Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_pilon, whole genome shotgun sequence
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: 1004101
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:181956 original size:20 final size:20
Alignment explanation
Indices: 181931--181979 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
181921 CGAAACTAAA
181931 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
181951 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
181971 ATCGCAACG
1 ATCGCAACG
181980 GGATAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:182086 original size:20 final size:20
Alignment explanation
Indices: 182061--182108 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
182051 CGATTATCTT
182061 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
182081 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
182101 GTTGCGAT
1 GTTGCGAT
182109 TTTAAGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:182118 original size:20 final size:20
Alignment explanation
Indices: 182075--182138 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
182065 CGATAGTCAT
** * *
182075 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTAAG
182095 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
182115 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
182135 TTTC
1 TTTC
182139 AGAAACTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:182709 original size:21 final size:21
Alignment explanation
Indices: 182618--182721 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
182608 GACTCACTTG
*
182618 TCATCGTTCAAGAGGCCTCTCA
1 TCATCGTTCAAGAGGCCCCT-A
182640 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
** * *
182660 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * *
182681 CCAGCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTA
* *
182702 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
182722 CCCACCATTC
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
20 2 0.03
21 63 0.95
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:182715 original size:42 final size:42
Alignment explanation
Indices: 182616--182736 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
182606 CTGACTCACT
* * ** *
182616 TGTCATCGTTCAAGAGGCCTCTCATATCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
* ** *
182658 TATCATCCCTCAAGAGTCCCCTCCCAGCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
* *
182700 TGTCATCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TGTCATCGTTCAAGA-GTCCCCTCCCACCGTTCAAGAG
182737 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCC
Found at i:182735 original size:21 final size:21
Alignment explanation
Indices: 182667--182736 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
182657 CTATCATCCC
*
182667 TCAAGA-GTCCCCTCCCAGCGT
1 TCAAGAGGT-CCCTCCCACCGT
* ** *
182688 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCACCGT
* *
182709 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCGT
182730 TCAAGAG
1 TCAAGAG
182737 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.20
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCGT
Found at i:184786 original size:21 final size:20
Alignment explanation
Indices: 184748--184786 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
184738 TAATGGATGG
*
184748 TTGTTTTTATATGTTGTTAT
1 TTGTTTTTATATGATGTTAT
*
184768 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TATATGATGTT
184787 TAATGCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.69
Consensus pattern (20 bp):
TTGTTTTTATATGATGTTAT
Found at i:186773 original size:20 final size:19
Alignment explanation
Indices: 186730--186774 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
186720 CAAAAAAATC
* *
186730 CAATTTCACATTCTAACAT
1 CAATTTCACACTCAAACAT
186749 CAATTTCAACACTCAAACAT
1 CAATTTC-ACACTCAAACAT
*
186769 TAATTT
1 CAATTT
186775 ATAGTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (19 bp):
CAATTTCACACTCAAACAT
Found at i:196105 original size:20 final size:19
Alignment explanation
Indices: 196082--196128 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
196072 CGATATACCA
196082 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
196102 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
196122 GGTAAAA
1 GGTAAAA
196129 TGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:196206 original size:181 final size:182
Alignment explanation
Indices: 195870--196342 Score: 714
Period size: 181 Copynumber: 2.6 Consensus size: 182
195860 GATCCAAATT
* * * * **
195870 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
195935 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
196000 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
196052 AAAAATATATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
196117 AAACTGGTAAAATGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
196181 GTGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
196233 AAAAATATATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
196298 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
196343 TGTAAGTACG
Statistics
Matches: 263, Mismatches: 28, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 167 0.63
182 96 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:196314 original size:17 final size:19
Alignment explanation
Indices: 196274--196314 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
196264 GTAAAAATAT
*
196274 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
196294 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
196311 GATA
1 GATA
196315 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:198467 original size:21 final size:20
Alignment explanation
Indices: 198418--198481 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
198408 AAGACAATCA
*
198418 AGAGTCGAAGAAAACTTGAT
1 AGAGTCGAAGAAAACTTGAG
198438 AGA-TCCGAAGAGAAACTTGAG
1 AGAGT-CGAAGA-AAACTTGAG
*
198459 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGA-AAACTTGAG
198480 AG
1 AG
198482 GCATAAGGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 27 0.71
22 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.17
Consensus pattern (20 bp):
AGAGTCGAAGAAAACTTGAG
Found at i:198580 original size:33 final size:33
Alignment explanation
Indices: 198515--198576 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
198505 AAATAGATGG
198515 AGTGGTGAAAGAAGTAGAGGTGTTGAAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTGAAGGGTGA
* *
198548 AGTGGTGAAAGAAGTTGGGGTGTT-AAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTGAAGGG
198577 GTGATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.31, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTGAAGGGTGA
Found at i:200396 original size:19 final size:19
Alignment explanation
Indices: 200372--200420 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
200362 AATGTAGGGT
200372 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
200391 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
200410 TAATTTTGTAT
1 TAATTTTGTAT
200421 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:201393 original size:399 final size:400
Alignment explanation
Indices: 200654--201635 Score: 1673
Period size: 399 Copynumber: 2.5 Consensus size: 400
200644 AATTTACAAT
* *
200654 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
200719 CGAAACCCA-AATGTATAATGTAATAGGTAATTTTTCAATCTAATCGTTACAAGTATACCGGTTT
66 CGAAACCCATAA-GTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
* *
200783 TATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCA
*
200848 GAATGAATGGCAAACAACGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGAT
195 GAATGAATGGCAAACAACGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAT
*
200913 AAACATCAAAATCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACC
260 AAACATCAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACC
* *
200978 GGTTTTATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTGTAGTTTGTGTCGATATTTTTG
325 GGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGCGTCGATATTTTTG
201043 GTCCAGAATGA
390 GTCCAGAATGA
* *
201054 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
201119 CGAAACCCATAAGTATAAT-TAATGGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
201183 ATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
**
201248 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
196 AATGAATGGCAAACAACGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
* *
201313 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
261 AACATCAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCG
*
201378 GTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGCGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGCGTCGATATTTTTGG
*
201443 TCCAGATTGA
391 TCCAGAATGA
* * *
201453 ATGGTAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCATAAACGT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
201518 CTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
201583 ATGAGAGAATAGGTCTAAATAATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTA-GTTTGTGTCGATA
201636 CTAATTTAAA
Statistics
Matches: 547, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
399 376 0.69
400 165 0.30
401 6 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (400 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGCAAACAACGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
AACATCAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCG
GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGCGTCGATATTTTTGG
TCCAGAATGA
Found at i:201635 original size:200 final size:200
Alignment explanation
Indices: 200654--201616 Score: 1660
Period size: 200 Copynumber: 4.8 Consensus size: 200
200644 AATTTACAAT
* * *
200654 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
200719 CGAAACCCA-AATGTATAATGTAATAGGTAATTTTTCAATCTAATCGTTACAAGTATACCGGTTT
66 CGAAACCCATAA-GTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
*
200783 TATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
200848 GAATGA
195 GAATGA
** *
200854 ATGGCAAACAACGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
200919 CAAAATCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
200984 ATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
201049 AATGA
196 AATGA
*
201054 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
201119 CGAAACCCATAAGTATAAT-TAATGGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
201183 ATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
201248 AATGA
196 AATGA
201253 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
201318 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
201383 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGCGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
201448 ATTGA
196 AATGA
* * * *
201453 ATGGTAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCATAAACGT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
201518 CTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
201583 ATGAGAGAATAGGTCTAAATAATGTATCGACACT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACT
201617 GTTTAATGTT
Statistics
Matches: 724, Mismatches: 37, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
199 192 0.27
200 530 0.73
201 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:203131 original size:12 final size:12
Alignment explanation
Indices: 203109--203154 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
203099 CAATCGGTCA
*
203109 ATGAAGATGAAG
1 ATGACGATGAAG
*
203121 CTGACGATGAAG
1 ATGACGATGAAG
*
203133 ATGACGATGATG
1 ATGACGATGAAG
*
203145 ATGATGATGA
1 ATGACGATGA
203155 TCCAAACAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:203147 original size:18 final size:18
Alignment explanation
Indices: 203109--203154 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
203099 CAATCGGTCA
*
203109 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
203127 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
*
203145 ATGATGATGA
1 ATGAAGATGA
203155 TCCAAACAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:204659 original size:120 final size:120
Alignment explanation
Indices: 204446--204692 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
204436 ACATCGGAAC
204446 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
204511 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATTT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
204566 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGTTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
204631 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
204686 CCAGAAT
1 CCAGAAT
204693 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:204930 original size:303 final size:303
Alignment explanation
Indices: 204380--205160 Score: 1490
Period size: 303 Copynumber: 2.6 Consensus size: 303
204370 TTTAATATTG
204380 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
1 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
*
204445 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
66 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAG
*
204510 CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATTTCCAGAATTA
131 CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTA
*
204575 TAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGTTTTTATTAGCGAATAGGTC
196 TAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTC
204640 TACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTA
261 TACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTA
204683 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
1 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
*
204748 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCCGTATAAATATACCGGTTTTATGAG
66 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAG
*
204813 CGAATAGGTCTACAACCTATATCGATACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTA
131 CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTA
* *
204878 TAATGTACTATATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTC
196 TAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTC
204943 TACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTA
261 TACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTA
204986 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
1 TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
205051 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAG
66 CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAG
*
205116 CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCG
131 CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCG
205161 CTAATTTTAA
Statistics
Matches: 469, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
303 469 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (303 bp):
TGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAA
CCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAG
CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATTA
TAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTC
TACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTA
Found at i:204963 original size:120 final size:120
Alignment explanation
Indices: 204749--204995 Score: 413
Period size: 120 Copynumber: 2.1 Consensus size: 120
204739 ACATCGGAAC
204749 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCCGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCCGTATAAATATACCGGTTTTATGAGC
* *
204814 GAATAGGTCTACAACCTATATCGATACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * * * *
204869 CCAGAATTATAATGTACTATATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCCGTATAAATATACCGGTTTTATGAGC
*
204934 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
204989 CCAGAAT
1 CCAGAAT
204996 GGAAGAAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCCGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:207938 original size:23 final size:23
Alignment explanation
Indices: 207884--207955 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
207874 ATAGGTAAAA
*
207884 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
207907 A-ATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
207929 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
207952 ATAT
1 ATAT
207956 TGTTAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:208403 original size:23 final size:23
Alignment explanation
Indices: 208372--208444 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
208362 ATAGGTAAAA
*
208372 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
208395 ATATAATGTAATAAGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
208418 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
208441 ATAT
1 ATAT
208445 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:208688 original size:491 final size:489
Alignment explanation
Indices: 207698--209336 Score: 2982
Period size: 491 Copynumber: 3.4 Consensus size: 489
207688 GACCCAAATT
*
207698 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
207763 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAA
*
207828 AAATAGTATCGATCCTTTTTATAAAAA-TATGGACACTTTCAATATAATAGGTAAAAATATGATG
130 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
207892 TAATAGGTAGCGCTTA-ATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
195 TAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
* *
207956 TGTTAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTA
260 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTA
*
208021 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
325 AGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCGTCTAATGATTTATTT
* *
208086 TTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
390 TTTACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTA
*
208151 TTATCTTTGGTTAATATTGTTAAATTTAAAATCTA
455 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
* * *
208186 AACAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
208251 ATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
208316 AAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
*
208381 AATAGGTAGCGCTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
*
208446 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAAACATATTAATTT
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAAC--ATTAATTT
*
208511 AAAGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCGTCTAATGATTTATT
324 AAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCGTCTAATGATTTATT
*
208576 TTTTACATTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATT
389 TTTTACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATT
208641 ATTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
454 ATTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
208677 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
208742 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
208807 AAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
208872 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
208937 GTAAAGTATCTATCCTTTTTATAAAAGTGT-CATACTTATTTCACTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
* * **
209001 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAATAATTATATGTATCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
* *
209066 TTATGTTAC-AGTATATATTATCATTAAATTAAAAATAATAAACATATATATTACATATTTATTA
391 TTACGTTACGA-TATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTA
209130 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
455 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
209165 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
209230 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
209294 AAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAA
131 AAAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAA
209337 CATATTATAA
Statistics
Matches: 1113, Mismatches: 32, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
487 112 0.10
488 427 0.38
489 100 0.09
490 23 0.02
491 451 0.41
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
TTACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTAT
TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
Found at i:208894 original size:23 final size:23
Alignment explanation
Indices: 208863--208935 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
208853 ATAGGTAAAA
*
208863 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
208886 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
208909 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
208932 ATAT
1 ATAT
208936 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:209762 original size:16 final size:18
Alignment explanation
Indices: 209741--209775 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
209731 AAAGATTAAA
209741 TAATA-TTT-TTTAATTT
1 TAATATTTTCTTTAATTT
209757 TAATATTTTCTTTAATTT
1 TAATATTTTCTTTAATTT
209775 T
1 T
209776 TAAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 3 0.18
18 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATATTTTCTTTAATTT
Found at i:209783 original size:20 final size:18
Alignment explanation
Indices: 209736--209783 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
209726 TTCTTAAAGA
209736 TTAAATAATATTTTTTAATT
1 TTAAAT-AT-TTTTTTAATT
209756 TT-AATATTTTCTTTAATTT
1 TTAAATATTTT-TTTAA-TT
209775 TTAAATATT
1 TTAAATATT
209784 AATCAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 7 0.28
20 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAATATTTTTTTAATT
Found at i:223626 original size:21 final size:21
Alignment explanation
Indices: 223602--223645 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
223592 AGGATGCAGA
223602 GCCGTGGCTAGGTTGTTGGAG
1 GCCGTGGCTAGGTTGTTGGAG
223623 GCCGTGGCTAGGTTGTTGGAG
1 GCCGTGGCTAGGTTGTTGGAG
223644 GC
1 GC
223646 TCTGTGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.16, G:0.48, T:0.27
Consensus pattern (21 bp):
GCCGTGGCTAGGTTGTTGGAG
Found at i:228401 original size:22 final size:22
Alignment explanation
Indices: 228369--228427 Score: 100
Period size: 22 Copynumber: 2.6 Consensus size: 22
228359 AGAGAAGTAT
228369 CAGCTACTATAACAAACTATTAA
1 CAGCT-CTATAACAAACTATTAA
228392 CAGCTCTATAACAAACTATTAA
1 CAGCTCTATAACAAACTATTAA
*
228414 CAGCTCTAAAACAA
1 CAGCTCTATAACAA
228428 GTTTCACAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (22 bp):
CAGCTCTATAACAAACTATTAA
Found at i:230825 original size:21 final size:21
Alignment explanation
Indices: 230799--230846 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
230789 ATTTACCGTG
* *
230799 ATTGCGGCCGTCACGGGCGCT
1 ATTGCGGCCGTCACAGACGCT
*
230820 ATTGCGGCCGTCGCAGACGCT
1 ATTGCGGCCGTCACAGACGCT
230841 ATTGCG
1 ATTGCG
230847 ATCGTCGCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.31, G:0.35, T:0.21
Consensus pattern (21 bp):
ATTGCGGCCGTCACAGACGCT
Found at i:231738 original size:23 final size:23
Alignment explanation
Indices: 231664--231752 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
231654 ATAAATTACA
*
231664 CCGAAGTG-CCACGTAGAATTTTT
1 CCGAAG-GACCACGTAGAATTATT
* * *
231687 CCCGAAGGACCGCATAGAATTTATC
1 -CCGAAGGACCACGTAGAA-TTATT
*
231712 CCGAAAGACCACGTAGAATTATT
1 CCGAAGGACCACGTAGAATTATT
*
231735 CCGAAGGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
231753 CCCTCGACTC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 21 0.40
24 29 0.55
25 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTATT
Found at i:239584 original size:23 final size:23
Alignment explanation
Indices: 239558--239603 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
239548 CGAAGGACCG
239558 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
239581 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
239604 TATAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:245541 original size:23 final size:23
Alignment explanation
Indices: 245474--245560 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
245464 TCATATAAAT
*
245474 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
245497 TTTTGTC-CCGAAG-GACCGCGTAGAA
1 --TTG-CACCGAAGTG-CCACGTAGAA
*
245522 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
245545 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
245561 TATAATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 2 0.04
25 17 0.33
26 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:247789 original size:19 final size:21
Alignment explanation
Indices: 247765--247818 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
247755 TGCAAAAATG
*
247765 GTATCGATACCGTA-ATAG-A
1 GTATCGATACCATAGATAGTA
*
247784 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
247806 GTATCGATACCAT
1 GTATCGATACCAT
247819 GGTAAGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
21 4 0.14
22 13 0.45
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:248169 original size:54 final size:54
Alignment explanation
Indices: 248083--248503 Score: 614
Period size: 54 Copynumber: 7.8 Consensus size: 54
248073 TGTACCACAA
** *
248083 GCAC-ATGTGTGCAACCCATGGAATTCATCATGAGTTGATGAACAACCATACA-
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
*
248135 GACACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCATACAT
1 G-CACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
* * *
248190 GCATTATGTGTGCAACCCAC-GAAATTCATCATGGGTTGATGAACAACCGTACAG
1 GCACTATGTGTGCAACCCACAG-AATTCATCATGAGTTGATGAACAACCGTACAT
* *
248244 GCACTATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAACAACCCTACAT
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
*
248298 GCACTATGTGTGCAACCCACAAAATTCATCATGAGTTGATGAACAACCGTACAT
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
* * ** *
248352 GCACTATATGTACAAGTCACAGAATTCATCATGAGTTGATGAACAACCGTACAA
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
* ** *
248406 GCACTATGTGTGCAACTCATGGAATTCATCATGATTTGATGAACAACCGTACAT
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
* *
248460 GCACTATGTGTGCAACCCACAAAATTCATCATGTGTTGATGAAC
1 GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAAC
248504 GGCCATATAG
Statistics
Matches: 333, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 327 0.98
55 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (54 bp):
GCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACCGTACAT
Found at i:257323 original size:25 final size:24
Alignment explanation
Indices: 257273--257325 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
257263 CAAAATGGCA
**
257273 TTTTTTCTTTTAAATCTCTATGTC
1 TTTTTTCTTTTAAATCTCTACCTC
* *
257297 TTTTTTCCTTTTTAATCTCTCCCTC
1 TTTTTT-CTTTTAAATCTCTACCTC
257322 TTTT
1 TTTT
257326 CCTTTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.11, C:0.23, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTTCTTTTAAATCTCTACCTC
Found at i:257934 original size:134 final size:135
Alignment explanation
Indices: 257773--258056 Score: 399
Period size: 134 Copynumber: 2.1 Consensus size: 135
257763 CACGAAAAAT
* * * **
257773 TTGATTCACTTCTCTGCTCTTCTGGGAAGGTTGAACCGAACTTGATTTGCTTCACTGCTCTTCAG
1 TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACCGAACTTGATTTGCTTCACTGCTCTTCAG
* * * *
257838 AAAGACAAAATCTGAAAAAAGAAGAATCTGCTCTGCTACTCTTTATGGGAGGTTAAACTCCAAAA
66 AAAGACAAAATCTGAAAAAAGAAGAACCTGCTCCGCTACTCTTTAGGGGAGGTCAAACTCCAAAA
257903 AAC-C
131 AACTC
* * *
257907 TTGATCCACTTCACTTCTCTTCAGGGAAAATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAG
1 TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACCGAACTTGATTTGCTTCACTGCTCTTCAG
* * * * *
257972 GAAGACCAAATCTGAAAAGAGAAGAACCTGCTCCGCTACTCTTTAGGGGAGGTCAAACTCGAGAA
66 AAAGACAAAATCTGAAAAAAGAAGAACCTGCTCCGCTACTCTTTAGGGGAGGTCAAACTCCAAAA
*
258037 AACTT
131 AACTC
258042 TTGATCCACTTCACT
1 TTGATCCACTTCACT
258057 CATTGTTCTT
Statistics
Matches: 131, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
134 116 0.89
135 15 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (135 bp):
TTGATCCACTTCACTGCTCTTCAGGGAAAATTGAACCGAACTTGATTTGCTTCACTGCTCTTCAG
AAAGACAAAATCTGAAAAAAGAAGAACCTGCTCCGCTACTCTTTAGGGGAGGTCAAACTCCAAAA
AACTC
Found at i:258179 original size:57 final size:55
Alignment explanation
Indices: 258062--258216 Score: 177
Period size: 57 Copynumber: 2.8 Consensus size: 55
258052 TCACTCATTG
* * * * *
258062 TTCTTTCAAGGAGTATAGGACATGAAATAATCTTCGGAAAACGGGTCTGCTCGCTA
1 TTCTTTCAGGGAGTATAGGACTTG-AACAATCTTCGAAAAACGGGTCTGCTCCCTA
* *
258118 TTCTTTTAGGGAGTATAGGACTTGAACAATCTTCGAAAAAAATGGGTCTGCTCCCTA
1 TTCTTTCAGGGAGTATAGGACTTGAACAATCTTCG--AAAAACGGGTCTGCTCCCTA
* **
258175 TTCTTTCAGGGAGTATATGACTCAAACAATCTT-GAACAAACG
1 TTCTTTCAGGGAGTATAGGACTTGAACAATCTTCGAA-AAACG
258217 TGTTTGTTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
54 2 0.02
55 14 0.17
56 22 0.26
57 46 0.55
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (55 bp):
TTCTTTCAGGGAGTATAGGACTTGAACAATCTTCGAAAAACGGGTCTGCTCCCTA
Found at i:258406 original size:36 final size:36
Alignment explanation
Indices: 258247--258504 Score: 354
Period size: 37 Copynumber: 7.1 Consensus size: 36
258237 GACTCGATCT
* *
258247 TGATATGCTTCACTACTCTTCCGTGAAGGCTTATAAA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
* * *
258284 TGATTTGTTTCATTACTCTTCCATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* * **
258320 TGGATTTCCTTCACCACTCTTCCGTGAAATCTTAAGA
1 T-GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
258357 CGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
258394 TGATTTGCTTCACTACTCTTCCTTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
258430 TGGATTTGCTTCACTACTTTTCCGTGAAGGCTTAAGA
1 T-GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
258467 TGATTTGTTTCACTACTCTTCCATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
258503 TG
1 TG
258505 GCCCGGAGGA
Statistics
Matches: 194, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
36 72 0.37
37 122 0.63
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
Found at i:258435 original size:73 final size:73
Alignment explanation
Indices: 258247--258505 Score: 367
Period size: 73 Copynumber: 3.5 Consensus size: 73
258237 GACTCGATCT
* * * * *
258247 TGATATGCTTCACTACTCTTCCGTGAAGGCTTATAAAT-GATTTGTTTCATTACTCTTCCATGAA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGATGGATTTGCTTCACTACTCTTCCGTGAA
258311 GGCTTAAGA
65 GGCTTAAGA
* * ** *
258320 TGGATTTCCTTCACCACTCTTCCGTGAAATCTTAAGACGGATTTGCTTCACTACTCTTCCGTGAA
1 T-GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCCGTGAA
258385 GGCTTAAGA
65 GGCTTAAGA
* *
258394 TGATTTGCTTCACTACTCTTCCTTGAAGGCTTAAGATGGATTTGCTTCACTACTTTTCCGTGAAG
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCCGTGAAG
258459 GCTTAAGA
66 GCTTAAGA
* *
258467 TGATTTGTTTCACTACTCTTCCATGAAGGCTTAAGATGG
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGG
258506 CCCGGAGGAC
Statistics
Matches: 165, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
73 105 0.64
74 60 0.36
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (73 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCCGTGAAG
GCTTAAGA
Found at i:260417 original size:103 final size:102
Alignment explanation
Indices: 260193--260418 Score: 371
Period size: 103 Copynumber: 2.2 Consensus size: 102
260183 GTCGAGGGTC
*
260193 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTT-AGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
260258 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
260296 TACGTGGTCATTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTT-AGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
260361 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
260399 TATGTGGTCCTTATGGACAT
1 TATGTGGTCCTTA-GGACAT
260419 TATTATATGG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 113 0.99
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (102 bp):
TATGTGGTCCTTAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:260462 original size:23 final size:23
Alignment explanation
Indices: 260427--260513 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
260417 ATTATTATAT
*
260427 GGCACTACAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * ***
260450 GGCACTCCGGTGCAATTATTATAT
1 GGCACTACGGTGCAATT-CTACGC
*
260474 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
260497 GGCACT-CTGGTGCAATT
1 GGCACTAC-GGTGCAATT
260514 ATATGAGCTG
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
22 1 0.02
23 31 0.63
24 17 0.35
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:260471 original size:47 final size:47
Alignment explanation
Indices: 260417--260515 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
260407 CCTTATGGAC
260417 ATTATTATATGGCACTACAGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACAGTGCAATTCTACGCGGCACTCCGGTGCA
* * *
260464 ATTATTATATGGCACTACGGTGTAATTCTACGCGGCACTCTGGTGCA
1 ATTATTATATGGCACTACAGTGCAATTCTACGCGGCACTCCGGTGCA
260511 ATTAT
1 ATTAT
260516 ATGAGCTGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (47 bp):
ATTATTATATGGCACTACAGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:260484 original size:24 final size:24
Alignment explanation
Indices: 260417--260490 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
260407 CCTTATGGAC
*
260417 ATTATTATATGGCACTACAGTGCA
1 ATTATTATATGGCACTACGGTGCA
* *** *
260441 ATT-CTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCA
*
260464 ATTATTATATGGCACTACGGTGTA
1 ATTATTATATGGCACTACGGTGCA
260488 ATT
1 ATT
260491 CTACGCGGCA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
ATTATTATATGGCACTACGGTGCA
Found at i:275685 original size:54 final size:54
Alignment explanation
Indices: 275593--275962 Score: 505
Period size: 54 Copynumber: 6.9 Consensus size: 54
275583 ATTACAAACT
* *
275593 GTACAGGCAC-ATGTGTGCAACCCACGGAATTCATCATGAGTTTATGAACAACC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* * ** * *
275646 GTGCAGACACTATGTGTATAACCCACATAATTCATCATGAGTTGATGAAGAACC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* *
275700 GTACAGGTACTATGTGTGCAACCCACATAATTCATCATGAGTTGATGAACAACC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* *
275754 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTTATGGACAACC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* *
275808 GTACAGGCACTATGTGTGCAACTCACGGAATTCATCATGAGTTGATGAAC-A--
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* ** * * * *
275859 GTATAAACATTATGTGTGCAACTCAAAGAATTCATCATGAGTTGATGAACAATC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
* *
275913 GTACAGGCACTATGTGTGCAACCCACGGAATTCATCATGTGTTGATGAAC
1 GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAAC
275963 GACCTTACGG
Statistics
Matches: 277, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
51 44 0.16
52 1 0.00
53 9 0.03
54 223 0.81
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (54 bp):
GTACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAACAACC
Found at i:277588 original size:24 final size:23
Alignment explanation
Indices: 277561--277627 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
277551 TAAATTGCAG
277561 CGAAGTGCCACGTAGAATTTCTCC
1 CGAAG-GCCACGTAGAATTTCTCC
* * *
277585 CGAAGGACCTCGTAGAATTTGTCT
1 CGAAGG-CCACGTAGAATTTCTCC
*
277609 CGAACGACCACGTAGAATT
1 CGAA-GGCCACGTAGAATT
277628 GTTCCAAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
CGAAGGCCACGTAGAATTTCTCC
Found at i:277640 original size:23 final size:23
Alignment explanation
Indices: 277568--277645 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
277558 CAGCGAAGTG
277568 CCACGTAGAATTTCTCCCGAAGGA
1 CCACGTAGAATTTCT-CCGAAGGA
* * *
277592 CCTCGTAGAATTTGTCTCGAACGA
1 CCACGTAGAATTTCTC-CGAAGGA
*
277616 CCACGTAGAATTGT-TCCAAAGGA
1 CCACGTAGAATT-TCTCCGAAGGA
277639 CCACGTA
1 CCACGTA
277646 TAACCCTCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
23 13 0.28
24 32 0.70
25 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (23 bp):
CCACGTAGAATTTCTCCGAAGGA
Found at i:284837 original size:23 final size:23
Alignment explanation
Indices: 284807--284862 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
284797 TCGTGCTGAC
* *
284807 TGATTCAGCAAAACAGTGTTGAA
1 TGATTCAGCAAAACAGTATTAAA
284830 TGATTCAGCAAAACAGTATTAAA
1 TGATTCAGCAAAACAGTATTAAA
*
284853 TGATTTAGCA
1 TGATTCAGCA
284863 CATAAGTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (23 bp):
TGATTCAGCAAAACAGTATTAAA
Found at i:286051 original size:2 final size:2
Alignment explanation
Indices: 286044--286072 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
286034 TTAAATTTAA
286044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
286073 ATGTTTAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:286165 original size:5 final size:5
Alignment explanation
Indices: 286151--286231 Score: 58
Period size: 5 Copynumber: 15.6 Consensus size: 5
286141 TAAAAAATGT
* *
286151 TAAAA GAAAA TAAAA TAAAA T-AAA -AAAG TGATAAA TAAAGA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-A-AAA TAAA-A TAAAA
* * *
286197 CAAAA TAAAA TAAAAA GAGAAA TATAA TAAAA TAA
1 TAAAA TAAAA T-AAAA TA-AAA TAAAA TAAAA TAA
286232 TAAATAATAG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
4 5 0.08
5 36 0.61
6 15 0.25
7 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:286195 original size:31 final size:31
Alignment explanation
Indices: 286121--286206 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
286111 TAAATTTCAA
* *
286121 AAAAGAAAA-ATAATAAAATATAAAAAATGTT
1 AAAAGAAAATAAAATAAAATA-AAAAAATGAT
*
286152 AAAAGAAAATAAAATAAAATAAAAAAGTGAT
1 AAAAGAAAATAAAATAAAATAAAAAAATGAT
* *
286183 AAATA-AAGATAAAACAAAATAAAA
1 AAA-AGAAAATAAAATAAAATAAAA
286207 TAAAAAGAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 37 0.77
32 11 0.23
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.17
Consensus pattern (31 bp):
AAAAGAAAATAAAATAAAATAAAAAAATGAT
Found at i:286196 original size:41 final size:40
Alignment explanation
Indices: 286127--286211 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
286117 TCAAAAAAGA
* *
286127 AAAATAATAAAATATAAAAAATGTTAAAAGAAAATAAAAT
1 AAAATAATAAAATATAAAAAATGATAAAACAAAATAAAAT
286167 AAAATAA-AAAAGTGATAAATAAA-GATAAAACAAAATAAAAT
1 AAAATAATAAAA-T-ATAAA-AAATGATAAAACAAAATAAAAT
286208 AAAA
1 AAAA
286212 AGAGAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 4 0.10
40 8 0.20
41 25 0.62
42 3 0.08
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (40 bp):
AAAATAATAAAATATAAAAAATGATAAAACAAAATAAAAT
Found at i:286212 original size:16 final size:17
Alignment explanation
Indices: 286183--286228 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
286173 AAAAAGTGAT
286183 AAATAAAGAT-AAAACA-
1 AAATAAA-ATAAAAACAG
*
286199 AAATAAAATAAAAAGAG
1 AAATAAAATAAAAACAG
*
286216 AAATATAATAAAA
1 AAATAAAATAAAA
286229 TAATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (17 bp):
AAATAAAATAAAAACAG
Found at i:286902 original size:12 final size:13
Alignment explanation
Indices: 286885--286913 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
286875 AAAACAAAGA
286885 TAAAATAATATT-
1 TAAAATAATATTC
286897 TAAAATAATATTC
1 TAAAATAATATTC
286910 TAAA
1 TAAA
286914 TCCTAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAATATTC
Found at i:287714 original size:200 final size:200
Alignment explanation
Indices: 287185--288161 Score: 1365
Period size: 200 Copynumber: 4.9 Consensus size: 200
287175 GTGGTTTCTA
* * * * * *
287185 GTTGCCAAATCGCAGTCAACCTTGTTCTTCTTCTC-AGTTTAAAGACCTCGGTTTGAAAATTCAA
1 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGA-CTTAAAGACCTCGGTTT-AAACTTCAA
* ** ** *
287249 CCGAAAAGTAGTT-CTCGATT-CTTTCATATGGTTGATATGCCCTCGAGCTGAATGGAATCGAAC
64 CCGGAAAGTAGTTCCTCG-TTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAAC
* * * *
287312 TCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT-AATTCGGTTGGAAGA
128 TCGAAAG-TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAACTCGGCTGGGAGA
287376 TAGTTCTTT
192 TAGTTCTTT
* * *
287385 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAATGACCTCAG-TTAAACTTTAACC
1 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* * * * *
287449 GGAAAGTAGTTCATCGTTGCTACCATTCAGTTAATATGCCTTTGAGCTGAATGGAATCGAACTCG
66 GGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
* * *
287514 AAAGTTTTGTTGACAGATGGCCTTTCTCGCCTTGAGCTATGTTGTAAACTCGGCTGGGAGATAGT
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAACTCGGCTGGGAGATAGT
287579 TCTTT
196 TCTTT
287584 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
1 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* *
287649 GGAAAGTAGTTCCGCGTTGCTACCATGCAGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
66 GGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
* * *
287714 AAAGTTTTGTTGACAGATAGTCCTTCTCGCCTTGAGCTATGCTGTAAATTCGACTGGGAGATAGT
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAACTCGGCTGGGAGATAGT
*
287779 TCCTT
196 TCTTT
* *
287784 GTTGCTAAATCGTAGCCAACCTAGGTCTTCTTCTCGACTTAAAGATCTCGGTTTAAACTTCAACC
1 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* * * *
287849 GGAAAGTAGTTTCTCGTTGCTACCATGCGGTTGATATGCTTTTGAACTGAATGGAATCGAACTCG
66 GGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
* ** * * * * *
287914 AAAGTTTTGTTGATAGATAATCTTTCTCTCCTTGAGCTATGTTGTAAACTCAGCTTGGAGATAGT
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAACTCGGCTGGGAGATAGT
287979 T-TATT
196 TCT-TT
* * * *
287984 GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTTGACTTAAAGACTTC-GTTTAAACTTCAACC
1 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* * *
288048 GAAAAGTAGTTCCTCGTTGCTACCATGCGGTTAATATGCCTTCGAGCTGAATGAAATCGAACTCG
66 GGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
*
288113 AAAGTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAAC
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAAC
288162 GGTTTCTCTA
Statistics
Matches: 692, Mismatches: 79, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
198 59 0.09
199 231 0.33
200 401 0.58
201 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (200 bp):
GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
GGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAACTCGGCTGGGAGATAGT
TCTTT
Found at i:288097 original size:399 final size:399
Alignment explanation
Indices: 287185--288160 Score: 1435
Period size: 399 Copynumber: 2.4 Consensus size: 399
287175 GTGGTTTCTA
* ** * * * *
287185 GTTGCCAAATCGCAGTCAACCTTGTTCTTCTTCTC-AGTTTAAAGACCTCGGTTTGAAAATTCAA
1 GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTCGA-CTTAAAGACCTCGGTTT-AAACTTCAA
** ** *
287249 CCGAAAAGTAGTT-CTCGATT-CTTTCATATGGTTGATATGCCCTCGAGCTGAATGGAATCGAAC
64 CCGAAAAGTAGTTCCTCG-TTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAAC
* **
287312 TCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT-AATTCGGTTGGAAGA
128 TCGAAAG-TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGACTGGAAGA
* *
287376 TAGTTCTTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAATGACCTCAGTTAAA
192 TAGTTCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCAGTTAAA
* * *
287441 CTTTAACCGGAAAGTAGTTCATCGTTGCTACCATTCAGTTAATATGCCTTTGAGCTGAATGGAAT
257 CTTCAACCGGAAAGTAGTTCATCGTTGCTACCATGCAGTTAATATGCCTTTGAACTGAATGGAAT
** *
287506 CGAACTCGAAAGTTTTGTTGACAGATGGCCTTTCTCGCCTTGAGCTATGTTGTAAACTCGGCTGG
322 CGAACTCGAAAGTTTTGTTGACAGATAACCTTTCTCGCCTTGAGCTATGTTGTAAACTCAGCTGG
287571 GAGATAGTTCTTT
387 GAGATAGTTCTTT
* *
287584 GTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
1 GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* * *
287649 GGAAAGTAGTTCCGCGTTGCTACCATGCAGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
66 GAAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
* *
287714 AAAGTTTTGTTGACAGATAGTCCTTCTCGCCTTGAGCTATGCTGTAAATTCGACTGGGAGATAGT
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGACTGGAAGATAGT
* * *
287779 TCCTTGTTGCTAAATCGTAGCCAACCTAGGTCTTCTTCTCGACTTAAAGATCTCGGTTTAAACTT
196 TCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCAG-TTAAACTT
* * *
287844 CAACCGGAAAGTAGTTTC-TCGTTGCTACCATGCGGTTGATATGCTTTTGAACTGAATGGAATCG
260 CAACCGGAAAGTAG-TTCATCGTTGCTACCATGCAGTTAATATGCCTTTGAACTGAATGGAATCG
* * * *
287908 AACTCGAAAGTTTTGTTGATAGATAATCTTTCTCTCCTTGAGCTATGTTGTAAACTCAGCTTGGA
324 AACTCGAAAGTTTTGTTGACAGATAACCTTTCTCGCCTTGAGCTATGTTGTAAACTCAGCTGGGA
287973 GATAGTT-TATT
389 GATAGTTCT-TT
* *
287984 GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTTGACTTAAAGACTTC-GTTTAAACTTCAACC
1 GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
* *
288048 GAAAAGTAGTTCCTCGTTGCTACCATGCGGTTAATATGCCTTCGAGCTGAATGAAATCGAACTCG
66 GAAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
*
288113 AAAGTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAA
131 AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAA
288161 CGGTTTCTCT
Statistics
Matches: 522, Mismatches: 48, Indels: 14
0.89 0.08 0.02
Matches are distributed among these distances:
398 62 0.12
399 282 0.54
400 175 0.34
401 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (399 bp):
GTTGCTAAATCGCAACCAACCTAGATCTTCTTCTCGACTTAAAGACCTCGGTTTAAACTTCAACC
GAAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTCGAGCTGAATGGAATCGAACTCG
AAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGACTGGAAGATAGT
TCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTCGACTTAAAGACCTCAGTTAAACTTC
AACCGGAAAGTAGTTCATCGTTGCTACCATGCAGTTAATATGCCTTTGAACTGAATGGAATCGAA
CTCGAAAGTTTTGTTGACAGATAACCTTTCTCGCCTTGAGCTATGTTGTAAACTCAGCTGGGAGA
TAGTTCTTT
Found at i:288480 original size:85 final size:86
Alignment explanation
Indices: 288223--288507 Score: 446
Period size: 86 Copynumber: 3.3 Consensus size: 86
288213 ATTCTTTAGT
** * * *
288223 TGACTCCCCTTCACTAGAAAGCCAAGTGGTATATTATTCAGGTGGTTCCCCTTCGCGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
288288 CCAGGTGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* * *
288309 TGACTCCCCTTCACGGGAAATTCATGTGGTATATTCTTCAGGTGGTTCCCCTTTGTGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
288374 TCAGGTGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
* *
288395 TGACTCCCATTCACGGGAAAGTCATGT-GTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
*
288459 CCAGGCGAGATGATCTTTGGA
66 CCAGGTGAGATGATCTTTGGA
*
288480 TGACTCCCCTTGACGGGAAAGTCATGTG
1 TGACTCCCCTTCACGGGAAAGTCATGTG
288508 AGATGTTCTT
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 78 0.43
86 102 0.57
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (86 bp):
TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTGAA
CCAGGTGAGATGATCTTTGGA
Found at i:288536 original size:171 final size:172
Alignment explanation
Indices: 288223--288536 Score: 463
Period size: 171 Copynumber: 1.8 Consensus size: 172
288213 ATTCTTTAGT
* *
288223 TGACTCCCCTTCACTAGAAAGCCAAGTGGTATATTATTCAGGTGGTTCCCCTTCGCGGGTCTGAA
1 TGACTCCCATTCACGAGAAAGCCAAGTGGTATATTATTCAGGTGGTTCCCCTTCGCGGGTCTGAA
* *
288288 CCAGGTGAGATGATCTTTGGATGACTCCCCTTCACGGGAAATTCATGTGGTATATTCTTCAGGTG
66 CCAGGCGAGATGATCTTTGGATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTG
**
288353 GTTCCCCTTTGTGGGTCTGAATCAGGTGAGATGATCTTTGGA
131 ACTCCCCTTTGTGGGTCTGAATCAGGTGAGATGATCTTTGGA
* * * * *
288395 TGACTCCCATTCACGGGAAAGTCATGT-GTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGAA
1 TGACTCCCATTCACGAGAAAGCCAAGTGGTATATTATTCAGGTGGTTCCCCTTCGCGGGTCTGAA
* *
288459 CCAGGCGAGATGATCTTTGGATGACTCCCCTTGACGGGAAAGTCATGTGAG-ATGTTCTTC-GAG
66 CCAGGCGAGATGATCTTTGGATGACTCCCCTTCACGGGAAAGTCATGTG-GTATATTCTTCAG-G
*
288522 TGACTCCTCTTTGTG
129 TGACTCCCCTTTGTG
288537 AGAAAGCTAA
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
170 1 0.01
171 102 0.81
172 23 0.18
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (172 bp):
TGACTCCCATTCACGAGAAAGCCAAGTGGTATATTATTCAGGTGGTTCCCCTTCGCGGGTCTGAA
CCAGGCGAGATGATCTTTGGATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTG
ACTCCCCTTTGTGGGTCTGAATCAGGTGAGATGATCTTTGGA
Found at i:292891 original size:24 final size:23
Alignment explanation
Indices: 292863--292954 Score: 96
Period size: 24 Copynumber: 4.0 Consensus size: 23
292853 CCACATAGTT
*
292863 TTGTCCCGAAGGACCGCGTAGAA
1 TTGTCCCGAAGGACCACGTAGAA
*
292886 TTTGTCCCGAAGGACTACGTAGAA
1 -TTGTCCCGAAGGACCACGTAGAA
* * * *
292910 ATATCCCAAAGGACCACATAG-A
1 TTGTCCCGAAGGACCACGTAGAA
* *
292932 TTGTCCTGAAGGACCGCGTAGAA
1 TTGTCCCGAAGGACCACGTAGAA
292955 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 16 0.30
23 17 0.31
24 21 0.39
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACGTAGAA
Found at i:293153 original size:2 final size:2
Alignment explanation
Indices: 293146--293180 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
293136 GCACATTATC
293146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
293181 AAACATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:297168 original size:37 final size:37
Alignment explanation
Indices: 297117--297187 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
297107 TGTTAAAAGA
297117 GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
1 GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
*
297154 GAAAATAAAGATAAAACAAAATAAAATAAAAAAG
1 GAAAATAAAAATAAAACAAAATAAAATAAAAAAG
297188 AGAAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.13
Consensus pattern (37 bp):
GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
Found at i:297185 original size:16 final size:16
Alignment explanation
Indices: 297118--297185 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
297108 GTTAAAAGAG
297118 AAAATAAAA-ATAAAAC
1 AAAATAAAATA-AAAAC
*
297134 AAAATAAAATAAAAAAGTGGG
1 AAAATAAAAT-AAAAA----C
297155 AAAATAAAGAT-AAAAC
1 AAAATAAA-ATAAAAAC
297171 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
297186 AGAGAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
15 2 0.05
16 21 0.50
17 4 0.10
18 1 0.02
20 4 0.10
21 8 0.19
22 2 0.05
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAATAAAATAAAAAC
Found at i:297290 original size:17 final size:18
Alignment explanation
Indices: 297254--297295 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
297244 ATTGTTTTTA
297254 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
297272 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
297289 AAATAAA
1 AAATAAA
297296 TAATCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:298152 original size:17 final size:17
Alignment explanation
Indices: 298130--298168 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
298120 TAGCTAATAT
298130 TTGTAGTTTACCCCAGG
1 TTGTAGTTTACCCCAGG
298147 TTGTAGTTTACCCCAGG
1 TTGTAGTTTACCCCAGG
298164 TTGTA
1 TTGTA
298169 TAGGCATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (17 bp):
TTGTAGTTTACCCCAGG
Found at i:303345 original size:16 final size:17
Alignment explanation
Indices: 303306--303350 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
303296 ATAATTTATT
303306 AATTTTTTATTATACTA
1 AATTTTTTATTATACTA
303323 AATTTTTTATTATACTA
1 AATTTTTTATTATACTA
303340 AA-TTTTTATTA
1 AATTTTTTATTA
303351 ATTTTTATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTTTTATTATACTA
Found at i:305436 original size:18 final size:18
Alignment explanation
Indices: 305413--305454 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
305403 TATATGCTCC
* *
305413 TGATGATGGCGATAATGA
1 TGATGATGACGATAACGA
*
305431 TGATGATGATGATAACGA
1 TGATGATGACGATAACGA
305449 TGATGA
1 TGATGA
305455 GAGTGTGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.29
Consensus pattern (18 bp):
TGATGATGACGATAACGA
Found at i:305713 original size:22 final size:21
Alignment explanation
Indices: 305673--305724 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
305663 GTTTTTATTA
*
305673 TTTAGTTT-TT-TTTTGTTTT
1 TTTAGTTTGTTGTTTTCTTTT
305692 TTTAGTTGTGTTGTTTTCTTTT
1 TTTAGTT-TGTTGTTTTCTTTT
305714 TTTAGTTTGTT
1 TTTAGTTTGTT
305725 CGTATTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.24
20 1 0.03
21 6 0.21
22 15 0.52
ACGTcount: A:0.06, C:0.02, G:0.15, T:0.77
Consensus pattern (21 bp):
TTTAGTTTGTTGTTTTCTTTT
Found at i:305735 original size:22 final size:22
Alignment explanation
Indices: 305685--305736 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
305675 TAGTTTTTTT
*
305685 TTGTTTTTTTAGTTGTGTTGTT
1 TTGTTTTTTTAGTTGTGTTGTA
*
305707 TTCTTTTTTTAGTT-TGTTCGTA
1 TTGTTTTTTTAGTTGTGTT-GTA
305729 TTGTTTTT
1 TTGTTTTT
305737 ATTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.06, C:0.04, G:0.17, T:0.73
Consensus pattern (22 bp):
TTGTTTTTTTAGTTGTGTTGTA
Found at i:306736 original size:20 final size:21
Alignment explanation
Indices: 306713--306752 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
306703 CTCTGTCTAG
*
306713 TAATATCGATACCAT-AGGCA
1 TAATATCAATACCATCAGGCA
306733 TAATATCAATACCATCAGGC
1 TAATATCAATACCATCAGGC
306753 CCCAACGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (21 bp):
TAATATCAATACCATCAGGCA
Found at i:311510 original size:19 final size:19
Alignment explanation
Indices: 311486--311530 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
311476 ATTCTTGGCA
*
311486 ATCGAAGAAGACGGCGATT
1 ATCGAAGAAGACGACGATT
311505 ATCGAAGAAGACGACGATT
1 ATCGAAGAAGACGACGATT
311524 ATCGAAG
1 ATCGAAG
311531 CTAGAGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.16
Consensus pattern (19 bp):
ATCGAAGAAGACGACGATT
Found at i:313673 original size:17 final size:18
Alignment explanation
Indices: 313651--313684 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
313641 TTAGAATGCA
313651 AAAAT-GGTACCGATACC
1 AAAATGGGTACCGATACC
313668 AAAATGGGTACCGATAC
1 AAAATGGGTACCGATAC
313685 TACTCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (18 bp):
AAAATGGGTACCGATACC
Found at i:313722 original size:20 final size:21
Alignment explanation
Indices: 313697--313736 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
313687 CTCTGTATAG
313697 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
313717 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
313737 CCCAGCGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:317356 original size:22 final size:23
Alignment explanation
Indices: 317311--317357 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
317301 TCACCCATTT
**
317311 ATTCAAGTAATTTTATTTTCATC
1 ATTCAAGTAATTTTATTTAAATC
*
317334 ATTCAA-TTATTTTATTTAAATC
1 ATTCAAGTAATTTTATTTAAATC
317356 AT
1 AT
317358 ATATAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTCAAGTAATTTTATTTAAATC
Found at i:318557 original size:23 final size:23
Alignment explanation
Indices: 318513--318557 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
318503 CTCTCTTTCC
*
318513 ATGACATATTTCCTTATGTCTTG
1 ATGACATATTTCCTTATATCTTG
318536 ATGACATATTTCTCTT-TATCTT
1 ATGACATATTTC-CTTATATCTT
318558 TTATCACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (23 bp):
ATGACATATTTCCTTATATCTTG
Found at i:320133 original size:28 final size:27
Alignment explanation
Indices: 320094--320147 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
320084 AAATATGCTC
*
320094 AACATCTCCCTGCTGCTTCAACTCTTT
1 AACATCTCCCTGCTGCTCCAACTCTTT
320121 AACATCCTCCCTGCTGCTCCAACTCTT
1 AACAT-CTCCCTGCTGCTCCAACTCTT
320148 CAGAGCGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.19, C:0.41, G:0.07, T:0.33
Consensus pattern (27 bp):
AACATCTCCCTGCTGCTCCAACTCTTT
Found at i:330312 original size:59 final size:60
Alignment explanation
Indices: 330240--330384 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 60
330230 AAAATTTTGG
*
330240 GGATCAATTTAGAATGAAGATCATAGTTT-GGGGATGAAAATGAAATG-TTAAAAGTTTAA
1 GGATCAATTTAGAATGAAGATCATAGTTTAGGGG-TGAAAATGAAATGCTTAAAAATTTAA
* * * *
330299 GGATTAATTTAGAATGATAG-TCATAATTTAGGGGTGAAATTGAAATGCTTAAAAATTTAG
1 GGATCAATTTAGAATGA-AGATCATAGTTTAGGGGTGAAAATGAAATGCTTAAAAATTTAA
*
330359 GGATCAATTT-GAAATAAAGATCATAG
1 GGATCAATTTAG-AATGAAGATCATAG
330385 ATTGAGAATG
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
59 39 0.53
60 34 0.47
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (60 bp):
GGATCAATTTAGAATGAAGATCATAGTTTAGGGGTGAAAATGAAATGCTTAAAAATTTAA
Found at i:330383 original size:60 final size:59
Alignment explanation
Indices: 330202--330383 Score: 192
Period size: 60 Copynumber: 3.1 Consensus size: 59
330192 GTAAACATGT
** * *
330202 ATAATTTAGGACT-AAATTGAAATGTTCAAAAATTTTGGGGATCAATTTAGAATGAAGATC
1 ATAATTTAGGGGTGAAATTGAAATGTT-AAAAA-TTTAGGGATCAATTTAGAATAAAGATC
* * * * * *
330262 ATAGTTT-GGGGATGAAAATGAAATGTTAAAAGTTTAAGGATTAATTTAGAATGATAG-TC
1 ATAATTTAGGGG-TGAAATTGAAATGTTAAAAATTTAGGGATCAATTTAGAAT-AAAGATC
330321 ATAATTTAGGGGTGAAATTGAAATGCTTAAAAATTTAGGGATCAATTT-GAAATAAAGATC
1 ATAATTTAGGGGTGAAATTGAAATG-TTAAAAATTTAGGGATCAATTTAG-AATAAAGATC
330381 ATA
1 ATA
330384 GATTGAGAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
59 43 0.43
60 44 0.44
61 12 0.12
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (59 bp):
ATAATTTAGGGGTGAAATTGAAATGTTAAAAATTTAGGGATCAATTTAGAATAAAGATC
Found at i:330596 original size:2 final size:2
Alignment explanation
Indices: 330589--330630 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
330579 TTCGTTGGGT
330589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
330631 ATTTTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:330690 original size:27 final size:27
Alignment explanation
Indices: 330660--330711 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
330650 GAATATTTAA
*
330660 TTTTATTAAATTTATTTATATCTTATT
1 TTTTATTAAAATTATTTATATCTTATT
*
330687 TTTTATTAAAATTATTTTTATCTTA
1 TTTTATTAAAATTATTTATATCTTA
330712 GATAATGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTATTAAAATTATTTATATCTTATT
Found at i:341672 original size:17 final size:17
Alignment explanation
Indices: 341650--341682 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
341640 TTGTTGTTTA
341650 TTTTGTTCGTC-TAGTTC
1 TTTTGTT-GTCATAGTTC
341667 TTTTGTTGTCATAGTT
1 TTTTGTTGTCATAGTT
341683 TCTGCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (17 bp):
TTTTGTTGTCATAGTTC
Found at i:345626 original size:20 final size:21
Alignment explanation
Indices: 345601--345646 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
345591 AGTCTATATT
345601 ATTTTTCTTA-AAATCATTTA
1 ATTTTTCTTACAAATCATTTA
345621 ATTTTTCTTACAAATCATTTA
1 ATTTTTCTTACAAATCATTTA
*
345642 CTTTT
1 ATTTT
345647 CTTTCAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTCTTACAAATCATTTA
Found at i:345647 original size:20 final size:20
Alignment explanation
Indices: 345603--345649 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
345593 TCTATATTAT
*
345603 TTTTCTTAAAATCATTTAAT
1 TTTTCTTAAAATCATTTAAC
345623 TTTTCTTACAAATCATTT-AC
1 TTTTCTTA-AAATCATTTAAC
345643 TTTTCTT
1 TTTTCTT
345650 TCAAGTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTCTTAAAATCATTTAAC
Found at i:373850 original size:38 final size:38
Alignment explanation
Indices: 373807--373880 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
373797 AATAAAAAAA
* *
373807 ATAAGAACTGAAGTTACATAGGTATTCTATAGTGGTAT
1 ATAAGAACCGAAGTTACATAGATATTCTATAGTGGTAT
* *
373845 ATAAGAACCGAAGTTGCATAGATATTCTTTAGTGGT
1 ATAAGAACCGAAGTTACATAGATATTCTATAGTGGT
373881 TCAAATTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (38 bp):
ATAAGAACCGAAGTTACATAGATATTCTATAGTGGTAT
Found at i:377591 original size:22 final size:22
Alignment explanation
Indices: 377566--377618 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
377556 CTGTTCCTGT
377566 GCTTTTCTGGGATTAAATCATA
1 GCTTTTCTGGGATTAAATCATA
* *
377588 GCTTTTCTAGGATTAATTCATA
1 GCTTTTCTGGGATTAAATCATA
377610 GCTTTTCTG
1 GCTTTTCTG
377619 TTCTTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (22 bp):
GCTTTTCTGGGATTAAATCATA
Found at i:381239 original size:16 final size:16
Alignment explanation
Indices: 381218--381266 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
381208 TAATAAATAA
381218 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
381234 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
* *
381250 ACAAACATAAACAAAC
1 ACGAACATAAACGAAC
381266 A
1 A
381267 TAAACGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:382299 original size:24 final size:24
Alignment explanation
Indices: 382272--382346 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
382262 GATTGGGTAA
* **
382272 AACATAAATAAATGAACATAAACG
1 AACATAAACAAACAAACATAAACG
* *
382296 AACATAACCGAACAAACATAAACG
1 AACATAAACAAACAAACATAAACG
* * * *
382320 AACATAATCGAACCAACATAACCG
1 AACATAAACAAACAAACATAAACG
382344 AAC
1 AAC
382347 GTTCACGAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.57, C:0.23, G:0.08, T:0.12
Consensus pattern (24 bp):
AACATAAACAAACAAACATAAACG
Found at i:384860 original size:10 final size:10
Alignment explanation
Indices: 384845--384882 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
384835 TCCATCTCTA
*
384845 TTTTATTTAT
1 TTTTATTTGT
384855 TTTTATTTGT
1 TTTTATTTGT
384865 TTTTATTTGT
1 TTTTATTTGT
384875 TTTTATTT
1 TTTTATTT
384883 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTATTTGT
Found at i:384871 original size:16 final size:15
Alignment explanation
Indices: 384850--384892 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
384840 CTCTATTTTA
*
384850 TTTATTTTTATTTGTT
1 TTTATTTTT-TTTATT
384866 TTTATTTGTTTTTATT
1 TTTATTT-TTTTTATT
384882 TTTATTTTTTT
1 TTTATTTTTTT
384893 CTAACATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 19 0.76
17 2 0.08
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTATTTTTTTTATT
Found at i:384904 original size:26 final size:26
Alignment explanation
Indices: 384850--384914 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
384840 CTCTATTTTA
**
384850 TTTATTTTTATTTGTTTTTATTTGTT
1 TTTATTTTTATTTGTTTTTACATGTT
384876 TTTATTTTTATTT-TTTTCTAACATGTTT
1 TTTATTTTTATTTGTTTT-T-ACATG-TT
384904 TTTGATTTTTA
1 TTT-ATTTTTA
384915 AGGGTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 4 0.12
26 14 0.42
27 3 0.09
28 5 0.15
29 7 0.21
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.75
Consensus pattern (26 bp):
TTTATTTTTATTTGTTTTTACATGTT
Found at i:385821 original size:4 final size:4
Alignment explanation
Indices: 385812--385836 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
385802 CGTCATTTTA
385812 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
385837 TTATTGTACT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:395127 original size:8 final size:8
Alignment explanation
Indices: 395113--395166 Score: 76
Period size: 8 Copynumber: 6.9 Consensus size: 8
395103 CTAAATTGAA
395113 AAAAGAA-
1 AAAAGAAC
395120 AAAGAGAA-
1 AAA-AGAAC
*
395128 AAAAGAAT
1 AAAAGAAC
395136 AAAAGAAC
1 AAAAGAAC
395144 AAAAGAAC
1 AAAAGAAC
395152 AAAAGAAC
1 AAAAGAAC
395160 AAAAGAA
1 AAAAGAA
395167 AAAGAAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
7 7 0.16
8 37 0.84
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAGAAC
Found at i:395155 original size:24 final size:23
Alignment explanation
Indices: 395113--395171 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
395103 CTAAATTGAA
*
395113 AAAAGAAAAAGAGAAAAAAGAAT
1 AAAAGAAAAAGAGAAAAAAGAAC
395136 AAAAGAACAAA-AGAACAAAAGAAC
1 AAAAGAA-AAAGAGAA-AAAAGAAC
395160 AAAAGAAAAAGA
1 AAAAGAAAAAGA
395172 AAAGAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAAGAGAAAAAAGAAC
Found at i:396461 original size:39 final size:39
Alignment explanation
Indices: 396418--396497 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
396408 CTCATGATTT
396418 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
** *
396457 TATCAATGCCATGATAAACAATATCATATATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
396496 TA
1 TA
396498 CATTATTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATACATAATAGTCA
Found at i:399921 original size:23 final size:21
Alignment explanation
Indices: 399895--399955 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
399885 TTCCCCTATG
399895 GGGGGAATCGGTTCTCCTTCAAA
1 GGGGGAATCGGTTC-CC-TCAAA
*
399918 GGGGGAATTGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
399938 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
399956 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 2 0.06
23 13 0.38
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:399942 original size:21 final size:23
Alignment explanation
Indices: 399894--399944 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
399884 ATTCCCCTAT
399894 GGGGGGAATCGGTTCTCCTTCAA
1 GGGGGGAATCGGTTCTCCTTCAA
* *
399917 AGGGGGAATTGGTTC-CC-TCAA
1 GGGGGGAATCGGTTCTCCTTCAA
399938 GGGGGGA
1 GGGGGGA
399945 TCGATTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.40
22 2 0.08
23 13 0.52
ACGTcount: A:0.20, C:0.18, G:0.41, T:0.22
Consensus pattern (23 bp):
GGGGGGAATCGGTTCTCCTTCAA
Found at i:405726 original size:13 final size:13
Alignment explanation
Indices: 405706--405765 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
405696 ACAAAACAAA
*
405706 ACTTTCATATCTC
1 ACTTTCATATTTC
* *
405719 ATTTTCATCTTTC
1 ACTTTCATATTTC
*
405732 ACTTTCATA-ATC
1 ACTTTCATATTTC
405744 ACTTTCATATTTC
1 ACTTTCATATTTC
*
405757 ATTTTCATA
1 ACTTTCATA
405766 ATTTGTACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 11 0.29
13 27 0.71
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTTCATATTTC
Found at i:405756 original size:25 final size:25
Alignment explanation
Indices: 405706--405767 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
405696 ACAAAACAAA
* * *
405706 ACTTTCATATCTCATTTTCATCTTTC
1 ACTTTCATA-ATCACTTTCATATTTC
405732 ACTTTCATAATCACTTTCATATTTC
1 ACTTTCATAATCACTTTCATATTTC
*
405757 ATTTTCATAAT
1 ACTTTCATAAT
405768 TTGTACTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 23 0.72
26 9 0.28
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (25 bp):
ACTTTCATAATCACTTTCATATTTC
Found at i:405852 original size:19 final size:18
Alignment explanation
Indices: 405800--405872 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
405790 TCATTCTCAA
* *
405800 ATTCAGAACTTATTTCCGG
1 ATTCATAACTTATTT-CAG
* *
405819 ACTCAAAACTTATTTCAG
1 ATTCATAACTTATTTCAG
*
405837 ATTCATAACTTAATTTCAT
1 ATTCATAACTT-ATTTCAG
405856 ATTCATATATCTTATTT
1 ATTCATA-A-CTTATTT
405873 TCAAGTTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 11 0.24
19 26 0.58
20 5 0.11
21 3 0.07
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (18 bp):
ATTCATAACTTATTTCAG
Found at i:405874 original size:21 final size:17
Alignment explanation
Indices: 405825--405883 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 17
405815 CCGGACTCAA
405825 AACTTATTTCAGATTCAT
1 AACTTATTTCA-ATTCAT
405843 AACTTAATTTCATATTCAT
1 AACTT-ATTTCA-ATTCAT
405862 ATATCTTATTTTCAAGTTCAT
1 A-A-CTTA-TTTCAA-TTCAT
405883 A
1 A
405884 GCCCAATGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 5 0.14
19 13 0.37
20 3 0.09
21 14 0.40
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.47
Consensus pattern (17 bp):
AACTTATTTCAATTCAT
Found at i:408579 original size:19 final size:19
Alignment explanation
Indices: 408555--408596 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
408545 TCCAATAGCT
**
408555 CTTTCAAAGAGTTTTGAAA
1 CTTTCAAAGAGTTCCGAAA
408574 CTTTCAAAGAGTTCCGAAA
1 CTTTCAAAGAGTTCCGAAA
408593 CTTT
1 CTTT
408597 TTGTGTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (19 bp):
CTTTCAAAGAGTTCCGAAA
Found at i:410061 original size:30 final size:29
Alignment explanation
Indices: 410018--410083 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
410008 CAAAACACCT
*
410018 AACTTTTAAAATTACACTTTTGGTCCCTA
1 AACTTTTAAAATTACACTTTTAGTCCCTA
**
410047 AACTTTTGAAAATTACTTTTTTAGTCCCTA
1 AACTTTT-AAAATTACACTTTTAGTCCCTA
410077 AACTTTT
1 AACTTTT
410084 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (29 bp):
AACTTTTAAAATTACACTTTTAGTCCCTA
Found at i:410135 original size:29 final size:29
Alignment explanation
Indices: 410018--410135 Score: 78
Period size: 30 Copynumber: 4.0 Consensus size: 29
410008 CAAAACACCT
* * *
410018 AACTTTT-AAAATTACACTTTTGGTCCCTA
1 AACTTTTCAAAATTATA-TTTTAGTCACTA
* * *
410047 AACTTTTGAAAATTACTTTTTTAGTCCCTA
1 AACTTTTCAAAATTA-TATTTTAGTCACTA
* * **
410077 AACTTTTCCTAAATTTATACTTTAACCACTA
1 AACTTTT-C-AAAATTATATTTTAGTCACTA
*
410108 AACTTTT-AAAATTTATATTTTGGTCACT
1 AACTTTTCAAAA-TTATATTTTAGTCACT
410136 TACCAAAATT
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.04
29 19 0.28
30 25 0.36
31 16 0.23
32 6 0.09
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (29 bp):
AACTTTTCAAAATTATATTTTAGTCACTA
Found at i:410882 original size:90 final size:89
Alignment explanation
Indices: 410719--410895 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 89
410709 CATAACACAC
410719 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
* *
410784 TATAATTAATTGGAATTTAATAAT
66 TATAATTAATTGAAATTAAATAAT
*
410808 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
*
410873 ATTTAATTAATTGAAATTAAATA
65 ATATAATTAATTGAAATTAAATA
410896 TTCTGGATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 34 0.41
90 49 0.59
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TATAATTAATTGAAATTAAATAAT
Found at i:414171 original size:30 final size:30
Alignment explanation
Indices: 414122--414178 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
414112 GGTCCAAAAA
414122 CCTAAATTTTAAAAAATTACATTTTTGATC
1 CCTAAATTTTAAAAAATTACATTTTTGATC
*
414152 CCTAAACTTTT-AAAGATTACATTTTTG
1 CCTAAA-TTTTAAAAAATTACATTTTTG
414179 GTCTTATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (30 bp):
CCTAAATTTTAAAAAATTACATTTTTGATC
Found at i:416951 original size:19 final size:20
Alignment explanation
Indices: 416927--416968 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
416917 TTTCCACCAC
* *
416927 ATGCAATTACATGAC-CTAA
1 ATGCAACTAAATGACTCTAA
416946 ATGCAACTAAATGACTCTAA
1 ATGCAACTAAATGACTCTAA
416966 ATG
1 ATG
416969 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (20 bp):
ATGCAACTAAATGACTCTAA
Found at i:425031 original size:45 final size:45
Alignment explanation
Indices: 424965--425317 Score: 493
Period size: 45 Copynumber: 8.0 Consensus size: 45
424955 AACGAATGAA
424965 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * ** *
425010 CAAAATAATAATGCATGTGGGTGCATTATAGGCATGAAAATAAGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
*
425055 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
425100 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAA-GATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
425144 CAAAATAATAATGAATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
425189 CAAAATAATAATGC-TATAGGTGTATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* *
425233 CAAAATAATAATGC--ATGGGTGCA-TATTGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
* * * * * *
425275 CATAATTGA-AATACTTATGGGTGCATTATCAGCATAAAAGGAT
1 CA-AAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGAT
425318 ATTATAATTG
Statistics
Matches: 276, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
42 23 0.08
43 11 0.04
44 92 0.33
45 150 0.54
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
Found at i:426869 original size:38 final size:38
Alignment explanation
Indices: 426821--427094 Score: 251
Period size: 38 Copynumber: 7.3 Consensus size: 38
426811 TATATACATA
426821 ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
1 ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
* * *
426859 ATATATAATATATAGTTTTGAAAACATTTTTCGAAAAC
1 ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
** **
426897 ATATATAATATATAAGTTTTGAAAA-TGTTTT-TTAAA-
1 ATATATAATATATAA-TTTTGAAAACAATTTTCGAAAAT
* *
426933 A-ATATAATATATAATTTGGAAAAC-ATTTT--AAAAA
1 ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
** ** *
426967 ATATATAATATATGGTTTAAAAAAC-ATTTTTGAAAAAAT
1 ATATATAATATATAATTTTGAAAACAATTTTCG--AAAAT
* *
427006 ATATATAATATATAATTTTTGAAAACATTTTTCGAAATT
1 ATATATAATATATAA-TTTTGAAAACAATTTTCGAAAAT
** * ** *
427045 ACGTATAATATATAGTTTT-AAAACGTTTTTGGAAAAT
1 ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
427082 ATATATAATATAT
1 ATATATAATATAT
427095 TTTAGAAAAC
Statistics
Matches: 195, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
33 3 0.02
34 13 0.07
35 37 0.19
36 1 0.01
37 29 0.15
38 57 0.29
39 42 0.22
40 8 0.04
41 5 0.03
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (38 bp):
ATATATAATATATAATTTTGAAAACAATTTTCGAAAAT
Found at i:426928 original size:39 final size:38
Alignment explanation
Indices: 426821--427094 Score: 282
Period size: 39 Copynumber: 7.3 Consensus size: 38
426811 TATATACATA
*
426821 ATATATAATATATAA-TTTTGAAAACAATTTTCGAAAAT
1 ATATATAATATATAAGTTTTGAAAAC-ATTTTTGAAAAT
*
426859 ATATATAATATAT-AGTTTTGAAAACATTTTTCGAAAAC
1 ATATATAATATATAAGTTTTGAAAACATTTTT-GAAAAT
** *
426897 ATATATAATATATAAGTTTTGAAAATGTTTTT-TAAA-
1 ATATATAATATATAAGTTTTGAAAACATTTTTGAAAAT
* *
426933 A-ATATAATATATAA-TTTGGAAAACA-TTTT-AAAAA
1 ATATATAATATATAAGTTTTGAAAACATTTTTGAAAAT
* **
426967 ATATATAATATAT-GGTTTAAAAAACATTTTTGAAAAAAT
1 ATATATAATATATAAGTTTTGAAAACATTTTTG--AAAAT
* *
427006 ATATATAATATATAATTTTTGAAAACATTTTTCGAAATT
1 ATATATAATATATAAGTTTTGAAAACATTTTT-GAAAAT
** *
427045 ACGTATAATATAT-AGTTTT-AAAACGTTTTTGGAAAAT
1 ATATATAATATATAAGTTTTGAAAACATTTTT-GAAAAT
427082 ATATATAATATAT
1 ATATATAATATAT
427095 TTTAGAAAAC
Statistics
Matches: 198, Mismatches: 26, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
33 7 0.04
34 9 0.05
35 33 0.17
36 5 0.03
37 35 0.18
38 46 0.23
39 48 0.24
40 14 0.07
41 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (38 bp):
ATATATAATATATAAGTTTTGAAAACATTTTTGAAAAT
Found at i:427037 original size:109 final size:110
Alignment explanation
Indices: 426823--427037 Score: 301
Period size: 109 Copynumber: 2.0 Consensus size: 110
426813 TATACATAAT
* * **
426823 ATATAATATATAATTTTGAAAACAATTTTCGAAAATATATATAATATATAGTTTTGAAAACATTT
1 ATATAATATATAATTTGGAAAACAATTTTC-AAAAAATATATAATATATAGTTTAAAAAACATTT
**
426888 TTCGAAAACATATATAATATATAAGTTTTGAAAATGTTTTTTAAAA
65 TTCGAAAACATATATAATATATAAGTTTTGAAAACATTTTTTAAAA
*
426934 ATATAATATATAATTTGGAAAAC-ATTTT-AAAAAATATATAATATATGGTTTAAAAAACATTTT
1 ATATAATATATAATTTGGAAAACAATTTTCAAAAAATATATAATATATAGTTTAAAAAACATTTT
* *
426997 T-GAAAAAATATATATAATATATAATTTTTGAAAACATTTTT
66 TCG--AAAACATATATAATATATAAGTTTTGAAAACATTTTT
427038 CGAAATTACG
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 1 0.01
108 32 0.34
109 33 0.35
110 5 0.05
111 22 0.24
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (110 bp):
ATATAATATATAATTTGGAAAACAATTTTCAAAAAATATATAATATATAGTTTAAAAAACATTTT
TCGAAAACATATATAATATATAAGTTTTGAAAACATTTTTTAAAA
Found at i:427086 original size:148 final size:146
Alignment explanation
Indices: 426820--427106 Score: 366
Period size: 148 Copynumber: 2.0 Consensus size: 146
426810 ATATATACAT
**
426820 AATATATAATATATAATTTTGAAAACAATTTTCGAAAATATATATAATATATAGTTTTGAAAACA
1 AATATATAATATATAATTTAAAAAACAATTTTCGAAAATATATATAATATATAGTTTTGAAAACA
* * *
426885 TTTTTCGAAAACATATATAATATATAAGTTTTGAAAATGTTTTTTAAAAATATA-ATATATAATT
66 TTTTTCGAAAACACATATAATATATAAGTTTTGAAAACGTTTTTGAAAAATATATA-ATATAATT
*
426949 TGGAAAACATTTTAAAA
130 TAGAAAACATTTTAAAA
** * *
426966 AATATATAATATATGGTTTAAAAAAC-ATTTTTGAAAAAATATATATAATATATAATTTTTGAAA
1 AATATATAATATATAATTTAAAAAACAATTTTCG--AAAATATATATAATATAT-AGTTTTGAAA
** *
427030 ACATTTTTCGAAATTACGTATAATATAT-AGTTTT-AAAACGTTTTTGGAAAATATATATAATAT
63 ACATTTTTCGAAAACACATATAATATATAAGTTTTGAAAACGTTTTT-GAAAA-ATATATAATAT
*
427093 ATTTTAGAAAACAT
126 AATTTAGAAAACAT
427107 GTTTGGGTTT
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
145 6 0.05
146 32 0.26
147 28 0.23
148 54 0.45
149 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (146 bp):
AATATATAATATATAATTTAAAAAACAATTTTCGAAAATATATATAATATATAGTTTTGAAAACA
TTTTTCGAAAACACATATAATATATAAGTTTTGAAAACGTTTTTGAAAAATATATAATATAATTT
AGAAAACATTTTAAAA
Found at i:436115 original size:38 final size:38
Alignment explanation
Indices: 436013--436116 Score: 91
Period size: 38 Copynumber: 2.7 Consensus size: 38
436003 GATGAAATTT
* * ** *
436013 AATGTCTAGACTACACAACATCATACATTATAACGTAC
1 AATGTCTAGACAACACAACATCAGACAAAAGAACGTAC
** * * * * *
436051 GGTGTCTAGATAATACAATATTAGACAAAAGAGCGTAC
1 AATGTCTAGACAACACAACATCAGACAAAAGAACGTAC
*
436089 AATGTCTAGACCACACAACATCAGACAA
1 AATGTCTAGACAACACAACATCAGACAA
436117 CCTTGCATTG
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (38 bp):
AATGTCTAGACAACACAACATCAGACAAAAGAACGTAC
Found at i:436797 original size:16 final size:16
Alignment explanation
Indices: 436776--436815 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
436766 TCTGTCAGAT
*
436776 AGTCCTCCGTTAGGCA
1 AGTCCTCCGTCAGGCA
*
436792 AGTCCTTCGTCAGGCA
1 AGTCCTCCGTCAGGCA
436808 AGTCCTCC
1 AGTCCTCC
436816 ACCGTGGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (16 bp):
AGTCCTCCGTCAGGCA
Found at i:441087 original size:26 final size:26
Alignment explanation
Indices: 441054--441109 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
441044 TCCTCAAATT
441054 CTTCTTCCATTATAGGGCGAATTATC
1 CTTCTTCCATTATAGGGCGAATTATC
*
441080 CTTCTTCCATTCTAGGGCGAATTATC
1 CTTCTTCCATTATAGGGCGAATTATC
441106 CTTC
1 CTTC
441110 GGTTACCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (26 bp):
CTTCTTCCATTATAGGGCGAATTATC
Found at i:442353 original size:5 final size:5
Alignment explanation
Indices: 442339--442375 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
442329 GTGCTTCAAC
*
442339 TTTC- TTTCT TTTCT TTTCT TTTCT TTTTT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
442376 TGTTTTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTCT
Found at i:442376 original size:10 final size:10
Alignment explanation
Indices: 442347--442389 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
442337 ACTTTCTTTC
*
442347 TTTTCTTTTC
1 TTTTCTTTTT
442357 TTTTCTTTTT
1 TTTTCTTTTT
442367 TTTTCTTTTT
1 TTTTCTTTTT
442377 GTTTTCTTCTTT
1 -TTTTCTT-TTT
442389 T
1 T
442390 GAGTGCTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 19 0.63
11 8 0.27
12 3 0.10
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:442381 original size:15 final size:14
Alignment explanation
Indices: 442339--442389 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
442329 GTGCTTCAAC
* *
442339 TTTCTTTCTTTTCT
1 TTTCTTTTTTTTTT
442353 TTTCTTTTCTTTTTT
1 TTTCTTTT-TTTTTT
*
442368 TTTCTTTTTGTTTT
1 TTTCTTTTTTTTTT
*
442382 CTTCTTTT
1 TTTCTTTT
442390 GAGTGCTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:447420 original size:17 final size:17
Alignment explanation
Indices: 447394--447426 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
447384 TCTAAAACAT
447394 AAAATATGACTTTTTGA
1 AAAATATGACTTTTTGA
*
447411 AAAATTTGACTTTTTG
1 AAAATATGACTTTTTG
447427 GTCAAAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAATATGACTTTTTGA
Found at i:447457 original size:23 final size:23
Alignment explanation
Indices: 447427--447492 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
447417 TGACTTTTTG
*
447427 GTCAAAGTCAACGATTAATGCTA
1 GTCAAAGTCAACGATCAATGCTA
*
447450 GTCAAAGTCAAC-AGTCAACGCTA
1 GTCAAAGTCAACGA-TCAATGCTA
447473 GTCAAAGTCAACGATCAATG
1 GTCAAAGTCAACGATCAATG
447493 GTCAGATCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (23 bp):
GTCAAAGTCAACGATCAATGCTA
Found at i:449408 original size:16 final size:17
Alignment explanation
Indices: 449389--449421 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
449379 TAAAAAAACT
449389 AAAACT-ATAAAATATA
1 AAAACTAATAAAATATA
449405 AAAACTAATAAAATATA
1 AAAACTAATAAAATATA
449422 CATTATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACTAATAAAATATA
Found at i:449428 original size:24 final size:24
Alignment explanation
Indices: 449373--449429 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
449363 ATTATAAAAA
449373 AAATTATAAAAAAACTAAAACTAT
1 AAATTATAAAAAAACTAAAACTAT
*
449397 AAAATATAAAAACTAA-TAAAA-TAT
1 AAATTATAAAAA--AACTAAAACTAT
*
449421 ACATTATAA
1 AAATTATAA
449430 GTATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 21 0.75
25 5 0.18
26 2 0.07
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATTATAAAAAAACTAAAACTAT
Done.