 0.92
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (48 bp):
ACTATTAAGATAAACATTAAATTCAATTTAATATTAAATTAATAAAAT
Found at i:30395131 original size:24 final size:25
Alignment explanation
Indices: 30395104--30395154 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
30395094 AAATATCATA
* *
30395104 TTAATTTTAGTTAATC-TAATTAAT
1 TTAATTTTACTTAATCAAAATTAAT
*
30395128 TTAATTTTACTTTATCAAAATTAAT
1 TTAATTTTACTTAATCAAAATTAAT
30395153 TT
1 TT
30395155 TTTCCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAATTTTACTTAATCAAAATTAAT
Found at i:30396575 original size:4 final size:4
Alignment explanation
Indices: 30396566--30396598 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
30396556 GATATTTTAG
*
30396566 ATTA ATTA ATTA ATTA ATT- ATTA ATTT ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
30396599 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
ATTA
Found at i:30398678 original size:15 final size:15
Alignment explanation
Indices: 30398654--30398685 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30398644 TACGTATGCA
*
30398654 AAATATAAAAGACAT
1 AAATACAAAAGACAT
30398669 AAATACAAAAGACAT
1 AAATACAAAAGACAT
30398684 AA
1 AA
30398686 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:30398874 original size:26 final size:27
Alignment explanation
Indices: 30398819--30398879 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
30398809 ATATTTTCTT
* * *
30398819 AAAATTTTACCAGAAGAAAAATCGT-T
1 AAAATTTTACCAAAAGAAAAATCATCA
*
30398845 AAAATTTTACCAAATATAAAAAT-ATCA
1 AAAATTTTACCAAA-AGAAAAATCATCA
30398872 AAAATTTT
1 AAAATTTT
30398880 GTTAGGGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAATTTTACCAAAAGAAAAATCATCA
Found at i:30400463 original size:50 final size:50
Alignment explanation
Indices: 30400372--30400554 Score: 165
Period size: 50 Copynumber: 3.5 Consensus size: 50
30400362 TCCTGTACTA
* **
30400372 CCAATGCCATATCCCAGATATGGTCTTACATGGGG-TTTCTCATAT-TGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACA-GGGGACCTCTCATATCT-GTG
* * *
30400422 CCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCTGTG
1 CCAATGCCATATCCCAGACATGGTCTTACAGGGGACCTCTCATATCTGTG
* * * * *
30400472 CCAACGCCATGTTCAAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC--TG-TG
30400528 CCAATGCCA-AGTCCCAGACATGGTCTT
1 CCAATGCCATA-TCCCAGACATGGTCTT
30400555 GCATGGGATC
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.04
50 73 0.69
51 1 0.01
53 2 0.02
55 2 0.02
56 24 0.23
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATATCCCAGACATGGTCTTACAGGGGACCTCTCATATCTGTG
Found at i:30404898 original size:19 final size:20
Alignment explanation
Indices: 30404874--30404912 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30404864 TCAATCAAAG
30404874 GCACTTCCA-TAATTTCCAA
1 GCACTTCCAGTAATTTCCAA
*
30404893 GCACTTTCAGTAATTTCCAA
1 GCACTTCCAGTAATTTCCAA
30404913 TATATTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (20 bp):
GCACTTCCAGTAATTTCCAA
Found at i:30408311 original size:25 final size:27
Alignment explanation
Indices: 30408269--30408339 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
30408259 AAGTTCAAGC
* *
30408269 GAGCCAAT-ATCAGGAAGCTC-TGGAA
1 GAGCCATTAATCAGGAAGCTCATGAAA
*
30408294 -AGCCATTAATCAGAAAGCTCATGAAA
1 GAGCCATTAATCAGGAAGCTCATGAAA
*
30408320 GAGCCTTTAATCAGGAAGCT
1 GAGCCATTAATCAGGAAGCT
30408340 TCGAAGAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 6 0.16
25 11 0.29
26 4 0.11
27 17 0.45
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GAGCCATTAATCAGGAAGCTCATGAAA
Found at i:30408451 original size:24 final size:24
Alignment explanation
Indices: 30408424--30408489 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
30408414 GGATGCTCCA
*
30408424 AAGAGCTATTAATGGGAAGCTCGC
1 AAGAGCTATTAATGGGAAGCTCAC
* * * *
30408448 AAGAACCATATAACGGGAAGCTCAT
1 AAGAGCTAT-TAATGGGAAGCTCAC
* *
30408473 GAGAGCTAATAATGGGA
1 AAGAGCTATTAATGGGA
30408490 CACTCTTTCG
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAATGGGAAGCTCAC
Found at i:30408545 original size:17 final size:17
Alignment explanation
Indices: 30408513--30408546 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30408503 TGTGGTGTGT
*
30408513 CCGCAACACATGAAGGA
1 CCGCAACAAATGAAGGA
*
30408530 CCGCAACAAATTAAGGA
1 CCGCAACAAATGAAGGA
30408547 ACCCTATATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (17 bp):
CCGCAACAAATGAAGGA
Found at i:30413192 original size:13 final size:14
Alignment explanation
Indices: 30413167--30413195 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30413157 ATTAAGATGT
30413167 CTAAGTCTAGCTAG
1 CTAAGTCTAGCTAG
30413181 CTAAGT-TAGCTAG
1 CTAAGTCTAGCTAG
30413194 CT
1 CT
30413196 GATTCGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (14 bp):
CTAAGTCTAGCTAG
Found at i:30413681 original size:9 final size:9
Alignment explanation
Indices: 30413667--30413697 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30413657 GTTAAACGAA
30413667 TCGAGTTAT
1 TCGAGTTAT
*
30413676 TCGAGTTAA
1 TCGAGTTAT
30413685 TCGAGTTAT
1 TCGAGTTAT
30413694 TCGA
1 TCGA
30413698 ATCAATTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30414028 original size:19 final size:20
Alignment explanation
Indices: 30413985--30414027 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
30413975 CATCAAAACC
30413985 TTTTATTTTCCCCCAAAATT
1 TTTTATTTTCCCCCAAAATT
30414005 TTTTATTTTCCCCCAAAATT
1 TTTTATTTTCCCCCAAAATT
30414025 TTT
1 TTT
30414028 ACTCCCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTATTTTCCCCCAAAATT
Found at i:30415216 original size:5 final size:5
Alignment explanation
Indices: 30415208--30415264 Score: 87
Period size: 5 Copynumber: 11.4 Consensus size: 5
30415198 GAGAAAATGA
* * *
30415208 TGAGA TGAGG TGAGG TGAGG TGAGG TGGGG TGAGG TGAGG TGAGT TGAGG
1 TGAGG TGAGG TGAGG TGAGG TGAGG TGAGG TGAGG TGAGG TGAGG TGAGG
30415258 TGAGG TG
1 TGAGG TG
30415265 GGCAACCGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.19, C:0.00, G:0.58, T:0.23
Consensus pattern (5 bp):
TGAGG
Found at i:30415329 original size:4 final size:4
Alignment explanation
Indices: 30415320--30415344 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
30415310 TTCAATTCGC
30415320 GGCT GGCT GGCT GGCT GGCT GGCT G
1 GGCT GGCT GGCT GGCT GGCT GGCT G
30415345 CTGAGACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.52, T:0.24
Consensus pattern (4 bp):
GGCT
Found at i:30415361 original size:2 final size:2
Alignment explanation
Indices: 30415354--30415414 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
30415344 GCTGAGACTT
30415354 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30415396 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
30415415 GGAGGAAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30417794 original size:14 final size:14
Alignment explanation
Indices: 30417777--30417803 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30417767 TTTATTTTTT
30417777 ATATTTAAAATAGA
1 ATATTTAAAATAGA
30417791 ATATTTAAAATAG
1 ATATTTAAAATAG
30417804 CCATGTCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
ATATTTAAAATAGA
Found at i:30418252 original size:2 final size:2
Alignment explanation
Indices: 30418245--30418273 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30418235 TCTTTCCTGC
30418245 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
30418274 CCCCTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:30422296 original size:20 final size:20
Alignment explanation
Indices: 30422273--30422313 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30422263 AATATAAACC
30422273 ATATTTTTTATTTTTAAAAT
1 ATATTTTTTATTTTTAAAAT
30422293 ATATTTTTTATTTTTAAAAT
1 ATATTTTTTATTTTTAAAAT
30422313 A
1 A
30422314 CACTACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTTTTATTTTTAAAAT
Found at i:30422543 original size:19 final size:18
Alignment explanation
Indices: 30422523--30422561 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
30422513 TTTTATTCCT
30422523 TTCCTCACACTGTATTTC
1 TTCCTCACACTGTATTTC
30422541 TT--T-ACACTGTATTTC
1 TTCCTCACACTGTATTTC
30422556 TTCCTC
1 TTCCTC
30422562 CTTACACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
15 14 0.78
16 1 0.06
17 1 0.06
18 2 0.11
ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49
Consensus pattern (18 bp):
TTCCTCACACTGTATTTC
Found at i:30422547 original size:15 final size:15
Alignment explanation
Indices: 30422529--30422557 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30422519 TCCTTTCCTC
30422529 ACACTGTATTTCTTT
1 ACACTGTATTTCTTT
30422544 ACACTGTATTTCTT
1 ACACTGTATTTCTT
30422558 CCTCCTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (15 bp):
ACACTGTATTTCTTT
Found at i:30432170 original size:27 final size:27
Alignment explanation
Indices: 30432138--30432209 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
30432128 TCTTTGTCAG
* *
30432138 CCTTTGTTGCATACTCTGTATGAATCA
1 CCTTTGTGGCGTACTCTGTATGAATCA
* * * *
30432165 TCTTTGTGGCGTACTTTGTATGGATCG
1 CCTTTGTGGCGTACTCTGTATGAATCA
30432192 CCTTTGTGGCGTACTCTG
1 CCTTTGTGGCGTACTCTG
30432210 ACTAGATTGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.42
Consensus pattern (27 bp):
CCTTTGTGGCGTACTCTGTATGAATCA
Found at i:30432221 original size:27 final size:27
Alignment explanation
Indices: 30432137--30432235 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
30432127 ATCTTTGTCA
* *
30432137 GCCTTTGTTGCATACTCTGTAT-GAATC
1 GCCTTTGTGGCGTACTCTGTATAG-ATC
** * *
30432164 ATCTTTGTGGCGTACTTTGTATGGATC
1 GCCTTTGTGGCGTACTCTGTATAGATC
*
30432191 GCCTTTGTGGCGTACTCTG-ACTAGATT
1 GCCTTTGTGGCGTACTCTGTA-TAGATC
* *
30432218 GCCTTTGTGACATACTCT
1 GCCTTTGTGGCGTACTCT
30432236 ATAGTAAGGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.40
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTCTGTATAGATC
Found at i:30435206 original size:20 final size:21
Alignment explanation
Indices: 30435181--30435219 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30435171 CACTTTGACA
*
30435181 ATAAAAAT-GAAAAGAAAAGC
1 ATAAAAATCAAAAAGAAAAGC
30435201 ATAAAAATCAAAAAGAAAA
1 ATAAAAATCAAAAAGAAAA
30435220 ATTCCTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (21 bp):
ATAAAAATCAAAAAGAAAAGC
Found at i:30436671 original size:24 final size:24
Alignment explanation
Indices: 30436637--30436729 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
30436627 AACTACATTG
30436637 TTGTGGTCAAGCCACTCAATAACA
1 TTGTGGTCAAGCCACTCAATAACA
* *
30436661 TTGTGGACAAGCCACTCAATAGCA
1 TTGTGGTCAAGCCACTCAATAACA
* *
30436685 TTGTGGCCAAGCCACTCAATAACG
1 TTGTGGTCAAGCCACTCAATAACA
*
30436709 TTGGGGTCAAGCCACTCAATA
1 TTGTGGTCAAGCCACTCAATA
30436730 TTGCAGTAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (24 bp):
TTGTGGTCAAGCCACTCAATAACA
Found at i:30441431 original size:24 final size:24
Alignment explanation
Indices: 30441404--30441479 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
30441394 CAACCTAATC
* *
30441404 AATAATGTTATGGCCAAGTCACTT
1 AATAATGTTGTGGCCAAGCCACTT
* *
30441428 AATAACGTTGTGGACAAGCCACTT
1 AATAATGTTGTGGCCAAGCCACTT
* *
30441452 AATAATGTTGTGGCGAAGCCACTC
1 AATAATGTTGTGGCCAAGCCACTT
30441476 AATA
1 AATA
30441480 TCGCAGCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (24 bp):
AATAATGTTGTGGCCAAGCCACTT
Found at i:30441824 original size:28 final size:28
Alignment explanation
Indices: 30441767--30441826 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
30441757 ATATACACAT
*
30441767 AATTTCACAACAATCATTAAATCGCATC
1 AATTTCACAACAATCATAAAATCGCATC
*
30441795 AATTATCACATACGATCATAAAAT-G-ATC
1 AATT-TCACA-ACAATCATAAAATCGCATC
30441823 AATT
1 AATT
30441827 CAAAGTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.39
29 6 0.21
30 11 0.39
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (28 bp):
AATTTCACAACAATCATAAAATCGCATC
Found at i:30449817 original size:138 final size:139
Alignment explanation
Indices: 30449664--30450198 Score: 627
Period size: 138 Copynumber: 3.8 Consensus size: 139
30449654 CATAGATATA
* *
30449664 ATTAATTGTATATATTTTATCGAATTTATTACTATAAGCAGTTATATTAATTAATTTCGGT-AAA
1 ATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAA
* *
30449728 TATATTAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTC
66 TATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTC
*
30449793 ATTCAAAAT
131 ATACAAAAT
* * * * * * *
30449802 TTTAATTGTATATATTTGACCAAATTTATTAATGTAAACAGTTATATTAATTAATTTCAGACAAA
1 ATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAA
* *
30449867 -ATATAAAAGACATGAAAATTAATATTCTTTTTGAAAGAATATAATTAATATATGAATCTTATTC
66 TATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTC
**
30449931 ATACAGGAT
131 ATACAAAAT
**
30449940 ATTAATTGTATATATAATA-CTGAATTTATTAATATAAACAGTAGTATAAATAGTTATATTAATT
1 ATTAATTGTATATATTTTATC-GAATTTATTAATATAAAC---AGT-T--ATA-TTA-ATTAA-T
* * *
30450004 AAATTAGGTCAAATACA-AAATA-A-ATGGAAATTAATATT-TTTTGGAAAGAATATAATTAATA
56 ---TTCGGTCAAATATATAAA-AGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATA
* *
30450065 TATGAATTTGATTCATAAAAAAT
117 TATGAATTTTATTCATACAAAAT
* * * * *
30450088 ATTAATTGCATATATTTTATCGAATTTATTAATATAAAAAATTATAGTAATTAATTTCGATCAAA
1 ATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAA
*
30450153 -ATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATGTAATT
66 TATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATT
30450199 CCTTTTTCTA
Statistics
Matches: 332, Mismatches: 44, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
135 3 0.01
136 12 0.04
137 15 0.05
138 167 0.50
139 4 0.01
140 5 0.02
141 5 0.02
142 4 0.01
144 4 0.01
145 5 0.02
146 5 0.02
147 1 0.00
148 73 0.22
149 15 0.05
150 11 0.03
151 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (139 bp):
ATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAA
TATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTC
ATACAAAAT
Found at i:30450062 original size:148 final size:150
Alignment explanation
Indices: 30449836--30450198 Score: 393
Period size: 148 Copynumber: 2.5 Consensus size: 150
30449826 TTTATTAATG
* * * *
30449836 TAAACAGTTATATTAATTAATTTCAGACAAAATATAAAAGACATGAAAATTAATATTCTTTTTGA
1 TAAACAGTTATATTAATTAAATTCAGACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGGA
* ** *
30449901 AAGAATATAATTAATATATGAATCTT-ATTCATACAGGATATTAATTGTATATATAATA-CTGAA
66 AAGAATATAATTAATATATGAAT-TTGATTCATAAAAAATATTAATTGCATATATAATATC-GAA
30449964 TTTATTAATATAAACAGTAGTA
129 TTTATTAATATAAACAGTAGTA
* * * *
30449986 TAAATAGTTATATTAATTAAATT-AGGTC-AAATACAAAATAAATGGAAATTAATATT-TTTTGG
1 TAAACAGTTATATTAATTAAATTCA-GACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGG
**
30450048 AAAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATTTTATCGAAT
65 AAAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATAATATCGAAT
30450113 TTATT-A-AT----A-TA--A
130 TTATTAATATAAACAGTAGTA
* * * *
30450125 -AAA-A-TTATAGTAATTAATTTC-GATCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
1 TAAACAGTTATATTAATTAAATTCAGA-CAAAATACAAAAGAAATGAAAATTAATATTCTTTTGG
*
30450186 AAAGAATGTAATT
65 AAAGAATATAATT
30450199 CCTTTTTCTA
Statistics
Matches: 184, Mismatches: 22, Indels: 26
0.79 0.09 0.11
Matches are distributed among these distances:
135 1 0.01
136 15 0.08
137 25 0.14
138 21 0.11
139 1 0.01
141 2 0.01
142 1 0.01
146 2 0.01
147 3 0.02
148 64 0.35
149 26 0.14
150 23 0.12
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (150 bp):
TAAACAGTTATATTAATTAAATTCAGACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGGA
AAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATAATATCGAATT
TATTAATATAAACAGTAGTA
Found at i:30459128 original size:25 final size:25
Alignment explanation
Indices: 30459065--30459130 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
30459055 ACGAGCTGTG
* **
30459065 AATCGGTATGCTCACTCGAGCTATA
1 AATCGGTATGCTCTCAAGAGCTATA
*
30459090 GATCGGTATGCTCTCAAGAGCTATA
1 AATCGGTATGCTCTCAAGAGCTATA
30459115 AATCGGTATGCTCTCA
1 AATCGGTATGCTCTCA
30459131 CCAGTTGTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AATCGGTATGCTCTCAAGAGCTATA
Found at i:30459421 original size:37 final size:37
Alignment explanation
Indices: 30459380--30459455 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
30459370 TTCCTTCCAA
30459380 GATGCTTAAATGAATACTGGTTCGTGTAGCCATTATG
1 GATGCTTAAATGAATACTGGTTCGTGTAGCCATTATG
30459417 GATGCTTAAATGAATACTGGTTCGTGTAGCCATTATG
1 GATGCTTAAATGAATACTGGTTCGTGTAGCCATTATG
30459454 GA
1 GA
30459456 CTACCCGTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (37 bp):
GATGCTTAAATGAATACTGGTTCGTGTAGCCATTATG
Found at i:30466863 original size:3 final size:3
Alignment explanation
Indices: 30466855--30466880 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30466845 TGACTTTGTT
30466855 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
30466881 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:30466885 original size:3 final size:3
Alignment explanation
Indices: 30466879--30466905 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30466869 CATCATCATC
30466879 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
30466906 CAATTTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30470663 original size:20 final size:20
Alignment explanation
Indices: 30470638--30470702 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
30470628 CACTTCGGCA
30470638 CCCCTGAATGCACATACATG
1 CCCCTGAATGCACATACATG
** * * *
30470658 CCCCTGTTTTCACTTTA-GTAG
1 CCCCTGAATGCAC-ATACAT-G
30470679 -CCCTGAATGCACATACATG
1 CCCCTGAATGCACATACATG
30470698 CCCCT
1 CCCCT
30470703 ATTTGTACTT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (20 bp):
CCCCTGAATGCACATACATG
Found at i:30470666 original size:40 final size:40
Alignment explanation
Indices: 30470637--30470912 Score: 295
Period size: 40 Copynumber: 6.9 Consensus size: 40
30470627 TCACTTCGGC
* * *
30470637 ACCCCTGAATGCACATACATGCCCCTGTTT-TCACTTTAGT
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGT-ACTTCAAT
* * * *
30470677 AGCCCTGAATGCACATACATGCCCCTATTTGTACTTCAAA
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
* * *
30470717 ACCCCTGAATGCACATATGTGCCCCTGTTTGTACTTTATT
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
* ***
30470757 ACCTCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGT
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
* * * * * *
30470797 ACCTCTAAATGCATATA-TTGCCCTTATTTGTACTTCAAT
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
* * * *
30470836 ACCCCTGAATACACATACGTGCCCGTATTTGTACTTCGAT
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
* *
30470876 ATCCCTGAATGCACATACGTGCCCTTGTTTGTACTTC
1 ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTC
30470913 GCTATCCCTA
Statistics
Matches: 199, Mismatches: 35, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
39 29 0.15
40 169 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (40 bp):
ACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTCAAT
Found at i:30470741 original size:20 final size:20
Alignment explanation
Indices: 30470718--30470783 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
30470708 TACTTCAAAA
30470718 CCCCTGAATGCACATATGTG
1 CCCCTGAATGCACATATGTG
** * * *
30470738 CCCCTGTTTGTACTTTAT-TA
1 CCCCTGAATGCAC-ATATGTG
* *
30470758 CCTCTGAATGCACATACGTG
1 CCCCTGAATGCACATATGTG
30470778 CCCCTG
1 CCCCTG
30470784 TTTGTACTTT
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.32
Consensus pattern (20 bp):
CCCCTGAATGCACATATGTG
Found at i:30470859 original size:119 final size:120
Alignment explanation
Indices: 30470639--30470911 Score: 358
Period size: 119 Copynumber: 2.3 Consensus size: 120
30470629 ACTTCGGCAC
* *
30470639 CCCTGAATGCACATACATGCCCCTGTTT-TCACTTTAGTAGCCCTGAATGCACATACATGCCCCT
1 CCCTGAATGCACATACGTGCCCCTGTTTGT-ACTTTAGTAGCCCTAAATGCACATACATGCCCCT
* * * *
30470703 ATTTGTACTTCAAAACCCCTGAATGCACATATGTGCCCCTGTTTGTACTT-TAT-T
65 ATTTGTACTTCAAAACCCCTGAATACACATACGTGCCCCTATTTGTACTTCGATAT
* * *
30470757 ACCTCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTA-CCTCTAAATGCATATA-TTGCCC
1 -CC-CTGAATGCACATACGTGCCCCTGTTTGTACTTTAGTAGCC-CTAAATGCACATACATGCCC
* * *
30470820 TTATTTGTACTTCAATACCCCTGAATACACATACGTGCCCGTATTTGTACTTCGATAT
63 CTATTTGTACTTCAAAACCCCTGAATACACATACGTGCCCCTATTTGTACTTCGATAT
*
30470878 CCCTGAATGCACATACGTGCCCTTGTTTGTACTT
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTT
30470912 CGCTATCCCT
Statistics
Matches: 136, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
119 86 0.63
120 48 0.35
121 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.34
Consensus pattern (120 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTAGTAGCCCTAAATGCACATACATGCCCCTA
TTTGTACTTCAAAACCCCTGAATACACATACGTGCCCCTATTTGTACTTCGATAT
Found at i:30504304 original size:23 final size:23
Alignment explanation
Indices: 30504278--30504339 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
30504268 TTGAACCATA
**
30504278 ACCATTTCGTACCAAATCGTATT
1 ACCATTTCGTACCAAATCACATT
*
30504301 ACCATTTCGAACCAAATCACATT
1 ACCATTTCGTACCAAATCACATT
*
30504324 ACCATTTCGTAACAAA
1 ACCATTTCGTACCAAA
30504340 CCCAAAACCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (23 bp):
ACCATTTCGTACCAAATCACATT
Found at i:30511348 original size:18 final size:18
Alignment explanation
Indices: 30511325--30511359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30511315 ATTGTTTTTA
30511325 ATGTTCATTTTATTTATC
1 ATGTTCATTTTATTTATC
* *
30511343 ATGTTCCTTTTGTTTAT
1 ATGTTCATTTTATTTAT
30511360 GACGTTCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (18 bp):
ATGTTCATTTTATTTATC
Found at i:30513342 original size:5 final size:5
Alignment explanation
Indices: 30513325--30513357 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30513315 TAAAAACTAG
*
30513325 AAAAT AAAGT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
30513358 GTTCTAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Done.