Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold317
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: 576627
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 7
Found at i:340 original size:2 final size:2
Alignment explanation
Indices: 333--363 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
323 AGTCTCCATT
333 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
364 AAATTGATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2008 original size:1 final size:1
Alignment explanation
Indices: 2002--2037 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
1992 AAGAATCTCA
**
2002 CCCCCCCCCCCCCCAACCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
2038 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.06, C:0.94, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2022 original size:16 final size:16
Alignment explanation
Indices: 2001--2031 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1991 TAAGAATCTC
2001 ACCCCCCCCCCCCCCA
1 ACCCCCCCCCCCCCCA
2017 ACCCCCCCCCCCCCC
1 ACCCCCCCCCCCCCC
2032 CCCCCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.90, G:0.00, T:0.00
Consensus pattern (16 bp):
ACCCCCCCCCCCCCCA
Found at i:8146 original size:30 final size:30
Alignment explanation
Indices: 8112--8170 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
8102 ATAAAAGTGA
8112 TAAATATTAA-AATTTAAAATTTAAATTTTT
1 TAAATATTAATAA-TTAAAATTTAAATTTTT
*
8142 TAAATATTAATTAATTAAATTTTAAATTT
1 TAAATATTAA-TAATTAAAATTTAAATTT
8171 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 14 0.54
32 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAATATTAATAATTAAAATTTAAATTTTT
Found at i:8170 original size:37 final size:37
Alignment explanation
Indices: 8121--8193 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
8111 ATAAATATTA
8121 AAATTTAAAATTTAAATTTTTTAAATATTAATTAATT
1 AAATTTAAAATTTAAATTTTTTAAATATTAATTAATT
* * * *
8158 AAATTTTAAATTTAATTTTTTTAGATATTACTTAAT
1 AAATTTAAAATTTAAATTTTTTAAATATTAATTAAT
8194 ACAACACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
AAATTTAAAATTTAAATTTTTTAAATATTAATTAATT
Found at i:8467 original size:21 final size:22
Alignment explanation
Indices: 8443--8502 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
8433 AATTATTACG
* *
8443 TATTATATTTATATT-ATTTTT
1 TATTATAATTAAATTAATTTTT
8464 TATTATAATTAAATTAATTTTT
1 TATTATAATTAAATTAATTTTT
*
8486 TCTTCTATAATTAAATT
1 T-AT-TATAATTAAATT
8503 TAAAAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.39
22 7 0.21
23 1 0.03
24 12 0.36
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATAATTAAATTAATTTTT
Found at i:8544 original size:21 final size:20
Alignment explanation
Indices: 8520--8565 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8510 TTTACATATA
8520 TATAAATTTTGACAAATTATG
1 TATAAATTTTGACAAATT-TG
* * *
8541 TATATATTTTTACATATTTG
1 TATAAATTTTGACAAATTTG
8561 TATAA
1 TATAA
8566 TAATATCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (20 bp):
TATAAATTTTGACAAATTTG
Found at i:8756 original size:23 final size:24
Alignment explanation
Indices: 8730--8779 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
8720 TTTTTCGTAT
*
8730 TATAATCAA-TTTAAAATATTATA
1 TATAATAAATTTTAAAATATTATA
* *
8753 TAT-ATAAATTTTAACATGTTATA
1 TATAATAAATTTTAAAATATTATA
8776 TATA
1 TATA
8780 GATTTTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TATAATAAATTTTAAAATATTATA
Found at i:8894 original size:17 final size:16
Alignment explanation
Indices: 8872--8905 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8862 ATTATGTTAG
*
8872 TATTATTTTTTATATTT
1 TATTATGTTTTA-ATTT
8889 TATTATGTTTTAATTT
1 TATTATGTTTTAATTT
8905 T
1 T
8906 TTTGTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTATGTTTTAATTT
Found at i:10314 original size:28 final size:28
Alignment explanation
Indices: 10256--10341 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
10246 ATAAATTTTA
* * * *
10256 ATTTAT-TAATAATTTATTTTACATAAT
1 ATTTATATAATTATATATTTTATATTAT
*
10283 -TTTAATATAATTATATA-TTTATATTTT
1 ATTT-ATATAATTATATATTTTATATTAT
* * *
10310 ATTTATATTATTTTTTATTTTATATTAT
1 ATTTATATAATTATATATTTTATATTAT
10338 ATTT
1 ATTT
10342 TAATTATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.07
27 19 0.41
28 24 0.52
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTATATAATTATATATTTTATATTAT
Found at i:10316 original size:17 final size:17
Alignment explanation
Indices: 10296--10354 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
10286 AATATAATTA
10296 TATATTTATATTTTATT
1 TATATTTATATTTTATT
*
10313 TATA-TTATTTTTTATT
1 TATATTTATATTTTATT
*
10329 T-TATATTATATTTTAAT
1 TATAT-TTATATTTTATT
*
10346 TATTTTTAT
1 TATATTTAT
10355 TTATTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.06
16 12 0.34
17 19 0.54
18 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTATATTTTATT
Found at i:10332 original size:12 final size:12
Alignment explanation
Indices: 10300--10356 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
10290 TAATTATATA
10300 TTTATATTTTA-
1 TTTATATTTTAT
10311 TTTATA--TTAT
1 TTTATATTTTAT
*
10321 TTTTTATTTTAT
1 TTTATATTTTAT
*
10333 ATTATATTTTA-
1 TTTATATTTTAT
*
10344 ATTAT-TTTTAT
1 TTTATATTTTAT
10355 TT
1 TT
10357 ATTATAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.08
10 10 0.26
11 12 0.32
12 13 0.34
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATATTTTAT
Found at i:10347 original size:28 final size:27
Alignment explanation
Indices: 10300--10356 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
10290 TAATTATATA
*
10300 TTTATATTTTATTTATATTATTTTTTAT
1 TTTATATTATATTTATATTA-TTTTTAT
10328 TTTATATTATATTT-TAATTATTTTTAT
1 TTTATATTATATTTAT-ATTATTTTTAT
10355 TT
1 TT
10357 ATTATAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTATATTATATTTATATTATTTTTAT
Found at i:10355 original size:34 final size:34
Alignment explanation
Indices: 10296--10361 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
10286 AATATAATTA
* *
10296 TATATTTATATTTTATTTATATTATTTTTTATTT
1 TATATTTATATTTTAATTATATTATTTATTATTT
*
10330 TATA-TTATATTTTAATTATTTTTATTTATTAT
1 TATATTTATATTTTAATTA-TATTATTTATTAT
10362 AATGGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (34 bp):
TATATTTATATTTTAATTATATTATTTATTATTT
Found at i:11821 original size:3 final size:3
Alignment explanation
Indices: 11813--11846 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11803 GATTTTATTC
11813 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11847 ATATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:12187 original size:28 final size:28
Alignment explanation
Indices: 12156--12227 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
12146 ACTTTTTACA
*
12156 TATTTTTTTTTACTTTTCT-ATACTCCAT
1 TATTTTTTTTTACTTTTCTCATAATCC-T
* * *
12184 TA-TTTCTTTTACTTTTTTCATAATTCT
1 TATTTTTTTTTACTTTTCTCATAATCCT
*
12211 TATTTTTTTCTACTTTT
1 TATTTTTTTTTACTTTT
12228 TTTCAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 17 0.47
28 19 0.53
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (28 bp):
TATTTTTTTTTACTTTTCTCATAATCCT
Found at i:21829 original size:18 final size:19
Alignment explanation
Indices: 21793--21834 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
21783 TTAATTACAA
21793 AATTTTATATATTTTTATT
1 AATTTTATATATTTTTATT
21812 AATTTT-TA-ATTATTTATT
1 AATTTTATATATT-TTTATT
21830 AATTT
1 AATTT
21835 CTTGAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTATATATTTTTATT
Found at i:22575 original size:368 final size:368
Alignment explanation
Indices: 21891--22596 Score: 977
Period size: 368 Copynumber: 1.9 Consensus size: 368
21881 TCTTTAATGG
* * **
21891 TCATTTTCCCTTCTCGTTATAATTCATCTCACCATTGCCACTTTGAATCCAAACATGTATTCTAC
1 TCATTTTCCCTTCTCATTATAATTCATATCACCACCGCCACTTTGAATCCAAACATGTATTCTAC
* ** *
21956 TGTTAATTTTAATCTCACTATTATAATATTTAATCCCACCACTACAGTAACTAATCTCACTGTCA
66 -GCTAATTTTAATCTCACTATTATAATACCTAATCCCACCACTACAGTAACTAATCTCACTATCA
* * *** * * * * * * *
22021 CTATTAATTTTAATCTCATTGAAACTAATCTCGCTATCCATCCAAATAGATCTTTAATAGTATAG
130 CTATTAATATCAATCTCACCAAAACTAATCTCACTACCCATCCAAATAAACCCTTAATAATATAA
* *
22086 TATGTTGACCTATATGGAAGACAAACTTTTTCATTGTTTGAGAGAATCATACTAAAATATACAAC
195 TATATTGACCTACATGGAAGACAAACTTTTTCATTGTTTGAGAGAATCATACTAAAATATACAAC
* * * *
22151 ACACAATACTAAGAAAAAAGATTATAGTAAAGCTATAACCCTTGAACATTTTAATAATTAATATT
260 ACACAATACTAAGAAAAAAGATTAGAGTAAAGCTATAACCCTAGAACATCTTAATAATTAAGATT
22216 TAAAGATATTTTCCTATGAATCATAGTTTTCAATCTCTTCATTT
325 TAAAGATATTTTCCTATGAATCATAGTTTTCAATCTCTTCATTT
** *
22260 TCATTTTCCCTTCTCATTATAATTCATATTGCCACCGTCACTTTGAATCCAAACATGTATTTCAT
1 TCATTTTCCCTTCTCATTATAATTCATATCACCACCGCCACTTTGAATCCAAACATGTA-TTC-T
* * * * * *
22325 A-GCTAATTTTAATCTCACTA-TATAATGCCTAATCTCACCTCTACGGTAACTAATCTTATTATC
64 ACGCTAATTTTAATCTCACTATTATAATACCTAATCCCACCACTACAGTAACTAATCTCACTATC
* *
22388 A-TTTCTAATATCAATCTCACCAAAACTAATCTCATTACCCATCCAAATAAACCCTTAATAATAT
129 ACTAT-TAATATCAATCTCACCAAAACTAATCTCACTACCCATCCAAATAAACCCTTAATAATAT
22452 AATATATTGACCTACATGGAAGACAAACTTTTTCATTGTTTGAGAGAATCATACTAAAATATACA
193 AATATATTGACCTACATGGAAGACAAACTTTTTCATTGTTTGAGAGAATCATACTAAAATATACA
* * * *
22517 ACATACAATACTAAGAAAAAAGATTGGAGTAAAGCTATACCCCTAGAACATCTTAATAATTAGGA
258 ACACACAATACTAAGAAAAAAGATTAGAGTAAAGCTATAACCCTAGAACATCTTAATAATTAAGA
*
22582 TTTAAAGATCTTTTC
323 TTTAAAGATATTTTC
22597 TTACGGATCA
Statistics
Matches: 292, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
367 2 0.01
368 215 0.74
369 70 0.24
370 3 0.01
371 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (368 bp):
TCATTTTCCCTTCTCATTATAATTCATATCACCACCGCCACTTTGAATCCAAACATGTATTCTAC
GCTAATTTTAATCTCACTATTATAATACCTAATCCCACCACTACAGTAACTAATCTCACTATCAC
TATTAATATCAATCTCACCAAAACTAATCTCACTACCCATCCAAATAAACCCTTAATAATATAAT
ATATTGACCTACATGGAAGACAAACTTTTTCATTGTTTGAGAGAATCATACTAAAATATACAACA
CACAATACTAAGAAAAAAGATTAGAGTAAAGCTATAACCCTAGAACATCTTAATAATTAAGATTT
AAAGATATTTTCCTATGAATCATAGTTTTCAATCTCTTCATTT
Found at i:25904 original size:20 final size:20
Alignment explanation
Indices: 25881--25933 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
25871 ATGAACTTAA
*
25881 TTTTGGCCTAATCAA-CTTGG
1 TTTTGACCTAAT-AAGCTTGG
*
25901 TTTTGACCTTATAAGCTTGG
1 TTTTGACCTAATAAGCTTGG
* *
25921 TTGTGTCCTAATA
1 TTTTGACCTAATA
25934 GGCTCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTTGACCTAATAAGCTTGG
Found at i:28829 original size:51 final size:51
Alignment explanation
Indices: 28769--28889 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
28759 CCCTCGGAAT
* *
28769 ATGGGGTTGGAATATCCCCGAGATAAAAAATTTAATATTTTTAAAATAAAA
1 ATGGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTGAAAATAAAA
* ** * **
28820 ATGGGGTTGGAGTATTCTTGAGATATAAAATTTAATATTTTGGGAATAAAA
1 ATGGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTGAAAATAAAA
* *
28871 GTAGGGTTGGAGTATCCCC
1 ATGGGGTTGGAGTATCCCC
28890 TAAGATGAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (51 bp):
ATGGGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTGAAAATAAAA
Found at i:30955 original size:20 final size:21
Alignment explanation
Indices: 30912--30967 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
30902 GTATTGATAC
*
30912 ATTGTATCGATACATACTTGA
1 ATTGTATCGATACATACGTGA
*
30933 ATTGTATTGATACATA-GTGA
1 ATTGTATCGATACATACGTGA
30953 ATTGTATCGATACAT
1 ATTGTATCGATACAT
30968 TGAGCCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATACGTGA
Found at i:38319 original size:20 final size:20
Alignment explanation
Indices: 38294--38378 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
38284 TTTTAACTAG
38294 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
38314 ATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
38345 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
38365 ATGTATCGATACAT
1 ATGTATCGATACAT
38379 CTAGGTACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 29 0.54
21 2 0.04
22 1 0.02
23 2 0.04
28 2 0.04
29 1 0.02
30 2 0.04
31 15 0.28
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:39773 original size:12 final size:12
Alignment explanation
Indices: 39755--39793 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
39745 ATAAATATAA
39755 AATATGTATATG
1 AATATGTATATG
* *
39767 TATATGTATTTG
1 AATATGTATATG
*
39779 AATATGTATTTG
1 AATATGTATATG
39791 AAT
1 AAT
39794 GTGATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (12 bp):
AATATGTATATG
Found at i:39984 original size:2 final size:2
Alignment explanation
Indices: 39977--40009 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39967 TGCACGTGAC
39977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40010 AAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40051 original size:18 final size:18
Alignment explanation
Indices: 40012--40051 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
40002 TATATATAAA
**
40012 GAGAGAGAAAGAAGGAGG
1 GAGAGAGAAAGAAAAAGG
*
40030 GAGAGAGAAAGAAAAAGT
1 GAGAGAGAAAGAAAAAGG
40048 GAGA
1 GAGA
40052 AGTTAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (18 bp):
GAGAGAGAAAGAAAAAGG
Found at i:40575 original size:12 final size:12
Alignment explanation
Indices: 40554--40596 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
40544 TTTGAAAAAC
40554 TATTTATAATATA
1 TATTT-TAATATA
*
40567 TATTTTAATATT
1 TATTTTAATATA
40579 TATATTTAATAATA
1 TAT-TTTAAT-ATA
40593 TATT
1 TATT
40597 AAATTCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 12 0.46
14 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTTAATATA
Found at i:41446 original size:14 final size:14
Alignment explanation
Indices: 41413--41458 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
41403 ACATTTTATA
41413 TTTAAAAAC-ATA-
1 TTTAAAAACAATAT
*
41425 TGTAAAAACAATAT
1 TTTAAAAACAATAT
41439 TTTAAAAA-AGATAT
1 TTTAAAAACA-ATAT
41453 TTTAAA
1 TTTAAA
41459 TATTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 4 0.14
14 17 0.59
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (14 bp):
TTTAAAAACAATAT
Found at i:42538 original size:19 final size:19
Alignment explanation
Indices: 42498--42554 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
42488 AAATTATTCA
42498 ATTATTTATTAATTTATT-TGT
1 ATTATTTA-T-ATTT-TTATGT
42519 ATTATTTATATTTTTATGT
1 ATTATTTATATTTTTATGT
*
42538 ATCTAATT-TATTTTTAT
1 AT-TATTTATATTTTTAT
42555 ATATAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 5 0.15
21 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTATTTATATTTTTATGT
Found at i:42574 original size:17 final size:18
Alignment explanation
Indices: 42541--42585 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
42531 TTTATGTATC
*
42541 TAATTTATT-TTTATATA
1 TAATTAATTATTTATATA
42558 TAATTAATTATTT-TATA
1 TAATTAATTATTTATATA
*
42575 TAGTTAATTAT
1 TAATTAATTAT
42586 AAAGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTAATTATTTATATA
Found at i:50859 original size:98 final size:98
Alignment explanation
Indices: 50686--50883 Score: 308
Period size: 98 Copynumber: 2.0 Consensus size: 98
50676 TGAATAATCC
* * * *
50686 ATGTTATATTATTTCATTCACCATCTTACTAACATGTTTTTCGTGTGATAATTATTACCATTCAT
1 ATGTTATATTATTTCAATCACCATATTACTAACATGCTTTTCGTGTGATAATTATTACCATACAT
50751 GTTTCCAAAATTTGTTTACAAAAATCATAAAGG
66 GTTTCCAAAATTTGTTTACAAAAATCATAAAGG
* *
50784 ATGTTATATTATTTCAATCACCATATTACTAACATGCTTTTCTTGTGATGATTATT-CACATACA
1 ATGTTATATTATTTCAATCACCATATTACTAACATGCTTTTCGTGTGATAATTATTAC-CATACA
* *
50848 TGTTTCTAAAATTTGTTTATAAAAATCATAAAGG
65 TGTTTCCAAAATTTGTTTACAAAAATCATAAAGG
50882 AT
1 AT
50884 TTGTTTTGTG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
97 1 0.01
98 90 0.99
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (98 bp):
ATGTTATATTATTTCAATCACCATATTACTAACATGCTTTTCGTGTGATAATTATTACCATACAT
GTTTCCAAAATTTGTTTACAAAAATCATAAAGG
Found at i:51337 original size:96 final size:96
Alignment explanation
Indices: 51173--51366 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 96
51163 TGTAACTAAC
* *
51173 TCTCGAACCTAACCAGTGAATCTTTGAATTATGTAGTCCATGAAATTGATGTTTCGAGTTTCACA
1 TCTCGAACCTAACCAGTGAATCTTTGAATTATGTAGTCCACGAAATAGATGTTTCGAGTTTCACA
51238 ACTCAAAACATAGGTTTTATTATGCATCCAA
66 ACTCAAAACATAGGTTTTATTATGCATCCAA
*
51269 TCTCGAACCTAACCAGTGAATCTTTGAATTATGTAGTCCACGAGATAGATGTTTCGAGTTTCACA
1 TCTCGAACCTAACCAGTGAATCTTTGAATTATGTAGTCCACGAAATAGATGTTTCGAGTTTCACA
51334 ACTCAAAACATAGGTTTTATTATGCATCCAA
66 ACTCAAAACATAGGTTTTATTATGCATCCAA
51365 TC
1 TC
51367 ATGCCTAACC
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (96 bp):
TCTCGAACCTAACCAGTGAATCTTTGAATTATGTAGTCCACGAAATAGATGTTTCGAGTTTCACA
ACTCAAAACATAGGTTTTATTATGCATCCAA
Found at i:55986 original size:14 final size:16
Alignment explanation
Indices: 55967--55998 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
55957 AGGACAATTC
55967 TGGCCT-CTAAC-ATT
1 TGGCCTACTAACTATT
55981 TGGCCTACTAACTATT
1 TGGCCTACTAACTATT
55997 TG
1 TG
55999 ATTTTGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (16 bp):
TGGCCTACTAACTATT
Found at i:59562 original size:18 final size:17
Alignment explanation
Indices: 59536--59655 Score: 67
Period size: 17 Copynumber: 7.2 Consensus size: 17
59526 TAGATCCATG
59536 ATATAATATAATATAGTT
1 ATATAATATAATATA-TT
* *
59554 ATTTAATATGATATATT
1 ATATAATATAATATATT
59571 ATATAAT-T--TATATT
1 ATATAATATAATATATT
**
59585 ATATACCATAATA-ATCT
1 ATATAATATAATATAT-T
*
59602 AT-TAATTTAA-ATATT
1 ATATAATATAATATATT
* *
59617 ACATGATATAAATATTAGTT
1 ATATAATAT-AATA-TA-TT
*
59637 GTATAA-A-AATATATT
1 ATATAATATAATATATT
59652 ATAT
1 ATAT
59656 TAGATGTCGC
Statistics
Matches: 77, Mismatches: 15, Indels: 23
0.67 0.13 0.20
Matches are distributed among these distances:
14 11 0.14
15 9 0.12
16 16 0.21
17 19 0.25
18 14 0.18
19 3 0.04
20 5 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (17 bp):
ATATAATATAATATATT
Found at i:61067 original size:51 final size:51
Alignment explanation
Indices: 60991--61108 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
60981 GGAGATAACA
* * *
60991 GGGTTTAAGTATCCCCGATTATGAGAAAT-TACTATTTTAGAAAT-AAGACCG
1 GGGTTGAAGTATCCCCAATTATGAGAAATCAAC-ATTTTAGAAATAAAG-CCG
* * *
61042 GGGTTGAAGTATCCCCAATTGTGAGAAATCAACATTTTGGAAATAAAGCCT
1 GGGTTGAAGTATCCCCAATTATGAGAAATCAACATTTTAGAAATAAAGCCG
*
61093 GGGTTGGAGTATCCCC
1 GGGTTGAAGTATCCCC
61109 GATGAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 53 0.91
52 5 0.09
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCAATTATGAGAAATCAACATTTTAGAAATAAAGCCG
Found at i:61195 original size:179 final size:181
Alignment explanation
Indices: 60912--61236 Score: 478
Period size: 179 Copynumber: 1.8 Consensus size: 181
60902 GATAGTAACG
** * *
60912 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTGAAAGTAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGAAAAAAATCAATGATTTGAAAGTAAAACCGGGATTGGAGTATCC
* * * *
60977 CCTCGGAGATAACAGGGTTTAAGTATCCCCGATTATGAGAAATTACTATTTTAGAAATAAGACCG
66 CCTCGAAGATAACAGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCG
*
61042 GGGTTGAAGTATCCCCAATTGTGAGAAATCAACATTTTGGAAATAAAGCCT
131 AGGTTGAAGTATCCCCAATTGTGAGAAATCAACATTTTGGAAATAAAGCCT
* *
61093 GGGTTGGAGTATCCCCGA-TGAAAAAAA-CTAATGTTTTAGAAA-TAAAATCGGGATTGGAGTAT
1 GGGTTGGAGTATCCCCGATTGAAAAAAATC-AATGATTT-GAAAGTAAAACCGGGATTGGAGTAT
* *
61155 CCCCTCGAAG-TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAC
64 CCCCTCGAAGATAACAGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAC
*
61219 CGAGGTTGGAGTATCCCC
129 CGAGGTTGAAGTATCCCC
61237 TCGGAAATAA
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
179 66 0.52
180 40 0.31
181 22 0.17
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (181 bp):
GGGTTGGAGTATCCCCGATTGAAAAAAATCAATGATTTGAAAGTAAAACCGGGATTGGAGTATCC
CCTCGAAGATAACAGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCG
AGGTTGAAGTATCCCCAATTGTGAGAAATCAACATTTTGGAAATAAAGCCT
Found at i:61309 original size:80 final size:78
Alignment explanation
Indices: 61093--61314 Score: 297
Period size: 78 Copynumber: 2.8 Consensus size: 78
61083 AATAAAGCCT
* * *
61093 GGGTTGGAGTATCCCCGATGAAA-AAAACTAATGTTTTAGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTGGAGTATCCCCGATGAAAGAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
61157 CCTCGAAGTAACG
66 CCTCGAAATAACG
* * * *
61170 GGGTTGGAGTATCCCCGAT-TATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATGAAAGA-AAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
61234 CCCTCGGAAATAACG
65 CCCTC-GAAATAACG
**
61249 GGGTTGGAGTATCCCCGATGAAAGGAAAATTTGTGTTTT-GAAAATAAAACCGGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATGAAA-GAAAATTAATGTTTTAG-AAATAAAACCGGGGTTGGAGTAT
61313 CC
64 CC
61315 TCGATTGTGG
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
76 1 0.01
77 20 0.16
78 39 0.31
79 28 0.22
80 35 0.28
81 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATGAAAGAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAATAACG
Found at i:61550 original size:54 final size:52
Alignment explanation
Indices: 61485--61586 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 52
61475 TAGCTTGTGA
* * *
61485 AAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTG--TTTTGAAAATAAAACCGGAGTTGGAGTACCCCCGATTAAAGG
*
61539 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTACCCCCGATTA
1 AAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTACCCCCGATTA
61587 TGAAAAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 34 0.77
54 10 0.23
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
AAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTACCCCCGATTAAAGG
Found at i:61572 original size:52 final size:52
Alignment explanation
Indices: 61247--61596 Score: 217
Period size: 51 Copynumber: 6.7 Consensus size: 52
61237 TCGGAAATAA
* * *
61247 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTTGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTGTTTTGAAAATAAAAC
* * * *
61299 CGGGGTTGGAGTATCCTCGATT-GTGGAAAATTAGTGTTTT-AGAGATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTGTTTTGA-AAATAAAAC
* * * **
61350 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATATTTTGATAAAATAAAGG
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTGTTTTG--AAAATAAAAC
* ** *** ** * ***** *
61403 CTGGGTTGGAGTATCCCTCGGAGGCAATGG-GGCTTGAAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCC-C-GA-TTAATGGAAAATTGGTGTTTTGAAAAT-AAA-AC
* ** * * * * *
61459 CGAGGTTGGAGTATCCTAGCTT-GTGAAAAATTGGTGTTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTG--TTTTGAAAATAAAAC
* *
61512 CGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTGTTTTGAAAATAAAAC
* *
61564 CGGGGTTGGAGTACCCCCGATT-ATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTAATGGAAAATTG
61597 AGAAACTTAA
Statistics
Matches: 217, Mismatches: 67, Indels: 29
0.69 0.21 0.09
Matches are distributed among these distances:
50 1 0.00
51 66 0.30
52 55 0.25
53 44 0.20
54 19 0.09
55 9 0.04
56 20 0.09
57 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTAATGGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:63964 original size:34 final size:33
Alignment explanation
Indices: 63918--63984 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
63908 AACTTCCTAG
* * *
63918 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCAATACAAAGAA-AAATGTATCAATACA
*
63952 ATGTATCAATACACAGAAAAATGTATCAATACA
1 ATGTATCAATACAAAGAAAAATGTATCAATACA
63985 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (33 bp):
ATGTATCAATACAAAGAAAAATGTATCAATACA
Found at i:64040 original size:19 final size:20
Alignment explanation
Indices: 64016--64069 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
64006 AGCGATACAT
*
64016 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
64035 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
64056 TGTATCGATACAAA
1 TGTATCGATACAAA
64070 TTATTGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:64131 original size:21 final size:20
Alignment explanation
Indices: 64105--64160 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
64095 GTTGGGACCC
*
64105 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGCA-AA
*
64126 TGTATCGATACA-TTCCAAA
1 TGTATCGATACATTTGCAAA
64145 TGTATCGATACATTTG
1 TGTATCGATACATTTG
64161 GATAAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.45
20 5 0.16
21 12 0.39
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGCAAA
Found at i:65544 original size:157 final size:154
Alignment explanation
Indices: 65255--66332 Score: 721
Period size: 156 Copynumber: 7.0 Consensus size: 154
65245 TAAGTTCAAG
* * * * *
65255 AAAAATTATGAAAATGCCCCTA-GAGGATACCTTCGACATAAAAGT-TC-CTAGCACCCCTAAAG
1 AAAAATTATAAAAATGCCCTTATG-GGATACCTTCGACATGAAAGTATCTC-GGTACCCCTAAAG
** * * * *
65317 GACAAAAATAGGATTTTAAAAGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCGGA
64 GACTTAAA-AGGA-CTAAAAAGGGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAGA
* * * *
65382 TCCGGTGATAACTTAGGGCTCGGTTCTT
127 CCCGGTGATAACCTAGGACTCGGTTCTA
* * * **
65410 AAAAATTATGAAAATGCCCTTACGGGATACTTTTAACATGAAAGTATCTCGGTACCCCTAAAGGA
1 AAAAATTATAAAAATGCCCTTATGGGATACCTTCGACATGAAAGTATCTCGGTACCCCTAAAGGA
* *
65475 CTTAAAAGGGACTAAAAATGGTGATGAACCTATCCTAAATGTCTACCTTCGGCATAAAAGCAGAC
66 CTTAAAA-GGACTAAAAA-GG-GATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAGAC
* * *
65540 CCGGTGATAACCTAGGATTCAGTTTTAA
128 CCGGTGATAACCTAGGACTCGGTTCT-A
* * * * ** * * * * * *
65568 AAAAATTATGAAAATACCCCTAGGGGATATTTTTGACTGTGAAAGTATCACAGTACCCTTAAAGA
1 AAAAATTATAAAAATGCCCTTATGGGATACCTTCGAC-ATGAAAGTATCTCGGTACCCCTAAAGG
* ** * *
65633 ACTTAAAAAGGACTAGAAATGGTGATGAACCTAT-CTAAATGCCCACCTTCAGCATAAAAGCGGA
65 ACTT-AAAAGGACTA-AAAAGG-GATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAGA
** * **
65697 CTTGGTGACAACCTAGGACTTAGTTCTA
127 CCCGGTGATAACCTAGGACTCGGTTCTA
* * * * * * *
65725 AAAAATTACAAAAATGCTCGTATGGGTATACCTTCGACATAAAATTATC-CTG-ACGACCTTAAA
1 AAAAATTATAAAAATGCCCTTATGGG-ATACCTTCGACATGAAAGTATCTCGGTAC--CCCTAAA
* * * * * * * * * *
65788 TGACTTAAAAAGACTAGAGATGGGATGAACATATCCTAAATGTCCGCCTTGGGCATAAAAACAAA
63 GGACTTAAAAGGACTA-AAAAGGGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAGA
* * * * *
65853 CCTGGTGAGAACCTTAAGACTTGATTCTA
127 CCCGGTGATAACC-TAGGACTCGGTTCTA
* * * * * ** * *
65882 GAAAATTACAAAAATGCTCC-TAAGAGATACCTTTGATGTGAAAGTAT-TCCGATAACCCTAAAG
1 AAAAATTATAAAAATGC-CCTTATGGGATACCTTCGACATGAAAGTATCT-CGGTACCCCTAAAG
* *
65945 GAC-TATAAAGG--------GGG-TGAACTTATCCTAAATA-CACACCTTCGGCATAAAAGCGGA
64 GACTTA-AAAGGACTAAAAAGGGATGAACCTATCCTAAATATC-CACCTTCGGCATAAAAGCAGA
* * *
65999 CCCGGTGATAACCTAAGATTCGATTCTA
127 CCCGGTGATAACCTAGGACTCGGTTCTA
* * * * * * *
66027 AAAAATTATAAAAAT-ACCTCTATAGGTATACCTTCAATATGAAAGTATCCCGATAACCCTAAAG
1 AAAAATTATAAAAATGCCCT-TAT-GGGATACCTTCGACATGAAAGTATCTCGGTACCCCTAAAG
* * * * *
66091 GACTTAAAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACTTTCTGCATAAAAGC-GAA
64 GACTTAAAAGGACTA-AAAAGGGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAG-A
* * *
66155 CTCGATGACAACCTAGGACTCGGTTCTA
127 CCCGGTGATAACCTAGGACTCGGTTCTA
* * *
66183 AAAAATTATGAAAATG-CTTCTATGGGTATACCTTCGACGTGAAAGTATCTC-G-ACGACCCTAA
1 AAAAATTATAAAAATGCCCT-TATGGG-ATACCTTCGACATGAAAGTATCTCGGTAC--CCCTAA
* * * *
66245 AGGACTTAAAAAGGATTTTAAAAA-GGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAAC
62 AGGACTT-AAAAGGA--CTAAAAAGGGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGC
* * *
66309 AGACCCAGTAATAACCTAAGACTC
124 AGACCCGGTGATAACCTAGGACTC
66333 AATTTCGTAA
Statistics
Matches: 737, Mismatches: 140, Indels: 90
0.76 0.14 0.09
Matches are distributed among these distances:
143 2 0.00
145 29 0.04
146 82 0.11
147 5 0.01
154 1 0.00
155 64 0.09
156 213 0.29
157 192 0.26
158 94 0.13
159 48 0.07
160 7 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (154 bp):
AAAAATTATAAAAATGCCCTTATGGGATACCTTCGACATGAAAGTATCTCGGTACCCCTAAAGGA
CTTAAAAGGACTAAAAAGGGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAGCAGACCCG
GTGATAACCTAGGACTCGGTTCTA
Found at i:66216 original size:302 final size:294
Alignment explanation
Indices: 65333--66254 Score: 765
Period size: 302 Copynumber: 3.0 Consensus size: 294
65323 AATAGGATTT
* * * *
65333 TAAAAGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCGGATCCGGTGATAACTTAG
1 TAAAGGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGACCCGGTGATAACCTAG
** * * * * * *
65398 GGCTCGGTTCTTAAAAATTATGAAAATGCC-CT-TACGGGATACTTTTAACATGAAAGTATCTCG
65 GATTC-GTTCTAAAAAATTATAAAAAT-CCTCTATA-GGTATACCTTCAACATGAAAGTATCCCG
* * * *
65461 GTACCCCTAAAGGACTTAAAAGGGACTAAAAATGGTGATGAACCTATCCTAAATGTCTACCTTCG
127 ATAACCCTAAAGGACTTAAAA-AGACTAAAAA-GG-GATGAACCTATCCTAAATGTCCACCTTCG
* * * * * *
65526 GCATAAAAGCAGACCCGGTGATAACCTAGGATTCAGTTTTAAAAAAATTATGAAAATACCCCTAG
189 GCATAAAAGCA-A-CCGGTGACAACCTAGGACTCGGTTCT-AAAAAATTATGAAAATGCTCCTA-
** * *
65591 GGGATATTTTTGACTGTGAAAGTATCACAGTACCCTTAAAGAACTTAAAAAGGACTA
250 GGGATACCTTTGA-TGTGAAAGTATCAC-G-A----T--A-ACCCT--AAAGGACTA
* * * * ** *
65648 GAAATGGTGATGAACCTAT-CTAAATGCCCACCTTCAGCATAAAAGCGGACTTGGTGACAACCTA
1 TAAA-GGGGATGAACCTATCCTAAAT-ACCACCTTCGGCATAAAAGCGGACCCGGTGATAACCTA
* * * * * * * *
65712 GGACTTAGTTCTAAAAAATTACAAAAATGCTCGTATGGGTATACCTTCGACATAAAATTATCCTG
64 GGA-TTCGTTCTAAAAAATTATAAAAATCCTC-TATAGGTATACCTTCAACATGAAAGTATCCCG
** * * * * * * *
65777 ACGACCTTAAATGACTTAAAAAGACTAGAGATGGGATGAACATATCCTAAATGTCCGCCTTGGGC
127 ATAACCCTAAAGGACTTAAAAAGACTA-AAAAGGGATGAACCTATCCTAAATGTCCACCTTCGGC
* * * * * * ** *
65842 ATAAAAACAAACCTGGTGAGAACCTTAAGACTTGATTCTAGAAAATTACAAAAATGCTCCTAAGA
191 ATAAAAGC-AACC-GGTGACAACC-TAGGACTCGGTTCTAAAAAATTATGAAAATGCTCCT-AGG
65907 GATACCTTTGATGTGAAAGTATTC-CGATAACCCTAAAGGACTA
252 GATACCTTTGATGTGAAAGTA-TCACGATAACCCTAAAGGACTA
* * *
65950 TAAAGGGGGTGAACTTATCCTAAATACACACCTTCGGCATAAAAGCGGACCCGGTGATAACCTAA
1 TAAAGGGGATGAACCTATCCTAAATAC-CACCTTCGGCATAAAAGCGGACCCGGTGATAACCTAG
*
66015 GATTCGATTCTAAAAAATTATAAAAATACCTCTATAGGTATACCTTCAATATGAAAGTATCCCGA
65 GATTCG-TTCTAAAAAATTATAAAAAT-CCTCTATAGGTATACCTTCAACATGAAAGTATCCCGA
* ** * *
66080 TAACCCTAAAGGACTTAAAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACTTTCTGCA
128 TAACCCTAAAGGACTTAAAAAGACTA-AAAAGGGATGAACCTATCCTAAATGTCCACCTTCGGCA
* *
66145 TAAAAGCGAACTCGATGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGCTTCTATGGGT
192 TAAAAGC-AAC-CGGTGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGCTCCTA-GGG-
* * * **
66210 ATACCTTCGACGTGAAAGTATCTCGACGACCCTAAAGGACT-
253 ATACCTTTGATGTGAAAGTATCACGATAACCCTAAAGGACTA
66251 TAAA
1 TAAA
66255 AAGGATTTTA
Statistics
Matches: 479, Mismatches: 108, Indels: 54
0.75 0.17 0.08
Matches are distributed among these distances:
300 1 0.00
301 52 0.11
302 199 0.42
303 4 0.01
304 3 0.01
305 1 0.00
307 1 0.00
311 1 0.00
312 1 0.00
313 13 0.03
314 74 0.15
315 77 0.16
316 51 0.11
317 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (294 bp):
TAAAGGGGATGAACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACCCGGTGATAACCTAGG
ATTCGTTCTAAAAAATTATAAAAATCCTCTATAGGTATACCTTCAACATGAAAGTATCCCGATAA
CCCTAAAGGACTTAAAAAGACTAAAAAGGGATGAACCTATCCTAAATGTCCACCTTCGGCATAAA
AGCAACCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGCTCCTAGGGATACCTTT
GATGTGAAAGTATCACGATAACCCTAAAGGACTA
Found at i:66996 original size:150 final size:150
Alignment explanation
Indices: 66825--67112 Score: 349
Period size: 150 Copynumber: 1.9 Consensus size: 150
66815 TTTCACATGT
* * * *
66825 TTAATTTAATTTTTCTCAAAAAGTGTCATTTCGTACCTTGATG-GAAAC-CTGCCAAA-ATACGA
1 TTAATTTAATTTTTCTCAAAAA--ATCATTTCGAACCTT-AAGAGAAACTC-G-AAAAGATACGA
*
66887 AAA-ATTTT-GAAATCTTTTAATACCCTTACGGATA-TCCATAGGAATATAAAAGA-TTAAAAAT
61 AAAGATTTTCGAAATCTTTT-ATACCCCTACGGATACT-CATAGGAATATAAAAGACTTAAAAAT
* *
66948 GATTAATTTTTATTTTAGTGAGGGAAA
124 AATTAATATTTATTTTAGTGAGGGAAA
*
66975 TTAATTTAATTATTTCT-AAAAAATCATTTCGAACCTTAAGAGATACTCGAAAAGATACGAAAAG
1 TTAATTTAATT-TTTCTCAAAAAATCATTTCGAACCTTAAGAGAAACTCGAAAAGATACGAAAAG
* * *
67039 TTTTTCGAAATCTTTTATACCCCTACGGATACTCATAGGAATATAAAAGACTTGAAAATAATTGA
65 ATTTTCGAAATCTTTTATACCCCTACGGATACTCATAGGAATATAAAAGACTTAAAAATAATTAA
67104 TATTTATTT
130 TATTTATTT
67113 ATATTTGAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
147 5 0.04
148 27 0.23
149 36 0.30
150 46 0.39
151 5 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (150 bp):
TTAATTTAATTTTTCTCAAAAAATCATTTCGAACCTTAAGAGAAACTCGAAAAGATACGAAAAGA
TTTTCGAAATCTTTTATACCCCTACGGATACTCATAGGAATATAAAAGACTTAAAAATAATTAAT
ATTTATTTTAGTGAGGGAAA
Found at i:68381 original size:54 final size:53
Alignment explanation
Indices: 68313--68415 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
68303 TGTTCGCTAC
* *
68313 AGTTTCATTGCTGTCATGGCTCATG-GGAGTTGCTTGATGTTGCTACCATACTGA
1 AGTTTCATTACTGTCATGGCT--TGCGGAATTGCTTGATGTTGCTACCATACTGA
* *
68367 AGTTTCATTACTGTCATTGCTTGCTGGAATTGTTTGATGTTGCTACCAT
1 AGTTTCATTACTGTCATGGCTTGC-GGAATTGCTTGATGTTGCTACCAT
68416 GCTGTTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 2 0.05
54 41 0.95
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.41
Consensus pattern (53 bp):
AGTTTCATTACTGTCATGGCTTGCGGAATTGCTTGATGTTGCTACCATACTGA
Found at i:69314 original size:7 final size:7
Alignment explanation
Indices: 69304--69474 Score: 79
Period size: 7 Copynumber: 23.7 Consensus size: 7
69294 TTTTCATCAT
69304 TTTTTGA
1 TTTTTGA
69311 TTTTTGA
1 TTTTTGA
69318 TTTTT--
1 TTTTTGA
*
69323 TTATT-A
1 TTTTTGA
*
69329 TTTTTTA
1 TTTTTGA
69336 -TTTTGA
1 TTTTTGA
*
69342 TTTTAGA
1 TTTTTGA
*
69349 TTTTAGA
1 TTTTTGA
*
69356 TTTGATGA
1 TTT-TTGA
*
69364 TTTTTTTAA
1 --TTTTTGA
69373 TTTTTTTGA
1 --TTTTTGA
*
69382 TTCATTGA
1 TT-TTTGA
*
69390 TTTTTTTTA
1 --TTTTTGA
69399 TTTTTGA
1 TTTTTGA
69406 TTATTATGA
1 TT-TT-TGA
*
69415 TTTTTCA
1 TTTTTGA
*
69422 TATTTGA
1 TTTTTGA
69429 TTTTT--
1 TTTTTGA
69434 TTTATT-A
1 TTT-TTGA
69441 -TTTTGA
1 TTTTTGA
69447 TTTTTGA
1 TTTTTGA
69454 TTTTTTGA
1 -TTTTTGA
69462 TTTTTTGA
1 -TTTTTGA
69470 TTTTT
1 TTTTT
69475 TTATTTTATA
Statistics
Matches: 131, Mismatches: 17, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
5 9 0.07
6 14 0.11
7 60 0.46
8 25 0.19
9 18 0.14
10 5 0.04
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.71
Consensus pattern (7 bp):
TTTTTGA
Found at i:69315 original size:8 final size:8
Alignment explanation
Indices: 69302--69481 Score: 99
Period size: 8 Copynumber: 22.6 Consensus size: 8
69292 ATTTTTCATC
69302 ATTTTTTG
1 ATTTTTTG
69310 A-TTTTTG
1 ATTTTTTG
*
69317 ATTTTTTT
1 ATTTTTTG
69325 ATTATTTT-
1 ATT-TTTTG
69333 -TTATTTTG
1 ATT-TTTTG
*
69341 A-TTTTAG
1 ATTTTTTG
*
69348 A-TTTTAG
1 ATTTTTTG
**
69355 ATTTGATG
1 ATTTTTTG
*
69363 ATTTTTTTA
1 A-TTTTTTG
69372 ATTTTTTTG
1 A-TTTTTTG
**
69381 ATTCATTG
1 ATTTTTTG
69389 ATTTTTT-
1 ATTTTTTG
*
69396 TTATTTTTG
1 AT-TTTTTG
*
69405 ATTATTATG
1 ATT-TTTTG
*
69414 A-TTTTTC
1 ATTTTTTG
*
69421 A-TATTTG
1 ATTTTTTG
*
69428 ATTTTTTTT
1 A-TTTTTTG
69437 ATTATTTTG
1 ATT-TTTTG
69446 A-TTTTTG
1 ATTTTTTG
69453 ATTTTTTG
1 ATTTTTTG
69461 ATTTTTTG
1 ATTTTTTG
*
69469 ATTTTTTT
1 ATTTTTTG
69477 ATTTT
1 ATTTT
69482 ATATCGAATA
Statistics
Matches: 135, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
7 42 0.31
8 60 0.44
9 33 0.24
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.72
Consensus pattern (8 bp):
ATTTTTTG
Found at i:69321 original size:25 final size:23
Alignment explanation
Indices: 69292--69345 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
69282 CATTTTATTC
69292 ATTTTTCATCATTTTTTGATTTTTG
1 ATTTTTCATCATTTTTT-A-TTTTG
* *
69317 ATTTTTTTATTATTTTTTATTTTG
1 A-TTTTTCATCATTTTTTATTTTG
69341 ATTTT
1 ATTTT
69346 AGATTTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 6 0.23
25 2 0.08
26 14 0.54
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (23 bp):
ATTTTTCATCATTTTTTATTTTG
Found at i:69377 original size:25 final size:25
Alignment explanation
Indices: 69302--69419 Score: 67
Period size: 26 Copynumber: 4.9 Consensus size: 25
69292 ATTTTTCATC
*
69302 ATTTTTTGATTT-TTGATTTTTTTA
1 ATTTTTTGATTTCATGATTTTTTTA
69326 TTATTTTTT-ATTT--TGA---TTTTA
1 --ATTTTTTGATTTCATGATTTTTTTA
* *
69347 GA-TTTTAGATTTGATGATTTTTTTA
1 -ATTTTTTGATTTCATGATTTTTTTA
*
69372 ATTTTTTTGA-TTCATTGATTTTTTTT
1 A-TTTTTTGATTTCA-TGATTTTTTTA
*
69398 A-TTTTTGATTATTATGATTTTT
1 ATTTTTTGATT-TCATGATTTTT
69420 CATATTTGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
19 4 0.05
20 5 0.07
21 5 0.07
22 3 0.04
24 11 0.15
25 21 0.28
26 26 0.35
ACGTcount: A:0.19, C:0.01, G:0.09, T:0.70
Consensus pattern (25 bp):
ATTTTTTGATTTCATGATTTTTTTA
Found at i:69406 original size:64 final size:63
Alignment explanation
Indices: 69311--69473 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 63
69301 CATTTTTTGA
*
69311 TTTTTGATTTTTTTATTATTTTTTA-TTTTGATTTTA-GA-TTTT-AGATTTGATGATTTTTTTA
1 TTTTTGA-TTTTTGATT-TTTTTTATTTTTGATTTTATGATTTTTCAGATTTGAT--TTTTTTT-
69372 ATT
61 ATT
* *
69375 TTTTTGATTCATTGATTTTTTTTATTTTTGATTATTATGATTTTTCATATTTGATTTTTTTTATT
1 TTTTTGATT-TTTGATTTTTTTTATTTTTGATT-TTATGATTTTTCAGATTTGATTTTTTTTATT
* *
69440 ATTTTGATTTTTGA-TTTTTTGATTTTTTGATTTT
1 TTTTTGATTTTTGATTTTTTTTA-TTTTTGATTTT
69474 TTTATTTTAT
Statistics
Matches: 86, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
63 18 0.21
64 33 0.38
65 14 0.16
66 9 0.10
67 4 0.05
68 8 0.09
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.71
Consensus pattern (63 bp):
TTTTTGATTTTTGATTTTTTTTATTTTTGATTTTATGATTTTTCAGATTTGATTTTTTTTATT
Found at i:69418 original size:23 final size:24
Alignment explanation
Indices: 69375--69474 Score: 82
Period size: 23 Copynumber: 4.2 Consensus size: 24
69365 TTTTTTAATT
*
69375 TTTTTGATTCA-T-TGATTTTTTTTA
1 TTTTTGATT-ATTATGA-TTTTTTGA
*
69399 TTTTTGATTATTATGA-TTTTTCA
1 TTTTTGATTATTATGATTTTTTGA
* * * *
69422 TATTTGATTTTTTTTATTATTTTGA
1 TTTTTGATTATTATGATT-TTTTGA
*
69447 TTTTTGATT-TTTTGATTTTTTGA
1 TTTTTGATTATTATGATTTTTTGA
69470 TTTTT
1 TTTTT
69475 TTATTTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
23 30 0.47
24 18 0.28
25 16 0.25
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (24 bp):
TTTTTGATTATTATGATTTTTTGA
Found at i:69459 original size:9 final size:9
Alignment explanation
Indices: 69361--69481 Score: 69
Period size: 9 Copynumber: 13.8 Consensus size: 9
69351 TTAGATTTGA
69361 TGATTTTTT
1 TGATTTTTT
*
69370 TAATTTTTT
1 TGATTTTTT
**
69379 TGA-TTCAT
1 TGATTTTTT
69387 TGATTTTTT
1 TGATTTTTT
*
69396 T--TATTTT
1 TGATTTTTT
* *
69403 TGATTATTA
1 TGATTTTTT
69412 TGATTTTTCATATT
1 TGA--TTT--T-TT
69426 TGATTTTTT
1 TGATTTTTT
* *
69435 TTATTATTT
1 TGATTTTTT
69444 TGA--TTTT
1 TGATTTTTT
69451 TGA-TTTTT
1 TGATTTTTT
69459 TGA-TTTTT
1 TGATTTTTT
69467 TGATTTTTT
1 TGATTTTTT
69476 T-ATTTT
1 TGATTTT
69482 ATATCGAATA
Statistics
Matches: 86, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
7 12 0.14
8 26 0.30
9 37 0.43
10 1 0.01
11 2 0.02
12 3 0.03
13 1 0.01
14 4 0.05
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (9 bp):
TGATTTTTT
Found at i:70872 original size:2 final size:2
Alignment explanation
Indices: 70865--70900 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
70855 ATCATTGTGT
70865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70901 ATGTTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71562 original size:93 final size:94
Alignment explanation
Indices: 71446--71641 Score: 288
Period size: 93 Copynumber: 2.1 Consensus size: 94
71436 GGAAAAATTG
*
71446 AAAAATTAAGTGCTAAAACATTAAATACCTAATTTTTAGTACTAAATTTATAAGCATTGAATTTG
1 AAAAATTAAGTGCTAAAACATTAAATACCTAATTTTTAGTACTAAATTTATAAGCATCGAATTTG
* * *
71511 TATTA-TAAAAATTGTTTAATATATTATT
66 TATTACAAAAAATTGCTTAATATATTACT
* * * *
71539 AAAAATTAGGTGCTGAATA-ATTAAATACTTAATTTTTAGTATTAAATTTATAAGCATCGAATTT
1 AAAAATTAAGTGCT-AAAACATTAAATACCTAATTTTTAGTACTAAATTTATAAGCATCGAATTT
*
71603 GTATTACAAAAAATTGCTTGATATATTACT
65 GTATTACAAAAAATTGCTTAATATATTACT
71633 AAAAATTAA
1 AAAAATTAA
71642 ATACTGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
93 61 0.67
94 30 0.33
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (94 bp):
AAAAATTAAGTGCTAAAACATTAAATACCTAATTTTTAGTACTAAATTTATAAGCATCGAATTTG
TATTACAAAAAATTGCTTAATATATTACT
Found at i:71728 original size:6 final size:7
Alignment explanation
Indices: 71692--71725 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
71682 GAATTTTGAA
*
71692 AATTGTT
1 AATTTTT
*
71699 AACTTTT
1 AATTTTT
71706 AATTTTT
1 AATTTTT
71713 AATTTTT
1 AATTTTT
71720 AATTTT
1 AATTTT
71726 AATAGCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (7 bp):
AATTTTT
Found at i:72186 original size:15 final size:16
Alignment explanation
Indices: 72168--72197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72158 TTACTTTTTC
72168 TTTTTT-AAAACATTT
1 TTTTTTCAAAACATTT
72183 TTTTTTCAAAACATT
1 TTTTTTCAAAACATT
72198 CATATAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTTCAAAACATTT
Found at i:77939 original size:10 final size:10
Alignment explanation
Indices: 77910--77948 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
77900 TATTTTATAT
77910 ATTTATTAAA
1 ATTTATTAAA
77920 ATTTAATTAAA
1 ATTT-ATTAAA
*
77931 ATTTTTTAAA
1 ATTTATTAAA
77941 ATTT-TTAA
1 ATTTATTAA
77949 TTAAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 13 0.48
11 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:82653 original size:2 final size:2
Alignment explanation
Indices: 82646--82687 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
82636 TTCCTCTTTC
82646 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82688 CAATCTAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84508 original size:2 final size:2
Alignment explanation
Indices: 84495--84537 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
84485 GATACCATCG
*
84495 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84538 AAGTCTCTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92161 original size:2 final size:2
Alignment explanation
Indices: 92154--92192 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
92144 AGGTCATGAC
92154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92193 GAGTTCTACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92858 original size:12 final size:12
Alignment explanation
Indices: 92836--92868 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
92826 GAAGTATGTC
92836 TAAACATAAAATA
1 TAAA-ATAAAATA
92849 TAAAATAAAATA
1 TAAAATAAAATA
92861 TAAAATAA
1 TAAAATAA
92869 CAAAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:93731 original size:2 final size:2
Alignment explanation
Indices: 93724--93760 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
93714 ACATACATAC
93724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93761 GGATAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94292 original size:2 final size:2
Alignment explanation
Indices: 94281--94311 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
94271 CAGCTTAAAA
94281 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94312 TGGGTAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:96515 original size:10 final size:10
Alignment explanation
Indices: 96500--96540 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
96490 TCCTGTATAG
96500 TATTTATTAA
1 TATTTATTAA
96510 TATTTATTAA
1 TATTTATTAA
* *
96520 TA--AACTAA
1 TATTTATTAA
96528 TATTTATTAA
1 TATTTATTAA
96538 TAT
1 TAT
96541 AAATATCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.24
10 19 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTTATTAA
Found at i:96521 original size:128 final size:129
Alignment explanation
Indices: 96392--96632 Score: 402
Period size: 126 Copynumber: 1.9 Consensus size: 129
96382 TGTTTGTTAA
*
96392 TAATAAACT-ATATTTATTAATA-ATAATATTTTTGAAAAA-TTTAAAAATCACAAATTTTGCAT
1 TAATAAACTAATATTTATTAATATA-AATATCTTTGAAAAATTTTAAAAATCACAAATTTTGCAT
* *
96454 TTTA-TTAATAAGGTAATTTCAAAAATTA-CATCATATTCCTGTATAGTATTTATTAATATTTAT
65 TTTATTTAATAAGGTAATTTCAAAAAATACCATCACATTCCTGTATAGTATTTATTAATATTTAT
*
96517 TAATAAACTAATATTTATTAATATAAATATCTTTGAAAAATTTTAAAAATCATAAATTTTGCATT
1 TAATAAACTAATATTTATTAATATAAATATCTTTGAAAAATTTTAAAAATCACAAATTTTGCATT
96582 TTATTTAATAAGGTAATTTCAAAAAATACCATCACATTCCTGTATAGTATT
66 TTATTTAATAAGGTAATTTCAAAAAATACCATCACATTCCTGTATAGTATT
96633 AATAAACCAC
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
125 9 0.08
126 27 0.25
127 27 0.25
128 23 0.21
129 21 0.20
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (129 bp):
TAATAAACTAATATTTATTAATATAAATATCTTTGAAAAATTTTAAAAATCACAAATTTTGCATT
TTATTTAATAAGGTAATTTCAAAAAATACCATCACATTCCTGTATAGTATTTATTAATATTTAT
Found at i:96736 original size:29 final size:29
Alignment explanation
Indices: 96702--96760 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
96692 ACCAAAAGTT
*
96702 CTAAT-ATCATTTTACCAACAATCACATTC
1 CTAATAATCATATT-CCAACAATCACATTC
* *
96731 CTAATAATCATATTCCCATAATCACATTC
1 CTAATAATCATATTCCAACAATCACATTC
96760 C
1 C
96761 ATTGAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (29 bp):
CTAATAATCATATTCCAACAATCACATTC
Found at i:96739 original size:15 final size:14
Alignment explanation
Indices: 96716--96761 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
96706 TATCATTTTA
*
96716 CCAACAATCACATT
1 CCAATAATCACATT
*
96730 CCTAATAATCATATT
1 CC-AATAATCACATT
*
96745 CCCATAATCACATT
1 CCAATAATCACATT
96759 CCA
1 CCA
96762 TTGAAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (14 bp):
CCAATAATCACATT
Found at i:99120 original size:10 final size:9
Alignment explanation
Indices: 99106--99169 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
99096 GTATTTTCTC
*
99106 ATTTTTTAA
1 ATTTTTTTA
*
99115 ATTTTTTCTT
1 ATTTTTT-TA
99125 ATTTTTCTT-
1 ATTTTT-TTA
99134 ATTTTTTGT-
1 ATTTTTT-TA
99143 ATTTTTTTAA
1 ATTTTTTT-A
*
99153 ATTTTTCTA
1 ATTTTTTTA
99162 ATTTTTTT
1 ATTTTTTT
99170 GTTATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 2 0.04
9 29 0.63
10 14 0.30
11 1 0.02
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:99123 original size:19 final size:18
Alignment explanation
Indices: 99099--99168 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 18
99089 TGCGTTTGTA
99099 TTTTCTCATTTTTTAAATT
1 TTTTCT-ATTTTTTAAATT
*
99118 TTTTCTTATTTTTCT-TATT
1 TTTTC-TATTTTT-TAAATT
*
99137 TTTTGTATTTTTTTAAA-T
1 TTTTCTA-TTTTTTAAATT
99155 TTTTCTAATTTTTT
1 TTTTCT-ATTTTTT
99169 TGTTATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 15 0.36
19 25 0.60
20 2 0.05
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (18 bp):
TTTTCTATTTTTTAAATT
Found at i:99129 original size:9 final size:9
Alignment explanation
Indices: 99117--99167 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
99107 TTTTTTAAAT
99117 TTTTTCTTA
1 TTTTTCTTA
99126 TTTTTCTTA
1 TTTTTCTTA
99135 TTTTT-TGTA
1 TTTTTCT-TA
99144 TTTTT-TTAAA
1 TTTTTCTT--A
*
99154 TTTTTCTAA
1 TTTTTCTTA
99163 TTTTT
1 TTTTT
99168 TTGTTATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 2 0.05
9 28 0.76
10 6 0.16
11 1 0.03
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTCTTA
Found at i:99130 original size:28 final size:28
Alignment explanation
Indices: 99099--99168 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
99089 TGCGTTTGTA
* *
99099 TTTTCTCATTTTTTAAATTTTTTCT-TAT
1 TTTTCTAATTTTTTAAATTTTTT-TAAAT
* **
99127 TTTTCTTATTTTTTGTATTTTTTTAAAT
1 TTTTCTAATTTTTTAAATTTTTTTAAAT
99155 TTTTCTAATTTTTT
1 TTTTCTAATTTTTT
99169 TGTTATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTTCTAATTTTTTAAATTTTTTTAAAT
Found at i:101604 original size:28 final size:27
Alignment explanation
Indices: 101543--101605 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
101533 GAATATTTTT
* * *
101543 TTATATTTTATTAAAAATGTTATTATA
1 TTATATTTTAATAAAAATATTATTAAA
101570 TTAATATTTTAATAATAAATATGTA-TAAA
1 TT-ATATTTTAATAA-AAATAT-TATTAAA
101599 TTATATT
1 TTATATT
101606 GTATAAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.07
28 16 0.53
29 10 0.33
30 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TTATATTTTAATAAAAATATTATTAAA
Found at i:102653 original size:155 final size:154
Alignment explanation
Indices: 102418--102701 Score: 367
Period size: 155 Copynumber: 1.8 Consensus size: 154
102408 AAATCTCCTA
* ** *
102418 TTTTAAAATACAAAGTTTTCTACCCCGTAAATTTTTTCGGAGGATTTTTCTTGGCTTTTAATTTT
1 TTTTAAAATACAAAGTTTTCTACCCCGTAAATTTTTACGGAAAATTTTTCTCGGCTTTTAATTTT
* * *
102483 TAAAATTAATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTT
66 TAAAATTAATCAAATATCATCATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTT
102548 CATTTTTTTCTTGAATTTTTCATG
131 CATTTTTTTCTTGAATTTTTCATG
* * *
102572 TTTTCAAAATACAGAA-TTTTCTACTCCGTAAATGTTTTAGGGAAAATTTTTCTCGGTTTTTAAT
1 TTTT-AAAATACA-AAGTTTTCTACCCCGTAAAT-TTTTACGGAAAATTTTTCTCGGCTTTTAAT
* * * * * *
102636 TTTT-TAATTCA-CAAAATATCATCATTTAATTCATATTAAATTATTTTTGAAAAATTCATTTAT
63 TTTTAAAATTAATC-AAATATCATCATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
102699 TTT
127 TTT
102702 CATGAGTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
154 5 0.05
155 75 0.68
156 30 0.27
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (154 bp):
TTTTAAAATACAAAGTTTTCTACCCCGTAAATTTTTACGGAAAATTTTTCTCGGCTTTTAATTTT
TAAAATTAATCAAATATCATCATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTT
CATTTTTTTCTTGAATTTTTCATG
Found at i:103233 original size:10 final size:11
Alignment explanation
Indices: 103204--103228 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
103194 TGATTAGCAA
103204 AAAAAAAAGAG
1 AAAAAAAAGAG
103215 AAAAAAAAGAG
1 AAAAAAAAGAG
103226 AAA
1 AAA
103229 GAAAGGCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:103233 original size:21 final size:20
Alignment explanation
Indices: 103209--103271 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
103199 AGCAAAAAAA
103209 AAAGAGAAAAAAAAGAGAAAG
1 AAAG-GAAAAAAAAGAGAAAG
103230 AAAGGCAAGAAAAATAGA-AAAG
1 AAAGG-AA-AAAAA-AGAGAAAG
* *
103252 AATAGGTAAAAAAATAGAAA
1 AA-AGGAAAAAAAAGAGAAA
103272 AACTAAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 12 0.34
23 6 0.17
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.06
Consensus pattern (20 bp):
AAAGGAAAAAAAAGAGAAAG
Found at i:103251 original size:22 final size:22
Alignment explanation
Indices: 103215--103272 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
103205 AAAAAAAGAG
103215 AAAAAAA-AGAGAAAGAA-AGGC
1 AAAAAAATAGA-AAAGAATAGGC
*
103236 AAGAAAAATAGAAAAGAATAGGT
1 AA-AAAAATAGAAAAGAATAGGC
103259 AAAAAAATAGAAAA
1 AAAAAAATAGAAAA
103273 ACTAAACTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 23 0.70
23 8 0.24
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAAAAATAGAAAAGAATAGGC
Found at i:104303 original size:155 final size:155
Alignment explanation
Indices: 104030--104463 Score: 442
Period size: 155 Copynumber: 2.8 Consensus size: 155
104020 AATATTAATC
* *** *
104030 ATTTTTTAATCTTTTATATTCCTATGACCATCCGTAGGGGTATAAAAGATTTTAAAACTTTTTGT
1 ATTTTTT-ATCTTTTATA-TACTATGGGGATCCGTAGGGGTATAAAAGATTTCAAAACTTTTTGT
* * * * *
104095 AT-TTTTTAGGTTTCCAATAAGGTACG-AAATGGTGTTTTTCAAAAATAAATAAATTAAATTAA-
64 ATCTTTTTGGGTTTCCATTAAGGTACGAAAATGGTATTTTTCAAAAACAAATAAATAAAATTAAG
* *
104157 C-ACTTTCATAATTGAAATAAATATTAATA
129 CAACTTTCATAACTGAAAGAAA-ATT--TA
* * *
104186 ATTTTTCTAATCTTTTA-A-ACTATGGGG-TCCGTAGAGGAATAAAAGATTTCAAAAACTTTTCG
1 ATTTTT-T-ATCTTTTATATACTATGGGGATCCGTAGGGGTATAAAAGATTTC-AAAACTTTTTG
* *
104248 TATCTTTTCGGGTTTCCATTAAGGTACGAAAAT-GTATTTATT-GAAAACAAATAAATAAAATTA
63 TATCTTTTTGGGTTTCCATTAAGGTACGAAAATGGTATTT-TTCAAAAACAAATAAATAAAATTA
* * *
104311 AGCTAATACTTTCATAACTGAGAGGAACTTTA
127 AGC--A-ACTTTCATAACTGAAAGAAAATTTA
*
104343 ATTTTTTATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTCAAAACTTTTTGTA
1 ATTTTTTATCTTTTATA-TACTATGGGGATCCGTAGGGGTATAAAAGATTTCAAAACTTTTTGTA
* * * *
104408 TCTTTTTGGGTTTCCATTAAGGTATG-AAAT-GAAATTTTCAAAAATAAA-AAATAAAA
65 TCTTTTTGGGTTTCCATTAAGGTACGAAAATGGTATTTTTCAAAAACAAATAAATAAAA
104464 AATAAAAAAT
Statistics
Matches: 233, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
153 20 0.09
154 18 0.08
155 53 0.23
156 26 0.11
157 33 0.14
158 44 0.19
159 23 0.10
160 16 0.07
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (155 bp):
ATTTTTTATCTTTTATATACTATGGGGATCCGTAGGGGTATAAAAGATTTCAAAACTTTTTGTAT
CTTTTTGGGTTTCCATTAAGGTACGAAAATGGTATTTTTCAAAAACAAATAAATAAAATTAAGCA
ACTTTCATAACTGAAAGAAAATTTA
Found at i:104459 original size:7 final size:7
Alignment explanation
Indices: 104447--104489 Score: 68
Period size: 7 Copynumber: 5.9 Consensus size: 7
104437 TGAAATTTTC
104447 AAAAATA
1 AAAAATA
104454 AAAAATA
1 AAAAATA
104461 AAAAATA
1 AAAAATA
104468 AAAAATA
1 AAAAATA
104475 AAATAATA
1 AAA-AATA
104483 AATAAAT
1 AA-AAAT
104490 TCTTTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 24 0.71
8 9 0.26
9 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:104466 original size:158 final size:154
Alignment explanation
Indices: 104020--104463 Score: 483
Period size: 156 Copynumber: 2.9 Consensus size: 154
104010 AAGATATTTC
* *** *
104020 AATATTAATCATTTTTTAATCTTTTATATTCCTATGACCATCCGTAGGGGTATAAAAGATTTTAA
1 AATATT-ATAATTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTCAA
* * *
104085 AACTTTTTGTAT-TTTTTAGGTTTCCAATAAGGTACGAAATGGTGTTTTTCAAAAATAAATAAAT
65 AACTTTTTGTATCTTTTTGGGTTTCCATTAAGGTACGAAAT-GTATTTTTCAAAAATAAA-AAAT
* * *
104149 TAAATTAACACTTTCATAATTGAAATA
128 AAAATTAACACTTTCATAACTGAAAGA
* * *
104176 AATATTAATAATTTTTCTAATCTTTTA-A--ACTATGGGG-TCCGTAGAGGAATAAAAGATTTCA
1 AATATT-ATAATTTTT-TAATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTC-
* * * *
104237 AAAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAAATGTATTTATTGAAAACA-AATA
63 AAAACTTTTTGTATCTTTTTGGGTTTCCATTAAGGTACG-AAATGTATTT-TTCAAAA-ATAAAA
* *
104301 AATAAAATTAAGCTAATACTTTCATAACTGAGAGG
125 AATAAAATTAA-C----ACTTTCATAACTGAAAGA
*
104336 AA-CTT-TAATTTTTT-ATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTCAAA
1 AATATTATAATTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTCAAA
* * *
104398 ACTTTTTGTATCTTTTTGGGTTTCCATTAAGGTATGAAATGAAATTTTCAAAAATAAAAAATAAA
66 ACTTTTTGTATCTTTTTGGGTTTCCATTAAGGTACGAAATGTATTTTTCAAAAATAAAAAATAAA
104463 A
131 A
104464 AATAAAAAAT
Statistics
Matches: 241, Mismatches: 31, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
153 20 0.08
154 18 0.07
155 46 0.19
156 47 0.20
157 27 0.11
158 44 0.18
159 23 0.10
160 16 0.07
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (154 bp):
AATATTATAATTTTTTAATCTTTTATATTCCTATGGGGATCCGTAGGGGTATAAAAGATTTCAAA
ACTTTTTGTATCTTTTTGGGTTTCCATTAAGGTACGAAATGTATTTTTCAAAAATAAAAAATAAA
ATTAACACTTTCATAACTGAAAGA
Found at i:105044 original size:155 final size:151
Alignment explanation
Indices: 104861--105423 Score: 556
Period size: 155 Copynumber: 3.6 Consensus size: 151
104851 TATCATCTTT
* * **
104861 TTTTTAAGTCCTTTAGGGGTATCGGGTACTTCTATTTCGAAGGTATCCCTCAAGGGTATTTTCGT
1 TTTTTAAGTCCTTTAAGGGTATCAGGTACTT-TACGTCGAAGGTATCCCT-AAGGGTATTTTCGT
* * * * * *
104926 AATTTTTTAGAACCAACTCTTAGGTCGTCACCAGGT-TCGCTTTTATGCTAAAGGTGGGTATTTA
64 AATTTTTTAGAATCGAGTCTTAGGTTGTCACCAGGTCT-GCTTTTATGCTGAAGGTGGGCATTTA
*
104990 GGATGGGTTCATCCCGTCTTAAACC
128 GGATAGGTTCATCCC-TCTTAAACC
* * * * *
105015 TTTTTTAAGTCTTTTAAGGGTATCAGGTACTTTACATCGACGGTATACCTATATGGGTATTTTTG
1 -TTTTTAAGTCCTTTAAGGGTATCAGGTACTTTACGTCGAAGGTATCCCTA-A-GGGTATTTTCG
* * * * * *
105080 TAATTTCTTAGAGTCGAGTCTTAGGTTGTCATCGGGTCTGCTTTTATGCTGAAGATGGGCAATTA
63 TAATTTTTTAGAATCGAGTCTTAGGTTGTCACCAGGTCTGCTTTTATGCTGAAGGTGGGCATTTA
** *
105145 GGATAGGTTCATCCCATCTTTTATC
128 GGATAGGTTCATCCC-TCTTAAACC
** * *
105170 TTTTTAAGTCCTTT-AGGGTTATTGGGATACTTTCATGTCAAAGGTATACCCATAAGGGTATTTT
1 TTTTTAAGTCCTTTAAGGG-TATCAGG-TACTTT-ACGTCGAAGGTAT-CCC-TAAGGGTATTTT
* * * * *
105234 CGTAATTTTTTAGAGTTGAGTCCTAGGTTGTCACTAGGTCTACTTTTATGCTGAAGGTGGGCATT
61 CGTAATTTTTTAGAATCGAGTCTTAGGTTGTCACCAGGTCTGCTTTTATGCTGAAGGTGGGCATT
*
105299 TAGGATAGGTTCATCCCTTTTAAAATCC
126 TAGGATAGGTTCATCCCTCTT-AAA-CC
* * * * *
105327 TTTTTAAATCCTTTAAGGGTATTAGGTACTTTTACGTCGAAGGTATCATCT-AGTGGCATTTTCA
1 TTTTTAAGTCCTTTAAGGGTATCAGGTAC-TTTACGTCGAAGGTATC-CCTAAG-GGTATTTTCG
* * *
105391 TAATTTTTTAGAATCGAATCCTAGATTGTCACC
63 TAATTTTTTAGAATCGAGTCTTAGGTTGTCACC
105424 GAATCCGTTT
Statistics
Matches: 335, Mismatches: 59, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
153 5 0.01
154 35 0.10
155 156 0.47
156 107 0.32
157 26 0.08
158 6 0.02
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (151 bp):
TTTTTAAGTCCTTTAAGGGTATCAGGTACTTTACGTCGAAGGTATCCCTAAGGGTATTTTCGTAA
TTTTTTAGAATCGAGTCTTAGGTTGTCACCAGGTCTGCTTTTATGCTGAAGGTGGGCATTTAGGA
TAGGTTCATCCCTCTTAAACC
Found at i:110388 original size:20 final size:20
Alignment explanation
Indices: 110363--110416 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
110353 TTTTACCCAG
***
110363 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGGATCA
* *
110383 ATGTATCAATACATGGATGA
1 ATGTATCGATACATGGATCA
110403 ATGTATCGATACAT
1 ATGTATCGATACAT
110417 CTAGTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGGATCA
Found at i:119904 original size:17 final size:18
Alignment explanation
Indices: 119884--119923 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
119874 TGAAAAAGTT
*
119884 AAAAATAAAAACACA-AA
1 AAAAACAAAAACACATAA
119901 AAAAACAAAAACACATAA
1 AAAAACAAAAACACATAA
119919 AAAAA
1 AAAAA
119924 AAGTGCAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAACAAAAACACATAA
Found at i:121213 original size:30 final size:30
Alignment explanation
Indices: 121179--121436 Score: 200
Period size: 30 Copynumber: 8.2 Consensus size: 30
121169 TTCAAATCTC
*
121179 TTTTCTAAGTCCATGACTCAGTGGCATCCT
1 TTTTCTAAGTCCACGACTCAGTGGCATCCT
* *
121209 TTTTCTTTTCAAAGTCCACAACTCAGTGGCATAACT
1 TTTTC---T--AAGTCCACGACTCAGTGGCAT-CCT
*
121245 TTTT-TAAGTCCACGACTTAGTGGCATCCTT
1 TTTTCTAAGTCCACGACTCAGTGGCATCC-T
* * *
121275 TTCTTCCAAGTCCACGACTTAGTGGCATCTT
1 TT-TTCTAAGTCCACGACTCAGTGGCATCCT
121306 TTTTCTTCAAAGTCCACGACTCAGTGGCAT-CT
1 TTTTC-T--AAGTCCACGACTCAGTGGCATCCT
* * * * *
121338 CTTTCCAAAATCTATGACTCAGTGGCAT-CT
1 -TTTTCTAAGTCCACGACTCAGTGGCATCCT
* * *
121368 TTTCTCAAAGTCCACGACCCAGTGGCATCTT
1 TTT-TCTAAGTCCACGACTCAGTGGCATCCT
*
121399 TTTTCTTCAAAGTCCACGACTCCGTGGCA-CCT
1 TTTTC-T--AAGTCCACGACTCAGTGGCATCCT
121431 TTTTCT
1 TTTTCT
121437 TTATAAAGCC
Statistics
Matches: 184, Mismatches: 26, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
29 4 0.02
30 71 0.39
31 10 0.05
32 31 0.17
33 43 0.23
35 19 0.10
36 6 0.03
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (30 bp):
TTTTCTAAGTCCACGACTCAGTGGCATCCT
Found at i:121409 original size:93 final size:92
Alignment explanation
Indices: 121177--121427 Score: 306
Period size: 93 Copynumber: 2.7 Consensus size: 92
121167 TCTTCAAATC
* * *
121177 TCTTTTCT-AAGTCCATGACTCAGTGGCATCCTTTTTCTTTTCAAAGTCCACAACTCAGTGGCAT
1 TCTTTTCTCAAGTCCACGACTCAGTGGCAT-CTTTTT-TCTTCAAAGTCCACGACTCAGTGGCAT
*** * *
121241 AACTTTTTTAAGTCCACGACTTAGTGGCA
64 AACTTTCCAAAATCCACGACTCAGTGGCA
*
121270 TCCTTTTCTTCCAAGTCCACGACTTAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 T-CTTTTC-T-CAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
** * *
121335 TCTCTTTCCAAAATCTATGACTCAGTGGCA
63 TAACTTTCCAAAATCCACGACTCAGTGGCA
* *
121365 TCTTTTCTCAAAGTCCACGACCCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCCGTGGCA
1 TCTTTTCTC-AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
121428 CCTTTTTCTT
Statistics
Matches: 137, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 52 0.38
94 12 0.09
95 47 0.34
96 6 0.04
97 19 0.14
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (92 bp):
TCTTTTCTCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATAA
CTTTCCAAAATCCACGACTCAGTGGCA
Found at i:121467 original size:34 final size:32
Alignment explanation
Indices: 121184--122610 Score: 808
Period size: 33 Copynumber: 44.8 Consensus size: 32
121174 ATCTCTTTTC
** *
121184 TAAGTCCATGACTCAGTGGCATCCTTTTTCTTT
1 TAAGTCCACAACTCCGTGGCAT-CTTTTTCTTT
* ***
121217 TCAAAGTCCACAACTCAGTGGCAT-AACTT-TTT
1 T--AAGTCCACAACTCCGTGGCATCTTTTTCTTT
* ** * *
121249 TAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * ** *
121281 CAAGTCCACGACTTAGTGGCATCTTTTTTCTTC
1 TAAGTCCACAACTCCGTGGCATC-TTTTTCTTT
* * * * *
121314 AAAGTCCACGACTCAGTGGCATCTCTTTC--C
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * ** * *
121344 AAAATCTATGACTCAGTGGCATC-TTTTC-TC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * *
121374 AAAGTCCACGAC-CCAGTGGCATCTTTTTTCTTC
1 TAAGTCCACAACTCC-GTGGCATC-TTTTTCTTT
* * *
121407 AAAGTCCACGACTCCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
121439 ATAAAGCCCACAACTCTGTGGCATCTTTTTCCTTT
1 -T-AAGTCCACAACTCCGTGGCATCTTTTT-CTTT
*
121474 TAAGTCCACAACTCCGTGG-TTCCTTTTTCTTTT
1 TAAGTCCACAACTCCGTGGCAT-CTTTTTC-TTT
* *
121507 TAAAGCCCACAACTCCATGGCACTCTTTTTCCTTT
1 T-AAGTCCACAACTCCGTGGCA-TCTTTTT-CTTT
*
121542 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
121574 ATAAAGCCCACAACTCCATGGCATCTTTTTCCTTT
1 -T-AAGTCCACAACTCCGTGGCATCTTTTT-CTTT
*
121609 TAAGTCCACAACGCCGTGGCATC-----CTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* **
121636 TAAGTCCACAACTCCATGGCATCTTTTTC-CC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * *
121667 AAAGTCCACGACTCTGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * *
121699 TCAAAGTCCACAACTCTGTAGCA-C----CCTTT
1 T--AAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
121728 TAAGTCCACAACTCCATGGCACCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTT-CTTT
* * *
121761 TAAAGCCCACGACTCCGTGGTATCTTTTTTCTTT
1 T-AAGTCCACAACTCCGTGGCATC-TTTTTCTTT
121795 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTT-CTTT
*
121828 TAAGTCCACAACTCCGTGGCA-C----CCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* **
121855 TAAGTCCACAACTCCATGGCATCTTTTTC-CC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * *
121886 AAAGTCCACGACT-C-T-G-ACCTTTTTCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * *
121914 TCAAAGTCCACAACTCTGTAGCA-C----CCTTT
1 T--AAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
121943 TAAGTCCACAACTCCATGGCACCTTTTTCTTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTC-TTT
* *
121976 TAAAGCCCACGACTCCGTGGCATCTTTTTTCTTT
1 T-AAGTCCACAACTCCGTGGCATC-TTTTTCTTT
** * * *
122010 TAAGTCCACAACTTTGTGCCACCCTTTTCCATTT
1 TAAGTCCACAACTCCGTGGCA-TCTTTTTC-TTT
* * * *
122044 TAAGCCCACACCTCCGTGGTATCTTTTTTTTTT
1 TAAGTCCACAACTCCGTGGCATC-TTTTTCTTT
* *
122077 TCAAAGTCCATAACTCGGTGGCATC-----CTTT
1 T--AAGTCCACAACTCCGTGGCATCTTTTTCTTT
** * **
122106 TAAGTCCACAACTTTGTGGCATCCTTTTC-CC
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * *
122137 AAAGTCCACGACTCTGTGGCACCTTTTT-TTCT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTT-T
* * *
122169 TCAAAATCCACAACTCTGTGGCA-C---CT-TTT
1 T--AAGTCCACAACTCCGTGGCATCTTTTTCTTT
*
122198 TAAGTCCACAACTCTGTGGC-TCCTTTTTCTTTT
1 TAAGTCCACAACTCCGTGGCAT-CTTTTTC-TTT
* * **
122231 TAAAGCCCACGACTTTGTGGCATCTTTTTCTTTT
1 T-AAGTCCACAACTCCGTGGCATCTTTTTC-TTT
* ** *
122265 TAAGTCCATAACTTTGTGGCA-C----CCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
**
122292 TAAGTCCACAACTTTGTGGCATCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTT-CTTT
* * * *
122325 TAAATCCACAATTCCGTGGCACCTTGTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTT-TTTCTTT
* * *
122358 TAAGTCCACAACTTCGTGGCACCTTTTTTTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* * * *
122390 TAAGCCCACAACTTCATGACACTCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCA-TCTTTTT-CTTT
*
122424 TAAGTCCACAACTCCGTGGCA-C----CCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
* *
122451 TAAGTCTACAACTCCATGGCATCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTT-CTTT
* *
122484 TATGTCCACAACTCCGTGGCACCTTTTTCCTTT
1 TAAGTCCACAACTCCGTGGCATCTTTTT-CTTT
* ** * *
122517 TAAGTCCACGACTTTGTGGCACCCTTTTCCCTTT
1 TAAGTCCACAACTCCGTGGCA-TCTTTT-TCTTT
* * * *
122551 TAAGCCCACACCTCCGTGGCATCATTTTTTCCTG
1 TAAGTCCACAACTCCGTGGCATC--TTTTTCTTT
*
122585 TAAGTCCACAACTCCGTGGCACCTTT
1 TAAGTCCACAACTCCGTGGCATCTTT
122611 AAGTCCAATA
Statistics
Matches: 1103, Mismatches: 189, Indels: 205
0.74 0.13 0.14
Matches are distributed among these distances:
27 174 0.16
28 8 0.01
29 22 0.02
30 73 0.07
31 61 0.06
32 91 0.08
33 315 0.29
34 287 0.26
35 70 0.06
36 2 0.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (32 bp):
TAAGTCCACAACTCCGTGGCATCTTTTTCTTT
Found at i:121479 original size:67 final size:66
Alignment explanation
Indices: 121374--122610 Score: 846
Period size: 67 Copynumber: 19.4 Consensus size: 66
121364 ATCTTTTCTC
* * ** *
121374 AAAGTCCACGAC-CCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACAACTCC-GTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
121438 TAT
65 T-T
* * **
121441 AAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGTTCCTTTTTCTTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC-TT
121506 TT
65 TT
* *
121508 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
121573 TAT
65 T-T
* * * *
121576 AAAGCCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCA-----TCCTTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
121636 T
66 T
* ** * *
121637 -AAGTCCACAACTCCATGGCATCTTTTTCC--CAAAGTCCACGACTCTGTGGCACCTTTTTCTTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
121699 T
66 T
* * *
121700 CAAAGTCCACAACTCTGTAGCA-C-----CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCCT
1 -AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CT
121759 TTT
64 TTT
* * * * *
121762 AAAGCCCACGACTCCGTGGTATCTTTTTTCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CTT
121827 TT
65 TT
* * *
121829 -AAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCATGGCATCTTTTTC--C
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
*
121885 C
66 T
* * * *
121886 AAAGTCCACGACT-C-T-G-ACCTTTTT-CTTTTCAAAGTCCACAACTCTGTAGCACC-----CT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCTTTTTCT
121941 TTT
64 TTT
* * * * * *
121944 -AAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCATCTTTTTTCT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTTCT
122008 TTT
64 TTT
** * * * * * * * *
122011 -AAGTCCACAACTTTGTGCCACCCTTTTCCATTTTAAGCCCACACCTCCGTGGTATCTTTTTTTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCC-TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCT
122075 TTT
64 TTT
* * **
122078 CAAAGTCCATAACTCGGTGGCA------TCCTTTTAAGTCCACAACTTTGTGGCATCC-TTTTC-
1 -AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCT
**
122135 -CC
64 TTT
* * * * ** * *
122137 AAAGTCCACGACTCTGTGGCACCTTTTTTTCTTCAAAATCCACAACTCTGTGGCACC----T-TT
1 AAAGTCCACAACTCCGTGGCATC-TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
122197 TT
65 TT
* * * * ** *
122199 -AAGTCCACAACTCTGTGGC-TCCTTTTTCTTTTTAAAGCCCACGACTTTGTGGCATCTTTTTCT
1 AAAGTCCACAACTCCGTGGCAT-CTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCT
122262 TTT
64 TTT
* * ** ** *
122265 TAAGTCCATAACTTTGTGGCA-C-----CCTTTTAAGTCCACAACTTTGTGGCATCTTTTTCCTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CTT
122324 TT
65 TT
* * * *
122326 AAA-TCCACAATTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCACCTTTTT-TTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
122389 T
66 T
* * * * *
122390 TAAGCCCACAACTTCATGACACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-----CTT
1 AAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
122450 TT
65 TT
* * *
122452 -AAGTCTACAACTCCATGGCATCTTTTTCCTTTTATGTCCACAACTCCGTGGCACCTTTTTCCTT
1 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-CTT
122516 TT
65 TT
* ** * * * * *
122518 -AAGTCCACGACTTTGTGGCACCCTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCATTTTTTC
1 AAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-CTTTTTC
* *
122582 CTGT
63 TTTT
*
122586 -AAGTCCACAACTCCGTGGCACCTTT
1 AAAGTCCACAACTCCGTGGCATCTTT
122611 AAGTCCAATA
Statistics
Matches: 943, Mismatches: 145, Indels: 164
0.75 0.12 0.13
Matches are distributed among these distances:
54 1 0.00
55 2 0.00
56 2 0.00
57 12 0.01
58 47 0.05
59 9 0.01
60 139 0.15
61 154 0.16
62 41 0.04
63 9 0.01
64 9 0.01
65 53 0.06
66 105 0.11
67 249 0.26
68 90 0.10
69 21 0.02
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (66 bp):
AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
T
Found at i:121749 original size:27 final size:27
Alignment explanation
Indices: 121604--121970 Score: 139
Period size: 27 Copynumber: 12.2 Consensus size: 27
121594 GCATCTTTTT
* *
121604 CCTTTTAAGTCCACAACGCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
121631 CCTTTTAAGTCCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
121658 CTTTTTCCCAAAGTCCACGACTCTGTGGCAC
1 CCTTTT----AAGTCCACAACTCCGTGGCAC
* *
121689 CTTTTTCTTTTCAAAGTCCACAACTCTGTAGCAC
1 C-----CTTTT--AAGTCCACAACTCCGTGGCAC
*
121723 CCTTTTAAGTCCACAACTCCATGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
* * *
121751 TTTTTCCTTTTAAAGCCCACGACTCCGTGGTATC
1 -----CCTTTT-AAGTCCACAACTCCGTGGCA-C
*
121785 TTTTTTCTTTTAAGTCCACAACTCCGTGGCATC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA-C
121818 TTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
121850 CCTTTTAAGTCCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
121877 CTTTTTCCCAAAGTCCACGACT-C-T-G-AC
1 CCTTTT----AAGTCCACAACTCCGTGGCAC
* *
121904 CTTTTTCTTTTCAAAGTCCACAACTCTGTAGCAC
1 C-----CTTTT--AAGTCCACAACTCCGTGGCAC
*
121938 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
121965 CTTTTT
1 CCTTTT
121971 CTTTTTAAAG
Statistics
Matches: 276, Mismatches: 35, Indels: 58
0.75 0.09 0.16
Matches are distributed among these distances:
27 102 0.37
28 2 0.01
29 11 0.04
30 14 0.05
31 29 0.11
32 6 0.02
33 56 0.20
34 52 0.19
36 4 0.01
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:121817 original size:219 final size:215
Alignment explanation
Indices: 121504--122022 Score: 862
Period size: 215 Copynumber: 2.4 Consensus size: 215
121494 TCCTTTTTCT
* * * *
121504 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-CCTT
1 TTTT-AAGTCCACAACTCCATGGCAC-CTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTT
* *
121567 TTTCTTTATAAAGCCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCATC
64 TTTCTTT-T-AAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCACC
121632 CTTTTAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGTGGCACCTTTTTCT
127 CTTTTAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTC--T-G-ACCTTTTTCT
121697 TTTCAAAGTCCACAACTCTGTAGCACCC
188 TTTCAAAGTCCACAACTCTGTAGCACCC
*
121725 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGTATCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
* *
121790 TCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
66 TCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCACCCTTT
121855 TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGACCTTTTTCTTTTCAAAG
131 TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGACCTTTTTCTTTTCAAAG
121920 TCCACAACTCTGTAGCACCC
196 TCCACAACTCTGTAGCACCC
*
121940 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
122005 TCTTTTAAGTCCACAACT
66 TCTTTTAAGTCCACAACT
122023 TTGTGCCACC
Statistics
Matches: 285, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
215 119 0.42
216 1 0.00
217 1 0.00
219 112 0.39
220 38 0.13
221 14 0.05
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (215 bp):
TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
TCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCACCCTTT
TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGACCTTTTTCTTTTCAAAG
TCCACAACTCTGTAGCACCC
Found at i:122003 original size:215 final size:218
Alignment explanation
Indices: 121504--122511 Score: 883
Period size: 219 Copynumber: 4.6 Consensus size: 218
121494 TCCTTTTTCT
* * * *
121504 TTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-CCTT
1 TTTT-AAGTCCACAACTCCATGGCAC-CTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTT
* * * *
121567 TTTCTTTATAAAGCCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCATC
64 TTTCTTT-T-AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
121632 CTTTTAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGTGGCACCTTTTTCT
127 CTTTTAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTC-GTGGCACCTTTTTCT
121697 TTTCAAAGTCCACAACTCTGTAGCACCC
191 TTTCAAAGTCCACAACTCTGTAGCACCC
*
121725 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGTATCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
121790 TCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
66 TCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
121855 TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTC-T-G-ACCTTTTTCTTTTCA
131 TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCGTGGCACCTTTTTCTTTTCA
121917 AAGTCCACAACTCTGTAGCACCC
196 AAGTCCACAACTCTGTAGCACCC
*
121940 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
** * * * * * *
122005 TCTTTTAAGTCCACAACTTTGTGCCACCCTTTTCCATTTTAAGCCCACACCTCCGTGGTATCTTT
66 TCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCC-TTTTAAGTCCACAACTCCGTGGCA-C---
** * ** * * *
122070 TTTTTTTTCAAAGTCCATAACTCGGTGGCATCCTTTT----AAGTCCACAACTTTGTGGCATCC-
126 --CCTTTT--AAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGAC-TCGTGGCA-CCT
* * * *
122130 TTTTC---CCAAAGTCCACGACTCTGTGGCACCTTTTT
185 TTTTCTTTTCAAAGTCCACAACTCTGTAGCACC----C
* ** * * * *
122165 TTCTTCAAAATCCACAACTCTGTGGCACC----T--TTTT-AAGTCCACAACTCTGTGGC-TCCT
1 TT-TT--AAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTT
* * ** * * **
122222 TTTTCTTTTTAAAGCCCACGACTTTGTGGCATCTTTTTCTTTTTAAGTCCATAACTTTGTGGCAC
63 TTTTC-TTTT-AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
*** * * *
122287 CCTTTTAAGTCCACAACTTTGTGGCATCTTTTTCCTTTTAAA-TCCACAATTCCGTGGCACCTTG
126 CCTTTTAAGTCCACAACTCCATGGCATCTTTTTCC---CAAAGTCCACGACT-CGTGGCACCTT-
* * *
122351 TTCCTTTT--AAGTCCACAACT-TCGTGGCACCTTTTTT
186 TTTCTTTTCAAAGTCCACAACTCT-GTAGCACC-----C
* * * * *
122387 TTTTAAGCCCACAACTTCATGACACTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-C----
1 TTTTAAGTCCACAACTCCATGGCAC-CTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTT
* * * * *
122446 -CCTTTTAAGTCTACAACTCCATGGCATCTTTTTCCTTTTATGTCCACAACTCCGTGGCACCTTT
65 TTCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
122510 TT
130 TT
122512 CCTTTTAAGT
Statistics
Matches: 658, Mismatches: 81, Indels: 98
0.79 0.10 0.12
Matches are distributed among these distances:
213 23 0.03
215 135 0.21
216 22 0.03
217 2 0.00
218 3 0.00
219 189 0.29
220 68 0.10
221 97 0.15
222 39 0.06
223 1 0.00
224 31 0.05
225 4 0.01
226 25 0.04
228 19 0.03
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (218 bp):
TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCATCTTTTT
TCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
TAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCGTGGCACCTTTTTCTTTTCA
AAGTCCACAACTCTGTAGCACCC
Found at i:122118 original size:27 final size:27
Alignment explanation
Indices: 122080--122133 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
122070 TTTTTTTTCA
*
122080 AAGTCCATAACTCGGTGGCATCCTTTT
1 AAGTCCACAACTCGGTGGCATCCTTTT
**
122107 AAGTCCACAACTTTGTGGCATCCTTTT
1 AAGTCCACAACTCGGTGGCATCCTTTT
122134 CCCAAAGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (27 bp):
AAGTCCACAACTCGGTGGCATCCTTTT
Found at i:122250 original size:61 final size:60
Alignment explanation
Indices: 122103--122511 Score: 192
Period size: 60 Copynumber: 6.5 Consensus size: 60
122093 GGTGGCATCC
* *
122103 TTTT-AAGTCCACAACTTTGTGGCATCCTTTTCCCAAAGTCCACGACTCTGTGGCACCTTTTTT
1 TTTTAAAGTCCACAACTTTGTGGCA-CCTTTT---TAAGTCCACAACTCTGTGGCACCTTTTTT
* * * *
122166 TCTTCAAAATCCACAACTCTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCTCCTTTTTCT
1 T-TTTAAAGTCCACAACTTTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTT-T
* * * *
122228 TTTTAAAGCCCACGACTTTGTGGCATCTTTTTCTTTTTAAGTCCATAACTTTGTGGCACC-----
1 TTTTAAAGTCCACAACTTTGTGGCA-C-----CTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
*
122288 C
60 T
* * * *
122289 TTTT-AAGTCCACAACTTTGTGGCATCTTTTTCCTTTTAAATCCACAATTCCGTGGCACCTTGTT
1 TTTTAAAGTCCACAACTTTGTGGCA-C-----CTTTTTAAGTCCACAACTCTGTGGCACCTT-TT
**
122353 CC
59 TT
* * * *
122355 TTTT-AAGTCCACAACTTCGTGGCACCTTTTTTTTTTAAGCCCACAACT-TCATGACACTCTTTT
1 TTTTAAAGTCCACAACTTTGTGGCACC-----TTTTTAAGTCCACAACTCT-GTGGCAC-CTTTT
*
122418 TCC
59 T-T
** * * ** * *
122421 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCTACAACTCCATGGCATCTTTTTCC
1 TTTTAAAGTCCACAACTTTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTT-T
* **
122481 TTTT-ATGTCCACAACTCCGTGGCACCTTTTT
1 TTTTAAAGTCCACAACTTTGTGGCACCTTTTT
122512 CCTTTTAAGT
Statistics
Matches: 281, Mismatches: 41, Indels: 51
0.75 0.11 0.14
Matches are distributed among these distances:
60 85 0.30
61 67 0.24
62 3 0.01
63 1 0.00
64 8 0.03
65 39 0.14
66 53 0.19
67 25 0.09
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (60 bp):
TTTTAAAGTCCACAACTTTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTT
Found at i:122319 original size:27 final size:27
Alignment explanation
Indices: 122259--122319 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
122249 GGCATCTTTT
*
122259 TCTTTTTAAGTCCATAACTTTGTGGCA
1 TCTTTTTAAGTCCACAACTTTGTGGCA
* *
122286 CCCTTTTAAGTCCACAACTTTGTGGCA
1 TCTTTTTAAGTCCACAACTTTGTGGCA
122313 TCTTTTT
1 TCTTTTT
122320 CCTTTTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (27 bp):
TCTTTTTAAGTCCACAACTTTGTGGCA
Found at i:122449 original size:27 final size:27
Alignment explanation
Indices: 122419--122511 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 27
122409 CACTCTTTTT
122419 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
122446 CCTTTTAAGTCTACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
122474 TTTTTCCTTTTATGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
122506 CTTTTT
1 CCTTTT
122512 CCTTTTAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
27 29 0.54
28 1 0.02
32 1 0.02
33 23 0.43
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:122452 original size:159 final size:157
Alignment explanation
Indices: 121408--122617 Score: 734
Period size: 159 Copynumber: 7.6 Consensus size: 157
121398 TTTTTCTTCA
* * *
121408 AAGTCCACGACTCCGTGGCACCTTTTTCTTTATAAAGCCCACAAC-TCTGTGGCATCTTTTTCCT
1 AAGTCCACAACTTCGTGGCACCTTTTT-TTT-TTAAGCCCACAACTTC-GTGGCATCTTTTTCCT
** * **
121472 TTTAAGTCCACAACTCCGTGGTTCCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTT
63 TTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACAACTCTGTGGCA-TCTTTTT
* *
121537 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTAT
120 CCTTTTAAATCCACAACTCCGTGGCACCTTTTCCTTT-T
* * * * * * **
121576 AAAGCCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACGCCGTGGCA------TCCTT
1 -AAGTCCACAACTTCGTGGCACCTTTTT-TTTTTAAGCCCACAACTTCGTGGCATCTTTTTCCTT
* * * * *
121635 TTAAGTCCACAACTCCATGGCATCTTTTTCCCAAAGTCCACGACTCTGTGGCACCTTTTT-CTTT
64 TTAAGTCCACAACTCCGTGGCACCCTTTT----AAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
121699 TCAAAGTCCACAACTCTGTAGCA-C----CCTTTT
125 T-AAA-TCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * * * *
121729 AAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAAGCCCACGACTCCGTGGTATCTTTTTTCTT
1 AAGTCCACAACTTCGTGGCACCTTTTT--TTTTTAAGCCCACAACTTCGTGGCATCTTTTTCCTT
*
121794 TTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCT
64 TTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCT
* * * **
121853 TTTAAGTCCACAACTCCATGGCATCTTTTTCC--CA
123 TTTAAATCCACAACTCCGTGGCA-CCTTTTCCTTTT
* * * *
121887 AAGTCCACGAC-TC-T-G-ACCTTTTTCTTTTCAAAGTCCACAAC-TCTGTAGCA-C-----CCT
1 AAGTCCACAACTTCGTGGCACCTTTTT-TTTT-TAAGCCCACAACTTC-GTGGCATCTTTTTCCT
* * * * *
121941 TTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCATCTTTTTT
63 TTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACAACTCTGTGGCATCTTTTTC
* ** *
122006 CTTTTAAGTCCACAACTTTGTGCCACCCTTTTCCATTTT
121 CTTTTAAATCCACAACTCCGTGGCA-CCTTTTCC-TTTT
* * * * * * *
122045 AAGCCCACACCTCCGTGGTATCTTTTTTTTTTTCAAAGTCCATAAC-TCGGTGGCA------TCC
1 AAGTCCACAACTTCGTGGCA-CCTTTTTTTTTT--AAGCCCACAACTTC-GTGGCATCTTTTTCC
** * * * *
122103 TTTTAAGTCCACAACTTTGTGGCATCCTTTTCCCAAAGTCCACGACTCTGTGGCACCTTTTTTTC
62 TTTTAAGTCCACAACTCCGTGGCACCCTTTT----AAGTCCACAACTCTGTGGCATC-TTTTTCC
** *
122168 TTCAAAATCCACAACTCTGTGGCACC---T--TTTT
122 TTTTAAATCCACAACTCCGTGGCACCTTTTCCTTTT
* * * *
122199 AAGTCCACAAC-TCTGTGGCTCCTTTTTCTTTTTAAAGCCCACGACTTTGTGGCATCTTTTTCTT
1 AAGTCCACAACTTC-GTGGCACCTTTTT-TTTTT-AAGCCCACAACTTCGTGGCATCTTTTTCCT
* ** *
122263 TTTAAGTCCATAACTTTGTGGCACCCTTTTAAGTCCACAACTTTGTGGCATCTTTTTCCTTTTAA
63 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAA
*
122328 ATCCACAATTCCGTGGCACCTTGTTCCTTTT
128 ATCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
122359 AAGTCCACAACTTCGTGGCACCTTTTTTTTTTAAGCCCACAACTTCATGACACTCTTTTTCCTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTTTTTTAAGCCCACAACTTCGTGGCA-TCTTTTTCCTTT
* ** **
122424 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCTACAACTCCATGGCATCTTTTTCCTTTTATGT
65 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAAT
122489 CCACAACTCCGTGGCACCTTTTTCCTTTT
130 CCACAACTCCGTGGCACC-TTTTCCTTTT
* * ** * *
122518 AAGTCCACGACTTTGTGGCACCCTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCATTTTTTCC
1 AAGTCCACAACTTCGTGGCA-CCTTTT-TTTTTTAAGCCCACAACTTCGTGGCATC--TTTTTCC
*
122583 -TGTAAGTCCACAACTCCGTGGCA-CC-TTTAAGTCCA
62 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
122618 ATATCGCTAG
Statistics
Matches: 832, Mismatches: 131, Indels: 166
0.74 0.12 0.15
Matches are distributed among these distances:
142 1 0.00
147 2 0.00
148 28 0.03
149 18 0.02
150 1 0.00
152 25 0.03
153 50 0.06
154 91 0.11
155 50 0.06
156 10 0.01
157 11 0.01
158 45 0.05
159 213 0.26
160 65 0.08
161 89 0.11
162 37 0.04
163 47 0.06
165 5 0.01
168 17 0.02
169 27 0.03
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (157 bp):
AAGTCCACAACTTCGTGGCACCTTTTTTTTTTAAGCCCACAACTTCGTGGCATCTTTTTCCTTTT
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAATC
CACAACTCCGTGGCACCTTTTCCTTTT
Found at i:122772 original size:87 final size:87
Alignment explanation
Indices: 122615--123222 Score: 829
Period size: 87 Copynumber: 7.0 Consensus size: 87
122605 ACCTTTAAGT
* * * * * * * *
122615 CCAATATCGCTAGCCTTGAATCAGCATATTAGTATCTTTATCTTTAAAACCAATATTGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGTCTTTAAGACCAATGTCGCTGGCCT
* *
122680 TGAATCAGCACATTAGCATAAGC
65 TGAATCAGCACATTGGCACAAGC
* * * * *
122703 CTAATATCGCTGGCCTTAAATCAGCATATTGACACCTCGCCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
122768 GAATCAGCACATTGGCACAAGT
66 GAATCAGCACATTGGCACAAGC
* * * *
122790 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
* *
122855 TGAATCAGCACATTAGCATAAGC
65 TGAATCAGCACATTGGCACAAGC
* *
122878 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTGTCTTTAAGACCAATGTCACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * *
122943 GAATCAACAGATTGGCCCAAGC
66 GAATCAGCACATTGGCACAAGC
* ** ** *
122965 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCCAAGACCAATGTCATTGCCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
123030 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
*
123052 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
123117 GAATTAACACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* *
123139 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
*
123204 TAAATCAGCACATTGGCAC
65 TGAATCAGCACATTGGCAC
123223 CTTCATCTTT
Statistics
Matches: 455, Mismatches: 63, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 311 0.68
88 144 0.32
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:122805 original size:39 final size:39
Alignment explanation
Indices: 122747--123173 Score: 235
Period size: 39 Copynumber: 10.0 Consensus size: 39
122737 CCTCGCCTTT
* *
122747 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
122786 AAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGG---C---A-C
* * * * * *
122832 TTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTAGCAT
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
122874 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGG---C---AC
* * * * *
122919 TTTAAGACCAATGTCACTGGCCTTGAATCAACAGATTGGCCC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
122961 AAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCC
1 AAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCA---------C
* ** * * *
123009 AAGACCAATGTCATTGCCCTTGAATCAGCACATTGGCAT
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
123048 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C
* * * * *
123093 TTTAAGACCAATGTCGTTGGCCTTGAATTAACACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
123135 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
123174 CTTCATCTTT
Statistics
Matches: 293, Mismatches: 56, Indels: 78
0.69 0.13 0.18
Matches are distributed among these distances:
38 2 0.01
39 157 0.54
42 4 0.01
43 1 0.00
45 2 0.01
46 2 0.01
48 94 0.32
49 31 0.11
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:122902 original size:175 final size:175
Alignment explanation
Indices: 122611--123217 Score: 894
Period size: 175 Copynumber: 3.5 Consensus size: 175
122601 TGGCACCTTT
* * * * * * *
122611 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGTATCTTTATCTTTAAAACCAATATTGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
* * * *
122676 GCCTTGAATCAGCACATTAGCATAAGCCTAATATCGCTGGCCTTAAATCAGCATATTGACACCTC
66 GCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
122741 GCCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
131 GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
* * *
122786 AAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
*
122851 GCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTT
66 GCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
122916 GTCTTTAAGACCAATGTCACTGGCCTTGAATCAACAGATTGGCCC
131 GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
* ** **
122961 AAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTCCAAGACCAATGTCATT
1 AAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCT
* *
123024 GCCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
65 GGCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* *
123089 TGTCTTTAAGACCAATGTCGTTGGCCTTGAATTAACACATTGGCAC
130 TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
* * *
123135 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATGTCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
*
123200 GCCTTAAATCAGCACATT
66 GCCTTGAATCAGCACATT
123218 GGCACCTTCA
Statistics
Matches: 386, Mismatches: 43, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
174 160 0.41
175 226 0.59
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (175 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTAGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
Found at i:122957 original size:48 final size:47
Alignment explanation
Indices: 122873--123235 Score: 236
Period size: 48 Copynumber: 8.1 Consensus size: 47
122863 CACATTAGCA
*
122873 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTTGTCTT
* * * *
122921 TAAGACCAATGTCACTGGCCTTGAATCAACAGATTGG-CC----C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGACCTTGTCTT
*
122961 -AAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTC
1 TAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGG-ACCTTGTCTT
* * ** * * *
123008 CAAGACCAATGTCATTGCCCTTGAATCAGCACATT-G-----G-C-A
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGACCTTGTCTT
*
123047 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTTGTCTT
* * * * * *
123095 TAAGACCAATGTCGTTGGCCTTGAATTAACACATTGG--C---AC--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGACCTTGTCTT
* *
123135 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTT-GTCTT
* * * * *
123183 TAAGACTAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTT-GTCTT
123232 TAAG
1 TAAG
123236 TTTGATACCG
Statistics
Matches: 243, Mismatches: 42, Indels: 59
0.71 0.12 0.17
Matches are distributed among these distances:
38 2 0.01
39 87 0.36
40 2 0.01
41 3 0.01
42 3 0.01
45 2 0.01
46 4 0.02
47 2 0.01
48 89 0.37
49 49 0.20
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (47 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGACCTTGTCTT
Found at i:123219 original size:49 final size:49
Alignment explanation
Indices: 123145--123365 Score: 205
Period size: 49 Copynumber: 4.5 Consensus size: 49
123135 AAGCCCAATA
* *
123145 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATG
* * * *
123194 TCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTTTGATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATG
* * * * * * * * * * *
123243 CCG-TTGCCTTGAATCGGCATATAGGAATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGTCTAATG
** *
123294 TCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTTAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATG
*
123341 TCGCTGGCCATGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
123366 TCATTCTTCG
Statistics
Matches: 131, Mismatches: 37, Indels: 10
0.74 0.21 0.06
Matches are distributed among these distances:
47 31 0.24
48 23 0.18
49 49 0.37
50 3 0.02
51 8 0.06
52 17 0.13
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATG
Found at i:124215 original size:20 final size:20
Alignment explanation
Indices: 124190--124241 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
124180 CTGCAAAGCA
*
124190 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATAC
124210 AATGTATCGATACATTATAC
1 AATGTATCGATACATTATAC
*
124230 AATATATCGATA
1 AATGTATCGATA
124242 TAGAGCTACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:124238 original size:79 final size:79
Alignment explanation
Indices: 124155--124303 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
124145 ATGAGTGTTG
124155 TATCGATACAGAGCTACCCTGCATACTGCAAAGCAAATGTATCGATACATT-ATTCAATGTATCG
1 TATCGATACAGAGCTACCCTGCATACTGCAAAGCAAATGTATCGATACATTGA-TCAATGTATCG
124219 ATACATTATACAATA
65 ATACATTATACAATA
* * * * **
124234 TATCGATATAGAGCTACCTTGCATATTGCCAAGCAAATGTATCGATACATTGATCTTTGTATCGA
1 TATCGATACAGAGCTACCCTGCATACTGCAAAGCAAATGTATCGATACATTGATCAATGTATCGA
124299 TACAT
66 TACAT
124304 CTGGGAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 62 0.98
80 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (79 bp):
TATCGATACAGAGCTACCCTGCATACTGCAAAGCAAATGTATCGATACATTGATCAATGTATCGA
TACATTATACAATA
Found at i:133726 original size:20 final size:20
Alignment explanation
Indices: 133701--133825 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
133691 TTTTAACTAG
133701 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
133721 ATGTATCGATACATTTGGGTAAAAAGATAGA
1 ATGTATCGATACA-TT--G-----A-A-A-A
*
133752 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
133772 ATATATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
133792 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
133812 ATGTATTGATACAT
1 ATGTATCGATACAT
133826 CTAGGAAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 56 0.69
21 2 0.02
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 3 0.04
31 14 0.17
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:133871 original size:90 final size:91
Alignment explanation
Indices: 133701--133875 Score: 264
Period size: 90 Copynumber: 1.9 Consensus size: 91
133691 TTTTAACTAG
* * * *
133701 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
* *
133766 TGAAGAATATATCGATACATTCATAC
66 TGAAAAAAATATCGATACATTCATAC
*
133792 ATGTATCAATACATTGAAAAATGTATTGATACATCTAGG-AAAAAGACAGAATGTATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
133856 T-AAAAAAAGTATCGATACAT
66 TGAAAAAAA-TATCGATACAT
133876 CTGGGTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
89 5 0.07
90 36 0.47
91 35 0.46
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (91 bp):
ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACAT
TGAAAAAAATATCGATACATTCATAC
Found at i:138059 original size:20 final size:20
Alignment explanation
Indices: 138034--138071 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
138024 GTAAAAAGAC
*
138034 AGAATGTGTCAATACATTGA
1 AGAATGTATCAATACATTGA
*
138054 AGAATGTATCGATACATT
1 AGAATGTATCAATACATT
138072 TAGGTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:138551 original size:20 final size:20
Alignment explanation
Indices: 138517--138556 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
138507 CATTTTAGGC
* *
138517 ATGTATCGATCCATTCACTT
1 ATGTATCAATACATTCACTT
*
138537 ATGTATCAATACATTTACTT
1 ATGTATCAATACATTCACTT
138557 TTTGCATCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:142744 original size:52 final size:52
Alignment explanation
Indices: 142596--142724 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
142586 CGAAATATGA
*
142596 AAATTTGCCTGCATGTATCGATACATTTTATAGTTTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
142648 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
142700 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
142725 AAGATTAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:142751 original size:13 final size:13
Alignment explanation
Indices: 142733--142757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
142723 CAAAGATTAG
142733 TGTATCGATACAA
1 TGTATCGATACAA
142746 TGTATCGATACA
1 TGTATCGATACA
142758 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:142837 original size:25 final size:26
Alignment explanation
Indices: 142798--142880 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 26
142788 AGTAGCTAAT
*
142798 TATCGATAAAC-TATGTATCGATACA
1 TATCGACAAACTTATGTATCGATACA
142823 TATCGA-AAACTTATGTATCGATACA
1 TATCGACAAACTTATGTATCGATACA
142848 TTGTATCGATACAACACTTATGTATCGATACA
1 ---TATCG--ACAA-ACTTATGTATCGATACA
142880 T
1 T
142881 TGTATCGATA
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.08
25 20 0.40
28 5 0.10
29 1 0.02
30 1 0.02
31 2 0.04
32 17 0.34
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (26 bp):
TATCGACAAACTTATGTATCGATACA
Found at i:142854 original size:13 final size:13
Alignment explanation
Indices: 142836--142892 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
142826 CGAAAACTTA
142836 TGTATCGATACAT
1 TGTATCGATACAT
142849 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
142867 ATGTATCGATACAT
1 -TGTATCGATACAT
142881 TGTATCGATACA
1 TGTATCGATACA
142893 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:142868 original size:32 final size:32
Alignment explanation
Indices: 142831--142912 Score: 146
Period size: 32 Copynumber: 2.5 Consensus size: 32
142821 CATATCGAAA
142831 ACTTATGTATCGATACATTGTATCGATACAAC
1 ACTTATGTATCGATACATTGTATCGATACAAC
142863 ACTTATGTATCGATACATTGTATCGATACAAC
1 ACTTATGTATCGATACATTGTATCGATACAAC
*
142895 ACTTTATGTATTGATACA
1 AC-TTATGTATCGATACA
142913 AATCGTTGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 34 0.71
33 14 0.29
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (32 bp):
ACTTATGTATCGATACATTGTATCGATACAAC
Found at i:143644 original size:52 final size:52
Alignment explanation
Indices: 143566--144410 Score: 476
Period size: 43 Copynumber: 17.9 Consensus size: 52
143556 GTTAAAGATG
* * * * *
143566 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACA
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * *
143618 AAGACGCTAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATAACA
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
*
143670 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGACA
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
*
143722 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * *
143765 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG---
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AAAGATGACA
* * *
143815 AGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G---
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * * *
143859 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAGATG---
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * *
143907 ATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * * *
143950 AAGGTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGA--A-A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * *
143999 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-C-
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * *
144049 ----CG---ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * *
144091 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-C-
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * *
144141 ----CG---ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* *
144183 AA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A-G---
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * * *
144228 -TGTCG---ATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGAT---A
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * *
144273 AAGGTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTT---G--G---
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * *
144317 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GACA
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * *
144365 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAG
144411 GAAGATGCCA
Statistics
Matches: 649, Mismatches: 82, Indels: 125
0.76 0.10 0.15
Matches are distributed among these distances:
43 246 0.38
44 5 0.01
45 1 0.00
46 11 0.02
47 33 0.05
48 2 0.00
49 178 0.27
50 41 0.06
51 1 0.00
52 131 0.20
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
Found at i:143782 original size:43 final size:43
Alignment explanation
Indices: 143721--144411 Score: 664
Period size: 43 Copynumber: 15.1 Consensus size: 43
143711 TAAAGGTGAC
* *
143721 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
143764 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
*
143807 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
** * *
143857 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-T
*
143902 AGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 A-A--A-GGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
143949 AAAGGTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
*
143992 AAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
144041 AAAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
*
144090 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
144133 AAAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
144176 AAAGAAAAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG----GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * * * *
144223 AAAAGTGTCGATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
*
144272 AAAGGTGCCAATAG-GCTGATTCAAGGCCAACGATATTGGACTT
1 AAAGGTGCCAAT-GTGCTGATTCAAGGCCAGCGATATTGGACTT
** * *
144315 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
144358 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
144407 AAAGG
1 AAAGG
144412 AAGATGCCAC
Statistics
Matches: 537, Mismatches: 68, Indels: 86
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.00
43 262 0.49
44 5 0.01
45 1 0.00
46 2 0.00
47 40 0.07
48 4 0.01
49 184 0.34
50 38 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:143955 original size:92 final size:92
Alignment explanation
Indices: 143669--144411 Score: 1148
Period size: 92 Copynumber: 8.1 Consensus size: 92
143659 TAAAGATAAC
* * * * * * *
143669 AAAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGACAAAGGCGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA---GATAAAGGTGCCAATA
143734 TGCTGATTCAAGGCCAGCGATATTGGACTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
143764 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATAAAGGTGCCAATATG
143829 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
** * * *
143857 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAGATGATGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
143922 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
143949 AAAGGTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
144014 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
144041 AAAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
144106 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
144133 AAAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAA-ATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
144196 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * * * *
144223 AAAAGTGTCGATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATAGGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
144288 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** *
144315 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
144380 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
144407 AAAGG
1 AAAGG
144412 AAGATGCCAC
Statistics
Matches: 599, Mismatches: 46, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
90 82 0.14
91 6 0.01
92 389 0.65
93 81 0.14
95 38 0.06
96 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:144077 original size:184 final size:184
Alignment explanation
Indices: 143566--144411 Score: 1201
Period size: 184 Copynumber: 4.5 Consensus size: 184
143556 GTTAAAGATG
* * ** *
143566 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGACGCTAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-AAAGGTGCCAATAT
* * *
143631 GCTAATTCAAGGCCAGCGATATTGGACTTAAAGATAACAAAGGCGCCAATATGCTAATTCAAGGC
63 GCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTAATTCAAGGC
* * * *
143696 CAGCGATATTGGACTTAAAGGTGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
119 CAGCTACATTGGACTTAAA---GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
143761 CTTA
181 CTTA
* * ** *
143765 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAAAAAGGTGCCAATATGC
** *
143830 TGATTCAAGGCCAGCGATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTG
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTG
* * *
143895 GACTTATAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
130 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
*
143950 AAGGTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCT
* *
144015 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGG
144080 ACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
131 ACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
*
144134 AAGGTGCCGATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAA--TGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCT
* * * *
144197 GATTCAAGGCCAGCGATATTGGACTTAAAAGTGTCGATGTGCTAATTCAAGGCCAGCTACATTAG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGG
* * *
144262 ACTTAAAGATAAAGGTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTTG
131 ACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* *
144316 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCT
*
144381 GATTCAAGGCCAGCTATATTGGACTTAAAGG
66 GATTCAAGGCCAGCGATATTGGACTTAAAGG
144412 AAGATGCCAC
Statistics
Matches: 597, Mismatches: 47, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
182 172 0.29
184 223 0.37
185 82 0.14
188 38 0.06
191 1 0.00
196 1 0.00
197 35 0.06
199 40 0.07
200 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (184 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGG
ACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:144552 original size:97 final size:95
Alignment explanation
Indices: 144424--144804 Score: 473
Period size: 97 Copynumber: 3.9 Consensus size: 95
144414 GATGCCACTA
* *
144424 ACTTGTGTGGGCTTTTGAAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAG-GAGATTGCCTC
1 ACTTGTGT-GGCCTTTGAA-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAG-GATTGCCAC
*
144487 CAACTTGTGTGGGCTTTAGAGCAAGGTTGCCACCG
63 CGACTTGTGTGGGCTTT-GAG-AAGGTTGCCACCG
144522 ACTTGTGTGGCCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGATTGCCACCGA
1 ACTTGTGTGGCCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGATTGCCACCGA
*
144587 CTTGTGTGGGCTTTGATAAGGGTTGCCACCG
66 CTTGTGTGGGCTTTGAGAA-GGTTGCCACCG
* * * *
144618 ACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCG
1 ACTTGTGTGGCCTTT-GAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGATTGCCACCG
*
144683 ACTTGTGTGGGCTTTGAGAAGGTTTGCCACCA
65 ACTTGTGTGGGCTTTGAGAAGG-TTGCCACCG
* ** * *
144715 ACTTGTGTGGGCTTT-AGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAAGAAGG-TTTCCAC
1 ACTTGTGTGGCCTTTGA-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AG-AGGATTGCCAC
* * *
144778 AGACTTGTGTGGACTTTAAAGAAGGTT
63 CGACTTGTGTGGGCTTT-GAGAAGGTT
144805 TAAGGATGCC
Statistics
Matches: 255, Mismatches: 19, Indels: 19
0.87 0.06 0.06
Matches are distributed among these distances:
95 3 0.01
96 58 0.23
97 176 0.69
98 18 0.07
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (95 bp):
ACTTGTGTGGCCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGATTGCCACCGA
CTTGTGTGGGCTTTGAGAAGGTTGCCACCG
Found at i:144647 original size:129 final size:126
Alignment explanation
Indices: 144424--144795 Score: 516
Period size: 129 Copynumber: 2.9 Consensus size: 126
144414 GATGCCACTA
*
144424 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAGGAGATTGCCTCC
1 ACTTGTGTGGGC-TTTG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAGG-G-TTGCCACC
*
144488 AACTTGTGTGGGCTTTAGAGCAAGGTTGCCACCGACTTGTGTGGCCTTT-GAAAAGGGTTGCCAC
62 AACTTGTGTGGGCTTTAGAG-AAGGTTGCCACCGACTTGTGTGGACTTTAG-AAAGGGTTGCCAC
144552 CG
125 CG
* *
144554 ACTTGTGTGGGCTTT-AGAGAGGATTGCCACCGACTTGTGTGGGCTTTGATAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAGA-AGG-TTGCCACCGACTTGTGTGGGCTTTGA-GAGGGTTGCCACCA
* *
144618 ACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCG
63 ACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGACTTTAGAAAGGGTTGCCACCG
* *
144683 ACTTGTGTGGGCTTTGAGAAGGTTTGCCACCAACTTGTGTGGGCTTTAGAGGGGGTTGCCACCAA
1 ACTTGTGTGGGCTTTGAGAAGG-TTGCCACCGACTTGTGTGGGCTTT-GAGAGGGTTGCCACCAA
* *
144748 CTTGTGTGGGCTTTAGAAGAAGGTTTCCACAGACTTGTGTGGACTTTA
64 CTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGACTTTA
144796 AAGAAGGTTT
Statistics
Matches: 220, Mismatches: 13, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
127 3 0.01
128 5 0.02
129 185 0.84
130 24 0.11
131 3 0.01
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (126 bp):
ACTTGTGTGGGCTTTGAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAGGGTTGCCACCAACT
TGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGACTTTAGAAAGGGTTGCCACCG
Found at i:144805 original size:32 final size:32
Alignment explanation
Indices: 144424--144804 Score: 509
Period size: 32 Copynumber: 11.8 Consensus size: 32
144414 GATGCCACTA
*
144424 ACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCG
* * * *
144457 ACTTGTGTGGGCTTTAGAGGAGATTGCCTCCA
1 ACTTGTGTGGGCTTTAGAGAAGGTTGCCACCG
144489 ACTTGTGTGGGCTTTAGAGCAAGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAG-AAGGTTGCCACCG
* *
144522 ACTTGTGTGGCCTTT-GAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCG
144554 ACTTGTGTGGGCTTTAGAG-AGGATTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGG-TTGCCACCG
*
144586 ACTTGTGTGGGCTTT-GATAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCG
144618 ACTTGTGTGGGCTTTAGAGAATGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCG
*
144651 ACTTGTGTGGGCTTTAGAGAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGGTTGCCACCG
*
144683 ACTTGTGTGGGCTTT-GAGAAGGTTTGCCACCA
1 ACTTGTGTGGGCTTTAGAGAAGG-TTGCCACCG
** *
144715 ACTTGTGTGGGCTTTAGAGGGGGTTGCCACCA
1 ACTTGTGTGGGCTTTAGAGAAGGTTGCCACCG
* *
144747 ACTTGTGTGGGCTTTAGAAGAAGGTTTCCACAG
1 ACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCG
* *
144780 ACTTGTGTGGACTTTAAAGAAGGTT
1 ACTTGTGTGGGCTTTAGAGAAGGTT
144805 TAAGGATGCC
Statistics
Matches: 310, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
31 12 0.04
32 190 0.61
33 108 0.35
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAGAGAAGGTTGCCACCG
Found at i:144958 original size:64 final size:66
Alignment explanation
Indices: 144811--144969 Score: 164
Period size: 64 Copynumber: 2.4 Consensus size: 66
144801 GGTTTAAGGA
* * *
144811 TGCCACGAAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGAAGTTGTGGAATTTAAAAGGGAAA
1 TGCCACGGAGTTGTGGACTTTAAAA-G---AAGGTGCCACGAAGTCGTGGAACTTAAAAGGGAAA
144875 AAGAG
62 AAGAG
* * * * *
144880 TGCCATGGAGTTGTGGGCTTTGAAAAGAAGGTGCGACGGAGTCGTGG-ACTTAAAA-GGAACAAG
1 TGCCACGGAGTTGTGGACTTT-AAAAGAAGGTGCCACGAAGTCGTGGAACTTAAAAGGGAAAAAG
144943 -G
65 AG
*
144944 TGCCACGGGGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGACTTTAAAAG
144970 GGGAAAAGAG
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 5 0.06
64 19 0.25
65 7 0.09
66 7 0.09
67 17 0.22
69 15 0.19
70 3 0.04
71 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (66 bp):
TGCCACGGAGTTGTGGACTTTAAAAGAAGGTGCCACGAAGTCGTGGAACTTAAAAGGGAAAAAGA
G
Found at i:145045 original size:34 final size:34
Alignment explanation
Indices: 144811--145436 Score: 551
Period size: 34 Copynumber: 19.5 Consensus size: 34
144801 GGTTTAAGGA
* * *
144811 TGCCACGAAGTTGTGGACTTAAAAGGAACAAG-G
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * *
144844 TGCCACGAAGTTGTGGAATTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGG-ACTTAGAA-GGAAAAAGAG
* * * *
144880 TGCCATGGAGTTGTGGGCTTTGAA--AAGAAG-G
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * * *
144911 TGCGACGGAGTCGTGGACTTAAAAGGAACAAG-G
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * *
144944 TGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAG
* * *
144980 TGCCACGGAGTTGTGGGCTT------TAAAAGGG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
145008 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * *
145042 TGCCACGGAGTTGTGGGCTGTAAAAAGAAAAA-AG
1 TGCCACGGAGTTGTGGACT-TAGAAGGAAAAAGAG
*
145076 TGTCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* *
145110 TGCCACGGAGTTGTGGGCTT-------AAAAGGG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
*
145137 TGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * *
145171 TGCCATGGAGTTGTGGGCTT------AAACAG-G
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
145198 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
*
145232 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* *
145266 TGCCACGGAGTTGTGGGCTT-------AAAAGGG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
*
145293 TGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
*
145327 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* * *
145361 TGCCACGAAGTTGTGGGCTT------AAAATG-G
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
* *
145388 TGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAG
1 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
*
145421 TGCCACGTAGTTGTGG
1 TGCCACGGAGTTGTGG
145437 GCTTTGCAGA
Statistics
Matches: 487, Mismatches: 62, Indels: 88
0.76 0.10 0.14
Matches are distributed among these distances:
27 86 0.18
28 35 0.07
31 19 0.04
32 9 0.02
33 67 0.14
34 210 0.43
35 29 0.06
36 32 0.07
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
Found at i:145181 original size:61 final size:61
Alignment explanation
Indices: 145079--145440 Score: 409
Period size: 61 Copynumber: 5.8 Consensus size: 61
145069 AAAAAAGTGT
145079 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
* *
145140 CACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAACA-GGTGC
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-AGGGTGC
*
145201 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAG
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-------AAAAGGG
145266 TGC
59 TGC
* * * *
145269 CACGGAGTTGTGGGCTT-------AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAG
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-------AAAAGGG
145327 TGC
59 TGC
* * *
145330 CACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAATGGTGC
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
* * *
145391 CACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTT
1 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
145441 TGCAGAAAAG
Statistics
Matches: 267, Mismatches: 18, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
60 26 0.10
61 192 0.72
62 1 0.00
67 1 0.00
68 47 0.18
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (61 bp):
CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGC
Done.