Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold333
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: 853475
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:363563 original size:33 final size:32
Alignment explanation
Indices: 363503--363567 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
363493 ACAATTGTTC
*
363503 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
363535 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
363568 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:365793 original size:20 final size:20
Alignment explanation
Indices: 365768--365821 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
365758 GTTTGAAGTA
*
365768 ATGTATCGATACAAT-TAATC
1 ATGTATCGATACAATGT-ACC
*
365788 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTACC
365808 ATGTATCGATACAA
1 ATGTATCGATACAA
365822 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:365910 original size:13 final size:13
Alignment explanation
Indices: 365892--365916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
365882 CAATGAATAC
365892 GTATCGATACAAT
1 GTATCGATACAAT
365905 GTATCGATACAA
1 GTATCGATACAA
365917 AGCATAATAT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:366539 original size:29 final size:30
Alignment explanation
Indices: 366490--366546 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
366480 TAAGGCTCTT
366490 GTTTAAAAAATTTTCTCCCCCTTGATAATC
1 GTTTAAAAAATTTTCTCCCCCTTGATAATC
*
366520 GTTTAAAAGATTTTC-CCCCCTTGATAA
1 GTTTAAAAAATTTTCTCCCCCTTGATAA
366547 AAATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
GTTTAAAAAATTTTCTCCCCCTTGATAATC
Found at i:366553 original size:29 final size:30
Alignment explanation
Indices: 366491--366553 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
366481 AAGGCTCTTG
***
366491 TTTAAAAAATTTTCTCCCCCTTGATAATCG
1 TTTAAAAAATTTTCTCCCCCTTGATAAAAA
*
366521 TTTAAAAGATTTTC-CCCCCTTGATAAAAA
1 TTTAAAAAATTTTCTCCCCCTTGATAAAAA
366550 TTTA
1 TTTA
366554 TTTTCAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (30 bp):
TTTAAAAAATTTTCTCCCCCTTGATAAAAA
Found at i:367109 original size:19 final size:21
Alignment explanation
Indices: 367085--367132 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
367075 TTTGTTGATG
367085 ATTTTG-A-TGAAAATGAAGT
1 ATTTTGAAGTGAAAATGAAGT
*
367104 ATTTTGAAGTGAAAATGAAGA
1 ATTTTGAAGTGAAAATGAAGT
*
367125 AATTTGAA
1 ATTTTGAA
367133 AAAGATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 18 0.72
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTGAAAATGAAGT
Found at i:367286 original size:13 final size:13
Alignment explanation
Indices: 367249--367288 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
367239 ATAGTAACCC
*
367249 ATGTATCGATACA
1 ATGTATCGATATA
* *
367262 TTGTATCAATATA
1 ATGTATCGATATA
367275 ATGTATCGATATA
1 ATGTATCGATATA
367288 A
1 A
367289 AGAATATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:373401 original size:18 final size:18
Alignment explanation
Indices: 373378--373473 Score: 115
Period size: 18 Copynumber: 5.3 Consensus size: 18
373368 TCTCGTAGCG
373378 ATGTATCGATACAATTCA
1 ATGTATCGATACAATTCA
* *
373396 ATGTATTGATAC-ATGCA
1 ATGTATCGATACAATTCA
373413 TATGTATCGATACAATTCA
1 -ATGTATCGATACAATTCA
** *
373432 ATGTATTAATAC-ATGCA
1 ATGTATCGATACAATTCA
373449 TATGTATCGATACAATTCA
1 -ATGTATCGATACAATTCA
373468 ATGTAT
1 ATGTAT
373474 TGAAACATGC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
17 8 0.12
18 48 0.75
19 8 0.12
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
ATGTATCGATACAATTCA
Found at i:373420 original size:36 final size:36
Alignment explanation
Indices: 373378--373485 Score: 198
Period size: 36 Copynumber: 3.0 Consensus size: 36
373368 TCTCGTAGCG
373378 ATGTATCGATACAATTCAATGTATTGATACATGCAT
1 ATGTATCGATACAATTCAATGTATTGATACATGCAT
*
373414 ATGTATCGATACAATTCAATGTATTAATACATGCAT
1 ATGTATCGATACAATTCAATGTATTGATACATGCAT
*
373450 ATGTATCGATACAATTCAATGTATTGAAACATGCAT
1 ATGTATCGATACAATTCAATGTATTGATACATGCAT
373486 TTGAAATTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (36 bp):
ATGTATCGATACAATTCAATGTATTGATACATGCAT
Found at i:373539 original size:13 final size:13
Alignment explanation
Indices: 373521--373545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373511 TTTTCAGCAA
373521 TGTATCGATACAT
1 TGTATCGATACAT
373534 TGTATCGATACA
1 TGTATCGATACA
373546 ATGTGCCATT
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:373638 original size:19 final size:19
Alignment explanation
Indices: 373594--373649 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
373584 CTGCCAGTTT
**
373594 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
373614 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
373633 CATGTATCGATACAATG
1 CATGTATCGATACAATG
373650 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:373652 original size:13 final size:13
Alignment explanation
Indices: 373634--373660 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
373624 TACAATGAAC
373634 ATGTATCGATACA
1 ATGTATCGATACA
373647 ATGTATCGATACA
1 ATGTATCGATACA
373660 A
1 A
373661 AGCATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:377349 original size:146 final size:149
Alignment explanation
Indices: 377173--377457 Score: 370
Period size: 147 Copynumber: 1.9 Consensus size: 149
377163 TGTCACATGT
* *
377173 TTAATTTAAATTTTCATAAAAAAATCATTTCGTACCTTGATGGAAAC-CCACCAAGATACGAAAA
1 TTAATTTAAATTTTCATAAAAAAATCATTTCGTACCTTAATGGAAACTCCA-AAAGATACGAAAA
*
377237 -ATTTT-GAAATCTTTTAATACCCCTAC-AGATACCCATA-GACATATAAAAGA-TTAAAAATGA
65 GATTTTCGAAATCTTTT-ATACCCCTACGA-ATACCCATAGGA-ATATAAAAGACTTAAAAATAA
377297 TTAATATTTATTTTAGTGAAGAG
127 TTAATATTTATTTTAGTGAAGAG
* * **
377320 TTAATTTAATTATTTC-T-AAAAAATCATTTCGTACCTTAATGGATACTTGAAAAGATACGAAAA
1 TTAATTTAAAT-TTTCATAAAAAAATCATTTCGTACCTTAATGGAAACTCCAAAAGATACGAAAA
* * * *
377383 GTTTTTCGAAATCTTTTATACCCCTACGAATACTCATAGGAATATAAAAGACTTGAAAATAATTG
65 GATTTTCGAAATCTTTTATACCCCTACGAATACCCATAGGAATATAAAAGACTTAAAAATAATTA
377448 ATATTTATTT
130 ATATTTATTT
377458 ATGTTTGGAA
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
146 39 0.32
147 44 0.37
148 37 0.31
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (149 bp):
TTAATTTAAATTTTCATAAAAAAATCATTTCGTACCTTAATGGAAACTCCAAAAGATACGAAAAG
ATTTTCGAAATCTTTTATACCCCTACGAATACCCATAGGAATATAAAAGACTTAAAAATAATTAA
TATTTATTTTAGTGAAGAG
Found at i:378403 original size:12 final size:12
Alignment explanation
Indices: 378363--378403 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
378353 TAGCCTAGCT
378363 TTTCTATTTTT-
1 TTTCTATTTTTC
378374 TTCTCTATATTTTC
1 TT-TCTAT-TTTTC
378388 -TTCTATTTTTC
1 TTTCTATTTTTC
378399 TTTCT
1 TTTCT
378404 TCTTTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.27
12 14 0.54
13 5 0.19
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTATTTTTC
Found at i:378437 original size:20 final size:20
Alignment explanation
Indices: 378370--378428 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
378360 GCTTTTCTAT
*
378370 TTTTTTCTCTATAT-TTTCTTC
1 TTTTTTCTCTCT-TCTTTC-TC
*
378391 TATTTTTCTTTCTTCTTTCTC
1 T-TTTTTCTCTCTTCTTTCTC
*
378412 TCTTTTCTCTCTTCTTT
1 TTTTTTCTCTCTTCTTT
378429 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 14 0.44
21 5 0.16
22 13 0.41
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTCTCTCTTCTTTCTC
Found at i:379572 original size:168 final size:166
Alignment explanation
Indices: 379025--379697 Score: 666
Period size: 165 Copynumber: 4.0 Consensus size: 166
379015 TTTATTCTTT
* * * * * * *
379025 AAAATTGAATTAATATAAAATAAATGATATTTTTTTATGAATTTTAAAAATTAAAAACCAAGAAA
1 AAAACTGAATTAATATAAGATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA
* *** * *
379090 AATCCCCTCGAAAAAATTGC-GGAATAGAAAACACCGTATTTCAGAAAAAGGAA-AA-TTTCAAG
66 AATCCCCTCGAAAAAATT-CACGAATAGAAAACTTTGTATTTC-GAAAAAAGAAGAATTTTCAGG
* ** * * * ** *
379152 AAAAAAATCCAAAACTCATGAAAATGAATTTCTTTTTT
129 AAAAAATTAAAAAACTAATGAAAATAAAATAATTTTTG
* * *
379190 AAAACTAAATTAATATGAGATAAATAATAATATTTGAT-AACTTTTAAAAATT-AAAACCAAGAA
1 AAAACTGAATTAATATAAGATAAATAATAATATTTGATGAA-TTTTAAAAATTAAAAACTAAGAA
* * * *
379253 AAATCCCTTCGAAAAAATTCACAAAGTAGAAAACTTTGTATTTTGAAAAAAGAA-AAATTTCAAG
65 AAATCCCCTCGAAAAAATTCACGAA-TAGAAAACTTTGTATTTCGAAAAAAGAAGAATTTTC-AG
** * * * * *
379317 GAAAAAA-TCCAAAACTCATGAAAATGAATTTATTTTTT
128 GAAAAAATTAAAAAACTAATGAAAATAAAATAATTTTTG
* *
379355 AAAATTGAATTAATATAAGATAAATAATAATATTTGATGACTTTTAAAAATTAAAAACTAAGAAA
1 AAAACTGAATTAATATAAGATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA
* * *
379420 AATCCCCTCAAAAAAATTCACGGAATAGGAAACTCTGTA-TTCGAAAAAAGAAGAATTTTCAGGA
66 AATCCCCTCGAAAAAATTCAC-GAATAGAAAACTTTGTATTTCGAAAAAAGAAGAATTTTCAGGA
* * *
379484 AAAAATTAAAAAAATAATTAAAAAATAAAAGAATTTTTG
130 AAAAATTAAAAAACTAA-T-GAAAATAAAATAATTTTTG
* * * *
379523 AAAACTGAATTAACATAAAATAAATAAGAATATTTGATGAATTTTAAAAATTAAAAAATAA-ACC
1 AAAACTGAATTAATATAAGATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGA--
* * ** *
379587 AAGAAACCCCTTGTGAAAATTCACAGAATAGAAAACTTTGTATTTCGAAAAAA-AAGAATTTTAA
64 AA-AATCCCCTCGAAAAAATTCAC-GAATAGAAAACTTTGTATTTCGAAAAAAGAAGAATTTTCA
* *
379651 AG-AAAAATTTAAAAACTAATGAAAATAAAATAATTTTTG
127 GGAAAAAATTAAAAAACTAATGAAAATAAAATAATTTTTG
379690 AAAACTGA
1 AAAACTGA
379698 TTTATGGGGA
Statistics
Matches: 432, Mismatches: 60, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
163 1 0.00
164 44 0.10
165 156 0.36
166 64 0.15
167 29 0.07
168 69 0.16
169 17 0.04
170 42 0.10
171 10 0.02
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (166 bp):
AAAACTGAATTAATATAAGATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA
AATCCCCTCGAAAAAATTCACGAATAGAAAACTTTGTATTTCGAAAAAAGAAGAATTTTCAGGAA
AAAATTAAAAAACTAATGAAAATAAAATAATTTTTG
Found at i:386508 original size:20 final size:20
Alignment explanation
Indices: 386471--386509 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
386461 CTTGTAATTT
* *
386471 TTCATAGTTATAATAATATA
1 TTCATAGTTAGAAAAATATA
*
386491 TTCATATTTAGAAAAATAT
1 TTCATAGTTAGAAAAATAT
386510 TTATTCTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TTCATAGTTAGAAAAATATA
Found at i:394391 original size:57 final size:57
Alignment explanation
Indices: 394266--394392 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 57
394256 ATAATTAATA
*
394266 TAGTGATCATATGGTTAATGTAAGTTTATGATATATCTTATCAAGAGTTCATATATT
1 TAGTGATCATTTGGTTAATGTAAGTTTATGATATATCTTATCAAGAGTTCATATATT
394323 TAGTGATCATTTGGTTAATGTAAGTTTATGATATATCTTATCAAGAGTTCATATATT
1 TAGTGATCATTTGGTTAATGTAAGTTTATGATATATCTTATCAAGAGTTCATATATT
394380 TAGTTGA-CATTTG
1 TAG-TGATCATTTG
394393 AGTTCGCATC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
57 65 0.96
58 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (57 bp):
TAGTGATCATTTGGTTAATGTAAGTTTATGATATATCTTATCAAGAGTTCATATATT
Found at i:395009 original size:21 final size:21
Alignment explanation
Indices: 394967--395015 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
394957 AATTCTTTCA
* * *
394967 AATAAGATAATATATACTTTT
1 AATAAAATAACATATACATTT
*
394988 AATAAAATAACATGTACATTT
1 AATAAAATAACATATACATTT
*
395009 AGTAAAA
1 AATAAAA
395016 GCGATATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAAAATAACATATACATTT
Found at i:395266 original size:21 final size:22
Alignment explanation
Indices: 395190--395266 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
395180 TACATGCAGT
* *
395190 AAAAATACTATATACATTTAG-T
1 AAAAATA-TATATACATATAGAA
* *
395212 AAAAATAATATATACGTATAG-C
1 AAAAAT-ATATATACATATAGAA
* *
395234 ATAATTATATATACATATAGAA
1 AAAAATATATATACATATAGAA
395256 AAAAATA-ATAT
1 AAAAATATATAT
395267 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
21 17 0.39
22 26 0.59
23 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAATATATATACATATAGAA
Found at i:395727 original size:53 final size:54
Alignment explanation
Indices: 395578--395727 Score: 207
Period size: 53 Copynumber: 2.8 Consensus size: 54
395568 CTAATGCATG
* * *
395578 TATAAACTATTTTTTAA-TTTTTATTA-TTTTTAAATAGTAATTAAAGATTTAC
1 TATAAAATATTTTTTAATTTTTTATTATTTTTTAAATAGTAATTCAAGATTTAA
** *
395630 CCTAAAATATTTTTTAATTTTTTATTATTTTTTACATAGTAATTCAAGA-TTAA
1 TATAAAATATTTTTTAATTTTTTATTATTTTTTAAATAGTAATTCAAGATTTAA
* *
395683 TATAAAATATTTTTTAATTTTTTAATATTTTTTAAATAATAATTC
1 TATAAAATATTTTTTAATTTTTTATTATTTTTTAAATAGTAATTC
395728 GAGAAGTATC
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 14 0.16
53 52 0.61
54 19 0.22
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (54 bp):
TATAAAATATTTTTTAATTTTTTATTATTTTTTAAATAGTAATTCAAGATTTAA
Found at i:396070 original size:53 final size:52
Alignment explanation
Indices: 395992--396348 Score: 449
Period size: 51 Copynumber: 6.9 Consensus size: 52
395982 TATATAAATA
* * * *
395992 TTAATATAAAATA-TTTTTAAGTTTTATTATTTTTAGATAATAATTTAAAAT
1 TTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGAT
* * *
396043 TTAATATAAAATATATTTTTATTTTTTATTATTTTTAAATATTAATTTAGGAT
1 TTAATATAAAATAT-TTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGAT
*
396096 TTAATATAAAATATTTTTTAAATTTTTATTAATTTTTAAATAGTAATTCAAGAT
1 TTAATATAAAATATTTTTT-AATTTTTATT-ATTTTTAAATAGTAATTTAAGAT
* ***
396150 TTAATATAAAATATTTTTAAATTTTT-TTATTTTTAAATAGTAATACGAGAT
1 TTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGAT
** *
396201 TTAATATAAAATATTTTAAAATTTTTTATTATTTTTAAAATAGTAATTTGAGAT
1 TTAATATAAAATATTTTTTAA-TTTTTATTATTTTT-AAATAGTAATTTAAGAT
* *
396255 TTAATATTAAATA-TTTTTAAATTTTATTATTTTTAAATAGTAATTTAAGAT
1 TTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGAT
*
396306 TTAATAT-AAGTATTTGTTTAA--TTT-TTATTTTTAAATAGTAATT
1 TTAATATAAAATATTT-TTTAATTTTTATTATTTTTAAATAGTAATT
396349 AATATTTTTT
Statistics
Matches: 275, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
49 19 0.07
50 7 0.03
51 79 0.29
52 30 0.11
53 75 0.27
54 65 0.24
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (52 bp):
TTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGAT
Found at i:396203 original size:105 final size:101
Alignment explanation
Indices: 395992--396348 Score: 420
Period size: 105 Copynumber: 3.4 Consensus size: 101
395982 TATATAAATA
* * * *
395992 TTAATATAAAATATTTTTAAGTTTTATTATTTTTAGATAATAATTTAAAATTTAATATAAAATAT
1 TTAATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATAT
* * *
396057 ATTTTTATTTTTTATTATTTTTAAATATTAATTTAG-GAT
66 -TTTTAAATTTTT-TTATTTTTAAATAGTAA--TAGAGAT
*
396096 TTAATATAAAATATTTTTTAAATTTTTATTAATTTTTAAATAGTAATTCAAGATTTAATATAAAA
1 TTAATATAAAATA-TTTTT-AATTTTTATT-ATTTTTAAATAGTAATTTAAGATTTAATATAAAA
396161 TATTTTTAAATTTTTTTATTTTTAAATAGTAATACGAGAT
63 TATTTTTAAATTTTTTTATTTTTAAATAGTAATA-GAGAT
* * *
396201 TTAATATAAAATATTTTAAAATTTTTTATTATTTTTAAAATAGTAATTTGAGATTTAATATTAAA
1 TTAATATAAAATATTTT-TAA-TTTTTATTATTTTT-AAATAGTAATTTAAGATTTAATATAAAA
*
396266 TATTTTTAAATTTTATTATTTTTAAATAGTAATTTA-AGAT
63 TATTTTTAAATTTTTTTATTTTTAAATAGTAA--TAGAGAT
*
396306 TTAATAT-AAGTATTTGTTTAA--TTT-TTATTTTTAAATAGTAATT
1 TTAATATAAAATA-TT-TTTAATTTTTATTATTTTTAAATAGTAATT
396349 AATATTTTTT
Statistics
Matches: 226, Mismatches: 15, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
100 11 0.05
101 8 0.04
102 3 0.01
103 2 0.01
104 30 0.13
105 116 0.51
106 21 0.09
107 35 0.15
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (101 bp):
TTAATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATAT
TTTTAAATTTTTTTATTTTTAAATAGTAATAGAGAT
Found at i:398363 original size:2 final size:2
Alignment explanation
Indices: 398304--398350 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
398294 ATAGTCCAAT
* * *
398304 TA TA TT TA TA TA TA TA TA TA TA TA TA TA CA TA -A TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
398345 TA TA TA
1 TA TA TA
398351 ACAGGGCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:400684 original size:27 final size:28
Alignment explanation
Indices: 400620--400695 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
400610 GGAATGAAGC
*** *
400620 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAGAAA
400648 CGGGGTTGGAGTATCCCCGATGAA-AAA
1 CGGGGTTGGAGTATCCCCGATGAAGAAA
400675 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
400696 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 23 0.52
28 21 0.48
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAGAAA
Found at i:400783 original size:51 final size:53
Alignment explanation
Indices: 400670--400801 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 53
400660 ATCCCCGATG
* * * * *
400670 AAAAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAAT
1 AAAATCGGAGTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAAT
400724 AAAATCGGAGTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAAT
1 AAAATCGGAGTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAAT
*
400775 AAAATCGGAGTTGGAATATCCCCGATT
1 AAAATCGGAGTTGGAGTATCCCCGATT
400802 GTGGAGAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
51 35 0.49
52 2 0.03
53 8 0.11
54 26 0.37
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (53 bp):
AAAATCGGAGTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAAT
Found at i:403187 original size:13 final size:13
Alignment explanation
Indices: 403169--403194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
403159 ACAAAGATCC
403169 ATGTATCGATACA
1 ATGTATCGATACA
403182 ATGTATCGATACA
1 ATGTATCGATACA
403195 CAGAAAAATG
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:403190 original size:33 final size:33
Alignment explanation
Indices: 403148--403214 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
403138 AAAGTTTCCA
***
403148 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
403181 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
403214 A
1 A
403215 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:403258 original size:19 final size:18
Alignment explanation
Indices: 403234--403301 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
403224 CAGTAGCTAA
403234 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
403253 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
403268 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
403285 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
403302 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:403274 original size:13 final size:13
Alignment explanation
Indices: 403256--403280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403246 ACAATACTTA
403256 TGTATCGATACAT
1 TGTATCGATACAT
403269 TGTATCGATACA
1 TGTATCGATACA
403281 AAACTTATGT
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:403278 original size:32 final size:32
Alignment explanation
Indices: 403237--403299 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
403227 TAGCTAATTA
*
403237 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
403269 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
403300 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:403363 original size:21 final size:21
Alignment explanation
Indices: 403337--403392 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
403327 GTTGGGACCC
403337 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
403358 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
403379 TGTATCGATACATT
1 TGTATCGATACATT
403393 TGGAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:404222 original size:55 final size:54
Alignment explanation
Indices: 404138--404907 Score: 968
Period size: 55 Copynumber: 14.0 Consensus size: 54
404128 ATAAAGTGTA
* * * * *
404138 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTCTGAAAGATG
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
404193 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
404248 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTT
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
404303 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
404358 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
404413 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGACTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
404468 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
404523 TCCTGCTCTTTGAGGACTGGAAAA-TGTCACCAACTTGTGT-GGCTTTGAAAGATG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
404577 TCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAG-TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
404632 CCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
404687 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
404742 TCCTGCTATTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * * * **
404801 TCCTGCTCTTTGACGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
404855 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
404908 AGAAGGCGTC
Statistics
Matches: 649, Mismatches: 39, Indels: 54
0.87 0.05 0.07
Matches are distributed among these distances:
52 3 0.00
53 2 0.00
54 112 0.17
55 458 0.71
56 16 0.02
57 7 0.01
58 1 0.00
59 50 0.08
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:404331 original size:110 final size:110
Alignment explanation
Indices: 404138--404903 Score: 1095
Period size: 110 Copynumber: 6.9 Consensus size: 110
404128 ATAAAGTGTA
* * * * * *
404138 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTCTGAAAGATGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
404202 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
404248 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTTTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
404313 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
404358 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
404423 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTAAGAGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
404468 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * *
404533 TGAGGACTGGAAA-ATGTCACCAACTTGTGT-GGCTTTGAA-AGATG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
404577 TCCTGCTCTTTGAGGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGCCCTGCTC
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTC
*
404640 TTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
64 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
404687 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTATT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
404752 TGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
* ** * **
404801 TCCTGCTCTTTGACGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
404865 TGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAA
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAA
404904 AAGGAGAAGG
Statistics
Matches: 605, Mismatches: 35, Indels: 30
0.90 0.05 0.04
Matches are distributed among these distances:
108 8 0.01
109 117 0.19
110 368 0.61
111 14 0.02
112 2 0.00
113 48 0.08
114 46 0.08
115 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:404414 original size:165 final size:163
Alignment explanation
Indices: 404138--404907 Score: 1070
Period size: 165 Copynumber: 4.7 Consensus size: 163
404128 ATAAAGTGTA
* * * * * *
404138 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTCTGAAAGATGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCT-TTAAAGGTGTCCTGCTCTT
404203 TGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGAC
64 TGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGAC
* *
404265 TGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTT
126 T-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
404303 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTT
* *
404368 TGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGA
64 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
*
404433 AAGGTGCCACCAACTTGTGTGGACTTTAAGAGGTG
129 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
404468 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTT
* *
404533 TGAGGACTGGAAAATGTCACCAACTTGTGT-GGCTTTGAAAGATGTCCTGCTCTTTGAGGACTGA
64 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
*
404597 AAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
404632 CCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTT
*
404697 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTATTTGAGGACTG-
64 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
*
404761 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
129 AAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
* * **
404801 TCCTGCTCTTTGACGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTT
* *
404866 GAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
65 GAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
404908 AGAAGGCGTC
Statistics
Matches: 554, Mismatches: 35, Indels: 29
0.90 0.06 0.05
Matches are distributed among these distances:
164 196 0.35
165 242 0.44
166 11 0.02
167 4 0.01
168 79 0.14
169 22 0.04
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (163 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTG
AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA
GGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:404545 original size:27 final size:27
Alignment explanation
Indices: 404405--404545 Score: 74
Period size: 28 Copynumber: 5.1 Consensus size: 27
404395 GGTGGGCTTT
*
404405 GAAAGGTGTCCTGCTCTTTGGGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * *
404431 GAAAGGTG-CCACCAACTTGTGTGGACTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
404459 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
404487 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
404515 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
404542 GAAA
1 GAAA
404546 ATGTCACCAA
Statistics
Matches: 80, Mismatches: 25, Indels: 19
0.65 0.20 0.15
Matches are distributed among these distances:
25 6 0.08
26 16 0.20
27 18 0.22
28 21 0.26
29 13 0.16
30 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:409892 original size:17 final size:17
Alignment explanation
Indices: 409870--409903 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
409860 ACATCGATTC
*
409870 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
409887 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
409904 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:416477 original size:27 final size:28
Alignment explanation
Indices: 416413--416488 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
416403 GGAATAAAGC
* *
416413 CGGGGTTGGAGTATCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-GATGAAGAAA
416441 CGGGGTTGGAGTATCCCCGATGAA-AAA
1 CGGGGTTGGAGTATCCCCGATGAAGAAA
416468 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
416489 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 24 0.53
28 21 0.47
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAGAAA
Found at i:416605 original size:51 final size:52
Alignment explanation
Indices: 416463--416605 Score: 180
Period size: 51 Copynumber: 2.7 Consensus size: 52
416453 ATCCCCGATG
* * * * *
416463 AAAAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAAT
1 AAAATCGGAGTTGGAGTATCCCCGATTGTGGAG-AATTAGTG-TTTTTGAAAAT
* * *
416517 AAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTG-TTTTGAAAAT
1 AAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTAGTGTTTTTGAAAAT
*
416568 AAAATCGGAGTTGGAATATCCCCGATTGTGGAGAATTA
1 AAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTA
416606 AGAAACTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
51 43 0.56
53 7 0.09
54 27 0.35
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (52 bp):
AAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTAGTGTTTTTGAAAAT
Found at i:418981 original size:13 final size:13
Alignment explanation
Indices: 418963--418988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
418953 ACAAAGATCC
418963 ATGTATCGATACA
1 ATGTATCGATACA
418976 ATGTATCGATACA
1 ATGTATCGATACA
418989 TAGAAAAATG
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:418984 original size:33 final size:33
Alignment explanation
Indices: 418942--419008 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
418932 AAAGTTTCCA
***
418942 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
418975 AATGTATCGATACATAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
419008 A
1 A
419009 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:419052 original size:19 final size:19
Alignment explanation
Indices: 419028--419082 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
419018 CAATAGCTAA
*
419028 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
419047 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
419066 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
419083 TTGTTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:419174 original size:21 final size:21
Alignment explanation
Indices: 419118--419174 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
419108 GTTGGGACCC
*
419118 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTTCACAAA
*
419139 TGTATCGATACATTTTACAAA
1 TGTATCGATACATTTCACAAA
419160 TGTATCGATACATTT
1 TGTATCGATACATTT
419175 GGAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTTCACAAA
Found at i:420002 original size:55 final size:55
Alignment explanation
Indices: 419918--420851 Score: 1304
Period size: 55 Copynumber: 17.0 Consensus size: 55
419908 ATAAAGTGTA
* * * *
419918 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
419973 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
420028 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
420083 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
420138 TCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
420193 TCCTGCTCTTTGAGGAATGGAAAATGCCACCAACTTGTGT-GGCTTTGAAAGATG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
420247 TCCTGCTCTTTGAGGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
420302 CCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
420357 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
420412 TCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
420467 TCCTGCTCTTTGAGGAATGGAAAATGCCACCAACTTGTGT-GGCTTTGAAAGATG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
420521 TCCTGCTCTTTGAGGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
420576 CCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
420631 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** * *
420686 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * ** * * *
420745 TCCCGCTCTTTGACGACT-GAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
420799 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGTCTTTAAAAGG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
420852 AGAAGGCGTC
Statistics
Matches: 801, Mismatches: 51, Indels: 54
0.88 0.06 0.06
Matches are distributed among these distances:
53 8 0.01
54 156 0.19
55 557 0.70
56 31 0.04
58 1 0.00
59 48 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:420460 original size:274 final size:274
Alignment explanation
Indices: 419918--420847 Score: 1428
Period size: 274 Copynumber: 3.4 Consensus size: 274
419908 ATAAAGTGTA
* * * * *
419918 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGAATGAAAA-TGCCACCAACTTGTGT-GGCTTTGAA-AGATGTCCTGCTCT
* * * *
419982 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGAT
63 TTGAGGACTAGAAAGCTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGCCCTGCTCTTTGAGGAC
420045 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGC
127 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGC
420110 CACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTG
192 CACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTG
420175 GGTGGGCTTTGAAAGGTG
257 GGTGGGCTTTGAAAGGTG
420193 TCCTGCTCTTTGAGGAATGGAAAATGCCACCAACTTGTGTGGCTTTGAAAGATGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGAAT-GAAAATGCCACCAACTTGTGTGGCTTTGAAAGATGTCCTGCTCTTT
420258 GAGGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTGCCCTGCTCTTTGAGGACTGG
65 GAGGACTAGAAAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTGCCCTGCTCTTTGAGGACTGG
420322 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
130 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
420387 CAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGGGT
195 CAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGGGT
420452 GGGCTTTGAAAGGTG
260 GGGCTTTGAAAGGTG
420467 TCCTGCTCTTTGAGGAATGGAAAATGCCACCAACTTGTGTGGCTTTGAAAGATGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGAAT-GAAAATGCCACCAACTTGTGTGGCTTTGAAAGATGTCCTGCTCTTT
420532 GAGGACT-GAAAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTGCCCTGCTCTTTGAGGACTGG
65 GAGGACTAGAAAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTGCCCTGCTCTTTGAGGACTGG
* *
420596 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCA
130 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-GAAAGGTGCCA
** * *
420660 CCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGT
194 CCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGG
* *
420723 GTGGGCTTTAAAAGAAAATGCG
258 GTGGGCTTT----G-AAAGGTG
* * * ** * **
420745 TCCCGCTCTTTGACGACTGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGCGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGAATGAAAATGCCACCAACTTGTGTGG-CTTTGAAAGATGTCCTGCTCTTT
* *
420810 GAGGACTAGGAAG-TGCCACCAACTTGTGTGGTCTTTAA
65 GAGGACTAGAAAGCTGCCACCAACTTGTGTGGGCTTTAA
420848 AAGGAGAAGG
Statistics
Matches: 616, Mismatches: 26, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
273 30 0.05
274 446 0.72
275 39 0.06
276 4 0.01
277 22 0.04
278 71 0.12
279 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (274 bp):
TCCTGCTCTTTGAGGAATGAAAATGCCACCAACTTGTGTGGCTTTGAAAGATGTCCTGCTCTTTG
AGGACTAGAAAGCTGCCACCAACTTGTGTGGGCTTTAAGAGGTGCCCTGCTCTTTGAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACC
AACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACAAACTTGGGTG
GGCTTTGAAAGGTG
Found at i:421866 original size:1 final size:1
Alignment explanation
Indices: 421862--421921 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
421852 CTTTTCTCTC
* * * * * * *
421862 TTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
421922 GAAGAGAATG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:421893 original size:11 final size:11
Alignment explanation
Indices: 421862--421913 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
421852 CTTTTCTCTC
*
421862 TTTTTCTTTGT
1 TTTTTTTTTGT
421873 TTTGTTTTTT-T
1 TTT-TTTTTTGT
421884 GTTTTTTTTTGT
1 -TTTTTTTTTGT
421896 TTTTTTTTTGT
1 TTTTTTTTTGT
421907 TTTTTTT
1 TTTTTTT
421914 CTTTTTTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:421894 original size:23 final size:21
Alignment explanation
Indices: 421862--421921 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
421852 CTTTTCTCTC
*
421862 TTTTTCTTTGTTTTGTTTTTTTG
1 TTTTTTTTTG-TTT-TTTTTTTG
421885 TTTTTTTTTGTTTTTTTTTTG
1 TTTTTTTTTGTTTTTTTTTTG
*
421906 -TTTTTTTTCTTTTTTT
1 TTTTTTTTTGTTTTTTT
421922 GAAGAGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 15 0.43
21 8 0.23
22 3 0.09
23 9 0.26
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTGTTTTTTTTTTG
Found at i:427163 original size:21 final size:20
Alignment explanation
Indices: 427137--427175 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
427127 GTTGGGACCT
427137 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
427158 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
427176 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:429515 original size:21 final size:20
Alignment explanation
Indices: 429486--429524 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
429476 TTCATTTTTA
429486 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
429506 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
429525 AGGTCCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:429730 original size:20 final size:20
Alignment explanation
Indices: 429654--429730 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
429644 GCCAAGGAAA
* *
429654 TGTATCGATACATTAATAAA
1 TGTATCGATACATTTATAAT
429674 TGTATCGATACATACTTCA-AAT
1 TGTATCGATACAT--TT-ATAAT
* *
429696 TGTATCAATACATTTATTAT
1 TGTATCGATACATTTATAAT
429716 TGTATCGATACATTT
1 TGTATCGATACATTT
429731 GGGGTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
22 15 0.31
23 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTATAAT
Found at i:435082 original size:8 final size:8
Alignment explanation
Indices: 435068--435121 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
435058 AAAAATGATG
435068 AAAAAAACC
1 AAAAAAA-C
435077 AAAAAAAC
1 AAAAAAAC
435085 AAAACAAAC
1 AAAA-AAAC
435094 AAAAAAAC
1 AAAAAAAC
**
435102 -AAATGA-
1 AAAAAAAC
435108 AAAAAAAC
1 AAAAAAAC
435116 AAAAAA
1 AAAAAA
435122 TGCAAAGGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 8 0.21
8 15 0.39
9 15 0.39
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:435097 original size:26 final size:25
Alignment explanation
Indices: 435068--435118 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
435058 AAAAATGATG
435068 AAAAAAACCAAA-AAAACAAAACAAAC
1 AAAAAAA-CAAAGAAAA-AAAACAAAC
435094 AAAAAAACAAATGAAAAAAAACAAA
1 AAAAAAACAAA-GAAAAAAAACAAA
435119 AAATGCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 15 0.65
27 4 0.17
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAAAACAAAGAAAAAAAACAAAC
Found at i:435114 original size:17 final size:17
Alignment explanation
Indices: 435077--435123 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
435067 GAAAAAAACC
** *
435077 AAAAAAACAAAACAAAC
1 AAAAAAACAAATGAAAA
435094 AAAAAAACAAATGAAAA
1 AAAAAAACAAATGAAAA
435111 AAAACAAA-AAATG
1 AAAA-AAACAAATG
435124 CAAAGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAACAAATGAAAA
Found at i:435134 original size:23 final size:23
Alignment explanation
Indices: 435084--435139 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
435074 ACCAAAAAAA
*
435084 CAAAACAAACAAAAAAACAAATG
1 CAAAACAAACAAAAAAACAAAGG
* *
435107 -AAAAAAAACAAAAAATGCAAAGG
1 CAAAACAAACAAAAAA-ACAAAGG
435130 CAAAATCAAA
1 CAAAA-CAAA
435140 AAATGGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 14 0.54
23 5 0.19
24 4 0.15
25 3 0.12
ACGTcount: A:0.73, C:0.14, G:0.07, T:0.05
Consensus pattern (23 bp):
CAAAACAAACAAAAAAACAAAGG
Found at i:436353 original size:57 final size:58
Alignment explanation
Indices: 436265--436409 Score: 186
Period size: 58 Copynumber: 2.5 Consensus size: 58
436255 TCTTTCAAAC
* * * * *
436265 CCTTCCTAAAGTTCACAACTTAGTGGCATCTCCTTTC-AAGTCCACGACTCCATGGCA
1 CCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGACA
* *
436322 CCTTCTTAAAGTCCACACCCTAATGGCATCTCCTTTCAAAGTCCACGATTCCATGACA
1 CCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGACA
* *
436380 CCCTCTTAAAGTCCACGA-CTAAGTGGCATC
1 CCTTCTTAAAGTCCACAACCTAA-TGGCATC
436410 CTTTCTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
57 36 0.47
58 40 0.53
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (58 bp):
CCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGACA
Found at i:436365 original size:30 final size:30
Alignment explanation
Indices: 436288--436399 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 30
436278 CACAACTTAG
436288 TGGCATCTCCTTTC-AAGTCCACGACTCCA
1 TGGCATCTCCTTTCAAAGTCCACGACTCCA
* *
436317 TGGCACCTTC-TT-AAAGTCCAC-AC-CCTAA
1 TGGCATCTCCTTTCAAAGTCCACGACTCC--A
*
436345 TGGCATCTCCTTTCAAAGTCCACGATTCCA
1 TGGCATCTCCTTTCAAAGTCCACGACTCCA
*
436375 TGACA-C-CCTCTT-AAAGTCCACGACT
1 TGGCATCTCCT-TTCAAAGTCCACGACT
436400 AAGTGGCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 34 0.50
29 13 0.19
30 14 0.21
31 1 0.01
32 2 0.03
ACGTcount: A:0.25, C:0.36, G:0.12, T:0.27
Consensus pattern (30 bp):
TGGCATCTCCTTTCAAAGTCCACGACTCCA
Found at i:436449 original size:31 final size:32
Alignment explanation
Indices: 436388--436450 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
436378 CACCCTCTTA
436388 AAGTCCACGACTAAGTGGCATCCTTTCTTCTTCC
1 AAGTCCACGACTAAGTGGCA--CTTTCTTCTTCC
**
436422 AAGTCCACGACTTTGTGGCA-TTTCTTCTT
1 AAGTCCACGACTAAGTGGCACTTTCTTCTT
436451 AAAGTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
34 18 0.67
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (32 bp):
AAGTCCACGACTAAGTGGCACTTTCTTCTTCC
Found at i:436726 original size:33 final size:32
Alignment explanation
Indices: 436458--437049 Score: 368
Period size: 33 Copynumber: 18.7 Consensus size: 32
436448 CTTAAAGTAT
* *
436458 ACAACTCCATGGCAACCCTTTTTCCTTTTAAGTCT
1 ACAACTCCGTGGC-A-CCTTTTT-CTTTTAAGTCC
*
436493 ATAACTCCGTGGCACC-----CTTTTAAGTCC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
** * * *
436520 ACAACT-TATGGCGCCTCTTCTT-TTTCAAAGTTC
1 ACAACTCCGTGGCACCT-TT-TTCTTT-TAAGTCC
* * *
436553 ACAACTCTGTGACATCTTTTTCCTTTTAAGTCC
1 ACAACTCCGTGGCACCTTTTT-CTTTTAAGTCC
* * * *
436586 ATAACTTCGTGGCATCTGTTTCTTTTAAG-CC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* * *
436617 ACAACTCCGTGGCATCTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* * *
436649 ACAACTCCATGGCATCTTTTTCCTTTAAGTCC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* *
436681 ACAACTCTGTGGCACCTTTTTCTTTTCAAAG-CT
1 ACAACTCCGTGGCACCTTTTTCTTTT--AAGTCC
436714 ACAACTCCGTGGCACC-----CTTTTAAGTCC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* * * *
436741 ACGACT-CGTGGTACCTTTTTCTTTCAAAGCCC
1 ACAACTCCGTGGCACCTTTTTCTTT-TAAGTCC
**
436773 ACAACTCCGTGGCATTTTTTTCCTTTTAAGTCC
1 ACAACTCCGTGGCACCTTTTT-CTTTTAAGTCC
** * * *
436806 ACAACTATTGTGACATCTTTTTCCTTTAAGTCC
1 ACAACT-CCGTGGCACCTTTTTCTTTTAAGTCC
*
436839 ATAACTCCGTGGCACC-TTTTCTTTTCAAAG-CC
1 ACAACTCCGTGGCACCTTTTTCTTTT--AAGTCC
** *
436871 TACAACTCTATGGCACCCTTTTCCTTTTAAGTCC
1 -ACAACTCCGTGGCA-CCTTTTTCTTTTAAGTCC
* * *
436905 ATAACTCTGTGGCACC--TTTC----AAGTTC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* * * * *
436931 ACAATTCCATGGCATCTTTTTCCTTTAAATCC
1 ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
* * *
436963 ACAACT-CGTGGTATCTTTTTCTTTTCAATGCCC
1 ACAACTCCGTGGCACCTTTTTCTTTT-AA-GTCC
* * * *
436996 ACAATTTCATGGCACCCTTTTTCTTTTAAGTCT
1 ACAACTCCGTGGCA-CCTTTTTCTTTTAAGTCC
437029 ACAACTCCGTGGCACCTTTTT
1 ACAACTCCGTGGCACCTTTTT
437050 TCCTCCAAAA
Statistics
Matches: 431, Mismatches: 86, Indels: 83
0.72 0.14 0.14
Matches are distributed among these distances:
26 33 0.08
27 21 0.05
28 9 0.02
30 3 0.01
31 55 0.13
32 103 0.24
33 138 0.32
34 39 0.09
35 30 0.07
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (32 bp):
ACAACTCCGTGGCACCTTTTTCTTTTAAGTCC
Found at i:436758 original size:59 final size:60
Alignment explanation
Indices: 436607--436786 Score: 190
Period size: 59 Copynumber: 3.0 Consensus size: 60
436597 GCATCTGTTT
* * * * *
436607 CTTTTAAG-CCACAACTCCGTGGCATCTTTTCCTTT-TAAGCCCACAACTCCATGGCATCTTTTT
1 CTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCA-C-----
436670 C
60 C
*
436671 C-TTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAG-CTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCACCTTTTTC-TTTCAAAGCCCACAACTCCGTGGCACC
* *
436730 CTTTTAAGTCCACGACTC-GTGGTACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCA
1 CTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCA
436787 TTTTTTTCCT
Statistics
Matches: 102, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
58 8 0.08
59 30 0.29
60 15 0.15
63 6 0.06
64 23 0.23
65 17 0.17
66 3 0.03
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.33
Consensus pattern (60 bp):
CTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCACC
Found at i:436785 original size:92 final size:92
Alignment explanation
Indices: 436568--436987 Score: 241
Period size: 92 Copynumber: 4.5 Consensus size: 92
436558 TCTGTGACAT
* * * *
436568 CTTTTTCCTTTTAAGTCCATAACTTCGTGGCATCTGTTTCTTTTAAGCCACAACTCCGTGGCATC
1 CTTTTTCC-TTTAAGCCCACAACTCCGTGGCACCTGTTTCTTTTAAGCCACAACTCCGTGGCATC
*
436633 TTTTCCTTTTAAGCCCACAACTCCATGGCAT
65 ---TCCTTTTAAGCCCACAACTCCATGGCAC
* * * *
436664 CTTTTTCCTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCTACAACTCCGTGGCA-
1 CTTTTTCCTTTAAGCCCACAACTCCGTGGCACCTGTTTCTTTT--AAGCCACAACTCCGTGGCAT
* * * *
436728 C-CCTTTTAAGTCCACGACT-CGTGGTAC
64 CTCCTTTTAAGCCCACAACTCCATGGCAC
** * ** *
436755 CTTTTT-CTTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTTTTAAGTCCACAACTATTGTGA
1 CTTTTTCCTTT--AAGCCCACAACTCCGTGGCACCTGTTT-CTTTTAAG-CCACAACT-CCGTGG
* * *
436819 CATCTTTTTCC-TTTAAGTCCATAACTCCGTGGCAC
61 CATC----TCCTTTTAAGCCCACAACTCCATGGCAC
* * ** * *
436854 C-TTTTCTTTTCAAAGCCTACAACTCTATGGCACCCT-TTTCCTTTTAAGTCCATAACTCTGTGG
1 CTTTTTCCTTT--AAGCCCACAACTCCGTGGCA-CCTGTTT-CTTTTAAG-CCACAACTCCGTGG
* ** * *
436917 CA---CCTTTCAAGTTCACAATTCCATGGCAT
61 CATCTCCTTTTAAGCCCACAACTCCATGGCAC
** * * *
436946 CTTTTTCCTTTAAATCCACAACT-CGTGGTATCTTTTTCTTTT
1 CTTTTTCCTTTAAGCCCACAACTCCGTGGCACCTGTTTCTTTT
436988 CAATGCCCAC
Statistics
Matches: 260, Mismatches: 45, Indels: 45
0.74 0.13 0.13
Matches are distributed among these distances:
89 7 0.03
90 11 0.04
91 25 0.10
92 65 0.25
93 18 0.07
94 1 0.00
95 30 0.12
96 9 0.03
97 18 0.07
98 23 0.09
99 52 0.20
100 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (92 bp):
CTTTTTCCTTTAAGCCCACAACTCCGTGGCACCTGTTTCTTTTAAGCCACAACTCCGTGGCATCT
CCTTTTAAGCCCACAACTCCATGGCAC
Found at i:436793 original size:124 final size:123
Alignment explanation
Indices: 436547--436858 Score: 328
Period size: 124 Copynumber: 2.5 Consensus size: 123
436537 TTCTTTTTCA
* * * *
436547 AAGTTCACAACT-CTGTGACATCTTTTTCCTTTTAAGTCCATAACTTCGTGGCATCTGTTTCTTT
1 AAGTCCACAACTACTGTGACACCTTTTTCC-TTTAAGTCCACAACTCCGTGGCA-C-----CTTT
* *
436611 TAAGCCACAACTCCGTGGCATCTTTTCCTTTTAAGCCCACAACTCCATGGCATCTTTTTCC-TTT
59 TAAGCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCATGGCATCTTTTTCCTTTT
* * *
436675 AAGTCCACAACT-CTGTGGCACCTTTTTCTTTTCAAAG-CTACAACTCCGTGGCACCCTTTTAAG
1 AAGTCCACAACTACTGTGACACCTTTTTCCTTT--AAGTCCACAACTCCGTGGCA-CCTTTTAAG
* * * * *
436738 TCCACGACT-CGTGGTACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTTTT
63 -CCACAACTCCGTGGCACCTTTTCCTTT-AAAGCCCACAACTCCATGGCATCTTTTTCCTTTT
* * *
436800 AAGTCCACAACTATTGTGACATCTTTTTCCTTTAAGTCCATAACTCCGTGGCACCTTTT
1 AAGTCCACAACTACTGTGACACCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTTT
436859 CTTTTCAAAG
Statistics
Matches: 156, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
123 23 0.15
124 43 0.28
125 29 0.19
126 16 0.10
127 3 0.02
128 39 0.25
129 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (123 bp):
AAGTCCACAACTACTGTGACACCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTTTAAGCCA
CAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCATGGCATCTTTTTCCTTTT
Found at i:436851 original size:158 final size:154
Alignment explanation
Indices: 436574--436892 Score: 437
Period size: 158 Copynumber: 2.0 Consensus size: 154
436564 ACATCTTTTT
* * *
436574 CCTTTTAAGTCCATAACTTCGTGGCATCTGTTTCTTTTAAGCCACAACTCCGTGGCATCTTTTCC
1 CCTTTTAAGTCCACAACTTCGTGGCACCTGTTTCTTTAAAGCCACAACTCCGTGGCATCTTTTCC
*
436639 TTTTAAGCCCACAACTCCATGGCATCTTTTTCCTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
66 TTTTAAGCCCACAACT-CATGGCATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACC-TTTTCT
*
436704 TTTCAAAG-CTACAACTCCGTGGCAC
129 TTTCAAAGCCTACAACTCCATGGCAC
* * * *
436729 CCTTTTAAGTCCACGAC-TCGTGGTACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCATTTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACCTGTTTCTTT-AAAG-CCACAACTCCGTGGCA-TCTTT
* *
436793 TCCTTTTAAGTCCACAACT-ATTGTGACATCTTTTTCCTTTAAGTCCATAACTCCGTGGCACCTT
63 TCCTTTTAAGCCCACAACTCA-TG-G-CATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTT
*
436857 TTCTTTTCAAAGCCTACAACTCTATGGCAC
125 TTCTTTTCAAAGCCTACAACTCCATGGCAC
436887 CCTTTT
1 CCTTTT
436893 CCTTTTAAGT
Statistics
Matches: 145, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
154 16 0.11
155 19 0.13
156 18 0.12
157 37 0.26
158 55 0.38
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (154 bp):
CCTTTTAAGTCCACAACTTCGTGGCACCTGTTTCTTTAAAGCCACAACTCCGTGGCATCTTTTCC
TTTTAAGCCCACAACTCATGGCATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTTTCTTT
TCAAAGCCTACAACTCCATGGCAC
Found at i:436934 original size:158 final size:152
Alignment explanation
Indices: 436574--437049 Score: 414
Period size: 157 Copynumber: 3.0 Consensus size: 152
436564 ACATCTTTTT
* * * * *
436574 CCTTTTAAGTCCATAACTTCGTGGCATCTGTTTCTTTTAAG-CCACAACTCCGTGGCA-TCTTTT
1 CCTTTTAAGTCCACAAC-TCGTGGCACCTCTTTC---AAAGCCCACAACTCCGTGGCATTTTTTT
* *
436637 CCTTTTAAGCCCACAACTCCATGGCATCTTTTTCCTTTAAGTCCACAACTCTGTGGCACCTTTTT
62 CCTTTTAAGTCCACAACT-CATGGCATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
436702 CTTTTCAAAGCTACAACTCCGTGGCAC
126 CTTTTCAAAGCTACAACTCCATGGCAC
* *
436729 CCTTTTAAGTCCACGACTCGTGGTACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCATTTTTTT
1 CCTTTTAAGTCCACAACTCGTGGCACC----TCTTTCAAAGCCCACAACTCCGTGGCATTTTTTT
*
436794 CCTTTTAAGTCCACAACT-ATTGTGACATCTTTTTCCTTTAAGTCCATAACTCCGTGGCACC-TT
62 CCTTTTAAGTCCACAACTCA-TG-G-CATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTT
*
436857 TTCTTTTCAAAGCCTACAACTCTATGGCACCC
124 TTCTTTTCAAAG-CTACAACTCCATGGCA--C
* ** * * *
436889 TTTTCCTTTTAAGTCCATAACTCTGTGGCA-C-CTTTC-AAGTTCACAATTCCATGGCATCTTTT
1 ----CCTTTTAAGTCCACAACTC-GTGGCACCTCTTTCAAAGCCCACAACTCCGTGGCATTTTTT
* * * * * * * *
436951 TCC-TTTAAATCCACAACTCGTGGTATCTTTTTCTTTTCAATGCCCACAATTTCATGGCACCCTT
61 TCCTTTTAAGTCCACAACTCATGGCATCTTTTTCCTTT-AA-GTCCACAACTCCGTGGCA-CCTT
*
437015 TTTCTTTT--AAGTCTACAACTCCGTGGCAC
123 TTTCTTTTCAAAG-CTACAACTCCATGGCAC
*
437044 CTTTTT
1 CCTTTT
437050 TCCTCCAAAA
Statistics
Matches: 266, Mismatches: 33, Indels: 48
0.77 0.10 0.14
Matches are distributed among these distances:
151 5 0.02
154 8 0.03
155 32 0.12
156 21 0.08
157 83 0.31
158 79 0.30
159 14 0.05
160 1 0.00
164 18 0.07
165 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (152 bp):
CCTTTTAAGTCCACAACTCGTGGCACCTCTTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTT
TTAAGTCCACAACTCATGGCATCTTTTTCCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
CAAAGCTACAACTCCATGGCAC
Found at i:436969 original size:124 final size:124
Alignment explanation
Indices: 436819--437047 Score: 327
Period size: 124 Copynumber: 1.8 Consensus size: 124
436809 ACTATTGTGA
* * *
436819 CATCTTTTTCCTTTAAGTCCATAACTCCGTGGCA-CCTTTTCTTTTCAAAGCCTACAA-CTCTAT
1 CATCTTTTTCCTTTAAATCCACAACT-CGTGGCATCCTTTTCTTTTCAAAGCCCACAATCTC-AT
* *
436882 GGCACCCTTTTCCTTTTAAGTCCATAACTCTGTGGCACCTTTCAAGTTCACAATTCCATGG
64 GGCACCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCAAGTTCACAATTCCATGG
* * * *
436943 CATCTTTTTCCTTTAAATCCACAACTCGTGGTATCTTTTTCTTTTCAATGCCCACAATTTCATGG
1 CATCTTTTTCCTTTAAATCCACAACTCGTGGCATCCTTTTCTTTTCAAAGCCCACAATCTCATGG
* *
437008 CACCCTTTTTCTTTTAAGTCTACAACTCCGTGGCACCTTT
66 CACCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
437048 TTTCCTCCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
123 6 0.07
124 84 0.91
125 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.39
Consensus pattern (124 bp):
CATCTTTTTCCTTTAAATCCACAACTCGTGGCATCCTTTTCTTTTCAAAGCCCACAATCTCATGG
CACCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCAAGTTCACAATTCCATGG
Found at i:437078 original size:68 final size:67
Alignment explanation
Indices: 436998--437126 Score: 197
Period size: 68 Copynumber: 1.9 Consensus size: 67
436988 CAATGCCCAC
* *
436998 AATTTCATGGCACCCTTTTT-CTTTTAAGTCTACAACTCCGTGGCACCTTTTTTCCTCCAAAAAC
1 AATTTCATGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTAGCACC-TTTTTCC-CCAAAAAC
437062 TCAT
64 TCAT
* *
437066 AATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTTCGTAGCACCTTTTTCCCCAAAA
1 AATTTCATGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCTTTTTCCCCAAAA
437127 GCCCACTCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
67 6 0.11
68 26 0.46
69 24 0.43
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.38
Consensus pattern (67 bp):
AATTTCATGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCTTTTTCCCCAAAAACTC
AT
Found at i:440227 original size:1 final size:1
Alignment explanation
Indices: 440171--440212 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
440161 ATGCCTCACA
* *
440171 CCCCCCCCCTCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
440213 TCGCAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.95, G:0.00, T:0.05
Consensus pattern (1 bp):
C
Found at i:441107 original size:1 final size:1
Alignment explanation
Indices: 441101--441152 Score: 104
Period size: 1 Copynumber: 52.0 Consensus size: 1
441091 ATAAATTTAA
441101 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
441153 GACCATTGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:449373 original size:1 final size:1
Alignment explanation
Indices: 449357--449405 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
449347 CTTTTCTTTG
* * * * *
449357 TTTTGTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
449406 GAAGAGAATG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:449377 original size:10 final size:11
Alignment explanation
Indices: 449348--449397 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
449338 CTTTTCTCTC
*
449348 TTTTCTTTGTT
1 TTTTTTTTGTT
449359 TTGTTTTTTG-T
1 TT-TTTTTTGTT
449370 TTTTTTTTGTT
1 TTTTTTTTGTT
449381 TTTTTTTTGTT
1 TTTTTTTTGTT
449392 TTTTTT
1 TTTTTT
449398 CTTTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
10 7 0.19
11 23 0.64
12 6 0.17
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:449378 original size:22 final size:21
Alignment explanation
Indices: 449348--449405 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
449338 CTTTTCTCTC
*
449348 TTTTCTTTGTTTTGTTTTTTGT
1 TTTTTTTTGTTTT-TTTTTTGT
449370 TTTTTTTTGTTTTTTTTTTG-
1 TTTTTTTTGTTTTTTTTTTGT
*
449390 TTTTTTTTCTTTTTTT
1 TTTTTTTTGTTTTTTT
449406 GAAGAGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 15 0.44
21 7 0.21
22 12 0.35
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (21 bp):
TTTTTTTTGTTTTTTTTTTGT
Found at i:449379 original size:17 final size:17
Alignment explanation
Indices: 449348--449406 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
449338 CTTTTCTCTC
*
449348 TTTTCTTTG-TTTTGTT
1 TTTTTTTTGTTTTTGTT
449364 TTTTGTTTT-TTTTTGTT
1 TTTT-TTTTGTTTTTGTT
449381 TTTTTTTTGTTTTT-TT
1 TTTTTTTTGTTTTTGTT
449397 TCTTTTTTTG
1 T-TTTTTTTG
449407 AAGAGAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 11 0.29
17 27 0.71
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (17 bp):
TTTTTTTTGTTTTTGTT
Found at i:449403 original size:10 final size:10
Alignment explanation
Indices: 449331--449405 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 10
449321 CTTAAGTAGG
449331 TTCTTTTCTTT
1 TTCTTTT-TTT
449342 TCTCTCTTTTCTT
1 T-TCT-TTTT-TT
449355 TGT-TTTGTTTT
1 T-TCTTT-TTTT
*
449366 TTGTTTTTTT
1 TTCTTTTTTT
*
449376 TTGTTTTTTT
1 TTCTTTTTTT
449386 TT-TGTTTTTT
1 TTCT-TTTTTT
449396 TTCTTTTTTT
1 TTCTTTTTTT
449406 GAAGAGAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
9 1 0.02
10 31 0.55
11 10 0.18
12 7 0.12
13 7 0.12
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:454632 original size:21 final size:20
Alignment explanation
Indices: 454606--454644 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
454596 GTTGGGACCT
454606 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
454627 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
454645 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:456983 original size:21 final size:20
Alignment explanation
Indices: 456954--456992 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
456944 TTCATTTTTA
456954 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
456974 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
456993 AGGTCCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:457198 original size:20 final size:20
Alignment explanation
Indices: 457122--457198 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
457112 GCCAAGGAAA
* *
457122 TGTATCGATACATTAATAAA
1 TGTATCGATACATTTATAAT
457142 TGTATCGATACATACTTCA-AAT
1 TGTATCGATACAT--TT-ATAAT
* *
457164 TGTATCAATACATTTATTAT
1 TGTATCGATACATTTATAAT
457184 TGTATCGATACATTT
1 TGTATCGATACATTT
457199 GGGGTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
22 15 0.31
23 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTATAAT
Found at i:462567 original size:28 final size:26
Alignment explanation
Indices: 462536--462594 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
462526 AAAAATGATG
*
462536 AAAAAAAACCAAA-AAAAACAAAACAA
1 AAAAAAAAACAAAGAAAAA-AAAACAA
462562 ACAAAAAAAACAAATGAAAAAAAAACAA
1 A-AAAAAAAACAAA-GAAAAAAAAACAA
462590 AAAAA
1 AAAAA
462595 TGCAAAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.03
27 15 0.52
28 8 0.28
29 5 0.17
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.02
Consensus pattern (26 bp):
AAAAAAAAACAAAGAAAAAAAAACAA
Found at i:462585 original size:18 final size:18
Alignment explanation
Indices: 462546--462596 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
462536 AAAAAAAACC
** *
462546 AAAAAAAACAAAACAAAC
1 AAAAAAAACAAATGAAAA
462564 AAAAAAAACAAATGAAAA
1 AAAAAAAACAAATGAAAA
*
462582 AAAAACAAAAAAATG
1 AAAAA-AAACAAATG
462597 CAAAGGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.04
Consensus pattern (18 bp):
AAAAAAAACAAATGAAAA
Found at i:462594 original size:9 final size:9
Alignment explanation
Indices: 462536--462575 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
462526 AAAAATGATG
462536 AAAAAAAACC
1 AAAAAAAA-C
462546 AAAAAAAAC
1 AAAAAAAAC
*
462555 AAAACAAAC
1 AAAAAAAAC
462564 AAAAAAAAC
1 AAAAAAAAC
462573 AAA
1 AAA
462576 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:462607 original size:25 final size:24
Alignment explanation
Indices: 462554--462607 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
462544 CCAAAAAAAA
* *
462554 CAAAACAAACAAAAAAAACAAATG
1 CAAAAAAAACAAAAAAAACAAAGG
* *
462578 AAAAAAAAACAAAAAAATGCAAAGG
1 CAAAAAAAACAAAAAAA-ACAAAGG
462603 CAAAA
1 CAAAA
462608 TCAAAAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.76, C:0.13, G:0.07, T:0.04
Consensus pattern (24 bp):
CAAAAAAAACAAAAAAAACAAAGG
Found at i:463784 original size:30 final size:29
Alignment explanation
Indices: 463750--463847 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 29
463740 AACCCTTCCT
*
463750 AAAGTTCACAACTTAGTGGCATCTCCTTTC
1 AAAGTCCACAACTTA-TGGCATCTCCTTTC
* * *
463780 AAAGTCCACGACTCCATGGCA-C-CCTTCTT
1 AAAGTCCACAACT-TATGGCATCTCCTT-TC
*
463809 AAAGTCCACAACCTAATGGCATCTCCTTTC
1 AAAGTCCACAA-CTTATGGCATCTCCTTTC
463839 AAAGTCCAC
1 AAAGTCCAC
463848 GATTCCATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
28 4 0.07
29 18 0.32
30 29 0.52
31 5 0.09
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.27
Consensus pattern (29 bp):
AAAGTCCACAACTTATGGCATCTCCTTTC
Found at i:463814 original size:29 final size:29
Alignment explanation
Indices: 463780--463880 Score: 116
Period size: 29 Copynumber: 3.4 Consensus size: 29
463770 ATCTCCTTTC
463780 AAAGTCCACGACTCCATGGCACCCTTCTT
1 AAAGTCCACGACTCCATGGCACCCTTCTT
* * *
463809 AAAGTCCACAAC-CTAATGGCATCTCCTT-TC
1 AAAGTCCACGACTC-CATGGCA-C-CCTTCTT
* *
463839 AAAGTCCACGATTCCATGACACCCTTCTT
1 AAAGTCCACGACTCCATGGCACCCTTCTT
463868 AAAGTCCACGACT
1 AAAGTCCACGACT
463881 AAGTGGCATC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.09
29 31 0.53
30 17 0.29
31 5 0.09
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.25
Consensus pattern (29 bp):
AAAGTCCACGACTCCATGGCACCCTTCTT
Found at i:463833 original size:59 final size:59
Alignment explanation
Indices: 463741--463890 Score: 221
Period size: 59 Copynumber: 2.5 Consensus size: 59
463731 AATCTTTCAA
* * * * *
463741 ACCCTTCCTAAAGTTCACAACTTAGTGGCATCTCCTTTCAAAGTCCACGACTCCATGGC
1 ACCCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGAC
*
463800 ACCCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGATTCCATGAC
1 ACCCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGAC
*
463859 ACCCTTCTTAAAGTCCACGA-CTAAGTGGCATC
1 ACCCTTCTTAAAGTCCACAACCTAA-TGGCATC
463891 CTTTTTCTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 4 0.05
59 79 0.95
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (59 bp):
ACCCTTCTTAAAGTCCACAACCTAATGGCATCTCCTTTCAAAGTCCACGACTCCATGAC
Found at i:463893 original size:29 final size:28
Alignment explanation
Indices: 463780--463893 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 28
463770 ATCTCCTTTC
* *
463780 AAAGTCCACGACTCCATGGCACCCTTCTT
1 AAAGTCCACGACT-AATGGCATCCTTCTT
* *
463809 AAAGTCCACAACCTAATGGCATCTCCTT-TC
1 AAAGTCCACGA-CTAATGGCA--TCCTTCTT
* * * *
463839 AAAGTCCACGATTCCATGACACCCTTCTT
1 AAAGTCCACGACT-AATGGCATCCTTCTT
463868 AAAGTCCACGACTAAGTGGCATCCTT
1 AAAGTCCACGACTAA-TGGCATCCTT
463894 TTTCTTCCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
28 5 0.08
29 38 0.58
30 18 0.28
31 4 0.06
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.25
Consensus pattern (28 bp):
AAAGTCCACGACTAATGGCATCCTTCTT
Found at i:464010 original size:27 final size:28
Alignment explanation
Indices: 463960--464019 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
463950 ACCCTTTTTC
* * *
463960 CTTTTAAGTCTATAACTCCGTGGCACCT
1 CTTTTAAGTCCACAACTCCATGGCACCT
* *
463988 -TTTTAAGTCCACAACTCTATGGCGCCT
1 CTTTTAAGTCCACAACTCCATGGCACCT
464015 CTTTT
1 CTTTT
464020 TTTTCAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.38
Consensus pattern (28 bp):
CTTTTAAGTCCACAACTCCATGGCACCT
Found at i:464092 original size:32 final size:32
Alignment explanation
Indices: 463937--464535 Score: 335
Period size: 32 Copynumber: 18.6 Consensus size: 32
463927 CTTAAAGTAT
* * *
463937 ACAACTCCGTGGTACCCTTTTTCCTTTTAAGTCT
1 ACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCC
* *
463971 ATAACTCCGTGGCA-C----CTTTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
** * *
463998 ACAACTCTATGGCGCCTCTTTT--TTTTCAAAGTTC
1 ACAACTCCGT-G-GCATCTTTTCCTTTT--AAGTCC
* * *
464032 ACAACTCTGTGACACCTGTTTCCTTTTAAGTCC
1 ACAACTCCGTGGCATCT-TTTCCTTTTAAGTCC
* * *
464065 ATAACTTCGTGGCATCTATTCCTTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
*
464097 ACAACTCCGTGGCATCTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
464129 ACAACTCCGTGGCATCTTTTTCC-TTTAAGTCC
1 ACAACTCCGTGGCATC-TTTTCCTTTTAAGTCC
** * *
464161 ACAACTCTATGGCACCTTTTTTCTTTTCAAAG-CC
1 ACAACTCCGTGGCATC-TTTTCCTTTT--AAGTCC
464195 TACAACTCCGTGGCA-C----CCTTTTAAGTCC
1 -ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
* * * * *
464223 ACGACT-CGTGGTACCTTTTTCTTTTCAAAGCCC
1 ACAACTCCGTGGCATCTTTTCCTTTT--AAGTCC
*
464256 ACAACTCCGTGGCATTTTTTTCCTTTTAAGTCC
1 ACAACTCCGTGGCA-TCTTTTCCTTTTAAGTCC
* * *
464289 ACAAATCTGTGACATCTTTTTCC-TTTAAGTCC
1 ACAACTCCGTGGCATC-TTTTCCTTTTAAGTCC
* * *
464321 ATAACTCCGTGGCACCTTTTTCTTTTCCAAG-CC
1 ACAACTCCGTGGCATCTTTTCCTTTT--AAGTCC
** * *
464354 TACAACTCTATGGCACCCTTTTTCCTTTTAAGTCT
1 -ACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCC
* * * *
464389 ATAACTCTGTGGCACCTTTT-C----AAGTTC
1 ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
* * *
464416 ACAATTCCATGGCATCTTTTTCC-TTTAAATCC
1 ACAACTCCGTGGCATC-TTTTCCTTTTAAGTCC
* * *
464448 ACAACTCCGTGGTATCTTTTTCTTTTCAATGCCC
1 ACAACTCCGTGGCATCTTTTCCTTTT-AA-GTCC
* * * * *
464482 ACAATTTCATGGCACCTTTTTTCCTTTTAAGTCT
1 ACAACTCCGTGGCA--TCTTTTCCTTTTAAGTCC
*
464516 ACAACTCCGTGGCACCTTTT
1 ACAACTCCGTGGCATCTTTT
464536 TTCCTCCAAA
Statistics
Matches: 433, Mismatches: 87, Indels: 92
0.71 0.14 0.15
Matches are distributed among these distances:
26 6 0.01
27 41 0.09
28 7 0.02
29 8 0.02
30 1 0.00
31 16 0.04
32 145 0.33
33 68 0.16
34 89 0.21
35 33 0.08
36 19 0.04
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.39
Consensus pattern (32 bp):
ACAACTCCGTGGCATCTTTTCCTTTTAAGTCC
Found at i:464250 original size:60 final size:62
Alignment explanation
Indices: 464026--464334 Score: 231
Period size: 65 Copynumber: 4.9 Consensus size: 62
464016 TTTTTTTTCA
* * * * * *
464026 AAGTTCACAACTCTGTGACACCTGTTTCCTTTT--AAGTCCATAACTTCGTGGCATCTATTCCTT
1 AAGTCCACAACTC-GTGGCACCT-TTTTCTTTTCAAAGCCCACAACTCCGTGGCATC---TCCTT
464089 TT
61 TT
* *
464091 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT--AAGCCCACAACTCCGTGGCATCTTTTTCC-T
1 AAGTCCACAACT-CGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCATC----TCCTT
464153 TT
61 TT
* *
464155 AAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGCCTACAACTCCGTGGCA-C-CCTTTT
1 AAGTCCACAACTC-GTGGCACC-TTTTTCTTTTCAAAGCCCACAACTCCGTGGCATCTCCTTTT
* * *
464217 AAGTCCACGACTCGTGGTACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTTT
1 AAGTCCACAACTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA----TCTCCTTT
464282 T
62 T
* * * * * *
464283 AAGTCCACAAATCTGTGACATCTTTTTCCTTT--AAGTCCATAACTCCGTGGCA
1 AAGTCCACAACTC-GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA
464335 CCTTTTTCTT
Statistics
Matches: 206, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
60 31 0.15
61 8 0.04
62 15 0.07
63 1 0.00
64 49 0.24
65 50 0.24
66 19 0.09
67 33 0.16
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (62 bp):
AAGTCCACAACTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCATCTCCTTTT
Found at i:464280 original size:224 final size:226
Alignment explanation
Indices: 463952--464408 Score: 550
Period size: 224 Copynumber: 2.0 Consensus size: 226
463942 TCCGTGGTAC
* * * *
463952 CCTTTTTCCTTTTAAGTCTATAACTCCGTGGCACCTTTTTAAGTCCACAACTCTATGGCGCCTCT
1 CCTTTTTCCTTTTAAGCCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCTCT
** * * * *
464017 TTTTTTTCAAAGTTCACAACTCTGTGACACCTGTTTCCTTTTAAGTCCATAACT-TCGTGGCATC
66 TTTTTTTCAAAGCCCACAACTCCGTGACACCTGTTTCCTTTTAAGTCCACAAATCT-GTGACATC
* *
464081 -TATTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-
130 TTATTCC-TTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTCAAGCCCACAACTCCATGGCAC
*
464143 TCTTTTTCC-TTTAAGTCCACAACTCTATGGCA
194 CCTTTTTCCTTTTAAGTCCACAACTCTATGGCA
* * * *
464175 CCTTTTTTCTTTTCAAAGCCTACAACTCCGTGGCACCCTTTTAAGTCCACGACTC-GTGGTACCT
1 CCTTTTTCCTTTT--AAGCCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCT
* ** *
464239 -TTTTCTTTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTTTTAAGTCCACAAATCTGTGACA
64 CTTTT-TTTTCAAAGCCCACAACTCCGTGACACCTGTTTCCTTTTAAGTCCACAAATCTGTGACA
* * * * *
464303 TCTTTTTCCTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCCAAGCCTACAACTCTATGGC
128 TCTTATTCCTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT-CAAGCCCACAACTCCATGGC
* * *
464368 ACCCTTTTTCCTTTTAAGTCTATAACTCTGTGGCA
192 ACCCTTTTTCCTTTTAAGTCCACAACTCTATGGCA
464403 CCTTTT
1 CCTTTT
464409 CAAGTTCACA
Statistics
Matches: 196, Mismatches: 29, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
223 16 0.08
224 87 0.44
225 42 0.21
226 17 0.09
227 8 0.04
228 26 0.13
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (226 bp):
CCTTTTTCCTTTTAAGCCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCTCT
TTTTTTTCAAAGCCCACAACTCCGTGACACCTGTTTCCTTTTAAGTCCACAAATCTGTGACATCT
TATTCCTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTCAAGCCCACAACTCCATGGCACCC
TTTTTCCTTTTAAGTCCACAACTCTATGGCA
Found at i:464401 original size:68 final size:65
Alignment explanation
Indices: 463989--464536 Score: 238
Period size: 67 Copynumber: 8.5 Consensus size: 65
463979 GTGGCACCTT
** * * * * *
463989 TTTAAGTCCACAACTCTATGGCGCCTCTTTT-TTTTCAAAG-TTCACAACTCTGTGACA-CCTGT
1 TTTAAGTCCACAACTCCGTGGCACCT-TTTTCTTTTC-AAGCCT-ACAA-TCTATGGCACCCTTT
464051 TTCC
62 TTCC
* * * * * ** *
464055 TTTTAAGTCCATAACTTCGTGGCATCTATTCCTTTT-AAGTCC-ACAACTCCGTGGCA-TC-TTT
1 -TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAG-CCTACAA-TCTATGGCACCCTTTT
464116 TCC
63 TCC
* * * *
464119 TTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTT-AAGTCC-ACAACTCTATGGCACCTTTTT
1 -TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAG-CCTACAA-TCTATGGCACCCTTTT
*
464182 TCT
63 TCC
* * *
464185 TTTCAAAG-CCTACAACTCCGTGGCACC-----CTTTT-AAGTCC-ACGA-CTCGTGGTA-CCTT
1 TTT--AAGTCC-ACAACTCCGTGGCACCTTTTTCTTTTCAAG-CCTACAATCT-ATGGCACCCTT
*
464240 TTTCT
61 TTTCC
* ** * * *
464245 TTTCAAAGCCCACAACTCCGTGGCATTTTTTTCCTTTT-AAGTCC-ACAAATCTGTGACA-TCTT
1 TTT--AAGTCCACAACTCCGTGGCACCTTTTT-CTTTTCAAG-CCTAC-AATCTATGGCACCCTT
464307 TTTCC
61 TTTCC
*
464312 TTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCCAAGCCTACAACTCTATGGCACCCTTTTT
1 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT-CAAGCCTACAA-TCTATGGCACCCTTTTT
464377 CC
64 CC
* * * * * *
464379 TTTTAAGTCTATAACTCTGTGGCA-C-----CTTTTCAAG-TTCACAATTCCATGGCA-TCTTTT
1 -TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAGCCT-ACAA-TCTATGGCACCCTTTT
464436 TCC
63 TCC
* * * * * *
464439 TTTAAATCCACAACTCCGTGGTATCTTTTTCTTTTCAATGCCCACAATTTCATGGCACCTTTTTT
1 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA-GCCTACAATCT-ATGGCACCCTTTTT
464504 CC
64 CC
*
464506 TTTTAAGTCTACAACTCCGTGGCACCTTTTT
1 -TTTAAGTCCACAACTCCGTGGCACCTTTTT
464537 TCCTCCAAAA
Statistics
Matches: 380, Mismatches: 65, Indels: 71
0.74 0.13 0.14
Matches are distributed among these distances:
59 18 0.05
60 42 0.11
61 22 0.06
62 18 0.05
64 58 0.15
65 55 0.14
66 45 0.12
67 73 0.19
68 49 0.13
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (65 bp):
TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAGCCTACAATCTATGGCACCCTTTTTCC
Found at i:464432 original size:127 final size:127
Alignment explanation
Indices: 464301--464535 Score: 357
Period size: 127 Copynumber: 1.9 Consensus size: 127
464291 AAATCTGTGA
* * *
464301 CATCTTTTTCCTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTCCAA-GCCTACAA-CTCTA
1 CATCTTTTTCCTTTAAATCCACAACTCCGTGGCACCTTTTTCTTTT-CAATGCCCACAATCTC-A
* *
464364 TGGCACCCTTTTTCCTTTTAAGTCTATAACTCTGTGGCACCTTTTCAAGTTCACAATTCCATGG
64 TGGCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTCAAGTTCACAATTCCATGG
* * *
464428 CATCTTTTTCCTTTAAATCCACAACTCCGTGGTATCTTTTTCTTTTCAATGCCCACAATTTCATG
1 CATCTTTTTCCTTTAAATCCACAACTCCGTGGCACCTTTTTCTTTTCAATGCCCACAATCTCATG
*
464493 GCACCTTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTT
66 GCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTT
464536 TTCCTCCAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 3 0.03
127 92 0.95
128 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (127 bp):
CATCTTTTTCCTTTAAATCCACAACTCCGTGGCACCTTTTTCTTTTCAATGCCCACAATCTCATG
GCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTCAAGTTCACAATTCCATGG
Found at i:464438 original size:160 final size:160
Alignment explanation
Indices: 463937--464540 Score: 521
Period size: 160 Copynumber: 3.8 Consensus size: 160
463927 CTTAAAGTAT
* * * * *
463937 ACAACTCCGTGGTACCCTTTTTCCTTTTAAGTCTATAACTCCGTGGCA-C--CTT--TTTAAGTC
1 ACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTAAGTC
* * * * * * *
463997 CACAACTCTATGGCGCCTCTTTT-TTTTCAAAG-TTCACAACTCTGTGACA-CCTGTTTCCTTTT
65 CACAACTCCATGGCACCTTTTTTCTTTTC-AAGCCT-ACAACTCCGTGGCACCCTTTTTCCTTTT
*
464059 AAGTCCATAACTTCGTGGCATCTATTCCTTTT-AAGTCC
128 AAGTCCACAAC-TCGTGGCA-C----CCTTTTCAAGTCC
*
464097 ACAACTCCGTGGCATC-TTTTCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTAAGTCC
*
464161 ACAACTCTATGGCACCTTTTTTCTTTTCAAAGCCTACAACTCCGTGGCA--C-----CCTTTTAA
66 ACAACTCCATGGCACCTTTTTTCTTTTC-AAGCCTACAACTCCGTGGCACCCTTTTTCCTTTTAA
* * *
464219 GTCCACGACTCGTGGTACCTTTTTCTTTTCAAAGCCC
130 GTCCACAACTCGTGGCACC-----CTTTTC-AAGTCC
* * * *
464256 ACAACTCCGTGGCATTTTTTTCCTTTTAAGTCCACAAATCTGTGACATCTTTTTCCTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTAAGTCC
* * **
464321 ATAACTCCGTGGCACC-TTTTTCTTTTCCAAGCCTACAACTCTATGGCACCCTTTTTCCTTTTAA
66 ACAACTCCATGGCACCTTTTTTCTTTT-CAAGCCTACAACTCCGTGGCACCCTTTTTCCTTTTAA
* * *
464385 GTCTATAACTCTGTGGCA-CCTTTTCAAGTTC
130 GTCCACAACTC-GTGGCACCCTTTTCAAGTCC
* * * * * *
464416 ACAATTCCATGGCATCTTTTTCC-TTTAAATCCACAACTCCGTGGTATCTTTTTCTTTTCAATGC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTT-AA-GT
* * * *
464480 CCACAATTTCATGGCACCTTTTTTCCTTTT-AAGTCTACAACTCCGTGGCACCTTTTTTCCT
64 CCACAACTCCATGGCACCTTTTTT-CTTTTCAAGCCTACAACTCCGTGGCACCCTTTTTCCT
464541 CCAAAAACTT
Statistics
Matches: 367, Mismatches: 49, Indels: 55
0.78 0.10 0.12
Matches are distributed among these distances:
152 1 0.00
156 1 0.00
157 12 0.03
158 42 0.11
159 79 0.22
160 97 0.26
161 51 0.14
162 5 0.01
163 35 0.10
164 21 0.06
165 1 0.00
166 17 0.05
167 5 0.01
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (160 bp):
ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTAAGTCC
ACAACTCCATGGCACCTTTTTTCTTTTCAAGCCTACAACTCCGTGGCACCCTTTTTCCTTTTAAG
TCCACAACTCGTGGCACCCTTTTCAAGTCC
Found at i:464485 original size:34 final size:32
Alignment explanation
Indices: 464050--464665 Score: 189
Period size: 32 Copynumber: 18.9 Consensus size: 32
464040 GTGACACCTG
* * * *
464050 TTTCCTTTTAAGTCCATAACTTCGTGGCATC-T
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
* * *
464082 ATTCCTTTTAAGTCCACAACTCCGTGGCATC-T
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
** *
464114 TTTCCTTTTAAGCCCACAACTCCGTGGCATCTT
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
* * *
464147 TTTCCTTTAAGTCCACAACTCTATGGCACCTTT
1 TTTCCTTTAAATCCACAACTCCATGGCATC-TT
* * *
464180 TTTCTTTTCAAAGCCTACAACTCCGTGGCA-C--
1 TTTCCTTT-AAATCC-ACAACTCCATGGCATCTT
* * * * *
464211 ---CCTTTTAAGTCCACGACT-CGTGGTACCTT
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
* * * *
464240 TTTCTTTTCAAAGCCCACAACTCCGTGGCATTTT
1 TTTCCTTT-AAA-TCCACAACTCCATGGCATCTT
* * ** *
464274 TTTCCTTTTAAGTCCACAAATCTGTGACATCTT
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
* * * *
464307 TTTCCTTTAAGTCCATAACTCCGTGGCACCTT
1 TTTCCTTTAAATCCACAACTCCATGGCATCTT
* * * * *
464339 TTTCTTTTCCAAGCCTACAACTCTATGGCACCCTT
1 TTTCCTTT-AAATCC-ACAACTCCATGGCA-TCTT
* * * ** *
464374 TTTCCTTTTAAGTCTATAACTCTGTGGCA-CCT
1 TTTCC-TTTAAATCCACAACTCCATGGCATCTT
* * *
464406 TTT-C---AAGTTCACAATTCCATGGCATCTT
1 TTTCCTTTAAATCCACAACTCCATGGCATCTT
* *
464434 TTTCCTTTAAATCCACAACTCCGTGGTATCTT
1 TTTCCTTTAAATCCACAACTCCATGGCATCTT
* * * * *
464466 TTTCTTTTCAATGCCCACAATTTCATGGCACCTTT
1 TTTCCTTTAAAT--CCACAACTCCATGGCATC-TT
* * * *
464501 TTTCCTTTTAAGTCTACAACTCCGTGGCACCTTT
1 TTTCC-TTTAAATCCACAACTCCATGGCATC-TT
** * * * * * *
464535 TTTCCTCCAAAAACTTATAATTTCATGGCACCTTT
1 TTTCCT-TTAAATC-CACAACTCCATGGCATC-TT
* *** * *
464570 TTTCCTTTTAAGTCCACAACTTTGTAGCACCCTT
1 TTTCC-TTTAAATCCACAACTCCATGGCA-TCTT
** * *
464604 TTTCCTCCAAAAGCCCACAACTCCGTGGCATCTT
1 TTTCCT-TTAAA-TCCACAACTCCATGGCATCTT
* *
464638 TTCCCTTTAAGTCCACAACTCCATGGCA
1 TTTCCTTTAAATCCACAACTCCATGGCA
464666 CACCCTTCTA
Statistics
Matches: 439, Mismatches: 111, Indels: 68
0.71 0.18 0.11
Matches are distributed among these distances:
26 6 0.01
27 20 0.05
28 10 0.02
29 4 0.01
31 4 0.01
32 160 0.36
33 50 0.11
34 106 0.24
35 70 0.16
36 9 0.02
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (32 bp):
TTTCCTTTAAATCCACAACTCCATGGCATCTT
Found at i:464557 original size:69 final size:69
Alignment explanation
Indices: 464484--464615 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 69
464474 CAATGCCCAC
* * *
464484 AATTTCATGGCACCTTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTTTCCTCCAAAAAC
1 AATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAAAAC
464549 TTAT
66 TTAT
**
464553 AATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTTTGTAGCACCCTTTTTCCTCCAAAA
1 AATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAAA
464616 GCCCACAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.40
Consensus pattern (69 bp):
AATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAAAAC
TTAT
Found at i:464633 original size:69 final size:69
Alignment explanation
Indices: 464415--464659 Score: 205
Period size: 69 Copynumber: 3.6 Consensus size: 69
464405 TTTTCAAGTT
* * * * * * * *
464415 CACAATTCCATGGCATC-TTTTTCC-TTTAAATCCACAACTCCGTGGTA-TCTTTTTCTTTTC-A
1 CACAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTC-CTCCAA
**
464476 ATGCC
65 AAACC
* * * * *
464481 CACAATTTCATGGCACCTTTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTTTCCTCCAAA
1 CACAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAA
*
464546 AACT
66 AACC
* * * * **
464550 TATAATTTCATGGCACCTTTTTTCCTTTTAAGTCCACAACTTTGTAGCACCCTTTTTCCTCCAAA
1 CACAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAA
*
464615 AGCC
66 AACC
* * *
464619 CACAACTCCGTGGCA--TCTTTTCCCTTTAAGTCCACAACTCC
1 CACAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCC
464660 ATGGCACACC
Statistics
Matches: 145, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
66 15 0.10
67 29 0.20
68 22 0.15
69 79 0.54
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (69 bp):
CACAACTCCATGGCACCTTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCCTTTTTCCTCCAAA
AACC
Found at i:464702 original size:31 final size:31
Alignment explanation
Indices: 464661--464745 Score: 118
Period size: 33 Copynumber: 2.7 Consensus size: 31
464651 CACAACTCCA
*
464661 TGGCACACCCTTCTAAAGCCCATACAAGTCGG
1 TGGCA-ACCCTTCTAAAGCCCACACAAGTCGG
*
464693 TGGCAACCCTTCTTTAAAGCCCACATAAGTCGG
1 TGGCAACCCTTC--TAAAGCCCACACAAGTCGG
464726 TGGCAACCCTTCT-AAGCCCA
1 TGGCAACCCTTCTAAAGCCCA
464746 ATGTCGCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
30 7 0.14
31 8 0.16
32 5 0.10
33 29 0.59
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (31 bp):
TGGCAACCCTTCTAAAGCCCACACAAGTCGG
Found at i:464903 original size:52 final size:50
Alignment explanation
Indices: 464738--465552 Score: 473
Period size: 52 Copynumber: 16.6 Consensus size: 50
464728 GCAACCCTTC
* ** *
464738 TAAGCCCAATGTCGCTAACCTTGAATCAGCACATTGGCA-TCTT-CATATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACT-TTACATCTT
* * * * *
464787 TAAGTCCAATGTCGCTAGCCCTAAATCAGCACGTTGGCACTTT-CATCCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* * * *
464836 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATTTTTACCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA-CATCTT
* * * * *
464888 TAAGTCCAATGTCGCTGACCTTAAATCAGCATATTGGTACCTT-CATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* *
464937 TAAGTCCAATGTCGCTGGCCTAGAATCAGCACATTGGCACCTT-CATC-T
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* * ** * *
464985 TAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT-ACATCT-T
* * * * *
465037 TAAGCCCAATGTTGCTGACCTTTAATCAGCACATTAGCATTCTTCT-CATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTT-TACATCTT
* * * * * *
465089 CAAGTCTAATGTCGCTAG-CTGTGAATCAGCACATTGGAATTTTTCTCATCTT
1 TAAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCA-CTTT-ACATCTT
* *
465141 TAAG-CCTAATGTTGCTGGCCTTGAATCAGCACATTGG--C---AC--CTA
1 TAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* * * * * * *
465184 TAAGTCTAATATCGTTGGCCTCGAATCAGTATATTGGTACCTTTACCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTA-CATCTT
* * * * *
465236 TAAGCCCAACGTCACTAGCCTTGAATCATCACATTGG--C---AC--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* * *
465279 TAAGTCCAATATCGCTAGGCCTTGAATCAGCATATTAGCACTTTTATCATCTT
1 TAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCAC-TTTA-CATCTT
* *
465332 TAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGG--C---AC--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* * * * ** * *
465375 TAAGTCTAATATCGCTAGCCTTGAATCAACATTTTGGTAGCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT-ACATCTT
* * * *
465427 TAAGTGCAATGTCTCTAGTCTTGAATCAGCACATTGG--C---AC--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
* ** * * *
465470 TAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTATCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT-ACATCTT
* * *
465522 CAAGCCCAATGTCACTGGCCTTGAATCAGCA
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCA
465553 TATTCAGACT
Statistics
Matches: 586, Mismatches: 125, Indels: 107
0.72 0.15 0.13
Matches are distributed among these distances:
43 113 0.19
44 18 0.03
45 4 0.01
46 6 0.01
48 34 0.06
49 126 0.22
50 10 0.02
51 12 0.02
52 239 0.41
53 23 0.04
54 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (50 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTACATCTT
Found at i:464918 original size:101 final size:98
Alignment explanation
Indices: 464738--465552 Score: 360
Period size: 95 Copynumber: 8.3 Consensus size: 98
464728 GCAACCCTTC
* **
464738 TAAGCCCAATGTCGCTAACCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
* *
464803 AGCCCTAAATCAGCACGTTGGCACTTTCATCCT
66 AGCCCTAAATCAGCACATTGGCACCTTCATCCT
* * * * *
464836 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATTTTTACCATCTTTAAGTCCAATGTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT--CATATTTAAGTCCAATGTC
* * * *
464901 GCT-GACCTTAAATCAGCATATTGGTACCTTCATCTT
63 GCTAG-CCCTAAATCAGCACATTGGCACCTTCATCCT
* * * * * **
464937 TAAGTCCAATGTCGCTGGCCTAGAATCAGCACATTGGCACCTTCAT-CTTAAGTCCGATATCATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
* * * * *
465001 GGCCTTGAATCAGCATATTGGCATCTTTAACATTCC-
66 AGCCCTAAATCAGCACATTGGCA-CCTT--CA-TCCT
* * * * * *
465037 TAAGCCCAATGTTGCTGACCTTTAATCAGCACATTAGCATTCTTC-TCATCTTCAAGTCTAATGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCAT-AT-TT-AAGTCCAATGT
** * * ** *
465101 CGCTAGCTGTGAATCAGCACATTGGAATTTTTCTCATCTT
62 CGCTAGCCCTAAATCAGCACATTGGCA--CCT-TCATCCT
* * *
465141 TAAG-CCTAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C--C-TA--TAAGTCTAATATCG-
1 TAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGC
* * * * * * *
465198 TTGGCCTCGAATCAGTATATTGGTACCTTTACCATCTT
65 TAGCCCT-AAATCAGCACATTGGCACC-TT--CATCCT
* * * * * *
465236 TAAGCCCAACGTCACTAGCCTTGAATCATCACATTGGCA-C--C---TTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
* * * * * *
465295 AGGCCTTGAATCAGCATATTAGCACTTTTATCATCTT
66 A-GCCCTAAATCAGCACATTGGCAC--CT-TCATCCT
* * * *
465332 TAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCA-C--C---TTTAAGTCTAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
* * * ** * * *
465391 AGCCTTGAATCAACATTTTGGTAGCTTTGTCATCTT
66 AGCCCTAAATCAGCACATTGGCA-C-CT-TCATCCT
* * * * *
465427 TAAGTGCAATGTCTCTAGTCTTGAATCAGCACATTGGCA-C--C---TTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
* * * * * *
465486 AACCTTGAATCAGCATATTGGTATCTTTGTCAT-CT
66 AGCCCTAAATCAGCACATTGGCA-C-CT-TCATCCT
* *
465521 TCAAGCCCAATGTCACTGGCCTTGAATCAGCA
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCA
465553 TATTCAGACT
Statistics
Matches: 583, Mismatches: 102, Indels: 67
0.78 0.14 0.09
Matches are distributed among these distances:
93 1 0.00
94 6 0.01
95 213 0.37
96 80 0.14
97 36 0.06
98 41 0.07
99 4 0.01
100 41 0.07
101 87 0.15
102 1 0.00
103 6 0.01
104 63 0.11
105 3 0.01
106 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATATTTAAGTCCAATGTCGCT
AGCCCTAAATCAGCACATTGGCACCTTCATCCT
Found at i:465257 original size:95 final size:95
Alignment explanation
Indices: 465090--465552 Score: 550
Period size: 95 Copynumber: 4.9 Consensus size: 95
465080 TCTCATCTTC
* * * * ** * * *
465090 AAGTCTAATGTCGCTAG-CTGTGAATCAGCACATTGGAATTTTTCTCATCTTTAAGCCTAATGTT
1 AAGTCCAATATCGCTAGCCT-TGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTC
* *
465154 GCTGGCCTTGAATCAGCACATTGGCACCTAT
65 ACTGGCCTTGAATCAGCACATTGGCACCTTT
* * * * * * *
465185 AAGTCTAATATCGTTGGCCTCGAATCAGTATATTGGTACCTTTACCATCTTTAAGCCCAACGTCA
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTCA
* *
465250 CTAGCCTTGAATCATCACATTGGCACCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTT
* * * * *
465280 AAGTCCAATATCGCTAGGCCTTGAATCAGCATATTAGCACTTTTATCATCTTTAAGTCTAATGTC
1 AAGTCCAATATCGCTA-GCCTTGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTC
465345 ACTGGCCTTGAATCAGCACATTGGCACCTTT
65 ACTGGCCTTGAATCAGCACATTGGCACCTTT
* * * * * ** *
465376 AAGTCTAATATCGCTAGCCTTGAATCAACATTTTGGTAGCTTTGTCATCTTTAAGTGCAATGTCT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTCA
* *
465441 CTAGTCTTGAATCAGCACATTGGCACCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTT
* * * *
465471 AAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTATCTTTGTCATCTTCAAGCCCAATGTCA
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTCA
465536 CTGGCCTTGAATCAGCA
66 CTGGCCTTGAATCAGCA
465553 TATTCAGACT
Statistics
Matches: 310, Mismatches: 56, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
95 225 0.73
96 85 0.27
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (95 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCATCTTTAAGCCCAATGTCA
CTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:465352 original size:191 final size:189
Alignment explanation
Indices: 464885--465552 Score: 662
Period size: 191 Copynumber: 3.4 Consensus size: 189
464875 TTTTTACCAT
* * * * *
464885 CTTTAAGTCCAATGTCGCTGACCTTAAATCAGCATATTGGTAC--CTTCATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTACTTTTTCATCTTTAAGCCCAATG
* * ** *
464948 TCGCTGGCCTAGAATCAGCACATTGGCACCTTCATCTTAAGTCCGATATCATTGGCCTTGAATCA
66 TCACTGGCCTTGAATCAGCACATTGGCACC-T-A---TAAGTCTAATATCGTTGGCCTTGAATCA
* * * ** * *
465013 GCATATTGGCATCTTTAACAT-TCCTAAGCCCAATGTTGCT-GACCTTTAATCAGCACATTAGCA
126 GCATATTGGTACCTTTAACATCT-TTAAGCCCAATGTCACTAG-CCTTGAATCAGCACATTGGCA
465076 TTCTTC
189 -----C
* * * * * *
465082 TCATCTTCAAGTCTAATGTCGCT-AGCTGTGAATCAGCACATTGGAATTTTTCTCATCTTTAAGC
1 -C-T-TT-AAGTCCAATATCGCTAACCT-TGAATCAGCATATTGGTACTTTT-TCATCTTTAAGC
* ** *
465146 CTAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTATAAGTCTAATATCGTTGGCCTCGAATC
60 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTATAAGTCTAATATCGTTGGCCTTGAATC
* * * *
465211 AGTATATTGGTACCTTTACCATCTTTAAGCCCAACGTCACTAGCCTTGAATCATCACATTGGCAC
125 AGCATATTGGTACCTTTAACATCTTTAAGCCCAATGTCACTAGCCTTGAATCAGCACATTGGCAC
* * * * *
465276 CTTTAAGTCCAATATCGCTAGGCCTTGAATCAGCATATTAGCACTTTTATCATCTTTAAGTCTAA
1 CTTTAAGTCCAATATCGCTA-ACCTTGAATCAGCATATTGGTACTTTT-TCATCTTTAAGCCCAA
* * * *
465341 TGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTAGCCTTGAATCAACA
64 TGTCACTGGCCTTGAATCAGCACATTGGCACCTATAAGTCTAATATCGTTGGCCTTGAATCAGCA
* * ** ** * *
465406 TTTTGGTAGCTTTGTCATCTTTAAGTGCAATGTCTCTAGTCTTGAATCAGCACATTGGCAC
129 TATTGGTACCTTTAACATCTTTAAGCCCAATGTCACTAGCCTTGAATCAGCACATTGGCAC
* *
465467 CTTTAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTATCTTTGTCATCTTCAAGCCCAAT
1 CTTTAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTA-CTTTTTCATCTTTAAGCCCAAT
465532 GTCACTGGCCTTGAATCAGCA
65 GTCACTGGCCTTGAATCAGCA
465553 TATTCAGACT
Statistics
Matches: 397, Mismatches: 61, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
190 67 0.17
191 168 0.42
192 3 0.01
193 1 0.00
194 1 0.00
198 1 0.00
199 73 0.18
200 7 0.02
201 29 0.07
202 1 0.00
203 2 0.01
204 44 0.11
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (189 bp):
CTTTAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGTACTTTTTCATCTTTAAGCCCAATG
TCACTGGCCTTGAATCAGCACATTGGCACCTATAAGTCTAATATCGTTGGCCTTGAATCAGCATA
TTGGTACCTTTAACATCTTTAAGCCCAATGTCACTAGCCTTGAATCAGCACATTGGCAC
Found at i:465840 original size:88 final size:89
Alignment explanation
Indices: 465558--465885 Score: 298
Period size: 88 Copynumber: 3.7 Consensus size: 89
465548 CAGCATATTC
* * * * *
465558 AGACTAATGCATGAATTGTATCTA-A-AATCGGATTCTTTTTTTATAAAAAAAGAAAAGTTGATT
1 AGACTAATACATAAATTATATC-AGAGAATCAGATTCATTTTTTAT-AAAAAA-AAAAGTTGATT
* * * *
465621 GAGTGTAAATGTTAGACTAAAAATATT
63 GAGTATAAATGTCAGACTGAAAAGATT
* * *
465648 AGACTAATACATGAATTATATCAGAGAATCAGA-T--TTTTTTAT-ATAAAAAAA-TTAATTGAG
1 AGACTAATACATAAATTATATCAGAGAATCAGATTCATTTTTTATAAAAAAAAAAGTTGATTGAG
* * *
465708 TATAAATGTCAGATTGCAAGGATT
66 TATAAATGTCAGACTGAAAAGATT
*
465732 AGATTAATACATGAAA-TATATCAGAGAATC-GTATTC-TTTTTTATAAAAAAAAAAGTTGATTG
1 AGACTAATACAT-AAATTATATCAGAGAATCAG-ATTCATTTTTTATAAAAAAAAAAGTTGATTG
* * *
465794 ATTATAAATGGCAGACTGTAAAGATT
64 AGTATAAATGTCAGACTGAAAAGATT
* ** * *
465820 AGACTAATGCATAAATTATATTTGAGAATCAGATTTCATTTTATAGAAAAGAAAAAAAGTTGATT
1 AGACTAATACATAAATTATATCAGAGAATCAGA-TTCATTTTTTA-TAAA-AAAAAAAGTTGATT
465885 G
63 G
465886 GTTTTACATG
Statistics
Matches: 197, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
83 1 0.01
84 51 0.26
85 7 0.04
86 12 0.06
87 11 0.06
88 58 0.29
89 5 0.03
90 28 0.14
91 9 0.05
92 15 0.08
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (89 bp):
AGACTAATACATAAATTATATCAGAGAATCAGATTCATTTTTTATAAAAAAAAAAGTTGATTGAG
TATAAATGTCAGACTGAAAAGATT
Found at i:467634 original size:13 final size:13
Alignment explanation
Indices: 467616--467641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
467606 ACATTTTGGG
467616 ATGTATCGATACA
1 ATGTATCGATACA
467629 ATGTATCGATACA
1 ATGTATCGATACA
467642 TATTTGTGTG
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:467636 original size:33 final size:33
Alignment explanation
Indices: 467594--467662 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
467584 CGTTACAAGC
467594 CAATGTATCGATACAT-TTTGGGATGTATCGATA
1 CAATGTATCGATACATATTTGGG-TGTATCGATA
*
467627 CAATGTATCGATACATATTTGTGTGTATCGATA
1 CAATGTATCGATACATATTTGGGTGTATCGATA
467660 CAA
1 CAA
467663 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATATTTGGGTGTATCGATA
Found at i:467800 original size:20 final size:20
Alignment explanation
Indices: 467777--467817 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
467767 CTGTACAATC
* *
467777 TGTATCGATACATTTGAAGG
1 TGTATCAATACATTTCAAGG
*
467797 TGTATCAATACTTTTCAAGG
1 TGTATCAATACATTTCAAGG
467817 T
1 T
467818 TTTGACCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCAATACATTTCAAGG
Found at i:468239 original size:21 final size:23
Alignment explanation
Indices: 468202--468248 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
468192 TTTTCTTTTT
468202 TTTCTCCCCCTTAAATAAAA-AA
1 TTTCTCCCCCTTAAATAAAATAA
468224 TTTCTCCCCCTT-AATAAAATAA
1 TTTCTCCCCCTTAAATAAAATAA
468246 TTT
1 TTT
468249 AACAATTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTCTCCCCCTTAAATAAAATAA
Found at i:470124 original size:13 final size:13
Alignment explanation
Indices: 470106--470131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
470096 ATAAACCCTT
470106 TGTATCGATACAA
1 TGTATCGATACAA
470119 TGTATCGATACAA
1 TGTATCGATACAA
470132 AGAATGATGT
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):
TGTATCGATACAA
Found at i:475574 original size:33 final size:32
Alignment explanation
Indices: 475532--475599 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
475522 CGTTACAAGC
*
475532 CAATGTATCGATACATTTTGAGATATATCGATA
1 CAATGTATCGATACATATTGAG-TATATCGATA
* *
475565 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGAGTATATCGATA
475597 CAA
1 CAA
475600 ATAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGAGTATATCGATA
Found at i:475677 original size:13 final size:13
Alignment explanation
Indices: 475659--475683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
475649 ACATTTGGTC
475659 ATGTATCGATACA
1 ATGTATCGATACA
475672 ATGTATCGATAC
1 ATGTATCGATAC
475684 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:475716 original size:20 final size:20
Alignment explanation
Indices: 475693--475733 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
475683 CTGTGCAATC
*
475693 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
475713 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
475733 T
1 T
475734 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:476814 original size:14 final size:14
Alignment explanation
Indices: 476805--476847 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
476795 AAAAAAAATC
476805 AACAACAA-AACAAA
1 AACAACAACAA-AAA
*
476819 AAAAACAAACAAAAA
1 AACAAC-AACAAAAA
476834 AACAACAACAAAAA
1 AACAACAACAAAAA
476848 GGGTCCGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.52
15 10 0.40
16 2 0.08
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (14 bp):
AACAACAACAAAAA
Found at i:476821 original size:21 final size:21
Alignment explanation
Indices: 476786--476838 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
476776 TCCACAAAAA
*
476786 AAAAAGAAGAAAAAAAATC-AAC
1 AAAAA-AACAAAAAAAA-CAAAC
*
476808 AACAAAACAAAAAAAACAAAC
1 AAAAAAACAAAAAAAACAAAC
476829 AAAAAAACAA
1 AAAAAAACAA
476839 CAACAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.02
Consensus pattern (21 bp):
AAAAAAACAAAAAAAACAAAC
Found at i:476833 original size:32 final size:33
Alignment explanation
Indices: 476783--476846 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
476773 TCCTCCACAA
* *
476783 AAAAAAAAGAAGAAAAAAAATCAACAACAAAAC
1 AAAAAAAACAAGAAAAAAAAACAACAACAAAAC
*
476816 AAAAAAAACAA-ACAAAAAAACAACAACAAAA
1 AAAAAAAACAAGAAAAAAAAACAACAACAAAA
476847 AGGGTCCGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.81, C:0.14, G:0.03, T:0.02
Consensus pattern (33 bp):
AAAAAAAACAAGAAAAAAAAACAACAACAAAAC
Found at i:478270 original size:30 final size:29
Alignment explanation
Indices: 478229--478387 Score: 169
Period size: 30 Copynumber: 5.5 Consensus size: 29
478219 CATCATTTCC
* *
478229 AAAGCCCACAAGTTAGTGGCACCCTCTTCA
1 AAAGCCCACAAGTCAGTGGCA-ACTCTTCA
* * * * *
478259 AAAGTCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACTCTTCA
478288 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCAACTCTTCA
* * * *
478316 AAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-ACTCTTCA
* *
478346 AAAGCCCACAAATCAGTAGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCAACTCTTCA
478374 AAAGCCCACAAGTC
1 AAAGCCCACAAGTC
478388 CATGGCATCT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
28 39 0.36
29 27 0.25
30 41 0.38
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.19
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCAACTCTTCA
Found at i:478403 original size:58 final size:57
Alignment explanation
Indices: 478215--478400 Score: 248
Period size: 58 Copynumber: 3.2 Consensus size: 57
478205 TTCGTTGGTT
* * * * *
478215 GTGGCATCATTTCCAAAGCCCACAAGTTAGTGGCACCCTCTTCAAAAGTCCACAAGTTA
1 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-AC-CTTCAAAAGCCCACAAGTCA
*
478274 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCTACAAGTCA
1 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
* * *
478331 GTGGCACCCTTTTCCAAAGCCCACAAATCAGTAGCAACCTTCAAAAGCCCACAAGTCCA
1 GTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGT-CA
478390 -TGGCATCTTTT
1 GTGGCATCTTTT
478401 TCCTTTTAAG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
57 28 0.25
58 51 0.45
59 35 0.31
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (57 bp):
GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
Found at i:478440 original size:32 final size:32
Alignment explanation
Indices: 478375--478464 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
478365 CAACCTTCAA
* * *
478375 AAGCCCACAAGTCCATGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
*
478408 AAGCCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
*
478440 AAGTCCACAACTCCGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
478465 AAGCCCAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
32 34 0.65
33 18 0.35
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.32
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:478549 original size:35 final size:35
Alignment explanation
Indices: 478503--478614 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
478493 CATATTGGTA
478503 CCTTTTCTTTTTTAAGTCCACAACTTCGTGGCACT
1 CCTTTTCTTTTTTAAGTCCACAACTTCGTGGCACT
478538 CCTTTTCTTTTTTAAGTCCACAAC-TCTGTGGCACT
1 CCTTTTCTTTTTTAAGTCCACAACTTC-GTGGCACT
* * * * *
478573 CTTTTTCTTTTGTAAGCCCACAACTCCGTGGTACT
1 CCTTTTCTTTTTTAAGTCCACAACTTCGTGGCACT
*
478608 CTTTTTC
1 CCTTTTC
478615 CCTTTAAGCC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 2 0.03
35 67 0.96
36 1 0.01
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.44
Consensus pattern (35 bp):
CCTTTTCTTTTTTAAGTCCACAACTTCGTGGCACT
Found at i:478628 original size:34 final size:34
Alignment explanation
Indices: 478505--478629 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 34
478495 TATTGGTACC
* * *
478505 TTTTCTTTTTTAAGTCCACAACTTCGTGGCACTCC
1 TTTTC-TTTTTAAGCCCACAACTCCGTGGCACTCT
* *
478540 TTTTCTTTTTTAAGTCCACAACTCTGTGGCACTCT
1 TTTTC-TTTTTAAGCCCACAACTCCGTGGCACTCT
*
478575 TTTTCTTTTGTAAGCCCACAACTCCGTGGTACTCT
1 TTTTCTTTT-TAAGCCCACAACTCCGTGGCACTCT
**
478610 TTTTCCCTTTAAGCCCACAA
1 TTTTCTTTTTAAGCCCACAA
478630 GTCAGTGACA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.19
35 66 0.81
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (34 bp):
TTTTCTTTTTAAGCCCACAACTCCGTGGCACTCT
Found at i:478646 original size:34 final size:34
Alignment explanation
Indices: 478513--478646 Score: 117
Period size: 35 Copynumber: 3.9 Consensus size: 34
478503 CCTTTTCTTT
* * **
478513 TTTAAGTCCACAACTTC-GTGGCACTCCTTTTCTTT
1 TTTAAGCCCACAAC-TCAGTGGCACTCTTTTTC-CC
* * **
478548 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCTT
1 TTTAAGCCCACAACTCAGTGGCACTCTTTTTCCC
* *
478582 TTGTAAGCCCACAACTCCGTGGTACTCTTTTTCCC
1 TT-TAAGCCCACAACTCAGTGGCACTCTTTTTCCC
* * *
478617 TTTAAGCCCACAAGTCAGTGACACCCTTTT
1 TTTAAGCCCACAACTCAGTGGCACTCTTTT
478647 CAAAAGCCCA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.34
35 57 0.66
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (34 bp):
TTTAAGCCCACAACTCAGTGGCACTCTTTTTCCC
Found at i:478654 original size:30 final size:28
Alignment explanation
Indices: 478620--478689 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
478610 TTTTCCCTTT
*
478620 AAGCCCACAAGTCAGTGACACCCTTTTCAA
1 AAGCCCACAAGTCAGTGACAACC--TTCAA
* *
478650 AAGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGACAACCTTCAA
*
478678 AAGCACACAAGT
1 AAGCCCACAAGT
478690 TGGTGGTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 16 0.44
30 20 0.56
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGACAACCTTCAA
Found at i:478757 original size:49 final size:49
Alignment explanation
Indices: 478704--479082 Score: 365
Period size: 49 Copynumber: 8.0 Consensus size: 49
478694 GGTGTCTTCT
* *
478704 TTTAAGTCCAATATCGCTGACCTTGAATTAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
478753 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
478802 TTTAAGTCCAATATCACTGGTCC-TGAATCAGCATATTAGCACC---ATC
1 TTTAAGTCCAATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTTATC
* ** * * *
478848 TCTAAAACCAATGTCGCTAGCCTTGAATCAGCACATTGG---C---A--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
478889 --TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACC-TTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
478935 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TTATC
* * * *
478987 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
479036 TTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
479083 ACATTCCTAA
Statistics
Matches: 272, Mismatches: 43, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
39 31 0.11
42 1 0.00
43 2 0.01
45 2 0.01
46 31 0.11
48 37 0.14
49 122 0.45
50 3 0.01
52 43 0.16
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:479100 original size:101 final size:100
Alignment explanation
Indices: 478889--479128 Score: 277
Period size: 101 Copynumber: 2.4 Consensus size: 100
478879 CACATTGGCA
* * * * *
478889 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTG
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGACCAATATCGTTG
*** *
478954 GCCTTGAATCAGCATATTGGCACCTTTGTTATCTT
66 GCCTTGAATCAGCATATTGGCACCTTTAACATCTC
** * *
478989 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGACCAATATCGTT
*
479054 GGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCC
65 GGCCTTGAATCAGCATATTGGCACCTTTAACATCT-C
* ** *
479090 TAAG-CGCAATGTCATTGGCCTTGTCTCAGCCCATTGGCA
1 TAAGTC-CAATGTCACTGGCCTTGAATCAGCACATTGGCA
479129 TTTTTCTTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
100 40 0.34
101 77 0.66
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (100 bp):
TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGACCAATATCGTTG
GCCTTGAATCAGCATATTGGCACCTTTAACATCTC
Done.