Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold122
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: 766530
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.29
Warning! 93190 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:196269 original size:13 final size:13
Alignment explanation
Indices: 196251--196275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196241 AAATGTTCTT
196251 TGTATCGATACAA
1 TGTATCGATACAA
196264 TGTATCGATACA
1 TGTATCGATACA
196276 TGGGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:198609 original size:20 final size:21
Alignment explanation
Indices: 198570--198609 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
198560 GTTTCGTATA
198570 AATGTTTTCAAGTCTTAAATCG
1 AATGTTTTCAAG-CTTAAATCG
*
198592 AATGTTTTTAAG-TTAAAT
1 AATGTTTTCAAGCTTAAAT
198610 TACTTCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
AATGTTTTCAAGCTTAAATCG
Found at i:198809 original size:42 final size:42
Alignment explanation
Indices: 198749--198846 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
198739 CATACCCAAT
*
198749 TGTATCGATACATGAAACTGGCAATAGCTACCCTAAGTAAAA
1 TGTATCGATACATAAAACTGGCAATAGCTACCCTAAGTAAAA
*
198791 TGTATCAATACATAAAACTGGCAATAGCTACCCTAAGTAAAA
1 TGTATCGATACATAAAACTGGCAATAGCTACCCTAAGTAAAA
198833 TGTATCGATACATA
1 TGTATCGATACATA
198847 GGATAATGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (42 bp):
TGTATCGATACATAAAACTGGCAATAGCTACCCTAAGTAAAA
Found at i:203305 original size:20 final size:20
Alignment explanation
Indices: 203282--203354 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
203272 ACAATTCAAA
203282 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
203302 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
203323 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
203343 GTATCGATACAT
1 GTATCGATACAT
203355 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:203326 original size:21 final size:21
Alignment explanation
Indices: 203300--203375 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
203290 ACATGTTGCA
203300 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
203321 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
203341 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
203362 ATGTATCGATACAT
1 ATGTATCGATACAT
203376 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:203333 original size:41 final size:41
Alignment explanation
Indices: 203282--203375 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
203272 ACAATTCAAA
*
203282 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
203323 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
203364 GTATCGATACAT
1 GTATCGATACAT
203376 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:203432 original size:13 final size:13
Alignment explanation
Indices: 203414--203439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
203404 TACAGCAAGT
203414 ATGTATCGATACA
1 ATGTATCGATACA
203427 ATGTATCGATACA
1 ATGTATCGATACA
203440 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:207522 original size:15 final size:15
Alignment explanation
Indices: 207502--207532 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
207492 TAAAAATGTC
*
207502 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
207517 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
207532 C
1 C
207533 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:209628 original size:20 final size:21
Alignment explanation
Indices: 209549--209627 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
209539 AATGTCCAAA
*
209549 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
209569 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
209594 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
209614 TTGTATCGATACAT
1 ATGTATCGATACAT
209628 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:209632 original size:13 final size:13
Alignment explanation
Indices: 209614--209652 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
209604 ACATTTTTCT
209614 TTGTATCGATACA
1 TTGTATCGATACA
209627 TTGTATCGATACA
1 TTGTATCGATACA
*
209640 CTGTATCGATACA
1 TTGTATCGATACA
209653 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:212118 original size:20 final size:20
Alignment explanation
Indices: 212095--212167 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
212085 ACAATTCAAA
212095 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
212115 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
212136 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
212156 GTATCGATACAT
1 GTATCGATACAT
212168 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:212139 original size:21 final size:21
Alignment explanation
Indices: 212113--212188 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
212103 ACATGTTGCA
212113 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
212134 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
212154 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
212175 ATGTATCGATACAT
1 ATGTATCGATACAT
212189 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:212146 original size:41 final size:41
Alignment explanation
Indices: 212095--212188 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
212085 ACAATTCAAA
*
212095 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
212136 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
212177 GTATCGATACAT
1 GTATCGATACAT
212189 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:212245 original size:13 final size:13
Alignment explanation
Indices: 212227--212252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
212217 TACAGCAAGT
212227 ATGTATCGATACA
1 ATGTATCGATACA
212240 ATGTATCGATACA
1 ATGTATCGATACA
212253 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:216097 original size:40 final size:40
Alignment explanation
Indices: 215952--216089 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
215942 AAAATTGCCA
* *
215952 CTAATTTTAAGTAATTAGCGACGTTTATAGAAAAACGTCG
1 CTAAATTTAAGTAATTAGCGGCGTTTATAGAAAAACGTCG
* * *
215992 CTAAACTTAAGTAATTAGCGGCGTTTATAAAAAAACGCCG
1 CTAAATTTAAGTAATTAGCGGCGTTTATAGAAAAACGTCG
* * * *
216032 TTAAATTTAAGTAATTAGTGGTGTTTATAGAAAAACGTTG
1 CTAAATTTAAGTAATTAGCGGCGTTTATAGAAAAACGTCG
216072 CTAAATTTAAGTAATTAG
1 CTAAATTTAAGTAATTAG
216090 TGGTGTTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (40 bp):
CTAAATTTAAGTAATTAGCGGCGTTTATAGAAAAACGTCG
Found at i:217624 original size:3 final size:3
Alignment explanation
Indices: 217618--217651 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
217608 AAGAAAAGTT
217618 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
217652 AGTCTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:219859 original size:5 final size:5
Alignment explanation
Indices: 219849--219875 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
219839 CAATGAAAGC
219849 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
219876 CATCAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:221305 original size:145 final size:144
Alignment explanation
Indices: 221026--221366 Score: 334
Period size: 145 Copynumber: 2.3 Consensus size: 144
221016 TTTTTAAGTT
* * ** *
221026 TTTTAATTTTTATTTTATTTTTAAATGATGCATTT-AAAGAGTTGATTTGCTTAGTAACTTACTA
1 TTTTCATTTTTATTTT-TTTTTAAATAATATATTTAAAAGAGTTGATTTGCTTAGTAACTTACGA
* * * * * ***
221090 GTCAATTTAGAATTCGTATTCAACTTTCTTAATAAATAAAAAATTATTTTATTAATTATTTTTAG
65 ATCAATTTAGAATTCATATTCAACTTTC-TAAAAAATAAAAAATTAATTTATTAATAACACTTA-
221155 GTTTTTTAGATTTA-AGA
128 GTTTTTTAGATTTATA-A
*
221172 TTTTCA-TTTTATTTTTTTTTAAATAATATATTTAAAATAGTTGATTTG-TATAGTAACTTACGA
1 TTTTCATTTTTATTTTTTTTTAAATAATATATTTAAAAGAGTTGATTTGCT-TAGTAACTTACGA
* * *
221235 ATCAATTTAGAATTTATATTTGACCTATTC-AAAACAATAAAAAAATTAATTTATTAATAACACT
65 ATCAATTTAGAATTCATA-TTCAACT-TTCTAAAA-AAT-AAAAAATTAATTTATTAATAACACT
* *
221299 TATTTTTTTAGATTTATAT
126 TAGTTTTTTAGATTTATAA
* ** * *
221318 TTTTTATTTTTATTTGACTTTTAAATTATATATTTAAAAGATTTG-TTTG
1 TTTTCATTTTTATTT-TTTTTTAAATAATATATTTAAAAGAGTTGATTTG
221367 GTGTGTGACC
Statistics
Matches: 161, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
144 16 0.10
145 52 0.32
146 31 0.19
147 38 0.24
148 24 0.15
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (144 bp):
TTTTCATTTTTATTTTTTTTTAAATAATATATTTAAAAGAGTTGATTTGCTTAGTAACTTACGAA
TCAATTTAGAATTCATATTCAACTTTCTAAAAAATAAAAAATTAATTTATTAATAACACTTAGTT
TTTTAGATTTATAA
Found at i:222272 original size:3 final size:3
Alignment explanation
Indices: 222264--222291 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
222254 GCATTTGAAC
222264 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
222292 CTAGCAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:222389 original size:22 final size:22
Alignment explanation
Indices: 222364--222408 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
222354 ACGAAAATAT
222364 TAACATGATTTGATCTTTTATA
1 TAACATGATTTGATCTTTTATA
222386 TAACATGATTTGATCTTTTATA
1 TAACATGATTTGATCTTTTATA
222408 T
1 T
222409 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (22 bp):
TAACATGATTTGATCTTTTATA
Found at i:222464 original size:22 final size:23
Alignment explanation
Indices: 222423--222473 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
222413 AAAAAAAATA
* * *
222423 TTTATAATTAATATATAATT-TT
1 TTTAAAATTAATAAAAAATTATT
222445 TTTAAAATTAATAAAAAATTACTT
1 TTTAAAATTAATAAAAAATTA-TT
222469 TTTAA
1 TTTAA
222474 TGAGTTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAAAATTAATAAAAAATTATT
Found at i:223017 original size:3 final size:3
Alignment explanation
Indices: 223011--223051 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
223001 CATCATCATC
*
223011 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
223052 CTTCTTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:223057 original size:3 final size:3
Alignment explanation
Indices: 223051--223089 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
223041 ATTGTTATTA
223051 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
223090 AACAATGGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:223584 original size:19 final size:18
Alignment explanation
Indices: 223560--223596 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
223550 CCATGTTGGA
223560 GTTTTCTTTGTTTCTTTCC
1 GTTTTCTTT-TTTCTTTCC
*
223579 GTTTTCTTTTTTTTTTCC
1 GTTTTCTTTTTTCTTTCC
223597 CCCTCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (18 bp):
GTTTTCTTTTTTCTTTCC
Found at i:228294 original size:2 final size:2
Alignment explanation
Indices: 228287--228320 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
228277 TTTAAATCTA
228287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
228321 TAAACTAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:231972 original size:2 final size:2
Alignment explanation
Indices: 231965--231999 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
231955 ATCAACAATA
231965 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
232000 TACCAGAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:233408 original size:19 final size:17
Alignment explanation
Indices: 233372--233419 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
233362 TAAAATTATA
233372 ATAATTTTAAATATAAT
1 ATAATTTTAAATATAAT
*
233389 ATAATTATTTAATATAAAT
1 ATAATT-TTAAATAT-AAT
233408 ATAA-TTTAAATA
1 ATAATTTTAAATA
233420 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.44
18 8 0.30
19 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTTAAATATAAT
Found at i:233417 original size:11 final size:11
Alignment explanation
Indices: 233372--233462 Score: 69
Period size: 11 Copynumber: 7.8 Consensus size: 11
233362 TAAAATTATA
233372 ATAATTTTAAAT
1 ATAA-TTTAAAT
*
233384 ATAATATAATTAT
1 ATAATTTAA--AT
* *
233397 TTAATATAAAT
1 ATAATTTAAAT
233408 ATAATTTAAAT
1 ATAATTTAAAT
233419 AATAAATTTAAA-
1 -AT-AATTTAAAT
*
233431 ATAAATTTAAAA
1 AT-AATTTAAAT
233443 ATAATATTAAAT
1 ATAAT-TTAAAT
233455 -TAATTTAA
1 ATAATTTAA
233463 TATTAATAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
10 4 0.06
11 33 0.49
12 13 0.19
13 18 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATTTAAAT
Found at i:233430 original size:24 final size:24
Alignment explanation
Indices: 233369--233479 Score: 95
Period size: 24 Copynumber: 4.6 Consensus size: 24
233359 AAGTAAAATT
* *
233369 ATAATAATTTTAAATATAATATAA
1 ATAATAAATTTAAATATAATTTAA
* * * *
233393 TTATTTAATATAAATATAATTTAA
1 ATAATAAATTTAAATATAATTTAA
233417 ATAATAAATTTAAA-ATAAATTTAA
1 ATAATAAATTTAAATAT-AATTTAA
233441 A-AAT-AATATTAAAT-TAATTTAA
1 ATAATAAAT-TTAAATATAATTTAA
*
233463 TATTAATAAATTAAAAT
1 -A-TAATAAATTTAAAT
233480 TTTTTTTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
22 10 0.14
23 12 0.17
24 36 0.52
25 8 0.12
26 3 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATAAATTTAAATATAATTTAA
Found at i:233784 original size:16 final size:15
Alignment explanation
Indices: 233758--233796 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
233748 TTTTTTTGCC
233758 CTTTATCTCTCCCTTT
1 CTTT-TCTCTCCCTTT
*
233774 CTCTTTCTCTCTCTTT
1 CT-TTTCTCTCCCTTT
233790 CTTTTCT
1 CTTTTCT
233797 TTGCTTCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTTTCTCTCCCTTT
Found at i:236183 original size:30 final size:28
Alignment explanation
Indices: 236149--236216 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
236139 ATGGTGAAAT
*
236149 ATTTTAAAAGAATATGGATAATAAATATAA
1 ATTTTAAAAG-ATATGAATAA-AAATATAA
* *
236179 ATTTTAAAAGTTATGAATAAATATATAA
1 ATTTTAAAAGATATGAATAAAAATATAA
*
236207 CTTTTAAAAG
1 ATTTTAAAAG
236217 TTGTGGATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 16 0.47
29 8 0.24
30 10 0.29
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (28 bp):
ATTTTAAAAGATATGAATAAAAATATAA
Found at i:236863 original size:9 final size:10
Alignment explanation
Indices: 236844--236876 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
236834 TACTTAATAT
236844 ATATACTAAAA
1 ATATA-TAAAA
236855 ATATA-AAAA
1 ATATATAAAA
236864 ATATATAAAA
1 ATATATAAAA
236874 ATA
1 ATA
236877 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 7 0.33
11 5 0.24
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (10 bp):
ATATATAAAA
Found at i:241007 original size:17 final size:18
Alignment explanation
Indices: 240980--241026 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
240970 GATATTTTAT
240980 TAATATTTTTAATAAA-A-
1 TAAT-TTTTTAATAAAGAC
240997 TCAATTTTTTAA-AAAGAC
1 T-AATTTTTTAATAAAGAC
241015 TAATTTTTTAAT
1 TAATTTTTTAAT
241027 CCAATATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.12
17 19 0.73
18 4 0.15
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATTTTTTAATAAAGAC
Found at i:243774 original size:78 final size:81
Alignment explanation
Indices: 243646--243815 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 81
243636 TGTAAAAACA
* * * * * * *
243646 TGGAGTATCCCCTCGAAAATGATGGGGCTAGAGTATCTCTGATGGTAAAAAATT-GAT-ATTTT-
1 TGGAGTATCTCCTCGAAAATAATAGGGCTAGAATATCCCTAATGGCAAAAAATTCGATGATTTTG
*
243708 GAAAAAAAAATGGGGT
66 GAAAAAAAAACGGGGT
* *
243724 TGGAGTATCTCCTC-AGAAATAATAGGGTTAGAATATCCCTAATGGCAAAAAATTCGATGTTTTT
1 TGGAGTATCTCCTCGA-AAATAATAGGGCTAGAATATCCCTAATGGCAAAAAATTCGATGATTTT
**
243788 GGAAGTAAAAACGGGGT
65 GGAAAAAAAAACGGGGT
243805 TGGAGTATCTC
1 TGGAGTATCTC
243816 TGATAGTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.01
78 44 0.58
79 3 0.04
80 4 0.05
81 24 0.32
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (81 bp):
TGGAGTATCTCCTCGAAAATAATAGGGCTAGAATATCCCTAATGGCAAAAAATTCGATGATTTTG
GAAAAAAAAACGGGGT
Found at i:243916 original size:128 final size:130
Alignment explanation
Indices: 243676--243927 Score: 341
Period size: 128 Copynumber: 1.9 Consensus size: 130
243666 GATGGGGCTA
* * *
243676 GAGTATCTCTGATGGTAAAAAATTGATATTTTGAAAAAAAAATGGGGTTGGAGTATCTCCTCAGA
1 GAGTATCTCTGATAGTAAAAAATTGATATTTTG-AAAAAAAATGGGGTTGAAGTATCTCCTCAAA
*
243741 AATAATAGGGTTAGAATATCCCTAATGGCAAAAAATTCGATGTTTTTGGAAGTAAAAACGGGGTT
65 AATAATAGGGTTAGAATATCCCTAATGGCAAAAAATTCGATGCTTTTGGAAGTAAAAACGGGGTT
243806 G
130 G
*
243807 GAGTATCTCTGATAGTAAAATATTGATATTTTG-AAAAAAATGGGGTT-AAGTATAC-CCTCAAA
1 GAGTATCTCTGATAGTAAAAAATTGATATTTTGAAAAAAAATGGGGTTGAAGTAT-CTCCTCAAA
* * * * ** *
243869 AATAATGGGGTTGGAGTATTCCC-GATGGTGAAAAGTTCGATGCTTTTGGAAGTAAAAAC
65 AATAATAGGGTTAGAATA-TCCCTAATGGCAAAAAATTCGATGCTTTTGGAAGTAAAAAC
243928 ATGGTTAGAT
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
128 57 0.53
129 19 0.18
131 31 0.29
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (130 bp):
GAGTATCTCTGATAGTAAAAAATTGATATTTTGAAAAAAAATGGGGTTGAAGTATCTCCTCAAAA
ATAATAGGGTTAGAATATCCCTAATGGCAAAAAATTCGATGCTTTTGGAAGTAAAAACGGGGTTG
Found at i:243958 original size:81 final size:81
Alignment explanation
Indices: 243855--244087 Score: 247
Period size: 81 Copynumber: 2.9 Consensus size: 81
243845 AATGGGGTTA
* * * *
243855 AGTATACCCTCAAAAATAATGGGGTTGGAGTATTCCCGATGGTGAAAAGTTCGATGCTTTTGGAA
1 AGTATCCCCTAAAAAATGATGGGGTTGGAGTATTCCCGATGGTGAAAAATTCGATGCTTTTGGAA
* *
243920 GTAAAAACATGGTTAG
66 GTAAAAACAAGATTAG
* * * * * *
243936 ATTATCCCCTAAAAAATGATGGGGTTAGAGTA-TCTTCGACGGTGAAAAATTCGAT-ATCTTGGA
1 AGTATCCCCTAAAAAATGATGGGGTTGGAGTATTC-CCGATGGTGAAAAATTCGATGCTTTTGGA
* *
243999 AGTAAAAATAAGATTGG
65 AGTAAAAACAAGATTAG
* * * * *
244016 AGTATCTCCTGAAAAATGATGGGGTTGGAGTATCCCCAATGGTTAAAAAATT-GATGCTTTTGGA
1 AGTATCCCCTAAAAAATGATGGGGTTGGAGTATTCCCGATGG-TGAAAAATTCGATGCTTTTGGA
*
244080 AGGAAAAA
65 AGTAAAAA
244088 AGGTAAAAAT
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
80 56 0.46
81 66 0.54
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
AGTATCCCCTAAAAAATGATGGGGTTGGAGTATTCCCGATGGTGAAAAATTCGATGCTTTTGGAA
GTAAAAACAAGATTAG
Found at i:244756 original size:13 final size:13
Alignment explanation
Indices: 244738--244762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244728 TTACTCAATG
244738 TATCGATACATTA
1 TATCGATACATTA
244751 TATCGATACATT
1 TATCGATACATT
244763 TGATCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:248912 original size:20 final size:20
Alignment explanation
Indices: 248887--248943 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
248877 TAGGTTTTTC
* *
248887 CAAAATATATTGATATAATG
1 CAAAATGTATTGATACAATG
248907 CAAAATGTATTGATACAATG
1 CAAAATGTATTGATACAATG
248927 -AATAATGTATTGATACA
1 CAA-AATGTATTGATACA
248944 TTTGGGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (20 bp):
CAAAATGTATTGATACAATG
Found at i:251656 original size:20 final size:20
Alignment explanation
Indices: 251631--251682 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
251621 AACCCTCATT
251631 TGTATCGATACAA-GTCAAAA
1 TGTATCGATACAATGT-AAAA
* *
251651 TGTATCGATATAATGTACAA
1 TGTATCGATACAATGTAAAA
*
251671 TGTAACGATACA
1 TGTATCGATACA
251683 TTAAGTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAATGTAAAA
Found at i:251793 original size:113 final size:112
Alignment explanation
Indices: 251582--251796 Score: 281
Period size: 113 Copynumber: 1.9 Consensus size: 112
251572 CATATAAATT
* * *
251582 TATCGATACATATGGTTGGTAGTAGCTAAAAAGTGCTAAAACCCTCATTTGTATCGATACAAGTC
1 TATCGATACATATGGTTGGCAATAGCTAAAAAATGCTAAAACCCTCATTTGTATCGATACAAGTC
* ** **
251647 AAAATGTATCGATATAATGTACAATGTAACGATACATTAAGTGAAAG
66 AAAATGTATCGATACAATACACAACATAACGATACATTAAGTGAAAG
* *
251694 TATCGATACATCTGGTTGGCAATAGCTAAAGAAAT-CTTGAAACCCTCATTTGTATCGATACACA
1 TATCGATACATATGGTTGGCAATAGCTAAA-AAATGC-TAAAACCCTCATTTGTATCGATACA-A
* *
251758 -TGAAAATGTATCGATACAATACACAACATATCGATACAT
63 GTCAAAATGTATCGATACAATACACAACATAACGATACAT
251797 CCCTAAATGT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
112 28 0.32
113 59 0.67
114 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (112 bp):
TATCGATACATATGGTTGGCAATAGCTAAAAAATGCTAAAACCCTCATTTGTATCGATACAAGTC
AAAATGTATCGATACAATACACAACATAACGATACATTAAGTGAAAG
Found at i:251918 original size:54 final size:54
Alignment explanation
Indices: 251829--251936 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
251819 AGTCACAATA
*
251829 ATTAGTTTTTTAAGAAATGTATCAATGCCTGGCTTTATGTATCAATACAAAGTT
1 ATTAGTTTTTTAAGAAATGTATCAATACCTGGCTTTATGTATCAATACAAAGTT
* * * *
251883 ATTAGTTTTTTAAGTAATGTATCAATACTTTGCTTTATGTATCAATATAAAGTT
1 ATTAGTTTTTTAAGAAATGTATCAATACCTGGCTTTATGTATCAATACAAAGTT
251937 GTTGGAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (54 bp):
ATTAGTTTTTTAAGAAATGTATCAATACCTGGCTTTATGTATCAATACAAAGTT
Found at i:352019 original size:19 final size:20
Alignment explanation
Indices: 351990--352043 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
351980 ATTTGCCTGC
351990 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
352010 ATGT-TCGATACATTTAATA
1 ATGTATCGATACATTGAATA
*
352029 ATATATCGATACATT
1 ATGTATCGATACATT
352044 TCCTTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:354697 original size:93 final size:93
Alignment explanation
Indices: 354575--354774 Score: 233
Period size: 93 Copynumber: 2.2 Consensus size: 93
354565 CTTTTAACTG
* * * * *
354575 TGATATTTACAAACAATTAACTTTGC-TTTTTTTTCTACCAAAAGAAATTTAATTCTTAAATATA
1 TGATATTTACAATCAACTAACTTTGCTTTTTTTTTCTACCAAAAGAAATCTAATT-TCAAATACA
*
354639 A-TCTATGCATTAGTCTAATCCTTGTAGTC
65 ATTC-ATGCATTAGTCTAATCCTTATAGTC
* * * * *
354668 TGATATTTACAATCAACTAATTTTTCTTTTTTTTTCTACCGAAAGGAATCTAATTTCAGATACAA
1 TGATATTTACAATCAACTAACTTTGCTTTTTTTTTCTACCAAAAGAAATCTAATTTCAAATACAA
* * *
354733 TTCATGCATTAGTTTAATCTTTATAGTT
66 TTCATGCATTAGTCTAATCCTTATAGTC
*
354761 TGACATTTACAATC
1 TGATATTTACAATC
354775 CATGTATTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
93 63 0.70
94 27 0.30
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (93 bp):
TGATATTTACAATCAACTAACTTTGCTTTTTTTTTCTACCAAAAGAAATCTAATTTCAAATACAA
TTCATGCATTAGTCTAATCCTTATAGTC
Found at i:354852 original size:66 final size:67
Alignment explanation
Indices: 354780--354907 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
354770 CAATCCATGT
* * * * *
354780 ATTAGTCTTATCAA-TTTTTTCATATTAGAAAGAAT-TTGATTCTCATCAAGAATCTATGCATCA
1 ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCG-TTCCCATCAACAATCTATGCATCA
354843 TAC
65 TAC
*
354846 ATTAGTCTTATCAACTTCTTTCATATCAGAAGGAATCTCGTTCCCATCAACAATCTATGCAT
1 ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCGTTCCCATCAACAATCTATGCAT
354908 TAATCACATT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
66 14 0.26
67 38 0.70
68 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (67 bp):
ATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATCTCGTTCCCATCAACAATCTATGCATCAT
AC
Found at i:355169 original size:39 final size:39
Alignment explanation
Indices: 355121--355199 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
355111 CATCTGACAA
* * * * *
355121 ATTCTAATAAAAAATTTATATATTAGTCATATCTTTTAG
1 ATTCCAATAAAAAATCTATACATTACTAATATCTTTTAG
*
355160 ATTCCAATAAATAATCTATACATTACTAATATCTTTTAG
1 ATTCCAATAAAAAATCTATACATTACTAATATCTTTTAG
355199 A
1 A
355200 ATTTACTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (39 bp):
ATTCCAATAAAAAATCTATACATTACTAATATCTTTTAG
Found at i:355207 original size:20 final size:20
Alignment explanation
Indices: 355182--355221 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
355172 AATCTATACA
*
355182 TTACTAATATCTTTTAGAAT
1 TTACTAATATCTTTCAGAAT
355202 TTACTAATATCTTTCAGAAT
1 TTACTAATATCTTTCAGAAT
355222 CCAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (20 bp):
TTACTAATATCTTTCAGAAT
Found at i:356708 original size:10 final size:10
Alignment explanation
Indices: 356693--356723 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
356683 CCTCCTTTAG
356693 AAAAAGAAAA
1 AAAAAGAAAA
356703 AAAAAGAAAA
1 AAAAAGAAAA
*
356713 AAAGAGAAAA
1 AAAAAGAAAA
356723 A
1 A
356724 TAGGAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:357925 original size:50 final size:50
Alignment explanation
Indices: 357838--357957 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
357828 GAAAATAATA
* * *
357838 GGTTGGAGTATCCCCTGATTATGAGAAATCGATATTTTAGAAATAAGGCCG
1 GGTTGGAGTATCCCC-GATTATGAGAAATCAACATTTTAGAAATAAAGCCG
* * * *
357889 GGTTGAAGTATCCCCGATTTTGAGAAATCAACATTTTGGAAATAAAGCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATCAACATTTTAGAAATAAAGCCG
357939 GGTTTGGAGTATCCCCGAT
1 GG-TTGGAGTATCCCCGAT
357958 GAAAAAAACC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 31 0.52
51 29 0.48
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAGAAATCAACATTTTAGAAATAAAGCCG
Found at i:358097 original size:77 final size:77
Alignment explanation
Indices: 357972--358270 Score: 336
Period size: 77 Copynumber: 3.8 Consensus size: 77
357962 AAAACCGATG
* * *
357972 TTTTAGAAATAAAAATCGGGATTGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAAT-AAAAT--GGAGTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
358037 TATGAGAAATTAATA
63 TATGAGAAATTAATA
* *
358052 TTTTAGAAATAAAATAGAGTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTAT-CCCGATGA-
1 TTTTAGAAATAAAATGGAGTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTAT
* * *
358115 -ATAAATTGATG
66 GAGAAATTAATA
* * *
358126 TTTTAGAAATAAAATCGGGATTGGAGTATCCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAAT--GGAGTGGAGTAT-CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
358191 TATGAG-AATTAATA
63 TATGAGAAATTAATA
* * * **
358205 TTTTAGAAATAAAACCGGGGGTTAGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGA
1 TTTTAGAAATAAAA--TGGAG-T-GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
358270 T
62 T
358271 GAAAGGAAAA
Statistics
Matches: 185, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
74 23 0.12
76 17 0.09
77 62 0.34
78 7 0.04
79 27 0.15
80 42 0.23
81 7 0.04
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (77 bp):
TTTTAGAAATAAAATGGAGTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTAT
GAGAAATTAATA
Found at i:358132 original size:154 final size:158
Alignment explanation
Indices: 357926--358320 Score: 543
Period size: 154 Copynumber: 2.5 Consensus size: 158
357916 TCAACATTTT
**
357926 GGAAATAAAGCGGGGTTTGGAGTATCCCCGATGAAAAAAACCGATGTTTTAGAAATAAAAATCGG
1 GGAAAT-AA-CGGGG-TTGGAGTATCCCCGATGAAAAAAATTGATGTTTTAGAAATAAAAATCGG
357991 GATTGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTT
63 GATTGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAG-AATTAATATTTT
*
358056 AGAAATAAAA-TAGAG-T-GGAGTATCCCCTC
127 AGAAATAAAACGAGAGTTAGGAGTATCCCCTC
*
358085 GGAAATAACGGGGTTGGAGTAT-CCCGATG-AATAAATTGATGTTTTAGAAAT-AAAATCGGGAT
1 GGAAATAACGGGGTTGGAGTATCCCCGATGAAAAAAATTGATGTTTTAGAAATAAAAATCGGGAT
358147 TGGAGTATCCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAATTAATATTTTAGA
66 TGGAGTAT-CCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAATTAATATTTTAGA
* * *
358212 AATAAAACCGGGGGTTAGGAGTATCCTCTC
130 AATAAAA-CGAGAGTTAGGAGTATCCCCTC
** * * *
358242 AAAAATAACGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTTGAAA-ATAAAACCGG
1 GGAAATAACGGGGTTGGAGTATCCCCGATGAAA--AAAATTGATGTTTTAGAAATA-AAAATCGG
*
358306 GGTTGGAGTATCCCC
63 GATTGGAGTATCCCC
358321 GATTGTGGAA
Statistics
Matches: 211, Mismatches: 14, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
153 41 0.19
154 60 0.28
155 9 0.04
156 10 0.05
157 37 0.18
158 9 0.04
159 8 0.04
161 20 0.09
162 17 0.08
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (158 bp):
GGAAATAACGGGGTTGGAGTATCCCCGATGAAAAAAATTGATGTTTTAGAAATAAAAATCGGGAT
TGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAATTAATATTTTAGAA
ATAAAACGAGAGTTAGGAGTATCCCCTC
Found at i:358382 original size:49 final size:49
Alignment explanation
Indices: 358252--358421 Score: 169
Period size: 51 Copynumber: 3.3 Consensus size: 49
358242 AAAAATAACG
* * * * * *
358252 GGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTTGAAAATAAAACC
1 GGGTTGGAGTATCCCCGAT--TATGAAAAATAGTGTTTTAG-AAATAAAGCC
* * *
358304 GGGGTTGGAGTATCCCCGATTGTGGAAAATAGTGTTTTAGAGATAAAGCC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATAGTGTTTTAGAAATAAAGCC
* * *
358354 GGGTTGGAGTATCCCCGATTATGAAAAATTGATTATTTTAGAAATAAAGCAG
1 GGGTTGGAGTATCCCCGATTATGAAAAA-T-AGTGTTTTAGAAATAAAGC-C
358406 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
358422 TCAGAGGCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
49 26 0.26
50 9 0.09
51 29 0.29
52 16 0.16
53 19 0.19
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (49 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATAGTGTTTTAGAAATAAAGCC
Found at i:360938 original size:13 final size:13
Alignment explanation
Indices: 360920--360945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
360910 ACAAAGATCG
360920 ATGTATCGATACA
1 ATGTATCGATACA
360933 ATGTATCGATACA
1 ATGTATCGATACA
360946 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:360956 original size:21 final size:21
Alignment explanation
Indices: 360932--360973 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
360922 GTATCGATAC
360932 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
360953 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
360974 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:361054 original size:32 final size:31
Alignment explanation
Indices: 360990--361089 Score: 148
Period size: 32 Copynumber: 3.2 Consensus size: 31
360980 AGCTTCGTAG
*
360990 CGATACATGTATCGATACAACAC-TATGTAT
1 CGATACTTGTATCGATACAACACTTATGTAT
361020 CGATACTTGTATCGATTACAACACTTATGTAT
1 CGATACTTGTATCGA-TACAACACTTATGTAT
* *
361052 CGATACATTGTATCGATACAACATTTTTGTAT
1 CGATAC-TTGTATCGATACAACACTTATGTAT
361084 CGATAC
1 CGATAC
361090 AAATCGTTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
30 14 0.22
31 8 0.12
32 33 0.52
33 9 0.14
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (31 bp):
CGATACTTGTATCGATACAACACTTATGTAT
Found at i:361065 original size:13 final size:13
Alignment explanation
Indices: 361047--361071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
361037 ACAACACTTA
361047 TGTATCGATACAT
1 TGTATCGATACAT
361060 TGTATCGATACA
1 TGTATCGATACA
361072 ACATTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:361174 original size:21 final size:21
Alignment explanation
Indices: 361129--361206 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
361119 GTTGGGACCT
*
361129 TGTATCGATACATTCAACAAAA
1 TGTATCGATACATTCTAC-AAA
361151 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
* *
361172 TGTATCAATACATTCTATAAA
1 TGTATCGATACATTCTACAAA
361193 TGTATCGATACATT
1 TGTATCGATACATT
361207 TGGATAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 35 0.67
22 17 0.33
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:361992 original size:20 final size:20
Alignment explanation
Indices: 361969--362007 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
361959 TATGTTTAAT
361969 ATGT-ATTCATATAAATTTTC
1 ATGTAATTCAT-TAAATTTTC
*
361989 ATGTAATTTATTAAATTTT
1 ATGTAATTCATTAAATTTT
362008 GGTGTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
ATGTAATTCATTAAATTTTC
Found at i:362606 original size:21 final size:20
Alignment explanation
Indices: 362558--362613 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
362548 AAATGATTTT
*
362558 AATGCAATAAAATAAAAATTA
1 AATG-AATAAAATAAAAATAA
*
362579 AAT-AATAATAATCAAAATAA
1 AATGAATAA-AATAAAAATAA
362599 AATGAATAAATATAA
1 AATGAATAAA-ATAA
362614 CCTTCTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.17
20 13 0.45
21 11 0.38
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (20 bp):
AATGAATAAAATAAAAATAA
Found at i:364835 original size:2 final size:2
Alignment explanation
Indices: 364830--364872 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
364820 AATAGAATTA
364830 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
364872 A
1 A
364873 ACTGTCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:367495 original size:22 final size:21
Alignment explanation
Indices: 367470--367516 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
367460 ACATAATAAT
*
367470 ATGACCAATAACATAGTAGTAA
1 ATGACCAATAACAT-GTAGAAA
**
367492 ATGATTAATAACATGTAGAAA
1 ATGACCAATAACATGTAGAAA
367513 ATGA
1 ATGA
367517 TTGTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.26
Consensus pattern (21 bp):
ATGACCAATAACATGTAGAAA
Found at i:367514 original size:21 final size:22
Alignment explanation
Indices: 367476--367518 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
367466 TAATATGACC
*
367476 AATAACATAGTAGTAAATGATT
1 AATAACATAGTAGAAAATGATT
367498 AATAACAT-GTAGAAAATGATT
1 AATAACATAGTAGAAAATGATT
367519 GTTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (22 bp):
AATAACATAGTAGAAAATGATT
Found at i:369420 original size:22 final size:21
Alignment explanation
Indices: 369395--369436 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
369385 AGAGTAAAAG
369395 ATTAATAACATAGTAATAATTA
1 ATTAATAACAT-GTAATAATTA
*
369417 ATTAATAACATGTATTAATT
1 ATTAATAACATGTAATAATT
369437 TTTTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTAATAACATGTAATAATTA
Found at i:372442 original size:21 final size:21
Alignment explanation
Indices: 372416--372471 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
372406 ACATAAGGTA
372416 ATGTATTGATACTTCATGCAT
1 ATGTATTGATACTTCATGCAT
372437 ATGTATTGATACTTCATGCAT
1 ATGTATTGATACTTCATGCAT
* *
372458 TTGTATCGATACTT
1 ATGTATTGATACTT
372472 TGTTCAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (21 bp):
ATGTATTGATACTTCATGCAT
Found at i:374372 original size:34 final size:34
Alignment explanation
Indices: 374329--374702 Score: 246
Period size: 34 Copynumber: 10.6 Consensus size: 34
374319 CATTGATGAA
* *
374329 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
* * * *
374363 TTAACTTTAAATAAAAAACTTCTTCATCGAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
* * * *
374397 TCAACTTTAAGATACAAAACTTCTCCATCGAGACT
1 TCAACTTTAA-ATAAAAAACTCCTCCACCGAGGCT
** * *
374432 TCAACTTTAAATAAAAAACTCCTTTACTGAGACT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
* * * **
374466 TCAACTTTAAATGAAAAACTTCTCTACTAAGGCT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
** * *** *
374500 TCAACTTTAAATGCAAAATTCCTCCATTAAGTCT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
*
374534 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCT
1 TCAACTTT---AAAT--A-AA-AAACTCCTCCACCGAGGCT
* * * * *
374575 TCAACTTTAAATGAAAAACTCCTTCATCTAGACT
1 TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
* *
374609 TCAACTTTAACGATGAAAAAAAACTCCTTCACCGAGGAT
1 TCAACTTTAA--AT---AAAAAACTCCTCCACCGAGGCT
* * * *
374648 TCAACTTTAAATGAGAAACT-TTGCCATCGAGGCT
1 TCAACTTTAAATAAAAAACTCCT-CCACCGAGGCT
* *
374682 TTAACTTTAAAATGAAAAACT
1 TCAACTTT-AAATAAAAAACT
374703 AAATTTGTAA
Statistics
Matches: 274, Mismatches: 51, Indels: 29
0.77 0.14 0.08
Matches are distributed among these distances:
33 1 0.00
34 166 0.61
35 44 0.16
36 2 0.01
37 6 0.02
38 4 0.01
39 27 0.10
40 1 0.00
41 23 0.08
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (34 bp):
TCAACTTTAAATAAAAAACTCCTCCACCGAGGCT
Found at i:374454 original size:103 final size:103
Alignment explanation
Indices: 374329--374702 Score: 319
Period size: 103 Copynumber: 3.5 Consensus size: 103
374319 CATTGATGAA
* * * *
374329 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCTTCATCGAG
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCATCAAG
374394 GCTTCAACTTTAAGATACAAAACTTCTCCATCGAGACT
66 GCTTCAACTTTAAGATACAAAACTTCTCCATCGAGACT
** ** *
374432 TCAACTTTAAATAAAAAACTCCTTTACTGAGACTTCAACTTTAAATGAAAAACTTC-TC-TACTA
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCAT-C-A
* ** *
374495 AGGCTTCAACTTTAA-ATGCAAAA-TTCCTCCATTAAGTCT
64 AGGCTTCAACTTTAAGATACAAAACTT-CTCCATCGAGACT
*
374534 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTT
1 TCAACTTT---AAAT--A-AA-AAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTT
* * * * * *
374599 CATCTAGACTTCAACTTTAACGATGAAAAAAAACTCCTTCACCGAGGA-T
59 CATCAAGGCTTCAACTTTAA-GAT---ACAAAACTTCTCCATCGA-GACT
* * * * * *
374648 TCAACTTTAAATGAGAAACT-TTGCCATCGAGGCTTTAACTTTAAAATGAAAAACT
1 TCAACTTTAAATAAAAAACTCCT-CCACCAAGGCTTCAACTTT-AAATGAAAAACT
374703 AAATTTGTAA
Statistics
Matches: 215, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
101 3 0.01
102 28 0.13
103 63 0.29
105 4 0.02
106 1 0.00
107 22 0.10
108 15 0.07
109 49 0.23
110 3 0.01
111 7 0.03
114 18 0.08
115 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (103 bp):
TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCATCAAG
GCTTCAACTTTAAGATACAAAACTTCTCCATCGAGACT
Found at i:374611 original size:75 final size:73
Alignment explanation
Indices: 374341--374667 Score: 269
Period size: 69 Copynumber: 4.6 Consensus size: 73
374331 AATTTTAAAT
* * * * ** *
374341 AAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCTTCATCGAGGCTTCAACTTT-
1 AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTCCATTAAGACTTCAACTTTA
*
374405 --AA-GAT
66 AAAATGAA
* * * * * * ** * *
374410 ACAAAACTTCTCCATCGAGACTTCAACTTTAAATAAAAAACTCCTTTACTGAGACTTCAACTTT-
1 AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTCCATTAAGACTTCAACTTTA
374474 -AAATG--
66 AAAATGAA
* * * * * *
374479 -AAAAACTTCTCTACTAAGGCTTCAACTTTAAATGCAAAATTCCTCCATTAAGTCTTCAACTTTC
1 AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTCCATTAAGACTTCAACTTT-
374543 AAAAATGAA
65 AAAAATGAA
* *
374552 GAAGAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTTCATCT-AGACTTCAACTT
1 -AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTCCAT-TAAGACTTCAACTT
**
374616 TAACGATGAA
64 TAAAAATGAA
* * * *
374626 AAAAAACTCCTTCACCGAGGATTCAACTTTAAATGAGAAACT
1 AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACT
374668 TTGCCATCGA
Statistics
Matches: 208, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
68 49 0.24
69 53 0.25
70 2 0.01
71 6 0.03
73 37 0.18
74 7 0.03
75 53 0.25
76 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (73 bp):
AAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTCCATTAAGACTTCAACTTTA
AAAATGAA
Found at i:374611 original size:109 final size:103
Alignment explanation
Indices: 374329--374618 Score: 327
Period size: 103 Copynumber: 2.8 Consensus size: 103
374319 CATTGATGAA
* * * *
374329 TCAATTTTAAATAAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCTTCATCGAG
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCATCTAG
*
374394 GCTTCAACTTTAAGATACAAAACTTCTCCATCGAGACT
66 GCTTCAACTTTAAGATACAAAACTTCTCCATCAAGACT
** ** *
374432 TCAACTTTAAATAAAAAACTCCTTTACTGAGACTTCAACTTTAAATGAAAAACTTC-TC-TACTA
1 TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCAT-CT-
* * *
374495 AGGCTTCAACTTTAA-ATGCAAAA-TTCCTCCATTAAGTCT
64 AGGCTTCAACTTTAAGATACAAAACTT-CTCCATCAAGACT
*
374534 TCAACTTTCAAAAATGAAGAAGAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTT
1 TCAACTTT---AAAT--A-AA-AAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTT
*
374599 CATCTAGACTTCAACTTTAA
59 CATCTAGGCTTCAACTTTAA
374619 CGATGAAAAA
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
101 3 0.02
102 28 0.18
103 63 0.41
105 4 0.03
107 1 0.01
108 2 0.01
109 49 0.32
110 4 0.03
111 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (103 bp):
TCAACTTTAAATAAAAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTTCTTCATCTAG
GCTTCAACTTTAAGATACAAAACTTCTCCATCAAGACT
Found at i:374688 original size:73 final size:71
Alignment explanation
Indices: 374341--374700 Score: 272
Period size: 73 Copynumber: 5.0 Consensus size: 71
374331 AATTTTAAAT
* * * *
374341 AAAAAACTCCTCCACCAAGGCTTTAACTTTAAATAAAAAACTTCTTCATCGAGGCTTCAACTTT-
1 AAAAAACTCCTCCACCAAGGATTCAACTTTAAATGAAAAAC-TCTTCATCGAGACTTCAACTTTA
*
374405 -AA-GAT
65 AAATGAA
* * * * * *
374410 ACAAAACTTCTCCATCGA-GACTTCAACTTTAAATAAAAAACTCCTTTA-CTGAGACTTCAACTT
1 AAAAAACTCCTCCACCAAGGA-TTCAACTTTAAATGAAAAACT-CTTCATC-GAGACTTCAACTT
374473 T-AAATG--
63 TAAAATGAA
* * * * * * * ** *
374479 -AAAAACTTCTCTACTAAGGCTTCAACTTTAAATGCAAAATTCCTCCATTAAGTCTTCAACTTTC
1 AAAAAACTCCTCCACCAAGGATTCAACTTTAAATGAAAAACT-CTTCATCGAGACTTCAACTTT-
374543 AAAAATGAA
64 -AAAATGAA
* * *
374552 GAAGAAACTCCTCCACCAAGGCTTCAACTTTAAATGAAAAACTCCTTCATCTAGACTTCAACTTT
1 -AAAAAACTCCTCCACCAAGGATTCAACTTTAAATGAAAAACT-CTTCATCGAGACTTCAACTTT
*
374617 AACGATGAA
64 AA-AATGAA
* * * * *
374626 AAAAAACTCCTTCACCGAGGATTCAACTTTAAATGAGAAACT-TTGCCATCGAGGCTTTAACTTT
1 AAAAAACTCCTCCACCAAGGATTCAACTTTAAATGAAAAACTCTT--CATCGAGACTTCAACTTT
374690 AAAATGAA
64 AAAATGAA
374698 AAA
1 AAA
374701 CTAAATTTGT
Statistics
Matches: 232, Mismatches: 42, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
68 49 0.21
69 51 0.22
70 2 0.01
71 8 0.03
72 8 0.03
73 56 0.24
74 5 0.02
75 53 0.23
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (71 bp):
AAAAAACTCCTCCACCAAGGATTCAACTTTAAATGAAAAACTCTTCATCGAGACTTCAACTTTAA
AATGAA
Found at i:377943 original size:24 final size:23
Alignment explanation
Indices: 377883--377949 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
377873 GAAGGAAGAC
*
377883 GAAAAAA-AGAA--AGAAAGAGA
1 GAAAAAAGAGAATGAGAAAGAAA
377903 GAAAAAAGAGAATGAGAAAGAAA
1 GAAAAAAGAGAATGAGAAAGAAA
377926 GAAAAAAGTAGAGA-GAGAAAGAAA
1 GAAAAAAG-AGA-ATGAGAAAGAAA
377950 AAGAAGGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
23 16 0.39
24 13 0.32
25 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (23 bp):
GAAAAAAGAGAATGAGAAAGAAA
Found at i:379277 original size:16 final size:16
Alignment explanation
Indices: 379258--379298 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
379248 CTTATATCTT
379258 AACTAATTCTTAATTA
1 AACTAATTCTTAATTA
*
379274 AACTAATTCTTAATTG
1 AACTAATTCTTAATTA
379290 AACTAATTC
1 AACTAATTC
379299 AATTAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (16 bp):
AACTAATTCTTAATTA
Found at i:383498 original size:154 final size:153
Alignment explanation
Indices: 383315--384018 Score: 585
Period size: 154 Copynumber: 4.6 Consensus size: 153
383305 TACTTTCAAT
* *
383315 GTGAAAGTATCTTAGTAACCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAA
1 GTGAAAGTACCTT-GTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAA
**
383380 ATGACACTTGTGGCATAAAAGTGACCTAGTGACTACTAGGACTCAGTTCTAAGGAAAATTACTAA
65 ATGACACTT-TGGCATAAAAGCAACCTAGTGACTACTAGGACTCAGTTCTAAGGAAAATTACTAA
383445 AATGCTTCTAAGGTATACCTTCGA-C
129 AATGCTTCTAAGGTATACCTTC-ATC
383470 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAA
1 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAA
* * * * *
383535 TGACACATTTGGCATAAAAACAACCTAGTGGCTACTAGGGCTCAGTTTTAGGGAAAATTACTAAA
66 TGACAC-TTTGGCATAAAAGCAACCTAGTGACTACTAGGACTCAGTTCTAAGGAAAATTACTAAA
* *
383600 ATGGTTCTAAGGTATACTTTCATC
130 ATGCTTCTAAGGTATACCTTCATC
* * * * * *
383624 GTGAAAGTACCTAGTAATCCTAAAGGATATGAAAAT-ATTA-TAAAAAGATGAACCTATCCTAAA
1 GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAA
* * * ** * * * *
383687 TGTATACCTTTGGCATAAAAGCAACCT-GATGACTACCCAGGATTTGGTTTTAAGAAAAAATACC
66 TG-ACA-CTTTGGCATAAAAGCAACCTAG-TGACTA-CTAGGACTCAGTTCTAAGGAAAATTACT
* * * *
383751 AAAATGC-CCCAAGGGTATATCATTAAT-
127 AAAATGCTTCTAA-GGTATA-CCTTCATC
* ** ** * * * *
383778 GTTAAAGTACC-TGATAATTTTAAAGGATGTGAAAAT-ATTA-TAAAATGATGAACCTATCCTAA
1 GTGAAAGTACCTTG-TAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAA
* * * * * ** * *
383840 ACGTATACCTTTGGTATAAAAGCGACCTAGTGACTACTTAGGATTTGGTTTTAA-GAAAATTACC
65 ATG-ACA-CTTTGGCATAAAAGCAACCTAGTGACTAC-TAGGACTCAGTTCTAAGGAAAATTACT
* * * *
383904 AGAATGCTCCTAGGGTATACCATTGAT-
127 AAAATGCTTCTAAGGTATACC-TTCATC
* ** * * * *
383931 GTGAAAGTA-CTCGATAATTGTAAA-GACATGAAAAT-ATTA-TAAAAGAATGAACCTATCCTAA
1 GTGAAAGTACCTTG-TAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAA
* *
383992 ATGTATACCTTTTGCATAAAA-CAACCT
65 ATG-ACA-CTTTGGCATAAAAGCAACCT
384019 CACGACCAAC
Statistics
Matches: 473, Mismatches: 62, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
151 5 0.01
152 76 0.16
153 77 0.16
154 295 0.62
155 20 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (153 bp):
GTGAAAGTACCTTGTAATCCTAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAA
TGACACTTTGGCATAAAAGCAACCTAGTGACTACTAGGACTCAGTTCTAAGGAAAATTACTAAAA
TGCTTCTAAGGTATACCTTCATC
Found at i:384068 original size:152 final size:153
Alignment explanation
Indices: 383336--384099 Score: 494
Period size: 154 Copynumber: 5.0 Consensus size: 153
383326 TTAGTAACCC
* * * * *
383336 TAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAATG-ACA-CTTGTGGCATAAA
1 TAAAGGACATGAAAAT-ATTA-TAAAAGAATGAACCTATCCTAAATGTATACCTT-TGGCATAAA
** * * ** * * * * *
383399 AGTGACCTAGTGA-CTACTAGGACTCAGTTCTAAGGAAAATTA-C-TAAAATGCTTCTAAGGTAT
63 AGCAACCTA-TGACCAACTAGGATTTGGTTTTAAGAAAAATTACCAAAAAAT-C-CCTAGGGTAT
* * **
383461 ACC-TTCGACGTGAAAGTACCTTG-TAATCC
125 ACCATT-AATGTGAAAGTACC-TGATAATTG
* * * * * *
383490 TAAAGGACATGAAAATGATAAGCAAAAGGATGAACATATCCTAAATG-ACACATTTGGCATAAAA
1 TAAAGGACATGAAAAT-ATTA-TAAAAGAATGAACCTATCCTAAATGTATACCTTTGGCATAAAA
* * * ** ** * * * ** * *
383554 ACAACCTAGTG-GCTACTAGGGCTCAGTTTTAGGGAAAATTACTAAAATGGT-TCTAAGGTATA-
64 GCAACCTA-TGACCAACTAGGATTTGGTTTTAAGAAAAATTACCAAAA-AATCCCTAGGGTATAC
* * **
383616 CTTTCATCGTGAAAGTACCT-AGTAATCC
127 CATTAAT-GTGAAAGTACCTGA-TAATTG
*
383644 TAAAGGATATGAAAATATTATAAAA-AGATGAACCTATCCTAAATGTATACCTTTGGCATAAAAG
1 TAAAGGACATGAAAATATTATAAAAGA-ATGAACCTATCCTAAATGTATACCTTTGGCATAAAAG
* * * * *** * *
383708 CAACCTGATGACTACCCAGGATTTGGTTTTAAGAAAAAATACCAAAATGCCCCAAGGGTATATCA
65 CAACCT-ATGACCAACTAGGATTTGGTTTTAAGAAAAATTACCAAAAAATCCCTAGGGTATACCA
* *
383773 TTAATGTTAAAGTACCTGATAATTT
129 TTAATGTGAAAGTACCTGATAATTG
** * *
383798 TAAAGGATGTGAAAATATTATAAAATG-ATGAACCTATCCTAAACGTATACCTTTGGTATAAAAG
1 TAAAGGACATGAAAATATTATAAAA-GAATGAACCTATCCTAAATGTATACCTTTGGCATAAAAG
* * *
383862 CGACCTAGTGA-CTACTTAGGATTTGGTTTTAAG-AAAATTACC--AGAATGCTCCTAGGGTATA
65 CAACCTA-TGACCAAC-TAGGATTTGGTTTTAAGAAAAATTACCAAAAAAT-C-CCTAGGGTATA
*
383923 CCATTGATGTGAAAGTA-CTCGATAATTG
126 CCATTAATGTGAAAGTACCT-GATAATTG
*
383951 TAAA-GACATGAAAATATTATAAAAGAATGAACCTATCCTAAATGTATACCTTTTGCATAAAA-C
1 TAAAGGACATGAAAATATTATAAAAGAATGAACCTATCCTAAATGTATACCTTTGGCATAAAAGC
* * * *
384014 AACCTCACGACCAACTAGGATTCT-ATTCTAAGAAAAATTACCAAAAAATCCCTAGGGTAGACC-
66 AACCT-ATGACCAACTAGGATT-TGGTTTTAAGAAAAATTACCAAAAAATCCCTAGGGTATACCA
* * *
384077 TTCAACGTGAATGTACCTAATAA
129 TT-AATGTGAAAGTACCTGATAA
384100 CCCTAAAAGA
Statistics
Matches: 500, Mismatches: 78, Indels: 66
0.78 0.12 0.10
Matches are distributed among these distances:
151 24 0.05
152 114 0.23
153 78 0.16
154 273 0.55
155 8 0.02
156 2 0.00
157 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (153 bp):
TAAAGGACATGAAAATATTATAAAAGAATGAACCTATCCTAAATGTATACCTTTGGCATAAAAGC
AACCTATGACCAACTAGGATTTGGTTTTAAGAAAAATTACCAAAAAATCCCTAGGGTATACCATT
AATGTGAAAGTACCTGATAATTG
Found at i:387613 original size:67 final size:68
Alignment explanation
Indices: 387502--387631 Score: 165
Period size: 67 Copynumber: 1.9 Consensus size: 68
387492 AACCAAAGTC
* *
387502 AAAAAGGGTATTGACCAGGGTGAAACCGATAAAGTCAACCAAAAGAGACTAGGGTAGAACCTACA
1 AAAAAGGGTATGGACCAGGGTGAAACCGATAAAGTCAACCAAAAGAGACCAGGGTAGAACCTACA
387567 TTG
66 TTG
* * ** * *
387570 AAAAA-GGTATGGACTAGGGTGAAACTGATAAAG-CTAATTAAAAGAGACCAGTGTGGAACCTA
1 AAAAAGGGTATGGACCAGGGTGAAACCGATAAAGTC-AACCAAAAGAGACCAGGGTAGAACCTA
387632 TAGAGTCAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 1 0.02
67 47 0.89
68 5 0.09
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (68 bp):
AAAAAGGGTATGGACCAGGGTGAAACCGATAAAGTCAACCAAAAGAGACCAGGGTAGAACCTACA
TTG
Found at i:387738 original size:41 final size:40
Alignment explanation
Indices: 387693--387800 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 40
387683 AAATTAGGAA
387693 GGTTGACTAAGGTGAAACTGATAAAGTCAAAAAGTTAAAGG
1 GGTTGAC-AAGGTGAAACTGATAAAGTCAAAAAGTTAAAGG
* ** ** * * *
387734 GGTTGGGCAAGACGAAACCAATAAAGCCAACAAGTTAGAGG
1 GGTT-GACAAGGTGAAACTGATAAAGTCAAAAAGTTAAAGG
*
387775 GGTTGACCAGGTGAAA-TAGATAAAGT
1 GGTTGACAAGGTGAAACT-GATAAAGT
387801 TAACCAATTA
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
40 14 0.28
41 34 0.68
42 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.19
Consensus pattern (40 bp):
GGTTGACAAGGTGAAACTGATAAAGTCAAAAAGTTAAAGG
Found at i:388031 original size:162 final size:162
Alignment explanation
Indices: 387767--388075 Score: 359
Period size: 162 Copynumber: 1.9 Consensus size: 162
387757 AAGCCAACAA
* * * *
387767 GTTAGAGGGGTTGACCAGGTGAAATAGATAAAGTTAACCAATTAGAAGGGTTGGCCAGGGCAAAA
1 GTTAGAGGGGTTGACCAGGTGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCAAAA
* * * * *** *
387832 CCGATAAAGCTAATAGGTTAAAAAGGTTGACTAGGGCAATATTGATAAAGTCAATCAATTA-AGG
66 CCGATAAAGCCAACAAGTTAAAAAGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAGG
*
387896 GGTCAGCTAAGGCGAAAATGATAAAACCAAAG
131 GGTCAGCCAAGGCGAAAATGATAAAACCAAAG
* * * * *
387928 GTTAGAGTGGTTGACCAGGGTGAAACCGATAAAGTGAACCAATTGGAAGGCTTGGCGAAGGCGAA
1 GTTAGAGGGGTTGACCA-GGTGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCAAA
** * ** * *
387993 ATGGATAAAGCCAACAAGTTAGAGGGGTTAATTAGGGCAATACCAATCAAGTCAACCAATTAGAG
65 ACCGATAAAGCCAACAAGTTAAAAAGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAG
* *
388058 GGGTTAGCCATGGCGAAA
130 GGGTCAGCCAAGGCGAAA
388076 TCGACAAAGC
Statistics
Matches: 119, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
161 16 0.13
162 86 0.72
163 17 0.14
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (162 bp):
GTTAGAGGGGTTGACCAGGTGAAACAGATAAAGTGAACCAATTAGAAGGCTTGGCCAAGGCAAAA
CCGATAAAGCCAACAAGTTAAAAAGGTTAACTAGGGCAATACCAATAAAGTCAACCAATTAGAGG
GGTCAGCCAAGGCGAAAATGATAAAACCAAAG
Found at i:388167 original size:82 final size:82
Alignment explanation
Indices: 387626--388289 Score: 300
Period size: 82 Copynumber: 8.1 Consensus size: 82
387616 ACCAGTGTGG
* * * * * * * *
387626 AACCTATAGAGTCAACCAGTTAGAGGGGTTAGCCAAGGCAAAACCAATAAAGTCAACAAATTAG-
1 AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGATTAGA
* **
387690 GAAGGTTGACTAAGGTGA
66 G-AGGTTGACTAGGGCAA
** * * * * * * *
387708 AACTGATAAAGTCAA-AAAGTTAAAGGGGTTGGGCAAGACGAAACCAATAAAGCCAACA-AGTTA
1 AACCAATAAAGTCAACCAA-TTAAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGA-TTA
* *
387771 GAGGGGTTGACCAGGTG-AA
64 GAGAGGTTGACTAGG-GCAA
* * * * * * * *
387790 ATA--GATAAAGTTAACCAATTAGAA-GGGTTGGCCAGGGCAAAACCGATAAAGCTAATAGGTTA
1 A-ACCAATAAAGTCAACCAATTA-AAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGATTA
* *
387852 AAAAGGTTGACTAGGGCAA
64 GAGAGGTTGACTAGGGCAA
* *** * * * * *
387871 TATTGATAAAGTCAATCAATT-AAGGGGTCAGCTAAGGCGAAAAT-GATAAAACCAA-AGGTTAG
1 AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGC-AAAATCGATAAAGCCAACAGATTAG
* * **
387933 AGTGGTTGACCAGGGTGA
65 AGAGGTTGACTAGGGCAA
* * * * * * * *
387951 AACCGATAAAGTGAACCAATTGGAA-GGCTTGGCGAAGGCGAAATGGATAAAGCCAACA-AGTTA
1 AACCAATAAAGTCAACCAATT-AAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGA-TTA
* * *
388014 GAGGGGTTAATTAGGGCAA
64 GAGAGGTTGACTAGGGCAA
* * * * * * * *
388033 TACCAATCAAGTCAACCAATTAGAGGGGTTAGCCATGGCGAAATCGACAAAGCTAACAGATTTGA
1 AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGATTAGA
*
388098 GAGGTTGACTAAGGCAA
66 GAGGTTGACTAGGGCAA
** * * * ** *
388115 AATTAATAAAGTCAACCAATTAAAGGGGTTAGCTAGGGCAAAATTGATAAAGCCATTAGATTTGA
1 AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGATTAGA
* * * * *
388180 -AGGGTTAACCAAGACGA
66 GA-GGTTGACTAGGGCAA
* * * * ** *
388197 AACCGATAAAGTCAACCAATTAGA-TGGTTAGCTAAGGTGAAA-CTGATAAAGCCAATAGATTTA
1 AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGCAAAATC-GATAAAGCCAACAGA-TTA
* *
388260 -AG-GCATTGACTAGGGCGA
64 GAGAG-GTTGACTAGGGCAA
*
388278 AACAAATAAAGT
1 AACCAATAAAGT
388290 TAATAAATTC
Statistics
Matches: 441, Mismatches: 116, Indels: 51
0.73 0.19 0.08
Matches are distributed among these distances:
80 44 0.10
81 146 0.33
82 247 0.56
83 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (82 bp):
AACCAATAAAGTCAACCAATTAAAGGGGTTAGCCAAGGCAAAATCGATAAAGCCAACAGATTAGA
GAGGTTGACTAGGGCAA
Found at i:388540 original size:41 final size:39
Alignment explanation
Indices: 388495--388762 Score: 117
Period size: 41 Copynumber: 6.6 Consensus size: 39
388485 GGGGTTCGTC
388495 AGGGCAAAA-TCGATAAAGCCAACAGGTTTGAGGGGTTGACT
1 AGGGCAAAACT-GATAAAGCCAACA--TTTGAGGGGTTGACT
** *
388536 AGGGCAAAACTGATAAAATCAATCTATTTGAGGGGTTGGCT
1 AGGGCAAAACTGATAAAGCCAA-C-ATTTGAGGGGTTGACT
* * * * *
388577 AGAGCAAAACTAATAAAGCTAATAAATTTGAGGGGTTAACT
1 AGGGCAAAACTGATAAAGC-CA-ACATTTGAGGGGTTGACT
* ** * * * *
388618 AGGGCCAAAA-TTATAAAATCAACCAATTTGACGAGTTGGCC
1 AGGG-CAAAACTGATAAAGCCAA-C-ATTTGAGGGGTTGACT
* * * * * *
388659 AAGGCAAAACTGATCAAGCCAATAGGTTGAAGAGGTTGACC
1 AGGGCAAAACTGATAAAGCCAACA-TTTG-AGGGGTTGACT
* ** * * * *
388700 AAGGTGAAACCGATAAAGTCAATCAATTAGAGGGGTTGGCT
1 AGGGCAAAACTGATAAAGCCAA-C-ATTTGAGGGGTTGACT
** *
388741 AGGGTGAAACCGATAAAGCCAA
1 AGGGCAAAACTGATAAAGCCAA
388763 TAGATTTAAA
Statistics
Matches: 168, Mismatches: 46, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 144 0.86
42 10 0.06
43 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (39 bp):
AGGGCAAAACTGATAAAGCCAACATTTGAGGGGTTGACT
Found at i:388716 original size:82 final size:82
Alignment explanation
Indices: 388630--388812 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 82
388620 GGCCAAAATT
* * * * *
388630 ATAAAATCAACCAATTTGACGAGTTGGCCAAGGCAAAACTGATCAAGCCAATAGGTTG-AAGAGG
1 ATAAAGTCAACCAATTAGACGAGTTGGCCAAGGCAAAACCGATAAAGCCAATAGATTGAAAG-GG
* * *
388694 TTGACCAAGGTGAAACCG
65 TTGACCAAGATAAAACCA
* * * * * ** *
388712 ATAAAGTCAATCAATTAGAGGGGTTGGCTAGGGTGAAACCGATAAAGCCAATAGATTTAAAGGGT
1 ATAAAGTCAACCAATTAGACGAGTTGGCCAAGGCAAAACCGATAAAGCCAATAGATTGAAAGGGT
*
388777 TGACTAAGATAAAACCA
66 TGACCAAGATAAAACCA
388794 ATAAAGTCAACCAATTAGA
1 ATAAAGTCAACCAATTAGA
388813 GGGGTTAGCT
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
82 79 0.96
83 3 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (82 bp):
ATAAAGTCAACCAATTAGACGAGTTGGCCAAGGCAAAACCGATAAAGCCAATAGATTGAAAGGGT
TGACCAAGATAAAACCA
Found at i:388792 original size:41 final size:40
Alignment explanation
Indices: 388659--388879 Score: 119
Period size: 41 Copynumber: 5.4 Consensus size: 40
388649 CGAGTTGGCC
* * * * * *
388659 AAGGCAAAACTGATCAAGCCAATAGGTTGAAGAGGTTGACC
1 AAGGTAAAACCGATAAAGCCAATAGATTAAAG-GGTTGACT
* * * *
388700 AAGGTGAAACCGATAAAGTCAATCA-ATTAGAGGGGTTGGCT
1 AAGGTAAAACCGATAAAGCCAAT-AGATTA-AAGGGTTGACT
* *
388741 AGGGTGAAACCGATAAAGCCAATAGATTTAAAGGGTTGACT
1 AAGGTAAAACCGATAAAGCCAATAGA-TTAAAGGGTTGACT
* * * * *
388782 AAGATAAAACCAATAAAGTCAACCA-ATTAGAGGGGTT-AGCT
1 AAGGTAAAACCGATAAAGCCAA-TAGATTA-AAGGGTTGA-CT
* * * * *
388823 AAGGTGAAGCC-ATAAAGCCAACA-AGTTAAAGATGTTGACC
1 AAGGTAAAACCGATAAAGCCAATAGA-TTAAAG-GGTTGACT
*
388863 AAGGTAAAATCGATAAA
1 AAGGTAAAACCGATAAA
388880 TTTAACAAAT
Statistics
Matches: 138, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
39 5 0.04
40 29 0.21
41 97 0.70
42 7 0.05
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.19
Consensus pattern (40 bp):
AAGGTAAAACCGATAAAGCCAATAGATTAAAGGGTTGACT
Found at i:388813 original size:82 final size:82
Alignment explanation
Indices: 388665--389021 Score: 311
Period size: 82 Copynumber: 4.4 Consensus size: 82
388655 GGCCAAGGCA
* * * * * *
388665 AAACTGATCAAGCCAATAG-GTTGAAGAGGTTGACCAAGGTGAAACCGATAAAGTCAATCAATTA
1 AAACCGATAAAGCCAATAGAGTTAAAG-GGTTGACCAAGATAAAACCGATAAAGTCAACCAATTA
* **
388729 GAGGGGTTGGCTAGGGTG
65 GAGGGGTTAGCTAAAGTG
* * *
388747 AAACCGATAAAGCCAATAGATTTAAAGGGTTGACTAAGATAAAACCAATAAAGTCAACCAATTAG
1 AAACCGATAAAGCCAATAGAGTTAAAGGGTTGACCAAGATAAAACCGATAAAGTCAACCAATTAG
*
388812 AGGGGTTAGCTAAGGTG
66 AGGGGTTAGCTAAAGTG
* * * * * * * *
388829 AAGCC-ATAAAGCCAACA-AGTTAAAGATGTTGACCAAGGTAAAATCGATAAATTTAACAAATTA
1 AAACCGATAAAGCCAATAGAGTTAAAG-GGTTGACCAAGATAAAACCGATAAAGTCAACCAATTA
* *
388892 GA-GGGTTAGCTAGAGCG
65 GAGGGGTTAGCTAAAGTG
** * * * *
388909 AAACTAAT-AAGCC-ATTGAGTTAGAAGGGTTAACCAAGGA-AAAA-CTATAAAGTCAACTAATT
1 AAACCGATAAAGCCAATAGAGTTA-AAGGGTTGACCAA-GATAAAACCGATAAAGTCAACCAATT
* *
388970 AGAGGGATT-GGTCAAAGTG
64 AGAGGGGTTAGCT-AAAGTG
*
388989 AAACCGATGAAGCCAATAG-GTTAAAGGGTTGAC
1 AAACCGATAAAGCCAATAGAGTTAAAGGGTTGAC
389022 AGGGCAAAAC
Statistics
Matches: 221, Mismatches: 44, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
79 20 0.09
80 67 0.30
81 57 0.26
82 72 0.33
83 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (82 bp):
AAACCGATAAAGCCAATAGAGTTAAAGGGTTGACCAAGATAAAACCGATAAAGTCAACCAATTAG
AGGGGTTAGCTAAAGTG
Found at i:389016 original size:80 final size:80
Alignment explanation
Indices: 388665--389044 Score: 290
Period size: 80 Copynumber: 4.7 Consensus size: 80
388655 GGCCAAGGCA
* * * * *
388665 AAACTGATCAAGCCAATAGGTTGAAGAGGTTGACCAAGGTGAAACCGATAAAGTCAA-TCAATTA
1 AAACCGATAAAGCCAATAGGTTAAAG-GGTTGACCAAGG-AAAAACGATAAAGTCAACT-AATTA
* **
388729 GAGGGGTTGGCTAGGGTG
63 GAGGGGTTAGCTAAAGTG
* * * *
388747 AAACCGATAAAGCCAATAGATTTAAAGGGTTGACTAA-GATAAAACCAATAAAGTCAACCAATTA
1 AAACCGATAAAGCCAATAG-GTTAAAGGGTTGACCAAGGA-AAAA-CGATAAAGTCAACTAATTA
*
388811 GAGGGGTTAGCTAAGGTG
63 GAGGGGTTAGCTAAAGTG
* * * * * * * *
388829 AAGCC-ATAAAGCCAACAAGTTAAAGATGTTGACCAAGGTAAAATCGATAAATTTAACAAATTAG
1 AAACCGATAAAGCCAATAGGTTAAAG-GGTTGACCAAGG-AAAAACGATAAAGTCAACTAATTAG
* *
388893 A-GGGTTAGCTAGAGCG
64 AGGGGTTAGCTAAAGTG
** * * *
388909 AAACTAAT-AAGCC-ATTGAGTTAGAAGGGTTAACCAAGGAAAAACTATAAAGTCAACTAATTAG
1 AAACCGATAAAGCCAATAG-GTTA-AAGGGTTGACCAAGGAAAAACGATAAAGTCAACTAATTAG
* *
388972 AGGGATT-GGTCAAAGTG
64 AGGGGTTAGCT-AAAGTG
* * * *
388989 AAACCGATGAAGCCAATAGGTTAAAGGGTTGA-CAGGGCAAAACTGATAAAGACAAC
1 AAACCGATAAAGCCAATAGGTTAAAGGGTTGACCAAGGAAAAAC-GATAAAGTCAAC
389045 CATTTATAAG
Statistics
Matches: 234, Mismatches: 49, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
79 33 0.14
80 72 0.31
81 54 0.23
82 69 0.29
83 6 0.03
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (80 bp):
AAACCGATAAAGCCAATAGGTTAAAGGGTTGACCAAGGAAAAACGATAAAGTCAACTAATTAGAG
GGGTTAGCTAAAGTG
Found at i:389739 original size:77 final size:76
Alignment explanation
Indices: 389545--389904 Score: 363
Period size: 76 Copynumber: 4.7 Consensus size: 76
389535 GAAGACAACA
** * * *
389545 ATGGGGAATATACGGTATCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAG-CTGAAG
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAA-CAGCCTGAAG
389609 GAAAAGAACATG
65 GAAAAGAACATG
* * * * **
389621 ATGGGGAATACGTGGTTTCTAAAATTTTCATTAATAGCCAAAACAAACTAATAACAGCCCCCAA-
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAACAG-CCTGAAG
*
389685 AAAAAGGAACATG
65 GAAAA-GAACATG
* ** * * * *
389698 ATAGGGAATATGTTATTTCTAAAATTTTTATCAACAACCAAAATAAAC-AGATAATAGGCTGAAG
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTA-ATAACAGCCTGAAG
389762 GAAAAGAACA-G
65 GAAAAGAACATG
* * * * *
389773 ATGGGGAATATGTGGTTTCTAAAAATTTTTATCAGCAGTC-GAACAAACTGATAAC-GACTTGAA
1 ATGGGGAATATGTGGTTTCT-AAAATTTTTATCAACAGCCAAAACAAACTAATAACAG-CCTGAA
389836 GGAAAAGGAACATG
64 GGAAAA-GAACATG
* * * *
389850 ATGGGGAATATGTTGTTTCTAAAATTTTTATCAACGGCCAAAATAAATTAATAAC
1 ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAAC
389905 GAGTGATAAT
Statistics
Matches: 227, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
74 1 0.00
75 40 0.18
76 96 0.42
77 90 0.40
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (76 bp):
ATGGGGAATATGTGGTTTCTAAAATTTTTATCAACAGCCAAAACAAACTAATAACAGCCTGAAGG
AAAAGAACATG
Found at i:389861 original size:152 final size:153
Alignment explanation
Indices: 389562--389903 Score: 440
Period size: 152 Copynumber: 2.2 Consensus size: 153
389552 ATATACGGTA
*
389562 TCTAAAATTTTTATCAACAGCCAAAACAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
1 TCTAAAATTTTTATCAACAGCCAAAATAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
* * *
389627 AATACGTGGTTTCTAAAATTTTCATTAATAGCCAAAACAAACTAATAACAGCCCCCAAAAAAAGG
66 AATACGTGGTTTCTAAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAAAAAAAGG
389692 AACATGATAGGGAATATGTTATT
131 AACATGATAGGGAATATGTTATT
* * *
389715 TCTAAAATTTTTATCAACAACCAAAATAAACA-GATAATAGGCTGAAGGAAAAGAACA-GATGGG
1 TCTAAAATTTTTATCAACAGCCAAAATAAA-ATAATAATAAGCTGAAGGAAAAGAACATGATGGG
* * * * * * *** *
389778 GAATATGTGGTTTCTAAAAATTTTTATCAGCAGTC-GAACAAACTGATAAC-GACTTGAAGGAAA
65 GAATACGTGGTTTCT-AAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAA-AAAA
* *
389841 AGGAACATGATGGGGAATATGTTGTT
128 AGGAACATGATAGGGAATATGTTATT
* *
389867 TCTAAAATTTTTATCAACGGCCAAAATAAATTAATAA
1 TCTAAAATTTTTATCAACAGCCAAAATAAAATAATAA
389904 CGAGTGATAA
Statistics
Matches: 162, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
151 4 0.02
152 92 0.57
153 65 0.40
154 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (153 bp):
TCTAAAATTTTTATCAACAGCCAAAATAAAATAATAATAAGCTGAAGGAAAAGAACATGATGGGG
AATACGTGGTTTCTAAAATTTTCATCAACAGCCAAAACAAACTAATAACAGACCCCAAAAAAAGG
AACATGATAGGGAATATGTTATT
Found at i:390111 original size:60 final size:61
Alignment explanation
Indices: 390012--390880 Score: 404
Period size: 60 Copynumber: 14.5 Consensus size: 61
390002 AAATGGTTTG
* * * * * *
390012 GATAAAACCAGAAACCTAAACAATAACATA-GGCATAACCAAGACTTAATGAAATCGCTTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* * ** *
390072 GATAAAACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAAT--CACTT
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGC-CTA
* * * * * * *
390131 GAATAAAACTAGAAACCTAAATAATGACTTA-GGTAAAATCGAGACTCAA-GAAAATGGCCTA
1 G-ATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATG-AAATGGCCTA
* ** * * * * * ** *
390192 GATGAAACCTGAAACCTAAACAATAACTT-GGGCGAAACTAAGAGTCAATGAAATGATCTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* * * ** * *
390252 GATAAAATCAAAAACCTAAACAAAGA-TTTGGGTGAAACCAAGATTTAAGGAAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* * ** *
390312 GATAAAATCAAAATCCTAAACAATGACTT-GGGCAAAATAAAGACTTAAAGAAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
** * * * * * * * * * *
390372 GATAAAATTAGAAACCTAAATAATGACTT-TGGTAAAA-TAAGGGC-TCAGGAAAATTGCCTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAA-GACTTAATG-AAATGGCCTA
* ** * * * * *
390432 GATGAAATTACAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAAT-AAATGGCCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* ** * * * ** *
390492 AACGAAACTAGAAAA-CTAAATAATGACTTA-GGCAAAACCAAGACTCAACAAAATGACCTA
1 GATAAAACCA-AAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* * * ** * * * **
390552 AATGAAACTAGAAAAAGTAAACAATAACTTA-GACGAAACCAAGA-TTGAATGAAATGATCTA
1 GATAAAACCA-AAAACCTAAACAATGACTTAGGGCAAAACCAAGACTT-AATGAAATGGCCTA
* * * * * * *
390613 GATAAAATCAAAAACCTAAATAAAGA-TTCAGATG--AAACCAAGA-TTCAACGAAATGGCTTG
1 GATAAAACCAAAAACCTAAACAATGACTT-AG-GGCAAAACCAAGACTT-AATGAAATGGCCTA
* * * * * * * *
390673 GATAAGACCAAAACCCTAAACAATGACTT-GGGCAAAACCAAAACTCAAAGAAATAGCTTG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
* * * * * * * *
390733 GATAAGACTAGAAACCTAAACAGTGACCTA-GGTAAAACCAAGACTCAA-GAAAATGGCCTGG
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATG-AAATGGCCT-A
* * * * * ** *
390794 GA-GAAACCAAAAACCTAAATAATGACTTA-AGTAAAACCAAGACTAAAAAAAATGACCTA
1 GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
*** *
390853 GATAAAACTTGAAACCTAAACTATGACT
1 GATAAAACCAAAAACCTAAACAATGACT
390881 ATATATGAAC
Statistics
Matches: 622, Mismatches: 155, Indels: 64
0.74 0.18 0.08
Matches are distributed among these distances:
58 2 0.00
59 39 0.06
60 504 0.81
61 72 0.12
62 5 0.01
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (61 bp):
GATAAAACCAAAAACCTAAACAATGACTTAGGGCAAAACCAAGACTTAATGAAATGGCCTA
Found at i:390257 original size:120 final size:118
Alignment explanation
Indices: 390012--390880 Score: 515
Period size: 120 Copynumber: 7.2 Consensus size: 118
390002 AAATGGTTTG
* * * * * * * * * *
390012 GATAAAACCAGAAACCTAAACAATAACATAGGCATAACCAAGACTTAATG-AAATCGCTTAGATA
1 GATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAA-GAAAATGGCCTAGATG
* * * * ** * *
390076 AAACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAATCA-CTT
65 AAA-CTAAAACCTAAACAATGACTT-GGGC-AAACCAAGACTCAATGAAATGACCTA
* *
390131 GAATAAAACTAGAAACCTAAATAATGACTTAGGTAAAATCGAGACTCAAGAAAATGGCCTAGATG
1 G-ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAAGAAAATGGCCTAGATG
* * * * * *
390196 AAACCTGAAACCTAAACAATAACTTGGGCGAAACTAAGAGTCAATGAAATGATCTG
65 AAA-CTAAAACCTAAACAATGACTTGGGC-AAACCAAGACTCAATGAAATGACCTA
* * * * * * * * *
390252 GATAAAA-TCAAAAACCTAAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAGAT-
1 GATAAAACT-AGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAAGAAAATGGCCTAGATG
* ** * * *
390315 AAAATCAAAATCCTAAACAATGACTTGGGCAAAATAAAGACTTAAAGAAATGGCCTA
65 AAACT-AAAA-CCTAAACAATGACTTGGGC-AAACCAAGACTCAATGAAATGACCTA
* * * * * * *
390372 GATAAAATTAGAAACCTAAATAATGACTTTGGTAAAA-TAAGGGCTCAGGAAAATTGCCTGGATG
1 GATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAA-GACTCAAGAAAATGGCCTAGATG
* * * * * *
390436 AAATTACAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAAT-AAATGGCCTA
65 AAACTA-AAACCTAAACAATGACTT-GGGCA-AACCAAGACTCAATGAAATGACCTA
* ** * * * * *
390492 AACGAAACTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGA
1 GATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAAGAAAATGGCCTAGATGA
** * * * * * *
390557 AACTAGAAAAAGTAAACAATAACTTAGACGAAACCAAGATTGAATGAAATGATCTA
66 AACT--AAAACCTAAACAATGACTTGGGC-AAACCAAGACTCAATGAAATGACCTA
* * * * * * *
390613 GATAAAA-TCAAAAACCTAAATAAAGA-TTCAGATGAAACCAAGATTCAACG-AAATGGCTTGGA
1 GATAAAACT-AGAAACCTAAATAATGACTT-AGGTAAAACCAAGACTCAA-GAAAATGGCCTAGA
* * * * *
390675 T-AAGACCAAAACCCTAAACAATGACTTGGGCAAAACCAAAACTCAAAGAAAT-AGCTTG
63 TGAA-ACTAAAA-CCTAAACAATGACTTGGGC-AAACCAAGACTCAATGAAATGA-CCTA
* * * * *
390733 GATAAGACTAGAAACCTAAACAGTGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGA-G
1 GATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAAGAAAATGGCCT-AGATG
* * * ** * **
390797 AAACCAAAAACCTAAATAATGACTTAAGTAAAACCAAGACTAAAAAAAATGACCTA
65 AAA-CTAAAACCTAAACAATGACTT-GGGCAAACCAAGACTCAATGAAATGACCTA
*
390853 GATAAAACTTGAAACCTAAACT-ATGACT
1 GATAAAACTAGAAACCTAAA-TAATGACT
390881 ATATATGAAC
Statistics
Matches: 567, Mismatches: 150, Indels: 65
0.73 0.19 0.08
Matches are distributed among these distances:
118 1 0.00
119 17 0.03
120 430 0.76
121 118 0.21
122 1 0.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (118 bp):
GATAAAACTAGAAACCTAAATAATGACTTAGGTAAAACCAAGACTCAAGAAAATGGCCTAGATGA
AACTAAAACCTAAACAATGACTTGGGCAAACCAAGACTCAATGAAATGACCTA
Found at i:390339 original size:180 final size:176
Alignment explanation
Indices: 390133--390754 Score: 502
Period size: 180 Copynumber: 3.4 Consensus size: 176
390123 AATCACTTGA
* * *
390133 ATAAAACTAGAAACCTAAATAATGACTTAGGTAAAATCGAGACTCAAGAAAATGGCCTAGATGAA
1 ATAAAAC-A-AAACCTAAACAATGACTTAGGCAAAATCAAGACTCAA-AAAATGGCCTAGATGAA
*
390198 ACCT-GAAACCTAAACAATAACTTGGGCGAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
63 A-CTAGAAACCTAAACAATAACTTAGGCGAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
* *
390262 AAAACCTAAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAG
127 AAAACCTAAATAAAGATTAGGGTGAAACCAAGATTTAA-GAAATGGCCTAG
* * * *
390313 ATAAAATCAAAATCCTAAACAATGACTTGGGCAAAATAAAGACTTAAAGAAATGGCCTAGATAAA
1 ATAAAA-CAAAA-CCTAAACAATGACTTAGGCAAAATCAAGACTCAAA-AAATGGCCTAGATGAA
* * * * * * * * * *
390378 ATTAGAAACCTAAATAATGACTTTGG-TAAAATAAGGGCTC-AGGAAAATTG-CCTGGATGAAAT
63 ACTAGAAACCTAAACAATAACTTAGGCGAAACTAAGAG-TCAATG-AAA-TGATCTGGATAAAAT
* * * * * * * * *
390440 TACAAACCTAAATAATGACTTAGGG-CATAAGCAAAACTTAATAAATGGCCTAA
125 CAAAAACCTAAATAAAGA-TTAGGGTGA-AACCAAGATTTAAGAAATGGCCTAG
** * * * * *
390493 ACGAAACTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGAA
1 ATAAAAC-A-AAACCTAAACAATGACTTAGGCAAAATCAAGACTCAA-AAAATGGCCTAGATGAA
** * * * * *
390558 ACTAGAAAAAGTAAACAATAACTTAGACGAAACCAAGATTGAATGAAATGATCTAGATAAAATCA
63 ACTAG-AAACCTAAACAATAACTTAGGCGAAACTAAGAGTCAATGAAATGATCTGGATAAAATCA
* * * *
390623 AAAACCTAAATAAAGATTCA-GATGAAACCAAGATTCAACGAAATGGCTTGG
127 AAAACCTAAATAAAGATT-AGGGTGAAACCAAGATTTAA-GAAATGGCCTAG
* * * * * * *
390674 ATAAGACCAAAACCCTAAACAATGACTTGGGCAAAACCAAAACTCAAAGAAATAGCTTGGAT-AA
1 ATAA-AACAAAA-CCTAAACAATGACTTAGGCAAAATCAAGACTCAAA-AAATGGCCTAGATGAA
390738 GACTAGAAACCTAAACA
63 -ACTAGAAACCTAAACA
390755 GTGACCTAGG
Statistics
Matches: 336, Mismatches: 83, Indels: 46
0.72 0.18 0.10
Matches are distributed among these distances:
179 16 0.05
180 189 0.56
181 121 0.36
182 10 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (176 bp):
ATAAAACAAAACCTAAACAATGACTTAGGCAAAATCAAGACTCAAAAAATGGCCTAGATGAAACT
AGAAACCTAAACAATAACTTAGGCGAAACTAAGAGTCAATGAAATGATCTGGATAAAATCAAAAA
CCTAAATAAAGATTAGGGTGAAACCAAGATTTAAGAAATGGCCTAG
Found at i:390608 original size:61 final size:60
Alignment explanation
Indices: 390482--390595 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 60
390472 AAAACTTAAT
* * * *
390482 AAATGGCCTAAACGAAACTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACA
1 AAATGACCTAAACGAAACTAGAAAACTAAACAATAACTTAGACAAAACCAAGACTCAACA
* * *
390542 AAATGACCTAAATGAAACTAGAAAAAGTAAACAATAACTTAGACGAAACCAAGA
1 AAATGACCTAAACGAAACTAG-AAAACTAAACAATAACTTAGACAAAACCAAGA
390596 TTGAATGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 19 0.41
61 27 0.59
ACGTcount: A:0.54, C:0.18, G:0.13, T:0.15
Consensus pattern (60 bp):
AAATGACCTAAACGAAACTAGAAAACTAAACAATAACTTAGACAAAACCAAGACTCAACA
Found at i:390668 original size:361 final size:360
Alignment explanation
Indices: 390012--390822 Score: 916
Period size: 361 Copynumber: 2.2 Consensus size: 360
390002 AAATGGTTTG
* * * * * * * **
390012 GATAAAACCAGAAACCTAAACAATAACATAGGCATAACCAAGACTTAATG-AAATCG-CTTAGAT
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAA-GAAAATGGCCTGGGA-
* * * * * * ** * * **
390075 AAAACCAAAAACCT-AACAATGACTTAGGACAAAACCAAAACTTAACAAAATCACTTGAATAAAA
64 GAAACCAAAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAA-TAAATGGCCTAAACGAAA
* * * * * * *
390139 CTAGAAACCTAAATAATGACTTAGGTAAAATCGAGACTCAAGAAAATGGCCTAGATGAAACCTGA
128 CTAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGAAACCTGA
* * * * *
390204 AACCTAAACAATAACTTGGGCGAAACTAAGAGTCAATGAAATGATCTGGATAAAATCAAAAACCT
193 AAACTAAACAATAACTTAGACGAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACCT
** * * * * *
390269 AAACAAAGATTTGGGTGAAACCAAGATTTAAGGAAATGGCCTAGATAAAATCAAAATCCTAAACA
258 AAACAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAACA
* * *
390334 ATGACTTGGGCAAAA-TAAAGACTTAAAGAAATGGCCTA
323 ATGACTTGGGCAAAACCAAA-ACTCAAAGAAATAGCCTA
* * * * * * * *
390372 GATAAAATTAGAAACCTAAATAATGACTTTGGTAAAA-TAAGGGCTCAGGAAAATTGCCT-GGAT
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAA-GACTCAAGAAAATGGCCTGGGA-
** *
390435 GAAATTACAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAATAAATGGCCTAAACGAAAC
64 GAAACCAAAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAATAAATGGCCTAAACGAAAC
390500 TAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGAAA-CTAGA
129 TAGAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGAAACCT-G-
* * *
390564 AAAAGTAAACAATAACTTAGACGAAACCAAGATTGAATGAAATGATCTAGATAAAATCAAAAACC
192 AAAACTAAACAATAACTTAGACGAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACC
* * * *
390629 TAAATAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCTTGGATAAGACCAAAACCCTAAAC
257 TAAACAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAAC
* *
390694 AATGACTTGGGCAAAACCAAAACTCAAAGAAATAGCTTG
322 AATGACTTGGGCAAAACCAAAACTCAAAGAAATAGCCTA
* *
390733 GATAAGACTAGAAACCTAAACAGTGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
1 GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
390798 AACCAAAAACCTAAATAATGACTTA
66 AACCAAAAACCTAAATAATGACTTA
390823 AGTAAAACCA
Statistics
Matches: 369, Mismatches: 73, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
359 5 0.01
360 116 0.31
361 240 0.65
362 8 0.02
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (360 bp):
GATAAAACTAGAAACCTAAACAATGACCTAGGTAAAACCAAGACTCAAGAAAATGGCCTGGGAGA
AACCAAAAACCTAAATAATGACTTAGGGCATAAGCAAAACTTAATAAATGGCCTAAACGAAACTA
GAAAACTAAATAATGACTTAGGCAAAACCAAGACTCAACAAAATGACCTAAATGAAACCTGAAAA
CTAAACAATAACTTAGACGAAACCAAGAGTCAATGAAATGATCTAGATAAAATCAAAAACCTAAA
CAAAGATTCAGATGAAACCAAGATTCAACGAAATGGCCTAGATAAAACCAAAACCCTAAACAATG
ACTTGGGCAAAACCAAAACTCAAAGAAATAGCCTA
Found at i:390703 original size:30 final size:30
Alignment explanation
Indices: 390664--390759 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
390654 GATTCAACGA
*
390664 AATGGCTTGGATAAGACCAAAACCCTAAAC
1 AATGACTTGGATAAGACCAAAACCCTAAAC
** * * *
390694 AATGACTTGGGCAAAACCAAAACTC-AAAGA
1 AATGACTTGGATAAGACCAAAACCCTAAA-C
*
390724 AAT-AGCTTGGATAAGACTAGAAA-CCTAAAC
1 AATGA-CTTGGATAAGACCA-AAACCCTAAAC
*
390754 AGTGAC
1 AATGAC
390760 CTAGGTAAAA
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
29 4 0.08
30 37 0.77
31 7 0.15
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.17
Consensus pattern (30 bp):
AATGACTTGGATAAGACCAAAACCCTAAAC
Found at i:391368 original size:44 final size:44
Alignment explanation
Indices: 391318--391465 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
391308 GCAGATGGAC
391318 ATGAAATAATGTC-AATGCAAACATCAATAAAGTGGCAAATATAT
1 ATGAAATAATG-CAAATGCAAACATCAATAAAGTGGCAAATATAT
* * ** * ** * *
391362 ATGAAATAATGCAAATACCAATGTCATTTAAAGT-TTAGATATGT
1 ATGAAATAATGCAAATGCAAACATCA-ATAAAGTGGCAAATATAT
* * * *
391406 GTGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGTAT
1 ATGAAATAATGCAAATGCAAACATCAATAAAGTGGCAAATATAT
*
391450 ATGAAATTATGCAAAT
1 ATGAAATAATGCAAAT
391466 ACCAATCTCA
Statistics
Matches: 77, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
43 7 0.09
44 64 0.83
45 6 0.08
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGAAATAATGCAAATGCAAACATCAATAAAGTGGCAAATATAT
Found at i:391433 original size:88 final size:88
Alignment explanation
Indices: 391283--391746 Score: 491
Period size: 88 Copynumber: 5.3 Consensus size: 88
391273 CCAGAACAAG
* * * * * *
391283 GCAAATGCCAATGTCATCTAACAATGCAGAT-GGACATGAAATAATGTCAA-TGCAAACATCAAT
1 GCAAATACCAATGTCATCTAA-AGTGCAGATATG-CGTGAAATGATG-CAACTGCAAGCATCAAT
**
391346 AAAGTGGCAAATATATATGAAATAAT
63 AAAGTGGCAAATGCATATGAAATAAT
* ** * *
391372 GCAAATACCAATGTCATTTAAAGTTTAGATATGTGTGAAATGATGCAAATGCAAGCATCAATAAA
1 GCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATCAATAAA
* *
391437 GTGGCAAATGTATATGAAATTAT
66 GTGGCAAATGCATATGAAATAAT
* * *** * * * * * * *
391460 GCAAATACCAATCTCATATAAAGTATTGATATACATGAAATAATACAGCTACAAGCACCAATAAA
1 GCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATCAATAAA
* *
391525 ATGGCAAATGCATATGAAATGAT
66 GTGGCAAATGCATATGAAATAAT
* * * *
391548 GCAAATACCAATGTCATCTAAAGTGCAGATGTGCGTGAAAAGATGCAGCCGCAAGCATCAATAAA
1 GCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATCAATAAA
* * *
391613 ATTGCAAATGCACATGAAATAAT
66 GTGGCAAATGCATATGAAATAAT
* * * * * *
391636 GCAAATACCAATGTTATCTAAAATGCAAATAAGTGTGAAATGATGCAACTGTAAGCATCAATAAA
1 GCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATCAATAAA
*
391701 GTGGGAAATGCATATGAAATAAT
66 GTGGCAAATGCATATGAAATAAT
*
391724 GCAAATGCCAATGTCATCTAAAG
1 GCAAATACCAATGTCATCTAAAG
391747 GTGTAGATGC
Statistics
Matches: 311, Mismatches: 62, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
87 3 0.01
88 288 0.93
89 20 0.06
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.24
Consensus pattern (88 bp):
GCAAATACCAATGTCATCTAAAGTGCAGATATGCGTGAAATGATGCAACTGCAAGCATCAATAAA
GTGGCAAATGCATATGAAATAAT
Found at i:392411 original size:112 final size:112
Alignment explanation
Indices: 392214--392434 Score: 291
Period size: 112 Copynumber: 2.0 Consensus size: 112
392204 AAAAACTTTG
* *
392214 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGATACGAATGGATCAA
1 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGACACGAATAGATCAA
* *
392279 ATCGTATAAAATATTAATTTCTTCGAAAAGCAAACAAATTTGATGTT
66 ATCGTATAAAACATGAATTTCTTCGAAAAGCAAACAAATTTGATGTT
* * * * *
392326 GTTGGCTCAAAAATTTCAAAATTGATAGGATACGTGCCCTACTTTT-CTAGGCACGAATAGATCA
1 GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTA-TTTTCCTAGACACGAATAGATCA
* * * * * *
392390 AGTTGTATGAAACATGAATTTCTTTGAAAATCAGACAAATTTGAT
65 AATCGTATAAAACATGAATTTCTTCGAAAAGCAAACAAATTTGAT
392435 ATTCTTTTAA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
112 89 0.96
113 4 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (112 bp):
GTTGGCACAAAAATTTCAAAACTAATAGGATACATGCCCTATTTTCCTAGACACGAATAGATCAA
ATCGTATAAAACATGAATTTCTTCGAAAAGCAAACAAATTTGATGTT
Found at i:394253 original size:5 final size:6
Alignment explanation
Indices: 394224--394256 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
394214 AATAACATAA
*
394224 AAAATG AAAATG AAAATG AAAAAG AAAA-G AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
394257 CCTTGGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:395420 original size:13 final size:13
Alignment explanation
Indices: 395402--395427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
395392 AATTTTTTTG
395402 TGTATCGATACAT
1 TGTATCGATACAT
395415 TGTATCGATACAT
1 TGTATCGATACAT
395428 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:395492 original size:21 final size:21
Alignment explanation
Indices: 395466--395541 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
395456 CTGCCAAGAA
395466 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
395487 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
395507 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
395528 ATGTATCGATACAT
1 ATGTATCGATACAT
395542 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:395511 original size:20 final size:20
Alignment explanation
Indices: 395486--395559 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
395476 ACATCTTTTT
395486 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
395506 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
395527 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
395547 CATGTATCGATAC
1 CATGTATCGATAC
395560 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:395523 original size:41 final size:41
Alignment explanation
Indices: 395466--395559 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
395456 CTGCCAAGAA
395466 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
395507 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
395548 ATGTATCGATAC
1 ATGTATCGATAC
395560 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:396211 original size:21 final size:21
Alignment explanation
Indices: 396187--396230 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
396177 TATTAATAAA
396187 TCTCCCCCTTAATCAA-GTAAT
1 TCTCCCCCTTAAT-AAGGTAAT
396208 TCTCCCCCTTAATAAGGTAAT
1 TCTCCCCCTTAATAAGGTAAT
396229 TC
1 TC
396231 ACGCATTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (21 bp):
TCTCCCCCTTAATAAGGTAAT
Found at i:396261 original size:82 final size:82
Alignment explanation
Indices: 396124--396291 Score: 327
Period size: 82 Copynumber: 2.0 Consensus size: 82
396114 GAATTTGTAC
396124 ATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAATAAATC
1 ATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAATAAATC
396189 TCCCCCTTAATCAAGTA
66 TCCCCCTTAATCAAGTA
*
396206 ATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCTGTTTATTAATAAATC
1 ATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAATAAATC
396271 TCCCCCTTAATCAAGTA
66 TCCCCCTTAATCAAGTA
396288 ATTC
1 ATTC
396292 ACATCAAAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.38
Consensus pattern (82 bp):
ATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAATAAATC
TCCCCCTTAATCAAGTA
Found at i:398111 original size:13 final size:13
Alignment explanation
Indices: 398093--398131 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
398083 ATAATCACCC
*
398093 TGTATCGATACAG
1 TGTATCGATACAA
398106 TGTATCGATACAA
1 TGTATCGATACAA
398119 TGTATCGATACAA
1 TGTATCGATACAA
398132 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:398142 original size:20 final size:20
Alignment explanation
Indices: 398117--398192 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
398107 GTATCGATAC
398117 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
398137 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
398162 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
398182 CATGTATCGAT
1 AATGTATCGAT
398193 TCATTTTGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 29 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:401983 original size:21 final size:21
Alignment explanation
Indices: 401954--401998 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
401944 AAGTTTTCAT
*
401954 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
401974 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
401996 TTT
1 TTT
401999 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:404231 original size:13 final size:13
Alignment explanation
Indices: 404213--404238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
404203 AATTTTTTTG
404213 TGTATCGATACAT
1 TGTATCGATACAT
404226 TGTATCGATACAT
1 TGTATCGATACAT
404239 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:404303 original size:21 final size:21
Alignment explanation
Indices: 404277--404352 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
404267 CTGCCAAGAA
404277 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
404298 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
404318 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
404339 ATGTATCGATACAT
1 ATGTATCGATACAT
404353 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:404322 original size:20 final size:20
Alignment explanation
Indices: 404297--404370 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
404287 ACATCTTTTT
404297 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
404317 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
404338 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
404358 CATGTATCGATAC
1 CATGTATCGATAC
404371 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:404334 original size:41 final size:41
Alignment explanation
Indices: 404277--404370 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
404267 CTGCCAAGAA
404277 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
404318 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
404359 ATGTATCGATAC
1 ATGTATCGATAC
404371 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:405603 original size:164 final size:163
Alignment explanation
Indices: 405265--405653 Score: 368
Period size: 164 Copynumber: 2.4 Consensus size: 163
405255 GACCTTGTTA
** * *
405265 TAAT-TTTAAAAAGTTTAAGGGTTTGCTTATAAATATTG-AAAATATTGTTCCAAGGCCAAAGTA
1 TAATATTTAAAAAGTTTAAGGGTTTAATTATAAATATTGAAAAATTTTGTTCCAAGGCCAAAATA
* * * *
405328 CTTGGCCGAATCTTTCTTGTAATTTTTGAATTTGATTTTTGTGTTGATTTTGATATTTTGATATT
66 CTTGGCCGAATCTTTCTTATAATTTTAGAATCTGATTTTTGTGTTGATTATGATATTTTGATATT
* * * * *
405393 TAATTTTGTGTTTAATTTCATAAAGATCAATTTG
131 TAATTTTATATTTAA-TACATAAAGACCAATTCG
* * * *
405427 TAATTTTTTAAAAGTTTAAGGGTTTAATTGTAAATATTGAAAAATTTTGTTCCAAGGCTAAAAT-
1 TAATATTTAAAAAGTTTAAGGGTTTAATTATAAATATTGAAAAATTTTGTTCCAAGGCCAAAATA
*
405491 CATTGGCTGAATCTATT-TTATAAGTTTTAG-ATCTGATTTTTAG-GTTGATTATGATGTATTTT
66 C-TTGGCCGAATCT-TTCTTATAA-TTTTAGAATCTGATTTTT-GTGTTGATTATGA--TATTTT
*
405553 -ATGTTTAATTTTATATTCTAA-ACATATAAGGACCAATTCG
125 GATATTTAATTTTATATT-TAATACATA-AA-GACCAATTCG
* * * * * *
405593 TAA-ATTTAAAAACTTT-AGGGGTTAATTCCTAAATAATTGAGAAA-TTTGTTCTAGGGCCAAA
1 TAATATTTAAAAAGTTTAAGGGTTTAATT-ATAAAT-ATTGAAAAATTTTGTTCCAAGGCCAAA
405654 GGAAGGTGGC
Statistics
Matches: 187, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
162 4 0.02
163 31 0.17
164 71 0.38
165 53 0.28
166 28 0.15
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (163 bp):
TAATATTTAAAAAGTTTAAGGGTTTAATTATAAATATTGAAAAATTTTGTTCCAAGGCCAAAATA
CTTGGCCGAATCTTTCTTATAATTTTAGAATCTGATTTTTGTGTTGATTATGATATTTTGATATT
TAATTTTATATTTAATACATAAAGACCAATTCG
Found at i:406382 original size:155 final size:157
Alignment explanation
Indices: 406021--406406 Score: 399
Period size: 155 Copynumber: 2.5 Consensus size: 157
406011 CCTTTTATGT
* * **
406021 TATTTTAGTGTCCATTAAGGTTACCGGGATACTTTCAC-ATCGAAAGTATACCCACAGAGGTATT
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTC-CTGTCGAAAGTATACCCACAGAGCCATT
* * * * * * *
406085 TTTGTAATTTTACAAAATCGAGTCCTAGGTTGTCATCGGGTTCGCTTTTATGTTAAAGGTGGGTA
65 TTCGTAATTTTACAAAATCGAGTCATAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTA
406150 TTTAGGATAGGTTCATCCCATCTATAAC
130 TTTAGGATAGGTTCATCCCATCTATAAC
* ** * * ** *
406178 TTTTTTCTTGTCCTTTAGGGTTATCGGGATACTTTTATGTCAAAAGTATACCCTA-AG-GCCATT
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCC-ACAGAGCCATT
** *
406241 TTCGTAATTTTTTAAGATCGAGTCATAGGTTGTCACCGAGAT-GCTTCTATGCTAAAGGTGGGTA
65 TTCGTAATTTTACAAAATCGAGTCATAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTA
* * *
406305 TTTAGGATAGGTTTATCCTATTGCT-TATC
130 TTTAGGATAGGTTCATCCCA-T-CTATAAC
* ** * **
406334 -ATTTTAGTGTCCACTAGGGTTACCAAGATACTTTCCTGTCGAAGGTATACCCATGGAG-CATTT
1 TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCCACAGAGCCATTT
*
406397 TTGTAATTTT
66 TCGTAATTTT
406407 CTTGAAACCT
Statistics
Matches: 184, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
154 1 0.01
155 93 0.51
156 43 0.23
157 46 0.25
158 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (157 bp):
TATTTTAGTGTCCATTAGGGTTACCGGGATACTTTCCTGTCGAAAGTATACCCACAGAGCCATTT
TCGTAATTTTACAAAATCGAGTCATAGGTTGTCACCGAGATCGCTTCTATGCTAAAGGTGGGTAT
TTAGGATAGGTTCATCCCATCTATAAC
Found at i:411490 original size:153 final size:153
Alignment explanation
Indices: 411290--411573 Score: 376
Period size: 153 Copynumber: 1.9 Consensus size: 153
411280 TCAGACTTGG
* * ** ** *
411290 TTCTTAAAAAATTACCAAAATACCCCTAAGGTATATTTTCGATATGAAAGTAGCC-AGTAA-TCT
1 TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTA-CCTAGTAATTC-
** ** *
411353 TAAAGG-ATGTAAAAATATTATAAAAGGATGAACCTATCCTAAATGTATACCTTTGGCAAAAAAG
64 T-AAGGAACATAAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAG
411417 CAACGCGACGACTACCTAGGACTCGA
128 CAACGCGACGACTACCTAGGACTCGA
* *
411443 TTCTAAAAAAATAACCAAAATGCCCTTAAGGTATACCTTAAACATGAAAGTACCTAGTAATTCTA
1 TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTACCTAGTAATTCTA
* *
411508 AGGAACATGAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCATAAAAGCAA
66 AGGAACATAAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAGCAA
411573 C
131 C
411574 CCGGTGACCA
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
152 6 0.05
153 104 0.93
154 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (153 bp):
TTCTAAAAAAATAACCAAAATACCCCTAAGGTATACCTTAAACATGAAAGTACCTAGTAATTCTA
AGGAACATAAAAATATTATAAAAGGATGAACCTATCCTAAACATATACCTTTAGCAAAAAAGCAA
CGCGACGACTACCTAGGACTCGA
Found at i:414938 original size:20 final size:20
Alignment explanation
Indices: 414913--415160 Score: 110
Period size: 20 Copynumber: 11.3 Consensus size: 20
414903 AAAATAAGAC
414913 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
414933 AGAATGTATCGATACAGTCA
1 AGAATGTATCGATACATTGA
* *
414953 TACG--TATATCGATGCATTGA
1 -A-GAATGTATCGATACATTGA
*
414973 AAAATGTATCGATACATCTGGGTAAAA
1 AGAATGTATCGATACAT-T--G----A
*
415000 AGATAAAATGTATCAATACATTGA
1 AG----AATGTATCGATACATTGA
* *
415024 AGAATGTATCGATACAGTCA
1 AGAATGTATCGATACATTGA
*
415044 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
415064 AAAATGTATCGATACATCTGGGTAAAAATA
1 AGAATGTATCGATACAT-T--G-------A
*
415094 TAGAATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
415115 AGAATGTATCGATACATCT-A
1 AGAATGTATCGATACAT-TGA
*
415135 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
415155 AGAATG
1 AGAATG
415161 ATCCTCTACC
Statistics
Matches: 173, Mismatches: 23, Indels: 64
0.67 0.09 0.25
Matches are distributed among these distances:
19 4 0.02
20 120 0.69
21 7 0.04
22 1 0.01
23 2 0.01
24 3 0.02
27 2 0.01
28 2 0.01
30 3 0.02
31 29 0.17
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:415036 original size:91 final size:91
Alignment explanation
Indices: 414863--415160 Score: 463
Period size: 91 Copynumber: 3.3 Consensus size: 91
414853 TTTTAACTAG
* * * * *
414863 ATGTATCGATACATTGAAAAATATATTGATACATCTGGGAAAAATAAGACAGAATGTATCGATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGG-TAAA-AAGATAGAATGTATCAATAC
414928 ATTGAAGAATGTATCGATACAGTCATAC
64 ATTGAAGAATGTATCGATACAGTCATAC
* * * *
414956 GTATATCGATGCATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAAAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
415021 TGAAGAATGTATCGATACAGTCATAC
66 TGAAGAATGTATCGATACAGTCATAC
*
415047 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAATATAGAATGTATCAATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
415112 TGAAGAATGTATCGATACA-TCTATAC
66 TGAAGAATGTATCGATACAGTC-ATAC
*
415138 ATGTATCGATACATTGAAGAATG
1 ATGTATCGATACATTGAAAAATG
415161 ATCCTCTACC
Statistics
Matches: 189, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
90 2 0.01
91 150 0.79
92 3 0.02
93 34 0.18
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACAT
TGAAGAATGTATCGATACAGTCATAC
Found at i:415776 original size:48 final size:48
Alignment explanation
Indices: 415719--415831 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 48
415709 CAATGTGGCA
*
415719 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGACACTGTGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
**
415767 ATTCAAGGCCATTGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
*
415815 ATTCAAGGCCAGCGACA
1 ATTCAAGGCCAACGACA
415832 AAAGTGGACA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (48 bp):
ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGACAATGTGCTG
Found at i:415842 original size:35 final size:35
Alignment explanation
Indices: 415796--415866 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
415786 GAGCTAAGGG
*
415796 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGAC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGAC
415831 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGAC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGAC
415866 A
1 A
415867 TTGAGTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (35 bp):
AAAAGTGGACAATATGCTGATTCAAGGCCAGCGAC
Found at i:415893 original size:83 final size:83
Alignment explanation
Indices: 415748--415914 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 83
415738 GAGCTAAGGG
* * ** *
415748 AAAAGTGGACACTGTGCTGATTCAAGGCCATTGACATTGAGCTAAGGGAAAAGTGGACAATGTGC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
415813 TGATTCAAGGCCAGCGAC
66 TGATTCAAGGCCAGCGAC
* *
415831 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGTTAAGGGAAAAATGGATAATGTGC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
415896 TGATTCAAGGCCAGCGAC
66 TGATTCAAGGCCAGCGAC
415914 A
1 A
415915 TTGAACTAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (83 bp):
AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
TGATTCAAGGCCAGCGAC
Found at i:415916 original size:48 final size:48
Alignment explanation
Indices: 415831--416019 Score: 315
Period size: 48 Copynumber: 3.9 Consensus size: 48
415821 GGCCAGCGAC
* *
415831 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGTTAAGGG
1 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGG
* * *
415879 AAAAATGGATAATGTGCTGATTCAAGGCCAGCGACATTGAACTAAGGG
1 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGG
*
415927 AAAAGTGGACAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGG
1 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGG
*
415975 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGATATTGAGCTAA
1 AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
416020 TAAAGGTGCC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 130 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (48 bp):
AAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGG
Found at i:415953 original size:131 final size:131
Alignment explanation
Indices: 415719--415962 Score: 407
Period size: 131 Copynumber: 1.9 Consensus size: 131
415709 CAATGTGGCA
* * **
415719 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGTGGACACTGTGCTGATTCAAGGCCATTGACA
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAATGGACAATGTGCTGATTCAAGGCCAGCGACA
*
415784 TTGAGCTAAGGGAAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACAAAAGTGGACAATATGCT
66 TTGAACTAAGGGAAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACAAAAGTGGACAATATGCT
415849 G
131 G
* * *
415850 ATTCAAGGCCAGCGACATTGAGTTAAGGGAAAAATGGATAATGTGCTGATTCAAGGCCAGCGACA
1 ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAATGGACAATGTGCTGATTCAAGGCCAGCGACA
*
415915 TTGAACTAAGGGAAAAGTGGACAATGTGCTGATTCAAGGCTAGCGACA
66 TTGAACTAAGGGAAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACA
415963 TTGAGCTAAG
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 104 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (131 bp):
ATTCAAGGCCAACGACATTGAGCTAAGGGAAAAATGGACAATGTGCTGATTCAAGGCCAGCGACA
TTGAACTAAGGGAAAAGTGGACAATGTGCTGATTCAAGGCCAGCGACAAAAGTGGACAATATGCT
G
Found at i:415995 original size:96 final size:96
Alignment explanation
Indices: 415831--416053 Score: 317
Period size: 96 Copynumber: 2.4 Consensus size: 96
415821 GGCCAGCGAC
* *
415831 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGTTAAGGGAAAAATGGATAATGTGC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
415896 TGATTCAAGGCCAGCGACATTGAACTAAGGG
66 TGATTCAAGGCCAGCGACATTGAACTAAGGG
* * *
415927 AAAAGTGGACAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGACAATGTGC
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
* * *
415992 TGATTCAAGGCCAGCGATATTGAGCTAA--T
66 TGATTCAAGGCCAGCGACATTGAACTAAGGG
* * * *
416021 AAAGGT-GCCAATATGTTGATTTAAGGCCAGCGA
1 AAAAGTGGACAATATGCTGATTCAAGGCCAGCGA
416054 TATCGGACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
93 22 0.19
94 5 0.04
96 86 0.76
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (96 bp):
AAAAGTGGACAATATGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAATGGACAATGTGC
TGATTCAAGGCCAGCGACATTGAACTAAGGG
Found at i:416232 original size:28 final size:28
Alignment explanation
Indices: 416175--416529 Score: 467
Period size: 28 Copynumber: 12.5 Consensus size: 28
416165 CACCGACTCG
* *
416175 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
416204 TGTGGGCTTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
416232 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
416260 TGTGGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
** *
416290 CATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416318 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416346 TATGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
* *
416375 TATGGGCTTTGAAAGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416403 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * ** *
416433 CGTGGGTTTTGAAAGAATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416461 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
416489 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
416517 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
416530 GAGATGTACG
Statistics
Matches: 288, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
28 195 0.68
29 54 0.19
30 39 0.14
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:416372 original size:143 final size:143
Alignment explanation
Indices: 416175--416529 Score: 561
Period size: 143 Copynumber: 2.5 Consensus size: 143
416165 CACCGACTCG
* * *
416175 TGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTG-AAGGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
*
416239 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAA
65 TTTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAA
*
416304 GGATGCCACTGACT
130 GAATGCCACTGACT
* * *
416318 TGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGAGTGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
* * * *
416383 TTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGTTTTGAAAG
66 TTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAAG
*
416448 AATGCCATTGACT
131 AATGCCACTGACT
*
416461 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
416525 TTGAA
66 TTGAA
416530 GAGATGTACG
Statistics
Matches: 194, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
142 50 0.26
143 144 0.74
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (143 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
TTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAAG
AATGCCACTGACT
Found at i:416469 original size:171 final size:171
Alignment explanation
Indices: 416177--416529 Score: 521
Period size: 171 Copynumber: 2.1 Consensus size: 171
416167 CCGACTCGTG
* * * *
416177 TGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAGGGGTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
* *
416242 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAAGGA
66 GAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGATACCACCGACTCATGGGCTTTGAAAGGA
*
416307 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTA
131 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTA
*
416348 TGGGCTTTGAAAGGAGTGCCACTGACTTATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
* * * ** **
416413 GAAAAGAGTTGCCACTGACTCGTGGGTTTTG-AAAGA-ATGCCATTGACTTGTGGGCTTTGAAAG
66 G-AAAG-GGTGCCACTGACTCGTGGGCTTTGAAAAGAGATACCACCGACTCATGGGCTTTGAAAG
* *
416476 GATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
129 GATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTA
416519 TGGGCTTTGAA
1 TGGGCTTTGAA
416530 GAGATGTACG
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
171 133 0.82
172 9 0.06
173 21 0.13
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (171 bp):
TGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTT
GAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGATACCACCGACTCATGGGCTTTGAAAGGA
TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTA
Done.