Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008757.1 Hibiscus syriacus cultivar Beakdansim tig00111849_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: 497375
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 3
Found at i:254237 original size:26 final size:27
Alignment explanation
Indices: 254208--254263 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
254198 AACATAATAT
254208 ATATATATAAATTAA-ATAAAAATAAA
1 ATATATATAAATTAAGATAAAAATAAA
* * * *
254234 ATATGTTTAAATTAAGTTAATAATAAA
1 ATATATATAAATTAAGATAAAAATAAA
254261 ATA
1 ATA
254264 CATTTAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
ATATATATAAATTAAGATAAAAATAAA
Found at i:254280 original size:25 final size:27
Alignment explanation
Indices: 254215--254288 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
254205 TATATATATA
* * **
254215 TAAATTAA-ATAAAAATAAAATATGTT
1 TAAATTAAGTTAATAATAAAATACATT
254241 TAAATTAAGTTAATAATAAAATACATT
1 TAAATTAAGTTAATAATAAAATACATT
254268 T-AA-TAAGTTAAT-ATACAAATA
1 TAAATTAAGTTAATAATA-AAATA
254289 TTTTTTAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 3 0.07
25 14 0.33
26 10 0.24
27 15 0.36
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (27 bp):
TAAATTAAGTTAATAATAAAATACATT
Found at i:254306 original size:2 final size:2
Alignment explanation
Indices: 254301--254340 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
254291 TTTTAAGATT
254301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
254341 TAAGTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:257238 original size:29 final size:29
Alignment explanation
Indices: 257196--257309 Score: 203
Period size: 29 Copynumber: 3.9 Consensus size: 29
257186 CAGTGGCAAC
257196 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
257225 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
*
257254 ATAGGTCGCCATGCACGCCCGGCGTTC-T
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
257282 ATAAGGTCGCCATGCACGCCCGGCGTCC
1 AT-AGGTCGCCATGCACGCCCGGCGTCC
257310 ATCATTATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 3 0.04
29 79 0.96
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.19
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:257541 original size:15 final size:15
Alignment explanation
Indices: 257521--257581 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
257511 TAGGTTGCCG
257521 GCGACATGGTAGGTC
1 GCGACATGGTAGGTC
257536 GCGACATGGTAGGTC
1 GCGACATGGTAGGTC
257551 GC--CATGG-A-GTCCC
1 GCGACATGGTAGGT--C
257564 GACGACATGGTAGGTC
1 G-CGACATGGTAGGTC
257580 GC
1 GC
257582 CATGGAGTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 7 0.18
14 1 0.03
15 18 0.46
16 7 0.18
17 1 0.03
18 2 0.05
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.18
Consensus pattern (15 bp):
GCGACATGGTAGGTC
Found at i:257570 original size:29 final size:29
Alignment explanation
Indices: 257537--257607 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
257527 TGGTAGGTCG
257537 CGACATGGTAGGTCGCCATGGAGTCCCGA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
*
257566 CGACATGGTAGGTCGCCATGGAGTCCCTA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
257595 CGACATGGTAGGT
1 CGACATGGTAGGT
257608 GGTAGGGTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (29 bp):
CGACATGGTAGGTCGCCATGGAGTCCCGA
Found at i:257618 original size:12 final size:12
Alignment explanation
Indices: 257601--257625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
257591 CCTACGACAT
257601 GGTAGGTGGTAG
1 GGTAGGTGGTAG
257613 GGTAGGTGGTAG
1 GGTAGGTGGTAG
257625 G
1 G
257626 TCGCCATGGA
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:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (12 bp):
GGTAGGTGGTAG
Found at i:257704 original size:35 final size:35
Alignment explanation
Indices: 257665--257732 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
257655 TCCTGCATCG
257665 CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
1 CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
*
257700 CGACCAAGCTTTAACTGTATCACTCATGCATGC
1 CGACCAAGCTTTAACTGTAGCACTCATGCATGC
257733 GTTGCATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (35 bp):
CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
Found at i:258194 original size:21 final size:21
Alignment explanation
Indices: 258169--258212 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
258159 AATCTAGTTA
*
258169 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTGGTTAGTATAAATT
* *
258190 ATTAGTTGGTTAGTTTAAGTT
1 ATTAGTTGGTTAGTATAAATT
258211 AT
1 AT
258213 ATATTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (21 bp):
ATTAGTTGGTTAGTATAAATT
Found at i:258280 original size:38 final size:42
Alignment explanation
Indices: 258199--258281 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 42
258189 TATTAGTTGG
*
258199 TTAGTTTAAGTTATATATTATATTATATAAAAAAATTAGTTAA
1 TTAGTTTAAGTTATATA-TATATTATATAAAAAAATTAATTAA
258242 TTAGTTTAAGTTAT-TA-A-A-TATA-AAAAAATATTAATTAA
1 TTAGTTTAAGTTATATATATATTATATAAAAAA-ATTAATTAA
258280 TT
1 TT
258282 TGTTAGTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
37 6 0.16
38 14 0.37
39 1 0.03
40 1 0.03
42 2 0.05
43 14 0.37
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (42 bp):
TTAGTTTAAGTTATATATATATTATATAAAAAAATTAATTAA
Found at i:258624 original size:14 final size:14
Alignment explanation
Indices: 258605--258631 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
258595 AGTAATTTAT
258605 TATTTTTTGTTGTC
1 TATTTTTTGTTGTC
258619 TATTTTTTGTTGT
1 TATTTTTTGTTGT
258632 TGTGTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
TATTTTTTGTTGTC
Found at i:258631 original size:17 final size:17
Alignment explanation
Indices: 258602--258634 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
258592 GTGAGTAATT
258602 TATTATTTTTTGTTGTC
1 TATTATTTTTTGTTGTC
258619 TATT-TTTTGTTGTTGT
1 TATTATTTT-TTGTTGT
258635 GTATGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.73
Consensus pattern (17 bp):
TATTATTTTTTGTTGTC
Found at i:258770 original size:23 final size:23
Alignment explanation
Indices: 258727--258770 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
258717 TATTGTGTTT
*
258727 AAAAATATTTAGTGTTGTTTAAA
1 AAAAATATTTAGTGTTATTTAAA
* *
258750 AAAAATATTTTGTTTTATTTA
1 AAAAATATTTAGTGTTATTTA
258771 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTATTTAAA
Found at i:259028 original size:26 final size:25
Alignment explanation
Indices: 258999--259063 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
258989 AAATCATATT
*
258999 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
259025 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
259051 ATTATT-AATAATA
1 ATTATTAAATAATA
259064 TTAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:261483 original size:3 final size:3
Alignment explanation
Indices: 261477--261509 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
261467 GATTGTTGTT
*
261477 GAA GAA GAA GAA GAA GAA GTA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
261510 AGAAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:274614 original size:26 final size:25
Alignment explanation
Indices: 274558--274643 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
274548 TTAAATTCAT
* *
274558 AATATTTTATATATACTAACTTA-AAA
1 AATATTTT-T-TATATTAACTTATTAA
274584 AATATTTTTTATATTAACTTATTAA
1 AATATTTTTTATATTAACTTATTAA
*
274609 ATATATTTTGT-TATTAACTTAATTTAA
1 A-ATATTTTTTATATTAACTT-A-TTAA
274636 AATATTTT
1 AATATTTT
274644 ATTTTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 11 0.21
25 13 0.25
26 24 0.45
27 5 0.09
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (25 bp):
AATATTTTTTATATTAACTTATTAA
Found at i:274672 original size:30 final size:30
Alignment explanation
Indices: 274637--274693 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
274627 TTAATTTAAA
* *
274637 ATATTTTATTTTTAT-TTTCATTTAAAATAT
1 ATATTTTATGTTAATATTT-ATTTAAAATAT
274667 ATATTTTATGTTAATATTTATTTAAAA
1 ATATTTTATGTTAATATTTATTTAAAA
274694 AAATATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
ATATTTTATGTTAATATTTATTTAAAATAT
Found at i:275276 original size:2 final size:2
Alignment explanation
Indices: 275269--275299 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
275259 TTTCGTCTCT
275269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
275300 TATTCTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:276099 original size:2 final size:2
Alignment explanation
Indices: 276092--276118 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
276082 GAATGGAAGT
276092 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
276119 TTCCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:279482 original size:17 final size:18
Alignment explanation
Indices: 279460--279495 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
279450 AATAAAATAA
*
279460 TTTTATTTTTTAT-ATTT
1 TTTTATATTTTATAATTT
279477 TTTTATATTTTATAATTT
1 TTTTATATTTTATAATTT
279495 T
1 T
279496 CGACATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATATTTTATAATTT
Found at i:288455 original size:58 final size:59
Alignment explanation
Indices: 288364--288485 Score: 219
Period size: 58 Copynumber: 2.1 Consensus size: 59
288354 AGAGTGGCCA
288364 CCAGCAACATGGAATATATGCTCACACTACTTTATTCAAAGTATCATTAATTTCATACT
1 CCAGCAACATGGAATATATGCTCACACTACTTTATTCAAAGTATCATTAATTTCATACT
* *
288423 CCAGCACCATGGAA-ATATGCTCACATTACTTTATTCAAAGTATCATTAATTTCATACT
1 CCAGCAACATGGAATATATGCTCACACTACTTTATTCAAAGTATCATTAATTTCATACT
288481 CCAGC
1 CCAGC
288486 TCCTTTGACT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 48 0.79
59 13 0.21
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (59 bp):
CCAGCAACATGGAATATATGCTCACACTACTTTATTCAAAGTATCATTAATTTCATACT
Found at i:291728 original size:188 final size:190
Alignment explanation
Indices: 291384--291763 Score: 680
Period size: 188 Copynumber: 2.0 Consensus size: 190
291374 TCACAAATTC
291384 CCACATTATATAACTAACAGAAGCCTGGATTGACAAAGATGATCAAACCCTAGCCAAAACCAATA
1 CCACATTATATAACTAACAGAAGCCTGGATTGACAAAGATGATCAAACCCTAGCCAAAACCAATA
291449 TATATAAACACAAATTTTTCCACGTTCCCCCACTTTTTTATGACTGACGGGTTAAATTAAACCTT
66 TATATAAACACAAATTTTTCCACGTTCCCCCACTTTTTTATGACTGACGGGTTAAATTAAACCTT
*
291514 AAAACTGCAGTGCTGTTTTCGTTCCA-CTCGTTTCAACCTTCGAA-ACAGCTTAATCAGT
131 AAAACTGCAGTGCTGTTTTAGTTCCACCTCGTTTCAACCTTCGAACACAGCTTAATCAGT
291572 CCACATTATATAACTAACAGAAGCCTGGATTGACAAAGATGATCAAACCCTAGCCAAAACC-A-A
1 CCACATTATATAACTAACAGAAGCCTGGATTGACAAAGATGATCAAACCCTAGCCAAAACCAATA
291635 TATATAAACACAAATTTTTCCACGTTCCCCCAC-TTTTTATGACTGACAGCGGTTAAATTAAACC
66 TATATAAACACAAATTTTTCCACGTTCCCCCACTTTTTTATGACTGAC-G-GGTTAAATTAAACC
291699 TTAAAACTGCAGTGCTGTTTTTAGTTCCACCTCGTTTCAACCTTCGAACCACAGCTTAATCAGT
129 TTAAAACTGCAGTGCTG-TTTTAGTTCCACCTCGTTTCAACCTTCGAA-CACAGCTTAATCAGT
291763 C
1 C
291764 AAATTCCGCC
Statistics
Matches: 185, Mismatches: 1, Indels: 9
0.95 0.01 0.05
Matches are distributed among these distances:
185 14 0.08
186 35 0.19
187 32 0.17
188 71 0.38
189 18 0.10
191 15 0.08
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (190 bp):
CCACATTATATAACTAACAGAAGCCTGGATTGACAAAGATGATCAAACCCTAGCCAAAACCAATA
TATATAAACACAAATTTTTCCACGTTCCCCCACTTTTTTATGACTGACGGGTTAAATTAAACCTT
AAAACTGCAGTGCTGTTTTAGTTCCACCTCGTTTCAACCTTCGAACACAGCTTAATCAGT
Found at i:291949 original size:2 final size:2
Alignment explanation
Indices: 291942--291992 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
291932 TAAATTACCC
291942 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
291984 TA TA TA TA T
1 TA TA TA TA T
291993 GCTTAATTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:294975 original size:665 final size:643
Alignment explanation
Indices: 293735--294975 Score: 1661
Period size: 647 Copynumber: 1.9 Consensus size: 643
293725 ACACCCGATT
* ** * *
293735 TTTTATTTTGGAGAATATGATAAAAGTTGTTGTGATTTTAGAACCCGTCATCTCGAGGTGACGAG
1 TTTTATTTTGGAGAATATGATAAAAGCTGCAGTGATTTCAGAACCCGTCACCTCGAGGTGACGAG
* * *
293800 TTTGATGAGATATTATTTTAATGGACCTAAATGAGTAGGACTCACATGGGTCATTTATTAATTGA
66 GTTGATGAGATATTATTTTAATGGACCTAAATGAGTAGCACTCACATGGGCCATTTATTAATTGA
** * *
293865 AATTAAAGAGACTCATCACCTCGACGTGATGACTCCTTTTAAAATAAATTTTAAAAATATTTAAA
131 AATTAAAGAGACTCATCACCTCGACGTGACAAATCCATTTAAAATAAATTTTAAAAATATTTAAA
* * *
293930 AATATTTTTAATAATAAAATAAAAAAATATCTCGTCACCTCGAGGTGACGAGTTTAATTGAATTA
196 AATAATTTTAATAATAAAATAAAAAAATAACTCGTCACCTC--GGTGACGAGTTCAATTGAATTA
* * * *
293995 AAAAAATATGTTGGTCAACGAGAAACAACAACAAAAAACTCGAGGTGACGAGTTCCTCCATATTT
259 AAAAAATACGTTGGTCAACGAGAAACAACAAAAAAAAACTCGAGGTGACGAGCTCCTCCAGATTT
* * *
294060 TTAAAAATTCTAACCGTTTATAGATTGGGGCTATAAATTGGGGTTTAGGTTTTTTTACCATCCAT
324 TTAAAAATTCTAACCGTTTATAGATTGGGGATATAAATTGGGGTTTAGGATTTTTTACCATCCAC
** * *
294125 TATTACGAAAAAAAAGAAAAAATCTTACTTTCTGAAAAAATCCCTAAAATGGTTTCCCAAGAAGA
389 TATTACGAAAAAAAAGAAAAAATCTTACTTTCTGAAAAAATCCCTAAAATGACTTACCAAGAAAA
* * * *
294190 AATGTTACGTCTTAATGATGTTCATATTTCGTCAATGGAACTCCATTTGGAAGCAGAACGGAGCA
454 AATGTTACGTCTTAATGATGTTCATATTTCATCAATCGAACTCCATCTGGAAGCAGAACGAAGCA
* *
294255 TTCTTCAACGCGGGATGACATTGAGAGATCTGCATAAGCGGATGATGGTATATCTTCAGCAATAG
519 TTCGTCAACGCGGGATGACATTGAGAGATCTGCATAAGCGGATGATGATATATCTTCAGCAATAG
294320 GCCAATAGGGCACTAGGTTTTTTTTTATTTAGCATAATAAAACACTCGGTTTTTATTTTA
584 GCCAATAGGGCACTAGGTTTTTTTTTATTTAGCATAATAAAACACTCGGTTTTTATTTTA
* *
294380 TTTTATTTTGGAGAATATG-TCAAAAGCTGCAGTGATTTCAGAACTCGTCACCTTGAGGTGACGA
1 TTTTATTTTGGAGAATATGAT-AAAAGCTGCAGTGATTTCAGAACCCGTCACCTCGAGGTGACGA
* * * *
294444 GGTTGATGAGATATATTATTTTAATGGACCTGAATGAGTA-CATCTTACGTGGGCCATTTATTTA
65 GGTTGATGAG--ATATTATTTTAATGGACCTAAATGAGTAGCA-CTCACATGGGCCATTTATTAA
* * *
294508 TTGAAATTAAAGAGACTCGTCACCTCGTCGTGACAAATTCATTTAAAATAAATTTTAAAAA-ATT
127 TTGAAATTAAAGAGACTCATCACCTCGACGTGACAAATCCATTTAAAATAAATTTTAAAAATATT
*
294572 ATAAAAAATAATTTTAATATTAAAATTTAAAAAAAATTGAAAAGAACTCGTCACCTC-GTGACGA
192 -T-AAAAATAATTTTAATAATAAAA--T-AAAAAAA-T------AACTCGTCACCTCGGTGACGA
* *
294636 GTTCAATTGAATTTAAAAAAAT-CGTTGGTCAACGGGAAACAACAAAAAAAAACTTGAGGTGACG
245 GTTCAATTGAA-TTAAAAAAATACGTTGGTCAACGAGAAACAACAAAAAAAAACTCGAGGTGACG
*
294700 AGCTCCTTCAGATTTTTAAAAATTCTAACCGTTTATAGTCATTGGGATTGGGGATATAAATTGGG
309 AGCTCCTCCAGATTTTTAAAAATTCTAACCG-TT-TA-T-A----GATTGGGGATATAAATTGGG
* * *
294765 GTTTA-GATTTTTTACCGTCTACTATTACGAAAAAATTAAGAAAAATTCTTACTTTCTGAAAAAA
366 GTTTAGGATTTTTTACCATCCACTATTACGAAAAAA--AAGAAAAAATCTTACTTTCTG-AAAAA
* *
294829 ATCCCTAAAAATGACTTACCGAGAAAAAATGTTACGTCTTGATGATGTTCATATTTCATC-ATCG
428 ATCCCT-AAAATGACTTACCAAGAAAAAATGTTACGTCTTAATGATGTTCATATTTCATCAATCG
* *
294893 AACTCCGTCCT-GAAGTAGAACGAAGCATTCGTCAACGCGGGATGACATTGAGAGATCTGCATAA
492 AACTCCAT-CTGGAAGCAGAACGAAGCATTCGTCAACGCGGGATGACATTGAGAGATCTGCATAA
*
294957 GTGGATGATGATATATCTT
556 GCGGATGATGATATATCTT
294976 TAACAATTTG
Statistics
Matches: 513, Mismatches: 53, Indels: 40
0.85 0.09 0.07
Matches are distributed among these distances:
644 1 0.00
645 64 0.12
646 4 0.01
647 99 0.19
648 20 0.04
650 1 0.00
651 7 0.01
652 1 0.00
655 83 0.16
656 12 0.02
657 2 0.00
658 13 0.03
659 1 0.00
662 26 0.05
663 24 0.05
664 20 0.04
665 88 0.17
666 47 0.09
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (643 bp):
TTTTATTTTGGAGAATATGATAAAAGCTGCAGTGATTTCAGAACCCGTCACCTCGAGGTGACGAG
GTTGATGAGATATTATTTTAATGGACCTAAATGAGTAGCACTCACATGGGCCATTTATTAATTGA
AATTAAAGAGACTCATCACCTCGACGTGACAAATCCATTTAAAATAAATTTTAAAAATATTTAAA
AATAATTTTAATAATAAAATAAAAAAATAACTCGTCACCTCGGTGACGAGTTCAATTGAATTAAA
AAAATACGTTGGTCAACGAGAAACAACAAAAAAAAACTCGAGGTGACGAGCTCCTCCAGATTTTT
AAAAATTCTAACCGTTTATAGATTGGGGATATAAATTGGGGTTTAGGATTTTTTACCATCCACTA
TTACGAAAAAAAAGAAAAAATCTTACTTTCTGAAAAAATCCCTAAAATGACTTACCAAGAAAAAA
TGTTACGTCTTAATGATGTTCATATTTCATCAATCGAACTCCATCTGGAAGCAGAACGAAGCATT
CGTCAACGCGGGATGACATTGAGAGATCTGCATAAGCGGATGATGATATATCTTCAGCAATAGGC
CAATAGGGCACTAGGTTTTTTTTTATTTAGCATAATAAAACACTCGGTTTTTATTTTA
Found at i:305804 original size:26 final size:27
Alignment explanation
Indices: 305775--305834 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
305765 CATAAACTTC
*
305775 AAAATTC-CAACCGAAAATAATATATA
1 AAAATTCTCAACCAAAAATAATATATA
* **
305801 AAAATTTCTGAATTAAAAATAATATATA
1 AAAA-TTCTCAACCAAAAATAATATATA
305829 AAAATT
1 AAAATT
305835 TAAGATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATTCTCAACCAAAAATAATATATA
Found at i:309882 original size:14 final size:14
Alignment explanation
Indices: 309863--309892 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
309853 TCTATCTAAC
309863 AATATCTTTTAAAA
1 AATATCTTTTAAAA
309877 AATATCTTTTAAAA
1 AATATCTTTTAAAA
309891 AA
1 AA
309893 CGTTTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATCTTTTAAAA
Found at i:311292 original size:24 final size:24
Alignment explanation
Indices: 311260--311312 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
311250 CATTGAGTAA
311260 TCCATGGAGTAAGCACATAGATTT
1 TCCATGGAGTAAGCACATAGATTT
311284 TCCATGGAGTAAGCACATAGATTT
1 TCCATGGAGTAAGCACATAGATTT
311308 TCCAT
1 TCCAT
311313 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (24 bp):
TCCATGGAGTAAGCACATAGATTT
Found at i:317207 original size:44 final size:44
Alignment explanation
Indices: 317144--317234 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
317134 GCCTAAATAT
317144 GCCACACACATTCCTCCTTCAGCACATAAGTCTACATCCAAGCC
1 GCCACACACATTCCTCCTTCAGCACATAAGTCTACATCCAAGCC
317188 GCCACACACATTCCTCCTTCAGCACATAAGTCTACATCCAAGCC
1 GCCACACACATTCCTCCTTCAGCACATAAGTCTACATCCAAGCC
317232 GCC
1 GCC
317235 CATGACGACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.29, C:0.42, G:0.10, T:0.20
Consensus pattern (44 bp):
GCCACACACATTCCTCCTTCAGCACATAAGTCTACATCCAAGCC
Found at i:318856 original size:14 final size:14
Alignment explanation
Indices: 318839--318891 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
318829 TATTTATAAT
318839 AAATAATTTTTAAA
1 AAATAATTTTTAAA
* *
318853 AAATAA-TTTCAAC
1 AAATAATTTTTAAA
* *
318866 AAATGATTTTAAAA
1 AAATAATTTTTAAA
318880 AATATAATTTTT
1 AA-ATAATTTTT
318892 TACAAAATCA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 10 0.33
14 13 0.43
15 7 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (14 bp):
AAATAATTTTTAAA
Found at i:318882 original size:13 final size:13
Alignment explanation
Indices: 318839--318883 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
318829 TATTTATAAT
318839 AAATAATTTTTAAA
1 AAATAA-TTTTAAA
* *
318853 AAATAATTTCAAC
1 AAATAATTTTAAA
*
318866 AAATGATTTTAAA
1 AAATAATTTTAAA
318879 AAATA
1 AAATA
318884 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:331010 original size:20 final size:20
Alignment explanation
Indices: 330945--331039 Score: 95
Period size: 20 Copynumber: 4.7 Consensus size: 20
330935 AACTCAGTTT
*
330945 TCAATTTCGCAACGCGAATATG
1 TCAAATTCGCAACGCG-ATA-G
* * *
330967 T-AAA-TCGTAACACGATAT
1 TCAAATTCGCAACGCGATAG
330985 TCCAAATTCGCAACGCGATAG
1 T-CAAATTCGCAACGCGATAG
* *
331006 TCAAATTCTCAACGCGAAAG
1 TCAAATTCGCAACGCGATAG
331026 TCAAATTCGCAACG
1 TCAAATTCGCAACG
331040 TGAAAGATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 41 0.68
21 14 0.23
22 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATAG
Found at i:331044 original size:20 final size:20
Alignment explanation
Indices: 330987--331045 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
330977 CACGATATTC
*
330987 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
331007 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
331027 CAAATTCGCAACGTGAAAG
1 CAAATTCGCAACGCGAAAG
331046 ATAATATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:331500 original size:20 final size:19
Alignment explanation
Indices: 331472--331511 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
331462 ACCAAATTCA
*
331472 CAACGCGAAAATGAAAATCG
1 CAACCCGAAAAT-AAAATCG
*
331492 CAACCCGAAACTAAAATCG
1 CAACCCGAAAATAAAATCG
331511 C
1 C
331512 GTTGGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.28, G:0.15, T:0.10
Consensus pattern (19 bp):
CAACCCGAAAATAAAATCG
Found at i:333109 original size:42 final size:42
Alignment explanation
Indices: 333063--333150 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
333053 ATCGGGCCGA
333063 TTCTATAGCTCGACACCCGGAGCCATCACCTGGTCGAGCCTC
1 TTCTATAGCTCGACACCCGGAGCCATCACCTGGTCGAGCCTC
333105 TTCTATAGCTCGACACCCGGAGCCATCACCTGGTCGAGCCTC
1 TTCTATAGCTCGACACCCGGAGCCATCACCTGGTCGAGCCTC
333147 TTCT
1 TTCT
333151 CCACCTCCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.24
Consensus pattern (42 bp):
TTCTATAGCTCGACACCCGGAGCCATCACCTGGTCGAGCCTC
Found at i:338595 original size:21 final size:19
Alignment explanation
Indices: 338561--338602 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
338551 GTCAAAAAAC
*
338561 CAATGTATCAAAATAATAGG
1 CAATGTACCAAAATAA-AGG
338581 CAATGTCACCAAAATAAAGG
1 CAATGT-ACCAAAATAAAGG
338601 CA
1 CA
338603 GTTCAGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (19 bp):
CAATGTACCAAAATAAAGG
Found at i:339888 original size:6 final size:6
Alignment explanation
Indices: 339877--339901 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
339867 GTGATTTTTT
339877 AAGTCA AAGTCA AAGTCA AAGTCA A
1 AAGTCA AAGTCA AAGTCA AAGTCA A
339902 TTGTCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGTCA
Found at i:340117 original size:22 final size:22
Alignment explanation
Indices: 340091--340132 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
340081 CAGAAGCAAC
*
340091 CAACACC-AACATCAATCCAAAA
1 CAACACCGAAAATCAA-CCAAAA
340113 CAACACCGAAAATCAACCAA
1 CAACACCGAAAATCAACCAA
340133 TTGTCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.55, C:0.36, G:0.02, T:0.07
Consensus pattern (22 bp):
CAACACCGAAAATCAACCAAAA
Found at i:352453 original size:36 final size:36
Alignment explanation
Indices: 352395--352464 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
352385 AATGAATGGG
*
352395 TTGATTACCAACAAATGTTCATATCTACTTAATTGT
1 TTGATTACCAACAAATGGTCATATCTACTTAATTGT
* **
352431 TTGATTACTAACATGTGGTCATATCTACTTAATT
1 TTGATTACCAACAAATGGTCATATCTACTTAATT
352465 CGTCAATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (36 bp):
TTGATTACCAACAAATGGTCATATCTACTTAATTGT
Found at i:352684 original size:225 final size:222
Alignment explanation
Indices: 352270--352707 Score: 561
Period size: 224 Copynumber: 2.0 Consensus size: 222
352260 AATCACATAT
* *
352270 ATGTGCTCAGAACTTCAAACTGTTGATTGCAAACACCTGCTCAGTAATCAATGGGTAATTTCTAA
1 ATGTGCTCAGAACTTCAAACTGTTGATTGCAAACACCTGCTCAGGAATCAATCGGTAATTTCTAA
* * * * **
352335 AACGTGCTCAGAACCTCTCAATCCGTTAATTATAGCATGTACTTAGAGCTAATGAATGGGTTGAT
66 AACATGCTCAGAACCACTCAATACGTTAATTATAGCATGTACTCAGAGCTAATGAATCAGTTGAT
* * **
352400 TACCAACAAATGTTCATATCTACTTAATTGTTTGATTACTAACATGTGGTCATATCTACTTAATT
131 TACCAACAAATGTTCATATCGACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTAAAC
352465 CGTCAATAACTAACAAAGCTCACAACC
196 CGTCAATAACTAACAAAGCTCACAACC
* * * * * * * *
352492 ATGTGCTCGGAACTACTCAAACTGTTGATTGCTAACACGTGCTCGGGACTCAGTCGTTAGTTTCT
1 ATGTGCTCAGAACT--TCAAACTGTTGATTGCAAACACCTGCTCAGGAATCAATCGGTAATTTCT
* * * * * * *
352557 AGAACATGCTTAGAACCACTCGATACGTTCATTGTAGCATGTGCTCAGAGCTACTGAATCAGTTG
64 AAAACATGCTCAGAACCACTCAATACGTTAATTATAGCATGTACTCAGAGCTAATGAATCAGTTG
* * **
352622 ATTTCTAACACGTGTTCAGTATCGACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTA
129 ATTACCAACAAATGTTCA-TATCGACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTA
*
352687 AACCGTCATTAACTAACAAAG
193 AACCGTCAATAACTAACAAAG
352708 GTCATAACTA
Statistics
Matches: 181, Mismatches: 32, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
222 13 0.07
224 106 0.59
225 62 0.34
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (222 bp):
ATGTGCTCAGAACTTCAAACTGTTGATTGCAAACACCTGCTCAGGAATCAATCGGTAATTTCTAA
AACATGCTCAGAACCACTCAATACGTTAATTATAGCATGTACTCAGAGCTAATGAATCAGTTGAT
TACCAACAAATGTTCATATCGACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTAAAC
CGTCAATAACTAACAAAGCTCACAACC
Found at i:353109 original size:259 final size:259
Alignment explanation
Indices: 352646--353123 Score: 618
Period size: 259 Copynumber: 1.8 Consensus size: 259
352636 TTCAGTATCG
* * * * *
352646 ACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTAAACCGTCATTAACTAACAAAGGTC
1 ACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTAAACCATCAATAACTAACAAAGCTC
* * *
352711 ATAACTACTATCCAAAAATTACTAACACATTTCTCCAATCAATCAACTACCAGCACACTAAGAAC
66 AAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAATCAACTACCAGCAAACTAAGAAC
* ** *
352776 ATTTTATCTAACCGATGCATATCGGAAAGAGCAAAATAAGAAACAAACAAATCCACATCAAAACA
131 ATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAAACAAACAAATCCACATCAAAACA
352841 AGCATGCATCCCAAAGTTTCTTGATTAAAAAACGGTTGTCATGCTCTAAGTTATTTCCACATCT
196 AGCATGCATCCCAAAGTTTCTTGATTAAAAAACGGTTGTCATGCTCTAAGTTATTTCCACATCT
** * *
352905 ACTTAATCGTTTGATTACTAACTTGTGGCCTTATCTAC-TATATCCATCAATAACTAACAAAGCT
1 ACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTA-AACCATCAATAACTAACAAAGCT
* * ** * ** *
352969 CAAAACTACTATCCAATAACTGCTAATGCGTTTCTCCAATCAATCAACTGTCAGGAAAC-AGAGA
65 CAAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAATCAACTACCAGCAAACTA-AGA
* * * * * * * *
353033 ACATTTTATCTGACCGAAGCATGTTACAAAGAACTAAATGAGAAAGAAACACATGCACATCAAAA
129 ACATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAAACAAACAAATCCACATCAAAA
* *
353098 CAAGTATGCATCCCGAAGTTTCTTGA
194 CAAGCATGCATCCCAAAGTTTCTTGA
353124 CCGATTAACA
Statistics
Matches: 183, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
258 3 0.02
259 180 0.98
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.27
Consensus pattern (259 bp):
ACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTAAACCATCAATAACTAACAAAGCTC
AAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAATCAACTACCAGCAAACTAAGAAC
ATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAAACAAACAAATCCACATCAAAACA
AGCATGCATCCCAAAGTTTCTTGATTAAAAAACGGTTGTCATGCTCTAAGTTATTTCCACATCT
Found at i:353176 original size:259 final size:259
Alignment explanation
Indices: 352625--353271 Score: 615
Period size: 259 Copynumber: 2.5 Consensus size: 259
352615 TCAGTTGATT
* * *
352625 TCTAACACGTGTTCAGTATCGACTTAATTGTTTGATTACTAACACGTGGTCATATCTACTTAAAC
1 TCTAACACGTGTTCA-TATCTACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTAAAC
* * * * *
352690 CGTCATTAACTAACAAAGGTCATAACTACTATCCAAAAATTACTAACACATTTCTCCAATCAATC
65 CATCAATAACTAACAAAGCTCAAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAATC
* * ** *
352755 AACTACCAGCACACTAAGAACATTTTATCTAACCGATGCATATCGGAAAGAGCAAAATAAGAAAC
130 AACTACCAGCAAACTAAGAACATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAAAC
** * *
352820 AAACAAATCCACATCAAAACAAGCATGCATCCCAAAGTTTCTTGATTAAAAAACGGTTGTCATGC
195 AAACAAATCCACATCAAAACAAGCATGCATCCCAAAGTTTCTTGACCAAAAAACAGTTATCATGC
**** * ** * *
352885 TCTAAGTTAT-TTCCACATCTACTTAATCGTTTGATTACTAACTTGTGGCCTTATCTAC-TATAT
1 TCTAACACGTGTT-CATATCTACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTA-AA
* * ** *
352948 CCATCAATAACTAACAAAGCTCAAAACTACTATCCAATAACTGCTAATGCGTTTCTCCAATCAAT
64 CCATCAATAACTAACAAAGCTCAAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAAT
** * * * * * *
353013 CAACTGTCAGGAAAC-AGAGAACATTTTATCTGACCGAAGCATGTTACAAAGAACTAAATGAGAA
129 CAACTACCAGCAAACTA-AGAACATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAA
* * * * * * ** *
353077 AGAAACACATGCACATCAAAACAAGTATGCATCCCGAAGTTTCTTGACCGATTAACAGTTATTAT
193 ACAAACAAATCCACATCAAAACAAGCATGCATCCCAAAGTTTCTTGACCAAAAAACAGTTATCAT
353142 GC
258 GC
* * * *
353144 TCTAACACGTGTTCATATCTAGTCAGTCGTTTGATTACTAGAACAC--GGTCATATCTA-TCTAA
1 TCTAACACGTGTTCATATCTACTTAATCGTTTGATTACT--AACACGTGGCCATATCTACT-TAA
* * * * * * * * * *
353206 TCTATCATTAACTAACAAAGCTTAGAACTACTACCCAATAATTACTAATC-CAATTCTTCAATCA
63 ACCATCAATAACTAACAAAGCTCAAAACTACTATCCAAAAACTACTAA-CACATTTCTCCAATCA
353270 AT
127 AT
353272 TGTAGGCATC
Statistics
Matches: 307, Mismatches: 71, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
258 3 0.01
259 289 0.94
260 12 0.04
261 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (259 bp):
TCTAACACGTGTTCATATCTACTTAATCGTTTGATTACTAACACGTGGCCATATCTACTTAAACC
ATCAATAACTAACAAAGCTCAAAACTACTATCCAAAAACTACTAACACATTTCTCCAATCAATCA
ACTACCAGCAAACTAAGAACATTTTATCTAACCGAAGCATATCACAAAGAACAAAATAAGAAACA
AACAAATCCACATCAAAACAAGCATGCATCCCAAAGTTTCTTGACCAAAAAACAGTTATCATGC
Found at i:353926 original size:36 final size:36
Alignment explanation
Indices: 353877--353962 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
353867 AAAATGTGTT
* *
353877 CATATCTACTTAATCGTTTGATTAATAACACGTTGC
1 CATATCTACTTAATCATTTGATTAATAACACGTGGC
* * *
353913 CGTATCTACTTAATCATTTGATTACTAACACGTGGT
1 CATATCTACTTAATCATTTGATTAATAACACGTGGC
353949 CAT-TCTACTTAATC
1 CATATCTACTTAATC
353963 CATCAAACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 11 0.25
36 33 0.75
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (36 bp):
CATATCTACTTAATCATTTGATTAATAACACGTGGC
Found at i:354224 original size:36 final size:36
Alignment explanation
Indices: 354169--354255 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
354159 TAAAATGTGT
354169 TCATATCTACTTAATCGTTTGATTAATAACACGTGG
1 TCATATCTACTTAATCGTTTGATTAATAACACGTGG
* * * *
354205 TCGTATCAACTTAATCGTTTGATTACTAACACTTGG
1 TCATATCTACTTAATCGTTTGATTAATAACACGTGG
354241 TCAT-TCTACTTAATC
1 TCATATCTACTTAATC
354256 CATCAATAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
35 10 0.22
36 35 0.78
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (36 bp):
TCATATCTACTTAATCGTTTGATTAATAACACGTGG
Found at i:354244 original size:293 final size:293
Alignment explanation
Indices: 353645--354494 Score: 1251
Period size: 294 Copynumber: 2.9 Consensus size: 293
353635 TATTTGACAC
* * * * * *
353645 AACATGTGATCATTCTACTTAATCCATCAATAACTAACAAAGCTCACAGCTACTATCCAATTACT
1 AACACGTGGTCATTCTACTTAATCCATCAATAACTAACAAAGCTCATAACTACTATCCAATAATT
* * *
353710 ACTAACATGTTTCTCCAAGCAA-TCA-GTTGTTGGTAAACTAAAAATATTTCATCTGAC-TGATG
66 ACTAACATGTTTCTCCAAGCAATTGACG--GTTGGCAAACTAAAAACATTT-ATCTGACTTG-TG
* ** * * * *
353772 CATGTTGGAAAGAAAAAAATGAGAAAGAAACACAAGAACACCAAAACTAGTATGCATCCCTAACT
127 CATGTAGGAAAGAACCAAATGAGAAAGAAACATATGCACATCAAAACTAGTATGCATCCCTAACT
*
353837 TTTAGGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAA
192 TTCAGGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAA
* *
353902 TAACACGTTGCCGTATCTACTTAATCATTTGATTACT
257 TAACACGTGGCCGTATCAACTTAATCATTTGATTACT
353939 AACACGTGGTCATTCTACTTAATCCATCAA-ACACTAACAAAGCTCATAACTACTATCCAATAAT
1 AACACGTGGTCATTCTACTTAATCCATCAATA-ACTAACAAAGCTCATAACTACTATCCAATAAT
* *
354003 TACTAACATGCTTCTCCAAGCAATTGACGGTTGGCAAACTAAGAACATTCTATCTGACTTGTGCA
65 TACTAACATGTTTCTCCAAGCAATTGACGGTTGGCAAACTAAAAACATT-TATCTGACTTGTGCA
354068 TGTAGGAAAGAACCAAATGAGAAAGAAACATATGCACATCAAAAC-AGTATGCATCCCTAACTTT
129 TGTAGGAAAGAACCAAATGAGAAAGAAACATATGCACATCAAAACTAGTATGCATCCCTAACTTT
*
354132 CCGGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAATA
194 CAGGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAATA
* *
354197 ACACGTGGTCGTATCAACTTAATCGTTTGATTACT
259 ACACGTGGCCGTATCAACTTAATCATTTGATTACT
* *
354232 AACACTTGGTCATTCTACTTAATCCATCAATAACTAACAAAGCTCATAATTACTATCCAATAATT
1 AACACGTGGTCATTCTACTTAATCCATCAATAACTAACAAAGCTCATAACTACTATCCAATAA-T
* * ** *
354297 TACTAACATGTTTCTCCAAGCCATTGACTGTTGGCAAACTATTAACATTTTATCTGACTTATGCA
65 TACTAACATGTTTCTCCAAGCAATTGACGGTTGGCAAACTAAAAACA-TTTATCTGACTTGTGCA
* *
354362 TGTAGGAAAGAACCAAATGAGAAAGAAACGTATGCACATCAAAACTAGTATGGATCCCTAACTTT
129 TGTAGGAAAGAACCAAATGAGAAAGAAACATATGCACATCAAAACTAGTATGCATCCCTAACTTT
* * * * *
354427 CTGGATAGGTGAACAGTCATTATGCTCTAAAACGTGTTCATATCTACTTAATCGTTTGATTACTA
194 CAGGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAATA
354492 ACA
259 ACA
354495 AAGCTCATAA
Statistics
Matches: 508, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
293 173 0.34
294 246 0.48
295 88 0.17
296 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (293 bp):
AACACGTGGTCATTCTACTTAATCCATCAATAACTAACAAAGCTCATAACTACTATCCAATAATT
ACTAACATGTTTCTCCAAGCAATTGACGGTTGGCAAACTAAAAACATTTATCTGACTTGTGCATG
TAGGAAAGAACCAAATGAGAAAGAAACATATGCACATCAAAACTAGTATGCATCCCTAACTTTCA
GGATTGGTAAACAGTCATTATGCTCTAAAATGTGTTCATATCTACTTAATCGTTTGATTAATAAC
ACGTGGCCGTATCAACTTAATCATTTGATTACT
Found at i:355719 original size:42 final size:42
Alignment explanation
Indices: 355650--356184 Score: 481
Period size: 42 Copynumber: 12.7 Consensus size: 42
355640 ACGGTGTAGA
* ** * * *
355650 CGAAACACCAGAACCGTCAATGACTTTCTTGTCTGAAGTAAC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
** *
355692 CGAAACACCAGAACTGTTGATGGCTTTCTTCTTCTCCGAAGGAAC
1 CGAAACACCAGAACCATTGATGAC--T-TTCTTCTCCGAAGGAAC
* **
355737 CGAAACGCCAGAACTGTTGATGACTTTCTTCTCCGAAGGAAC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
** *
355779 CGAACCACTAGTAGAACCAATGATGACTTTCTTCTCCGAAGGAAC
1 CGAA--AC-ACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* * *
355824 CGAACCGCCAGAACC-TTCGATGATTTTCTTCTCCGAAGGAAC
1 CGAAACACCAGAACCATT-GATGACTTTCTTCTCCGAAGGAAC
* * * *
355866 CGAAACCCCCGAACCAATGATGACTTTTTTCTCCGAAGGAAC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
**
355908 CGAAACACCAGAACCAACGATGACTTTCTTCTCCGAAGGAAC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* * ** * * *
355950 CGAAGCACCAGCACCAAAGATGAATTTCTTTTCCGAAGGAAT
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
**
355992 CGAAACACCAGAACTGTTGATGACTTTCTTCTCC------AC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* ** * * *
356028 AGAAACACCAGAACCAAAGATGAATTTCTTCTCCGGAGGAGC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* * ** *
356070 AGAAATACCAGAACTGTTGATGACTTTCTTCTCCGAAGGGAC
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* * * * *
356112 TGAAACACCAGAACCAATAATGACTTTCTTCTCAGAAGGAAG
1 CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
* * * *
356154 AGAAACACCAGAACCGTGGATGACCTTCTTC
1 CGAAACACCAGAACCATTGATGACTTTCTTC
356185 ATCGAAGTTA
Statistics
Matches: 402, Mismatches: 77, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
36 29 0.07
41 1 0.00
42 296 0.74
43 3 0.01
44 3 0.01
45 70 0.17
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
CGAAACACCAGAACCATTGATGACTTTCTTCTCCGAAGGAAC
Found at i:355920 original size:84 final size:85
Alignment explanation
Indices: 355650--356184 Score: 538
Period size: 84 Copynumber: 6.4 Consensus size: 85
355640 ACGGTGTAGA
* * * * ***
355650 CGAAACACCAGAACC-GTCAATGACTTTCTTGTCTGAAGTAACCGAAACACCAGAACTGTTGATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
*
355714 GCTTTCTTCTTCTCCGAAGGAAC
66 AC--T-TTCTTCTCCGAAGGAAC
* * **
355737 CGAAACGCCAGAA-CTGTTGATGACTTTCTTCTCCGAAGGAACCGAACCACTAGTAGAACCAATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAA--AC-ACCAGAACCAATG
355801 ATGACTTTCTTCTCCGAAGGAAC
63 ATGACTTTCTTCTCCGAAGGAAC
* * * * *
355824 CGAACCGCCAGAACCT-TCGATGATTTTCTTCTCCGAAGGAACCGAAACCCCCGAACCAATGATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
*
355888 ACTTTTTTCTCCGAAGGAAC
66 ACTTTCTTCTCCGAAGGAAC
** * * *
355908 CGAAACACCAGAACC-AACGATGACTTTCTTCTCCGAAGGAACCGAAGCACCAGCACCAAAGATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
* * *
355972 AATTTCTTTTCCGAAGGAAT
66 ACTTTCTTCTCCGAAGGAAC
* * *
355992 CGAAACACCAGAA-CTGTTGATGACTTTCTTCTCC------ACAGAAACACCAGAACCAAAGATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
* * *
356050 AATTTCTTCTCCGGAGGAGC
66 ACTTTCTTCTCCGAAGGAAC
* * * * * *
356070 AGAAATACCAGAA-CTGTTGATGACTTTCTTCTCCGAAGGGACTGAAACACCAGAACCAATAATG
1 CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
* *
356134 ACTTTCTTCTCAGAAGGAAG
66 ACTTTCTTCTCCGAAGGAAC
* * *
356154 AGAAACACCAGAACC-GTGGATGACCTTCTTC
1 CGAAACACCAGAACCTGTCGATGACTTTCTTC
356185 ATCGAAGTTA
Statistics
Matches: 378, Mismatches: 56, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
78 69 0.18
83 1 0.00
84 192 0.51
85 3 0.01
86 1 0.00
87 95 0.25
88 3 0.01
89 2 0.01
90 12 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (85 bp):
CGAAACACCAGAACCTGTCGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACCAATGATG
ACTTTCTTCTCCGAAGGAAC
Found at i:356094 original size:162 final size:163
Alignment explanation
Indices: 355720--356184 Score: 504
Period size: 162 Copynumber: 2.8 Consensus size: 163
355710 GATGGCTTTC
*
355720 TTCTTCTCCGAAGGAACCGAAACGCCAGAACTGTTGATGACTTTCTTCTCCGAAGGAACCGAACC
1 TTCTTCTCCGAAGGAACCGAAACACCAGAACTGTTGATGACTTTCTTCTCCGAAGGAACCGAA--
** * * * *
355785 ACTAGTAGAACCAATGATGACTTTCTTCTCCGAAGGAACCGAACCGCCAGAACCT-TCGATGATT
64 AC-ACCAGAACCAAAGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAA-CTGTCGATGACT
* * * * *
355849 TTCTTCTCCGAAGGAACCGAAACCCCCGAACCAATGATGACT
127 TTCTTCTCC-----AACAGAAACACCAGAACCAAAGATGAAT
* **** *
355891 TTTTTCTCCGAAGGAACCGAAACACCAGAACCAACGATGACTTTCTTCTCCGAAGGAACCGAAGC
1 TTCTTCTCCGAAGGAACCGAAACACCAGAACTGTTGATGACTTTCTTCTCCGAAGGAACCGAAAC
* * * * *
355956 ACCAGCACCAAAGATGAATTTCTTTTCCGAAGGAATCGAAACACCAGAACTGTTGATGACTTTCT
66 ACCAGAACCAAAGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACTGTCGATGACTTTCT
356021 TCTCC-ACAGAAACACCAGAACCAAAGATGAAT
131 TCTCCAACAGAAACACCAGAACCAAAGATGAAT
* * * * * *
356053 TTCTTCTCCGGAGGAGCAGAAATACCAGAACTGTTGATGACTTTCTTCTCCGAAGGGACTGAAAC
1 TTCTTCTCCGAAGGAACCGAAACACCAGAACTGTTGATGACTTTCTTCTCCGAAGGAACCGAAAC
* ** * * *
356118 ACCAGAACCAATA-ATGACTTTCTTCTCAGAAGGAAGAGAAACACCAGAACCGTGGATGACCTTC
66 ACCAGAACCAA-AGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACTGTCGATGACTTTC
356182 TTC
130 TTC
356185 ATCGAAGTTA
Statistics
Matches: 248, Mismatches: 44, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
162 131 0.53
163 1 0.00
167 2 0.01
168 56 0.23
169 1 0.00
171 57 0.23
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (163 bp):
TTCTTCTCCGAAGGAACCGAAACACCAGAACTGTTGATGACTTTCTTCTCCGAAGGAACCGAAAC
ACCAGAACCAAAGATGACTTTCTTCTCCGAAGGAACCGAAACACCAGAACTGTCGATGACTTTCT
TCTCCAACAGAAACACCAGAACCAAAGATGAAT
Found at i:356098 original size:120 final size:120
Alignment explanation
Indices: 355791--356144 Score: 332
Period size: 120 Copynumber: 2.9 Consensus size: 120
355781 AACCACTAGT
* * * * * *** *
355791 AGAACCAATGATGACTTTCTTCTCCGAAGGAACCGAACCGCCAGAACCTTCGATGATTTTCTTCT
1 AGAACCAAAGATGAATTTCTTCTCCGAAGGAACAGAAACACCAGAACCAAAGATGAATTTCTTCT
* * * * * *
355856 CCGAAGGAACCGAAACCCCCGAACCAATGATGACTTTTTTCTCCGAAGGAACCGAAACACC
66 CCGAAGGAACTGAAACACCAGAACCAATAATGACTTTCTTCTCC------ACAGAAACACC
* * * * * *
355917 AGAACCAACGATGACTTTCTTCTCCGAAGGAACCGAAGCACCAGCACCAAAGATGAATTTCTTTT
1 AGAACCAAAGATGAATTTCTTCTCCGAAGGAACAGAAACACCAGAACCAAAGATGAATTTCTTCT
*** *
355982 CCGAAGGAA-TCGAAACACCAGAACTGTTGATGACTTTCTTCTCCACAGAAACACC
66 CCGAAGGAACT-GAAACACCAGAACCAATAATGACTTTCTTCTCCACAGAAACACC
* * * **** *
356037 AGAACCAAAGATGAATTTCTTCTCCGGAGGAGCAGAAATACCAGAACTGTTGATGACTTTCTTCT
1 AGAACCAAAGATGAATTTCTTCTCCGAAGGAACAGAAACACCAGAACCAAAGATGAATTTCTTCT
*
356102 CCGAAGGGACTGAAACACCAGAACCAATAATGACTTTCTTCTC
66 CCGAAGGAACTGAAACACCAGAACCAATAATGACTTTCTTCTC
356145 AGAAGGAAGA
Statistics
Matches: 190, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
120 97 0.51
121 1 0.01
126 92 0.48
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (120 bp):
AGAACCAAAGATGAATTTCTTCTCCGAAGGAACAGAAACACCAGAACCAAAGATGAATTTCTTCT
CCGAAGGAACTGAAACACCAGAACCAATAATGACTTTCTTCTCCACAGAAACACC
Found at i:356298 original size:42 final size:42
Alignment explanation
Indices: 356230--356465 Score: 213
Period size: 42 Copynumber: 5.6 Consensus size: 42
356220 ACCAGAAGGT
* * * * * *
356230 CCAGAACTGTTGGTGAATTTCCTCTCCGGAGTGACCGAAACG
1 CCAGAACCGTTGATGACTTTCTTCTCCGAAGTGACCGAAACA
* * ** *
356272 CCAGAACCGCTGATGACTTTATTCTCCGAAGAAACCCAAACA
1 CCAGAACCGTTGATGACTTTCTTCTCCGAAGTGACCGAAACA
* * *
356314 CCAGAACTGTTGATGGCTTTC-TCTCCCGAAGTGACCGAAGCA
1 CCAGAACCGTTGATGACTTTCTTCT-CCGAAGTGACCGAAACA
* * * * * *
356356 CCAGGACCGTTGATGAATTTCTTCTCCGGATTAATCGAAACA
1 CCAGAACCGTTGATGACTTTCTTCTCCGAAGTGACCGAAACA
* * * *
356398 CCAGAACCGGTGGTGACTTTCTTCTCCGAAGAGATCGAAACA
1 CCAGAACCGTTGATGACTTTCTTCTCCGAAGTGACCGAAACA
** *
356440 CCAGAATTGTTGATGACTCTCTTCTC
1 CCAGAACCGTTGATGACTTTCTTCTC
356466 AGGAGTAACC
Statistics
Matches: 151, Mismatches: 41, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
41 3 0.02
42 145 0.96
43 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (42 bp):
CCAGAACCGTTGATGACTTTCTTCTCCGAAGTGACCGAAACA
Found at i:356483 original size:126 final size:126
Alignment explanation
Indices: 356230--356490 Score: 310
Period size: 126 Copynumber: 2.1 Consensus size: 126
356220 ACCAGAAGGT
* * * *
356230 CCAGAACTGTTGGTGAATTTCCTCTCCGGAGTGACCGAAACGCCAGAACCGCTGATGACTTTATT
1 CCAGAACCGTTGATGAATTTCCTCTCCGGAGTAACCGAAACACCAGAACCGCTGATGACTTTATT
* * * *
356295 CTCCGAAGAAACCCAAACACCAGAACTGTTGATGGCTTTCTCTCCCGAAGTGACCGAAGCA
66 CTCCGAAGAAACCCAAACACCAGAACTGTTGATGACTCTCTCTCCAGAAGTAACCGAAGCA
* * * * * * *
356356 CCAGGACCGTTGATGAATTTCTTCTCCGGATTAATCGAAACACCAGAACCGGTGGTGACTTTCTT
1 CCAGAACCGTTGATGAATTTCCTCTCCGGAGTAACCGAAACACCAGAACCGCTGATGACTTTATT
* * * * *
356421 CTCCGAAGAGATCGAAACACCAGAATTGTTGATGACTCTCT-TCTCAGGAGTAACC-AATGCA
66 CTCCGAAGAAACCCAAACACCAGAACTGTTGATGACTCTCTCTC-CAGAAGTAACCGAA-GCA
356482 CCAGAACCG
1 CCAGAACCG
356491 ACCAAGACTC
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
125 4 0.04
126 108 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (126 bp):
CCAGAACCGTTGATGAATTTCCTCTCCGGAGTAACCGAAACACCAGAACCGCTGATGACTTTATT
CTCCGAAGAAACCCAAACACCAGAACTGTTGATGACTCTCTCTCCAGAAGTAACCGAAGCA
Found at i:356756 original size:3 final size:3
Alignment explanation
Indices: 356748--356781 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
356738 TCACAGCAGG
*
356748 AGA AGA AGA AGA AGA AGA AGA CGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
356782 ACCATCCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:362281 original size:12 final size:13
Alignment explanation
Indices: 362261--362292 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
362251 AATTATGTAT
362261 ATAAAAAAAAGAA
1 ATAAAAAAAAGAA
362274 ATAAAAAAAAGAA
1 ATAAAAAAAAGAA
362287 ATAAAA
1 ATAAAA
362293 TTGTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (13 bp):
ATAAAAAAAAGAA
Found at i:364153 original size:15 final size:15
Alignment explanation
Indices: 364133--364184 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
364123 TTAGCTGGGC
*
364133 GGGCGGATGTGGGGT
1 GGGCGGATGCGGGGT
364148 GGGCGGATGCGGGG-
1 GGGCGGATGCGGGGT
364162 GGG-GG--G-GGGG-
1 GGGCGGATGCGGGGT
364172 GGGCGGATGCGGG
1 GGGCGGATGCGGG
364185 CCGGTAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
13 3 0.09
14 6 0.19
15 13 0.41
ACGTcount: A:0.06, C:0.10, G:0.75, T:0.10
Consensus pattern (15 bp):
GGGCGGATGCGGGGT
Found at i:365498 original size:15 final size:15
Alignment explanation
Indices: 365464--365507 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
365454 ATAATAACAT
*
365464 TTATTTAATATTAT-
1 TTATTTATTATTATA
*
365478 TT-TTTATTTTTATA
1 TTATTTATTATTATA
365492 TTATTTATTATTATA
1 TTATTTATTATTATA
365507 T
1 T
365508 ATGATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTATTATTATA
Found at i:366654 original size:23 final size:23
Alignment explanation
Indices: 366618--366663 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
366608 GAATCTGAAC
* *
366618 TTTTAGGTTGGAAA-CATTATTTT
1 TTTTAAGTTAGAAACCA-TATTTT
366641 TTTTAAGTTAGAAACCATATTTT
1 TTTTAAGTTAGAAACCATATTTT
366664 AGGTTGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (23 bp):
TTTTAAGTTAGAAACCATATTTT
Found at i:366689 original size:20 final size:19
Alignment explanation
Indices: 366659--366766 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 19
366649 TAGAAACCAT
*
366659 ATTTTAGGTTGCAACTCAG
1 ATTTTAGGTTGCAAATCAG
*
366678 ATTTTAAGGTTG-AAATCCAT
1 ATTTT-AGGTTGCAAAT-CAG
*
366698 ATTTTAGGTTGC-AACCTAG
1 ATTTTAGGTTGCAAATC-AG
* * *
366717 ATTTTCATGTTG-GAATCCAA
1 ATTTT-AGGTTGCAAAT-CAG
366737 ATTTTAGGTTGCAAATCAG
1 ATTTTAGGTTGCAAATCAG
366756 ATTTTTAGGTT
1 A-TTTTAGGTT
366767 ATAAGCAAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.01
19 30 0.43
20 38 0.54
21 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (19 bp):
ATTTTAGGTTGCAAATCAG
Found at i:366708 original size:39 final size:39
Alignment explanation
Indices: 366641--366766 Score: 159
Period size: 39 Copynumber: 3.3 Consensus size: 39
366631 ACATTATTTT
366641 TTTTAA-GTTAGAAA-CCATATTTTAGGTTGCAACTCAGA
1 TTTTAAGGTT-GAAATCCATATTTTAGGTTGCAACTCAGA
366679 TTTTAAGGTTGAAATCCATATTTTAGGTTGCAAC-CTAGA
1 TTTTAAGGTTGAAATCCATATTTTAGGTTGCAACTC-AGA
* * * * *
366718 TTTTCATGTTGGAATCCAAATTTTAGGTTGCAAATCAGA
1 TTTTAAGGTTGAAATCCATATTTTAGGTTGCAACTCAGA
*
366757 TTTTTAGGTT
1 TTTTAAGGTT
366767 ATAAGCAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
38 11 0.14
39 65 0.84
40 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (39 bp):
TTTTAAGGTTGAAATCCATATTTTAGGTTGCAACTCAGA
Found at i:366904 original size:81 final size:81
Alignment explanation
Indices: 366769--366986 Score: 292
Period size: 81 Copynumber: 2.7 Consensus size: 81
366759 TTTAGGTTAT
* * * *
366769 AAGCAAGGTGATGTATCGTACGAGGTACACACATAAATATGTAAGTGGTGATGTATTGTACGAGA
1 AAGCAAGGTGATGTATCGTACGGGGTACACACCTAAATATGAAAGTGGTGATGTATTGAACGAGA
** *
366834 TACATTCCCAGTTACA
66 TACACACCCAATTACA
* * * * * *
366850 AAGCAAAGTGATGTATTGTACGGGGTACACGCCTAAATATGAAAGTGGTAATGTATTGAATGGGA
1 AAGCAAGGTGATGTATCGTACGGGGTACACACCTAAATATGAAAGTGGTGATGTATTGAACGAGA
366915 TACACACCCAATTACA
66 TACACACCCAATTACA
* * *
366931 AAGCAAGGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGTGGTGATGTAT
1 AAGCAAGGTGATGTATCGTACGGGGTACACACCTAAATATGAAAGTGGTGATGTAT
366987 CGCACGGGGT
Statistics
Matches: 117, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (81 bp):
AAGCAAGGTGATGTATCGTACGGGGTACACACCTAAATATGAAAGTGGTGATGTATTGAACGAGA
TACACACCCAATTACA
Found at i:366982 original size:40 final size:40
Alignment explanation
Indices: 366937--367024 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
366927 TACAAAGCAA
366937 GGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGT
1 GGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGT
366977 GGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGT
1 GGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGT
367017 GGTGATGT
1 GGTGATGT
367025 TTTGTATGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (40 bp):
GGTGATGTATCGCACGGGGTACATATCTAAATATGAAAGT
Found at i:367090 original size:60 final size:60
Alignment explanation
Indices: 367003--367117 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
366993 GGGTACATAT
* * *
367003 CTAAATATGAAAGTGGTGATGTTTTGTA-TGGATACACACCCAATTACAAGCAAGGTACAC
1 CTAAATATGAAAGTGGTGATGTATTGTACGGGATACACACACAATTACAAG-AAGGTACAC
367063 CTAAATATGAAAGTGGTGATGTATTGTACGGGATACACACACAATTACAAGAAGG
1 CTAAATATGAAAGTGGTGATGTATTGTACGGGATACACACACAATTACAAGAAGG
367118 GTGATGTATC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 31 0.61
61 20 0.39
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (60 bp):
CTAAATATGAAAGTGGTGATGTATTGTACGGGATACACACACAATTACAAGAAGGTACAC
Found at i:368811 original size:16 final size:16
Alignment explanation
Indices: 368779--368828 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
368769 TCTTATATCA
* *
368779 AAATTAATAAATAATT
1 AAATTATTATATAATT
*
368795 AAATTATTATATTATT
1 AAATTATTATATAATT
* *
368811 ATATTTTTATATAATT
1 AAATTATTATATAATT
368827 AA
1 AA
368829 TTTTTTAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATTATATAATT
Found at i:368833 original size:16 final size:16
Alignment explanation
Indices: 368789--368835 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
368779 AAATTAATAA
* *
368789 ATAATTAAATTATTAT
1 ATAATTAATTTTTTAT
*
368805 ATTATT-ATATTTTTAT
1 ATAATTAAT-TTTTTAT
368821 ATAATTAATTTTTTA
1 ATAATTAATTTTTTA
368836 ACTATATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 22 0.88
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATAATTAATTTTTTAT
Found at i:378369 original size:6 final size:6
Alignment explanation
Indices: 378358--378399 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
378348 CTAAAAGCAT
378358 AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC
1 AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC AGGGAC
378400 GAAGCCAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.50, T:0.00
Consensus pattern (6 bp):
AGGGAC
Found at i:381952 original size:37 final size:37
Alignment explanation
Indices: 381893--381966 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
381883 AGTCAGAAAA
*
381893 TTCAACAAAATAACACTCTATAGTCGGGAACTATTTT
1 TTCAACAAAATAACACTCTATAGTCGGAAACTATTTT
* * *
381930 TTCAACAAAATAATATTTTATAGTCGGAAACTATTTT
1 TTCAACAAAATAACACTCTATAGTCGGAAACTATTTT
381967 ATAACTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (37 bp):
TTCAACAAAATAACACTCTATAGTCGGAAACTATTTT
Found at i:384707 original size:15 final size:15
Alignment explanation
Indices: 384689--384718 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
384679 AAAACCATGT
384689 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
384704 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
384719 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:384725 original size:15 final size:15
Alignment explanation
Indices: 384692--384726 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
384682 ACCATGTTAG
* *
384692 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
384707 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
384722 ATAAA
1 ATAAA
384727 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:384868 original size:20 final size:20
Alignment explanation
Indices: 384843--384898 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
384833 AAAATATAGA
384843 AATAAAACAAAT-AAAATAAT
1 AATAAAA-AAATAAAAATAAT
*
384863 AATAAAAAAGTAAAAATAAT
1 AATAAAAAAATAAAAATAAT
*
384883 -ATATATAAAATAAAAA
1 AATA-AAAAAATAAAAA
384899 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAAAAAAATAAAAATAAT
Found at i:384898 original size:21 final size:20
Alignment explanation
Indices: 384855--384911 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
384845 TAAAACAAAT
384855 AAAATAATAATAAAAAAGTA
1 AAAATAATAATAAAAAAGTA
*
384875 AAAATAATATATATAAAA-TA
1 AAAATAATA-ATAAAAAAGTA
384895 AAAA-AA-AA-AAAAAAGTA
1 AAAATAATAATAAAAAAGTA
384912 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 5 0.15
17 3 0.09
18 1 0.03
19 2 0.06
20 15 0.45
21 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAATAATAATAAAAAAGTA
Found at i:384901 original size:9 final size:9
Alignment explanation
Indices: 384806--384908 Score: 59
Period size: 9 Copynumber: 11.1 Consensus size: 9
384796 AATAGTAAGT
*
384806 AATATAAAA
1 AATAAAAAA
384815 AATAAAGAAA
1 AATAAA-AAA
*
384825 AAGAAGAAAA
1 AATAA-AAAA
* *
384835 AAT-ATAGA
1 AATAAAAAA
*
384843 AATAAAACA
1 AATAAAAAA
384852 AATAAAATAA
1 AATAAAA-AA
384862 TAAT-AAAAA
1 -AATAAAAAA
*
384871 AGTAAAAATA
1 AATAAAAA-A
* *
384881 ATATATATAA
1 A-ATAAAAAA
384891 AATAAAAAA
1 AATAAAAAA
384900 AA-AAAAAA
1 AATAAAAAA
384908 A
1 A
384909 GTATATATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
8 14 0.19
9 30 0.42
10 20 0.28
11 8 0.11
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.17
Consensus pattern (9 bp):
AATAAAAAA
Found at i:384905 original size:28 final size:29
Alignment explanation
Indices: 384858--384925 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
384848 AACAAATAAA
* *
384858 ATAATAATAAAAAAGTAAAAATAA-TATAT
1 ATAATAATAAAAAA-AAAAAAAAAGTATAT
384887 ATAA-AATAAAAAAAAAAAAAAAGTATAT
1 ATAATAATAAAAAAAAAAAAAAAGTATAT
384915 AT-ATATATAAA
1 ATAATA-ATAAA
384926 TTAATAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 8 0.24
28 17 0.50
29 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (29 bp):
ATAATAATAAAAAAAAAAAAAAAGTATAT
Found at i:384913 original size:26 final size:28
Alignment explanation
Indices: 384858--384925 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 28
384848 AACAAATAAA
*
384858 ATAATAATAAAAAAGTAAAAATAATATAT
1 ATAATAATAAAAAAG-AAAAATAAAATAT
384887 ATAA-AATAAAAAA-AAAAA-AAAAGTAT
1 ATAATAATAAAAAAGAAAAATAAAA-TAT
384913 ATATATATATAAA
1 ATA-ATA-ATAAA
384926 TTAATAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 3 0.09
26 11 0.32
27 1 0.03
28 10 0.29
29 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (28 bp):
ATAATAATAAAAAAGAAAAATAAAATAT
Found at i:385029 original size:23 final size:21
Alignment explanation
Indices: 384977--385035 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
384967 CTAAAAAAAT
384977 AAAAATATAC-T-AAAGTAAA
1 AAAAATATACATAAAAGTAAA
384996 AAGAAA-ATACATAAAATGTAAA
1 AA-AAATATACATAAAA-GTAAA
385018 AAAAATATTACATGAAAA
1 AAAAATA-TACAT-AAAA
385036 AAAAAGGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 6 0.18
22 8 0.24
23 5 0.15
24 4 0.12
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAATATACATAAAAGTAAA
Found at i:385404 original size:34 final size:34
Alignment explanation
Indices: 385361--385429 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
385351 GAATCCTAGC
385361 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
385395 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
385429 A
1 A
385430 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:386278 original size:105 final size:105
Alignment explanation
Indices: 385978--386743 Score: 1096
Period size: 105 Copynumber: 7.3 Consensus size: 105
385968 CATTGTTCCA
* * * * ** * * *
385978 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
386043 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
386084 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
386144 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
386184 AATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
386249 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
386289 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
386354 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
386394 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
386459 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
386499 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
386564 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
386604 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
386669 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
386710 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
386744 CGCAGATGGC
Statistics
Matches: 603, Mismatches: 46, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 80 0.13
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 404 0.67
106 81 0.13
107 4 0.01
109 21 0.03
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:387630 original size:65 final size:65
Alignment explanation
Indices: 387526--387706 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
387516 GACAAAATTT
387526 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
387591 TGTTTCAAGAGAAACTATCTAAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
387656 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
387707 CTATCTCAAG
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
65 91 0.87
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:387698 original size:102 final size:102
Alignment explanation
Indices: 387591--387946 Score: 586
Period size: 102 Copynumber: 3.5 Consensus size: 102
387581 TCAATGTTTA
* * **
387591 TGTTTCAAGAGAAACTATCTAAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
387656 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
387693 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
387758 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
387795 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
387860 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * **
387897 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
387947 CTGTCTCAAG
Statistics
Matches: 236, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 236 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:387707 original size:37 final size:37
Alignment explanation
Indices: 387656--387964 Score: 216
Period size: 37 Copynumber: 8.9 Consensus size: 37
387646 TCAATGTTTA
* *
387656 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
387693 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
387729 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* **
387757 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
387795 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
387831 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
387859 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
387897 TGTTTCAAGGGAAACTGTCTCAACAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
387933 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
387965 TGGTGAGCAC
Statistics
Matches: 207, Mismatches: 36, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
28 3 0.01
29 28 0.14
30 6 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 68 0.33
37 86 0.42
38 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:387766 original size:50 final size:50
Alignment explanation
Indices: 387712--387871 Score: 126
Period size: 50 Copynumber: 3.2 Consensus size: 50
387702 GGAAACTATC
387712 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
*** * ** * * * * *** * *
387762 TCAAGAGA-A-ACTGTCTCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAAT-TCATTTCA-AGGGAAATGT-TTTCAATGTTTA-TGTT
*
387814 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
387864 TCAAGAGA
1 TCAAGAGA
387872 AACTGTCTCA
Statistics
Matches: 73, Mismatches: 31, Indels: 12
0.63 0.27 0.10
Matches are distributed among these distances:
48 2 0.03
49 6 0.08
50 25 0.34
51 16 0.22
52 17 0.23
53 6 0.08
54 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (50 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:387789 original size:167 final size:169
Alignment explanation
Indices: 387491--387808 Score: 543
Period size: 167 Copynumber: 1.9 Consensus size: 169
387481 AAGATGATGC
*
387491 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
387556 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTAAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTAAAGAGAGAC
387621 GGAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
387659 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
387723 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATG-GAGA
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCT-AAAGAGAGA
**
387787 CGGAATTTTGTTTCAAGGGAAA
130 CGGAATTTCATTTCAAGGGAAA
387809 CTATCTCAAG
Statistics
Matches: 141, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
167 116 0.82
168 25 0.18
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTAAAGAGAGAC
GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:387942 original size:36 final size:36
Alignment explanation
Indices: 387860--387964 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
387850 TCAATGTTTA
* * * *
387860 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
*
387897 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
387933 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
387965 TGGTGAGCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 37 0.60
37 25 0.40
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:388851 original size:22 final size:22
Alignment explanation
Indices: 388826--388876 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
388816 TTGTGTTTGG
388826 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
388848 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
388870 TCAAAGG
1 TCAAAGG
388877 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:389601 original size:16 final size:16
Alignment explanation
Indices: 389559--389610 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
389549 TTCTTGTTTC
*
389559 TCTTTTTCTTTGTTT-T
1 TCTTTTGCTTT-TTTGT
*
389575 TTTTTTGCTTTTTTGCT
1 TCTTTTGCTTTTTTG-T
389592 TCTTTT-CTTTTTTGT
1 TCTTTTGCTTTTTTGT
389607 TCTT
1 TCTT
389611 GATTGGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.26
16 17 0.55
17 6 0.19
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TCTTTTGCTTTTTTGT
Found at i:390781 original size:8 final size:8
Alignment explanation
Indices: 390765--390803 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
390755 AATGTAGATG
390765 AAAATGCA
1 AAAATGCA
*
390773 AAAAGGCA
1 AAAATGCA
390781 AAAATGC-
1 AAAATGCA
390788 AAAATGCA
1 AAAATGCA
*
390796 AGAATGCA
1 AAAATGCA
390804 CGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:390791 original size:15 final size:15
Alignment explanation
Indices: 390765--390803 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
390755 AATGTAGATG
390765 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
390781 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
390796 AGAATGCA
1 AAAATGCA
390804 CGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:391347 original size:18 final size:18
Alignment explanation
Indices: 391324--391363 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
391314 ATTAGTCTTT
391324 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
391342 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
391360 CAGA
1 CAGA
391364 CTTGAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (18 bp):
CAGAAGTGGATGTGAATC
Found at i:393309 original size:15 final size:15
Alignment explanation
Indices: 393291--393320 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
393281 AAAACCATGT
393291 TAGATAAAAAAGTAA
1 TAGATAAAAAAGTAA
*
393306 TAGATAAAAAGGTAA
1 TAGATAAAAAAGTAA
393321 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAAGTAA
Found at i:393445 original size:8 final size:9
Alignment explanation
Indices: 393421--393446 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
393411 ATAAAAAATA
393421 AAGAAAAAG
1 AAGAAAAAG
393430 AAGAAAAAG
1 AAGAAAAAG
393439 AAGAAAAA
1 AAGAAAAA
393447 AATATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:393482 original size:20 final size:20
Alignment explanation
Indices: 393442--393499 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
393432 GAAAAAGAAG
393442 AAAAAAATATAGAAAT-A-AAT
1 AAAAAAATA-A-AAATAATAAT
393462 AAAATAAAT-AAAATAATAAT
1 AAAA-AAATAAAAATAATAAT
*
393482 AAAAAAGTAAAAATAATA
1 AAAAAAATAAAAATAATA
393500 TATATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 20 0.61
21 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAAAATAATAAT
Found at i:393508 original size:28 final size:26
Alignment explanation
Indices: 393455--393537 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
393445 AAAATATAGA
*
393455 AATAAATAAAATAAATAA-A-ATA-AT
1 AATAAA-AAAAAAAATAATATATATAT
393479 AATAAAAAAGTAAAAATAATATATATAT
1 AATAAAAAA--AAAAATAATATATATAT
* *
393507 AA-AATTAAAAAAAATTATATATATAT
1 AATAA-AAAAAAAAATAATATATATAT
393533 -ATAAA
1 AATAAA
393538 TTAATAAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
23 3 0.06
24 6 0.12
25 8 0.17
26 19 0.40
27 5 0.10
28 7 0.15
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (26 bp):
AATAAAAAAAAAAATAATATATATAT
Found at i:393525 original size:22 final size:21
Alignment explanation
Indices: 393460--393529 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
393450 ATAGAAATAA
* *
393460 ATAAAATAAATAAAATAATAAT
1 ATAAAATAAAAAAAATTAT-AT
* *
393482 AAAAAAGTAAAAATAATATATAT
1 ATAAAA-TAAAAAAAAT-TATAT
393505 ATAAAATTAAAAAAAATTATAT
1 ATAAAA-TAAAAAAAATTATAT
393527 ATA
1 ATA
393530 TATATAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 13 0.33
23 24 0.62
24 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (21 bp):
ATAAAATAAAAAAAATTATAT
Found at i:393526 original size:26 final size:27
Alignment explanation
Indices: 393490--393546 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
393480 ATAAAAAAGT
393490 AAAAATAATATATATATA-AAATTAAA
1 AAAAATAATATATATATATAAATTAAA
* *
393516 AAAAATTATATATATATATAAATTAAT
1 AAAAATAATATATATATATAAATTAAA
393543 AAAA
1 AAAA
393547 CTGATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATAATATATATATATAAATTAAA
Found at i:393606 original size:26 final size:26
Alignment explanation
Indices: 393555--393609 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
393545 AACTGATAAT
* *
393555 AAAAATAATATATATATATATCTAAA
1 AAAAATAAAATATATATATAACTAAA
*
393581 AAAAATAAAATATATACTA-AAGTAAA
1 AAAAATAAAATATATA-TATAACTAAA
393607 AAA
1 AAA
393610 GAAAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAAATAAAATATATATATAACTAAA
Found at i:393622 original size:65 final size:65
Alignment explanation
Indices: 393460--393623 Score: 160
Period size: 65 Copynumber: 2.6 Consensus size: 65
393450 ATAGAAATAA
* * * *
393460 ATAAA-ATAAATAAAATAATAATAAAAA-AGTAAAAATAATATATATATAAAATTAAAAAAAATT
1 ATAAATATATATAAAGTAATAAAAAAAATAATAAAAATAATATATATATAAAATTAAAAAAAATT
* * *** *
393523 ATATATATATATAAATTAATAAAACTGATAATAAAAATAATATATATAT-ATATCTAAAAAAAA-
1 ATAAATATATATAAAGTAATAAAAAAAATAATAAAAATAATATATATATAAAAT-TAAAAAAAAT
393586 T
65 T
393587 A-AAATATATACTAAAGTAA-AAAAGAAAATACATAAAA
1 ATAAATATATA-TAAAGTAATAAAA-AAAATA-ATAAAA
393624 TGTAAAAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
63 16 0.20
64 31 0.38
65 34 0.42
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (65 bp):
ATAAATATATATAAAGTAATAAAAAAAATAATAAAAATAATATATATATAAAATTAAAAAAAATT
Found at i:393628 original size:23 final size:23
Alignment explanation
Indices: 393580--393632 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
393570 ATATATCTAA
* *
393580 AAAAAATAAAATATATACTAAAGT
1 AAAAAAGAAAATACATAC-AAAGT
393604 AAAAAAGAAAATACATA-AAATGT
1 AAAAAAGAAAATACATACAAA-GT
393627 AAAAAA
1 AAAAAA
393633 ATATTACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.12
23 8 0.31
24 15 0.58
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAAAGAAAATACATACAAAGT
Found at i:394011 original size:34 final size:34
Alignment explanation
Indices: 393968--394036 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
393958 GAATCCTAGC
393968 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
394002 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
394036 A
1 A
394037 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:406585 original size:21 final size:21
Alignment explanation
Indices: 406561--406618 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
406551 GCGATTTTGT
406561 ACTATCGCAACGAATTTGGAG
1 ACTATCGCAACGAATTTGGAG
*
406582 ACTATCGCAACGAACTTGGAG
1 ACTATCGCAACGAATTTGGAG
*
406603 ACTATTGCAACGAATT
1 ACTATCGCAACGAATT
406619 ATGTAAATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (21 bp):
ACTATCGCAACGAATTTGGAG
Found at i:407616 original size:14 final size:15
Alignment explanation
Indices: 407597--407629 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
407587 CGAATGAATC
407597 ATTTAA-AAAATATT
1 ATTTAATAAAATATT
407611 ATTTAATTAAAATATT
1 ATTTAA-TAAAATATT
407627 ATT
1 ATT
407630 ATATTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAATAAAATATT
Found at i:419159 original size:41 final size:41
Alignment explanation
Indices: 419114--419197 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
419104 TTCAAATAGT
* *
419114 TCAGTTAAACATCATTATCAACTATGGGTATCTTTTGTCAG
1 TCAGTCAAACATCATTATCAACTATGGGCATCTTTTGTCAG
* *
419155 TCAGTCATACATCATTATCAACTATGGGCATCTTTTGTTAG
1 TCAGTCAAACATCATTATCAACTATGGGCATCTTTTGTCAG
419196 TC
1 TC
419198 TAAACAACGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (41 bp):
TCAGTCAAACATCATTATCAACTATGGGCATCTTTTGTCAG
Found at i:419215 original size:41 final size:41
Alignment explanation
Indices: 419129--419215 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
419119 TAAACATCAT
* ** * *
419129 TATCAACTATGGGTATCTTTTGTCAGTCAGTCATACATCAT
1 TATCAACTATGGGCATCTTTTGTCAGTCAAACATACATAAA
* *
419170 TATCAACTATGGGCATCTTTTGTTAGTCTAAACA-ACGTAAA
1 TATCAACTATGGGCATCTTTTGTCAGTC-AAACATACATAAA
419211 TATCA
1 TATCA
419216 TATTGGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 35 0.92
42 3 0.08
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (41 bp):
TATCAACTATGGGCATCTTTTGTCAGTCAAACATACATAAA
Found at i:428105 original size:228 final size:227
Alignment explanation
Indices: 427702--428156 Score: 853
Period size: 228 Copynumber: 2.0 Consensus size: 227
427692 AATTTGATCG
427702 TAAACTTTAAATAGTATATTATTTGACCATAAACTTAGCTAAAATATCAATTTAACTCTTAAATT
1 TAAACTTTAAATAGTATATTATTTGACCATAAACTTAGCTAAAATATCAATTTAACTCTTAAATT
427767 GATCAAAGTCTCTTGTTGTCGCCATCACTCACCACTGTTACTATTGGTCACCTTTATTTGACATA
66 GATCAAAGTCTCTTGTTGTCGCCATCACTCACCACTGTTACTATTGGTCACCTTTATTTGACATA
427832 GATCGTCGATTGTTAGACCCCAAATTTACATTTCACTCTTTTTGACGTTCTAGATATGAATTTAG
131 GATCGTCGATTGTTAGACCCCAAATTTACATTTCACTCTTTTTGACGTTCTAGATATGAATTTAG
427897 TA-TCATTTCATTGGAAAATA-CTAAAACTCAA
196 TATTCA-TTCATTGGAAAATATCTAAAACTCAA
427928 TAAACTTTAAATAGTATATTATTTGACCATAAACTTTAGCTAAAATATCAATTTAACTCTTAAAT
1 TAAACTTTAAATAGTATATTATTTGACCATAAAC-TTAGCTAAAATATCAATTTAACTCTTAAA-
427993 TTGATCAAAGTCTCTTGTTGTCGCCATCACTCACCACTGTTACTATTGGTCACCTTTATTTGACA
64 TTGATCAAAGTCTCTTGTTGTCGCCATCACTCACCACTGTTACTATTGGTCACCTTTATTTGACA
428058 TAGATCGTCGATTGTTAGACCCCAAAATTTACATTTCACTC-TTTTGACGTTCTAGATATGAATT
129 TAGATCGTCGATTGTTAGACCCC-AAATTTACATTTCACTCTTTTTGACGTTCTAGATATGAATT
428122 TAGTATTCATTCATTGGAAAATATCTAAAACTCAA
193 TAGTATTCATTCATTGGAAAATATCTAAAACTCAA
428157 CAAATCTAGC
Statistics
Matches: 224, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
226 34 0.15
227 29 0.13
228 130 0.58
229 31 0.14
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (227 bp):
TAAACTTTAAATAGTATATTATTTGACCATAAACTTAGCTAAAATATCAATTTAACTCTTAAATT
GATCAAAGTCTCTTGTTGTCGCCATCACTCACCACTGTTACTATTGGTCACCTTTATTTGACATA
GATCGTCGATTGTTAGACCCCAAATTTACATTTCACTCTTTTTGACGTTCTAGATATGAATTTAG
TATTCATTCATTGGAAAATATCTAAAACTCAA
Found at i:428288 original size:16 final size:17
Alignment explanation
Indices: 428269--428306 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
428259 ATAATAAAAA
428269 TATATAATTTTT-TGTT
1 TATATAATTTTTATGTT
428285 TATAATAATTTTTATGTT
1 TAT-ATAATTTTTATGTT
428303 TATA
1 TATA
428307 ATATTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 10 0.50
18 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TATATAATTTTTATGTT
Found at i:428294 original size:17 final size:18
Alignment explanation
Indices: 428272--428309 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
428262 ATAAAAATAT
428272 ATAATTTTT-TGTTTATA
1 ATAATTTTTATGTTTATA
428289 ATAATTTTTATGTTTATA
1 ATAATTTTTATGTTTATA
428307 ATA
1 ATA
428310 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
ATAATTTTTATGTTTATA
Found at i:428390 original size:25 final size:25
Alignment explanation
Indices: 428362--428411 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
428352 TTATAATATA
428362 AATTT-GTTTTTGGAATTCTTTATTT
1 AATTTAGTTTTTGGAATTC-TTATTT
*
428387 AATTTAGTTTTTTGAATTCTTATTT
1 AATTTAGTTTTTGGAATTCTTATTT
428412 TTAAAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.64
Consensus pattern (25 bp):
AATTTAGTTTTTGGAATTCTTATTT
Found at i:428829 original size:31 final size:29
Alignment explanation
Indices: 428760--428831 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
428750 AATAACTCAA
*
428760 TGATCAAAATGTAATAATTGATAACATAAG
1 TGATCAAAAT-TAATAATTGATAAAATAAG
*
428790 T-AGCCAAAAGTTAATAAATTGATAAAATAAG
1 TGA-TCAAAA-TTAAT-AATTGATAAAATAAG
428821 TGATCAAAATT
1 TGATCAAAATT
428832 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
29 1 0.03
30 12 0.34
31 21 0.60
32 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (29 bp):
TGATCAAAATTAATAATTGATAAAATAAG
Found at i:429341 original size:3 final size:3
Alignment explanation
Indices: 429335--429376 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
429325 ATTTTTTTTC
429335 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
429377 GTTGTTTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:429358 original size:17 final size:17
Alignment explanation
Indices: 429338--429372 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
429328 TTTTTTCTAT
429338 TATTATTATTATTATTA
1 TATTATTATTATTATTA
429355 TATTATTATTATTATTA
1 TATTATTATTATTATTA
429372 T
1 T
429373 TATTGTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:429358 original size:20 final size:20
Alignment explanation
Indices: 429335--429375 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
429325 ATTTTTTTTC
429335 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
429355 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
429375 T
1 T
429376 TGTTGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATTATTATTATTA
Found at i:431532 original size:24 final size:24
Alignment explanation
Indices: 431505--431586 Score: 130
Period size: 24 Copynumber: 3.4 Consensus size: 24
431495 CCAACCGTAC
431505 AAAAAATAAGTTATATATCACATT
1 AAAAAATAAGTTATATATCACATT
*
431529 AAAAAATAAGTTTTATATCACATT
1 AAAAAATAAGTTATATATCACATT
431553 -AAAAATAAGTTATATATGTCACATT
1 AAAAAATAAGTTATATA--TCACATT
431578 AAAAAATAA
1 AAAAAATAA
431587 TTAACGTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 15 0.28
24 23 0.43
25 7 0.13
26 8 0.15
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (24 bp):
AAAAAATAAGTTATATATCACATT
Found at i:431773 original size:17 final size:16
Alignment explanation
Indices: 431748--431782 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
431738 TTCAATTCGA
*
431748 TAAATTAATAATCTTTT
1 TAAAATAATAAT-TTTT
431765 TAAAATAATAATTTTT
1 TAAAATAATAATTTTT
431781 TA
1 TA
431783 TTTTAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAAATAATAATTTTT
Found at i:432326 original size:9 final size:9
Alignment explanation
Indices: 432312--432340 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
432302 GCATATATAC
432312 GGGAAGAGG
1 GGGAAGAGG
432321 GGGAAGA-G
1 GGGAAGAGG
432329 GGGAAGAGG
1 GGGAAGAGG
432338 GGG
1 GGG
432341 GGAAAAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (9 bp):
GGGAAGAGG
Found at i:436354 original size:21 final size:21
Alignment explanation
Indices: 436312--436354 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
436302 TGTTTGGGCT
*
436312 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
436333 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
436354 A
1 A
436355 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:437005 original size:37 final size:38
Alignment explanation
Indices: 436888--437005 Score: 95
Period size: 37 Copynumber: 3.1 Consensus size: 38
436878 TAGAGGGTCT
436888 ATGTGGT-TCTTCGGGACATATATGTATTCTTTGGAAC
1 ATGTGGTCTCTTCGGGACATATATGTATTCTTTGGAAC
** * * * *
436925 ATGTGAGGTCTGGT-GAGACACCTACT-TG-A-TCCTTGGTAT
1 ATGT--GGTCTCTTCGGGACA--TA-TATGTATTCTTTGGAAC
436964 ATGTGGTCT-TTCGGGACATATATGTATTCTTTGGAAC
1 ATGTGGTCTCTTCGGGACATATATGTATTCTTTGGAAC
437001 ATGTG
1 ATGTG
437006 TGAGGTCTGG
Statistics
Matches: 60, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
34 1 0.02
35 4 0.07
36 2 0.03
37 26 0.43
39 19 0.32
40 3 0.05
41 4 0.07
42 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (38 bp):
ATGTGGTCTCTTCGGGACATATATGTATTCTTTGGAAC
Found at i:437125 original size:23 final size:23
Alignment explanation
Indices: 437094--437147 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
437084 TATGGGCTAC
*
437094 GGTGCAATTCTACGCGGCACTCT
1 GGTGCAATTCTAAGCGGCACTCT
* * *
437117 GGTGTAATTCTAAGTGGCACT-A
1 GGTGCAATTCTAAGCGGCACTCT
437139 GGTGCAATT
1 GGTGCAATT
437148 ATATGAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (23 bp):
GGTGCAATTCTAAGCGGCACTCT
Found at i:448946 original size:24 final size:23
Alignment explanation
Indices: 448919--448974 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
448909 TGATGTTCAA
*
448919 TATAAATTAACATTATATTTTTAT
1 TATAAATTAA-AATATATTTTTAT
* *
448943 TATAAACTAAAATATTTTTTTAT
1 TATAAATTAAAATATATTTTTAT
448966 TATGAAATT
1 TAT-AAATT
448975 TTTTATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TATAAATTAAAATATATTTTTAT
Found at i:457956 original size:36 final size:36
Alignment explanation
Indices: 457916--457988 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
457906 TGGCGTCTTG
457916 AAAATGGTTTGCAATAGCATTAACACCCCACCACCT
1 AAAATGGTTTGCAATAGCATTAACACCCCACCACCT
457952 AAAATGGTTTGCAATAGCATTAACACCCCACCACCT
1 AAAATGGTTTGCAATAGCATTAACACCCCACCACCT
457988 A
1 A
457989 CCGCAAGCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (36 bp):
AAAATGGTTTGCAATAGCATTAACACCCCACCACCT
Found at i:474320 original size:33 final size:34
Alignment explanation
Indices: 474283--474390 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 34
474273 GGTAAGAAAT
* * *
474283 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
474316 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* * * *
474350 TT-TTATTAT-TAAAATAATATTTATATAATTATTA
1 TTATTTTTATAT-TAAT-ATATTTATGTAAATATTA
474384 TTTATTT
1 -TTATTT
474391 AGAATTATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
32 1 0.02
33 25 0.41
34 24 0.39
35 9 0.15
36 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:474352 original size:31 final size:34
Alignment explanation
Indices: 474314--474386 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
474304 TTTAAATAGT
*
474314 TATTATTTTTA-TATT-AAT-ATATTTATGTAAA
1 TATTATTTTTATTATTAAATAATATTTATATAAA
*
474345 TATTA-TTTTATTATTAAAATAATATTTATATAAT
1 TATTATTTTTATTATT-AAATAATATTTATATAAA
474379 TATTATTT
1 TATTATTT
474387 ATTTAGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 5 0.14
31 9 0.26
33 3 0.09
34 16 0.46
35 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
TATTATTTTTATTATTAAATAATATTTATATAAA
Found at i:476191 original size:21 final size:21
Alignment explanation
Indices: 476165--476258 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
476155 TATGCCATCT
* *
476165 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
476186 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
476207 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
476228 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
476249 CCGCAGGGTT
1 CCGCAGGGTT
476259 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:476839 original size:33 final size:34
Alignment explanation
Indices: 476780--476876 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
476770 TAAATGTTTT
*
476780 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
476814 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
476847 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
476877 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:476883 original size:34 final size:33
Alignment explanation
Indices: 476778--476883 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
476768 GATAAATGTT
*
476778 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
476812 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
476844 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
476879 TTAAA
1 TTAAA
476884 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Done.