Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008226.1 Hibiscus syriacus cultivar Beakdansim tig00110860_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 835745
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:269047 original size:14 final size:14
Alignment explanation
Indices: 269030--269059 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
269020 TACCATTGTT
269030 CTCATATAGATCTC
1 CTCATATAGATCTC
*
269044 CTCATCTAGATCTC
1 CTCATATAGATCTC
269058 CT
1 CT
269060 TTCAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
CTCATATAGATCTC
Found at i:280251 original size:12 final size:11
Alignment explanation
Indices: 280234--280288 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
280224 TTTTTTTTCA
280234 TCATCTCCTTTT
1 TCATCT-CTTTT
280246 TCATCTCTTTT
1 TCATCTCTTTT
* *
280257 TCCT-TCTTCT
1 TCATCTCTTTT
*
280267 TC-TC-CTTTC
1 TCATCTCTTTT
280276 TCATCTCTTTT
1 TCATCTCTTTT
280287 TC
1 TC
280289 CTTCTTCTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
9 6 0.17
10 9 0.26
11 14 0.40
12 6 0.17
ACGTcount: A:0.05, C:0.35, G:0.00, T:0.60
Consensus pattern (11 bp):
TCATCTCTTTT
Found at i:280256 original size:27 final size:28
Alignment explanation
Indices: 280225--280304 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 28
280215 TTCTTCCTTT
* * *
280225 TTTTTTTCATCATCTCCTTTTTCATCTC
1 TTTTTTTCTTCTTCTCCTTTCTCATCTC
280253 TTTTTCCTTCTTCTTCTCCTTTCTCATCTC
1 TTTTT--TTCTTCTTCTCCTTTCTCATCTC
*
280283 -TTTTTCCTTCTTCTCCTTTCTC
1 TTTTTTTCTTCTTCTCCTTTCTC
280305 GGCCCTCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 17 0.37
28 5 0.11
29 4 0.09
30 20 0.43
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTTCTTCTTCTCCTTTCTCATCTC
Found at i:280271 original size:30 final size:30
Alignment explanation
Indices: 280237--280296 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
280227 TTTTTCATCA
*
280237 TCTCCTTTTTCATCTCTTTTTCCTTCTTCT
1 TCTCCTTTCTCATCTCTTTTTCCTTCTTCT
280267 TCTCCTTTCTCATCTCTTTTTCCTTCTTCT
1 TCTCCTTTCTCATCTCTTTTTCCTTCTTCT
280297 CCTTTCTCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (30 bp):
TCTCCTTTCTCATCTCTTTTTCCTTCTTCT
Found at i:287609 original size:22 final size:21
Alignment explanation
Indices: 287576--287616 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
287566 ATAAACTTTG
287576 ATTTTTTGCATTGTGCATTTA
1 ATTTTTTGCATTGTGCATTTA
* *
287597 ATTTTTCTTCATTTTGCATT
1 ATTTTT-TGCATTGTGCATT
287617 GAACTGCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (21 bp):
ATTTTTTGCATTGTGCATTTA
Found at i:288840 original size:20 final size:20
Alignment explanation
Indices: 288804--288842 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
288794 TGGTCTGCAG
*
288804 ATCTCAAATGTTCTCAACAT
1 ATCTCAAATATTCTCAACAT
288824 ATCTCAACATATT-TCAACA
1 ATCTCAA-ATATTCTCAACA
288843 ACATATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (20 bp):
ATCTCAAATATTCTCAACAT
Found at i:290732 original size:15 final size:15
Alignment explanation
Indices: 290714--290792 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
290704 TACACTAACA
290714 CTTTCAACATTGTCC
1 CTTTCAACATTGTCC
* *
290729 CTTTCAACACT-ACC
1 CTTTCAACATTGTCC
* *
290743 CATTTTAGCATTGTCC
1 C-TTTCAACATTGTCC
* * *
290759 CTTTCTACACT-ACC
1 CTTTCAACATTGTCC
290773 CATTTCAACATTGTCC
1 C-TTTCAACATTGTCC
290789 CTTT
1 CTTT
290793 TTACGCTACC
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
14 6 0.13
15 34 0.74
16 6 0.13
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.39
Consensus pattern (15 bp):
CTTTCAACATTGTCC
Found at i:290733 original size:60 final size:60
Alignment explanation
Indices: 290655--291019 Score: 321
Period size: 60 Copynumber: 6.1 Consensus size: 60
290645 CTAGACTTGT
* * * * *
290655 CTTTC-GCATTGTCACTTTCAACATTACTCATTTAAGCATTATCCATTTCTACACTAACA
1 CTTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACTAACA
* * * * *
290714 CTTTCAACATTGTCCCTTTCAACACTACCCATTTTAGCATTGTCCCTTTCTACACT-ACC
1 CTTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACTAACA
* * * * *
290773 CATTTCAACATTGTCCCTTTTTACGCTACCCATTTTAGCATTATCCATTTCTACACCATCA
1 C-TTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACTAACA
* * * * * * * * *
290834 CTTTCAGCACTATCCATTTCTACACCA-CCACTTTCAGCATTGTCCCTTTCAACACT-ACC
1 CTTTCAGCATTGTCCCTTTCTACACTACCCA-TTTTAGCATTATCCATTTCTACACTAACA
* * *
290893 CATTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCAGTATCCATTTCTGCAAC-ACCA
1 C-TTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTAC-ACTAACA
* * * * * * *
290954 CTTTCAGCATTATCCATTTCTACA-T-CACCACTTTCAGCATTATCAACTTCTACACCACCA
1 CTTTCAGCATTGTCCCTTTCTACACTAC-CCA-TTTTAGCATTATCCATTTCTACACTAACA
291014 CTTTCA
1 CTTTCA
291020 TAACAACCAC
Statistics
Matches: 246, Mismatches: 49, Indels: 21
0.78 0.16 0.07
Matches are distributed among these distances:
58 1 0.00
59 19 0.08
60 217 0.88
61 9 0.04
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.36
Consensus pattern (60 bp):
CTTTCAGCATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACTAACA
Found at i:290877 original size:120 final size:120
Alignment explanation
Indices: 290661--290994 Score: 445
Period size: 120 Copynumber: 2.8 Consensus size: 120
290651 TTGTCTTTCG
* * * * * * * *
290661 CATTGTCACTTTCAACATTACTCATTTAAGCATTATCCATTTCTACACTAACACTTTCAACATTG
1 CATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACCAACACTTTCAGCATTA
* * * * *
290726 TCCCTTTCAACACTACC-CATTTTAGCATTGTCCCTTTCTACACTACCCATTTCAA
66 TCCATTTCTACACCACCAC-TTTCAGCATTGTCCCTTTCAACACTACCCATTTCAA
* * * *
290781 CATTGTCCCTTTTTACGCTACCCATTTTAGCATTATCCATTTCTACACCATCACTTTCAGCACTA
1 CATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACCAACACTTTCAGCATTA
*
290846 TCCATTTCTACACCACCACTTTCAGCATTGTCCCTTTCAACACTACCCATTTCAG
66 TCCATTTCTACACCACCACTTTCAGCATTGTCCCTTTCAACACTACCCATTTCAA
* * * *
290901 CATTGTCCCTTTCTACACTACCCATTTTAGCAGTATCCATTTCTGCAACACCACTTTCAGCATTA
1 CATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACCAACACTTTCAGCATTA
*
290966 TCCATTTCTACATCACCACTTTCAGCATT
66 TCCATTTCTACACCACCACTTTCAGCATT
290995 ATCAACTTCT
Statistics
Matches: 187, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
120 186 0.99
121 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.37
Consensus pattern (120 bp):
CATTGTCCCTTTCTACACTACCCATTTTAGCATTATCCATTTCTACACCAACACTTTCAGCATTA
TCCATTTCTACACCACCACTTTCAGCATTGTCCCTTTCAACACTACCCATTTCAA
Found at i:290882 original size:15 final size:15
Alignment explanation
Indices: 290864--290913 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
290854 TACACCACCA
290864 CTTTCAGCATTGTCC
1 CTTTCAGCATTGTCC
* * *
290879 CTTTCAACACT-ACC
1 CTTTCAGCATTGTCC
290893 CATTTCAGCATTGTCC
1 C-TTTCAGCATTGTCC
290909 CTTTC
1 CTTTC
290914 TACACTACCC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.18, C:0.36, G:0.08, T:0.38
Consensus pattern (15 bp):
CTTTCAGCATTGTCC
Found at i:290995 original size:30 final size:30
Alignment explanation
Indices: 290689--291019 Score: 289
Period size: 30 Copynumber: 11.0 Consensus size: 30
290679 TACTCATTTA
*
290689 AGCATTATCCATTTCTACACTAACACTTTC
1 AGCATTATCCATTTCTACACTACCACTTTC
* * * * *
290719 AACATTGTCCCTTTCAACACTACC-CATTTT
1 AGCATTATCCATTTCTACACTACCAC-TTTC
* *
290749 AGCATTGTCCCTTTCTACACTACC-CATTTC
1 AGCATTATCCATTTCTACACTACCAC-TTTC
* * * * * *
290779 AACATTGTCCCTTTTTACGCTACC-CATTTT
1 AGCATTATCCATTTCTACACTACCAC-TTTC
* *
290809 AGCATTATCCATTTCTACACCATCACTTTC
1 AGCATTATCCATTTCTACACTACCACTTTC
* *
290839 AGCACTATCCATTTCTACACCACCACTTTC
1 AGCATTATCCATTTCTACACTACCACTTTC
* * *
290869 AGCATTGTCCCTTTCAACACTACC-CATTTC
1 AGCATTATCCATTTCTACACTACCAC-TTTC
* * *
290899 AGCATTGTCCCTTTCTACACTACC-CATTTT
1 AGCATTATCCATTTCTACACTACCAC-TTTC
* *
290929 AGCAGTATCCATTTCTGCAAC-ACCACTTTC
1 AGCATTATCCATTTCTAC-ACTACCACTTTC
290959 AGCATTATCCATTTCTACA-TCACCACTTTC
1 AGCATTATCCATTTCTACACT-ACCACTTTC
* * *
290989 AGCATTATCAACTTCTACACCACCACTTTC
1 AGCATTATCCATTTCTACACTACCACTTTC
291019 A
1 A
291020 TAACAACCAC
Statistics
Matches: 253, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
29 3 0.01
30 246 0.97
31 4 0.02
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.35
Consensus pattern (30 bp):
AGCATTATCCATTTCTACACTACCACTTTC
Found at i:292189 original size:77 final size:77
Alignment explanation
Indices: 292073--292225 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
292063 TAGAAAACAT
*
292073 TGCAAGTAAAGTTGTTAACAGAAAATCAACATTATTTCAACATAAACCACATACATTTTATGTCA
1 TGCAAGTAAAGTTGTTAACAAAAAATCAACATTATTTCAACATAAACCACATACATTTTATGTCA
292138 ACACAAAATCAA
66 ACACAAAATCAA
292150 TGCAAGTAAAGTTGTTAACAAAAAATCAACATTATTTCAACATAAACCACATACATTTTATGTCA
1 TGCAAGTAAAGTTGTTAACAAAAAATCAACATTATTTCAACATAAACCACATACATTTTATGTCA
292215 ACACAAAATCA
66 ACACAAAATCA
292226 GTACAGTTGT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.27
Consensus pattern (77 bp):
TGCAAGTAAAGTTGTTAACAAAAAATCAACATTATTTCAACATAAACCACATACATTTTATGTCA
ACACAAAATCAA
Found at i:294223 original size:25 final size:25
Alignment explanation
Indices: 294194--294250 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
294184 TTTAGAATGA
*
294194 TAAAAATAAAACTTT-TTGTTTGTT
1 TAAAAATAAAACTTTATTGTTTGTG
*
294218 TCAAAAAT-AAATTTTATTGTTTGTG
1 T-AAAAATAAAACTTTATTGTTTGTG
294243 TAAAAATA
1 TAAAAATA
294251 CATAAACGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (25 bp):
TAAAAATAAAACTTTATTGTTTGTG
Found at i:300883 original size:29 final size:30
Alignment explanation
Indices: 300850--300907 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
300840 CCCGTTGTTT
*
300850 CAGTTTAGTGCCTAACGTTT-ATTTCGTTC
1 CAGTTTAGTGCCTAACGTTTCATTCCGTTC
*
300879 CAGTTTGGTGCCTAACGTTTCATTCCGTT
1 CAGTTTAGTGCCTAACGTTTCATTCCGTT
300908 ACTTAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (30 bp):
CAGTTTAGTGCCTAACGTTTCATTCCGTTC
Found at i:302008 original size:16 final size:16
Alignment explanation
Indices: 301987--302017 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
301977 TTTTTTTTAT
301987 GAAAAAAAAGTAAATG
1 GAAAAAAAAGTAAATG
*
302003 GAAAAAAAATTAAAT
1 GAAAAAAAAGTAAAT
302018 TATCGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
GAAAAAAAAGTAAATG
Found at i:303973 original size:20 final size:20
Alignment explanation
Indices: 303948--304139 Score: 145
Period size: 20 Copynumber: 9.6 Consensus size: 20
303938 AAATGACCAA
*
303948 CAAATTTGCAACACAAAAGT
1 CAAATTCGCAACACAAAAGT
* * *
303968 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACACAAAAGT
**
303988 CAAATTCGCAACACTGAAGT
1 CAAATTCGCAACACAAAAGT
* * **
304008 CGAATTCGCAACGCGAATCTGT
1 CAAATTCGCAACAC-AA-AAGT
* *
304030 -AAA-TCGCAATACAGAAGT
1 CAAATTCGCAACACAAAAGT
* *
304048 CAAATTCACAACACATAAGT
1 CAAATTCGCAACACAAAAGT
* **
304068 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-AAAAGT
*
304089 CAAATTCGCAACATAAAAGT
1 CAAATTCGCAACACAAAAGT
* * * *
304109 CAAATTCACAACGCGATAGT
1 CAAATTCGCAACACAAAAGT
304129 CAAATTCGCAA
1 CAAATTCGCAA
304140 AGAGCGTTTA
Statistics
Matches: 129, Mismatches: 38, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 104 0.81
21 17 0.13
22 2 0.02
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACACAAAAGT
Found at i:304008 original size:40 final size:41
Alignment explanation
Indices: 303948--304139 Score: 171
Period size: 40 Copynumber: 4.8 Consensus size: 41
303938 AAATGACCAA
* * *
303948 CAAATTTGCAACACAAAAGTCAAATTCGCAACGCGAT-AGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACACGATAAGT
* * * **
303988 CAAATTCGCAACACTGAAGTCGAATTCGCAACGCGAATCTGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACACG-ATAAGT
* *
304030 -AAA-TCGCAATACAGAAGTCAAATTCACAACAC-ATAAGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACACGATAAGT
* * * *
304068 CAAATTCGCAACACTGAATTTCAAATTCGCAACA-TAAAAGT
1 CAAATTCGCAACACAGAA-GTCAAATTCGCAACACGATAAGT
* *
304109 CAAATTCACAACGC-GATAGTCAAATTCGCAA
1 CAAATTCGCAACACAGA-AGTCAAATTCGCAA
304140 AGAGCGTTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
38 4 0.03
39 3 0.02
40 80 0.64
41 36 0.29
42 2 0.02
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (41 bp):
CAAATTCGCAACACAGAAGTCAAATTCGCAACACGATAAGT
Found at i:304119 original size:61 final size:62
Alignment explanation
Indices: 303966--304139 Score: 189
Period size: 61 Copynumber: 2.9 Consensus size: 62
303956 CAACACAAAA
* * * * * *
303966 GTCAAATTCGCAACGCGATAGTCAAATTCGCAACAC-TGAAGTCGAATTCGCAACGCGAATCT
1 GTCAAATTCGCAACACAAAAGTCAAATTCACAACACAT-AAGTCAAATTCGCAACACGAATCT
* *
304028 GT-AAA-TCGCAATACAGAAGTCAAATTCACAACACATAAGTCAAATTCGCAACACTGAAT-T
1 GTCAAATTCGCAACACAAAAGTCAAATTCACAACACATAAGTCAAATTCGCAACAC-GAATCT
* *
304088 -TCAAATTCGCAACATAAAAGTCAAATTCACAACGCGAT-AGTCAAATTCGCAA
1 GTCAAATTCGCAACACAAAAGTCAAATTCACAACAC-ATAAGTCAAATTCGCAA
304140 AGAGCGTTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 43 0.45
61 47 0.49
62 4 0.04
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (62 bp):
GTCAAATTCGCAACACAAAAGTCAAATTCACAACACATAAGTCAAATTCGCAACACGAATCT
Found at i:304324 original size:22 final size:22
Alignment explanation
Indices: 304299--304349 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
304289 CTACGGCGAC
304299 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
304321 ATCCATCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
304343 ATCCGTC
1 ATCCGTC
304350 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.45, G:0.12, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:304748 original size:14 final size:14
Alignment explanation
Indices: 304731--304762 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
304721 GCGATTTTAG
304731 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
304745 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
304759 TTTC
1 TTTC
304763 ATTTTTGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:306944 original size:21 final size:20
Alignment explanation
Indices: 306918--307000 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 20
306908 GACTCACCTG
306918 TCATCGTTCAAGAGGCTCCTC
1 TCATCGTTCAAGAGGC-CCTC
306939 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGG-CCCTC
* * *
306960 CCACCGTTCAAGAGGCCCTTG
1 TCATCGTTCAAGAGGCCC-TC
306981 TCATCGTTCAATG-GGCCCTC
1 TCATCGTTCAA-GAGGCCCTC
307001 CCACTATTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.08
21 47 0.89
22 2 0.04
ACGTcount: A:0.18, C:0.36, G:0.20, T:0.25
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:306969 original size:42 final size:41
Alignment explanation
Indices: 306922--307014 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 41
306912 CACCTGTCAT
306922 CGTTCAAGAGGCTCC-TCTCATCGTTCAA-GAGGCCCCTCCCAC
1 CGTTCAAGAGGC-CCTTCTCATCGTTCAATG-GG-CCCTCCCAC
*
306964 CGTTCAAGAGGCCCTTGTCATCGTTCAATGGGCCCTCCCAC
1 CGTTCAAGAGGCCCTTCTCATCGTTCAATGGGCCCTCCCAC
**
307005 TATTCAAGAG
1 CGTTCAAGAG
307015 CCCGATTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
41 19 0.41
42 26 0.57
43 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.24
Consensus pattern (41 bp):
CGTTCAAGAGGCCCTTCTCATCGTTCAATGGGCCCTCCCAC
Found at i:308418 original size:69 final size:67
Alignment explanation
Indices: 308343--308516 Score: 241
Period size: 66 Copynumber: 2.6 Consensus size: 67
308333 GGGTACACTA
308343 TTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTT-AGTTGATGAGGAAATAAG
1 TTTTTGCTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAAGTTGATGAGGAAATAAG
308406 AATTA-T
61 AATTATT
* * *
308412 TTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTA
1 TTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAAGTTGATGAGGAAATAAGAATTA
308476 TT
66 TT
308478 TTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTT
1 TTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTT
308517 GTTTTAAATT
Statistics
Matches: 99, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
64 15 0.15
65 20 0.20
66 40 0.40
67 1 0.01
68 4 0.04
69 19 0.19
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (67 bp):
TTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAAGTTGATGAGGAAATAAGAATTA
TT
Found at i:308476 original size:65 final size:65
Alignment explanation
Indices: 308373--308516 Score: 245
Period size: 66 Copynumber: 2.2 Consensus size: 65
308363 TTTTACATTG
308373 AAAGTTGATTTGTTTAGTTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAGTTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTA
* * *
308437 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTT-AGTTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
308502 A
65 A
308503 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
308517 GTTTTAAATT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 15 0.20
65 20 0.27
66 40 0.53
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (65 bp):
AAAGTTGATTTGTTTAGTTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTA
Found at i:308630 original size:13 final size:14
Alignment explanation
Indices: 308594--308632 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
308584 AAAATTCAAA
308594 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
308608 TTCG-GTTTGCGA-T
1 TTCGCG-TTGCGATT
308621 TTCGCGTTGCGA
1 TTCGCGTTGCGA
308633 ATTCAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.08, C:0.21, G:0.31, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:308860 original size:18 final size:18
Alignment explanation
Indices: 308837--308872 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
308827 AAGCCGGTTG
*
308837 TGATTGGGATTTTGATTT
1 TGATTGAGATTTTGATTT
308855 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
308873 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:311174 original size:24 final size:24
Alignment explanation
Indices: 311140--311193 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
311130 CTGAAACATC
311140 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
311164 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
311188 ATCAAA
1 ATCAAA
311194 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:311983 original size:14 final size:15
Alignment explanation
Indices: 311947--311984 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
311937 TAAATCATTG
311947 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
311962 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
311977 AAAAATTA
1 AAAAATTA
311985 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:312201 original size:19 final size:20
Alignment explanation
Indices: 312160--312209 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
312150 TTAAATTCGT
*
312160 GTTGTGAATTCGAAAATCGA
1 GTTGTGAATTTGAAAATCGA
* *
312180 GTTGCGAATTTGAAATTC-A
1 GTTGTGAATTTGAAAATCGA
312199 GTTGTGAATTT
1 GTTGTGAATTT
312210 AACTGTCGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGTGAATTTGAAAATCGA
Found at i:312262 original size:20 final size:20
Alignment explanation
Indices: 312239--312310 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
312229 ACAGATTCGC
312239 GTTGCGAATTTGACTTTAGT
1 GTTGCGAATTTGACTTTAGT
312259 GTTGCGAATTTGAC-TTATGT
1 GTTGCGAATTTGACTTTA-GT
*
312279 GTTACGAATTTGACTTCT-GT
1 GTTGCGAATTTGACTT-TAGT
312299 GTTGCGAATTTG
1 GTTGCGAATTTG
312311 GAAACTGGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 1 0.02
22 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTAGT
Found at i:312554 original size:34 final size:34
Alignment explanation
Indices: 312508--312573 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
312498 CACGATTTGT
*
312508 GTCTTTCATATATGTCATAGGTTCAGCTAAGGGC
1 GTCTTTCATATATGTCAAAGGTTCAGCTAAGGGC
* *
312542 GTCTTTCGTATATGTCAAAGGTTCAGTTAAGG
1 GTCTTTCATATATGTCAAAGGTTCAGCTAAGG
312574 CGCGGATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (34 bp):
GTCTTTCATATATGTCAAAGGTTCAGCTAAGGGC
Found at i:313011 original size:7 final size:7
Alignment explanation
Indices: 313001--313038 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
312991 ATCTTTCCAC
313001 TTTCAAT
1 TTTCAAT
313008 TTTCAAT
1 TTTCAAT
313015 TTTCAAT
1 TTTCAAT
313022 TTTCAAT
1 TTTCAAT
313029 TTTCAAT
1 TTTCAAT
313036 TTT
1 TTT
313039 ACTTTGAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTCAAT
Found at i:313018 original size:21 final size:21
Alignment explanation
Indices: 312994--313038 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
312984 AGCTTTTATC
*
312994 TTTCCACTTTCAATTTTCAAT
1 TTTCAACTTTCAATTTTCAAT
*
313015 TTTCAATTTTCAATTTTCAAT
1 TTTCAACTTTCAATTTTCAAT
313036 TTT
1 TTT
313039 ACTTTGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTCAACTTTCAATTTTCAAT
Found at i:324229 original size:8 final size:8
Alignment explanation
Indices: 324218--324251 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
324208 CATTTTTAGC
324218 ATTTTAAT
1 ATTTTAAT
324226 ATTTTAAT
1 ATTTTAAT
324234 A-TTTAAT
1 ATTTTAAT
*
324241 ATTTTTAT
1 ATTTTAAT
324249 ATT
1 ATT
324252 AGTTTGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTAAT
Found at i:324240 original size:15 final size:15
Alignment explanation
Indices: 324220--324251 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
324210 TTTTTAGCAT
324220 TTTAATATTTTAATA
1 TTTAATATTTTAATA
*
324235 TTTAATATTTTTATA
1 TTTAATATTTTAATA
324250 TT
1 TT
324252 AGTTTGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATATTTTAATA
Found at i:324443 original size:21 final size:21
Alignment explanation
Indices: 324417--324459 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
324407 ATTTATAATG
*
324417 AACTATCACATTAATATTATA
1 AACTATCACATTAATACTATA
* *
324438 AACTATTACGTTAATACTATA
1 AACTATCACATTAATACTATA
324459 A
1 A
324460 TAATCAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (21 bp):
AACTATCACATTAATACTATA
Found at i:330997 original size:332 final size:333
Alignment explanation
Indices: 330335--331002 Score: 1295
Period size: 332 Copynumber: 2.0 Consensus size: 333
330325 TGAGGAAAAC
330335 AGAGGCAACCAAATACTCTTAGCTGTCCATAAGCTGGTTTTTGATGAAACAGCTTCTCGAACGGT
1 AGAGGCAACCAAATACTCTTAGCTGTCCATAAGCTGGTTTTTGATGAAACAGCTTCTCGAACGGT
330400 GATACACCATGCAAGACCCTTGTAGGCAGTCTGTTAATTAAATGAACTGCAGTAACAACTGCATA
66 GATACACCATGC-A-ACCCTTGTAGGCAGTCTGTTAATTAAATGAACTGCAGTAACAACTGCATA
330465 TGCCCAAAATTTGATAGGCATCGACGCTTGAGCTAGCAACACAAGGGCTAGTTCTATCACATGAC
129 TGCCCAAAATTTGATAGGCATCGACGCTTGAGCTAGCAACACAAGGGCTAGTTCTATCACATGAC
330530 GATGCTTGCGTTCCACCACTCCATTCTGCTCAGAAGTGTGTGGACATGTGAGCCTGTGTACAACA
194 GATGCTTGCGTTCCACCACTCCATTCTGCTCAGAAGTGTGTGGACATGTGAGCCTGTGTACAACA
330595 CCTGCTTTCAACAAGCAGCTCGACAGCCTTCGATATTCACCTCCCCAATCGCTCTGAACAGCCTT
259 CCTGCTTTCAACAAGCAGCTCGACAGCCTTCGATATTCACCTCCCCAATCGCTCTGAACAGCCTT
330660 TGATGGGCAA
324 TGATGGGCAA
330670 AGAGGCAACCAAATACTCTTAGCTGTCCATAAGCTGGTTTTTGATGAAACAGCTTCTCGAACGGT
1 AGAGGCAACCAAATACTCTTAGCTGTCCATAAGCTGGTTTTTGATGAAACAGCTTCTCGAACGGT
330735 GATACACCATGC-ACCCTTGTAGGCAGTCTGTTAATTAAATGAACTGCAGTAACAACTGCATATG
66 GATACACCATGCAACCCTTGTAGGCAGTCTGTTAATTAAATGAACTGCAGTAACAACTGCATATG
330799 CCCAAAATTTGATAGGCATCGACGCTTGAGCTAGCAACACAAGGGCTAGTTCTATCACATGACGA
131 CCCAAAATTTGATAGGCATCGACGCTTGAGCTAGCAACACAAGGGCTAGTTCTATCACATGACGA
330864 TGCTTGCGTTCCACCACTCCATTCTGCTCAGAAGTGTGTGGACATGTGAGCCTGTGTACAAACAC
196 TGCTTGCGTTCCACCACTCCATTCTGCTCAGAAGTGTGTGGACATGTGAGCCTGTGTAC-AACAC
330929 CTGCTTTCAACAAGCAGCTCGACAGCCTTCGATATTCACCTCCCCAATCGCTCTGAACAGCC-TT
260 CTGCTTTCAACAAGCAGCTCGACAGCCTTCGATATTCACCTCCCCAATCGCTCTGAACAGCCTTT
330993 GATGGGCAA
325 GATGGGCAA
331002 A
1 A
331003 CCAAACTGCA
Statistics
Matches: 332, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
332 188 0.57
333 67 0.20
335 77 0.23
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (333 bp):
AGAGGCAACCAAATACTCTTAGCTGTCCATAAGCTGGTTTTTGATGAAACAGCTTCTCGAACGGT
GATACACCATGCAACCCTTGTAGGCAGTCTGTTAATTAAATGAACTGCAGTAACAACTGCATATG
CCCAAAATTTGATAGGCATCGACGCTTGAGCTAGCAACACAAGGGCTAGTTCTATCACATGACGA
TGCTTGCGTTCCACCACTCCATTCTGCTCAGAAGTGTGTGGACATGTGAGCCTGTGTACAACACC
TGCTTTCAACAAGCAGCTCGACAGCCTTCGATATTCACCTCCCCAATCGCTCTGAACAGCCTTTG
ATGGGCAA
Found at i:341642 original size:80 final size:79
Alignment explanation
Indices: 341531--341694 Score: 258
Period size: 80 Copynumber: 2.1 Consensus size: 79
341521 ACGGAATCCC
* * *
341531 TGCAAGTAATATGAAGGACTAAACTTCTCAATTTACATTCAGGTCAAATTTATAACAGATATTTA
1 TGCAAGTAAAATGAAGGACTAAACTTCTCAATTTACATTCAGATCAAATTTATAACAAATATTTA
341596 CAGACCA-CTGCTAAT
66 -AGA-CAGCTGCTAAT
*
341611 TGCAAGTAAAATGAAGGACTAAACTTCTCAATTTTCATTCAGATCAAATTTATAACAAATATTTA
1 TGCAAGTAAAATGAAGGACTAAACTTCTCAATTTACATTCAGATCAAATTTATAACAAATATTTA
*
341676 AGACAGCTGCTCAT
66 AGACAGCTGCTAAT
341690 TGCAA
1 TGCAA
341695 CATAATATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
78 2 0.03
79 15 0.19
80 61 0.78
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (79 bp):
TGCAAGTAAAATGAAGGACTAAACTTCTCAATTTACATTCAGATCAAATTTATAACAAATATTTA
AGACAGCTGCTAAT
Found at i:344690 original size:24 final size:27
Alignment explanation
Indices: 344657--344726 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 27
344647 ATTTGATTTT
*
344657 AATTTTAATATTAATTTTTTAA-A-TA
1 AATTATAATATTAATTTTTTAATAGTA
344682 AATTA-AATATTAATTTTTTAATAGTA
1 AATTATAATATTAATTTTTTAATAGTA
*
344708 TATTATAGATATTAATTTT
1 AATTATA-ATATTAATTTT
344727 AATACTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 16 0.41
25 5 0.13
26 6 0.15
27 1 0.03
28 11 0.28
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATAGTA
Found at i:344723 original size:64 final size:65
Alignment explanation
Indices: 344654--344792 Score: 244
Period size: 64 Copynumber: 2.2 Consensus size: 65
344644 TATATTTGAT
* *
344654 TTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATAGTATATTATAGATA
1 TTTAATTTTAATACTAAATTTTTAAATAAATTAAATATTAATTTTTTAATAGTATATTATAGATA
*
344719 -TTAATTTTAATACTAAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
1 TTTAATTTTAATACTAAATTTTTAAATAAATTAAATATTAATTTTTTAATAGTATATTATAGATA
344783 TTTAATTTTA
1 TTTAATTTTA
344793 TATCATATAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 61 0.87
65 9 0.13
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (65 bp):
TTTAATTTTAATACTAAATTTTTAAATAAATTAAATATTAATTTTTTAATAGTATATTATAGATA
Found at i:358253 original size:19 final size:19
Alignment explanation
Indices: 358186--358254 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
358176 ATTTTACCTT
358186 ATATATTA-TTTTTAATTAA
1 ATATATTATTTTTTAA-TAA
* *
358205 ATCT-CTATTTTATTGAATAA
1 ATATATTATTTT-TT-AATAA
358225 ATATGA-TATTTTTTAATAA
1 ATAT-ATTATTTTTTAATAA
358244 ATATATTATTT
1 ATATATTATTT
358255 CGGGTCGAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
18 3 0.07
19 20 0.49
20 10 0.24
21 8 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATATTATTTTTTAATAA
Found at i:358637 original size:21 final size:22
Alignment explanation
Indices: 358613--358656 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
358603 ATTAAAAATT
*
358613 ACCTAAAACATT-ATTTTTTTA
1 ACCTAAAACATTAATGTTTTTA
358634 ACCTAAAACATTAATGTTTTTA
1 ACCTAAAACATTAATGTTTTTA
358656 A
1 A
358657 TATTTCCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (22 bp):
ACCTAAAACATTAATGTTTTTA
Found at i:358753 original size:21 final size:21
Alignment explanation
Indices: 358729--358768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
358719 TAAAGCACCC
*
358729 AATAATAACATTTTCGGTATA
1 AATAATAACATTTCCGGTATA
*
358750 AATAATAATATTTCCGGTA
1 AATAATAACATTTCCGGTA
358769 ACTTTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AATAATAACATTTCCGGTATA
Found at i:360296 original size:2 final size:2
Alignment explanation
Indices: 360289--360314 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
360279 ACACCTTCAA
360289 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
360315 GTTAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:362758 original size:84 final size:84
Alignment explanation
Indices: 362617--362784 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
362607 TTACCAAATT
*
362617 CTTTTGAAAGATATTCTACCAAATTTATTTTGGTATGTTGAGATTATTTCCAAAATCTATTTGAT
1 CTTTTGAAACATATTCTACCAAATTTATTTTGGTATGTTGAGATTATTTCCAAAATCTATTTGAT
362682 TGTTTGAGATTTTCCTTAA
66 TGTTTGAGATTTTCCTTAA
* *
362701 CTTTTGAAACATTTTCTACCAAATTTATTTTGGTCTGTTGAGATTATTTCCAAAATCTATTTGAT
1 CTTTTGAAACATATTCTACCAAATTTATTTTGGTATGTTGAGATTATTTCCAAAATCTATTTGAT
362766 TGTTTGAGATTTTCCTTAA
66 TGTTTGAGATTTTCCTTAA
362785 TTATTATTTG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (84 bp):
CTTTTGAAACATATTCTACCAAATTTATTTTGGTATGTTGAGATTATTTCCAAAATCTATTTGAT
TGTTTGAGATTTTCCTTAA
Found at i:364297 original size:23 final size:22
Alignment explanation
Indices: 364271--364322 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
364261 TTATCTATAA
*
364271 TTAAAAATAAAATTAATATTACT
1 TTAAAAA-AAAATTAATATCACT
* * *
364294 TTAAAAAGATATTTATATCACT
1 TTAAAAAAAAATTAATATCACT
364316 TTAAAAA
1 TTAAAAA
364323 CAATTAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAAAAAAAAATTAATATCACT
Found at i:364299 original size:22 final size:21
Alignment explanation
Indices: 364274--364329 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
364264 TCTATAATTA
*
364274 AAAATAAAATTAATATTACTTT
1 AAAA-AAAATTAATATCACTTT
* *
364296 AAAAAGATATTTATATCACTTT
1 AAAAA-AAATTAATATCACTTT
*
364318 AAAAACAATTAA
1 AAAAAAAATTAA
364330 CAATTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAAAATTAATATCACTTT
Found at i:367553 original size:20 final size:19
Alignment explanation
Indices: 367530--367576 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
367520 CGATATACCA
*
367530 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
367550 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
367570 GGTAAAA
1 GGTAAAA
367577 CGTTACTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:367653 original size:181 final size:181
Alignment explanation
Indices: 367318--367790 Score: 707
Period size: 181 Copynumber: 2.6 Consensus size: 181
367308 GATCCAAATT
* * * * **
367318 AAAAATGTGTCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
367383 AAACCGGTAAAGCGCTACCAGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
367448 GTGAATTTAAAAGAGAAGCAGTTTTA-AATCTTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGAA-CCTATAAAGTGTCGATAC-TTTA
* *
367500 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
367565 AAACCGGTAAAACGTTACTGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
367629 GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAATGTGTCGATACTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTA
* *
367680 AAAATATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAA-ATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
367745 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
367791 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
180 8 0.03
181 160 0.61
182 96 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTA
Found at i:367725 original size:20 final size:19
Alignment explanation
Indices: 367711--367757 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
367701 CGATATAACA
367711 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
367731 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
367751 GGTAAAA
1 GGTAAAA
367758 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:367762 original size:17 final size:19
Alignment explanation
Indices: 367722--367762 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
367712 GTAAAAATAT
*
367722 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
367742 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
367759 GATA
1 GATA
367763 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:368912 original size:183 final size:183
Alignment explanation
Indices: 368502--369270 Score: 1217
Period size: 183 Copynumber: 4.2 Consensus size: 183
368492 CAAAGTTTTC
* ** *
368502 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAGAAAAACGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
* * * *
368567 CAAAAAGTGTCG--ATTGAAAAAACATCAGAA-CCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
368629 TATAATCAGTAT-AA-ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
368683 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
* *
368748 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTACTAGATAAGTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* ** * *
368813 AACTGGTATATGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
368866 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
368931 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
368996 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGCTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
369049 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATA-CTCTG
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCT-TG
* * *
369113 TCAAAAAGTATCGACATTTACACATTGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
369178 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCA
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
369232 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
369271 TATAATGTAC
Statistics
Matches: 547, Mismatches: 35, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
180 9 0.02
181 112 0.20
182 2 0.00
183 424 0.78
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:369315 original size:120 final size:120
Alignment explanation
Indices: 369148--369390 Score: 396
Period size: 120 Copynumber: 2.0 Consensus size: 120
369138 TGGAACCCAA
*
369148 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
369213 AGGTCTACAACCTATATCAACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * ** * *
369268 AATTATAATGTACTATATAAGTTTGTAATATAACCGGTATAGGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
* *
369333 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
369388 AAT
1 AAT
369391 GGAAGAAAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
AATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:369368 original size:303 final size:303
Alignment explanation
Indices: 368961--369555 Score: 1021
Period size: 303 Copynumber: 2.0 Consensus size: 303
368951 ACATCGGAAC
*
368961 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
369026 GAATAGCTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGCTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
369091 AGAAAAATGTGTCGATA-CTCTGTCAAAAAGTATCGACATTTACACATTGGAACCCAAAATTATA
131 AGAAAAATGTGTCGATACCT-TGTCAAAAAGTATCGACATTTACACATCGGAACCCAAAATTATA
*
369155 ATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTA
195 ATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTA
*
369220 CAACCTATATCAACACTTTTTAATTTTGTGTCGGTACTTTATGT
260 CAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGT
* * ** *
369264 CCAGAATTATAATGTACTATATAAGTTTGTAATATAACCGGTATAGGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
369329 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGCTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* * *
369394 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCTAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAAAATTATAA
*
369459 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTAC
* *
369524 AACCTATATCGACATTTTTTAATATTGTGTCG
261 AACCTATATCAACACTTTTTAATATTGTGTCG
369556 CTAATTTTAA
Statistics
Matches: 274, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
303 272 0.99
304 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAAGTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGCTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAAAATTATAA
TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGCGAATAGGTCTAC
AACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:372999 original size:87 final size:87
Alignment explanation
Indices: 372895--373057 Score: 247
Period size: 87 Copynumber: 1.9 Consensus size: 87
372885 AAATAGATCA
* *
372895 ATATAAGTGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATATTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
372960 CTC-GTTAAATACTTATTTTATT
66 C-CGGTTAAATACTTATTTTATT
* * * * *
372982 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
373047 CCGGTTAAATA
66 CCGGTTAAATA
373058 ATATAACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 1 0.01
87 67 0.99
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
CCGGTTAAATACTTATTTTATT
Found at i:373029 original size:23 final size:23
Alignment explanation
Indices: 372979--373023 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
372969 TACTTATTTT
* *
372979 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
373002 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
373024 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:375380 original size:2 final size:2
Alignment explanation
Indices: 375373--375401 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
375363 ATCAACAAAC
375373 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 A
375402 ATTTTACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:381466 original size:12 final size:12
Alignment explanation
Indices: 381449--381503 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
381439 TTTTTCGTTT
381449 ATTATTATTAAA
1 ATTATTATTAAA
381461 ATTATTATT---
1 ATTATTATTAAA
**
381470 ATTATTATTATT
1 ATTATTATTAAA
381482 ATTATTATT-AA
1 ATTATTATTAAA
381493 ATATATTATTA
1 AT-TATTATTA
381504 CAAGCCCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 9 0.25
11 2 0.06
12 25 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:381467 original size:15 final size:15
Alignment explanation
Indices: 381447--381503 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
381437 AATTTTTCGT
381447 TTATTATTATTAAAA
1 TTATTATTATTAAAA
**
381462 TTATTATTATTATTA
1 TTATTATTATTAAAA
381477 TTATTATTATTATTAAA
1 TTATTATTATTA--AAA
381494 TATATTATTA
1 T-TATTATTA
381504 CAAGCCCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 25 0.71
17 2 0.06
18 8 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTATTAAAA
Found at i:381503 original size:3 final size:3
Alignment explanation
Indices: 381447--381491 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
381437 AATTTTTCGT
**
381447 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
381492 AATATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:383001 original size:16 final size:15
Alignment explanation
Indices: 382982--383049 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
382972 TTTTTTATAC
382982 TTATTTTTAAATTTAT
1 TTATTTTT-AATTTAT
* *
382998 TTA-TCTTACTCATTAT
1 TTATTTTTAAT--TTAT
383014 TTATTTTTAATTTAT
1 TTATTTTTAATTTAT
* * *
383029 ATATGTTTAAATTA-
1 TTATTTTTAATTTAT
383043 TTATTTT
1 TTATTTT
383050 CATAATTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 7 0.17
15 18 0.45
16 10 0.25
17 5 0.12
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (15 bp):
TTATTTTTAATTTAT
Found at i:383226 original size:31 final size:33
Alignment explanation
Indices: 383191--383253 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
383181 ATAATTAAAC
383191 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
383222 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
383254 TTAATATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:383875 original size:16 final size:17
Alignment explanation
Indices: 383838--383877 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
383828 TTTCTTTCAA
383838 ATTTTTTATTACATATT
1 ATTTTTTATTACATATT
383855 ATTTTTATATTA-ATATT
1 ATTTTT-TATTACATATT
383872 -TTTTTT
1 ATTTTTT
383878 CAGGTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 5 0.23
17 11 0.50
18 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTATTACATATT
Found at i:391424 original size:114 final size:114
Alignment explanation
Indices: 391173--391505 Score: 542
Period size: 114 Copynumber: 2.9 Consensus size: 114
391163 CACGTTCTCG
391173 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTGATTT
391238 GGTATGAA-CCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
* *
391286 TAGTAGAAATAAAGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTGATTT
* * *
391351 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATTAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
* * * * *
391400 TAGTATAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTGATTT
* * *
391465 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
391506 CTGCATGATC
Statistics
Matches: 202, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
113 71 0.35
114 131 0.65
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTGATTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTATTCA
Found at i:393470 original size:54 final size:53
Alignment explanation
Indices: 393385--393487 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
393375 TAATTGAGAA
*
393385 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATG-TTTACGAAC
* *
393439 ATCTGAGCAGAAGCTACA-AGAAAGGAAGAATGTGTTTTCAAATGTTTAC
1 ATCTGAGCAGAAGCCACAGA-AAAGGAAGAATGTGTTGTCAAATGTTTAC
393488 ATCTCGATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (53 bp):
ATCTGAGCAGAAGCCACAGAAAAGGAAGAATGTGTTGTCAAATGTTTACGAAC
Found at i:393958 original size:22 final size:23
Alignment explanation
Indices: 393907--393962 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
393897 ATCTACACTC
393907 TTCAAAGATGATAGATTCTCTTT
1 TTCAAAGATGATAGATTCTCTTT
*
393930 TTTAAAGATGATAGATTCTC-TT
1 TTCAAAGATGATAGATTCTCTTT
393952 TTCAAAGATGA
1 TTCAAAGATGA
393963 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (23 bp):
TTCAAAGATGATAGATTCTCTTT
Found at i:394747 original size:161 final size:161
Alignment explanation
Indices: 394476--394790 Score: 456
Period size: 161 Copynumber: 2.0 Consensus size: 161
394466 AAAATGAACA
*
394476 TTATCTTGAGATTGGGGCATGTTACCTAATCGACATGCTATTTCGAAAATAATGAGAAAACGATT
1 TTATCTTGAGATTGGGGCATGTTACCTAATCAACATGCTATTTCGAAAATAATGAGAAAACGATT
** * * * **
394541 TCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAGTTGTTGAAAAGT-AAAAAAC-GTTTTCTT
66 TCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTGAAAAAACAATTTTCAG
*
394604 AGTTTTTACTTAGTAAACTATTTCCAACAGCC
131 AG-TTTTACTTAGTAAACTACTTCCAACAGCC
* * *
394636 TTATCTTGAGATTGGGGTATGTTA-CTCAATCAACATGTTATTTTGAAAAATAATGAGAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCT-AATCAACATGCTATTTCG-AAAATAATGAGAAAACGA
* *
394700 TTTCTATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTGAGAAAACAATTTTC
64 TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTGAAAAAACAATTTTC
394765 AGAGTTTTACTTAGTAAACTACTTCC
129 AGAGTTTTACTTAGTAAACTACTTCC
394791 CACATCTGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
159 2 0.01
160 38 0.28
161 63 0.46
162 27 0.20
163 7 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (161 bp):
TTATCTTGAGATTGGGGCATGTTACCTAATCAACATGCTATTTCGAAAATAATGAGAAAACGATT
TCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTGAAAAAACAATTTTCAG
AGTTTTACTTAGTAAACTACTTCCAACAGCC
Found at i:395196 original size:223 final size:224
Alignment explanation
Indices: 394793--395564 Score: 1183
Period size: 223 Copynumber: 3.5 Consensus size: 224
394783 CTACTTCCCA
* *
394793 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA-CTTTTTCATGATTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* ** *
394857 AGTCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAATCCTTCGGGAGTTTTTTA
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATG-TTCCAAAAAGCTTCGGGAGTTTTTGA
394922 T-TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGG
130 TGTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGG
394986 GAGCTTTTTGATGTTTTC-AAGCCTTAGGGT
194 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
395016 CATTTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCC-TTCGGGAGCTTTTTGATGTTTTCA
*
395081 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTCTAAAAAGCTTCGGGAGCTTTTTG
65 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAGCTTCGGGAG-TTTTTG
395146 ATGTTTCAAAGCCTTAGGGTCA-CTGTAAGT-CTGCA-TGCATGATGTTTCCAAAAAGCCTTCGG
129 ATGTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGG
395208 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
194 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
395239 CATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * *
395304 AAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTCCAAGAAGCCTTCGGGAGGTTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAG-CTTCGGGA-GTTTTT
* * * *
395369 GATGTTTCAAAACCTTAGGGTCATTTGTAAGTCCTACAGTGCATGATG-TTCCAAAAAGCTTTCG
128 GATGTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCG
*
395433 GGAGCTTTTTGATGTTTTCAAAGCCTAAGGGT
193 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
395465 CATCTGTAAGTCCT--A-TAGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGT-GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * *
395526 AAGCCTTAAGGTCATCTGTAAGCCCTTCAGTG--TGATGTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTT
395565 TTTAAGACCT
Statistics
Matches: 509, Mismatches: 28, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
220 7 0.01
222 89 0.17
223 163 0.32
224 83 0.16
225 75 0.15
226 83 0.16
227 9 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (224 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAGCTTCGGGAGTTTTTGAT
GTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
GCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:395356 original size:299 final size:298
Alignment explanation
Indices: 394793--395565 Score: 1181
Period size: 299 Copynumber: 2.6 Consensus size: 298
394783 CTACTTCCCA
*
394793 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA-CTTTTTCATGATTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATG-TTCCAAAAAG-CTTCGGGAGCTTTTTGATGATTTCAA
* *
394857 AGTCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAATCCTTCGGGAG-TTTTT-
64 AGCCTTAGGGTCATCTGTAAGT-CTGCA-TGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTG
*
394920 -TATTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTC
127 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTC
* * * *
394984 GGGAGCTTTTTGATGTTTTCAAGCCTTAGGGTCATTTGTAAGTCCTGCAGTGCATGATGTTTCCA
192 GAGAGCTTTTTGATGTTTTCAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCA
* *
395049 AAAAGCCTTTGGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
257 AAAAGCC-TTCGGGAGCTTTTTGATG-TTTCAAAACCTTAGGGT
*
395093 CATCTGTAAGTCCTGCAGTGCATGATGTTCTAAAAAGCTTCGGGAGCTTTTTGATG-TTTCAAAG
1 CATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAGCTTCGGGAGCTTTTTGATGATTTCAAAG
395157 CCTTAGGGTCA-CTGTAAGTCTGCATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
66 CCTTAGGGTCATCTGTAAGTCTGCATGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATG
*
395221 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAAGCCTTCGAG
130 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGAG
*
395286 AGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATG-TTCCAAG
195 AGCTTTTTGATGTTTTC-AAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAA
*
395350 AAGCCTTCGGGAGGTTTTTGATGTTTCAAAACCTTAGGGT
259 AAGCCTTCGGGAGCTTTTTGATGTTTCAAAACCTTAGGGT
* * *
395390 CATTTGTAAGTCCTACAGTGCATGATGTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAGC-TTCGGGAGCTTTTTGATGATTTCAAA
*
395455 GCCTAAGGGTCATCTGTAAGTC--CTATAGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTGA
65 GCCTTAGGGTCATCTGTAAGTCTGC-AT-GCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTGA
* * *
395518 TGTTTTCAAAGCCTTAAGGTCATCTGTAAGCCCTTCAGTG--TGATGTTT
128 TGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
395566 TTAAGACCTC
Statistics
Matches: 441, Mismatches: 21, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
295 14 0.03
296 19 0.04
297 72 0.16
298 61 0.14
299 190 0.43
300 85 0.19
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (298 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTCCAAAAAGCTTCGGGAGCTTTTTGATGATTTCAAAG
CCTTAGGGTCATCTGTAAGTCTGCATGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTGATGT
TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGAGA
GCTTTTTGATGTTTTCAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAA
GCCTTCGGGAGCTTTTTGATGTTTCAAAACCTTAGGGT
Found at i:395400 original size:74 final size:76
Alignment explanation
Indices: 394793--395565 Score: 1165
Period size: 74 Copynumber: 10.4 Consensus size: 76
394783 CTACTTCCCA
* *
394793 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA-CTTTTTCATGATTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
394857 AGTCTTAGGGT
66 AGCCTTAGGGT
* *
394868 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAATCCTTCGGGAG-TTTTT--TATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
394929 AGCCTTAGGGT
66 AGCCTTAGGGT
394940 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
395004 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* *
395016 CATTTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCC-TTCGGGAGCTTTTTGATGTTTTCA
395081 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
395093 CATCTGTAAGTCCTGCAGTGCATGATG-TTCTAAAAAG-CTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
395155 AGCCTTAGGGT
66 AGCCTTAGGGT
395166 CA-CTGTAAGT-CTGCA-TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
395228 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
395239 CATCTGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
395304 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* * * *
395316 CATCTATAAGTCCTACAGTGCATGATG-TTCCAAGAAGCCTTCGGGAGGTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
395379 AACCTTAGGGT
66 AGCCTTAGGGT
* * *
395390 CATTTGTAAGTCCTACAGTGCATGATG-TTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
395454 AGCCTAAGGGT
66 AGCCTTAGGGT
395465 CATCTGTAAGTCCT--A-TAGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGT-GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
395526 AAGCCTTAAGGT
65 AAGCCTTAGGGT
* *
395538 CATCTGTAAGCCCTTCAGTG--TGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
395566 TTAAGACCTC
Statistics
Matches: 644, Mismatches: 33, Indels: 44
0.89 0.05 0.06
Matches are distributed among these distances:
70 9 0.01
71 14 0.02
72 77 0.12
73 108 0.17
74 129 0.20
75 104 0.16
76 91 0.14
77 112 0.17
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:395725 original size:12 final size:12
Alignment explanation
Indices: 395708--395765 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
395698 TTTTTTGTTT
395708 ATTATTATTAAA
1 ATTATTATTAAA
395720 ATTATTATTATTAA
1 ATTATTATTA--AA
*
395734 A--ATTATTAAT
1 ATTATTATTAAA
395744 ATTATTATT-AA
1 ATTATTATTAAA
395755 ATATATTATTA
1 AT-TATTATTA
395766 CAAGCCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 2 0.05
11 3 0.08
12 30 0.79
14 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:395753 original size:15 final size:15
Alignment explanation
Indices: 395706--395747 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
395696 AATTTTTTGT
395706 TTATTATTATTAAAA
1 TTATTATTATTAAAA
395721 TTATTATTATTAAAA
1 TTATTATTATTAAAA
*
395736 TTATTAATATTA
1 TTATTATTATTA
395748 TTATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTATTATTAAAA
Found at i:395765 original size:3 final size:3
Alignment explanation
Indices: 395706--395753 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
395696 AATTTTTTGT
** ** *
395706 TTA TTA TTA TTA AAA TTA TTA TTA TTA AAA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
395754 AATATATTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:408376 original size:20 final size:20
Alignment explanation
Indices: 408351--408443 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
408341 TTTTCCCAAT
408351 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
408371 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
408391 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
408412 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
408433 TCGCAATGCGA
1 TCGCAATGCGA
408444 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:408393 original size:41 final size:41
Alignment explanation
Indices: 408348--408443 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
408338 CGATTTTCCC
*
408348 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
408389 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
408430 AAATCGCAATGCGA
1 AATTCGCAATGCGA
408444 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:408456 original size:41 final size:41
Alignment explanation
Indices: 408370--408504 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
408360 GAATAAGTAA
* * * *
408370 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
408411 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
408452 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
408493 TTCGCAACGCGA
1 ATCGCAACGCGA
408505 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:408457 original size:20 final size:20
Alignment explanation
Indices: 408432--408526 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
408422 AATTGAGAAA
*
408432 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
408452 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
408473 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
408493 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
408513 TTCGCAACGCGATA
1 ATCGCAACGCGATA
408527 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:408742 original size:22 final size:22
Alignment explanation
Indices: 408714--408757 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
408704 CACTCTCTCA
408714 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
408736 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
408758 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:409046 original size:20 final size:20
Alignment explanation
Indices: 409021--409058 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
409011 CGATTCTCTC
409021 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
409041 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
409059 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:410398 original size:18 final size:18
Alignment explanation
Indices: 410377--410421 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
410367 TCCACTTCGG
*
410377 GAGCCATCACATCGCCCA
1 GAGCCATCACATCACCCA
* * *
410395 GAGCTATCACCTCACCTA
1 GAGCCATCACATCACCCA
410413 GAGCCATCA
1 GAGCCATCA
410422 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.40, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACATCACCCA
Found at i:410948 original size:19 final size:20
Alignment explanation
Indices: 410894--410949 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
410884 TAGTTTACTT
* *
410894 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
410914 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
410934 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
410950 AAATCGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:410955 original size:19 final size:19
Alignment explanation
Indices: 410933--411024 Score: 64
Period size: 19 Copynumber: 5.5 Consensus size: 19
410923 GGAAATGGCT
410933 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
410952 ATCGCAAT--G--A--CAA
1 ATCGCAATGCGAAATGAAA
*
410965 ATCGCAACGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
410983 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
410997 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
411016 ATCGCAATG
1 ATCGCAATG
411025 TGATTTGTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 24
0.66 0.06 0.28
Matches are distributed among these distances:
13 9 0.16
14 10 0.18
15 2 0.04
16 4 0.07
17 2 0.04
18 10 0.18
19 19 0.34
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:410977 original size:32 final size:33
Alignment explanation
Indices: 410933--411024 Score: 152
Period size: 32 Copynumber: 2.8 Consensus size: 33
410923 GGAAATGGCT
*
410933 ATCGCAATGCGAAATGAAAATCGCAATGAC-AA
1 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
*
410965 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
410997 ATCGCAACGCGAAATGAAAATCGCAATG
1 ATCGCAACGCGAAATGAAAATCGCAATG
411025 TGATTTGTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
31 12 0.22
32 33 0.60
33 10 0.18
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAATGACAAA
Found at i:411058 original size:14 final size:14
Alignment explanation
Indices: 411039--411096 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
411029 TTGTGTTTCG
411039 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
411053 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
411069 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
411085 CGTTGCGATTTT
1 CGTTGCGATTTT
411097 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:411070 original size:32 final size:33
Alignment explanation
Indices: 411034--411112 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
411024 GTGATTTGTG
411034 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
411066 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
411099 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
411113 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:411111 original size:19 final size:19
Alignment explanation
Indices: 411055--411154 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 19
411045 GATTTTGTCG
*
411055 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
411073 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
411087 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
***
411106 TTGCGATAGCCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
** * *
411126 TTGCGATAGTCATTTTGCG
1 TTGCGATTTTCATTTCGCA
411145 TTGCGATTTT
1 TTGCGATTTT
411155 AAGTTTCGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.05
16 4 0.06
17 4 0.06
18 9 0.14
19 22 0.33
20 18 0.27
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:411127 original size:20 final size:19
Alignment explanation
Indices: 411097--411151 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
411087 TTGCGATTTT
411097 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
411116 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
* *
411136 CATTTTGCGTTGCGAT
1 CATTTCGCATTGCGAT
411152 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:413547 original size:14 final size:14
Alignment explanation
Indices: 413528--413563 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
413518 GATTGTTAAT
413528 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
413542 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
413556 TGATTTGT
1 TGATTTGT
413564 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:413689 original size:14 final size:15
Alignment explanation
Indices: 413670--413746 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
413660 CGAAATGGCT
413670 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
413684 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
413702 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
413721 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
413735 ATCGCAATGCGA
1 ATCGCAA-GCGA
413747 TTATCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:413702 original size:19 final size:19
Alignment explanation
Indices: 413680--413746 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
413670 ATCGCAACGA
413680 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
413699 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
413717 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
413731 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
413747 TTATCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:413822 original size:20 final size:20
Alignment explanation
Indices: 413772--413822 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
413762 GCGATATTCT
*
413772 CGTTGCGATAACCATTTTCA
1 CGTTGCGATAGCCATTTTCA
413792 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
413812 CGTTGCGATAG
1 CGTTGCGATAG
413823 TCAAATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:414166 original size:14 final size:14
Alignment explanation
Indices: 414147--414182 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
414137 ATTGTTTAAT
414147 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
414161 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
414175 TGATTTGT
1 TGATTTGT
414183 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:415478 original size:24 final size:24
Alignment explanation
Indices: 415422--415480 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
415412 AGTCAGTATT
* *
415422 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
415446 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
415470 CGAATTTTGAT
1 CGAAATTTGAT
415481 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:417976 original size:19 final size:19
Alignment explanation
Indices: 417954--418051 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
417944 GGAAATTACT
417954 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
417973 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
417987 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
418006 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
418020 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
418039 ATCGCAACGCGAA
1 ATCGCAATGCGAA
418052 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:417996 original size:33 final size:33
Alignment explanation
Indices: 417954--418047 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
417944 GGAAATTACT
417954 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
417987 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
418020 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
418048 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:418069 original size:19 final size:20
Alignment explanation
Indices: 418047--418089 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
418037 AAATCGCAAC
418047 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
418066 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
418086 GCGA
1 GCGA
418090 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:418074 original size:14 final size:14
Alignment explanation
Indices: 418075--418108 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
418065 TGCGATTTTC
418075 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
418089 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
418103 ATTTTC
1 ATTTTC
418109 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:418249 original size:14 final size:14
Alignment explanation
Indices: 418230--418266 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
418220 CATCAATTAA
418230 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
418244 ACAAATCACCTTTT
1 ACAAATCAACTTTT
418258 ACAAATCAA
1 ACAAATCAA
418267 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:419688 original size:21 final size:21
Alignment explanation
Indices: 419622--419688 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
419612 GTGAATCGGG
*
419622 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
419642 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
419664 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
419685 CTCT
1 CTCT
419689 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:419707 original size:42 final size:41
Alignment explanation
Indices: 419622--419744 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
419612 GTGAATCGGG
* * * * *
419622 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
419664 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
419706 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
419745 CGAGTCAGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:421861 original size:19 final size:19
Alignment explanation
Indices: 421744--421947 Score: 203
Period size: 19 Copynumber: 11.1 Consensus size: 19
421734 TCTTTTGGTT
*
421744 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
421763 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
421783 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
421801 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
421817 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
421835 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
421850 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
421870 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
421889 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
421908 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
*
421927 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
421946 GA
1 GA
421948 TTTTGGTTTC
Statistics
Matches: 157, Mismatches: 15, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 81 0.52
20 45 0.29
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:421882 original size:39 final size:38
Alignment explanation
Indices: 421744--421947 Score: 203
Period size: 33 Copynumber: 5.6 Consensus size: 38
421734 TCTTTTGGTT
* *
421744 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
421783 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
421817 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
421850 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
421889 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
421927 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
421948 TTTTGGTTTC
Statistics
Matches: 144, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
33 42 0.29
34 16 0.11
35 2 0.01
38 42 0.29
39 28 0.19
40 14 0.10
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:421976 original size:19 final size:19
Alignment explanation
Indices: 421943--421987 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
421933 AAAATCGCAA
*
421943 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
421962 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
421981 TGCGATT
1 TGCGATT
421988 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:422638 original size:20 final size:20
Alignment explanation
Indices: 422545--422638 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
422535 TGCTAAGTAA
*
422545 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
422565 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
422585 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
422606 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
422626 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
422639 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:422657 original size:41 final size:41
Alignment explanation
Indices: 422566--422700 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
422556 AAAGTCAGTA
* * * ** *
422566 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
422606 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
422648 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
422689 TCGCGTTGCGAT
1 TCGCGTTGCGAT
422701 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:422671 original size:20 final size:20
Alignment explanation
Indices: 422627--422719 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
422617 ATAGTCAGTA
* **
422627 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
422648 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
422668 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
422689 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
422709 TCGCATTGCGA
1 TCGCATTGCGA
422720 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:422701 original size:41 final size:41
Alignment explanation
Indices: 422627--422722 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
422617 ATAGTCAGTA
*
422627 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
422668 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
422709 TCGCATTGCGAATT
1 TCGCATTGCGAATT
422723 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:426186 original size:18 final size:18
Alignment explanation
Indices: 426163--426198 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
426153 ACTGAATATT
*
426163 TGTCCCAAATGACCACTA
1 TGTCCCAAAGGACCACTA
*
426181 TGTCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
426199 ATTGTTCCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:426865 original size:64 final size:62
Alignment explanation
Indices: 426758--426891 Score: 173
Period size: 64 Copynumber: 2.1 Consensus size: 62
426748 CCCTTGATAG
*
426758 GTGCATCGATGCACTACCTATGCATCGGTGCATAAATCCCATTCGATGTTTATATT-TTAAACGA
1 GTGCATCGATGCACTACCTATGCATCGATGCATAAATCCCATTCGATG-TTA-ATTATTAAA-GA
* ** *
426822 GTGCATCGATGCACT-CCTTATGCATCGATGCATTAATGGCATTCGATGTTAATTATTTAAGA
1 GTGCATCGATGCACTACC-TATGCATCGATGCATAAATCCCATTCGATGTTAATTATTAAAGA
426884 GTGCATCG
1 GTGCATCG
426892 GTACACATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
62 13 0.21
63 9 0.14
64 41 0.65
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (62 bp):
GTGCATCGATGCACTACCTATGCATCGATGCATAAATCCCATTCGATGTTAATTATTAAAGA
Found at i:433020 original size:20 final size:18
Alignment explanation
Indices: 432974--433044 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
432964 TGAATATTTG
* *
432974 TCCCGAAGGACCACTATG
1 TCCCGAAGAACCACTATA
*
432992 TCTCGAAGAACCACTAATTA
1 TCCCGAAGAACCACT-A-TA
*
433012 TTCCGAAGAACCACTATA
1 TCCCGAAGAACCACTATA
*
433030 TCCCGAAGGACCACT
1 TCCCGAAGAACCACT
433045 GATAATCCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 28 0.64
19 2 0.05
20 14 0.32
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (18 bp):
TCCCGAAGAACCACTATA
Found at i:433718 original size:64 final size:62
Alignment explanation
Indices: 433595--433728 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 62
433585 CCCTTGACAG
* *
433595 GTGCATCGATGCACTACCTATGCATCGGTGAATAAATTCCATTCGATGTTTGTATTTTAAACGA
1 GTGCATCGATGCACTACCTATGCATCGATGAATAAATGCCATTCGATGTTTGTATTTT-AA-GA
* * *
433659 GTGCATCGATGCACT-CCTTATGCATCGATGCATTAATGGCATTCGATGTTCAT-TA-TTTAAGA
1 GTGCATCGATGCACTACC-TATGCATCGATGAATAAATGCCATTCGATGTT--TGTATTTTAAGA
433721 GTGCATCG
1 GTGCATCG
433729 GTACAAATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
62 10 0.16
63 4 0.06
64 45 0.73
65 2 0.03
66 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (62 bp):
GTGCATCGATGCACTACCTATGCATCGATGAATAAATGCCATTCGATGTTTGTATTTTAAGA
Found at i:434902 original size:198 final size:198
Alignment explanation
Indices: 434564--434922 Score: 511
Period size: 198 Copynumber: 1.8 Consensus size: 198
434554 AAGAGCTAAT
434564 GAAATTGTTGAAATTTGTATCGATACGTTTATAACTATATGTACCAAAGTATCAGTAATGTAGGA
1 GAAATTGTTGAAATTTGTATCGATACGTTTATAACTATATGTACCAAAGTATCAGTAATGTAGGA
* * **
434629 ATTTAAAAAAATTACAATAATAGCGGCTATAAAGTATTGATACCTTACACACATGTATCGATACA
66 ATGTAAAAAAATTACAATAATAACGGCTATAAAGTATCAATACCTTACACACATGTATCGATACA
434694 TGACAATATAACATATTGAAATTTGACAAAATTGATTTTAATTTGAAAAAAAAGGTTAAAGATCT
131 TGACAATATAACATATTGAAATTTGACAAAATTGATTTTAATTTGAAAAAAAAGGTTAAAGATCT
434759 ATC
196 ATC
* * ** ** * *
434762 GAAATTGTTGAAATTTGTATCGATACGTTTATAAGTATGTGTACCCTAGTATTGGTACTTTAGGA
1 GAAATTGTTGAAATTTGTATCGATACGTTTATAACTATATGTACCAAAGTATCAGTAATGTAGGA
* ** * * * * *
434827 ATGTAAAAGAATTGTAATAATAATGGCTATAAAGTATCAATATCTTAGACACATGTATTGATACG
66 ATGTAAAAAAATTACAATAATAACGGCTATAAAGTATCAATACCTTACACACATGTATCGATACA
* * *
434892 TGACAATATAACATGTTTAAATTTGATAAAA
131 TGACAATATAACATATTGAAATTTGACAAAA
434923 CCGGTAAAGA
Statistics
Matches: 138, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
198 138 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (198 bp):
GAAATTGTTGAAATTTGTATCGATACGTTTATAACTATATGTACCAAAGTATCAGTAATGTAGGA
ATGTAAAAAAATTACAATAATAACGGCTATAAAGTATCAATACCTTACACACATGTATCGATACA
TGACAATATAACATATTGAAATTTGACAAAATTGATTTTAATTTGAAAAAAAAGGTTAAAGATCT
ATC
Found at i:435075 original size:177 final size:177
Alignment explanation
Indices: 434772--435099 Score: 476
Period size: 177 Copynumber: 1.9 Consensus size: 177
434762 GAAATTGTTG
** ** * *
434772 AAATTTGTATCGATACGTTTATAAGTATGTGTACCCTAGTATTGGTACTTTAGGAATGTAAAAGA
1 AAATTTGTATCGATACGTTTATAAGTATAAGTACCAAAGTATCGGTACTTTACGAATGTAAAAGA
* * * * *
434837 ATTGTAATAATAATGGCTATAAAGTATCAATATCTTAGACACATGTATTGATACGTGACAATATA
66 ATTGCAATAATAACGCCTATAAAGTATCAATATCTTAGACACATGTATCGATACATGACAATATA
* * *
434902 ACATGTTTAAATTTGATAAAACCGGTAAAGAGCTACCGGAATGGTCA
131 ACAGGTTGAAATTTGACAAAACCGGTAAAGAGCTACCGGAATGGTCA
* * *
434949 AAATTTGTATCGATACTTTTATAAGTATAAGTACTAAAGTATCGGTACTTTACGAATTTAAAAGA
1 AAATTTGTATCGATACGTTTATAAGTATAAGTACCAAAGTATCGGTACTTTACGAATGTAAAAGA
* *
435014 ATTGCAATAATAACGCCTATAAAGTATCGATATCTTAGACATATGTATCGATACATGACAATATA
66 ATTGCAATAATAACGCCTATAAAGTATCAATATCTTAGACACATGTATCGATACATGACAATATA
*
435079 ATAGGTTGAAATTTGACAAAA
131 ACAGGTTGAAATTTGACAAAA
435100 TCGTTTCAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
177 131 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (177 bp):
AAATTTGTATCGATACGTTTATAAGTATAAGTACCAAAGTATCGGTACTTTACGAATGTAAAAGA
ATTGCAATAATAACGCCTATAAAGTATCAATATCTTAGACACATGTATCGATACATGACAATATA
ACAGGTTGAAATTTGACAAAACCGGTAAAGAGCTACCGGAATGGTCA
Found at i:436096 original size:14 final size:15
Alignment explanation
Indices: 436058--436098 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
436048 GTTTTTTTGG
436058 TTCGGTTCGGGTTTT
1 TTCGGTTCGGGTTTT
436073 TTAACGGTTCGGG-TTT
1 TT--CGGTTCGGGTTTT
436089 TTCGGTTCGG
1 TTCGGTTCGG
436099 TTCGGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 5 0.21
17 9 0.38
ACGTcount: A:0.05, C:0.15, G:0.34, T:0.46
Consensus pattern (15 bp):
TTCGGTTCGGGTTTT
Found at i:436806 original size:142 final size:144
Alignment explanation
Indices: 436518--436831 Score: 461
Period size: 142 Copynumber: 2.2 Consensus size: 144
436508 AAGTAATGAT
* *
436518 ATTTGCACGCCAAATGTATCGATACATATTATTAAAGTATCAATATTTATAATTTTGAAAGAATG
1 ATTTGCACGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAGAATG
* * *
436583 TACGCAAAGTATGAAAATGTCCAAGTATCGATACTTCTTATGCCGATATGGATACTTTTATTGCA
66 TACGC-AAG-ATGAAAATGTCAAAGTATCGATACTTCTTATGCCGATATAGATACTTTTATTCCA
*
436648 ATATGTTTGTCAAACA
129 ATATATTTGTCAAACA
* * *
436664 ATTTGCACGCCAAATGTATCGATACACATTATTAAAGTATCTATATTTATTATTTCGAAATAATG
1 ATTTGCACGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAGAATG
* * *
436729 TACGC-A-ATGAAAATGTCAAAGTGTCGATACTTCTTATGCCGGTGTAGATACTTTTATTCCAAT
66 TACGCAAGATGAAAATGTCAAAGTATCGATACTTCTTATGCCGATATAGATACTTTTATTCCAAT
436792 ATATTTGTCAAACA
131 ATATTTGTCAAACA
* * *
436806 AATTGCACGCAAAATGTATTGATACA
1 ATTTGCACGCCAAATGTATCGATACA
436832 TGTAAAAAGT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
142 87 0.57
144 1 0.01
146 65 0.42
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (144 bp):
ATTTGCACGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAGAATG
TACGCAAGATGAAAATGTCAAAGTATCGATACTTCTTATGCCGATATAGATACTTTTATTCCAAT
ATATTTGTCAAACA
Found at i:437124 original size:198 final size:198
Alignment explanation
Indices: 436776--438058 Score: 1736
Period size: 198 Copynumber: 6.5 Consensus size: 198
436766 GCCGGTGTAG
* ** * * * * *
436776 ATACTTTTATTCCAATATATTTGTCAAACAAATTGCACGCAAAATGTATTGAT-ACATGTAAAAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATAACATATATAAA
* * * * *
436840 GTATCGATAATTGGAATTTCGAAATCTATTACTTTAAATTAATAGATAAATTAACAATGTAAACG
66 GTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
*
436905 GTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCAATACTCTTTATATAGGT
131 GTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACT-TTTATATAGGT
436970 ATGA
195 ATGA
* * *
436974 ATACTTCTATTCCATTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGAT-ACATGTATAAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATAACATATATAAA
* * * *
437038 ATATCGATACTTGGAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACA
66 GTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
* *
437103 GTAAAAGTCTACCGGTATAATGATAATAGGCGTAAATACCAAGTATTGATACTTTTATATAGGTA
131 GTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTA
437168 TTG-
196 -TGA
* ** *
437171 ATACTTTTATTCCAGTATACTTCTCAAACAATTTGCAAACAAAATATATCGATACACATATATAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATA-ACATATATAA
* * *
437236 AGTATCGATACTTCAAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGCAAAC
65 AGTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAAC
* * * *
437301 GGTAAAAGTCTACCGATATAATGATAATATGCGTAAATATCAAGTATCAATACGTTTATATAGGT
130 GGTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
437366 ATGA
195 ATGA
* * * * * * *
437370 ATATTTTTATTTCAGTATGTTTCTTAAACAATTTGCATGCAAAATGTATTGATACATATATATAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATA-ACATATATAA
* * * * *
437435 AATATCAATACTTGAAATTTCGAAACTTATTACTTTAAAGTAATAAGTAAATTAACAATAT-AAC
65 AGTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAAC
437499 GGTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
130 GGTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
437564 ATGA
195 ATGA
** * * *
437568 ATACTTTTATTTAAGTATGTTTCTCAAACAATTTGCACACAAAATATATCGATACACATATATAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATA-ACATATATAA
* * *
437633 AGTATCTATACTTGAAATTTCGAAACTTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAAT
65 AGTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAAC
* * *
437698 GGTAAAAGTCTA-TGGTATAATGATAATAGGCGTAAATACCAAGTATCGATAATTTTATATAGGT
130 GGTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
437762 ATGA
195 ATGA
* **
437766 ATACTTTTATTCTAGTATGCTTCTCAAACAATTTGCACATAAAATGTATCGATACACATATATAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATA-ACATATATAA
* * *
437831 AGCATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATAT-AAC
65 AGTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAAC
* * * *
437895 GGTAAAAGTCTATCGGTATATTGTTAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
130 GGTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGT
437960 ATCG-
195 AT-GA
* * ** * * * *
437964 ATACGTTTATTCCATTACACTTTTCAAATAATTTGCACGTAAAAGGTATCGATACACATATATAA
1 ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATA-ACATATATAA
* *
438029 AGTATCGATACTT-ATAAGTTCAAAACCTAT
65 AGTATCGATACTTGA-AATTTCGAAACCTAT
438059 AACAATGTAC
Statistics
Matches: 973, Mismatches: 104, Indels: 16
0.89 0.10 0.01
Matches are distributed among these distances:
197 73 0.08
198 650 0.67
199 250 0.26
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (198 bp):
ATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATAACATATATAAA
GTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACG
GTAAAAGTCTACCGATATAATGATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTA
TGA
Found at i:437585 original size:20 final size:20
Alignment explanation
Indices: 437548--437586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
437538 CCAAGTATCG
*
437548 ATACTTTTATATAGGTATGA
1 ATACTTTTATATAAGTATGA
*
437568 ATACTTTTATTTAAGTATG
1 ATACTTTTATATAAGTATG
437587 TTTCTCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
ATACTTTTATATAAGTATGA
Found at i:438299 original size:131 final size:130
Alignment explanation
Indices: 438062--438382 Score: 468
Period size: 131 Copynumber: 2.4 Consensus size: 130
438052 AACCTATAAC
* *
438062 AATGTACACGGTAAACATTTCTATCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCTATAC
1 AATGTACACGGTAAACATTTCTA-CCGTATAATGAAAATAGGTGTAAATGTCCAAGTATCTATAC
* *
438127 TCATATACAAAGTATCGATACTAATAATTTCGAAGCCTATTACTTTAAAATAATAGGTAAATTAA
65 TCATATACAAAATATCGATACTAATAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAA
438192 A
130 A
*
438193 AATGTACACGGTAAACGTTTCTACCGTTATAATGAAAATAGGTGTAAATGTCCAAGTATC-AGTA
1 AATGTACACGGTAAACATTTCTACCG-TATAATGAAAATAGGTGTAAATGTCCAAGTATCTA-TA
* *
438257 CTCATATATAAAATATCGATACGT-ATAATTTCGAAACTTATTACTTTAAAATAATAGGTAAATT
64 CTCATATACAAAATATCGATAC-TAATAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATT
*
438321 AAC
128 AAA
* * *
438324 AATATACACGGTAAACATTTCTACCAGTATAATAAAAATAGGCT-TAAATGTACAAGTAT
1 AATGTACACGGTAAACATTTCTACC-GTATAATGAAAATAGG-TGTAAATGTCCAAGTAT
438383 TGATACTATA
Statistics
Matches: 173, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
130 3 0.02
131 167 0.97
132 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (130 bp):
AATGTACACGGTAAACATTTCTACCGTATAATGAAAATAGGTGTAAATGTCCAAGTATCTATACT
CATATACAAAATATCGATACTAATAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAAA
Found at i:448512 original size:80 final size:80
Alignment explanation
Indices: 448379--448591 Score: 345
Period size: 80 Copynumber: 2.7 Consensus size: 80
448369 ATCCTTAGGG
* * * **
448379 CCATCAATAAGTCTTTCGAGCATGATGATTAAATCATTCGGAAAATTTGTAAGCCTTCATGGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGATAATTTGTAAGCCTTCACCGAAG
448444 AGTAGTGAAGCAAAC
66 AGTAGTGAAGCAAAC
*
448459 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGATAATTTGTAAGCCTTCACCGAAG
*
448524 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAC
* *
448539 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGATCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGATAATTTGTAAG
448592 TCTTTTGAGC
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 123 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGATAATTTGTAAGCCTTCACCGAAG
AGTAGTGAAGCAAAC
Found at i:449171 original size:53 final size:53
Alignment explanation
Indices: 448994--449223 Score: 302
Period size: 53 Copynumber: 4.4 Consensus size: 53
448984 ATAATCACAC
448994 CAGAAGATTGTTCGAGTTCTACTCCCTGAAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTG-AAGCAAGAGGGAGCGAACCCGTAGG
*
449048 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGA--GAGTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * ** *
449099 CGGAAGATTGTTCGAGTTCTACCCCCTGAACCTAGAGGGAGCGAACTTGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * ***
449152 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
449205 TAGAAGATTGTTCGAGTTC
1 CAGAAGATTGTTCGAGTTC
449224 CTTAATCCCT
Statistics
Matches: 151, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
51 46 0.30
53 77 0.51
54 28 0.19
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Done.