Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006025.1 Hibiscus syriacus cultivar Beakdansim tig00014218_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: 201090
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Found at i:2242 original size:19 final size:18
Alignment explanation
Indices: 2209--2247 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
2199 GTATGCATTG
2209 AGCTATGAACTTGAAAATA
1 AGCTATGAACTTG-AAATA
2228 AGCTATGAA-TCTGAAATA
1 AGCTATGAACT-TGAAATA
2246 AG
1 AG
2248 TTTTGAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (18 bp):
AGCTATGAACTTGAAATA
Found at i:2341 original size:12 final size:12
Alignment explanation
Indices: 2309--2367 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
2299 AAGTATGGAT
*
2309 TATGAAAATGAAA
1 TATGAAAGTG-AA
*
2322 TGTGAAAGTGAA
1 TATGAAAGTGAA
2334 TATGAAAGTGAA
1 TATGAAAGTGAA
* * *
2346 AAGGAAAATGAGA
1 TATGAAAGTGA-A
2359 TATGAAAGT
1 TATGAAAGT
2368 TTATATTGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
12 21 0.58
13 15 0.42
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (12 bp):
TATGAAAGTGAA
Found at i:2345 original size:25 final size:25
Alignment explanation
Indices: 2289--2367 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 25
2279 GAATGGGTTC
* *
2289 TGAAATGTGAAAGTATGGATTATGAAAA
1 TGAAATGTGAAAG--T-GAATATGAAAG
2317 TGAAATGTGAAAGTGAATATGAAAG
1 TGAAATGTGAAAGTGAATATGAAAG
* *
2342 TGAAAAG-GAAAATGAGATATGAAAG
1 TGAAATGTGAAAGTGA-ATATGAAAG
2367 T
1 T
2368 TTATATTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.15
25 25 0.54
26 1 0.02
28 13 0.28
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (25 bp):
TGAAATGTGAAAGTGAATATGAAAG
Found at i:2356 original size:18 final size:19
Alignment explanation
Indices: 2311--2367 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
2301 GTATGGATTA
2311 TGAAAATGAAATGTGAAAG
1 TGAAAATGAAATGTGAAAG
*
2330 TGAATATGAAA-GTGAAAAG
1 TGAAAATGAAATGTG-AAAG
* *
2349 -GAAAATGAGATATGAAAG
1 TGAAAATGAAATGTGAAAG
2367 T
1 T
2368 TTATATTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (19 bp):
TGAAAATGAAATGTGAAAG
Found at i:4967 original size:8 final size:8
Alignment explanation
Indices: 4951--5000 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
4941 TTTTTAAATC
4951 ATTATTTT
1 ATTATTTT
*
4959 ATTAGTTT
1 ATTATTTT
4967 ATTATTTT
1 ATTATTTT
4975 ATTATTTT
1 ATTATTTT
4983 -TCT-TTTT
1 AT-TATTTT
*
4990 TTTATTTT
1 ATTATTTT
4998 ATT
1 ATT
5001 TTGTTCTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 6 0.17
8 30 0.83
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (8 bp):
ATTATTTT
Found at i:5014 original size:23 final size:23
Alignment explanation
Indices: 4968--5014 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4958 TATTAGTTTA
* *
4968 TTATTTTATTATTTTTCTTTTTT
1 TTATTTTATTATTGTTCTTCTTT
4991 TTATTTTATT-TTGTTCTATCTTT
1 TTATTTTATTATTGTTCT-TCTTT
5014 T
1 T
5015 CAATTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (23 bp):
TTATTTTATTATTGTTCTTCTTT
Found at i:6472 original size:21 final size:21
Alignment explanation
Indices: 6445--6497 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6435 AGCAATATCA
*
6445 CAAGAAAAGTTGGTTACATCC
1 CAAGAAAAGTTAGTTACATCC
* * * *
6466 TAGGAAAAGCTAGTTGCATCC
1 CAAGAAAAGTTAGTTACATCC
6487 CAAGAAAAGTT
1 CAAGAAAAGTT
6498 CCAAAGTCGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
CAAGAAAAGTTAGTTACATCC
Found at i:7992 original size:10 final size:9
Alignment explanation
Indices: 7973--8002 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
7963 TTATTTTCAA
7973 TTTTATTTT
1 TTTTATTTT
7982 TTTTGATTTT
1 TTTT-ATTTT
7992 TTTTATTTT
1 TTTTATTTT
8001 TT
1 TT
8003 AGGTACGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTATTTT
Found at i:8292 original size:29 final size:29
Alignment explanation
Indices: 8173--8303 Score: 112
Period size: 29 Copynumber: 4.7 Consensus size: 29
8163 GAAATACACT
*
8173 GTTCGAACAGTGCAAAAAAAACTGACTTG
1 GTTCGAACAGTGCAGAAAAAACTGACTTG
*
8202 GTTCGAACAGTGCAGAAAAAACAGACTTG
1 GTTCGAACAGTGCAGAAAAAACTGACTTG
* * * *
8231 GATCGAACTGTGCTG--AAAA--G--TTC
1 GTTCGAACAGTGCAGAAAAAACTGACTTG
** *
8254 GAACAGAACAGTGCAGAAAAAACTGATTTG
1 GTTC-GAACAGTGCAGAAAAAACTGACTTG
* *
8284 GTTCGAACATTGAAGAAAAA
1 GTTCGAACAGTGCAGAAAAA
8304 TAAACAGTAG
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.06
24 9 0.11
25 1 0.01
26 4 0.05
27 4 0.05
28 1 0.01
29 53 0.65
30 4 0.05
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (29 bp):
GTTCGAACAGTGCAGAAAAAACTGACTTG
Found at i:19001 original size:830 final size:830
Alignment explanation
Indices: 17380--19037 Score: 2522
Period size: 830 Copynumber: 2.0 Consensus size: 830
17370 ATAGTCCACC
* * * *
17380 CGAGAGCTTTTTTGTGATGTGAAAAAACATTTAACAAACTACCCTCTTTCTCAGGAGTTAGACTA
1 CGAGAGATTTTTTATGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
* * * * *
17445 TAAGACATTATAACTGGTAAAGTATCATCACTACCTAGATAAGGATATTTTAAATGTGATGGCAA
66 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATGTGATAGAAA
17510 AGGTCTAAGGTCTAAGGTAGGTGCATGTTATAGTGAAGCTTTTAGAGGTATAAATTCATTAAAGT
131 AGGTCTAAGGTCTAAGGTAGGTGCATGTTATAGTGAAGCTTTTAGAGGTATAAATTCATTAAAGT
* *
17575 CAAGGGGTTTGAATCTCATACCTGGTTTATCTTGCAGTAAGCTTGATTGGTCCTCCTCCAATGGA
196 CAAGGGGTTTGAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGATTGGTCCTCCTCCAATGGA
* *
17640 CAGTCCTAGGTCTCCGCACTTGTTTAATCTTCAACAAATCTTTCATTTGCCTTAATCGAAAAAAA
261 CAGTCCTAGGTCTCCGCACTTGTTTAATCTTCAACAAATCTTTCATTTGCCTCAATCAAAAAAAA
* * * * *
17705 TTGCCTAGGCAAATATTTTTGTATGCCTTTTTCTAAAAAAATCGTCTGGGCCAAAATTATTGTGT
326 TTGCATAGGAAAATATTTTTGTATGCCTTTTCCTAAAAAAATCATCTAGGCCAAAATTATTGTGT
* *
17770 CCCTCTGACTATAAATATCACCATGGAGAAAAGTTTTACCCTCCTCTATATGAGAAATATTATCC
391 CCCTCTGACTATAAATATCACCATGGAGAAAACTGTTACCCTCCTCTATATGAGAAATATTATCC
* *
17835 TGGCACAGAGTATCATACTCATCCAGATGTAAAAATTTACCTTGGCCAATTTTTTTTGTTATATC
456 TGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTACCTTGGCCAATTTTTTCTGTTATATC
*
17900 TTCTTCATTTGGCTCCATGTCTCCAATGCAATGACATTCTTCAGAATCATCAACATATATAAGAG
521 TTCTTCATTTGGCTCCATGTCTCCAATGCAAGGACATTCTTCAGAATCATCAACATATATAAGAG
* *
17965 TGTTGAAAACATTGAGAGTGACGCTTTGATCAGGCACCCGCATTGTGAACTCTCCCTTCTCACAG
586 TATTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTCCCTTCTCACAG
* *
18030 TCTATTAGTATGTGCCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAAC
651 TCTATTAGGATGTACCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAAC
* * * * *
18095 CTCACATTCCAGAATGAGAAAATCTGCCTGAACGACAAACTTGTCCACTTTAATGATTACATCCT
716 CTCACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATTACATCCT
18160 CAATTCTGCCCTC-GAGACGAACATGTGATATGTCATCCAGTTACAAAACT
781 CAATTCTGCCCTCGGA-ACGAACATGTGATATGTCATCCAGTTACAAAACT
* * * * *
18210 CGAGAGATTTTTTATGCTGTGACAAAACATTCAACAAACTGCCCTCTTGCTCGGGGGTTAGACTA
1 CGAGAGATTTTTTATGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
*
18275 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAATCATATTTTAAATGTGATAGAAA
66 GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATGTGATAGAAA
* * * * *
18340 AGGTTTAAGGTCTAAGGTAGGTGTATGTTGTAGTGAAGGTTTTGGAGGTATAAATTCA-TAAAGT
131 AGGTCTAAGGTCTAAGGTAGGTGCATGTTATAGTGAAGCTTTTAGAGGTATAAATTCATTAAAGT
* *
18404 TAAGGGGTTTGAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGATTGTTCCTCCTCCAATGGA
196 CAAGGGGTTTGAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGATTGGTCCTCCTCCAATGGA
* * * * * * **
18469 TAGTTCTCGGTGTCCGCATTTGTTTTATCTTCAGTAAATCTTTCATTTGCCTCAATCAAAAAAAA
261 CAGTCCTAGGTCTCCGCACTTGTTTAATCTTCAACAAATCTTTCATTTGCCTCAATCAAAAAAAA
* *
18534 TTTGCATAGGAAAATATTTTT-TGATGTCTTTTCCTAAAAAAATCATCTAGGCTAAAATTATTGT
326 -TTGCATAGGAAAATATTTTTGT-ATGCCTTTTCCTAAAAAAATCATCTAGGCCAAAATTATTGT
* ** **
18598 GTCCCTCTGACTGTATAATATCGTCATGGAG-AAACTGTTATTCTCCTCTATATGAGAAATATTA
389 GTCCCTCTGACTATA-AATATCACCATGGAGAAAACTGTTACCCTCCTCTATATGAGAAATATTA
* *
18662 TCCTGGCACAGAGTATCATACTCGTCCAAATGTAAAAATTTA-TTCTGGCCAGA-TTTTTCTGTT
453 TCCTGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTACCT-TGGCCA-ATTTTTTCTGTT
* * * *
18725 ATATCTTCTTCATTTGGCTTCATGTCTCTAATGCAAGGACATTCTTCAGAATCTTCAACATATTT
516 ATATCTTCTTCATTTGGCTCCATGTCTCCAATGCAAGGACATTCTTCAGAATCATCAACATATAT
* * * * *
18790 AAGAGTATTGAAAACATTGATAGTGACTCTTTGATCAGCCACTCGTATTGTGAACTCTCCTTTCT
581 AAGAGTATTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTCCCTTCT
18855 CACAGTCTATTAGGATGTACCTC-GTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTC
646 CACAGTCTATTAGGATGTACC-CAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTC
* * *
18919 AT-ATACCTCACAGTCCAGAATGAGGAAATCTATCGGAAAGACAAACTTTTCCACTTTAACGATT
710 ATCA-ACCTCACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATT
18983 ACATCCTCAATTCTGCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAA
774 ACATCCTCAATTCTGCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAA
19038 TTACGACTGT
Statistics
Matches: 746, Mismatches: 74, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
829 125 0.17
830 604 0.81
831 17 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (830 bp):
CGAGAGATTTTTTATGATGTGAAAAAACATTCAACAAACTACCCTCTTGCTCAGGAGTTAGACTA
GAAGAAATTATAACTGGTAAAGTATCATCACTACCTAGATAAGCATATTTTAAATGTGATAGAAA
AGGTCTAAGGTCTAAGGTAGGTGCATGTTATAGTGAAGCTTTTAGAGGTATAAATTCATTAAAGT
CAAGGGGTTTGAATCTCATACCTGGTCTATCTTGCAGTAAGCTAGATTGGTCCTCCTCCAATGGA
CAGTCCTAGGTCTCCGCACTTGTTTAATCTTCAACAAATCTTTCATTTGCCTCAATCAAAAAAAA
TTGCATAGGAAAATATTTTTGTATGCCTTTTCCTAAAAAAATCATCTAGGCCAAAATTATTGTGT
CCCTCTGACTATAAATATCACCATGGAGAAAACTGTTACCCTCCTCTATATGAGAAATATTATCC
TGGCACAGAGTATCATACTCATCCAAATGTAAAAATTTACCTTGGCCAATTTTTTCTGTTATATC
TTCTTCATTTGGCTCCATGTCTCCAATGCAAGGACATTCTTCAGAATCATCAACATATATAAGAG
TATTGAAAACATTGAGAGTGACGCTTTGATCAGCCACCCGCATTGTGAACTCTCCCTTCTCACAG
TCTATTAGGATGTACCCAGTAGCTAAGAAGGGTCACCCAAGAATAATAGGTGCATTTTCATCAAC
CTCACAGTCCAGAATGAGAAAATCTACCGGAAAGACAAACTTGTCCACTTTAACGATTACATCCT
CAATTCTGCCCTCGGAACGAACATGTGATATGTCATCCAGTTACAAAACT
Found at i:25186 original size:18 final size:18
Alignment explanation
Indices: 25163--25224 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
25153 TTATCATGGC
25163 TTTGATATGATTATTATG
1 TTTGATATGATTATTATG
* *
25181 TTTGATATTGTTTATCATGG
1 TTTGATA-TGATTATTAT-G
*
25201 CTTTGATATGACTATTATG
1 -TTTGATATGATTATTATG
25220 TTTGA
1 TTTGA
25225 AATTGTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 8 0.22
21 7 0.19
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (18 bp):
TTTGATATGATTATTATG
Found at i:25187 original size:39 final size:39
Alignment explanation
Indices: 25128--25247 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
25118 GAAGTTATCA
* *
25128 ATATGACTATTGTGTATGATATTGTTTATCATGGCTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
*
25167 ATATGATTATTATGTTTGATATTGTTTATCATGGCTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
* * *
25206 ATATGACTATTATGTTTGAAATTGTTTTTCATGGTTTTG
1 ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
25245 ATA
1 ATA
25248 AAATCATGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (39 bp):
ATATGACTATTATGTTTGATATTGTTTATCATGGCTTTG
Found at i:29163 original size:2 final size:2
Alignment explanation
Indices: 29156--29186 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29146 TTAAACATTA
29156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29187 CACAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33855 original size:26 final size:26
Alignment explanation
Indices: 33826--33881 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
33816 TATGACGCGC
33826 AATGAGAGTCATAAATACGCGTCATA
1 AATGAGAGTCATAAATACGCGTCATA
* * * *
33852 AATGCGCGTCATAAATGCGTGTCATA
1 AATGAGAGTCATAAATACGCGTCATA
33878 AATG
1 AATG
33882 CGCATTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (26 bp):
AATGAGAGTCATAAATACGCGTCATA
Found at i:33882 original size:26 final size:26
Alignment explanation
Indices: 33833--33893 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
33823 CGCAATGAGA
33833 GTCATAAATACGCGTCATAAATGCGC
1 GTCATAAATACGCGTCATAAATGCGC
* *
33859 GTCATAAATGCGTGTCATAAATGCGC
1 GTCATAAATACGCGTCATAAATGCGC
* *
33885 ATTATAAAT
1 GTCATAAAT
33894 TTATGACGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (26 bp):
GTCATAAATACGCGTCATAAATGCGC
Found at i:33893 original size:13 final size:13
Alignment explanation
Indices: 33833--33884 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
33823 CGCAATGAGA
*
33833 GTCATAAATACGC
1 GTCATAAATGCGC
33846 GTCATAAATGCGC
1 GTCATAAATGCGC
*
33859 GTCATAAATGCGT
1 GTCATAAATGCGC
33872 GTCATAAATGCGC
1 GTCATAAATGCGC
33885 ATTATAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:37551 original size:22 final size:22
Alignment explanation
Indices: 37499--37551 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
37489 GTCAGATTTG
*
37499 ACCGTTGACCGGTCAGACCGTTG
1 ACCG-TGACCGGTCAGACCGTTA
** *
37522 ACTTTGACCGGTCATACCGTTA
1 ACCGTGACCGGTCAGACCGTTA
37544 ACCGTGAC
1 ACCGTGAC
37552 TTTGACTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (22 bp):
ACCGTGACCGGTCAGACCGTTA
Found at i:37905 original size:23 final size:23
Alignment explanation
Indices: 37879--37926 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
37869 TTATTCCGAA
37879 TATGACCCTGTTCTGATATGGCT
1 TATGACCCTGTTCTGATATGGCT
37902 TATGACCCTGTTCTGATATGGCT
1 TATGACCCTGTTCTGATATGGCT
37925 TA
1 TA
37927 GGTTCCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (23 bp):
TATGACCCTGTTCTGATATGGCT
Found at i:40297 original size:19 final size:17
Alignment explanation
Indices: 40273--40321 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
40263 AATCCAAAAG
40273 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
40292 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
40308 AATAAATTGAATTT
1 AATAAATTGAATTT
40322 AGAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:40686 original size:10 final size:10
Alignment explanation
Indices: 40671--40711 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
40661 CATCTTGACC
40671 CTCTTTTTTT
1 CTCTTTTTTT
40681 CTCTTTTTTT
1 CTCTTTTTTT
* *
40691 TTCTTTTTCT
1 CTCTTTTTTT
*
40701 CTTTTTTTTT
1 CTCTTTTTTT
40711 C
1 C
40712 ATTTCATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTCTTTTTTT
Found at i:40697 original size:18 final size:18
Alignment explanation
Indices: 40676--40711 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
40666 TGACCCTCTT
40676 TTTTTCTCTTTTTTTTTC
1 TTTTTCTCTTTTTTTTTC
40694 TTTTTCTCTTTTTTTTTC
1 TTTTTCTCTTTTTTTTTC
40712 ATTTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTCTTTTTTTTTC
Found at i:40723 original size:18 final size:18
Alignment explanation
Indices: 40678--40716 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
40668 ACCCTCTTTT
*
40678 TTTCTCTTTTTTTTTCTT
1 TTTCTCTTTTTTTTTCTA
40696 TTTCTCTTTTTTTTTC-A
1 TTTCTCTTTTTTTTTCTA
40713 TTTC
1 TTTC
40717 ATTTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTCTTTTTTTTTCTA
Found at i:48067 original size:15 final size:15
Alignment explanation
Indices: 48044--48075 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48034 TGCAATGAAT
48044 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
48059 AATGCATGTATGCAA
1 AATGAATGTATGCAA
48074 AA
1 AA
48076 GGTATTGATC
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:51038 original size:11 final size:11
Alignment explanation
Indices: 51021--51072 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
51011 GCTATTTTTT
51021 CAAAAAAAA-C
1 CAAAAAAAAGC
*
51031 CAAAAAAAAGG
1 CAAAAAAAAGC
51042 CAAAAAAAAGGC
1 CAAAAAAAA-GC
51054 ACAAAAAAAAGC
1 -CAAAAAAAAGC
51066 CAAAAAA
1 CAAAAAA
51073 GCCAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.24
11 16 0.43
12 3 0.08
13 9 0.24
ACGTcount: A:0.75, C:0.15, G:0.10, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAGC
Found at i:59194 original size:28 final size:29
Alignment explanation
Indices: 59141--59196 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
59131 ATATTAATAA
* *
59141 AATAATATATATATAAATACTATGAAAAT
1 AATAATATATATATAAAAAATATGAAAAT
59170 AATAAGTATATATA-AAAAAAT-TGAAAA
1 AATAA-TATATATATAAAAAATATGAAAA
59197 GAAAGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 10 0.42
30 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (29 bp):
AATAATATATATATAAAAAATATGAAAAT
Found at i:61398 original size:3 final size:3
Alignment explanation
Indices: 61392--61445 Score: 67
Period size: 3 Copynumber: 17.7 Consensus size: 3
61382 TAATATTTAT
61392 TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA T-A
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
61437 TAAA TAA TA
1 T-AA TAA TA
61446 TTCAAATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.09
3 35 0.76
4 7 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61417 original size:12 final size:12
Alignment explanation
Indices: 61393--61445 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
61383 AATATTTATT
61393 AATAATAA-AT-
1 AATAATAATATA
61403 AATAATAATA-A
1 AATAATAATATA
61414 TAATAATAATATA
1 -AATAATAATATA
61427 AATAATAATATA
1 AATAATAATATA
61439 AATAATA
1 AATAATA
61446 TTCAAATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.21
11 1 0.03
12 29 0.74
13 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATAATATA
Found at i:62074 original size:16 final size:16
Alignment explanation
Indices: 62049--62101 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
62039 AAATTTTTTA
62049 TTTCAATTACT-TAAC
1 TTTCAATTACTCTAAC
62064 TTTCAAATTACTCCTAA-
1 TTTC-AATTACT-CTAAC
*
62081 TTT-AATTGCTCTAAC
1 TTTCAATTACTCTAAC
62096 TTTCAA
1 TTTCAA
62102 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 4 0.12
15 13 0.41
16 9 0.28
17 3 0.09
18 3 0.09
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCAATTACTCTAAC
Found at i:63662 original size:82 final size:82
Alignment explanation
Indices: 63560--63723 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
63550 GGTGTGATCA
63560 CCCTAAAATTTATTGCTGTCCAACTGTTTATCTTAAAATTTTATTGGTGTCTATCCCATACAAAT
1 CCCTAAAATTTATTGCTGTCCAACTGTTTATCTTAAAATTTTATTGGTGTCTATCCCATACAAAT
63625 AAAAAATTATTATTAAT
66 AAAAAATTATTATTAAT
*
63642 CCCTAAAATTTATTGGTGTCCAACTGTTTATCTTAAAATTTTATTGGTGTCTATCCCATACAAAT
1 CCCTAAAATTTATTGCTGTCCAACTGTTTATCTTAAAATTTTATTGGTGTCTATCCCATACAAAT
63707 AAAAAATTATTATTAAT
66 AAAAAATTATTATTAAT
63724 ATATATGCGC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.41
Consensus pattern (82 bp):
CCCTAAAATTTATTGCTGTCCAACTGTTTATCTTAAAATTTTATTGGTGTCTATCCCATACAAAT
AAAAAATTATTATTAAT
Found at i:67390 original size:3 final size:3
Alignment explanation
Indices: 67382--67418 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
67372 AAATTTGTAT
*
67382 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
67419 TTTTTTGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 30 0.97
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:67457 original size:2 final size:2
Alignment explanation
Indices: 67450--67480 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
67440 GGGTGTCTAC
67450 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67481 TGATTAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:68365 original size:59 final size:59
Alignment explanation
Indices: 68302--68414 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
68292 CAAATGATCC
* *
68302 CTCAATTATAAG-ATGTTATTTTGTTTAGTCCCCTACTAATAAAAGTTACAAAATAGTAT
1 CTCAATTAT-AGTATGTTATTTTGTTGAGTCCCCGACTAATAAAAGTTACAAAATAGTAT
* * * *
68361 CTCAATTATAGTGTGTTGTTTTGTTGAGTCCCGGACTATTAAAAGTTACAAAAT
1 CTCAATTATAGTATGTTATTTTGTTGAGTCCCCGACTAATAAAAGTTACAAAAT
68415 GGTCACTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.04
59 45 0.96
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (59 bp):
CTCAATTATAGTATGTTATTTTGTTGAGTCCCCGACTAATAAAAGTTACAAAATAGTAT
Found at i:68593 original size:28 final size:28
Alignment explanation
Indices: 68549--68606 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
68539 CACCGTCATC
* *
68549 GTTTCAAGCACTGGCTCAATGACATAAT
1 GTTTCAAGCACTAGCTCAACGACATAAT
68577 GTTTCAAGCACTAGCTCAACGACATAAT
1 GTTTCAAGCACTAGCTCAACGACATAAT
68605 GT
1 GT
68607 AAACGGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (28 bp):
GTTTCAAGCACTAGCTCAACGACATAAT
Found at i:70062 original size:28 final size:28
Alignment explanation
Indices: 70026--70141 Score: 225
Period size: 28 Copynumber: 4.2 Consensus size: 28
70016 TATTATTTAT
70026 ATATTTTTACATATATCAATTTTATCAA
1 ATATTTTTACATATATCAATTTTATCAA
70054 ATATTTTTACATATATCAATTTTATCAA
1 ATATTTTTACATATATCAATTTTATCAA
70082 ATATTTTTACATATATCAA-TTTATCAA
1 ATATTTTTACATATATCAATTTTATCAA
70109 ATATTTTTACATATATCAATTTTATCAA
1 ATATTTTTACATATATCAATTTTATCAA
70137 ATATT
1 ATATT
70142 ATTGGACCAA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
27 27 0.31
28 60 0.69
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATTTTTACATATATCAATTTTATCAA
Found at i:70122 original size:55 final size:56
Alignment explanation
Indices: 70026--70141 Score: 225
Period size: 55 Copynumber: 2.1 Consensus size: 56
70016 TATTATTTAT
70026 ATATTTTTACATATATCAATTTTATCAAATATTTTTACATATATCAATTTTATCAA
1 ATATTTTTACATATATCAATTTTATCAAATATTTTTACATATATCAATTTTATCAA
70082 ATATTTTTACATATATCAA-TTTATCAAATATTTTTACATATATCAATTTTATCAA
1 ATATTTTTACATATATCAATTTTATCAAATATTTTTACATATATCAATTTTATCAA
70137 ATATT
1 ATATT
70142 ATTGGACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 41 0.68
56 19 0.32
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (56 bp):
ATATTTTTACATATATCAATTTTATCAAATATTTTTACATATATCAATTTTATCAA
Found at i:70326 original size:18 final size:17
Alignment explanation
Indices: 70243--70329 Score: 93
Period size: 18 Copynumber: 4.9 Consensus size: 17
70233 ATGTCAAGAC
*
70243 ATAAATTTTTAAAATAT
1 ATAAAATTTTAAAATAT
*
70260 ATAAATTTTTTTAAAATAT
1 ATAAA--ATTTTAAAATAT
*
70279 ATAAACTTTTAAAATAT
1 ATAAAATTTTAAAATAT
**
70296 ATAAAAAAATTAAAATAT
1 AT-AAAATTTTAAAATAT
70314 ATAACAATTTTAAAAT
1 ATAA-AATTTTAAAAT
70330 TTTAGAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
17 20 0.33
18 23 0.38
19 17 0.28
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAAATTTTAAAATAT
Found at i:73109 original size:2 final size:2
Alignment explanation
Indices: 73102--73139 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
73092 TAATAGTATG
73102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73140 CATACATGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73454 original size:87 final size:87
Alignment explanation
Indices: 73308--73476 Score: 302
Period size: 87 Copynumber: 1.9 Consensus size: 87
73298 TTTTTTCGCG
** *
73308 TGCTCGTTATAGTCACGGTAAGCCATTGACTTTTGTTTATTTCAATTTCTGTATGCGATTCTGAA
1 TGCTCGTTATAGTCACCATAAGCCATTGACTTTTGTTTATTTCAATTTCGGTATGCGATTCTGAA
73373 TACTTCCATTTTAGTCCTCGTA
66 TACTTCCATTTTAGTCCTCGTA
73395 TGCTCGTTATAGTCACCATAAGCCATTGACTTTTGTTTATTTCAATTTCGGTATGCGATTCTGAA
1 TGCTCGTTATAGTCACCATAAGCCATTGACTTTTGTTTATTTCAATTTCGGTATGCGATTCTGAA
*
73460 TGCTTCCATTTTAGTCC
66 TACTTCCATTTTAGTCC
73477 CCTTATTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (87 bp):
TGCTCGTTATAGTCACCATAAGCCATTGACTTTTGTTTATTTCAATTTCGGTATGCGATTCTGAA
TACTTCCATTTTAGTCCTCGTA
Found at i:75872 original size:47 final size:46
Alignment explanation
Indices: 75767--75875 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 46
75757 TAAATGTATA
* * * *
75767 CGAACTAGAAATCATGCGGTTAGGTTTATTTTCTCAAACAAGCATG
1 CGAATTAGATATCATGCGGTTAGGATTATTTTCTAAAACAAGCATG
*
75813 CGAATTAGATATCATGCGGTTAGGATT-TTTTGTGAATAACAAAGCATG
1 CGAATTAGATATCATGCGGTTAGGATTATTTTCT-AA-AAC-AAGCATG
75861 -GAGA-TAGATATCATG
1 CGA-ATTAGATATCATG
75876 TTGAGTAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
45 5 0.09
46 25 0.46
47 16 0.30
48 8 0.15
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (46 bp):
CGAATTAGATATCATGCGGTTAGGATTATTTTCTAAAACAAGCATG
Found at i:76283 original size:21 final size:21
Alignment explanation
Indices: 76263--76357 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
76253 CCATACCAAG
* *
76263 GACGAGAATACCATTCACAAG
1 GACGAGAAGACCATTCACAAA
* *
76284 GACGAGAATACCATTCATAAA
1 GACGAGAAGACCATTCACAAA
***
76305 GACGAGAAGACCATTTTTAAA
1 GACGAGAAGACCATTCACAAA
76326 GACGAGAAGACCATTCACAAA
1 GACGAGAAGACCATTCACAAA
76347 GAC-ATGAAGAC
1 GACGA-GAAGAC
76358 TATTTTGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 1 0.02
21 64 0.98
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCACAAA
Found at i:80169 original size:16 final size:18
Alignment explanation
Indices: 80141--80175 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
80131 CAATGGGATA
80141 AAAATGTATGAAG-AGTG
1 AAAATGTATGAAGTAGTG
80158 AAAATG-ATGAAGTAGTG
1 AAAATGTATGAAGTAGTG
80175 A
1 A
80176 CAGTGGAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.23
Consensus pattern (18 bp):
AAAATGTATGAAGTAGTG
Found at i:81045 original size:37 final size:37
Alignment explanation
Indices: 80995--81584 Score: 411
Period size: 37 Copynumber: 15.8 Consensus size: 37
80985 ATGAGACTGG
* *
80995 AGCAAATCAATCTTAAGCATTCACTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
*
81032 AGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* * * * * *
81069 ATCAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGT-C
1 AGCAAATCCATC-TTAAGCCTT-C-AC--TGAAGAGT-AGTGA
** ****
81111 CTCCGGGCCATCTTAAGCCTTCACTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
*
81148 AGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* * ** * *
81185 AGTAAATTCATCAGCAAGCCTTCCAAT-AATGA-T-GATTA
1 AGCAAATCCATC-TTAAGCCTT-CACTGAA-GAGTAG-TGA
****
81223 AGTCCTCCGGGCCATCTTAAGCCTTCACTGAAGAGTAGTGA
1 AG----CAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* *
81264 AGCAAATCAATCTTAAGCCTTCATTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* * * * **
81301 AGCAAATTCATCAGTAAGCCTTTCGACAATGATGATTAAGTCC
1 AGCAAATCCATC-TTAAGCC-TTC-AC--TGAAGAGT-AGTGA
** ** * *
81344 TCCGGA-CCATCTTAAGCCTTCACTAAAAAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* *
81380 AGCAAATTCATCTTATGCCTT--C---A-AGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
81411 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* * *
81448 AGC-GATCTATCCTAAGCCTTCACCTG-AGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCA-CTGAAGAGTAGTGA
* *
81484 AGC-AATCCATCTTAAGCCTTCACCGGAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* * *
81520 AGCAAA-CCATTTTAAGCCTTTACTGGAGAGTAGTGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
* *
81556 AGTAAA-CCATCTTAAGCCTTCACCGAAGA
1 AGCAAATCCATCTTAAGCCTTCACTGAAGA
81585 AATGGTGAAG
Statistics
Matches: 428, Mismatches: 91, Indels: 69
0.73 0.15 0.12
Matches are distributed among these distances:
31 27 0.06
32 1 0.00
33 1 0.00
35 3 0.01
36 118 0.28
37 162 0.38
38 28 0.07
39 13 0.03
40 12 0.03
41 28 0.07
42 27 0.06
43 8 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (37 bp):
AGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGA
Found at i:81208 original size:116 final size:116
Alignment explanation
Indices: 81004--81402 Score: 667
Period size: 116 Copynumber: 3.4 Consensus size: 116
80994 GAGCAAATCA
*
81004 ATCTTAAGCATTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
81069 A-TCAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
66 AGT-AAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
81120 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
* * *
81185 AGTAAATTCATCAGCAAGCCTTCCAATAATGATGATTAAGTCCTCCGGGCC
66 AGTAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
*
81236 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATTGAAGAGTAGTGA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
* * *
81301 AGCAAATTCATCAGTAAGCCTTTCGACAATGATGATTAAGTCCTCCGGACC
66 AGTAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
* * *
81352 ATCTTAAGCCTTCACTAAAAAGTAGTGAAGCAAATTC-ATCTTATGCCTTCA
1 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAA-TCAATCTTAAGCCTTCA
81403 AGTAGTGAAG
Statistics
Matches: 267, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
116 264 0.99
117 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (116 bp):
ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGA
AGTAAATTCATCAGTAAGCCTTCCGACAATGATGATTAAGTCCTCCGGGCC
Found at i:81409 original size:31 final size:31
Alignment explanation
Indices: 81371--81433 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
81361 CTTCACTAAA
* *
81371 AAGTAGTGAAGCAAATTCATCTTATGCCTTC
1 AAGTAGTGAAGCAAATCCATCTTAAGCCTTC
81402 AAGTAGTGAAGCAAATCCATCTTAAGCCTTC
1 AAGTAGTGAAGCAAATCCATCTTAAGCCTTC
81433 A
1 A
81434 CTGAAGAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGTAGTGAAGCAAATCCATCTTAAGCCTTC
Found at i:81503 original size:72 final size:72
Alignment explanation
Indices: 81234--81584 Score: 261
Period size: 72 Copynumber: 4.8 Consensus size: 72
81224 GTCCTCCGGG
* * * **
81234 CCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATTGAAGAGTAGT
1 CCATCCTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCCATCTTAAGCCTTCACCGAAGAGTAGT
81299 GAAGCAAA
65 GAAGCAAA
* * * **** * **
81307 TTCATCAGTAAGCCTTTCGACAAT-GATGATTAAGTCCTCCGGA-CCATCTTAAGCCTTCACTAA
1 -CCATC-CTAAGCC-TTC-AC--TGGA-GAGT-AGTGAAGC-AATCCATCTTAAGCCTTCACCGA
*
81370 AAAGTAGTGAAGCAAA
57 AGAGTAGTGAAGCAAA
* * * *
81386 TTCATCTTATGCCTT--C---A-AGTAGTGAAGCAAATCCATCTTAAGCCTTCACTGAAGAGTAG
1 -CCATCCTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCCATCTTAAGCCTTCACCGAAGAGTAG
* *
81445 TGAAGCGAT
64 TGAAGCAAA
* *
81454 CTATCCTAAGCCTTCACCT-GAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGGAGAGTAGT
1 CCATCCTAAGCCTTCA-CTGGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGT
81518 GAAGCAAA
65 GAAGCAAA
** * * *
81526 CCATTTTAAGCCTTTACTGGAGAGTAGTGAAGTAAACCATCTTAAGCCTTCACCGAAGA
1 CCATCCTAAGCCTTCACTGGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGA
81585 AATGGTGAAG
Statistics
Matches: 220, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
67 15 0.07
68 34 0.15
70 2 0.01
71 2 0.01
72 85 0.39
73 11 0.05
74 5 0.02
75 6 0.03
76 3 0.01
77 4 0.02
78 6 0.03
79 42 0.19
80 5 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (72 bp):
CCATCCTAAGCCTTCACTGGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGTG
AAGCAAA
Found at i:81572 original size:108 final size:105
Alignment explanation
Indices: 81349--81596 Score: 272
Period size: 108 Copynumber: 2.3 Consensus size: 105
81339 AGTCCTCCGG
* *
81349 ACCATCTTAAGCCTTCA-CTAAAAAGTAGTGAAGCAAATTCATCTTATGCCTTCAAGTAGTGAAG
1 ACCATCTTAAGCCTTCACCTAAAAAGTAGTGAAGCAAATCCATCTTAAGCCTTCAAGTAGTGAAG
*
81413 CAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCGA
66 CAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAA
* * * * *
81453 TCTATCCTAAGCCTTCACCT-GAGAGTAGTGAAGC-AATCCATCTTAAGCCTTCACCGGAGAGTA
1 ACCATCTTAAGCCTTCACCTAAAAAGTAGTGAAGCAAATCCATCTTAAGCCTT---C--A-AGTA
* * * *
81516 GTGAAGCAAA-CCATTTTAAGCCTTTACTGGAGAGTAGTGAAGTAA
60 GTGAAGCAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAA
* *
81561 ACCATCTTAAGCCTTCACCGAAGAAA-TGGTGAAGCA
1 ACCATCTTAAGCCTTCACCTAA-AAAGTAGTGAAGCA
81597 GAAGAAGATG
Statistics
Matches: 115, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
103 15 0.13
104 26 0.23
105 2 0.02
106 1 0.01
108 47 0.41
109 22 0.19
110 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (105 bp):
ACCATCTTAAGCCTTCACCTAAAAAGTAGTGAAGCAAATCCATCTTAAGCCTTCAAGTAGTGAAG
CAAATCCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAA
Found at i:81810 original size:56 final size:55
Alignment explanation
Indices: 81599--82197 Score: 687
Period size: 54 Copynumber: 10.9 Consensus size: 55
81589 GTGAAGCAGA
* * * *
81599 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAAAGGGAGCGAACCCGTCTT-C
1 AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGT-TTGC
* * * * ** *
81653 AGAAGATT-TTCGAGTTCCATACTCCCTAGAGAAAGGGGGAGCGAACCCATAAGA
1 AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
** * *
81707 AGAAGATTATTTTAGTTCCATACT-CCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGC
* * * * *
81762 AGAAGATTATTTGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCTGTTTAC
1 AGAAGATTATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGC
* *
81818 AGAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAGAGGGAGTGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGC
*
81874 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGC
* *
81930 AAAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCAGTTTGC
1 AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
* ** *
81985 AGAAGATTATTCGAGTTCTATACTCCCTATAGAAAGAGGGAGCGAACCCGTAAGA
1 AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
* * *
82040 AGAAGA-TGTTCGAGTT-TCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGA
1 AGAAGATTATTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
* * * * * *
82094 AGAAGA-TGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGA
1 AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
* * * *
82148 AGAAGA-TGTCCGAGTTCTATACTCCCTGAAA-AATG-GGGAGCAAACCCGTT
1 AGAAGATTATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTT
82198 AATCGAAGAT
Statistics
Matches: 490, Mismatches: 47, Indels: 17
0.88 0.08 0.03
Matches are distributed among these distances:
53 14 0.03
54 177 0.36
55 139 0.28
56 160 0.33
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (55 bp):
AGAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGC
Found at i:82452 original size:14 final size:14
Alignment explanation
Indices: 82433--82461 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
82423 TTTGTTCGGG
82433 ATATTATTATTATT
1 ATATTATTATTATT
82447 ATATTATTATTATT
1 ATATTATTATTATT
82461 A
1 A
82462 ATAATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:84093 original size:87 final size:87
Alignment explanation
Indices: 83947--84117 Score: 297
Period size: 87 Copynumber: 2.0 Consensus size: 87
83937 TTTTTTCGCG
*
83947 TGCTCGTTATAGTCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
1 TGCTCGTTATAATCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
84012 TACTTCCATTTTAGTCCCCGTA
66 TACTTCCATTTTAGTCCCCGTA
* * *
84034 TGCTCGTTATAATCACTGTAAGTCATTGACTTTTGTTTATTTCAATTTCGGTATGCGATTCTGAA
1 TGCTCGTTATAATCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
*
84099 TGCTTCCATTTTAGTCCCC
66 TACTTCCATTTTAGTCCCC
84118 TTATTTTTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (87 bp):
TGCTCGTTATAATCACCGTAAGCCATTGACTTTTGTTTATTTCAATTTCAGTATGCGATTCTGAA
TACTTCCATTTTAGTCCCCGTA
Found at i:89618 original size:3 final size:3
Alignment explanation
Indices: 89598--89664 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
89588 CTGTAATGTA
* * *
89598 AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89646 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
89665 TCGATATCGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:92936 original size:2 final size:2
Alignment explanation
Indices: 92929--92963 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92919 AGATTCAGTT
92929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92964 TTGAGGTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93238 original size:21 final size:20
Alignment explanation
Indices: 93209--93272 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
93199 AGAATTATGG
*
93209 TGCTAACGTAGCAGTTCACGA
1 TGCTGACGT-GCAGTTCACGA
**
93230 TGCTGACGTGGTGTTCCACGA
1 TGCTGACGTGCAGTT-CACGA
* *
93251 TGTTGACGTGACAGTCCACGA
1 TGCTGACGTG-CAGTTCACGA
93272 T
1 T
93273 AGTTGATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
20 4 0.12
21 28 0.82
22 2 0.06
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (20 bp):
TGCTGACGTGCAGTTCACGA
Found at i:94121 original size:15 final size:15
Alignment explanation
Indices: 94103--94131 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94093 TTTAAAAGTT
94103 AAAAAAAACAAAGAA
1 AAAAAAAACAAAGAA
94118 AAAAAAAACAAAGA
1 AAAAAAAACAAAGA
94132 CATAGTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAGAA
Found at i:96773 original size:7 final size:7
Alignment explanation
Indices: 96763--96796 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
96753 AAACTCTAAG
96763 TTAGAGT
1 TTAGAGT
96770 TTAGAGT
1 TTAGAGT
96777 TTAGAGT
1 TTAGAGT
96784 TTATGA-T
1 TTA-GAGT
96791 TTAGAG
1 TTAGAG
96797 GTTATGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TTAGAGT
Found at i:96782 original size:14 final size:14
Alignment explanation
Indices: 96763--96822 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
96753 AAACTCTAAG
96763 TTAGAGTTTA-GAGT
1 TTAGAGTTTATGA-T
96777 TTAGAGTTTATGAT
1 TTAGAGTTTATGAT
* *
96791 TTAGAGGTTATGAGA
1 TTAGAGTTTATGA-T
96806 TTATG-GTTTATGAT
1 TTA-GAGTTTATGAT
96820 TTA
1 TTA
96823 TAATGTAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 26 0.67
15 12 0.31
16 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (14 bp):
TTAGAGTTTATGAT
Found at i:97070 original size:19 final size:20
Alignment explanation
Indices: 97048--97088 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
97038 TTAAATAAAA
*
97048 AAATTAAATAACTT-AACTC
1 AAATTAAATAAATTCAACTC
*
97067 AAATTTAATAAATTCAACTC
1 AAATTAAATAAATTCAACTC
97087 AA
1 AA
97089 CTTGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATTAAATAAATTCAACTC
Found at i:97120 original size:14 final size:14
Alignment explanation
Indices: 97103--97137 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
97093 AAAAAATCAA
97103 ATAAAATTAGAATT
1 ATAAAATTAGAATT
*
97117 ATAAAATTGGAATT
1 ATAAAATTAGAATT
97131 ATAAAAT
1 ATAAAAT
97138 AAAATTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (14 bp):
ATAAAATTAGAATT
Found at i:97192 original size:56 final size:56
Alignment explanation
Indices: 97119--97279 Score: 268
Period size: 56 Copynumber: 2.9 Consensus size: 56
97109 TTAGAATTAT
97119 AAAATTGGAATTATAAAATAAAATTCATTTAAATTAAATAATTAAAAAATTCAAATA
1 AAAATT-GAATTATAAAATAAAATTCATTTAAATTAAATAATTAAAAAATTCAAATA
* *
97176 AAAATTGAATTATAAAATAAAATTCATTTAAATTTAATAATTCAAAAATTCAAATA
1 AAAATTGAATTATAAAATAAAATTCATTTAAATTAAATAATTAAAAAATTCAAATA
* * *
97232 AAATTTAAATTATAAAATAAAATTCATTTAAATTAAATAAATAAAAAA
1 AAAATTGAATTATAAAATAAAATTCATTTAAATTAAATAATTAAAAAA
97280 CATTTGGACT
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 91 0.94
57 6 0.06
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (56 bp):
AAAATTGAATTATAAAATAAAATTCATTTAAATTAAATAATTAAAAAATTCAAATA
Found at i:97283 original size:24 final size:23
Alignment explanation
Indices: 97234--97284 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
97224 TTCAAATAAA
* **
97234 ATTTAAATTATAAAATAAAATTC
1 ATTTAAATTAAAAAATAAAAAAC
97257 ATTTAAATTAAATAAATAAAAAAC
1 ATTTAAATTAAA-AAATAAAAAAC
97281 ATTT
1 ATTT
97285 GGACTCGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTTAAATTAAAAAATAAAAAAC
Found at i:104874 original size:20 final size:22
Alignment explanation
Indices: 104849--104906 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
104839 TCCCCTTTGA
104849 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
104869 AGTGCATCAATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
104892 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
104907 CTACTCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:104971 original size:64 final size:64
Alignment explanation
Indices: 104894--105055 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
104884 TCTTTAACAT
* *
104894 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * * ** *
104958 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
* *
105022 GTGCATCGATGCACTTC-CTTTGCATCGATACACA
1 GTGCATCGATGCACTACTC-ATGCATCGATACACA
105056 CTGAACAATT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 76 0.93
65 6 0.07
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:108819 original size:20 final size:20
Alignment explanation
Indices: 108794--108831 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108784 TCCCCTTTGA
108794 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
*
108814 AGTGCATCGATGTATTCT
1 AGTGCATCGATGCATTCT
108832 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:108971 original size:64 final size:64
Alignment explanation
Indices: 108838--108976 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
108828 TTCTTTAACA
* *
108838 TGTGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGG
1 TGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGG
* * * * * ** *
108902 GGTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAA-TG
1 TGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCA-TTTTAAGGG
108966 TGTGCATCGAT
1 TGTGCATCGAT
108977 ACACACTGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 57 0.90
65 6 0.10
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (64 bp):
TGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGG
Found at i:112559 original size:24 final size:24
Alignment explanation
Indices: 112530--112586 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
112520 TAAACATGTA
*
112530 TCATAT-TCCACATATTCAT-TATAT
1 TCATATAT-CACATATGCATAT-TAT
112554 TCATATATCACATATGCATATTAT
1 TCATATATCACATATGCATATTAT
112578 TCATTATAT
1 TCA-TATAT
112587 AAACATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.46
Consensus pattern (24 bp):
TCATATATCACATATGCATATTAT
Found at i:112930 original size:20 final size:22
Alignment explanation
Indices: 112905--112962 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
112895 TCCCGTTTGG
112905 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
112925 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
112948 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
112963 CTACTCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:113027 original size:63 final size:64
Alignment explanation
Indices: 112950--113086 Score: 170
Period size: 63 Copynumber: 2.2 Consensus size: 64
112940 TCTTTAACAT
* *
112950 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * * ** *
113014 GTGCATCGA-GCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
113077 GTGCATCGAT
1 GTGCATCGAT
113087 ACACACTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 47 0.76
64 15 0.24
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (64 bp):
GTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:117148 original size:19 final size:19
Alignment explanation
Indices: 117124--117175 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
117114 TTAAGGGGGG
117124 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
117143 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
117162 TGCATCGATGCACT
1 TGCATCGATGCACT
117176 AATTGCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:117187 original size:84 final size:83
Alignment explanation
Indices: 117067--117220 Score: 202
Period size: 84 Copynumber: 1.8 Consensus size: 83
117057 CATGTGCATC
* *
117067 TGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGGGGGTGCATCG
1 TGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTTAA--GGGGTGCATCA
117131 ATGCACTCCTTATGCATCGA
64 ATGCACTCCTTATGCATCGA
* * * * ** *
117151 TGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTCATTTTTAATGGGTGCATCAAT
1 TGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTTAAGGGGTGCATCAAT
117216 GCACT
66 GCACT
117221 TCCTGTGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
83 16 0.27
84 38 0.63
85 6 0.10
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (83 bp):
TGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTTAAGGGGTGCATCAAT
GCACTCCTTATGCATCGA
Found at i:121152 original size:20 final size:20
Alignment explanation
Indices: 121127--121164 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
121117 TCCCCTTTGA
121127 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
121147 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
121165 TTAACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:121181 original size:24 final size:20
Alignment explanation
Indices: 121129--121184 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
121119 CCCTTTGAAG
*
121129 TGCATCGATGCATTCTACAG
1 TGCATCGATGCATTCTACAA
121149 TGCATCGATGCATTCTTTAACATA
1 TGCATCGATGCATTC--T-ACA-A
121173 TGCATCGATGCA
1 TGCATCGATGCA
121185 CTACTCATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
TGCATCGATGCATTCTACAA
Found at i:121302 original size:64 final size:64
Alignment explanation
Indices: 121173--121314 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
121163 CTTTAACATA
* **
121173 TGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGGG
1 TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTCACATTTTAAGGGGG
* * * * ** *
121237 TGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTCACACTTTTAA-TGGG
1 TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTCACA-TTTTAAGGGGG
* *
121301 TGCTTTGATGCACT
1 TGCATCGATGCACT
121315 TCCTGTGTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 59 0.91
65 6 0.09
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (64 bp):
TGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTCACATTTTAAGGGGG
Found at i:125402 original size:64 final size:64
Alignment explanation
Indices: 125292--125450 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
125282 TTCTACAGTT
* * * * * *
125292 CATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTT--TTCATTTTAAGGGGGT
1 CATCGATGAACTTCTTATGCATCGATACACAAATCACATTCAATGTTCATAC-TTTTAA-GGGGT
125355 G
64 G
* * ** *
125356 CATCGATGGACTTCTTATGCATCGATACACTAATTGCATTCAATGTTCATACTTTTAATGGGTG
1 CATCGATGAACTTCTTATGCATCGATACACAAATCACATTCAATGTTCATACTTTTAAGGGGTG
* * *
125420 CATCGATGAACTTCCTGTGCATCAATACACA
1 CATCGATGAACTTCTTATGCATCGATACACA
125451 CTGAACAATT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
64 70 0.90
65 6 0.08
66 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (64 bp):
CATCGATGAACTTCTTATGCATCGATACACAAATCACATTCAATGTTCATACTTTTAAGGGGTG
Found at i:127309 original size:18 final size:18
Alignment explanation
Indices: 127286--127553 Score: 95
Period size: 18 Copynumber: 14.7 Consensus size: 18
127276 TATAATGAGA
127286 TTTTAGGTTGTAACTTAT
1 TTTTAGGTTGTAACTTAT
*
127304 TTTTAGGTTGTAAC-CAT
1 TTTTAGGTTGTAACTTAT
** * * *
127321 ATCATAGATAGTAACCTAT
1 -TTTTAGGTTGTAACTTAT
* * * *
127340 TTCTTAAGTTATAA-TGGAA
1 TT-TTAGGTTGTAACT-TAT
** *
127359 TTTTATATTGTAACCTAT
1 TTTTAGGTTGTAACTTAT
* * *
127377 TTTTAGGTTATAA-TGAGA
1 TTTTAGGTTGTAACTTA-T
* *
127395 TTTTAAGTTGTAACCTAT
1 TTTTAGGTTGTAACTTAT
* * *
127413 TTTTATGTTATAA-TGGGA-
1 TTTTAGGTTGTAACT--TAT
*
127431 TTTTAGGTTGTAACCTAT
1 TTTTAGGTTGTAACTTAT
* *
127449 TTTTAGGTTAT-A-TTGAGA
1 TTTTAGGTTGTAACTT-A-T
* *
127467 TTTTAGGTTGTAACATAC
1 TTTTAGGTTGTAACTTAT
* *
127485 TTTTAGGTTATAACTGGAT
1 TTTTAGGTTGTAACT-TAT
*
127504 TTTTGGGTTGTAACATT-T
1 TTTTAGGTTGTAAC-TTAT
*
127522 TTTTAGGTTATAA-TTGATT
1 TTTTAGGTTGTAACTT-A-T
127541 TTTTAGGTTGTAA
1 TTTTAGGTTGTAA
127554 ACCTGATTGT
Statistics
Matches: 174, Mismatches: 56, Indels: 39
0.65 0.21 0.14
Matches are distributed among these distances:
16 3 0.02
17 6 0.03
18 122 0.70
19 41 0.24
20 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (18 bp):
TTTTAGGTTGTAACTTAT
Found at i:127370 original size:73 final size:72
Alignment explanation
Indices: 127182--127534 Score: 262
Period size: 73 Copynumber: 4.8 Consensus size: 72
127172 ATTTTAGGTT
* * * ***
127182 GTAACTTATTTTTTAAGTTATAAT-GAGATTTAAGATTGTAACCTATTTTTCAGGTTATAATGGG
1 GTAACCTA-TTTTTAAGTTATAATGGA-ATTTTAGGTTGTAACCTATTTTT-AGGTTATAACCAG
** * *
127246 ATTTTAGGTT
63 ATCATAAGTA
* * *
127256 GTAACCTATTTTTTCAAAATTATAAT-GAGATTTTAGGTTGTAACTTATTTTTAGGTTGTAACCA
1 GTAACCTA-TTTTT--AAGTTATAATGGA-ATTTTAGGTTGTAACCTATTTTTAGGTTATAACCA
*
127320 TATCAT-AGATA
62 GATCATAAG-TA
** **
127331 GTAACCTATTTCTTAAGTTATAATGGAATTTTATATTGTAACCTATTTTTAGGTTATAATGAGAT
1 GTAACCTATTT-TTAAGTTATAATGGAATTTTAGGTTGTAACCTATTTTTAGGTTATAACCAGAT
** *
127396 TTTAAGTT
65 CATAAGTA
* * *** *
127404 GTAACCTATTTTTATGTTATAATGGGATTTTAGGTTGTAACCTATTTTTAGGTTATATTGAGATT
1 GTAACCTATTTTTAAGTTATAATGGAATTTTAGGTTGTAACCTATTTTTAGGTTATAACCAGATC
* * *
127469 TTAGGTT
66 ATAAGTA
* * * * * * *
127476 GTAACATACTTTTAGGTTATAACTGGATTTTTGGGTTGTAACATTTTTTTAGGTTATAA
1 GTAACCTATTTTTAAGTTATAA-TGGAATTTTAGGTTGTAACCTATTTTTAGGTTATAA
127535 TTGATTTTTT
Statistics
Matches: 232, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
72 74 0.32
73 83 0.36
74 21 0.09
75 22 0.09
76 32 0.14
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (72 bp):
GTAACCTATTTTTAAGTTATAATGGAATTTTAGGTTGTAACCTATTTTTAGGTTATAACCAGATC
ATAAGTA
Found at i:127398 original size:36 final size:36
Alignment explanation
Indices: 127152--127553 Score: 412
Period size: 36 Copynumber: 10.9 Consensus size: 36
127142 TTAGGCAACA
* * *
127152 TATTTTTAGGTTACAATGGGATTTTAGGTTGTAACT
1 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
* * *
127188 TATTTTTTAAGTTATAATGAGATTTAAGATTGTAACC
1 TA-TTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
*
127225 TATTTTTCAGGTTATAATGGGATTTTAGGTTGTAACC
1 TATTTTT-AGGTTATAATGAGATTTTAGGTTGTAACC
** *
127262 TATTTTTTCAAAATTATAATGAGATTTTAGGTTGTAACT
1 TA-TTTTT--AGGTTATAATGAGATTTTAGGTTGTAACC
* ** * ** * *
127301 TATTTTTAGGTTGTAACCATATCATAGATAGTAACC
1 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
* **
127337 TATTTCTTAAGTTATAATG-GAATTTTATATTGTAACC
1 TATTT-TTAGGTTATAATGAG-ATTTTAGGTTGTAACC
*
127374 TATTTTTAGGTTATAATGAGATTTTAAGTTGTAACC
1 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
* *
127410 TATTTTTATGTTATAATGGGATTTTAGGTTGTAACC
1 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
* *
127446 TATTTTTAGGTTATATTGAGATTTTAGGTTGTAACA
1 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
* * *
127482 TACTTTTAGGTTATAACTG-GATTTTTGGGTTGTAACA
1 TATTTTTAGGTTATAA-TGAGA-TTTTAGGTTGTAACC
* **
127519 TTTTTTTAGGTTATAATTGATTTTTTAGGTTGTAA
1 TATTTTTAGGTTATAA-TGAGATTTTAGGTTGTAA
127554 ACCTGATTGT
Statistics
Matches: 302, Mismatches: 54, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
36 137 0.45
37 128 0.42
38 10 0.03
39 27 0.09
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (36 bp):
TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
Found at i:127588 original size:31 final size:31
Alignment explanation
Indices: 127545--127604 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
127535 TTGATTTTTT
*
127545 AGGTTGTAAACCTGATTGTAGGTTGGAAACC
1 AGGTTGTAAACCTGATTGTAAGTTGGAAACC
*
127576 AGGTT-TACAACCTGTTTGTAAGTTGGAAA
1 AGGTTGTA-AACCTGATTGTAAGTTGGAAA
127605 TATGTGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.32
Consensus pattern (31 bp):
AGGTTGTAAACCTGATTGTAAGTTGGAAACC
Found at i:128481 original size:36 final size:36
Alignment explanation
Indices: 128414--128541 Score: 154
Period size: 36 Copynumber: 3.6 Consensus size: 36
128404 ATATTGATGT
* *
128414 TTATAAGCATGATATACACTCG-T-TGGTTACTGATGT-
1 TTATAAGCATGATATACA-T-GTTCTTGCTACTGAT-TA
128450 TTATAAGCATGATATACATGTTCTTGCTACTGATTA
1 TTATAAGCATGATATACATGTTCTTGCTACTGATTA
* *
128486 TTATGAGCATGATATACATGTTCTTGCTATTGATTA
1 TTATAAGCATGATATACATGTTCTTGCTACTGATTA
* *
128522 TTATGAGCATGATACACATG
1 TTATAAGCATGATATACATG
128542 CACCAGTTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
34 1 0.01
35 3 0.04
36 80 0.95
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (36 bp):
TTATAAGCATGATATACATGTTCTTGCTACTGATTA
Found at i:128561 original size:36 final size:36
Alignment explanation
Indices: 128475--128561 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
128465 ACATGTTCTT
* * ** **
128475 GCTACTGATTATTATGAGCATGATATACATGTTCTT
1 GCTAATGATTATTATGAGCATGATACACATGCACCA
*
128511 GCTATTGATTATTATGAGCATGATACACATGCACCA
1 GCTAATGATTATTATGAGCATGATACACATGCACCA
* *
128547 GTTAATGATGATTAT
1 GCTAATGATTATTAT
128562 ATACATGTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (36 bp):
GCTAATGATTATTATGAGCATGATACACATGCACCA
Found at i:129998 original size:26 final size:26
Alignment explanation
Indices: 129946--130003 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
129936 GAGTCATTAC
* *
129946 CCGCCCCGCATCCGTCTCGCATCCAT
1 CCGCCCCACATCCGTCTCGCACCCAT
*
129972 CCGCCCCACATCCGTC-CGCCCCGCAT
1 CCGCCCCACATCCGTCTCGCACC-CAT
129998 CCGCCC
1 CCGCCC
130004 GTCTAGCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.10, C:0.60, G:0.16, T:0.14
Consensus pattern (26 bp):
CCGCCCCACATCCGTCTCGCACCCAT
Found at i:130000 original size:15 final size:15
Alignment explanation
Indices: 129963--130000 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
129953 GCATCCGTCT
*
129963 CGCATCCATCCGCCC
1 CGCATCCGTCCGCCC
*
129978 CACATCCGTCCGCCC
1 CGCATCCGTCCGCCC
129993 CGCATCCG
1 CGCATCCG
130001 CCCGTCTAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.13, C:0.58, G:0.16, T:0.13
Consensus pattern (15 bp):
CGCATCCGTCCGCCC
Found at i:133143 original size:59 final size:59
Alignment explanation
Indices: 133049--133185 Score: 197
Period size: 59 Copynumber: 2.3 Consensus size: 59
133039 ATACGCACCG
* * * *
133049 TAGTGCTAA-CCCGAGTATGACACATAAGGTTGTGCCCAGCATCTACACTAGTTATACTT
1 TAGTGC-AATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGTTATACTT
*
133108 TAGTG-AAGTCCCGAATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATACTT
1 TAGTGCAA-TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGTTATACTT
133167 TAGTGCAATCCCGAATATG
1 TAGTGCAATCCCGAATATG
133186 CAGTTTGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
57 2 0.03
59 66 0.94
60 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (59 bp):
TAGTGCAATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGTTATACTT
Found at i:136137 original size:18 final size:18
Alignment explanation
Indices: 136059--136138 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
136049 GTTACAAACT
136059 TATTTTTAGGTTGTAA--
1 TATTTTTAGGTTGTAACC
*
136075 TAATATTTAAGGTTGTAACC
1 T-AT-TTTTAGGTTGTAACC
* * **
136095 TAATTTTAGGTTATAATG
1 TATTTTTAGGTTGTAACC
***
136113 GGGTTTTAGGTTGTAACC
1 TATTTTTAGGTTGTAACC
136131 TATTTTTA
1 TATTTTTA
136139 AAGTTATAAT
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
16 1 0.02
17 2 0.04
18 40 0.89
19 1 0.02
20 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (18 bp):
TATTTTTAGGTTGTAACC
Found at i:136157 original size:37 final size:36
Alignment explanation
Indices: 136059--136314 Score: 291
Period size: 37 Copynumber: 7.0 Consensus size: 36
136049 GTTACAAACT
* *** *
136059 TATTTTTAGGTTGTAATAATATTTAAGGTTGTAACC
1 TATTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
* *
136095 TAATTTTAGGTTATAATGGGGTTTTAGGTTGTAACC
1 TATTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
* **
136131 TATTTTTAAAGTTATAATGGGATTTTATTTTGTAA-C
1 TATTTTT-AGGTTATAATGGGATTTTAGGTTGTAACC
* *
136167 TATTTTTTTTATGTTATGATGGGATTTTA-GTTGTAACC
1 TA---TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
*
136205 TATTTTTAGGTTATAATGAGATTTTAGGTTGTAACC
1 TATTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
* * * *
136241 TATTTCATAAGTTATAATAGAATTTTAGGTTGTAACC
1 TATTT-TTAGGTTATAATGGGATTTTAGGTTGTAACC
136278 TATTTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
1 TA-TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
136315 ATGTTTATAA
Statistics
Matches: 185, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
35 21 0.11
36 52 0.28
37 84 0.45
38 23 0.12
39 5 0.03
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.48
Consensus pattern (36 bp):
TATTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
Found at i:136212 original size:110 final size:110
Alignment explanation
Indices: 136061--136314 Score: 325
Period size: 110 Copynumber: 2.3 Consensus size: 110
136051 TACAAACTTA
* *** * * *
136061 TTTTTAGGTTGTAATAATATTTAAGGTTGTAACCTAATTTTAGGTTATAATGGGGTTTTAGGTTG
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCTAATTTTAGGTTATAATGAGATTTTAGGTTG
* * * **
136126 TAACCTATTT-TTAAAGTTATAATGGGATTTTATTTTGTAA-CTATTT
66 TAACCTATTTCAT-AAGTTATAATAGAATTTTAGGTTGTAACCTA--T
* * *
136172 TTTTTATGTTATGATGGGATTTTA-GTTGTAACCTATTTTTAGGTTATAATGAGATTTTAGGTTG
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCTAATTTTAGGTTATAATGAGATTTTAGGTTG
136236 TAACCTATTTCATAAGTTATAATAGAATTTTAGGTTGTAACCTAT
66 TAACCTATTTCATAAGTTATAATAGAATTTTAGGTTGTAACCTAT
136281 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC
136315 ATGTTTATAA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
109 23 0.19
110 79 0.64
111 21 0.17
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.48
Consensus pattern (110 bp):
TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCTAATTTTAGGTTATAATGAGATTTTAGGTTG
TAACCTATTTCATAAGTTATAATAGAATTTTAGGTTGTAACCTAT
Found at i:136231 original size:18 final size:17
Alignment explanation
Indices: 136208--136308 Score: 58
Period size: 18 Copynumber: 5.5 Consensus size: 17
136198 TGTAACCTAT
136208 TTTTAGGTTATAATGAGA
1 TTTTAGGTTATAAT-AGA
* ***
136226 TTTTAGGTTGTAACCTA
1 TTTTAGGTTATAATAGA
*
136243 TTTCATAAGTTATAATAGAA
1 TTT--TAGGTTATAATAG-A
* **
136263 TTTTAGGTTGTAACCTATT
1 TTTTAGGTTATAA--TAGA
*
136282 TTTTAGGTTATAATGGGA
1 TTTTAGGTTATAAT-AGA
136300 TTTTAGGTT
1 TTTTAGGTT
136309 GTAACCATGT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
17 5 0.08
18 29 0.48
19 20 0.33
20 6 0.10
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (17 bp):
TTTTAGGTTATAATAGA
Found at i:136325 original size:74 final size:73
Alignment explanation
Indices: 136061--136325 Score: 266
Period size: 73 Copynumber: 3.6 Consensus size: 73
136051 TACAAACTTA
* *** * * * * **
136061 TTTTTAGGTTGTAATAATATTTAAGGTTGTAACCTAATTT-TAGGTTATAATGGGGTTTTAGGTT
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC-ATTTTATAAGTTATAATAGAATTTTAGGTT
136125 GTAACCTAT
65 GTAACCTAT
* * ** * * * * * *
136134 TTTTAAAGTTATAATGGGATTTTATTTTGTAACTATTTTTTTTATGTTATGATGGGATTTTA-GT
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCA--TTTTATAAGTTATAATAGAATTTTAGGT
136198 TGTAACCTA-
64 TGTAACCTAT
* *
136207 TTTTTAGGTTATAATGAGATTTTAGGTTGTAACCTATTTCATAAGTTATAATAGAATTTTAGGTT
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACC-ATTTTATAAGTTATAATAGAATTTTAGGTT
136272 GTAACCTAT
65 GTAACCTAT
136281 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCATGTTTATAAG
1 TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCAT-TTTATAAG
136326 CATGATATAC
Statistics
Matches: 157, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
72 20 0.13
73 65 0.41
74 55 0.35
75 17 0.11
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.48
Consensus pattern (73 bp):
TTTTTAGGTTATAATGGGATTTTAGGTTGTAACCATTTTATAAGTTATAATAGAATTTTAGGTTG
TAACCTAT
Found at i:136394 original size:36 final size:35
Alignment explanation
Indices: 136319--136402 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
136309 GTAACCATGT
** * * *
136319 TTATAAGCATGATATACATGTTCTTGCTATTGATTA
1 TTAT-AGCATGATATACATGTAATTGCTACTAATAA
136355 TTATCAGCATGATATACATGTAATTGCTACTAATAA
1 TTAT-AGCATGATATACATGTAATTGCTACTAATAA
136391 TTATATGCATGA
1 TTATA-GCATGA
136403 CACACATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 1 0.02
36 40 0.98
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (35 bp):
TTATAGCATGATATACATGTAATTGCTACTAATAA
Found at i:136646 original size:23 final size:23
Alignment explanation
Indices: 136612--136685 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
136602 CCAAAATTGG
* *
136612 GCCCAGTCACAAGTAAACCCGGA
1 GCCCAGTTACAAGCAAACCCGGA
* **
136635 GCCCAGTTACAAACAAACCCATA
1 GCCCAGTTACAAGCAAACCCGGA
* * *
136658 GCCTAATTACAAGCAAACCTGGA
1 GCCCAGTTACAAGCAAACCCGGA
136681 GCCCA
1 GCCCA
136686 TCTTGGAGCC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.12
Consensus pattern (23 bp):
GCCCAGTTACAAGCAAACCCGGA
Found at i:138016 original size:28 final size:27
Alignment explanation
Indices: 137947--138029 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
137937 AAATATATTT
**
137947 TTTTATTTATTTTAATTCGGCCATACA-A
1 TTTTATTTATTTTAATTTAGCC-T-CATA
*
137975 TTTTAATCTATTTTAATTTAGCCTCATA
1 TTTT-ATTTATTTTAATTTAGCCTCATA
*
138003 TTTTATTTATTTTTATTTTAG-CTCATA
1 TTTTATTTA-TTTTAATTTAGCCTCATA
138030 ATATTGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
27 12 0.26
28 20 0.43
29 15 0.32
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTATTTATTTTAATTTAGCCTCATA
Found at i:143339 original size:2 final size:2
Alignment explanation
Indices: 143328--143392 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
143318 TAAAGGCAAT
143328 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143369 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
143393 AAGCTGAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:145344 original size:134 final size:133
Alignment explanation
Indices: 145056--146496 Score: 1632
Period size: 134 Copynumber: 10.8 Consensus size: 133
145046 TTTAATTTGC
* *
145056 AGATTTGATATTCCCTGAGTGACAGGGGAACAAGTCTGCCCCGATTCAATCTTTCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * * * * *
145121 ACGAAAAT-GATCAACTCCCCAGATCTGATATTCCCTTCATAAGAAGTGTG-ACATATCTCTCTC
66 GC-AGAATGGATCAACTCCCCAGATATGATATTCCCTTCAGAAGAAGCG-GAACATATCCCTCTC
*
145184 ATTCA
129 TTTCA
* * * *
145189 AGATTTAATATTCCCTAAGTGACAGCGCAACAAGTCTGCCCCGATTCAATCTTCTCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* *
145254 GCAGAATGGATCAACTCTCCCATATATGATATTCCCTTCAAAAGAAGCGGAACATATCCCTCTCT
66 GCAGAATGGATCAACTC-CCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCT
145319 TTCA
130 TTCA
* ** * ** *
145323 AGATTTGATATTCCCTGAGTGACAACAAAATAAGTCTTTCCCGATTCAATCTTCCCTGTGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * * * * * *
145388 GCAGAGTGGATCAACTTACCAAAATATGATATTCTCTTCAGAAGAAGCGGAACAAATCCCCCTCT
66 GCAGAATGGATCAAC-TCCCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCT
145453 TTCA
130 TTCA
* * * **
145457 AGATTTCATATTCCTTGAGTGATAGCGGAACAAGTCTGCCCTAATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * *
145522 GCGGAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGAAGAAGCGGGACAAAT--CTCTCT
66 GCAGAATGGATCAACT-CCCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCT
145585 TTCA
130 TTCA
* * *
145589 AGATTTGATATTCCCTGAGTGACAGCGGAATAACTCTG-CCTGATTCAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * * * *
145653 GCAGAATAGG-TCAACTCCCCATATCTTA-ATTCCCTTCAGAAGAAGCGGAACATATCCATTTCT
66 GCAGAAT-GGATCAACTCCCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCT
145716 TTCA
130 TTCA
* * * * * *
145720 AGAATTGATATTCCTTGAGTGACAGGGGAACAAGTCTTCCCCGATTCAATCTTCTCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * * * * *
145785 GCGGAATGGATCAACTCACCCAGATCTAATATTCTCTTCAGAAGAAGTGGAACAAATCCCTCTCT
66 GCAGAATGGATCAACTC-CCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCT
145850 TTCA
130 TTCA
* * * * * *
145854 AGATTTGATATTCTCTGAGTGACAGTGGAATAAGTCTTCCTCGATTGAATCTTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * *
145919 GCGGAATGGATCGACTCCCCCA-A-ACTCGATATTCCCTTCAGAAGAAGCAGAACATATCCCTCT
66 GCAGAATGGATCAACT-CCCCAGATA-T-GATATTCCCTTCAGAAGAAGCGGAACATATCCCTCT
*
145982 ATTTCA
128 CTTTCA
* *
145988 AGATTTGATATTCCCTGAGTGACAGCGGAGCAAGTCTGCCCCGATTCAATCTTCCCTGAGTGATA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
** * * * *
146053 GTGGAATGGATCAACTCCCCTAGATCTGATATTCCCTTCAGAAAAAGCGGAATATATATCCATCT
66 GCAGAATGGATCAACTCCCC-AGATATGATATTCCCTTCAGAAGAAGCGG-A-ACATATCCCTCT
146118 CTTTCA
128 CTTTCA
* * * *
146124 AGATTTGATATTCCTTGAGTAACAGCGGAACAAGTCTGCCCTGATTCAATATTCCCTGAGTGACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
* * * * **
146189 --ATGAAATGGATCAATATCCCCAGATCTTATATTTCC-TCTAGAAGAAGCAAAACATATCCCTC
66 GCA-G-AATGGATCAA-CTCCCCAGATATGATATTCCCTTC-AGAAGAAGCGGAACATATCCCTC
*
146251 TCTTCCA
127 TCTTTCA
** * *
146258 AGATTTGATATTTTCCCTGAGTGACAGAAGAACAAGTATGCCCCAATTCAATCTTCCCTGAGTGA
1 AGATTTGATA--TTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGA
* * * * * * *
146323 TAGCAGAATGGATCAACATCCCTAAATCT-ATTATTCCCCTCTAGAATAAGCGAAACATATCCCT
64 CAGCAGAATGGATCAAC-TCCCCAGATATGA-TATTCCCTTC-AGAAGAAGCGGAACATATCCCT
146387 CTCTTTCA
126 CTCTTTCA
* * * ** * *
146395 AGATTTGATATTCCCTAAGTAACAGCGAAACAAGTCTATCTCGATTCAATCTTCCCTGAGTAACA
1 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
146460 GC-GAAATGGATCAACATCCCCAGATATGATATTCCCT
66 GCAG-AATGGATCAAC-TCCCCAGATATGATATTCCCT
146497 GAGTGACAGC
Statistics
Matches: 1111, Mismatches: 164, Indels: 64
0.83 0.12 0.05
Matches are distributed among these distances:
129 25 0.02
130 9 0.01
131 79 0.07
132 84 0.08
133 86 0.08
134 522 0.47
135 82 0.07
136 177 0.16
137 46 0.04
138 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (133 bp):
AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTGACA
GCAGAATGGATCAACTCCCCAGATATGATATTCCCTTCAGAAGAAGCGGAACATATCCCTCTCTT
TCA
Found at i:146665 original size:6 final size:6
Alignment explanation
Indices: 146656--146703 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
146646 CGATATTACC
* *
146656 ATTAAT ATTAAT ATTAAT ATTATT ATT-AT ATT-A- ATTAAT ATTATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
146701 ATT
1 ATT
146704 TTATTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 3 0.08
5 6 0.16
6 28 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTAAT
Found at i:146692 original size:21 final size:21
Alignment explanation
Indices: 146668--146708 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
146658 TAATATTAAT
146668 ATTAATATTATTATTATATTA
1 ATTAATATTATTATTATATTA
*
146689 ATTAATATTATTATTTTATT
1 ATTAATATTATTATTATATT
146709 TTTCAGATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTAATATTATTATTATATTA
Found at i:146805 original size:23 final size:23
Alignment explanation
Indices: 146779--146842 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
146769 ATACAAGCGT
146779 ACCCGGAGCCCAATTACAAGTAA
1 ACCCGGAGCCCAATTACAAGTAA
*
146802 ACCCAGAGCCCAATTACAAGTAA
1 ACCCGGAGCCCAATTACAAGTAA
*
146825 ACTCGGAGCCCAATTACA
1 ACCCGGAGCCCAATTACA
146843 TCAAACCCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.14
Consensus pattern (23 bp):
ACCCGGAGCCCAATTACAAGTAA
Found at i:162273 original size:45 final size:48
Alignment explanation
Indices: 162185--162277 Score: 120
Period size: 51 Copynumber: 1.9 Consensus size: 48
162175 ATATTTACAC
*
162185 TTATATATGAATTATACCAATTTAAATTATAATAATTTCAAAAATATATTA
1 TTATACATGAATTATACCAATTTAAA-TATAATAA--TCAAAAATATATTA
*
162236 TTATACATGAATTATATCAATTTAAA-AT-ATAA-CAAAAATATA
1 TTATACATGAATTATACCAATTTAAATATAATAATCAAAAATATA
162278 AATAAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
45 10 0.25
48 4 0.10
49 2 0.05
51 24 0.60
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (48 bp):
TTATACATGAATTATACCAATTTAAATATAATAATCAAAAATATATTA
Found at i:162318 original size:17 final size:17
Alignment explanation
Indices: 162263--162308 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
162253 CAATTTAAAA
*
162263 TATAACAAAAATATAA-
1 TATAATAAAAATATAAT
*
162279 -ATAA-GAAAATATAAT
1 TATAATAAAAATATAAT
162294 TATAATAAAAATATA
1 TATAATAAAAATATA
162309 TTTTATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 4 0.16
17 8 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
TATAATAAAAATATAAT
Found at i:164458 original size:27 final size:29
Alignment explanation
Indices: 164428--164485 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
164418 TTTAATACAA
**
164428 TATTTA-TAATATTTTAAAAGT-AATTAT
1 TATTTATTAATATTAAAAAAGTAAATTAT
*
164455 TA-TTATTATTATTAAAAAAGTAAATTAT
1 TATTTATTAATATTAAAAAAGTAAATTAT
164483 TAT
1 TAT
164486 GTTAAGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
26 3 0.12
27 14 0.56
28 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TATTTATTAATATTAAAAAAGTAAATTAT
Found at i:165113 original size:31 final size:31
Alignment explanation
Indices: 165061--165120 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
165051 TTCTTTTAAT
*
165061 TTAGTCATACTTTGAATAAATTAAAATAACA
1 TTAGACATACTTTGAATAAATTAAAATAACA
* * *
165092 TTAGACATATTTTTAATAAATTTAAATAA
1 TTAGACATACTTTGAATAAATTAAAATAA
165121 AAATACATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (31 bp):
TTAGACATACTTTGAATAAATTAAAATAACA
Found at i:166600 original size:21 final size:21
Alignment explanation
Indices: 166529--166600 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 21
166519 ATAAACCATG
166529 TATTCCATAAGCTCATAAGCT
1 TATTCCATAAGCTCATAAGCT
*
166550 TATTTACCAATATA-C-CATAAACCATT
1 TA-TT-CC-ATA-AGCTCAT-AAGC--T
166576 TATTCCATAAGCTCATAAGCT
1 TATTCCATAAGCTCATAAGCT
166597 TATT
1 TATT
166601 TTACCAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
21 7 0.17
22 3 0.08
23 12 0.30
24 12 0.30
25 3 0.08
26 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (21 bp):
TATTCCATAAGCTCATAAGCT
Found at i:166623 original size:48 final size:48
Alignment explanation
Indices: 166520--166739 Score: 303
Period size: 48 Copynumber: 4.7 Consensus size: 48
166510 CAAAAAGCCA
* *
166520 TAAACCATGTATTCCATAAGCTCATAAGCTTA-TTTACCAATATACCA
1 TAAACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
166567 TAAACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
1 TAAACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
* *
166615 TAAACCATTTATTCCATAAGATTATAAGCTTATTTTACCAATATA-CT
1 TAAACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
* *
166662 T--ACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATACCT
1 TAAACCATTT-ATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
* *
166709 T---CCA-TTATTCCATAAGCTCGTAAGTTTATTT
1 TAAACCATTTATTCCATAAGCTCATAAGCTTATTT
166740 GCCAGTTTAT
Statistics
Matches: 160, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
44 23 0.14
45 9 0.06
46 34 0.21
47 37 0.23
48 57 0.36
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (48 bp):
TAAACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAATATACCT
Found at i:166705 original size:94 final size:95
Alignment explanation
Indices: 166520--166739 Score: 292
Period size: 94 Copynumber: 2.4 Consensus size: 95
166510 CAAAAAGCCA
* * *
166520 TAAACCATGTATTCCATAAGCTCATAAGCTTATTTACCAATATACCATAAACCATTTATTCCATA
1 TAAACCATTTATTCCATAAGATCATAAGCTTATTTACCAATATACCATAAACCATTTATCCCATA
166585 AGCTCATAAGCTTATTTTACCAATATACCT
66 AGCTCATAAGCTTATTTTACCAATATACCT
* *
166615 TAAACCATTTATTCCATAAGATTATAAGCTTATTTTACCAATATA-C-T-TACCATTTAATCCCA
1 TAAACCATTTATTCCATAAGATCATAAGCTTA-TTTACCAATATACCATAAACCATTT-ATCCCA
*
166677 TAAGCTCGTAAGCTTATTTTACCAATATACCT
64 TAAGCTCATAAGCTTATTTTACCAATATACCT
* * *
166709 T---CCA-TTATTCCATAAGCTCGTAAGTTTATTT
1 TAAACCATTTATTCCATAAGATCATAAGCTTATTT
166740 GCCAGTTTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
89 3 0.03
90 20 0.18
91 3 0.03
93 7 0.06
94 38 0.34
95 30 0.27
96 12 0.11
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (95 bp):
TAAACCATTTATTCCATAAGATCATAAGCTTATTTACCAATATACCATAAACCATTTATCCCATA
AGCTCATAAGCTTATTTTACCAATATACCT
Found at i:170718 original size:9 final size:9
Alignment explanation
Indices: 170651--170733 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
170641 TTTTTTTCTA
*
170651 TTTTCTTCT
1 TTTTCTTTT
*
170660 TCTTCTTCTT
1 TTTTCTT-TT
*
170670 GTTTCTATTT
1 TTTTCT-TTT
170680 TTTTCTTTT
1 TTTTCTTTT
170689 TCTTT-TTATT
1 T-TTTCTT-TT
** *
170699 CATTATTTT
1 TTTTCTTTT
170708 TTTTCTTTT
1 TTTTCTTTT
*
170717 TTTTCTGTT
1 TTTTCTTTT
170726 TTTTCTTT
1 TTTTCTTT
170734 ATATTATAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
9 37 0.65
10 19 0.33
11 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:176600 original size:91 final size:90
Alignment explanation
Indices: 176442--176968 Score: 605
Period size: 91 Copynumber: 5.8 Consensus size: 90
176432 GTGATGGAAA
* * *
176442 TGAGCTAAAGTTGAA-AATGTTCTTCTCATTATGAACTTGTTCTCCCACATTGGATGAGTTATTC
1 TGAGC-AAAGTTGAACAA-GTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTC
*
176506 TCATTATGAACTCTTCACTGGAAATGT
64 TCATTATGAACTCTCCACTGGAAATGT
* * ** * *
176533 TGAGCAAAGGTTGAACAAGTTTTTCTCATTATGAATTTCTTCTCCCTCATCAGATTAATTATGCT
1 TGAGCAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTCT
176598 CATTATGAACTCTCCACTGGAAATGT
65 CATTATGAACTCTCCACTGGAAATGT
* * * * * * * *
176624 TGAGGC-AAGGTGTAACAAGTTCTTCTCATTATTAATTTCTCCTTCCTCGTTGGATGAGTTCTTC
1 TGA-GCAAAGTTG-AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTC
*
176688 TCATTATGAACTCTCCACTGGAAATAT
64 TCATTATGAACTCTCCACTGGAAATGT
* * * *
176715 TGAGCCAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTTATCGGATGAATTCTTCT
1 TGAG-CAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTCT
*
176780 CATTATGAACTCTCCACTGGAAATAT
65 CATTATGAACTCTCCACTGGAAATGT
* * *
176806 TGAGCCAAATTTGAACAATTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATG--TGTACTT
1 TGAG-CAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAAT-TA-TT
176869 CTCATTATGAACTCTCCACTGGAAATGTT
63 CTCATTATGAACTCTCCACTGGAAATG-T
* * * * * * * *
176898 TG-GCCAAGGTTGAACAAGTTCTTATCATTATAAACTTCTCCTCCCTCGTTGGATGAGTTCTTAT
1 TGAG-CAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTCT
176962 CATTATG
65 CATTATG
176969 TTCTTCTCAT
Statistics
Matches: 376, Mismatches: 49, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
89 1 0.00
90 8 0.02
91 353 0.94
92 13 0.03
93 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (90 bp):
TGAGCAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAATTATTCTC
ATTATGAACTCTCCACTGGAAATGT
Found at i:176939 original size:273 final size:272
Alignment explanation
Indices: 176442--176968 Score: 742
Period size: 273 Copynumber: 1.9 Consensus size: 272
176432 GTGATGGAAA
* * *
176442 TGAGCTAAAGTTGAAAATGTTCTTCTCATTATGAACTTGTTCTCCCACATTGGATGAGTTATTCT
1 TGAGCCAAAGTTGAAAATGTTCTTCTCATTATGAACTTGTTCTCCCACATCGGATGAATTATTCT
* * * *
176507 CATTATGAACTCTTCACTGGAAATGTTGAGCAAAGGTTGAACAAGTTTTTCTCATTATGAATTTC
66 CATTATGAACTCTCCACTGGAAATATTGAGCAAAGGTTGAACAAGTTTTTCTCATTATAAACTTC
* *
176572 TTCTCCCTCATCAGATTAATTATGCTCATTATGAACTCTCCACTGGAAATGTTGAGGCAAGGTGT
131 TTCTCCCTCATCAGATT-AGTATGCTCATTATGAACTCTCCACTGGAAATGTTGAGCCAAGGTGT
* * * * *
176637 AACAAGTTCTTCTCATTATTAATTTCTCCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCT
195 AACAAGTTCTTATCATTATAAACTTCTCCTCCCTCGTTGGATGAGTTCTTATCATTATGAACTCT
176702 CCACTGGAAATAT
260 CCACTGGAAATAT
* ** *
176715 TGAGCCAAAGTTGAACAA-GTTCTTCTCATTATGAACTTTTTCTCCCTTATCGGATGAATTCTTC
1 TGAGCCAAAGTTGAA-AATGTTCTTCTCATTATGAACTTGTTCTCCCACATCGGATGAATTATTC
*
176779 TCATTATGAACTCTCCACTGGAAATATTGAGCCAAA-TTTGAACAA-TTTCTTCTCATTATAAAC
65 TCATTATGAACTCTCCACTGGAAATATTGAG-CAAAGGTTGAACAAGTTT-TTCTCATTATAAAC
** *
176842 TTCTTCTCCCTCATTGGATGT-GTACTTCTCATTATGAACTCTCCACTGGAAATGTTTG-GCCAA
128 TTCTTCTCCCTCATCAGAT-TAGTA-TGCTCATTATGAACTCTCCACTGGAAATG-TTGAGCCAA
176905 GGT-TGAACAAGTTCTTATCATTATAAACTTCTCCTCCCTCGTTGGATGAGTTCTTATCATTATG
190 GGTGT-AACAAGTTCTTATCATTATAAACTTCTCCTCCCTCGTTGGATGAGTTCTTATCATTATG
176969 TTCTTCTCAT
Statistics
Matches: 225, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
272 6 0.03
273 209 0.93
274 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (272 bp):
TGAGCCAAAGTTGAAAATGTTCTTCTCATTATGAACTTGTTCTCCCACATCGGATGAATTATTCT
CATTATGAACTCTCCACTGGAAATATTGAGCAAAGGTTGAACAAGTTTTTCTCATTATAAACTTC
TTCTCCCTCATCAGATTAGTATGCTCATTATGAACTCTCCACTGGAAATGTTGAGCCAAGGTGTA
ACAAGTTCTTATCATTATAAACTTCTCCTCCCTCGTTGGATGAGTTCTTATCATTATGAACTCTC
CACTGGAAATAT
Found at i:177961 original size:18 final size:18
Alignment explanation
Indices: 177935--177980 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
177925 AAACCTCTCA
*
177935 TTCTCTTTTCCTTTTTTT
1 TTCTCTTTTCCTTTTCTT
* *
177953 TTCTTTTTTTCTTTTCTT
1 TTCTCTTTTCCTTTTCTT
177971 TTCTCATTTT
1 TTCTC-TTTT
177981 TCTTCTTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTCTTTTCCTTTTCTT
Found at i:181602 original size:23 final size:24
Alignment explanation
Indices: 181576--181620 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
181566 AGGTTGAGGC
*
181576 CTAATTAA-AAACCTAATTATTAT
1 CTAATTAATAAACCTAAATATTAT
*
181599 CTAATTAATAAACTTAAATATT
1 CTAATTAATAAACCTAAATATT
181621 TTTTTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (24 bp):
CTAATTAATAAACCTAAATATTAT
Found at i:185551 original size:18 final size:17
Alignment explanation
Indices: 185528--185572 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
185518 ACACTTTACT
185528 TTTTCTTCAAT-CTGTACC
1 TTTTCTTCAATCCTG-A-C
*
185546 TTTTCTTCATTCCTGAC
1 TTTTCTTCAATCCTGAC
185563 TTTTCTTCAA
1 TTTTCTTCAA
185573 CCCTAGACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 11 0.46
19 3 0.12
ACGTcount: A:0.16, C:0.27, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTCTTCAATCCTGAC
Found at i:186480 original size:31 final size:31
Alignment explanation
Indices: 186403--186467 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
186393 TTTTTTTAAA
* *
186403 AAAATTGAAAGTTTAGATACTAAAATGGATC
1 AAAATTAAAAGTTTAGATACTAAAACGGATC
*
186434 AAAATTAAAAGTTTAGATATTAAAACGGATC
1 AAAATTAAAAGTTTAGATACTAAAACGGATC
186465 AAA
1 AAA
186468 TCTGATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.28
Consensus pattern (31 bp):
AAAATTAAAAGTTTAGATACTAAAACGGATC
Found at i:186989 original size:24 final size:24
Alignment explanation
Indices: 186961--187015 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
186951 CCAAGAAGAG
186961 ATCAACAAGCTCCTCAACTTGATC
1 ATCAACAAGCTCCTCAACTTGATC
*
186985 ATCAACCAGCTCCTCAACTTGATC
1 ATCAACAAGCTCCTCAACTTGATC
187009 ATCAACA
1 ATCAACA
187016 CTTTCTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.24
Consensus pattern (24 bp):
ATCAACAAGCTCCTCAACTTGATC
Found at i:189538 original size:29 final size:29
Alignment explanation
Indices: 189464--189538 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
189454 TTTTTATAAA
*
189464 AAAAGGGTGCTATTTTAGTAATTATTTCT
1 AAAAGGGTGCTATTTTCGTAATTATTTCT
*
189493 AAAAGGGTGCTATTTTCGTAATTATTTTT
1 AAAAGGGTGCTATTTTCGTAATTATTTCT
189522 AAAAGGGTGCTATTTTC
1 AAAAGGGTGCTATTTTC
189539 ATAAAATTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (29 bp):
AAAAGGGTGCTATTTTCGTAATTATTTCT
Found at i:190278 original size:24 final size:24
Alignment explanation
Indices: 190243--190315 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
190233 ATTTTTGACG
190243 GGATTTTGATATGATACTTGACCT
1 GGATTTTGATATGATACTTGACCT
* * *
190267 GGATTTTTATATGATACATGACAT
1 GGATTTTGATATGATACTTGACCT
* * *
190291 GGATTATGATATGCTACTTAACCT
1 GGATTTTGATATGATACTTGACCT
190315 G
1 G
190316 AATTAAGTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (24 bp):
GGATTTTGATATGATACTTGACCT
Found at i:191001 original size:15 final size:15
Alignment explanation
Indices: 190981--191010 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
190971 TGTAATATAA
190981 GTTGGATGTTAACAT
1 GTTGGATGTTAACAT
190996 GTTGGATGTTAACAT
1 GTTGGATGTTAACAT
191011 TGATTGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (15 bp):
GTTGGATGTTAACAT
Found at i:194505 original size:10 final size:10
Alignment explanation
Indices: 194490--194514 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
194480 TATGTCCTAA
194490 ATGCAACTAT
1 ATGCAACTAT
194500 ATGCAACTAT
1 ATGCAACTAT
194510 ATGCA
1 ATGCA
194515 GCTAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (10 bp):
ATGCAACTAT
Done.