Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 3 of 328
Found at i:743154 original size:12 final size:12
Alignment explanation
Indices: 743137--743161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
743127 TAAAAATCGG
743137 TTGATTTGCGAA
1 TTGATTTGCGAA
743149 TTGATTTGCGAA
1 TTGATTTGCGAA
743161 T
1 T
743162 CAGTACAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TTGATTTGCGAA
Found at i:744314 original size:19 final size:19
Alignment explanation
Indices: 744290--744327 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
744280 AAAAAAGGAT
744290 CCTAAAAAGCTTAAACCAG
1 CCTAAAAAGCTTAAACCAG
744309 CCTAAAAAGCTTAAACCAG
1 CCTAAAAAGCTTAAACCAG
744328 TCCAGAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
CCTAAAAAGCTTAAACCAG
Found at i:745758 original size:25 final size:25
Alignment explanation
Indices: 745724--745774 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
745714 TTCAACAATC
745724 CGATTTGACCCGAATCTAAAACTAA
1 CGATTTGACCCGAATCTAAAACTAA
745749 CGATTTGACCCGAATCTAAAACTAA
1 CGATTTGACCCGAATCTAAAACTAA
745774 C
1 C
745775 TTGGAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (25 bp):
CGATTTGACCCGAATCTAAAACTAA
Found at i:746564 original size:48 final size:48
Alignment explanation
Indices: 746493--746607 Score: 203
Period size: 48 Copynumber: 2.4 Consensus size: 48
746483 GAGGGAGGAC
* *
746493 TAGTTGGCGGCGGAGCTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
*
746541 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTGGAAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
746589 TAGTTGGCGGCGGAGTTGC
1 TAGTTGGCGGCGGAGTTGC
746608 GGTGGATGGC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.11, C:0.10, G:0.51, T:0.27
Consensus pattern (48 bp):
TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
Found at i:746633 original size:48 final size:48
Alignment explanation
Indices: 746493--746621 Score: 150
Period size: 48 Copynumber: 2.7 Consensus size: 48
746483 GAGGGAGGAC
* * * * * * *
746493 TAGTTGGCGGCGGAGCTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
* * * *
746541 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTGGAAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
*
746589 TAGTTGGCGGCGGAGTTGCGGTGGATGGCGGCG
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCG
746622 ATTGGGAAGG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.11, C:0.11, G:0.53, T:0.26
Consensus pattern (48 bp):
TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
Found at i:750624 original size:27 final size:27
Alignment explanation
Indices: 750586--750638 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
750576 TTTATGAGAG
750586 GATTAACAAGTAATTTTTCTATTTTTT
1 GATTAACAAGTAATTTTTCTATTTTTT
750613 GATTAACAAGTAATTTTTCTATTTTT
1 GATTAACAAGTAATTTTTCTATTTTT
750639 CTGGGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (27 bp):
GATTAACAAGTAATTTTTCTATTTTTT
Found at i:756207 original size:18 final size:18
Alignment explanation
Indices: 756176--756217 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
756166 AATATGCTTG
*
756176 AATT-AAAATGTAAA-TT
1 AATTAAAAATATAAACTT
756192 AAATTAAAAATATAAACTT
1 -AATTAAAAATATAAACTT
756211 AATTAAA
1 AATTAAA
756218 TATTTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTAAAAATATAAACTT
Found at i:758111 original size:5 final size:5
Alignment explanation
Indices: 758098--758131 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
758088 AGACAATGAT
* *
758098 TATGA TATGG TATGG TATGG TATGG TATGA TATG
1 TATGG TATGG TATGG TATGG TATGG TATGG TATG
758132 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (5 bp):
TATGG
Found at i:758121 original size:15 final size:15
Alignment explanation
Indices: 758093--758135 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
758083 ATTCGAGACA
758093 ATGATTATGATATGGT
1 ATGA-TATGATATGGT
* *
758109 ATGGTATGGTATGGT
1 ATGATATGATATGGT
758124 ATGATATGATAT
1 ATGATATGATAT
758136 ATATATCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (15 bp):
ATGATATGATATGGT
Found at i:763076 original size:209 final size:210
Alignment explanation
Indices: 762809--763611 Score: 804
Period size: 209 Copynumber: 3.6 Consensus size: 210
762799 GAGTGGTTGT
* * *
762809 TTATAGGAAACCTTATTCGGTAGGGGATAGTCTAATAGGAACAAAATACGATTCATCGGTTTGAA
1 TTATATGAAACCTTATTCGATA-GGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAA
* *
762874 TCTATATATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATT
65 TGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATT
762939 GTTCATTGATTTTCTTGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGAG
130 GTTCATTGATTTTCTTGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGAG
763004 GAAC-GCAATGGTTAC
195 GAACAGCAATGGTTAC
* * * * *
763019 TTATATGAAACCTTATTCGGTAGGGATAGTCTAATCGGAATGAAATATGACTCATCGGTTTGAAT
1 TTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
* * * *
763084 GTATACATATAGCTTTTGTGTTTATATAATCGAATCGCTAGTCATATTTAATTGGATTGCTGTTG
66 GTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
* *
763149 TTTCTTGATTTTTATATGAGATTACAAGTGATTTTCATGATTATGTATTTAGAATGGAGGGTTGT
131 -TTC---------AT-T--GATT-----T--TCT---TGATTATGTATTTTGAATGGAGGGTTGT
* * * *
763214 CATTGGATTGGTTTGGTACGAGGAACAGAAATTGAAATGCAAATAGTTAC
173 CATTGGATCGGTTCGGTATGAGGAAC----------A-GC-AATGGTTAC
* * * * *
763264 TTATATGAAACCTTATTTGATAGGGTTAGTCTAAGAGGAAAGAAATACGATTCATC-GTTTGATT
1 TTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
* *
763328 TTATACATATAGC--TTGTGTTTATATAATCGAATTGTTAGTCATACTGAATTGGATTGCTATTG
66 GTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
** * * *
763391 TTCCGTGATTTTTCATGATTATTTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGAC
131 TTCATTGA-TTTTCTTGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGAG
* * **
763456 AAACAGAAAGTGGAACAC
195 GAACAGCAA-TGG-TTAC
* *
763474 AATGGTTATATGAAACCTTATTCAATAGGGATAGTCTAATAGGAACGAAATACGATTCGTCGGTT
1 -----TTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTT
* * * *
763539 TGAATGTATGCATATAGCTTTTGTATTTATATAATTGAATCGTTAGTCATACTGAACTGGATTGC
61 TGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGC
763604 TATTGTTC
126 TATTGTTC
763612 TGTGATCGGG
Statistics
Matches: 485, Mismatches: 61, Indels: 86
0.77 0.10 0.14
Matches are distributed among these distances:
208 2 0.00
209 100 0.21
210 27 0.06
215 50 0.10
216 18 0.04
218 49 0.10
219 2 0.00
220 48 0.10
222 4 0.01
223 1 0.00
225 1 0.00
227 1 0.00
229 4 0.01
230 2 0.00
231 1 0.00
232 50 0.10
241 3 0.01
242 45 0.09
244 21 0.04
245 56 0.12
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (210 bp):
TTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
GTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
TTCATTGATTTTCTTGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGAGG
AACAGCAATGGTTAC
Found at i:765155 original size:7 final size:7
Alignment explanation
Indices: 765140--765178 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
765130 ATATGAACAC
765140 TTCGAGT
1 TTCGAGT
*
765147 TTCGGGT
1 TTCGAGT
*
765154 TTCGGGT
1 TTCGAGT
*
765161 TTCAAGT
1 TTCGAGT
765168 TTCGAGT
1 TTCGAGT
765175 TTCG
1 TTCG
765179 GATATAACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.10, C:0.15, G:0.31, T:0.44
Consensus pattern (7 bp):
TTCGAGT
Found at i:766742 original size:18 final size:18
Alignment explanation
Indices: 766721--766755 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
766711 ACATAAAATC
766721 TTAT-AAATACTAATATAT
1 TTATAAAAT-CTAATATAT
766739 TTATAAAATCTAATATA
1 TTATAAAATCTAATATA
766756 ATACACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATAAAATCTAATATAT
Found at i:768072 original size:7 final size:7
Alignment explanation
Indices: 768060--768084 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
768050 AAGCAAATTA
768060 ACAATGT
1 ACAATGT
768067 ACAATGT
1 ACAATGT
768074 ACAATGT
1 ACAATGT
768081 ACAA
1 ACAA
768085 CGTAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (7 bp):
ACAATGT
Found at i:772670 original size:27 final size:27
Alignment explanation
Indices: 772640--772717 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
772630 AAAAAAAAAA
772640 TACTAATTACTTTATTTAAACATAGAT
1 TACTAATTACTTTATTTAAACATAGAT
*
772667 TACTTGAA--AC-TTA---AAA-A-A-AA
1 TAC-T-AATTACTTTATTTAAACATAGAT
772687 TACTAATTACTTTATTTAAACATAGAT
1 TACTAATTACTTTATTTAAACATAGAT
772714 TACT
1 TACT
772718 TGAAACTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 22
0.61 0.03 0.35
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 6 0.16
21 4 0.11
22 1 0.03
23 3 0.08
24 3 0.08
25 1 0.03
26 4 0.11
27 10 0.26
28 1 0.03
29 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.40
Consensus pattern (27 bp):
TACTAATTACTTTATTTAAACATAGAT
Found at i:772690 original size:47 final size:47
Alignment explanation
Indices: 772632--772730 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
772622 AAGAATTTAA
772632 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
1 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
772679 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
1 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
772726 AAAAA
1 AAAAA
772731 TTGATATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (47 bp):
AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
Found at i:772751 original size:47 final size:47
Alignment explanation
Indices: 772632--772753 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
772622 AAGAATTTAA
** **
772632 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
1 AAAAAAAATACTAAACACTAAATTTAAACATAGATTACTTGAAACTT
** **
772679 AAAAAAAATACTAATTACTTTATTTAAACATAGATTACTTGAAACTT
1 AAAAAAAATACTAAACACTAAATTTAAACATAGATTACTTGAAACTT
** *
772726 AAAAATTGATA-TAAACCCTAAATTTAAA
1 AAAAA-AAATACTAAACACTAAATTTAAA
772754 AACTTAATGT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 64 0.96
48 3 0.04
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (47 bp):
AAAAAAAATACTAAACACTAAATTTAAACATAGATTACTTGAAACTT
Found at i:772766 original size:26 final size:25
Alignment explanation
Indices: 772724--772780 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
772714 TACTTGAAAC
*
772724 TTAAAAATTGATATAAACCCTAAAT
1 TTAAAAATTAATATAAACCCTAAAT
* *
772749 TTAAAAACTTAATGTAAACCTTAAAT
1 TTAAAAA-TTAATATAAACCCTAAAT
772775 TCTAAA
1 T-TAAA
772781 CCAAACCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 16 0.59
27 4 0.15
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (25 bp):
TTAAAAATTAATATAAACCCTAAAT
Found at i:776494 original size:2 final size:2
Alignment explanation
Indices: 776487--776513 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
776477 GCAATATGCA
776487 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 A
776514 ATCAAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:780448 original size:16 final size:16
Alignment explanation
Indices: 780423--780454 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
780413 ATATAAAATT
780423 AATTTAATTTTTGAAA
1 AATTTAATTTTTGAAA
*
780439 AATTTTATTTTTGAAA
1 AATTTAATTTTTGAAA
780455 TAAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AATTTAATTTTTGAAA
Found at i:781473 original size:14 final size:14
Alignment explanation
Indices: 781453--781487 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
781443 ATATTCGAAT
781453 TAAATTATATTT-A
1 TAAATTATATTTGA
781466 TCAAATTATATTTGA
1 T-AAATTATATTTGA
781481 TAAATTA
1 TAAATTA
781488 AACGTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 17 0.85
15 2 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (14 bp):
TAAATTATATTTGA
Found at i:785312 original size:19 final size:20
Alignment explanation
Indices: 785290--785327 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
785280 TAAAACAGGC
785290 ATAAAATAAACCAA-AAAAA
1 ATAAAATAAACCAAGAAAAA
*
785309 ATAAAATTAACCAAGAAAA
1 ATAAAATAAACCAAGAAAA
785328 TGAAATTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (20 bp):
ATAAAATAAACCAAGAAAAA
Found at i:785333 original size:18 final size:17
Alignment explanation
Indices: 785306--785339 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
785296 TAAACCAAAA
785306 AAAATAAAATTAACCAAG
1 AAAATAAAATT-ACCAAG
*
785324 AAAATGAAATTACCAA
1 AAAATAAAATTACCAA
785340 AACTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATAAAATTACCAAG
Found at i:788325 original size:23 final size:22
Alignment explanation
Indices: 788299--788341 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
788289 ATTTTTAGAG
788299 ATTAAAATATAATTTTATTATGT
1 ATTAAAATATAATTTT-TTATGT
**
788322 ATTAATTTATAATTTTTTAT
1 ATTAAAATATAATTTTTTAT
788342 CTTTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTAAAATATAATTTTTTATGT
Found at i:793648 original size:148 final size:149
Alignment explanation
Indices: 793271--793866 Score: 930
Period size: 149 Copynumber: 4.0 Consensus size: 149
793261 TCCCACAGCC
* * * *
793271 ACAGGTATCCCTTGTGTTTGATCTTTACTTGCCTAATTGCCTCTTCGCATTGGAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
*
793336 CTCTGTAACTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
*
793401 ATAAATCAAATTATGGAAA
131 ATAAATCAAATGATGGAAA
* * * *
793420 ACACGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTTCATCTTCACACTGAAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
*
793485 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
793550 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* *
793569 ACAGGTAT-CCTCGTGTTTGATCTTTACTTGCCTGATTGCCTTTTCACACTGGAACAT-TTATGA
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAAC-TCTTCTGA
* *
793632 TCTCTGTAATTGTTCTCTAGGACCGACTTAAAAAGTACGGGTCTTTCCATGTCAATGGTGATGAT
65 TCTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGAT
793697 AATAAATCAAATGATGGAAA
130 AATAAATCAAATGATGGAAA
* ** *
793717 ACAGGTATCCCTCGTGTTTGCA-CTTTACTTGTCTGATTATCTCTTCACACTGGAACTCTTCTAA
1 ACAGGTATCCCTCGTGTTTG-ATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGA
* *
793781 TCTCTGTAAGTT-TTCTCTAGGACCGACCTAAAAAATACGGGCCTTTCCATGTCAATGGTGATGC
65 TCTCTGTAA-TTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGA
**
793845 TAATAAATCAAACAATGGAAA
129 TAATAAATCAAATGATGGAAA
793866 A
1 A
793867 AGTGCTGATC
Statistics
Matches: 412, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
148 141 0.34
149 268 0.65
150 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (149 bp):
ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
CTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
ATAAATCAAATGATGGAAA
Found at i:793818 original size:297 final size:298
Alignment explanation
Indices: 793271--793866 Score: 950
Period size: 297 Copynumber: 2.0 Consensus size: 298
793261 TCCCACAGCC
* * * *
793271 ACAGGTATCCCTTGTGTTTGATCTTTACTTGCCTAATTGCCTCTTCGCATTGGAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTAATTGCCTCTTCACACTGGAACTCTTATGAT
793336 CTCTGTAACTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAACTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
*
793401 ATAAATCAAATTATGGAAAACACGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTTCATCTTC
131 ATAAATCAAATGATGGAAAACACGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTTCATCTTC
* * *
793466 ACACTGAAACTCTTCTGATCTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTC
196 ACACTGAAACTCTTCTAATCTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGCCTTTC
**
793531 CATGTCAATGGTGATGATAATAAATCAAATGATGGAAA
261 CATGTCAATGGTGATGATAATAAATCAAACAATGGAAA
* *
793569 ACAGGTAT-CCTCGTGTTTGATCTTTACTTGCCTGATTGCCTTTTCACACTGGAACAT-TTATGA
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTAATTGCCTCTTCACACTGGAAC-TCTTATGA
* * *
793632 TCTCTGTAATTGTTCTCTAGGACCGACTTAAAAAGTACGGGTCTTTCCATGTCAATGGTGATGAT
65 TCTCTGTAACTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGAT
* *
793697 AATAAATCAAATGATGGAAAACAGGTATCCCTCGTGTTTGCA-CTTTACTTGTCTGATTATC-TC
130 AATAAATCAAATGATGGAAAACACGTATCCCTCGTGTTTG-ATCTTTACTTGCCTGATT-TCATC
*
793760 TTCACACTGGAACTCTTCTAATCTCTGTAAGTT-TTCTCTAGGACCGACCTAAAAAATACGGGCC
193 TTCACACTGAAACTCTTCTAATCTCTGTAA-TTGTTCTCTAGGACCGACCTAAAAAATACGGGCC
*
793824 TTTCCATGTCAATGGTGATGCTAATAAATCAAACAATGGAAA
257 TTTCCATGTCAATGGTGATGATAATAAATCAAACAATGGAAA
793866 A
1 A
793867 AGTGCTGATC
Statistics
Matches: 275, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
297 261 0.95
298 14 0.05
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (298 bp):
ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTAATTGCCTCTTCACACTGGAACTCTTATGAT
CTCTGTAACTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
ATAAATCAAATGATGGAAAACACGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTTCATCTTC
ACACTGAAACTCTTCTAATCTCTGTAATTGTTCTCTAGGACCGACCTAAAAAATACGGGCCTTTC
CATGTCAATGGTGATGATAATAAATCAAACAATGGAAA
Found at i:795873 original size:21 final size:19
Alignment explanation
Indices: 795828--795873 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
795818 ATTACATATT
795828 ATAAATATATTTAAAAATA
1 ATAAATATATTTAAAAATA
*
795847 AAAAATATATATTAAAAATCA
1 ATAAATATAT-TTAAAAAT-A
795868 ATAAAT
1 ATAAAT
795874 TTAATTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATATATTTAAAAATA
Found at i:797054 original size:3 final size:3
Alignment explanation
Indices: 797046--797075 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
797036 CCGTTCATGG
797046 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
797076 CCGATGAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:797312 original size:12 final size:12
Alignment explanation
Indices: 797295--797319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
797285 TTTTATTATT
797295 TTCAAATTTTGA
1 TTCAAATTTTGA
797307 TTCAAATTTTGA
1 TTCAAATTTTGA
797319 T
1 T
797320 GCGTCGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTCAAATTTTGA
Found at i:805119 original size:19 final size:18
Alignment explanation
Indices: 805095--805142 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
805085 ACGTAAAAAG
805095 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
805114 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
805133 TAAAAATAAA
1 TAAAAATAAA
805143 TAACAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:806063 original size:16 final size:16
Alignment explanation
Indices: 806033--806080 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
806023 GAAAATTAAT
806033 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
806048 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
806065 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
806080 A
1 A
806081 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:806079 original size:11 final size:11
Alignment explanation
Indices: 806024--806094 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
806014 ATAGCTTAAG
*
806024 AAAATTAATAT
1 AAAATTAAAAT
806035 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
806047 AATAA-T-AATT
1 AA-AATTAAAAT
*
806057 AAAAAT-AAAT
1 AAAATTAAAAT
806067 AAAATTAAAAT
1 AAAATTAAAAT
*
806078 AAACTTAAAAT
1 AAAATTAAAAT
*
806089 AGAATT
1 AAAATT
806095 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:810299 original size:19 final size:18
Alignment explanation
Indices: 810275--810322 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
810265 ACGTAAAAAG
810275 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
810294 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
810313 TAAAAATAAA
1 TAAAAATAAA
810323 TAACAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:811228 original size:17 final size:16
Alignment explanation
Indices: 811203--811259 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
811193 ATAGCTTAAG
811203 AAAATTAATATAAAATCT
1 AAAA-TAATATAAAAT-T
*
811221 AAAATAATA-ATAATT
1 AAAATAATATAAAATT
811236 AAAAATAA-ATAAAAATT
1 -AAAATAATAT-AAAATT
811253 AAAATAA
1 AAAATAA
811260 ACTTCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 2 0.06
16 18 0.53
17 10 0.29
18 4 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:813299 original size:2 final size:2
Alignment explanation
Indices: 813287--813316 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
813277 AACGTTAGTG
*
813287 TA TA AA 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
813317 ATTGGTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:813852 original size:28 final size:28
Alignment explanation
Indices: 813820--813878 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
813810 TTGATAAACG
*
813820 GAAAAATTAAATAATT-AAAATAAATATT
1 GAAAAATTAAA-AATTAAAAATAAATACT
* *
813848 GAAAAGTTAAACATTAAAAATAAATACT
1 GAAAAATTAAAAATTAAAAATAAATACT
813876 GAA
1 GAA
813879 TTTAAGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (28 bp):
GAAAAATTAAAAATTAAAAATAAATACT
Found at i:823330 original size:4 final size:4
Alignment explanation
Indices: 823321--823367 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
823311 AAAACGAATT
823321 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
823368 TAAGTTGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:830584 original size:11 final size:11
Alignment explanation
Indices: 830568--830600 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
830558 CGGCCCGCAT
830568 TATTATTTTTA
1 TATTATTTTTA
830579 TATTATTTTTA
1 TATTATTTTTA
*
830590 TATAATTTTTA
1 TATTATTTTTA
830601 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:830756 original size:30 final size:30
Alignment explanation
Indices: 830722--830778 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
830712 ATTTAATAAG
830722 TAAATGCCTCTAAAATAATAACAAAATCAA
1 TAAATGCCTCTAAAATAATAACAAAATCAA
*
830752 TAAATGCCTTTAAAATAATAACAAAAT
1 TAAATGCCTCTAAAATAATAACAAAAT
830779 TAACAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (30 bp):
TAAATGCCTCTAAAATAATAACAAAATCAA
Found at i:832137 original size:19 final size:19
Alignment explanation
Indices: 832109--832158 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
832099 AAATTTTAAG
832109 TTTTTATTTTT-ACAATTT
1 TTTTTATTTTTAACAATTT
*
832127 TTTTTATTTTTAATAATTT
1 TTTTTATTTTTAACAATTT
832146 TTTATTATTTTTA
1 TTT-TTATTTTTA
832159 TCCTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 11 0.38
19 9 0.31
20 9 0.31
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTTAACAATTT
Found at i:833786 original size:25 final size:23
Alignment explanation
Indices: 833727--833786 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
833717 ATTTTTTAAG
833727 AAAAATATA-AATTATTAAATAAT
1 AAAAATATATAATT-TTAAATAAT
833750 -AAAAT-TAT-ATTTTAACTATAAT
1 AAAAATATATAATTTTAA--ATAAT
833772 AAAAATATATAATTT
1 AAAAATATATAATTT
833787 AATTATGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 10 0.32
23 5 0.16
24 3 0.10
25 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAATATATAATTTTAAATAAT
Found at i:833787 original size:24 final size:22
Alignment explanation
Indices: 833745--833788 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
833735 AAATTATTAA
*
833745 ATAATAAAATTATATTTTAACT
1 ATAATAAAATTATAATTTAACT
833767 ATAATAAAAATATATAATTTAA
1 ATAAT-AAAAT-TATAATTTAA
833789 TTATGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAATAAAATTATAATTTAACT
Found at i:847274 original size:45 final size:45
Alignment explanation
Indices: 847210--847299 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
847200 GTCTCTCGTA
*
847210 GAATTTAATATGTACTTTCACCTTTAATGATGCAATTAAAATGTT
1 GAATTTAATATGTACTTTCACCTTTAACGATGCAATTAAAATGTT
* * *
847255 GAATTTAGTATGTACTTTCACCTTTAGCGATGCAATTAGAATGTT
1 GAATTTAATATGTACTTTCACCTTTAACGATGCAATTAAAATGTT
847300 TTAAAATACG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (45 bp):
GAATTTAATATGTACTTTCACCTTTAACGATGCAATTAAAATGTT
Found at i:852453 original size:9 final size:9
Alignment explanation
Indices: 852432--852487 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
852422 ATCGCCATTG
*
852432 TCGTCACCA
1 TCGTCATCA
*
852441 TCATCATCA
1 TCGTCATCA
*
852450 TCATCAGTC-
1 TCGTCA-TCA
852459 TCGTCATCA
1 TCGTCATCA
*
852468 TCGTCATCG
1 TCGTCATCA
852477 TCGTCATCA
1 TCGTCATCA
852486 TC
1 TC
852488 CTCTTCCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.21, C:0.36, G:0.11, T:0.32
Consensus pattern (9 bp):
TCGTCATCA
Found at i:852467 original size:15 final size:16
Alignment explanation
Indices: 852441--852485 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
852431 GTCGTCACCA
*
852441 TCATCATCATCATCAG
1 TCATCGTCATCATCAG
852457 TC-TCGTCATCATC-G
1 TCATCGTCATCATCAG
*
852471 TCATCGTCGTCATCA
1 TCATCGTCATCATCA
852486 TCCTCTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (16 bp):
TCATCGTCATCATCAG
Found at i:860150 original size:132 final size:132
Alignment explanation
Indices: 859910--860305 Score: 408
Period size: 132 Copynumber: 3.0 Consensus size: 132
859900 AAAAGTTTTT
* * * ** * ***
859910 GAAGTGTCAGT-TGCCCAAAGCCGACAAATCCCTCAACA-TGTCCAATATTATCCCCAATCAAGC
1 GAAGTGTCA-TCTACCCAAAGCCAACAAACCCCTCAACACTGT-CAGCATTATCCCCGATTGGGC
* * * *
859973 CGAGGTTTTATCTCCCTACTTAATCGGGAGCCCGAGTACATGAGGCTACCTAAAGAAGCGACAAA
64 CGAGGTTTTATCTCCCAACTTAGTCGAGAGCCAGAGTACATGAGGCTACCTAAAGAAGCGACAAA
860038 TTTA
129 TTTA
* * * * * * *
860042 GAAGTGTTATCTACCCAGAA-CCAACGAGCCCCTCAATA-TGTCTAGTATTGTCCTCGATTGGGC
1 GAAGTGTCATCTACCCA-AAGCCAACAAACCCCTCAACACTGTC-AGCATTATCCCCGATTGGGC
* * * *
860105 CGAGGTTTTATCTCCCGACTTAGTCGAGAGCCAGAGTACACGAGGCTACGC-GAAGAAGCGACAG
64 CGAGGTTTTATCTCCCAACTTAGTCGAGAGCCAGAGTACATGAGGCTAC-CTAAAGAAGCGACAA
860169 ATTTA
128 ATTTA
* * *
860174 GAAGTGTCATCTACCCAAAGTCGACAAACCCCTCAACACTTTCAGCATTATCCCCGATTGGGCCG
1 GAAGTGTCATCTACCCAAAGCCAACAAACCCCTCAACACTGTCAGCATTATCCCCGATTGGGCCG
* ** * *
860239 AGGTTTTATCTCCCAACTTAGTCGAGAG-TATGAGTACATGAGATTGCCTAAAGAAGTGACAAAT
66 AGGTTTTATCTCCCAACTTAGTCGAGAGCCA-GAGTACATGAGGCTACCTAAAGAAGCGACAAAT
860303 TTA
130 TTA
860306 TTGGGTGAGA
Statistics
Matches: 216, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
131 6 0.03
132 204 0.94
133 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (132 bp):
GAAGTGTCATCTACCCAAAGCCAACAAACCCCTCAACACTGTCAGCATTATCCCCGATTGGGCCG
AGGTTTTATCTCCCAACTTAGTCGAGAGCCAGAGTACATGAGGCTACCTAAAGAAGCGACAAATT
TA
Found at i:863232 original size:12 final size:12
Alignment explanation
Indices: 863193--863233 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
863183 TACAAATGTA
*
863193 ACATATACGCAT
1 ACATATACACAT
*
863205 ACACATACACAT
1 ACATATACACAT
*
863217 ACATATACATAT
1 ACATATACACAT
863229 ACATA
1 ACATA
863234 AAATGTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (12 bp):
ACATATACACAT
Found at i:866241 original size:18 final size:19
Alignment explanation
Indices: 866205--866241 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
866195 ATTGAAATCC
*
866205 GTTATATAATATTCTAAAA
1 GTTATATAATATTCAAAAA
866224 GTTATA-AATATTCAAAAA
1 GTTATATAATATTCAAAAA
866242 CATTATAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
GTTATATAATATTCAAAAA
Found at i:866247 original size:19 final size:18
Alignment explanation
Indices: 866206--866249 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
866196 TTGAAATCCG
* *
866206 TTATATAATATTCTAAAAG
1 TTATA-AATATTCAAAAAA
866225 TTATAAATATTCAAAAACA
1 TTATAAATATTCAAAAA-A
866244 TTATAA
1 TTATAA
866250 GCAACAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
TTATAAATATTCAAAAAA
Found at i:866557 original size:19 final size:20
Alignment explanation
Indices: 866514--866558 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
866504 GAATAAAAAC
866514 TTTTTATTTATTTTAAAGAA
1 TTTTTATTTATTTTAAAGAA
*
866534 GTTTTA-TT-TTTTATAAGAA
1 TTTTTATTTATTTTA-AAGAA
866553 TTTTTA
1 TTTTTA
866559 CTCATGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTTATTTATTTTAAAGAA
Found at i:874829 original size:31 final size:31
Alignment explanation
Indices: 874760--874838 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
874750 CAAATTGGAA
* *
874760 AAACTCAAT-TACCAATTTGAATATTGAAATC
1 AAACTC-ATGTACCAAATTGAACATTGAAATC
* *
874791 AATCTCATGTACCAAATTGAACATTG-AAGC
1 AAACTCATGTACCAAATTGAACATTGAAATC
*
874821 TAAACTCATGTAACAAAT
1 -AAACTCATGTACCAAAT
874839 ACTATATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (31 bp):
AAACTCATGTACCAAATTGAACATTGAAATC
Found at i:875338 original size:16 final size:17
Alignment explanation
Indices: 875319--875360 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
875309 TTTATTTTAT
*
875319 AATTATAACTCT-ATTA
1 AATTATAAATCTAATTA
*
875335 AATTA-AAATTTAATTA
1 AATTATAAATCTAATTA
875351 AATTATAAAT
1 AATTATAAAT
875361 ACAAGTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTATAAATCTAATTA
Found at i:877896 original size:13 final size:13
Alignment explanation
Indices: 877878--877904 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
877868 TAGCTGTCAC
877878 ATAATTATACCTA
1 ATAATTATACCTA
877891 ATAATTATACCTA
1 ATAATTATACCTA
877904 A
1 A
877905 AACATAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATTATACCTA
Found at i:878417 original size:13 final size:13
Alignment explanation
Indices: 878399--878423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
878389 CTTTACAATT
878399 CATTTATGTTTCA
1 CATTTATGTTTCA
878412 CATTTATGTTTC
1 CATTTATGTTTC
878424 GGGGAGGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
CATTTATGTTTCA
Found at i:883401 original size:3 final size:3
Alignment explanation
Indices: 883395--883443 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
883385 ACATAATAAC
883395 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
883443 A
1 A
883444 GTATGTTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:885134 original size:2 final size:2
Alignment explanation
Indices: 885127--885153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
885117 TGAAATATCC
885127 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 A
885154 AACCAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:889268 original size:27 final size:26
Alignment explanation
Indices: 889207--889272 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
889197 TCCCCCTTCA
* *
889207 CCACCTCCACCTCCGCCGCCACCTGT
1 CCACCTCCACCTCCACCGCCACCTCT
** *
889233 GTACTCTCCTCCTCCACCGCCACCATCT
1 CCAC-CTCCACCTCCACCGCCACC-TCT
889261 CCACCTCCACCT
1 CCACCTCCACCT
889273 GTTTATTCAC
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.14, C:0.59, G:0.08, T:0.20
Consensus pattern (26 bp):
CCACCTCCACCTCCACCGCCACCTCT
Found at i:889286 original size:42 final size:42
Alignment explanation
Indices: 889225--889357 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
889215 ACCTCCGCCG
* * *
889225 CCACCTGTGTACTCTCCTCCTCCACCGCCACCATCTCCACCT
1 CCACCTGTTTACTCTCCTCCTCCACCACCACCATCACCACCT
* * * *
889267 CCACCTGTTTATTCACCTCCACCTCCACCACCACCACCACCACCA
1 CCACCTGTTTA--C-TCTCCTCCTCCACCACCACCATCACCACCT
* * * * *
889312 CCACCAGTTTACTCTCCACCACCACCACCTCCATCCCCACCT
1 CCACCTGTTTACTCTCCTCCTCCACCACCACCATCACCACCT
889354 CCAC
1 CCAC
889358 ATCACCCCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 38 0.51
43 1 0.01
44 1 0.01
45 34 0.46
ACGTcount: A:0.20, C:0.56, G:0.04, T:0.20
Consensus pattern (42 bp):
CCACCTGTTTACTCTCCTCCTCCACCACCACCATCACCACCT
Found at i:889294 original size:45 final size:42
Alignment explanation
Indices: 889238--889357 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 42
889228 CCTGTGTACT
* * * *
889238 CTCCTCCTCCACCGCCACCATCTCCACCTCCACCTGTTTATTCAC
1 CTCCACCTCCACCACCACCATCACCACCTCCACCAGTTTA--C-C
* * *
889283 CTCCACCTCCACCACCACCACCACCACCACCACCAGTTTACT
1 CTCCACCTCCACCACCACCATCACCACCTCCACCAGTTTACC
* * *
889325 CTCCACCACCACCACCTCCATCCCCACCTCCAC
1 CTCCACCTCCACCACCACCATCACCACCTCCAC
889358 ATCACCCCCG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.44
43 1 0.02
45 34 0.54
ACGTcount: A:0.21, C:0.58, G:0.03, T:0.18
Consensus pattern (42 bp):
CTCCACCTCCACCACCACCATCACCACCTCCACCAGTTTACC
Found at i:889337 original size:3 final size:3
Alignment explanation
Indices: 889280--889317 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
889270 CCTGTTTATT
* *
889280 CAC CTC CAC CTC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
889318 GTTTACTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.66, G:0.00, T:0.05
Consensus pattern (3 bp):
CAC
Found at i:889802 original size:45 final size:44
Alignment explanation
Indices: 889716--889822 Score: 121
Period size: 45 Copynumber: 2.5 Consensus size: 44
889706 ACCGCCGCCA
*
889716 CCATCACCATCACCCCCA--CCCCCAATTCATTACAAACCACCT
1 CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT
* **
889758 CCATCACCTTCACCCCCACCCCCACCAATCCATTATC-ATTCACCT
1 CCATCACCATCACCCCCACCCCC-CCAATCCATTA-CAAACCACCT
* *
889803 CCACCACCATCACCTCCACC
1 CCATCACCATCACCCCCACC
889823 GGCTCCCGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 17 0.31
44 3 0.06
45 33 0.61
46 1 0.02
ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18
Consensus pattern (44 bp):
CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT
Found at i:891347 original size:7 final size:7
Alignment explanation
Indices: 891330--891368 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
891320 TCTTGTAATA
891330 TTAATATT
1 TTAA-ATT
891338 TTAAATT
1 TTAAATT
891345 TT-AA-T
1 TTAAATT
891350 TTAAATT
1 TTAAATT
891357 TTAAATT
1 TTAAATT
891364 TTAAA
1 TTAAA
891369 CTTAAATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 3 0.10
6 4 0.14
7 18 0.62
8 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:891359 original size:19 final size:21
Alignment explanation
Indices: 891325--891367 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
891315 TCCATTCTTG
891325 TAATATTAATATTTTAAATTT
1 TAATATTAATATTTTAAATTT
891346 TAAT-TTAA-ATTTTAAATTT
1 TAATATTAATATTTTAAATTT
891365 TAA
1 TAA
891368 ACTTAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 4 0.18
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTAATATTTTAAATTT
Found at i:891363 original size:13 final size:13
Alignment explanation
Indices: 891330--891376 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
891320 TCTTGTAATA
891330 TTAATATTTTAAAT
1 TTAA-ATTTTAAAT
*
891344 TTTAA-TTTAAATT
1 TTAAATTTTAAA-T
*
891357 TTAAATTTTAAAC
1 TTAAATTTTAAAT
891370 TTAAATT
1 TTAAATT
891377 CGAGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 13 0.46
14 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATTTTAAAT
Found at i:897541 original size:272 final size:273
Alignment explanation
Indices: 897055--897611 Score: 1080
Period size: 272 Copynumber: 2.0 Consensus size: 273
897045 TCAAAGCTGC
897055 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
1 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
897120 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
66 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
897185 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
131 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
897250 GCTTAGTAATGCAACTT-CAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
196 GCTTAGTAATGCAACTTACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
897314 AGTAAATGAAATA
261 AGTAAATGAAATA
897327 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
1 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
897392 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
66 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
897457 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
131 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
897522 GCTTAGTAATGCAACTTCAACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAG
196 GCTTAGTAATGCAACTT--ACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAG
897587 TTAGTAAATGAAATA
259 TTAGTAAATGAAATA
*
897602 CGGTCCCCAT
1 CAGTCCCCAT
897612 AAATTAATAC
Statistics
Matches: 281, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
272 212 0.75
275 69 0.25
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (273 bp):
CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
GCTTAGTAATGCAACTTACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
AGTAAATGAAATA
Found at i:906703 original size:3 final size:3
Alignment explanation
Indices: 906695--906765 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
906685 TGTATTTTCA
906695 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
906743 TAT TAT TAT TA- TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
906766 ATGCATATAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:912965 original size:7 final size:7
Alignment explanation
Indices: 912948--912986 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
912938 TCTTGTAATA
912948 TTAATATT
1 TTAA-ATT
912956 TTAAATT
1 TTAAATT
912963 TT-AA-T
1 TTAAATT
912968 TTAAATT
1 TTAAATT
912975 TTAAATT
1 TTAAATT
912982 TTAAA
1 TTAAA
912987 CTTAAATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 3 0.10
6 4 0.14
7 18 0.62
8 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:912977 original size:19 final size:21
Alignment explanation
Indices: 912943--912985 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
912933 TCCATTCTTG
912943 TAATATTAATATTTTAAATTT
1 TAATATTAATATTTTAAATTT
912964 TAAT-TTAA-ATTTTAAATTT
1 TAATATTAATATTTTAAATTT
912983 TAA
1 TAA
912986 ACTTAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 4 0.18
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTAATATTTTAAATTT
Found at i:912981 original size:13 final size:13
Alignment explanation
Indices: 912948--912994 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
912938 TCTTGTAATA
912948 TTAATATTTTAAAT
1 TTAA-ATTTTAAAT
*
912962 TTTAA-TTTAAATT
1 TTAAATTTTAAA-T
*
912975 TTAAATTTTAAAC
1 TTAAATTTTAAAT
912988 TTAAATT
1 TTAAATT
912995 CGAGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 13 0.46
14 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATTTTAAAT
Found at i:914241 original size:31 final size:32
Alignment explanation
Indices: 914178--914243 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
914168 CGGCTGCCGG
914178 ATAAATGCATGATTAAGTACATTACCCTAAAA
1 ATAAATGCATGATTAAGTACATTACCCTAAAA
914210 ATAAATGCATGATTAAGTACATTA-CCTAAAA
1 ATAAATGCATGATTAAGTACATTACCCTAAAA
914241 ATA
1 ATA
914244 TGAAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.29
32 24 0.71
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (32 bp):
ATAAATGCATGATTAAGTACATTACCCTAAAA
Found at i:919179 original size:272 final size:273
Alignment explanation
Indices: 918693--919249 Score: 1080
Period size: 272 Copynumber: 2.0 Consensus size: 273
918683 TCAAAGCTGC
918693 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
1 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
918758 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
66 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
918823 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
131 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
918888 GCTTAGTAATGCAACTT-CAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
196 GCTTAGTAATGCAACTTACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
918952 AGTAAATGAAATA
261 AGTAAATGAAATA
918965 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
1 CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
919030 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
66 GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
919095 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
131 ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
919160 GCTTAGTAATGCAACTTCAACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAG
196 GCTTAGTAATGCAACTT--ACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAG
919225 TTAGTAAATGAAATA
259 TTAGTAAATGAAATA
*
919240 CGGTCCCCAT
1 CAGTCCCCAT
919250 AAATTAATAC
Statistics
Matches: 281, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
272 212 0.75
275 69 0.25
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (273 bp):
CAGTCCCCATCCGAGCCCCGCAAGACTCCTCCAACAGACGAACGTCGACAACTTCAGGCCCACGC
GCCGTCCGTATTAACCTTGATCCAAATTTCATGTCATAACTTTAACCACAACAATTAAATATATC
ATAATTTTCAACAAGTTTCTAAAACCTTTTGGTTATTAAATTGTTGTGATGGTGATGGGATGTTG
GCTTAGTAATGCAACTTACAACAAGAGTAAGCCACCCCTCTTAACGGTATAATTTGAGTCAAGTT
AGTAAATGAAATA
Found at i:923636 original size:42 final size:42
Alignment explanation
Indices: 923590--923750 Score: 108
Period size: 42 Copynumber: 3.8 Consensus size: 42
923580 CTCCCCCTCC
* * *
923590 CTCTCCCCCTTCACCACCTCCACCTCCGCCGCCACCTGTGTA
1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA
* * * * *
923632 CTCTCCTCCTCCACCGCCACCATCTCCACCTCCACCTGTTTA
1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA
* * * * * * * * * *
923674 TTCACCTCCACCTCCACCACCACCACCACCACCAGCAGTTTA
1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA
* * * *
923716 CTCTCCACCACCACCACCTCCATCC-CCACCTCCAC
1 CTCTCCCCCTCCACCACCACCA-CCTCCACCGCCAC
923751 TATCACCCCC
Statistics
Matches: 93, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 91 0.98
43 2 0.02
ACGTcount: A:0.18, C:0.57, G:0.05, T:0.20
Consensus pattern (42 bp):
CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA
Found at i:923664 original size:27 final size:26
Alignment explanation
Indices: 923603--923668 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
923593 TCCCCCTTCA
* *
923603 CCACCTCCACCTCCGCCGCCACCTGT
1 CCACCTCCACCTCCACCGCCACCTCT
** *
923629 GTACTCTCCTCCTCCACCGCCACCATCT
1 CCAC-CTCCACCTCCACCGCCACC-TCT
923657 CCACCTCCACCT
1 CCACCTCCACCT
923669 GTTTATTCAC
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.14, C:0.59, G:0.08, T:0.20
Consensus pattern (26 bp):
CCACCTCCACCTCCACCGCCACCTCT
Found at i:924198 original size:45 final size:44
Alignment explanation
Indices: 924112--924218 Score: 121
Period size: 45 Copynumber: 2.5 Consensus size: 44
924102 ACCGCCGCCA
*
924112 CCATCACCATCACCCCCA--CCCCCAATTCATTACAAACCACCT
1 CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT
* **
924154 CCATCACCTTCACCCCCACCCCCACCAATCCATTATC-ATTCACCT
1 CCATCACCATCACCCCCACCCCC-CCAATCCATTA-CAAACCACCT
* *
924199 CCACCACCATCACCTCCACC
1 CCATCACCATCACCCCCACC
924219 GGCTCCCGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 17 0.31
44 3 0.06
45 33 0.61
46 1 0.02
ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18
Consensus pattern (44 bp):
CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT
Found at i:925759 original size:19 final size:21
Alignment explanation
Indices: 925718--925760 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
925708 TCCGTTGTTG
*
925718 TAATATTAATATTTTAAAATT
1 TAATATTAATATTCTAAAATT
*
925739 TAAT-TTAA-ATTCTAAATTT
1 TAATATTAATATTCTAAAATT
925758 TAA
1 TAA
925761 ACCTAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTAATATTCTAAAATT
Found at i:928349 original size:26 final size:25
Alignment explanation
Indices: 928320--928368 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
928310 AGTTGTACAT
*
928320 GTATTAGTTATTTTAAACTATTTTAC
1 GTATTAGTTACTTTAAA-TATTTTAC
* *
928346 GTATTATTTACTTTCAATATTTT
1 GTATTAGTTACTTTAAATATTTT
928369 TTTATATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (25 bp):
GTATTAGTTACTTTAAATATTTTAC
Found at i:930024 original size:130 final size:131
Alignment explanation
Indices: 929695--930082 Score: 449
Period size: 130 Copynumber: 3.0 Consensus size: 131
929685 CAATCATTCA
** * * * *
929695 TTTAAAAA-TCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATACGCGGAATCGTGCCCTAT
1 TTTAAAAACT-CTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGCGGAGTCGTGCCCTAT
* * * * *
929759 TGTGCTGGGTTGTGATTTCTCGTTT-TCTCAAAACAATCGAATGTCCCTTTAGAATTTCACTCAT
65 CGTGCTGGGTTGCGATTTCCCGTTTGT-TCAAAATAATCGAATATCCCTTTAGAATTTCACTCAT
*
929823 ATT
129 ATC
* * * * *
929826 TTCTAAAAACTCTTTAAAATGAAAGAAATATTCGATGTTTGGAAATTCGTGGAGGCGTGCCCTAT
1 TT-TAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGCGGAGTCGTGCCCTAT
* * *
929891 CGTGCGGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACT-ATG
65 CGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATA
929955 TC
130 TC
* * * * * *
929957 TTTAAAAACTCTTTAAAGCGAAGGTAATATTCGGTTTTTGGGAATTCGGGGAGTCGTGCCCTATC
1 TTTAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGCGGAGTCGTGCCCTATC
* * * * *
930022 GTGCTGGGTTTCGATTTCCCATTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTC
66 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTC
930083 GTGTTTTCTA
Statistics
Matches: 217, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
130 107 0.49
131 7 0.03
132 101 0.47
133 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TTTAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGCGGAGTCGTGCCCTATC
GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATAT
C
Found at i:930540 original size:22 final size:23
Alignment explanation
Indices: 930490--930541 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
930480 ATATTTATGT
930490 AGACCAAAATTGTTGTTTTAATA
1 AGACCAAAATTGTTGTTTTAATA
930513 AG-CCAAAA-TGTT-TTATTAA-A
1 AGACCAAAATTGTTGTT-TTAATA
930533 ATGACCAAA
1 A-GACCAAA
930542 CTTCTTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 9 0.35
22 11 0.42
23 2 0.08
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
AGACCAAAATTGTTGTTTTAATA
Found at i:931722 original size:19 final size:19
Alignment explanation
Indices: 931700--931747 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
931690 CCATCCCATG
*
931700 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCACTGCAT
*
931719 CATTTGCACTGCACTGCAT
1 CATTTGCATTGCACTGCAT
931738 CATTTGCATT
1 CATTTGCATT
931748 AAATTTTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (19 bp):
CATTTGCATTGCACTGCAT
Found at i:935264 original size:6 final size:6
Alignment explanation
Indices: 935253--935279 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
935243 ATCAGTAACG
935253 GTAGCA GTAGCA GTAGCA GTAGCA GTA
1 GTAGCA GTAGCA GTAGCA GTAGCA GTA
935280 TTCAACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (6 bp):
GTAGCA
Found at i:935266 original size:18 final size:18
Alignment explanation
Indices: 935245--935279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
935235 AATCAGTAAT
*
935245 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAGCAGTAG
*
935263 CAGTAGCAGTAGCAGTA
1 CAGTAACAGTAGCAGTA
935280 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAGCAGTAG
Found at i:935324 original size:45 final size:45
Alignment explanation
Indices: 935275--935369 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
935265 GTAGCAGTAG
*
935275 CAGTATTCAACACACAAAATG-CTGAATCTGTAACAGTAACGGTAA
1 CAGTATTCAACACACAAAATGTC-GAATCGGTAACAGTAACGGTAA
* *
935320 CAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAACGGTAA
1 CAGTATTCAACACACAAAATGTCGAATCGGTAACAGTAACGGTAA
935365 CAGTA
1 CAGTA
935370 ACAGTAGTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTATTCAACACACAAAATGTCGAATCGGTAACAGTAACGGTAA
Found at i:935364 original size:12 final size:12
Alignment explanation
Indices: 935347--935371 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
935337 AGTGTCGAAT
935347 CGGTAACAGTAA
1 CGGTAACAGTAA
935359 CGGTAACAGTAA
1 CGGTAACAGTAA
935371 C
1 C
935372 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:935626 original size:40 final size:40
Alignment explanation
Indices: 935582--935662 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 40
935572 CTTCATTAGA
* * ** *
935582 AATTTTACAATTCAATGCAGTATACGTAACATTATTCAGT
1 AATTTCACAATTCAATCCAGTATACAAAACAATATTCAGT
** *
935622 AATTTCACGGTTCAATCCAGTATTCAAAACAATATTCAGT
1 AATTTCACAATTCAATCCAGTATACAAAACAATATTCAGT
935662 A
1 A
935663 TCCCATAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (40 bp):
AATTTCACAATTCAATCCAGTATACAAAACAATATTCAGT
Found at i:936444 original size:18 final size:18
Alignment explanation
Indices: 936421--936462 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
936411 CCTCTGTTTC
* *
936421 TTCTTTACTTTGTTTTAT
1 TTCTTTACTTTATTTCAT
*
936439 TTCTTTATTTTATTTCAT
1 TTCTTTACTTTATTTCAT
936457 TTCTTT
1 TTCTTT
936463 TATTCTTTAA
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:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTTTACTTTATTTCAT
Found at i:936449 original size:13 final size:13
Alignment explanation
Indices: 936428--936476 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
936418 TTCTTCTTTA
*
936428 CTTTGTTTTATTT
1 CTTTATTTTATTT
936441 CTTTATTTTATTT
1 CTTTATTTTATTT
*
936454 CATTTCTTTTA-TT
1 C-TTTATTTTATTT
936467 CTTTAATTTT
1 CTTT-ATTTT
936477 TAACTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 3 0.10
13 20 0.65
14 8 0.26
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (13 bp):
CTTTATTTTATTT
Found at i:936492 original size:3 final size:3
Alignment explanation
Indices: 936484--936523 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
936474 TTTTAACTTT
*
936484 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
936524 ATATCTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:937734 original size:52 final size:52
Alignment explanation
Indices: 937651--937796 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 52
937641 GCTCCTAATA
* * * *
937651 AATTTCCTTCTTATTACATTGCTATCTTTGATTAACTTATTCATGTTGAATT
1 AATTGCCTTCTTATTGCATTGCTATCTTTGATTAACTTATTCATATAGAATT
*
937703 AATTGCCTTCTTATTGCATTGCTATCTTTGATTAACTTATTCATATAGAGTT
1 AATTGCCTTCTTATTGCATTGCTATCTTTGATTAACTTATTCATATAGAATT
* *
937755 AATTGCCTTCTTATTGTATTTGCAATCTTTGATTAACTTATT
1 AATTGCCTTCTTATTGCA-TTGCTATCTTTGATTAACTTATT
937797 TGTTTCGAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
52 64 0.74
53 22 0.26
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.51
Consensus pattern (52 bp):
AATTGCCTTCTTATTGCATTGCTATCTTTGATTAACTTATTCATATAGAATT
Found at i:938558 original size:64 final size:64
Alignment explanation
Indices: 938480--938607 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
938470 TCATACATAA
* *
938480 CACATCTAGTTAGGAGCATTTCATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAACATTTCATTCATATCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * **
938544 CACATCTAGTTAGGAACTTTTGATTCATATCGATCATAGCATCCTAATTATTTGGTATAAGCAT
1 CACATCTAGTTAGGAACATTTCATTCATATCGATCATAGCATCCTAATTATTTGACATAAGCAT
938608 AAGCTTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAACATTTCATTCATATCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:938708 original size:45 final size:45
Alignment explanation
Indices: 938632--938842 Score: 144
Period size: 45 Copynumber: 4.7 Consensus size: 45
938622 GATTCTACAG
* *
938632 ATCTTGTCTCCATGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * ** ****
938677 ATCTAGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-C-CACC
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * * * * * **
938720 ATCCTA-ACTCCCTAAAATTGTAGTGGAGTAG-GCTGAAGATTGT-A
1 AT-CTAGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACGGTGA
* * *
938764 GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGA
1 -ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
* * *
938810 ATCTAGTCTTCCTAAAGTTGCAGTGAAGCAGAT
1 ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGAT
938843 TTAAGCCACC
Statistics
Matches: 118, Mismatches: 40, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
43 23 0.19
44 6 0.05
45 87 0.74
46 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (45 bp):
ATCTAGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGA
Found at i:938868 original size:133 final size:133
Alignment explanation
Indices: 938630--939192 Score: 835
Period size: 133 Copynumber: 4.3 Consensus size: 133
938620 CTGATTCTAC
* * * *
938630 AGATCTTGTCTCCATGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAGT
*
938695 TGCAGTGAAGCAGATTTAAGCCACCATCCTAACTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
938760 TGT
131 TGT
938763 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAGT
* *
938828 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTTTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
938893 TGT
131 TGT
* * *
938896 AGATCTTGTCTTCCTGAAG-TGTCAGTGGAGCAAATCGAAGACGACGAATCTAGTCTTCCTGAAG
1 AGATCTTGTCTCCCTGAAGTTG-CAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAG
* *
938960 TTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCTC-AAAAGTTGTAGTGGAGTAGGCTGAAG
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAA-TTGTAGTGGAGTAGGCTGAAG
939024 ATTGT
129 ATTGT
* * *
939029 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAAT---------TG-ATCTTGTCTTTCTAAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAGT
* *
939084 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
*
939149 TAT
131 TGT
* * *
939152 AGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA
939193 AGCAAGCCTT
Statistics
Matches: 394, Mismatches: 26, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
123 107 0.27
124 4 0.01
132 5 0.01
133 276 0.70
134 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTAGTCTTCCTAAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:939167 original size:123 final size:123
Alignment explanation
Indices: 938943--939186 Score: 398
Period size: 123 Copynumber: 2.0 Consensus size: 123
938933 AAGACGACGA
* *
938943 ATCTAGTCTTCCTGAAGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCTCAAAAGTTGTA
1 ATCTAGTCTTCCTAAAGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCAAAAGTTGTA
* * *
939008 GTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATTG
66 GTGGAGTAGGCTGAAGATTATAGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAATTG
* * * * *
939066 ATCTTGTCTTTCTAAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTA
1 ATCTAGTCTTCCTAAAGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCAAAAGTTGTA
939131 GTGGAGTAGGCTGAAGATTATAGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAAT
66 GTGGAGTAGGCTGAAGATTATAGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAAT
939187 CAAAGAAGCA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 111 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (123 bp):
ATCTAGTCTTCCTAAAGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCAAAAGTTGTA
GTGGAGTAGGCTGAAGATTATAGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAATTG
Found at i:939235 original size:88 final size:88
Alignment explanation
Indices: 939138--939359 Score: 336
Period size: 88 Copynumber: 2.5 Consensus size: 88
939128 GTAGTGGAGT
* *
939138 AGGCTGAAGATTATAGATATTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
939203 AACTCCCTAAGTCATAGGGCAAC
66 AACTCCCTAAGTCATAGGGCAAC
* * *
939226 AGGCTGAAGATTGTAGATCTTGTCACCCTGAAGTCGCAGCGGAGCAAATCAAAGACGCAAGCCTT
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
* *
939291 AACTCCCTAAGTCGTAGGGTAAC
66 AACTCCCTAAGTCATAGGGCAAC
* * * * *
939314 AGGCTAAAGATTGTAGATCTTCTCTCCTTGAAGTTGTAGCAGAGCA
1 AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCA
939360 GTTACGGTAG
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 120 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (88 bp):
AGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAAATCAAAGAAGCAAGCCTT
AACTCCCTAAGTCATAGGGCAAC
Found at i:942660 original size:131 final size:131
Alignment explanation
Indices: 942330--942718 Score: 510
Period size: 131 Copynumber: 3.0 Consensus size: 131
942320 CAATCATTCA
** * * * * *
942330 TTTAAAAA-TCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATACGCGGAATCGTGCCCTAT
1 TTTAAAAACT-CTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGGGGAGTCGTGCCCTAT
* * * * *
942394 CGTACTGGGTTGCGATTTCTCGTTTGCTCAAAACAATCGAATGTCCCTTTAGAATTTCACTCATA
65 CGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATA
*
942459 TT
130 TC
* * *
942461 TTCTAAAAACTCTTTAAAATGAAGGAAATATTCGATGTTTGGAAATTCGGGGAGGCGTGCCCTAT
1 TT-TAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGGGGAGTCGTGCCCTAT
* *
942526 CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATG
65 CGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATA
942591 TC
130 TC
* * * *
942593 TTTAAAAACTCTTTAAAGCGAAGGTAATATTCGATTTTTGGGAATTCGGGGAGTCGTGCCCTATC
1 TTTAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGGGGAGTCGTGCCCTATC
* * * * *
942658 GTGCTGGGTTTCGATTTCCCATTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTC
66 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTC
942719 GTGTTTGCTA
Statistics
Matches: 226, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
131 114 0.50
132 111 0.49
133 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTTAAAAACTCTTTAAAACGAAGGAAATATTCGATATTTGGAAATTCGGGGAGTCGTGCCCTATC
GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATAT
C
Found at i:943174 original size:22 final size:23
Alignment explanation
Indices: 943124--943175 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
943114 ATATTTACGT
943124 AGACCAAAATTGTTGTTTTAATA
1 AGACCAAAATTGTTGTTTTAATA
943147 AG-CCAAAA-TGTT-TTATTAA-A
1 AGACCAAAATTGTTGTT-TTAATA
943167 ATGACCAAA
1 A-GACCAAA
943176 CTTCTTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 9 0.35
22 11 0.42
23 2 0.08
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
AGACCAAAATTGTTGTTTTAATA
Found at i:943741 original size:16 final size:14
Alignment explanation
Indices: 943720--943755 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
943710 TAAAAATAAG
943720 AAAAAATATATTATA
1 AAAAAATATA-TATA
943735 TAAAAAATATATATA
1 -AAAAAATATATATA
943750 AAAAAA
1 AAAAAA
943756 CATCTCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 4 0.20
16 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATATATATA
Found at i:943749 original size:13 final size:14
Alignment explanation
Indices: 943721--943754 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
943711 AAAAATAAGA
943721 AAAAATATATTATAT
1 AAAAA-ATATTATAT
943736 AAAAAATA-TATAT
1 AAAAAATATTATAT
943749 AAAAAA
1 AAAAAA
943755 ACATCTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 3 0.16
15 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATATTATAT
Found at i:946730 original size:39 final size:39
Alignment explanation
Indices: 946631--946885 Score: 386
Period size: 39 Copynumber: 6.5 Consensus size: 39
946621 ATAAAGCATG
* * * *
946631 CGGGACTTTAAGCCCGGATGTAATATCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
946671 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTG
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
946710 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
946749 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
946788 CGAGACTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
946827 CGGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
946866 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
946886 TATCTCACAC
Statistics
Matches: 197, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
38 19 0.10
39 173 0.88
40 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:960180 original size:12 final size:12
Alignment explanation
Indices: 960146--960228 Score: 60
Period size: 12 Copynumber: 6.7 Consensus size: 12
960136 ATATTCTCCA
960146 CCACCACCACCT
1 CCACCACCACCT
960158 CCATCC-CCACCT
1 CCA-CCACCACCT
* *
960170 CCACCATCACCC
1 CCACCACCACCT
* *
960182 CCGCCACCTACTTAT
1 CCACCACC-AC--CT
*
960197 CCATCACCACCT
1 CCACCACCACCT
* *
960209 CCACCATCTCCT
1 CCACCACCACCT
960221 CCACCACC
1 CCACCACC
960229 TTCACCAGTA
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
11 2 0.04
12 39 0.74
13 4 0.08
14 2 0.04
15 6 0.11
ACGTcount: A:0.22, C:0.61, G:0.01, T:0.16
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:973021 original size:42 final size:42
Alignment explanation
Indices: 972974--973057 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
972964 TCTCAAAAGC
972974 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
1 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
* *
973016 AATTTTCTAGTTTCTCGCCTGATTATAATTCGAATATATATG
1 AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
973058 TTACAGGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (42 bp):
AATTTTCTAGTTTCTCCCCTGATTATAATTCAAATATATATG
Found at i:978369 original size:29 final size:29
Alignment explanation
Indices: 978333--978409 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
978323 CACGATAACG
*
978333 TAAGTGACTAAAACGTAACGTTTCAAACA
1 TAAGTGACTAAAACGTAACATTTCAAACA
* *
978362 TGAGTGACTAAAACATAACATTTCAAACA
1 TAAGTGACTAAAACGTAACATTTCAAACA
978391 TAAGTGACTAGAAA-GTAAC
1 TAAGTGACTA-AAACGTAAC
978410 CTGATGGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (29 bp):
TAAGTGACTAAAACGTAACATTTCAAACA
Found at i:979035 original size:18 final size:20
Alignment explanation
Indices: 979000--979040 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
978990 TCTTTATACG
* *
979000 TTAAAAAATATT-TTTTTAT
1 TTAAAAAATATTAATTTAAT
979019 TTAAAAAAT-TTAATTTAAT
1 TTAAAAAATATTAATTTAAT
979038 TTA
1 TTA
979041 TTGAGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAAAATATTAATTTAAT
Found at i:979737 original size:2 final size:2
Alignment explanation
Indices: 979732--979759 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
979722 AAAGTCACTA
979732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
979760 TTTAATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:980028 original size:2 final size:2
Alignment explanation
Indices: 980021--980052 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
980011 AATTTACATC
980021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
980053 TCAAGTTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:980305 original size:16 final size:17
Alignment explanation
Indices: 980275--980307 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
980265 TTTATCTTAA
*
980275 AATTAAAAATGGAATAG
1 AATTAAAAATAGAATAG
980292 AATTAAAAA-AGAATAG
1 AATTAAAAATAGAATAG
980308 TGGTGAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATTAAAAATAGAATAG
Found at i:981777 original size:20 final size:20
Alignment explanation
Indices: 981752--981791 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
981742 TACTCTTAGC
*
981752 TTTTTT-TTTAGAATTTTAAA
1 TTTTTTATTTA-AATGTTAAA
981772 TTTTTTATTTAAATGTTAAA
1 TTTTTTATTTAAATGTTAAA
981792 AAAAAGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTTATTTAAATGTTAAA
Found at i:986910 original size:6 final size:6
Alignment explanation
Indices: 986869--986904 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
986859 CTTGTTTATT
986869 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
986905 GAAAAATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:995415 original size:8 final size:8
Alignment explanation
Indices: 995400--995438 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
995390 AGTTAAAATG
995400 TAATTTTA
1 TAATTTTA
*
995408 TTATTTTA
1 TAATTTTA
* *
995416 TTAGTTTA
1 TAATTTTA
995424 TAATTTTA
1 TAATTTTA
995432 TAATTTT
1 TAATTTT
995439 TAAAGGATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
TAATTTTA
Found at i:998981 original size:31 final size:31
Alignment explanation
Indices: 998942--999027 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
998932 GTTTGGATCA
* *
998942 AGACTAAAATTTAAAAATTTAAAAAGTATAG
1 AGACTAAAATTGAAAAATTTAAAAAATATAG
* ** *
998973 GGACTAAAATTGACCAATTCAAAAAATATAG
1 AGACTAAAATTGAAAAATTTAAAAAATATAG
*
999004 AGATTAAAATTGATAAAA-TTAAAA
1 AGACTAAAATTGA-AAAATTTAAAA
999028 TATAAGGGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
31 41 0.95
32 2 0.05
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (31 bp):
AGACTAAAATTGAAAAATTTAAAAAATATAG
Found at i:1002664 original size:16 final size:16
Alignment explanation
Indices: 1002645--1002677 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1002635 GATTTTTAAT
1002645 GTTTTTATCTCTTTGG
1 GTTTTTATCTCTTTGG
1002661 GTTTTTATCTCTTTGG
1 GTTTTTATCTCTTTGG
1002677 G
1 G
1002678 CTTGACATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.21, T:0.61
Consensus pattern (16 bp):
GTTTTTATCTCTTTGG
Found at i:1004980 original size:25 final size:25
Alignment explanation
Indices: 1004952--1005001 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1004942 ACAACATTAT
1004952 CGTGAATTGATAAATAGTTCCGTCA
1 CGTGAATTGATAAATAGTTCCGTCA
*
1004977 CGTGAATTGATAAATGGTTCCGTCA
1 CGTGAATTGATAAATAGTTCCGTCA
1005002 TAAATCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (25 bp):
CGTGAATTGATAAATAGTTCCGTCA
Found at i:1006526 original size:15 final size:14
Alignment explanation
Indices: 1006483--1006526 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1006473 TCTTCGTAAA
1006483 TTTAAAATTTAATT
1 TTTAAAATTTAATT
* * *
1006497 TTTATACTTTTATT
1 TTTAAAATTTAATT
1006511 TTTAAGAATTTAATT
1 TTTAA-AATTTAATT
1006526 T
1 T
1006527 CTATATTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TTTAAAATTTAATT
Found at i:1018368 original size:289 final size:289
Alignment explanation
Indices: 1017849--1018412 Score: 1056
Period size: 289 Copynumber: 2.0 Consensus size: 289
1017839 TCTTTTACTA
*
1017849 TTCTCTGCTTCTCTTTTGATTTCTCTATCTTCTCTTTTCTGTATTTTGGTATTTTTTTTTTTTTT
1 TTCTCTGCTTCTCTTTTGATTTCTCTATCTTCTCTTTTCTGTATTTTGGTATTGTTTTTTTTTTT
*
1017914 CAGATTATTACTCTGTTTCTTATTTTTCATTCTTCACACTGTTGTTTATTTTCTTGTTCCTGACA
66 CAGATTATTACTCTGTTTCTTATTTTTCATTCTTCACACTGTTGTTTATTTTCTTGTTCCTAACA
1017979 TTTTAAACTTTCTTTTTCATTTCCAGCTACACTCACTTTCCGTCTCCAATATTACGCCCAGGAAT
131 TTTTAAACTTTCTTTTTCATTTCCAGCTACACTCACTTTCCGTCTCCAATATTACGCCCAGGAAT
*
1018044 TTTCAGGTGATGCCTTTCTTTTCTTTTATTTTTCTTCACTGTAATTCTTCGTTATATTCGAATAA
196 TGTCAGGTGATGCCTTTCTTTTCTTTTATTTTTCTTCACTGTAATTCTTCGTTATATTCGAATAA
1018109 AAACAAATGATAATATTACTATTCTCTGC
261 AAACAAATGATAATATTACTATTCTCTGC
*
1018138 TTCTCTGCTTCTCTTTTGATTTTTCTATCTTCTCTTTTCTGTATTTTGGTATTGTTTTTTTTTTT
1 TTCTCTGCTTCTCTTTTGATTTCTCTATCTTCTCTTTTCTGTATTTTGGTATTGTTTTTTTTTTT
* *
1018203 CAGATTGTTACTCTGTTTCTTATTTTTCATTCTTTACACTGTTGTTTATTTTCTTGTTCCTAACA
66 CAGATTATTACTCTGTTTCTTATTTTTCATTCTTCACACTGTTGTTTATTTTCTTGTTCCTAACA
*
1018268 TTTTAAACTTTCTTTTTCATTTCCAGCTACACTCACTTTCCGTCTCCAATATTACGCTCAGGAAT
131 TTTTAAACTTTCTTTTTCATTTCCAGCTACACTCACTTTCCGTCTCCAATATTACGCCCAGGAAT
*
1018333 TGTCAGGTGATGCCTTTCTTTTCTTTTATTTTTCTTCTCTGTAATTCTTCGTTATATTCGAATAA
196 TGTCAGGTGATGCCTTTCTTTTCTTTTATTTTTCTTCACTGTAATTCTTCGTTATATTCGAATAA
1018398 AAACAAATGATAATA
261 AAACAAATGATAATA
1018413 AGAACATAAT
Statistics
Matches: 267, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
289 267 1.00
ACGTcount: A:0.19, C:0.20, G:0.09, T:0.53
Consensus pattern (289 bp):
TTCTCTGCTTCTCTTTTGATTTCTCTATCTTCTCTTTTCTGTATTTTGGTATTGTTTTTTTTTTT
CAGATTATTACTCTGTTTCTTATTTTTCATTCTTCACACTGTTGTTTATTTTCTTGTTCCTAACA
TTTTAAACTTTCTTTTTCATTTCCAGCTACACTCACTTTCCGTCTCCAATATTACGCCCAGGAAT
TGTCAGGTGATGCCTTTCTTTTCTTTTATTTTTCTTCACTGTAATTCTTCGTTATATTCGAATAA
AAACAAATGATAATATTACTATTCTCTGC
Found at i:1021476 original size:3 final size:3
Alignment explanation
Indices: 1021468--1021511 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1021458 ACCTCCAAGG
1021468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1021512 ATTTGGTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1023173 original size:10 final size:10
Alignment explanation
Indices: 1023141--1023175 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1023131 CATGAAACTC
1023141 CACTCAATTA
1 CACTCAATTA
*
1023151 CACTAAATCTA
1 CACTCAAT-TA
1023162 CACTCAATTA
1 CACTCAATTA
1023172 CACT
1 CACT
1023176 AGTATCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (10 bp):
CACTCAATTA
Found at i:1025182 original size:126 final size:125
Alignment explanation
Indices: 1024865--1025336 Score: 567
Period size: 125 Copynumber: 3.8 Consensus size: 125
1024855 GGTAAATTGC
* * * * **
1024865 AACCCAGCACGATTGGGCACGATTTATCGAA-TTTCCAAATATGAAATATTGCCTCATTTTAATT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACAAAATATTGCCTCA-TTTAATT
* * * * * * *
1024929 TAAAAAAATATGGATGAAATGTCAAAAGAATATCCCGTATCTTAGTCGAATGAAAAATCGA
65 TTAAAAAACATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
* * * * *
1024990 AACCCAGCACGATTGGGCACGATCCCTCAAACT-T-CAAA-ACAAGAAATTTTGCCTCGTTTTAG
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATAC-A-AAATATTGCCTCATTTAAT
*
1025052 TTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCG-
64 TTTAA-AAAACATGGACGAAATTTC-AAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
* *
1025115 AACCCAGCATGATTGGGCATGATCTCTCAAACTCTCCAAATACAAAATATTGCCTCATTTAATTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACAAAATATTGCCTCATTTAATTT
* * * * *
1025180 TAAAAAGCATGGACGAAATTTCCAAAGGATGTTCCGTATTTTAGTTGAACGAAAAATCGA
66 TAAAAAACATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
* * * * *
1025240 AACCCAGAACGATTGGGCACGACCTCTCAAACTCCCCAAATACAGAATATTGCTTCATTTAATTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACAAAATATTGCCTCATTTAATTT
*
1025305 TAAAAAGCATGGACGAAATTTCAAAAAGGATA
66 TAAAAAACATGGACGAAATTTC-AAAAGGATA
1025337 ATATATGAAA
Statistics
Matches: 299, Mismatches: 38, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
123 1 0.00
124 45 0.15
125 183 0.61
126 63 0.21
127 5 0.02
128 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (125 bp):
AACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAATACAAAATATTGCCTCATTTAATTT
TAAAAAACATGGACGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAATGAAAAATCGA
Found at i:1026122 original size:5 final size:5
Alignment explanation
Indices: 1026114--1026144 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
1026104 CTAATTTAAT
1026114 AATAA AATAA AATAA AATAA AATCAA AATAA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA
1026145 TATATTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:1026404 original size:28 final size:29
Alignment explanation
Indices: 1026347--1026407 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
1026337 ACTAAATATA
* * *
1026347 TATTTTTTATTTTAATCATATTTACATTT
1 TATTTTTAATTTTAATCATAATCACATTT
*
1026376 TATTTTTAATTTTAAT-ATAATCACTTTT
1 TATTTTTAATTTTAATCATAATCACATTT
1026404 TATT
1 TATT
1026408 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTAATTTTAATCATAATCACATTT
Found at i:1027109 original size:16 final size:16
Alignment explanation
Indices: 1027085--1027148 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
1027075 AAAAGTATGG
*
1027085 AAATTTTATTATATTT
1 AAATATTATTATATTT
*
1027101 AAATATTATTTTATTAT
1 AAATATTATTATATT-T
* *
1027118 AAATTTTATTATGTTT
1 AAATATTATTATATTT
*
1027134 AAATATTATTTTATT
1 AAATATTATTATATT
1027149 ATGCAAAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 26 0.67
17 13 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
AAATATTATTATATTT
Found at i:1027122 original size:33 final size:33
Alignment explanation
Indices: 1027085--1027150 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
1027075 AAAAGTATGG
1027085 AAATTTTATTATATTTAAATATTATTTTATTAT
1 AAATTTTATTATATTTAAATATTATTTTATTAT
*
1027118 AAATTTTATTATGTTTAAATATTATTTTATTAT
1 AAATTTTATTATATTTAAATATTATTTTATTAT
1027151 GCAAAACAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (33 bp):
AAATTTTATTATATTTAAATATTATTTTATTAT
Found at i:1035252 original size:21 final size:21
Alignment explanation
Indices: 1035227--1035268 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1035217 TAGAAACATT
1035227 TAAATAGTA-ACACGTTATTTA
1 TAAATA-TATACACGTTATTTA
1035248 TAAATATATTACACGTTATTT
1 TAAATATA-TACACGTTATTT
1035269 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 6 0.32
22 11 0.58
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (21 bp):
TAAATATATACACGTTATTTA
Done.