Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_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: 1934717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:560 original size:19 final size:21
Alignment explanation
Indices: 523--565 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
513 TAACTTTTTC
523 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
543 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
563 TTT
1 TTT
566 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:571 original size:19 final size:20
Alignment explanation
Indices: 522--571 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
512 TTAACTTTTT
*
522 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
542 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
561 CTTTTACCTTT
1 CTTTTACCTTT
572 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:1836 original size:14 final size:14
Alignment explanation
Indices: 1817--1852 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
1807 TCTGCATAAT
1817 GACAGCTGGCACTG
1 GACAGCTGGCACTG
1831 GACAGCTGGCACTG
1 GACAGCTGGCACTG
1845 GACAGCTG
1 GACAGCTG
1853 TCCCTGCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (14 bp):
GACAGCTGGCACTG
Found at i:4113 original size:42 final size:42
Alignment explanation
Indices: 4049--4129 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
4039 TTTGCCTTCT
* *
4049 AATCTTACATCTCAACCGATATTAGCTATTGAACCTCCTTTA
1 AATCCTACATCTCAACCAATATTAGCTATTGAACCTCCTTTA
* *
4091 AATCCTACATCTCAACCAATATTATCTTTTGAACCTCCT
1 AATCCTACATCTCAACCAATATTAGCTATTGAACCTCCT
4130 CCTCCACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (42 bp):
AATCCTACATCTCAACCAATATTAGCTATTGAACCTCCTTTA
Found at i:4561 original size:81 final size:81
Alignment explanation
Indices: 4426--4586 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 81
4416 CGAAGTGTAC
*
4426 TGCTCATCCCATACAAAAGTATGTTGCTTATAACCATTTGAAGCCTACTTTCAAGGCTTTCACAA
1 TGCTCATCCCATACAAAAGCATGTTGCTTATAACCATTTGAAGCCTACTTTCAAGGCTTTCACAA
4491 CAAGTGCTGATAGTAT
66 CAAGTGCTGATAGTAT
* * *
4507 TGCTCATCCCATACAAAAGCATGTTTCTTATAACCATTTGACGCCTGCTTTCAAGGCTTTCACAA
1 TGCTCATCCCATACAAAAGCATGTTGCTTATAACCATTTGAAGCCTACTTTCAAGGCTTTCACAA
*
4572 CAAGTGTTGATAGTA
66 CAAGTGCTGATAGTA
4587 CACCAGTTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (81 bp):
TGCTCATCCCATACAAAAGCATGTTGCTTATAACCATTTGAAGCCTACTTTCAAGGCTTTCACAA
CAAGTGCTGATAGTAT
Found at i:6219 original size:39 final size:39
Alignment explanation
Indices: 6165--6248 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
6155 TTGTAGTAAA
*
6165 TTATTTAATTTAGTAGTTTAGATTACCTATAACTCTATC
1 TTATTTAATTTAGTAGTTTAGATTAACTATAACTCTATC
6204 TTATTTAATTTAGTAGTTTAGATTAACTATAACTCTATC
1 TTATTTAATTTAGTAGTTTAGATTAACTATAACTCTATC
6243 TT-TTTA
1 TTATTTA
6249 TTTTCTAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.09
39 40 0.91
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTTAATTTAGTAGTTTAGATTAACTATAACTCTATC
Found at i:9275 original size:20 final size:20
Alignment explanation
Indices: 9250--9316 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
9240 AATTCGTAAT
9250 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
** * *
9270 GCGAATTGGGAAAATCGCAAT
1 GCGAA-TAAGTAAATCGCAAC
9291 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
9311 GCGAAT
1 GCGAAT
9317 TGGGAAAATC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (20 bp):
GCGAATAAGTAAATCGCAAC
Found at i:9286 original size:21 final size:21
Alignment explanation
Indices: 9260--9335 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
9250 GCGAATAAGT
9260 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
9281 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
9301 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
9322 AAATCGCAATGCGA
1 AAATCGCAACGCGA
9336 TACTTACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:9292 original size:41 final size:41
Alignment explanation
Indices: 9247--9335 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
9237 CCCAATTCGT
9247 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
1 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
9288 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
1 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
9329 AATGCGA
1 AATGCGA
9336 TACTTACTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (41 bp):
AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
Found at i:9348 original size:41 final size:41
Alignment explanation
Indices: 9262--9396 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
9252 GAATAAGTAA
** *
9262 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
9303 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
9344 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
9385 TTCGCAACGCGA
1 ATCGCAACGCGA
9397 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:9349 original size:20 final size:20
Alignment explanation
Indices: 9324--9417 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
9314 AATTGGGAAA
*
9324 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
9344 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
9365 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
9385 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
9405 TTCGCAACGCGAT
1 ATCGCAACGCGAT
9418 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:9994 original size:19 final size:19
Alignment explanation
Indices: 9934--10014 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
9924 TTCGAGAATG
9934 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
9954 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
9970 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
9987 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
10006 AAAATCGCA
1 AAAATCGCA
10015 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:10032 original size:19 final size:19
Alignment explanation
Indices: 10010--10174 Score: 136
Period size: 19 Copynumber: 9.1 Consensus size: 19
10000 GAAACCAAAA
*
10010 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
10029 TCGCGTTGCGATTTT-ATT
1 TCGCGTTGCGATTTTCATT
10047 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
10067 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
10083 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
10100 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
10114 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
10133 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
10153 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
10173 TC
1 TC
10175 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 13, Indels: 28
0.74 0.08 0.17
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 8 0.07
19 45 0.38
20 38 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:10099 original size:33 final size:33
Alignment explanation
Indices: 10062--10149 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
10052 GTTGCGATTT
* *
10062 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
10095 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
10128 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
10150 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:10151 original size:20 final size:20
Alignment explanation
Indices: 10117--10174 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
10107 GCGATTCTCT
**
10117 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
10137 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
10157 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
10175 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:12227 original size:42 final size:42
Alignment explanation
Indices: 12168--12289 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
12158 CCCGACTCGC
* * *
12168 CTATCATCTCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCT
1 CTATCATCTCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCT
* * *
12210 CTATCAT-TCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTATCATCT-CTCAAGAGTCCACTCCCACCGTTCAAGAGGCCT
* * *
12252 CTGTCATCGT-TGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTATCATC-TCTCAAGA-GTCCACTCCCACCGTTCAAGAG
12290 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 60 0.91
43 4 0.06
44 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
CTATCATCTCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCT
Found at i:12247 original size:21 final size:21
Alignment explanation
Indices: 12223--12289 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
12213 TCATTCCTCG
12223 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
12244 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
12265 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
12286 AGAG
1 AGAG
12290 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:13667 original size:14 final size:14
Alignment explanation
Indices: 13648--13683 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13638 ATTGTTTAAT
*
13648 TGATTTGTAAAAGG
1 TGATTTGTAAAACG
*
13662 TGATTTGTAAAACT
1 TGATTTGTAAAACG
13676 TGATTTGT
1 TGATTTGT
13684 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:0.03, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAACG
Found at i:13851 original size:19 final size:19
Alignment explanation
Indices: 13829--13979 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
13819 CGAAATTAAA
13829 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
13848 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
13863 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
13881 TTTGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
13895 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
13914 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
13929 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
13947 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
13966 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
13980 GGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 28 0.30
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:13875 original size:33 final size:32
Alignment explanation
Indices: 13833--13959 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
13823 ATTAAATTCG
13833 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
13866 CGTTGCGATTTTCATTTTGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
13899 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
13932 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
13960 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:13909 original size:66 final size:66
Alignment explanation
Indices: 13826--13958 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
13816 ACGCGAAATT
* *
13826 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTTGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
13891 G
66 G
*
13892 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
13957 G
66 G
13958 A
1 A
13959 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:16267 original size:12 final size:12
Alignment explanation
Indices: 16250--16274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16240 TCTTCGGGGA
16250 CTTTTTCTTCTT
1 CTTTTTCTTCTT
16262 CTTTTTCTTCTT
1 CTTTTTCTTCTT
16274 C
1 C
16275 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:16483 original size:24 final size:24
Alignment explanation
Indices: 16449--16502 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
16439 CTGAAACATC
* *
16449 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
16473 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
16497 ATCAAA
1 ATCAAA
16503 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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:17587 original size:20 final size:20
Alignment explanation
Indices: 17562--17619 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
17552 ATTCATTTGA
17562 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
17582 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
17602 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
17620 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:17662 original size:14 final size:14
Alignment explanation
Indices: 17643--17700 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
17633 GAAAATCGCA
17643 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
17657 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
17674 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
17690 TTGCGATTTTC
1 TTGCGATTTTC
17701 ATTTCGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
16 3 0.08
17 3 0.08
19 11 0.28
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:17662 original size:33 final size:33
Alignment explanation
Indices: 17625--17695 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
17615 AAAATCGCAA
17625 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
17658 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
17691 TGCGA
1 TGCGA
17696 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:17679 original size:19 final size:19
Alignment explanation
Indices: 17638--17753 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
17628 GAAATGAAAA
17638 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
17654 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
17671 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
17687 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
17704 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
17723 TCACATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
17742 TCGCGTTGCGAT
1 TCGCATTGCGAT
17754 AGTCTGTTTT
Statistics
Matches: 86, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
14 22 0.26
16 6 0.07
17 6 0.07
19 52 0.60
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:17696 original size:33 final size:33
Alignment explanation
Indices: 17638--17719 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
17628 GAAATGAAAA
17638 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
17671 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
17704 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
17720 ATTTCACATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:17860 original size:14 final size:14
Alignment explanation
Indices: 17841--17876 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
17831 CATCAATTAA
*
17841 ACAAATCATGATTT
1 ACAAATCATCATTT
*
17855 ACAAATCATCTTTT
1 ACAAATCATCATTT
17869 ACAAATCA
1 ACAAATCA
17877 ATTAAACAAT
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:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (14 bp):
ACAAATCATCATTT
Found at i:19777 original size:20 final size:19
Alignment explanation
Indices: 19746--19808 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
19736 CTTAAAATCA
19746 CAACGCGAAATGACTATCG
1 CAACGCGAAATGACTATCG
*
19765 CAACGCGGAAATGGCTATCG
1 CAACGC-GAAATGACTATCG
* **
19785 CAATGCGAAATGAAAATCG
1 CAACGCGAAATGACTATCG
19804 CAACG
1 CAACG
19809 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (19 bp):
CAACGCGAAATGACTATCG
Found at i:19816 original size:14 final size:14
Alignment explanation
Indices: 19797--19852 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
19787 ATGCGAAATG
19797 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
19811 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
19827 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
19843 AAAATCGCAA
1 AAAATCGCAA
19853 TGCGAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:19839 original size:32 final size:33
Alignment explanation
Indices: 19781--19860 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 33
19771 GGAAATGGCT
19781 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
19814 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
19846 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
19861 TGCGATTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:19884 original size:19 final size:19
Alignment explanation
Indices: 19860--19988 Score: 91
Period size: 19 Copynumber: 7.3 Consensus size: 19
19850 CAATGCGAAA
19860 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
19879 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
19893 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
19911 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
19925 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
19944 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
** *
19964 TTGCGATAGTCATTTCGTG
1 TTGCGATTTTCATTTCGCG
19983 TTGCGA
1 TTGCGA
19989 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.21
15 3 0.03
16 6 0.07
17 2 0.02
18 14 0.16
19 28 0.31
20 17 0.19
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:19896 original size:14 final size:14
Alignment explanation
Indices: 19877--19934 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
19867 TTTCATTTCG
19877 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
19891 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
19907 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
19923 CGTTGCGATTTT
1 CGTTGCGATTTT
19935 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:19941 original size:33 final size:33
Alignment explanation
Indices: 19860--19950 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
19850 CAATGCGAAA
19860 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
19893 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
19925 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
19951 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:19969 original size:20 final size:19
Alignment explanation
Indices: 19935--19988 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
19925 TTGCGATTTT
*
19935 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
19954 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
19974 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
19989 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:21856 original size:20 final size:20
Alignment explanation
Indices: 21831--21868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21821 AATAGTTTCT
21831 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
21851 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
21869 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:22456 original size:20 final size:20
Alignment explanation
Indices: 22343--22456 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
22333 CGCTTTGAAA
22343 ATCGCATTGCGACTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
22363 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
22383 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * ** * *
22403 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTAAGT
22424 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
22444 ATCGCATTGCGAT
1 ATCGCATTGCGAT
22457 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 58 0.77
21 13 0.17
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:22474 original size:21 final size:21
Alignment explanation
Indices: 22445--22537 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
22435 ATAGTAAGTA
22445 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
22466 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
22486 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
22507 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
22527 TCGCATTGCGA
1 TCGCATTGCGA
22538 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:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:22475 original size:41 final size:41
Alignment explanation
Indices: 22384--22518 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
22374 AAAGTCAGTA
* * * ** *
22384 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
22424 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
22466 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
22507 TCGCGTTGCGAT
1 TCGCGTTGCGAT
22519 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:22519 original size:41 final size:41
Alignment explanation
Indices: 22445--22537 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
22435 ATAGTAAGTA
22445 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
22486 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
22527 TCGCATTGCGA
1 TCGCATTGCGA
22538 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:26847 original size:23 final size:23
Alignment explanation
Indices: 26812--26875 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
26802 CAGCTCATAT
*
26812 AAATGCACTGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
26835 AATTGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
26858 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
26876 TATAAGACGT
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:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:29056 original size:19 final size:19
Alignment explanation
Indices: 29021--29058 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29011 CCTTATTACT
*
29021 TCCAAACTTTGTTATTAAA
1 TCCAAACTTTGTCATTAAA
29040 TCCAACACTTT-TCATTAAA
1 TCCAA-ACTTTGTCATTAAA
29059 ATCCCTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (19 bp):
TCCAAACTTTGTCATTAAA
Found at i:30462 original size:30 final size:30
Alignment explanation
Indices: 30428--30500 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
30418 CCCGAAGGAC
30428 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
30458 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
30488 CTGTCCATAGGTC
1 CTATCCAGAGGTC
30501 TCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:32945 original size:2 final size:2
Alignment explanation
Indices: 32938--33001 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
32928 CTAATCACAG
32938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32980 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
33002 TCCCCAAACT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35687 original size:30 final size:30
Alignment explanation
Indices: 35653--35725 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
35643 CCCGAAGGAC
35653 CTATCCAGAGGTCATAAAGATCCTCAATAA
1 CTATCCAGAGGTCATAAAGATCCTCAATAA
**
35683 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAATAA
* *
35713 CTGTCCATAGGTC
1 CTATCCAGAGGTC
35726 CCGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCAATAA
Found at i:40554 original size:31 final size:31
Alignment explanation
Indices: 40492--40566 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
40482 TAACTCGTGA
* *
40492 TGACCACATCTTAATTAAATGAAAACGAAAG
1 TGACCATATCTTAATTAAATGAAAACAAAAG
** *
40523 TGGTCATATCTTAATTAAAT-AATAATAAAAG
1 TGACCATATCTTAATTAAATGAA-AACAAAAG
40554 TGACCATATCTTA
1 TGACCATATCTTA
40567 TGTTTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 2 0.06
31 34 0.94
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (31 bp):
TGACCATATCTTAATTAAATGAAAACAAAAG
Found at i:42497 original size:20 final size:20
Alignment explanation
Indices: 42472--42524 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
42462 GACCAACAAA
42472 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
* **
42492 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
42512 TTCGCAACGCGAA
1 TTCGCAACGCGAA
42525 TCTGTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:42536 original size:20 final size:20
Alignment explanation
Indices: 42513--42559 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
42503 GTTTCCAATT
42513 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
42533 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
42553 TCGCAAC
1 TCGCAAC
42560 ACATAAGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:42593 original size:20 final size:20
Alignment explanation
Indices: 42568--42890 Score: 368
Period size: 20 Copynumber: 16.2 Consensus size: 20
42558 ACACATAAGC
* *
42568 CAAATTCACAATGCGATAGT
1 CAAATTCGCAACGCGATAGT
42588 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* *
42608 CAAATTCGCAACAC-AAAGT
1 CAAATTCGCAACGCGATAGT
*
42627 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGATAGT
* *
42647 CAAATTCGCAACGCAAAAGT
1 CAAATTCGCAACGCGATAGT
*
42667 CAAATTCGCAACACGATAGT
1 CAAATTCGCAACGCGATAGT
*
42687 CAAATTCGCAACGTGATAGT
1 CAAATTCGCAACGCGATAGT
42707 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* * *
42727 CAAATTCGCAACAC-AAATT
1 CAAATTCGCAACGCGATAGT
* *
42746 CAATTTCGCAACGCAATAGT
1 CAAATTCGCAACGCGATAGT
42766 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
* * * *
42786 CAAATTCACAACACAAAAGT
1 CAAATTCGCAACGCGATAGT
* * *
42806 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGT
* *
42826 CAAATTCGCAACGTGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
*
42848 -AAA-TCGCAACACAGA-AGT
1 CAAATTCGCAACGC-GATAGT
42866 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
42886 CAAAT
1 CAAAT
42891 GTTTTTACAC
Statistics
Matches: 260, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
18 2 0.01
19 37 0.14
20 214 0.82
21 5 0.02
22 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:42680 original size:119 final size:119
Alignment explanation
Indices: 42553--42890 Score: 459
Period size: 119 Copynumber: 2.8 Consensus size: 119
42543 AATTTGTAAA
* * *
42553 TCGCAACACATAAGCCAAATTCACAATGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGCA
1 TCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGCA
42618 ACACAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCAAAAGTCAAAT
66 ACACAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCAAAAGTCAAAT
*
42672 TCGCAACACGAT-AGTCAAATTCGCAACGTGATAGTCAAATTCGCAACGCGATAGTCAAATTCGC
1 TCGCAACAC-ATAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGC
* * * *
42736 AACACAAATTCAATTTCGCAACGC-AATAGTCAAATTCGCAACGCGATAGTCAAAT
65 AACACAAAGTCAAATTCGCAACGCGAA-AGTCAAATTCGCAACGCAAAAGTCAAAT
* * * * * * *
42791 TCACAACACAAAAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGTGAATTTGT-AAA-TCG
1 TCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCG-A-TAGTCAAATTCG
*
42854 CAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
64 CAACACA-AAGTCAAATTCGCAACGCGAAAGTCAAAT
42891 GTTTTTACAC
Statistics
Matches: 193, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
118 3 0.02
119 156 0.81
120 30 0.16
121 4 0.02
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (119 bp):
TCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGCA
ACACAAAGTCAAATTCGCAACGCGAAAGTCAAATTCGCAACGCAAAAGTCAAAT
Found at i:43412 original size:20 final size:20
Alignment explanation
Indices: 43374--43435 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
43364 AATTGCAACA
*
43374 CGATTTT-AGTTTCGCGTTG
1 CGATTTTCATTTTCGCGTTG
*
43393 CGATTTTCATTTTCGTGTTG
1 CGATTTTCATTTTCGCGTTG
*
43413 CGATTTTCATTTTCGCATTG
1 CGATTTTCATTTTCGCGTTG
43433 CGA
1 CGA
43436 ATTTAAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
19 7 0.18
20 31 0.82
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (20 bp):
CGATTTTCATTTTCGCGTTG
Found at i:43446 original size:20 final size:20
Alignment explanation
Indices: 43376--43446 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
43366 TTGCAACACG
*
43376 ATTTTAGTTTCGCGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
* * *
43396 TTTTCATTTTCGTGTTGCGA
1 ATTTCAGTTTCGCGTTGCGA
* * *
43416 TTTTCATTTTCGCATTGCGA
1 ATTTCAGTTTCGCGTTGCGA
*
43436 ATTTAAGTTTC
1 ATTTCAGTTTC
43447 AGAAACTTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (20 bp):
ATTTCAGTTTCGCGTTGCGA
Found at i:45577 original size:21 final size:20
Alignment explanation
Indices: 45521--45581 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
45511 TTACGAAATT
*
45521 AAATTCGCGTTTTGAATTTG
1 AAATTCGCGTTGTGAATTTG
* *
45541 AAATTC-AGTTGCGAATTTG
1 AAATTCGCGTTGTGAATTTG
45560 AAATTCCGCGTTGTGAATTTG
1 AAATT-CGCGTTGTGAATTTG
45581 A
1 A
45582 CTATCGCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 7 0.21
21 12 0.35
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (20 bp):
AAATTCGCGTTGTGAATTTG
Found at i:47018 original size:2 final size:2
Alignment explanation
Indices: 47011--47065 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
47001 ATACCTAGGA
47011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47053 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
47066 GAATAACACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53510 original size:20 final size:21
Alignment explanation
Indices: 53485--53523 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
53475 GGGATTTTAG
*
53485 TATTTTTTTTA-TAAAAATAA
1 TATTTTTATTATTAAAAATAA
53505 TATTTTTATTATTAAAAAT
1 TATTTTTATTATTAAAAAT
53524 TGAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTTATTATTAAAAATAA
Found at i:63918 original size:43 final size:43
Alignment explanation
Indices: 63838--63935 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
63828 TTTCATTAAA
63838 TAATTACTAATTTACAAATAAATAATAAAAATGATC-AATTAC
1 TAATTACTAATTTACAAATAAATAATAAAAATGATCAAATTAC
* * *
63880 TAATCTACTAATTTTCTAAA-AAATAATTTAAAAT-ATCAAATTAT
1 TAAT-TACTAATTTAC-AAATAAATAA-TAAAAATGATCAAATTAC
*
63924 TAATTAATAATT
1 TAATTACTAATT
63936 ATTATTTTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 4 0.08
43 26 0.54
44 18 0.38
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (43 bp):
TAATTACTAATTTACAAATAAATAATAAAAATGATCAAATTAC
Found at i:64232 original size:26 final size:29
Alignment explanation
Indices: 64180--64234 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
64170 TAAACAATCA
64180 ACGAGTCGAGCAACAATTTTCTTAACGAGC
1 ACGAGTCGAGCAACAA-TTTCTTAACGAGC
64210 ACGAGTCGAGCAA-AA-TT-TTAACGAG
1 ACGAGTCGAGCAACAATTTCTTAACGAG
64235 TTTAACGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.32
27 2 0.08
29 2 0.08
30 13 0.52
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (29 bp):
ACGAGTCGAGCAACAATTTCTTAACGAGC
Found at i:67237 original size:32 final size:31
Alignment explanation
Indices: 67170--67237 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
67160 TTTTTAATAT
* *
67170 TAAAAAATAAATAAATATTAATAAATATAAT
1 TAAAAAATAAATAAATATTAATAAATAAAAG
* * **
67201 TAAAAAATAGATTAATATATAATTTATAAAAG
1 TAAAAAATAAATAAATAT-TAATAAATAAAAG
67233 TAAAA
1 TAAAA
67238 TATTTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAAAATAAATAAATATTAATAAATAAAAG
Found at i:67461 original size:3 final size:3
Alignment explanation
Indices: 67447--67479 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
67437 TATATGACTA
*
67447 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
67480 TTTGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:69156 original size:123 final size:122
Alignment explanation
Indices: 69018--69450 Score: 462
Period size: 123 Copynumber: 3.6 Consensus size: 122
69008 AAATTAAGGC
*
69018 AAGGTTGAACAAATTCTTCTCATTATGAACTTCATCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
69083 GAACTATTTTTGGAAATGTTGATGTTGATCTATCTCTTTCTGTGATAGCGTCGAGCAA
66 AAACTATTTATGGAAATGTTGATGTTGATCTATCTCATTCTGTGATAGAGTC-AGCAA
*
69141 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGCTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
69206 AAACT-TCATATGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAA
66 AAACTAT-TTATGGAAATGTTGATGTTGATCTATCTCATTCTGTGATAGAGTCA-GC---AA
** * * *
69267 AAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* ** * *
69332 AAAC-ACTTCTCTGGAAA-----A-GTTG----ATC-CATTGAGTGAT-GAATTCAAACAA
66 AAACTA-TT-TATGGAAATGTTGATGTTGATCTATCTCATTCTGTGATAG-AGTC-AGCAA
* *
69380 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
*
69445 TGAACT
65 TAAACT
69451 TTCTCTGGCA
Statistics
Matches: 268, Mismatches: 30, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
113 39 0.15
114 26 0.10
115 1 0.00
116 12 0.04
117 4 0.01
121 3 0.01
122 2 0.01
123 108 0.40
126 65 0.24
127 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (122 bp):
AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
AAACTATTTATGGAAATGTTGATGTTGATCTATCTCATTCTGTGATAGAGTCAGCAA
Found at i:69413 original size:113 final size:112
Alignment explanation
Indices: 69266--70468 Score: 1593
Period size: 113 Copynumber: 10.7 Consensus size: 112
69256 TCATGCAAAA
* *
69266 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTA
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * * *
69331 TAAACACTTCTCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAAC
66 TGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
*
69378 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * * * ** *
69443 TATGAACT-TTCTCTGGCAATGCTAATCCAACGGGTGATGAATTAAAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
* *
69491 AAAAGGTTGAACAAGTTCTTCTCCTTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * *
69556 TATGAACTC-TAC-CTGGTAATGCTGATCCATCAAATGATGAATTCAAAC
64 TATGAACTCGT-CTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
* *
69604 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
69669 TATGAACT-TTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
69717 AAAAGGTTGAACAAGTTCTTCTCATTATGAA---------CTTCTTCAGATGAGTTCTTCTCATT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
* * *
69773 ATGAACTC-TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGC
65 ATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
* *
69820 AAAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
* *
69885 TATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
* *
69933 GAAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
* * *
69998 TATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
*
70046 GACAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * *
70111 TATGAACTC-TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
70159 GAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
* *
70224 TATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGC
64 TATGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
* *
70272 GAAAAGTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
*
70337 TATGAACTCGAC-CT-GACAATGTTGATCCATCGAATGATGAATTCAAGC
64 TATGAACTCGTCTCTGGA-AATGTTGATCCATCGAATGATGAATTCAAGC
70385 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
70450 TATGAACTC-TCTCTGGAAA
64 TATGAACTCGTCTCTGGAAA
70469 AGTTTTAATA
Statistics
Matches: 986, Mismatches: 78, Indels: 53
0.88 0.07 0.05
Matches are distributed among these distances:
103 88 0.09
104 4 0.00
112 10 0.01
113 849 0.86
114 35 0.04
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCGTCTCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
Found at i:70240 original size:339 final size:339
Alignment explanation
Indices: 69266--70472 Score: 1843
Period size: 339 Copynumber: 3.6 Consensus size: 339
69256 TCATGCAAAA
* * *
69266 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTTAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
* * ** * * * * *
69330 ATAAACACTTCTCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAACAAAAGGTTGAACAAGTT
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTT
* * *
69395 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGC
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGA
* * * * * ** *
69460 AATGCTAATCCAACGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCTCCTTATGAACTT
196 AAAGTTGATCCATCGAGTGATGAATTCGAGCAAAA-GTTGAACAAGTTCTTCTCATTATGAACTT
* * * * * *
69525 CTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAATGCTGATCCATCAAA
260 CTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGAA
*
69590 TGATGAATTCAAAC-
325 TGATGAATTCAAGCG
* *
69604 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTTAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTAT
** * ** *
69669 TATGAACT-TTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGT
65 TATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGT
69733 TCTTCTCATTATGAA----------CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGG
*
69788 AAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAATTTGAACAAGTTCTTCTCATTATGAACT
195 AAAAGTTGATCCATCGAGTGATGAATTCGAGC-AAAAGTTGAACAAGTTCTTCTCATTATGAACT
*
69853 TCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGA
259 TCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGA
69918 ATGATGAATTCAAGCG
324 ATGATGAATTCAAGCG
*
69934 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
* *
69999 ATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGACAA-GTTGAACAAGT
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGC-AAAAGGTTGAACAAGT
70062 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGG
70127 AAAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACT
195 AAAAGTTGATCCATCGAGTGATGAATTCGAGC-AAAAGTTGAACAAGTTCTTCTCATTATGAACT
70192 TCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGA
259 TCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGA
70257 ATGATGAATTCAAGCG
324 ATGATGAATTCAAGCG
*
70273 AAAAGTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
* *
70338 ATGAACTCGAC-CTGACAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTT
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTT
70402 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGA
70467 AAAGTT
196 AAAGTT
70473 TTAATAATAA
Statistics
Matches: 800, Mismatches: 52, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
329 282 0.35
330 12 0.01
338 7 0.01
339 473 0.59
340 26 0.03
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (339 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGA
AAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCCATCGAAT
GATGAATTCAAGCG
Found at i:70622 original size:76 final size:76
Alignment explanation
Indices: 70496--70668 Score: 274
Period size: 76 Copynumber: 2.3 Consensus size: 76
70486 AAAAATATTC
* * * *
70496 TGCACTGTAGGGCTTACAGCTGACTCGAAGGTTTTGAAAACATCAAAAAGCTCCCAAAGACTTTT
1 TGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTT
70561 TGGAAACATCA
66 TGGAAACATCA
* * *
70572 TGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTT
1 TGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTT
70637 TGGAAACATCA
66 TGGAAACATCA
*
70648 TACACTGTAGGACTTACAGAT
1 TGCACTGTAGGACTTACAGAT
70669 TTGGGAAATA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 88 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (76 bp):
TGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGACTTTT
TGGAAACATCA
Found at i:71372 original size:22 final size:22
Alignment explanation
Indices: 71347--71401 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
71337 AATAAAGCTT
71347 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
71369 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
71391 TCATATTTGAA
1 TCATCTTTGAA
71402 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:74083 original size:114 final size:114
Alignment explanation
Indices: 73883--74106 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
73873 GATAATGCAG
* * * * *
73883 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAAACAAATCAGATAACTCAAAGA
73948 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
73997 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAAACAAATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAAACAAATCAGATAACTCAAAGA
*
74062 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
74107 AACATGGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAAACAAATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:80472 original size:18 final size:19
Alignment explanation
Indices: 80449--80484 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
80439 GCTTTTTTTT
80449 AATATTAAAAAAT-TAATA
1 AATATTAAAAAATATAATA
*
80467 AATATTAATAAATATAAT
1 AATATTAAAAAATATAAT
80485 TAAAAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATTAAAAAATATAATA
Found at i:80475 original size:10 final size:10
Alignment explanation
Indices: 80449--80481 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
80439 GCTTTTTTTT
80449 AATATTAA-A
1 AATATTAATA
80458 AA-ATTAATA
1 AATATTAATA
80467 AATATTAATA
1 AATATTAATA
80477 AATAT
1 AATAT
80482 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.23
9 5 0.23
10 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AATATTAATA
Found at i:80487 original size:23 final size:22
Alignment explanation
Indices: 80459--80514 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
80449 AATATTAAAA
80459 AATTAATAAAT-ATTAATAAATAT
1 AATTAATAAATAATTAAT--ATAT
*
80482 AATTAAAAAATAGATTAATATAT
1 AATTAATAAATA-ATTAATATAT
*
80505 AATTTATAAA
1 AATTAATAAA
80515 AGTAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 22 0.79
25 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTAATAAATAATTAATATAT
Found at i:80744 original size:3 final size:3
Alignment explanation
Indices: 80730--80781 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
80720 TATATGACTA
*
80730 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
80778 AAT A
1 AAT A
80782 TTGAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:82715 original size:34 final size:34
Alignment explanation
Indices: 82669--82736 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
82659 ATATATACCT
82669 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
1 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
*
82703 GATTACAGGAGATCAATTAGGCTACAATTAAGGA
1 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
82737 AACAAAGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (34 bp):
GATTACAAGAGATCAATTAGGCTACAATTAAGGA
Found at i:87330 original size:34 final size:34
Alignment explanation
Indices: 87284--87351 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
87274 ATATATACCT
87284 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
1 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
*
87318 GATTACAGGAGATCAATTAGGCTACAATTAAGGA
1 GATTACAAGAGATCAATTAGGCTACAATTAAGGA
87352 AACAAAGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (34 bp):
GATTACAAGAGATCAATTAGGCTACAATTAAGGA
Found at i:89623 original size:31 final size:31
Alignment explanation
Indices: 89588--89658 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
89578 TTAAAAAACA
*
89588 TAAGTTTTGATCACTTACGTTATTATTTTAT
1 TAAGTTTTGATCACTTACGTTATCATTTTAT
* *
89619 TAAGTTATGATCACTTATGTTATCATTTTAT
1 TAAGTTTTGATCACTTACGTTATCATTTTAT
89650 TAAGTTTTG
1 TAAGTTTTG
89659 GTCGCTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (31 bp):
TAAGTTTTGATCACTTACGTTATCATTTTAT
Found at i:93123 original size:19 final size:20
Alignment explanation
Indices: 93087--93134 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
93077 TCTAAATCCT
*
93087 TTTTCAAAATTTCATTTTAG
1 TTTTCAAAATTCCATTTTAG
93107 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
93126 CTTTCAAAA
1 TTTTCAAAA
93135 GAAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:100797 original size:23 final size:22
Alignment explanation
Indices: 100755--100813 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
100745 ATAGGGCAGA
*
100755 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATTCCCCCTTGAAG
*
100777 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCC-TTGAAG
100800 GGGAATCGATTCCC
1 GGGAATCGATTCCC
100814 TCCCCCTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTGAAG
Found at i:104511 original size:18 final size:17
Alignment explanation
Indices: 104484--104519 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
104474 GTAGAATTTG
*
104484 TCCCGTATGACCACTATA
1 TCCCGAATGACCAC-ATA
104502 TCCCGAATGACCACATA
1 TCCCGAATGACCACATA
104519 T
1 T
104520 AACACATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (17 bp):
TCCCGAATGACCACATA
Found at i:107432 original size:31 final size:32
Alignment explanation
Indices: 107393--107466 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 32
107383 ACTTCCAAGT
*
107393 GACCAAAACTTAACT-AAACGATAAAGTAAGA
1 GACCAAAACTTAACTAAAACAATAAAGTAAGA
* * *
107424 GATCAAAACTT-ACTAAAACAATAACGTAAGT
1 GACCAAAACTTAACTAAAACAATAAAGTAAGA
107455 GACCAAAACTTA
1 GACCAAAACTTA
107467 TGTTTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.19
Consensus pattern (32 bp):
GACCAAAACTTAACTAAAACAATAAAGTAAGA
Found at i:108601 original size:20 final size:21
Alignment explanation
Indices: 108573--108624 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
108563 TATCGGGCGA
* *
108573 TACCTAAAATGTT-ATTTTTC
1 TACCAAAAATGTTAATTTTGC
* *
108593 TACCGAAAATATTAATTTTGC
1 TACCAAAAATGTTAATTTTGC
108614 TACCAAAAATG
1 TACCAAAAATG
108625 AATATTTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (21 bp):
TACCAAAAATGTTAATTTTGC
Found at i:110228 original size:63 final size:63
Alignment explanation
Indices: 110105--110228 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
110095 AGAACATACC
* * *
110105 TTTAAAATAATGTGGCAAGAGTATTAAAATGTACATCATGCTTCTTTAATCTATACGTGAACT
1 TTTAAAATAATGTGACAAGAGTATTAAAATGTACAACATGCTTCTTTAATCTAGACGTGAACT
* *
110168 TTTAAAATAATGTGACGAGAGTATTAAAATGTACAACATGCTTCTTTAATCTAGATGTGAA
1 TTTAAAATAATGTGACAAGAGTATTAAAATGTACAACATGCTTCTTTAATCTAGACGTGAA
110229 GAATATAAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (63 bp):
TTTAAAATAATGTGACAAGAGTATTAAAATGTACAACATGCTTCTTTAATCTAGACGTGAACT
Found at i:111373 original size:263 final size:261
Alignment explanation
Indices: 110907--111424 Score: 930
Period size: 263 Copynumber: 2.0 Consensus size: 261
110897 GATATAAGAA
*
110907 AATAAAGTATGGACCAAAATAAAAATGAAGTAAATTACATGCACTAAGAATGAAATAAAGCTCAT
1 AATAAAGTATGAACCAAAATAAAAATGAAGTAAATTACATGCACTAAGAATGAAATAAAGCTCAT
*
110972 AAATAATATGGAGGCTAAAATGGAATAAAACAGAACATAAAGCTCAAATTAAAATAAGCAAAACA
66 AAATAATATGGAGGCTAAAATGGAATAAAACAGAACATAAAGCTCAAATTAAAATAAGCAAAAAA
* * *
111037 GTAAATGATGGAATTTAAAAGGACTCAAATGTAAATGAAATAAATTGCATAACTGAAATTGTAAT
131 GTAAACGATGGAATTTAAAAGGACTCAAATGTAAATGAAATAAATTGCATAACTAAAATTGAAAT
111102 GGTAGAAAATTAAAGGGCAGAAATGTAAATGACAGAAAAATAAATCAGAAATTGATATTTAAAAT
196 GGTAGAAAATTAAAGGGCAGAAATGTAAATGACAGAAAAATAAATCAGAAATTGATATTTAAAAT
111167 T
261 T
* *
111168 AATAAAGTATGAACCAAAATAAAAATGAAGTAAATTACATGCCCTGAGAATGAAATAAAGCTCGA
1 AATAAAGTATGAACCAAAATAAAAATGAAGTAAATTACATGCACTAAGAATGAAATAAAGCTC-A
111233 -AAATAATATGGAGGGCTAAAATGGAATAAAACAGAACATAAAGCTCAAATTAAAAATAAGCAAA
65 TAAATAATATGGA-GGCTAAAATGGAATAAAACAGAACATAAAGCTCAAATT-AAAATAAGCAAA
*
111297 AAAGTAAACGATGGAATTTAAAAGGACTCATATGTAAATGAAATAAATTGCATAACTAAAATTGA
128 AAAGTAAACGATGGAATTTAAAAGGACTCAAATGTAAATGAAATAAATTGCATAACTAAAATTGA
111362 AATGGTAGAAAATTAAAGGGCAGAAATGTAAATGACAGAAAAATAAATCAGAAATTGATATTT
193 AATGGTAGAAAATTAAAGGGCAGAAATGTAAATGACAGAAAAATAAATCAGAAATTGATATTT
111425 TATATTTTAA
Statistics
Matches: 246, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
261 72 0.29
262 39 0.16
263 135 0.55
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.22
Consensus pattern (261 bp):
AATAAAGTATGAACCAAAATAAAAATGAAGTAAATTACATGCACTAAGAATGAAATAAAGCTCAT
AAATAATATGGAGGCTAAAATGGAATAAAACAGAACATAAAGCTCAAATTAAAATAAGCAAAAAA
GTAAACGATGGAATTTAAAAGGACTCAAATGTAAATGAAATAAATTGCATAACTAAAATTGAAAT
GGTAGAAAATTAAAGGGCAGAAATGTAAATGACAGAAAAATAAATCAGAAATTGATATTTAAAAT
T
Found at i:116853 original size:14 final size:15
Alignment explanation
Indices: 116830--116876 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
116820 ATAATACTAC
116830 TAATTATTATAAT-A
1 TAATTATTATAATAA
*
116844 TAATTGTTATAATAA
1 TAATTATTATAATAA
* *
116859 TAATAATAAT-ATAA
1 TAATTATTATAATAA
116873 TAAT
1 TAAT
116877 AGTAATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAATTATTATAATAA
Found at i:116858 original size:3 final size:3
Alignment explanation
Indices: 116852--116896 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
116842 TATAATTGTT
* *
116852 ATA ATA ATA ATA ATA AT- ATA ATA ATA GTA ATA ATT ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
116897 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:116858 original size:17 final size:17
Alignment explanation
Indices: 116832--116897 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
116822 AATACTACTA
*
116832 ATTATTATAATATAATT
1 ATTATAATAATATAATT
*
116849 GTTATAATAATAATAA-T
1 ATTATAATAAT-ATAATT
* *
116866 AATATAATAATAGTAATA
1 ATTATAATAATA-TAATT
116884 ATTATAATTAATAT
1 ATTATAA-TAATAT
116898 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
16 1 0.03
17 22 0.56
18 11 0.28
19 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTATAATAATATAATT
Found at i:117293 original size:55 final size:55
Alignment explanation
Indices: 117069--117767 Score: 790
Period size: 55 Copynumber: 13.1 Consensus size: 55
117059 AACAATCTAG
* * * *
117069 CGGGTTCGCTCCTTCTTGCTTTAGAGAGTATAGAACTCGAACAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* *
117124 CGGGTTCGCT-ACTCTTGCTTCAGGGAG--TAGAACTCGAATAAT-TT-TG-CTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
** * *
117173 C-GGTTCGCTCTTTCTTGCTTCAGGGAG--TAGAACTC-AATAATCTTCTGCTTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
** * * *
117224 CGAGGTTCATTCCCTCTTGTTTCAAGGAGTATAGAACTCGAACAATCTTCTGCCAA
1 CG-GGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * * * *
117280 CGGATTAGCTCCCTCTTGCTTTAAGGAGTATAAAACTCGAACAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
*
117335 CGGGTTCGCTCCCTCTTGCTTCAGGGAG--TAGAACTTGAACAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * * *
117388 TGGGTTCGTTCCCTCTTGCTTCAGGGAG--TAGAACTTGAACAATTTTTTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * * *
117441 CGGGTTTGTTTCCTCTTGCTTCAGAGAGTAT--AACTCGAACAATTTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * *
117494 CGGGTTCACTCCTTCTTACTTCAGGGAG--TAGAACTCAAACAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * * * *
117547 CGGGTTCGTTCCCTCCTGCTTCAGGGAATATATAACTCGAACAATCTTCTGGCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* *
117602 TGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * *
117657 TGGATTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * *
117712 CAGGTTCACTCCCTCTTGCTTCAGGGAG--TAGAACTTGAACAATTTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
117765 CGG
1 CGG
117768 ATATAACAAC
Statistics
Matches: 553, Mismatches: 76, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
48 14 0.03
49 28 0.05
50 4 0.01
51 6 0.01
52 14 0.03
53 222 0.40
54 13 0.02
55 237 0.43
56 15 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (55 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
Found at i:119983 original size:3 final size:3
Alignment explanation
Indices: 119969--120058 Score: 62
Period size: 3 Copynumber: 31.3 Consensus size: 3
119959 AGAAAATATA
* * * * * ** *
119969 AAT AAT ATT AAT AAT AAT ACT ACT AAT TAT TAT AAT -AT AAT TGT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
120016 AAT AAT AAT AAT AAT AAT -AT AAT AGT AAT -AT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
120059 TTTTTTTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 8 0.11
3 62 0.89
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:120015 original size:14 final size:14
Alignment explanation
Indices: 119969--120058 Score: 74
Period size: 14 Copynumber: 6.3 Consensus size: 14
119959 AGAAAATATA
119969 AATAATATTAATAAT
1 AATAATA-TAATAAT
* *
119984 AATACTACTAATTAT
1 AATAATA-TAATAAT
* **
119999 TATAATATAATTGT
1 AATAATATAATAAT
*
120013 TATAATAATAATAAT
1 AATAAT-ATAATAAT
*
120028 AATAATATAATAGT
1 AATAATATAATAAT
*
120042 AATATTATAAT-AT
1 AATAATATAATAAT
120055 AATA
1 AATA
120059 TTTTTTTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
13 5 0.08
14 29 0.47
15 28 0.45
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:120312 original size:55 final size:54
Alignment explanation
Indices: 120228--120331 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 54
120218 AACAATCTAG
* *
120228 CGGGTTCGCTCCTTCTTGCTTCAGAGAGTATAGAACTCGAACAATCTTCTACCAA
1 CGGGTTCGCTCCCTCTTGCTTAAGAGAGTATAGAA-TCGAACAATCTTCTACCAA
*
120283 CGGGTTCGCTCCCTCTTGCTTTAAG-GAGTATAGAATTGAACAATCTTCT
1 CGGGTTCGCTCCCTCTTGC-TTAAGAGAGTATAGAATCGAACAATCTTCT
120332 GTAATGATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 13 0.29
55 28 0.62
56 4 0.09
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (54 bp):
CGGGTTCGCTCCCTCTTGCTTAAGAGAGTATAGAATCGAACAATCTTCTACCAA
Found at i:120586 original size:80 final size:79
Alignment explanation
Indices: 120463--120611 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 79
120453 GGCCTGAAGA
* * * * *
120463 ATTTCATCATCATGCTCGAAAGACTTACTGATGTATTTACTTCACTACTCTTCCGTGAAGGCTTA
1 ATTTAATCATCATACTCGAAAGACTTACTGATGGATTTACTTCACCACTCTTCAGTGAAGGCTTA
120528 CAAATTACCCGAAAG
66 -AAATTACCCGAAAG
*
120543 ATTTAATCATCATACTCGAAAGACTTACTGATGGATTTGCTTCACCACTCTTCAGTGAAGGCTTA
1 ATTTAATCATCATACTCGAAAGACTTACTGATGGATTTACTTCACCACTCTTCAGTGAAGGCTTA
120608 AAAT
66 AAAT
120612 GGACTTGCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.06
80 59 0.94
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (79 bp):
ATTTAATCATCATACTCGAAAGACTTACTGATGGATTTACTTCACCACTCTTCAGTGAAGGCTTA
AAATTACCCGAAAG
Found at i:120623 original size:37 final size:37
Alignment explanation
Indices: 120573--120644 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
120563 AGACTTACTG
*
120573 ATGGATTTGCTTCACCACTCTTCAGTGAAGGCTTAAA
1 ATGGACTTGCTTCACCACTCTTCAGTGAAGGCTTAAA
* *
120610 ATGGACTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 ATGGACTTGCTTCACCACTCTTCAGTGAAGGCTTA
120645 GGATTGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (37 bp):
ATGGACTTGCTTCACCACTCTTCAGTGAAGGCTTAAA
Found at i:126151 original size:55 final size:54
Alignment explanation
Indices: 125993--126151 Score: 221
Period size: 55 Copynumber: 2.9 Consensus size: 54
125983 TTGAAAGAAA
* * *
125993 TCTTTGATCAACTTCAAACTTT-TTCATTCATCGGATGTCTTTATTCATAGATCGG
1 TCTTTAATCAA-TTCAAA-TTTCTTCATTCATCGGATGTCTTTCTTCATGGATCGG
* * *
126048 TCTTCAATCAGTTTCAAATTCCTTCATTCATCGGATGTCTTTCTTCATGGATCGG
1 TCTTTAATCA-ATTCAAATTTCTTCATTCATCGGATGTCTTTCTTCATGGATCGG
126103 TCTTTAATCAATGTCAAATTTCTTCATTCATCGGATGTCTTTCTTCATG
1 TCTTTAATCAAT-TCAAATTTCTTCATTCATCGGATGTCTTTCTTCATG
126152 AATCCTTTGA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
54 3 0.03
55 89 0.97
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (54 bp):
TCTTTAATCAATTCAAATTTCTTCATTCATCGGATGTCTTTCTTCATGGATCGG
Found at i:129922 original size:3 final size:3
Alignment explanation
Indices: 129908--129992 Score: 50
Period size: 3 Copynumber: 29.3 Consensus size: 3
129898 AGAAAATATA
* * * * * ** *
129908 AAT AAT ATT AAT AAT AAT ACT ACT AAT TAT TAT AAT -AT AAT TGT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
129955 AAT AAT AAT AAT -AT AAT AGT AAC AAT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
129993 TTATTTTTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
2 6 0.10
3 57 0.90
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:129954 original size:14 final size:15
Alignment explanation
Indices: 129931--129996 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
129921 ATAATACTAC
129931 TAATTATTATAAT-A
1 TAATTATTATAATAA
*
129945 TAATTGTTATAATAA
1 TAATTATTATAATAA
* *
129960 TAA-TAATATAATAG
1 TAATTATTATAATAA
**
129974 TAACAATTATAAT-A
1 TAATTATTATAATAA
129988 TAA-TATTAT
1 TAATTATTAT
129997 TTTTAAAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 5 0.12
14 26 0.62
15 11 0.26
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (15 bp):
TAATTATTATAATAA
Found at i:129985 original size:23 final size:23
Alignment explanation
Indices: 129932--129987 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
129922 TAATACTACT
* * * *
129932 AATTATTATAATATAATTGTTAT
1 AATTATAATAATATAATAGTAAC
*
129955 AATAATAATAATATAATAGTAAC
1 AATTATAATAATATAATAGTAAC
129978 AATTATAATA
1 AATTATAATA
129988 TAATATTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
AATTATAATAATATAATAGTAAC
Found at i:130314 original size:21 final size:23
Alignment explanation
Indices: 130290--130334 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
130280 TCAAACGATC
130290 AAAAAC-TATCA-AAAGGCAGAG
1 AAAAACGTATCATAAAGGCAGAG
* *
130311 AAAAACGTGTTATAAAGGCAGAG
1 AAAAACGTATCATAAAGGCAGAG
130334 A
1 A
130335 TAAATGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 11 0.55
ACGTcount: A:0.53, C:0.11, G:0.22, T:0.13
Consensus pattern (23 bp):
AAAAACGTATCATAAAGGCAGAG
Found at i:130329 original size:23 final size:23
Alignment explanation
Indices: 130301--130345 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
130291 AAAACTATCA
130301 AAAGGCAGAGAAAAACGTGTTAT
1 AAAGGCAGAGAAAAACGTGTTAT
* *
130324 AAAGGCAGAGATAAATGTGTTA
1 AAAGGCAGAGAAAAACGTGTTA
130346 CAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (23 bp):
AAAGGCAGAGAAAAACGTGTTAT
Found at i:131273 original size:24 final size:22
Alignment explanation
Indices: 131238--131282 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
131228 GGGGTGTTTA
131238 TTTTTTAAAATTATAATATTAAG
1 TTTTTTAAAATTA-AATATTAAG
* *
131261 TTTTTTATGAATTAAATTTTAA
1 TTTTTTA-AAATTAAATATTAA
131283 AAATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTTTAAAATTAAATATTAAG
Found at i:136192 original size:20 final size:19
Alignment explanation
Indices: 136167--136234 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
136157 TTATATTTTT
136167 TATTATTATATTTATATAAA
1 TATTATT-TATTTATATAAA
*
136187 TATTATTT-TTTTTATTAAA
1 TATTATTTATTTATA-TAAA
*
136206 -ATTA--TATTTATATAAT
1 TATTATTTATTTATATAAA
136222 TATTATTTATTTA
1 TATTATTTATTTA
136235 AATTAGTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 4 0.10
17 9 0.22
18 9 0.22
19 11 0.28
20 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTTATTTATATAAA
Found at i:136218 original size:29 final size:29
Alignment explanation
Indices: 136160--136239 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
136150 ATAGTTGTTA
* *
136160 TATTTTTTATTATTATATTTATATAAATAT
1 TATTTTTT-TTATTAAAATTATATAAATAT
**
136190 TATTTTTTTTATTAAAATTATATTTATAT
1 TATTTTTTTTATTAAAATTATATAAATAT
* * *
136219 AATTATTATTTATTTAAATTA
1 TATT-TTTTTTATTAAAATTA
136240 GTTAATTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTTTTTTATTAAAATTATATAAATAT
Found at i:138062 original size:21 final size:22
Alignment explanation
Indices: 138014--138055 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
138004 TTCCTCTCTG
* *
138014 CAGGGTTACATTCCTAGCCTGC
1 CAGGGTTACATACCTAGCCCGC
138036 CA-GGTTACATACCTAGCCCG
1 CAGGGTTACATACCTAGCCCG
138056 TAGGGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (22 bp):
CAGGGTTACATACCTAGCCCGC
Found at i:138722 original size:14 final size:14
Alignment explanation
Indices: 138697--138733 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
138687 GTATGATTTT
138697 ATTGATAACATATAC
1 ATTGA-AACATATAC
138712 ATTGAAACATATAC
1 ATTGAAACATATAC
*
138726 ATTAAAAC
1 ATTGAAAC
138734 CAACTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (14 bp):
ATTGAAACATATAC
Found at i:138900 original size:63 final size:64
Alignment explanation
Indices: 138801--138928 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 64
138791 TCATGCTCAT
* * *
138801 AACCAACTTATCATTTCACATTTATTCAATTTATCCATAACATTTTATGCAATATATTCA-AAC
1 AACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCATAAC
* *
138864 AACCAACTGATCACTTCACATTTATTTAATTTATCCATAACATTTTATCCAATTTATTCATAAC
1 AACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCATAAC
138928 A
1 A
138929 TTTTATCCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 55 0.93
64 4 0.07
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.40
Consensus pattern (64 bp):
AACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCATAAC
Found at i:138944 original size:23 final size:23
Alignment explanation
Indices: 138891--138946 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
138881 ACATTTATTT
*
138891 AATTTATCCATAACATTTTATCC
1 AATTTATTCATAACATTTTATCC
138914 AATTTATTCATAACATTTTATCC
1 AATTTATTCATAACATTTTATCC
138937 AATTTATTCA
1 AATTTATTCA
138947 AACTTCCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTTATTCATAACATTTTATCC
Found at i:139376 original size:115 final size:115
Alignment explanation
Indices: 138992--139651 Score: 980
Period size: 117 Copynumber: 5.7 Consensus size: 115
138982 ATCCAATTTC
* * * *
138992 ACATGAGTGATATAATAGGACAATGATAGCATATTCTCTGACAAAATAATGGAATGCG-CCCCCG
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCG
* *
139056 GGGACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCACCCGAGGG
66 GGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTTC-CCCGAGGG
* * **
139107 ACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATGATAAAAGGCGCCCCCTC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCC-C
* * * * *
139172 GAGAACGCGCTTTCACCACTTTGGGTACTGACATAAATAGTTCTTCGGGGGG
65 GGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTTC-CCCGAGGG
* *
139224 ACATGAGTGACATAATAGGGCAATGGTAACATATTCTCTGACAAAATAATGGAAGGCGCCCCTCG
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCG
* * *
139289 GGAACGCGCTTTCACCACTTTGGGTATTAACATGAATAGTTCCCCAAGGG
66 GGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTTCCCCGAGGG
*
139339 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACAAAATAATGGAAGGCGCCCCCCG
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCG
*
139404 GGAACGCGCTTTCACCACTTTGGGTACTGATATGAATAGTTCCCCCGAGGG
66 GGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTT-CCCCGAGGG
* *
139455 ACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGGAAGGTGCCCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAA-G-GCGCCCCC
* * *
139520 CGGGAATGCGCTTTCACCACTTTGGGTACTGATATGAATAGTACCCCGAGGG
64 CGGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTTCCCCGAGGG
* *
139572 ACATGAGTGATATAATAGGGCAATGATAACATATTATCTGACAAAATAATGGAAGGCGCCCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCG-CCCCCC
*
139637 GGGAACGCGCCTTCA
65 GGGAACGCGCTTTCA
139652 TGTGAATAGT
Statistics
Matches: 495, Mismatches: 44, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
115 158 0.32
116 124 0.25
117 165 0.33
118 48 0.10
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (115 bp):
ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCG
GGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTTCCCCGAGGG
Found at i:139628 original size:348 final size:348
Alignment explanation
Indices: 138992--139651 Score: 1027
Period size: 348 Copynumber: 1.9 Consensus size: 348
138982 ATCCAATTTC
* * * *
138992 ACATGAGTGATATAATAGGACAATGATAGCATATTCTCTGACAAAATAATGGAATGCGCCCCCGG
1 ACATGAGTGACATAATAGGACAATGATAACATATTCTCTAACAAAATAATGGAAGGCGCCCCCGG
*
139057 GGACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCACCCGAGGGACATGAGTGACATAA
66 GAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCACCCGAGGGACATGAGTGACATAA
* * *
139122 TAGGACAATGATAACATATTCTCTGACAAAATGATAAAAGGCGCCCCCTCGAGAACGCGCTTTCA
131 TAGGACAATGATAACATATTATCTGACAAAATAATAAAAGGCGCCCCCCCGAGAACGCGCTTTCA
* * * * *
139187 CCACTTTGGGTACTGACATAAATAGTTCTTCGGGGGGACATGAGTGACATAATAGGGCAATGGTA
196 CCACTTTGGGTACTGACATAAATAGTACTCCCGAGGGACATGAGTGACATAATAGGGCAATGATA
* * *
139252 ACATATTCTCTGACAAAATAATGGAAGGCG-CCCCTCGGGAACGCGCTTTCACCACTTTGGGTAT
261 ACATATTATCTGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCACCACTTTGGGTAT
139316 TAACATGAATAGTTCCCCAAGGG
326 TAACATGAATAGTTCCCCAAGGG
*
139339 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACAAAATAATGGAAGGCGCCCCCCG
1 ACATGAGTGACATAATAGGACAATGATAACATATTCTCTAACAAAATAATGGAAGGCG-CCCCCG
* * *
139404 GGAACGCGCTTTCACCACTTTGGGTACTGATATGAATAGTTCCCCCGAGGGACATGAGTGACATA
65 GGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCACCCGAGGGACATGAGTGACATA
* ** * * *
139469 ATAGGGCAATGATAACATATTATCTGACAAAATAATGGAAGGTGCCCCCCCCGGGAATGCGCTTT
130 ATAGGACAATGATAACATATTATCTGACAAAATAATAAAAGGCG-CCCCCCCGAGAACGCGCTTT
* * *
139534 CACCACTTTGGGTACTGATATGAATAGTAC-CCCGAGGGACATGAGTGATATAATAGGGCAATGA
194 CACCACTTTGGGTACTGACATAAATAGTACTCCCGAGGGACATGAGTGACATAATAGGGCAATGA
139598 TAACATATTATCTGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCA
259 TAACATATTATCTGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCA
139652 TGTGAATAGT
Statistics
Matches: 281, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
347 53 0.19
348 165 0.59
349 63 0.22
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (348 bp):
ACATGAGTGACATAATAGGACAATGATAACATATTCTCTAACAAAATAATGGAAGGCGCCCCCGG
GAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCACCCGAGGGACATGAGTGACATAA
TAGGACAATGATAACATATTATCTGACAAAATAATAAAAGGCGCCCCCCCGAGAACGCGCTTTCA
CCACTTTGGGTACTGACATAAATAGTACTCCCGAGGGACATGAGTGACATAATAGGGCAATGATA
ACATATTATCTGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCACCACTTTGGGTAT
TAACATGAATAGTTCCCCAAGGG
Found at i:142724 original size:26 final size:26
Alignment explanation
Indices: 142679--142764 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
142669 ATATTATATA
*
142679 AATTATTTATATTGTAATTTTATAAAAT
1 AATTAATTATATT-T-ATTTTATAAAAT
* * *
142707 GATTAATTATATTTATTTAATATAAT
1 AATTAATTATATTTATTTTATAAAAT
142733 AATTAA-TATTATTTA--TTATAAAA-
1 AATTAATTA-TATTTATTTTATAAAAT
142756 AATT-ATTAT
1 AATTAATTAT
142765 TAATTTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 6 0.12
24 6 0.12
25 2 0.04
26 21 0.43
27 1 0.02
28 11 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTAATTATATTTATTTTATAAAAT
Found at i:142735 original size:22 final size:22
Alignment explanation
Indices: 142710--142753 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
142700 ATAAAATGAT
142710 TAATT-ATATTTATTTAATATAA
1 TAATTAATA-TTATTTAATATAA
*
142732 TAATTAATATTATTTATTATAA
1 TAATTAATATTATTTAATATAA
142754 AAAATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTAATATTATTTAATATAA
Found at i:142764 original size:20 final size:20
Alignment explanation
Indices: 142739--142780 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
142729 TAATAATTAA
*
142739 TATTATTTATTATAAAAAAT
1 TATTATTAATTATAAAAAAT
* *
142759 TATTATTAATTTTAAAATAT
1 TATTATTAATTATAAAAAAT
142779 TA
1 TA
142781 AAATAATTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATTAATTATAAAAAAT
Found at i:143302 original size:21 final size:21
Alignment explanation
Indices: 143251--143303 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
143241 GTTATGACTA
143251 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
143272 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
143293 TCGCAATGCGA
1 TCGCAATGCGA
143304 ATTTGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:143344 original size:20 final size:20
Alignment explanation
Indices: 143321--143467 Score: 161
Period size: 20 Copynumber: 7.3 Consensus size: 20
143311 AAATCGTAAT
*
143321 GCGATACTGACTATCGCAAC
1 GCGATACTGACTTTCGCAAC
* **
143341 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TTTCGCAAC
*
143362 GAGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
143382 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
* *
143402 GCAATTCTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
*
143422 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTTTCGCAAC
* * *
143442 GAGATTCTGACTATCGCAAC
1 GCGATACTGACTTTCGCAAC
*
143462 GAGATA
1 GCGATA
143468 ATACAGAATC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 93 0.84
21 14 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (20 bp):
GCGATACTGACTTTCGCAAC
Found at i:143640 original size:12 final size:12
Alignment explanation
Indices: 143621--143654 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
143611 CTCTCCGGCG
143621 ACATCCGTTCCT
1 ACATCCGTTCCT
*
143633 ATATCCGTTCCT
1 ACATCCGTTCCT
143645 ACATCC-TTCC
1 ACATCCGTTCC
143655 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:144236 original size:24 final size:24
Alignment explanation
Indices: 144209--144262 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
144199 GTATTCAAAA
144209 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
144233 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
144257 TTTGAT
1 TTTGAT
144263 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:144454 original size:12 final size:12
Alignment explanation
Indices: 144437--144461 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
144427 ATATAATCCT
144437 GAAGAAGAAAAA
1 GAAGAAGAAAAA
144449 GAAGAAGAAAAA
1 GAAGAAGAAAAA
144461 G
1 G
144462 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:146792 original size:20 final size:19
Alignment explanation
Indices: 146763--146817 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
146753 CAATCATCTT
*
146763 AATGTATATCGCAACGCGGA
1 AATGAATATCGCAACGC-GA
* *
146783 AATGACTATCGCAATGCGA
1 AATGAATATCGCAACGCGA
*
146802 AATGAAAATCGCAACG
1 AATGAATATCGCAACG
146818 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGAATATCGCAACGCGA
Found at i:146864 original size:19 final size:18
Alignment explanation
Indices: 146837--146900 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
146827 CAATGCGAAA
146837 TCGCGTTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
**
146856 TCGCTTTGCGA--TTC-CC
1 TCGC-TTGCGATTTTCATT
146872 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
146889 TCGCATTGCGAT
1 TCGC-TTGCGAT
146901 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 6 0.17
16 6 0.17
17 6 0.17
19 17 0.49
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:147026 original size:14 final size:14
Alignment explanation
Indices: 147007--147043 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
146997 CATCAATTAA
147007 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
147021 ACAAATCATCTTTT
1 ACAAATCAACTTTT
147035 ACAAATCAA
1 ACAAATCAA
147044 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:148248 original size:20 final size:20
Alignment explanation
Indices: 148203--148262 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
148193 TCTTTTGGTT
*
148203 GAAATGAAAATCACAACGA-
1 GAAATGAAAATCGCAACGAG
148222 GATAATGAAAATCGCAACGAG
1 GA-AATGAAAATCGCAACGAG
**
148243 GAAATGACTATCGCAACGAG
1 GAAATGAAAATCGCAACGAG
148263 AGAATTGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGAG
Found at i:148281 original size:33 final size:33
Alignment explanation
Indices: 148231--148357 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
148221 AGATAATGAA
* **
148231 AATCGCAACGAGGAAATGACTATCGCAACGAGAG
1 AATCGCAACG-CGAAATGAAAATCGCAACGAGAG
* **
148265 AATTGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
148298 AATCGCAACGCAAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
148331 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
148358 TGCGATTTTG
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
33 77 0.90
34 9 0.10
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:148304 original size:14 final size:14
Alignment explanation
Indices: 148252--148340 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
148242 GGAAATGACT
148252 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
* *
148266 ATTGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
148283 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
148299 ATCGCAACGCAAAATGAAA
1 ATCGCAACG----A-GAGA
148318 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
148332 ATCGCAACG
1 ATCGCAACG
148341 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 27 0.46
15 1 0.02
16 6 0.10
17 6 0.10
18 1 0.02
19 18 0.31
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:148362 original size:19 final size:19
Alignment explanation
Indices: 148203--148362 Score: 80
Period size: 19 Copynumber: 9.1 Consensus size: 19
148193 TCTTTTGGTT
* *
148203 GAAATGAAAATCACAACGA
1 GAAATGAAAATCGCAACGC
*
148222 GATAATGAAAATCGCAACGAG
1 GA-AATGAAAATCGCAACG-C
**
148243 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
148260 G--A-GAGAATTGCAACGC
1 GAAATGAAAATCGCAACGC
**
148276 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
148293 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
148309 AAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
148326 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
148342 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
148361 GA
1 GA
148363 TTTTGGTTTC
Statistics
Matches: 105, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
14 27 0.26
15 3 0.03
16 5 0.05
17 4 0.04
18 3 0.03
19 34 0.32
20 27 0.26
21 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:149219 original size:11 final size:11
Alignment explanation
Indices: 149199--149234 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
149189 ATATTGATAC
*
149199 ATAATATATTA
1 ATAATTTATTA
149210 ATAATTTATTA
1 ATAATTTATTA
149221 ATAATTTA-TA
1 ATAATTTATTA
149231 ATAA
1 ATAA
149235 CAATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTTATTA
Done.