Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:428 original size:3 final size:3
Alignment explanation
Indices: 420--452 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
410 AATTAAGATA
420 AAT AAT AAT AAT AAT AAT AAT -AT AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
453 GTTTTTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:696 original size:40 final size:42
Alignment explanation
Indices: 599--717 Score: 125
Period size: 40 Copynumber: 2.9 Consensus size: 42
589 TTTGGGGACA
* *
599 ACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGTG
1 ACACGGCTCATACGTGATGAAGAGATCTGGTCATCT-AGGATG
* * * *
642 ACACGGCTCCTACGTGATGAGGAGATTTGGTCA-GT-GGATG
1 ACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAGGATG
* * * *
682 ACACGACTCATACGTGAAGAAGAGTTCTGGCCATCT
1 ACACGGCTCATACGTGATGAAGAGATCTGGTCATCT
718 TTAGGAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
40 30 0.49
41 1 0.02
42 1 0.02
43 29 0.48
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (42 bp):
ACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAGGATG
Found at i:1074 original size:29 final size:31
Alignment explanation
Indices: 1039--1101 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
1029 GGAGACAAAC
1039 TTTG-TTTT-AAGAGAAACAGACTCAAAGAT
1 TTTGTTTTTCAAGAGAAACAGACTCAAAGAT
*
1068 TTTGTTTTTCAAGAGAAATAGACTCAAAGAT
1 TTTGTTTTTCAAGAGAAACAGACTCAAAGAT
1099 TTT
1 TTT
1102 ATGTTCTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 4 0.13
31 23 0.74
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTGTTTTTCAAGAGAAACAGACTCAAAGAT
Found at i:1115 original size:30 final size:31
Alignment explanation
Indices: 1047--1116 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
1037 ACTTTGTTTT
* *
1047 AAGAGAAACAGACTCAAAGATTTTGTTTTTC
1 AAGAGAAACAGACTCAAAGATTTTGATGTTC
*
1078 AAGAGAAATAGACTCAAAGATTTT-ATGTTC
1 AAGAGAAACAGACTCAAAGATTTTGATGTTC
*
1108 TAGAGAAAC
1 AAGAGAAAC
1117 TGCCTCAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (31 bp):
AAGAGAAACAGACTCAAAGATTTTGATGTTC
Found at i:1124 original size:30 final size:31
Alignment explanation
Indices: 1047--1124 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
1037 ACTTTGTTTT
* * *
1047 AAGAGAAACAGACTCAAAGATTTTGTTTTTC
1 AAGAGAAACTGACTCAAAGATTTTGATGTTC
1078 AAGAGAAA-TAGACTCAAAGATTTT-ATGTTC
1 AAGAGAAACT-GACTCAAAGATTTTGATGTTC
* *
1108 TAGAGAAACTGCCTCAA
1 AAGAGAAACTGACTCAA
1125 GGGAGACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 17 0.43
31 23 0.57
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (31 bp):
AAGAGAAACTGACTCAAAGATTTTGATGTTC
Found at i:1357 original size:36 final size:34
Alignment explanation
Indices: 1317--1409 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 34
1307 ATGCTTAAGT
*
1317 GAGACGAAAATTAT-TTTGAAAGAAATTGTCTCAAGC
1 GAGAC-AAAATT-TGTTTGAAA-AAACTGTCTCAAGC
* *
1353 GAGACAAAATTTGTTTTATAAAACTGTCTCAAGC
1 GAGACAAAATTTGTTTGAAAAAACTGTCTCAAGC
1387 GAGAC-AAATTTAGTTTCGAAAAA
1 GAGACAAAATTT-GTTT-GAAAAA
1410 CAACATCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
33 6 0.12
34 23 0.47
35 15 0.31
36 5 0.10
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (34 bp):
GAGACAAAATTTGTTTGAAAAAACTGTCTCAAGC
Found at i:7347 original size:30 final size:30
Alignment explanation
Indices: 7246--7433 Score: 163
Period size: 30 Copynumber: 6.4 Consensus size: 30
7236 AAATATAAGC
* *
7246 AAAGGACCAAAATACCACAAAAT-G-AATTT
1 AAAGGACTAAAATAGCA-AAAATAGAAATTT
* * * * **
7275 AAAGGTCCACAATAG-AAAAACA-AAGCTT
1 AAAGGACTAAAATAGCAAAAATAGAAATTT
* *
7303 AAGGGACTAGAATAGCAAAAATA-AAATGTT
1 AAAGGACTAAAATAGCAAAAATAGAAAT-TT
* *
7333 AAAGGACTAAAATAGTAAAAATAGAAACTT
1 AAAGGACTAAAATAGCAAAAATAGAAATTT
* * * *
7363 AAAGGGCTAAAACAACAAAAACA-AATATTT
1 AAAGGACTAAAATAGCAAAAATAGAA-ATTT
7393 AAAGGACTAAAATAGCAAAAATAGAAATTT
1 AAAGGACTAAAATAGCAAAAATAGAAATTT
7423 AAAGGACTAAA
1 AAAGGACTAAA
7434 CTGATATTAA
Statistics
Matches: 125, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
27 4 0.03
28 15 0.12
29 22 0.18
30 79 0.63
31 5 0.04
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.18
Consensus pattern (30 bp):
AAAGGACTAAAATAGCAAAAATAGAAATTT
Found at i:7395 original size:60 final size:60
Alignment explanation
Indices: 7300--7433 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 60
7290 AAAAACAAAG
* * * * * *
7300 CTTAAGGGACTAGAATAGCAAAAATAAAATGTTAAAGGACTAAAATAGTAAAAATAGAAA
1 CTTAAAGGACTAAAACAACAAAAACAAAATGTTAAAGGACTAAAATAGCAAAAATAGAAA
*
7360 CTTAAAGGGCTAAAACAACAAAAACAAATAT-TTAAAGGACTAAAATAGCAAAAATAGAAA
1 CTTAAAGGACTAAAACAACAAAAACAAA-ATGTTAAAGGACTAAAATAGCAAAAATAGAAA
*
7420 TTTAAAGGACTAAA
1 CTTAAAGGACTAAA
7434 CTGATATTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 62 0.97
61 2 0.03
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.19
Consensus pattern (60 bp):
CTTAAAGGACTAAAACAACAAAAACAAAATGTTAAAGGACTAAAATAGCAAAAATAGAAA
Found at i:7470 original size:90 final size:90
Alignment explanation
Indices: 7301--7471 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 90
7291 AAAACAAAGC
* * * *
7301 TTAAGGGACTAGAATAGCAAAAATAAAATGTTAAAGGACTAAAATAGTAAAAATAGAAACTTAAA
1 TTAAAGGACTAAAATAGCAAAAATAAAATGTTAAAGGACTAAAATAGTAAAAACAGAAACTGAAA
*
7366 GGGCTAAAACAACAAAAACAAATAT
66 GGCCTAAAACAACAAAAACAAATAT
* **
7391 TTAAAGGACTAAAATAGCAAAAATAGAAAT-TTAAAGGACTAAACT-GATATTAACAGAAACTGA
1 TTAAAGGACTAAAATAGCAAAAATA-AAATGTTAAAGGACTAAAATAG-TAAAAACAGAAACTGA
*
7454 AAGGACCTAATA-AACAAA
64 AAGG-CCTAAAACAACAAA
7472 TATGAACAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 1 0.01
90 59 0.86
91 9 0.13
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (90 bp):
TTAAAGGACTAAAATAGCAAAAATAAAATGTTAAAGGACTAAAATAGTAAAAACAGAAACTGAAA
GGCCTAAAACAACAAAAACAAATAT
Found at i:8865 original size:3 final size:3
Alignment explanation
Indices: 8857--8906 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
8847 AATTAAGATA
8857 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT -AT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
8901 AAT AAT
1 AAT AAT
8907 GTTTTTATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:10500 original size:19 final size:20
Alignment explanation
Indices: 10456--10502 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10446 CTAAATCAAT
* *
10456 TTTCAAAATTTCATTTTGTT
1 TTTCAAAATTACATTTTGTC
*
10476 TTTCAAAATTAGATTTT-TC
1 TTTCAAAATTACATTTTGTC
10495 TTTCAAAA
1 TTTCAAAA
10503 CCAAATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTCAAAATTACATTTTGTC
Found at i:19876 original size:13 final size:13
Alignment explanation
Indices: 19860--19942 Score: 53
Period size: 13 Copynumber: 6.0 Consensus size: 13
19850 AAATTAAAAG
19860 AATATAATAAATA
1 AATATAATAAATA
19873 AATATAATAATAATTA
1 AATATAAT-A-AA-TA
* *
19889 ATAGTATTAATTATTA
1 A-A-TA-TAATAAATA
19905 AATATAATAAATA
1 AATATAATAAATA
* *
19918 ATTAAAATATAAT-
1 AATATAATA-AATA
19931 AATAT-ATAAATA
1 AATATAATAAATA
19943 TAGTAATTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
11 3 0.06
12 3 0.06
13 25 0.46
14 6 0.11
15 3 0.06
16 6 0.11
17 2 0.04
18 2 0.04
19 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (13 bp):
AATATAATAAATA
Found at i:19884 original size:16 final size:16
Alignment explanation
Indices: 19863--19949 Score: 77
Period size: 16 Copynumber: 5.3 Consensus size: 16
19853 TTAAAAGAAT
19863 ATAATAAATAAATATA
1 ATAATAAATAAATATA
*
19879 ATAAT-AATTAATAGTA
1 ATAATAAATAAATA-TA
* * *
19895 TTAATTATTAAATATA
1 ATAATAAATAAATATA
*
19911 ATAAATAATTAAAATATA
1 AT-AATAAAT-AAATATA
*
19929 ATAATATATAAATATA
1 ATAATAAATAAATATA
*
19945 GTAAT
1 ATAAT
19950 TAGAATAGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
15 7 0.12
16 25 0.43
17 17 0.29
18 9 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATAATAAATAAATATA
Found at i:20412 original size:21 final size:21
Alignment explanation
Indices: 20388--20427 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20378 TTTATTTTTA
20388 CTATTTATTTATTG-ATTTAGT
1 CTATTTATTT-TTGTATTTAGT
*
20409 CTATTTGTTTTTGTATTTA
1 CTATTTATTTTTGTATTTA
20428 AATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (21 bp):
CTATTTATTTTTGTATTTAGT
Found at i:24094 original size:23 final size:22
Alignment explanation
Indices: 24045--24095 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
24035 AAGTATGAGA
*
24045 AGAAA-AAAATTTTATATATTT
1 AGAAATAAAATTTTATATAGTT
* *
24066 ATAAATAAAATATTTATTTAGTT
1 AGAAATAAAAT-TTTATATAGTT
24089 AGAAATA
1 AGAAATA
24096 TCAGAAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (22 bp):
AGAAATAAAATTTTATATAGTT
Found at i:25776 original size:3 final size:3
Alignment explanation
Indices: 25768--25807 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
25758 TTATTGTTTA
25768 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
25808 TTTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35914 original size:21 final size:22
Alignment explanation
Indices: 35879--35958 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
35869 TTGGTGCAGA
*
35879 GGGAATCGA-TCCCCCCATGA-
1 GGGAACCGATTCCCCCCATGAG
**
35899 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATG-AG
*
35922 GGGAACCGATTCCCCACAT-AG
1 GGGAACCGATTCCCCCCATGAG
* *
35943 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
35959 TGGGGTTCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.17
21 23 0.48
22 1 0.02
23 16 0.33
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCATGAG
Found at i:41664 original size:29 final size:28
Alignment explanation
Indices: 41610--41663 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
41600 ACCTTTGCAT
*
41610 ATTTTTCTTGCCATGACAAAACTTTTCA
1 ATTTTTCTTGCCACGACAAAACTTTTCA
* *
41638 ATTTTTCTTGCCCCGACCAAACTTTT
1 ATTTTTCTTGCCACGACAAAACTTTT
41664 TTCATCTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (28 bp):
ATTTTTCTTGCCACGACAAAACTTTTCA
Found at i:45049 original size:2 final size:2
Alignment explanation
Indices: 45042--45068 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45032 AATAATTTTA
45042 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 A
45069 CTTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50982 original size:18 final size:18
Alignment explanation
Indices: 50938--50982 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
50928 ATTTCTTATT
*
50938 TGGAGGAAGCACATGAAA
1 TGGAGGAAACACATGAAA
50956 TGGCA-GAAACACATGAAA
1 TGG-AGGAAACACATGAAA
50974 TGGAGGAAA
1 TGGAGGAAA
50983 TGTCTCGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.47, C:0.11, G:0.31, T:0.11
Consensus pattern (18 bp):
TGGAGGAAACACATGAAA
Found at i:56900 original size:29 final size:29
Alignment explanation
Indices: 56858--56948 Score: 182
Period size: 29 Copynumber: 3.1 Consensus size: 29
56848 ATCCCTTATA
56858 TGAACACAAACTGTAGAATTTGGGATCTT
1 TGAACACAAACTGTAGAATTTGGGATCTT
56887 TGAACACAAACTGTAGAATTTGGGATCTT
1 TGAACACAAACTGTAGAATTTGGGATCTT
56916 TGAACACAAACTGTAGAATTTGGGATCTT
1 TGAACACAAACTGTAGAATTTGGGATCTT
56945 TGAA
1 TGAA
56949 TACCAACAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (29 bp):
TGAACACAAACTGTAGAATTTGGGATCTT
Found at i:62735 original size:12 final size:12
Alignment explanation
Indices: 62718--62742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62708 ATCACTATTC
62718 ACTGCTACAGTA
1 ACTGCTACAGTA
62730 ACTGCTACAGTA
1 ACTGCTACAGTA
62742 A
1 A
62743 TTTCAGCAAA
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ACTGCTACAGTA
Found at i:65871 original size:14 final size:15
Alignment explanation
Indices: 65844--65876 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65834 AAATTTACTT
65844 AATTAACACATCAAC
1 AATTAACACATCAAC
*
65859 AATTAAC-CATCAAT
1 AATTAACACATCAAC
65873 AATT
1 AATT
65877 CAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTAACACATCAAC
Found at i:65876 original size:61 final size:61
Alignment explanation
Indices: 65785--65901 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
65775 TAAAAATTAC
* * * * *
65785 TTAACTCATCAACAATTAATAGTGAGTAATTCGATTAAAATTATA-TTAAAAATTTACTTAA
1 TTAACACATCAACAATTAACAGTCAATAATTCAATTAAAATTA-ACTTAAAAATTTACTTAA
*
65846 TTAACACATCAACAATTAACCA-TCAATAATTCAATTAAAATTAACTTAAAACTTTA
1 TTAACACATCAACAATTAA-CAGTCAATAATTCAATTAAAATTAACTTAAAAATTTA
65902 TAATTTGAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 1 0.02
61 46 0.96
62 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (61 bp):
TTAACACATCAACAATTAACAGTCAATAATTCAATTAAAATTAACTTAAAAATTTACTTAA
Found at i:69616 original size:24 final size:24
Alignment explanation
Indices: 69587--69643 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
69577 AAACTAGGCG
69587 TGATGAAGAACTTGAACATGATGA
1 TGATGAAGAACTTGAACATGATGA
69611 TGATGAAGAACTTGAACATGATGA
1 TGATGAAGAACTTGAACATGATGA
69635 TGATGAAGA
1 TGATGAAGA
69644 TCGAATATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (24 bp):
TGATGAAGAACTTGAACATGATGA
Found at i:78770 original size:20 final size:20
Alignment explanation
Indices: 78726--78780 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
78716 AAATTTTCCT
*
78726 GAGTTTCGAAACTATCTCAA
1 GAGTTTCGAAACTTTCTCAA
*
78746 GAGTTTCGAAACTTTCCTTAA
1 GAGTTTCGAAACTTT-CTCAA
*
78767 -AGTTTCGATACTTT
1 GAGTTTCGAAACTTT
78781 GGGTCCGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
GAGTTTCGAAACTTTCTCAA
Found at i:80373 original size:58 final size:58
Alignment explanation
Indices: 80247--80431 Score: 196
Period size: 58 Copynumber: 3.2 Consensus size: 58
80237 GACCCGACCC
* * * *
80247 AATGATATTTTAGGAATTATTTTGAAAAA-GGTGACATTTTGGGAATTATTTTGAAAA
1 AATGATATTTTGGGAATTATTTTTAAAAACGGTGACATTTTGGTAATTATTTTTAAAA
* * * **
80304 AGGTAACATTTTGGGAATT-TTTTTAAAAACATTGACATTTTGGTAATTATTTTTAAAA
1 A-ATGATATTTTGGGAATTATTTTTAAAAACGGTGACATTTTGGTAATTATTTTTAAAA
* * * *
80362 CAATGATATTTTGGGAATTATTTGT-ATAACGGTGATATTTTTGTAATTATTTTTAATAA
1 -AATGATATTTTGGGAATTATTTTTAAAAACGGTGACATTTTGGTAATTATTTTTAA-AA
*
80421 AGTGATATTTT
1 AATGATATTTT
80432 TGTAATTTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
57 10 0.10
58 87 0.84
59 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (58 bp):
AATGATATTTTGGGAATTATTTTTAAAAACGGTGACATTTTGGTAATTATTTTTAAAA
Found at i:80431 original size:87 final size:87
Alignment explanation
Indices: 80249--80438 Score: 199
Period size: 87 Copynumber: 2.2 Consensus size: 87
80239 CCCGACCCAA
*
80249 TGATATTTTAGG-AATTATTTTGAAAAAGGTGACATTTTGGGAATTATTTTGAAAAAGGTAACAT
1 TGATATTTT-GGTAATTATTTTGAAAAAGATGACATTTTGGGAATTATTTTGAAAAAGGTAACAT
*
80313 TTTGGGAATTTTTTTAAAAACAT
65 TTTGGGAATTTTTTTAAAAACAG
* * * * * * *
80336 TGACATTTTGGTAATTATTTTTAAAACA-ATGATATTTTGGGAATTA-TTTGTATAACGGTGATA
1 TGATATTTTGGTAATTATTTTGAAAA-AGATGACATTTTGGGAATTATTTTG-AAAAAGGTAACA
* * *
80399 TTTTTGTAATTATTTTTAATAA-AG
64 TTTTGGGAATT-TTTTTAAAAACAG
*
80423 TGATATTTTTGTAATT
1 TGATATTTTGGTAATT
80439 TTTGAATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
86 6 0.07
87 69 0.81
88 10 0.12
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (87 bp):
TGATATTTTGGTAATTATTTTGAAAAAGATGACATTTTGGGAATTATTTTGAAAAAGGTAACATT
TTGGGAATTTTTTTAAAAACAG
Found at i:80438 original size:29 final size:29
Alignment explanation
Indices: 80249--80431 Score: 167
Period size: 29 Copynumber: 6.3 Consensus size: 29
80239 CCCGACCCAA
* *
80249 TGATATTTTAGGAATTATTTTGAAAA-AGG
1 TGATATTTTGGGAATTATTTTTAAAACA-G
* *
80278 TGACATTTTGGGAATTATTTTGAAAA-AGG
1 TGATATTTTGGGAATTATTTTTAAAACA-G
* * *
80307 TAACATTTTGGGAATT-TTTTTAAAAACAT
1 TGATATTTTGGGAATTATTTTT-AAAACAG
* * *
80336 TGACATTTTGGTAATTATTTTTAAAACAA
1 TGATATTTTGGGAATTATTTTTAAAACAG
* * *
80365 TGATATTTTGGGAATTATTTGTATAACGG
1 TGATATTTTGGGAATTATTTTTAAAACAG
* *
80394 TGATATTTTTGTAATTATTTTTAATAA-AG
1 TGATATTTTGGGAATTATTTTTAA-AACAG
80423 TGATATTTT
1 TGATATTTT
80432 TGTAATTTTT
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
28 4 0.03
29 119 0.91
30 8 0.06
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (29 bp):
TGATATTTTGGGAATTATTTTTAAAACAG
Found at i:83685 original size:21 final size:21
Alignment explanation
Indices: 83659--83700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
83649 ATGACGTGAC
*
83659 TGCTCATATTGGCACCATGGA
1 TGCTCATATTCGCACCATGGA
* *
83680 TGCTCATCTTCGCACCTTGGA
1 TGCTCATATTCGCACCATGGA
83701 GACTCATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (21 bp):
TGCTCATATTCGCACCATGGA
Found at i:84032 original size:22 final size:24
Alignment explanation
Indices: 83966--84035 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
83956 TATTTTCATA
* *
83966 TGGATATATTTTGGCCTATTATGT
1 TGGATATATCTTGGCTTATTATGT
* * *
83990 TGGATATATGTTGGATCATTAT-T
1 TGGATATATCTTGGCTTATTATGT
*
84013 TTG-TATATCTTGGCTTATTATGT
1 TGGATATATCTTGGCTTATTATGT
84036 CCTAATCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 15 0.41
23 4 0.11
24 18 0.49
ACGTcount: A:0.21, C:0.07, G:0.20, T:0.51
Consensus pattern (24 bp):
TGGATATATCTTGGCTTATTATGT
Found at i:84481 original size:20 final size:21
Alignment explanation
Indices: 84456--84496 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
84446 TTATCTCAAG
84456 TAAAAC-TATCATATG-ATATT
1 TAAAACATAT-ATATGTATATT
84476 TAAAACATATATATGTATATT
1 TAAAACATATATATGTATATT
84497 AATTACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAACATATATATGTATATT
Found at i:86000 original size:31 final size:32
Alignment explanation
Indices: 85935--86000 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
85925 CATTCACAAC
* * * *
85935 TTTTCCAAAATTATAAAATTAGTCCCCTATTT
1 TTTTCAAAAATTACAAAATTAGTCCCCAAATT
*
85967 TTTTCAAAAATTACAAAA-TGGTCCCCAAATT
1 TTTTCAAAAATTACAAAATTAGTCCCCAAATT
85998 TTT
1 TTT
86001 ATAAGGCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (32 bp):
TTTTCAAAAATTACAAAATTAGTCCCCAAATT
Found at i:88474 original size:2 final size:2
Alignment explanation
Indices: 88467--88492 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88457 ATGAAGCTTA
88467 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
88493 GTTTTAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89435 original size:9 final size:8
Alignment explanation
Indices: 89414--89474 Score: 95
Period size: 8 Copynumber: 7.2 Consensus size: 8
89404 ATTCGATTAA
89414 TTAAAAAT
1 TTAAAAAT
89422 TTAAAAAT
1 TTAAAAAT
89430 TATAAAAAT
1 T-TAAAAAT
89439 TTAAAAAT
1 TTAAAAAT
89447 TATAAAAAT
1 T-TAAAAAT
89456 TTAAAAAT
1 TTAAAAAT
89464 TATAAAAAT
1 T-TAAAAAT
89473 TT
1 TT
89475 TAATTTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
8 26 0.52
9 24 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAAAAT
Found at i:89437 original size:17 final size:17
Alignment explanation
Indices: 89415--89474 Score: 120
Period size: 17 Copynumber: 3.5 Consensus size: 17
89405 TTCGATTAAT
89415 TAAAAATTTAAAAATTA
1 TAAAAATTTAAAAATTA
89432 TAAAAATTTAAAAATTA
1 TAAAAATTTAAAAATTA
89449 TAAAAATTTAAAAATTA
1 TAAAAATTTAAAAATTA
89466 TAAAAATTT
1 TAAAAATTT
89475 TAATTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATTTAAAAATTA
Found at i:91046 original size:45 final size:45
Alignment explanation
Indices: 90994--91196 Score: 248
Period size: 45 Copynumber: 4.5 Consensus size: 45
90984 GAATACCATG
* * *
90994 AGTGGCACTTTTTATACTGATAATGCATC-GTTATGAATTTTCATT
1 AGTGGCACCTTTTATACCGATAATGCA-CAGTTATGCATTTTCATT
** * *
91039 AGTGGCACCTTTTATGTCGATAATGTACAGTTATGCCTTTTCATT
1 AGTGGCACCTTTTATACCGATAATGCACAGTTATGCATTTTCATT
* * * *
91084 ACTGCCACCTTTTATACCGAT-ATGCACTGTTATGTATTTTCATT
1 AGTGGCACCTTTTATACCGATAATGCACAGTTATGCATTTTCATT
*
91128 AGTGGCACCTTTTATGCCGATAATGCACAGTTATGCATTTTCATT
1 AGTGGCACCTTTTATACCGATAATGCACAGTTATGCATTTTCATT
* * *
91173 AGTGGCACATTTTATGCAGATAAT
1 AGTGGCACCTTTTATACCGATAAT
91197 TAGATTTAAA
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
44 38 0.28
45 96 0.72
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (45 bp):
AGTGGCACCTTTTATACCGATAATGCACAGTTATGCATTTTCATT
Found at i:91116 original size:89 final size:90
Alignment explanation
Indices: 91003--91196 Score: 275
Period size: 89 Copynumber: 2.2 Consensus size: 90
90993 GAGTGGCACT
* * *
91003 TTTTATACTGATAATGCATCGTTATGAATTTTCATTAGTGGCACCTTTTATGTCGATAATGTACA
1 TTTTATACCGATAATGCATCGTTATGAATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACA
* *
91068 GTTATGCCTTTTCATTACTGCCACC
66 GTTATGCATTTTCATTACTGCCACA
*
91093 TTTTATACCGAT-ATGCA-CTGTTATGTATTTTCATTAGTGGCACCTTTTATGCCGATAATGCAC
1 TTTTATACCGATAATGCATC-GTTATGAATTTTCATTAGTGGCACCTTTTATGCCGATAATGCAC
* *
91156 AGTTATGCATTTTCATTAGTGGCACA
65 AGTTATGCATTTTCATTACTGCCACA
* *
91182 TTTTATGCAGATAAT
1 TTTTATACCGATAAT
91197 TAGATTTAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 1 0.01
89 78 0.85
90 13 0.14
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (90 bp):
TTTTATACCGATAATGCATCGTTATGAATTTTCATTAGTGGCACCTTTTATGCCGATAATGCACA
GTTATGCATTTTCATTACTGCCACA
Found at i:97077 original size:21 final size:20
Alignment explanation
Indices: 97053--97095 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
97043 AAATTTTTGT
97053 TTTGAAAAT-AGATACAAAACA
1 TTTGAAAATAAGAT--AAAACA
*
97074 TTTGAATATAAGATAAAACA
1 TTTGAAAATAAGATAAAACA
97094 TT
1 TT
97096 CATTGTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (20 bp):
TTTGAAAATAAGATAAAACA
Found at i:97700 original size:26 final size:26
Alignment explanation
Indices: 97671--97791 Score: 67
Period size: 26 Copynumber: 5.2 Consensus size: 26
97661 TAATGCACAG
97671 TTATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAGTGGCACCTT
* **
97697 TTATGC-----CGA-TAAT-GCACAGT
1 TTATGCATTTTC-ATTAGTGGCACCTT
97717 T-ATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAGTGGCACCTT
* *
97742 TTATG-----TCGA-TAAT-GCACC-G
1 TTATGCATTTTC-ATTAGTGGCACCTT
97761 TTATGCATTTTCATTAGTGGCACCTT
1 TTATGCATTTTCATTAGTGGCACCTT
97787 TTATG
1 TTATG
97792 TCGATAATGC
Statistics
Matches: 67, Mismatches: 10, Indels: 36
0.59 0.09 0.32
Matches are distributed among these distances:
19 9 0.13
20 11 0.16
21 9 0.13
22 2 0.03
23 2 0.03
24 9 0.13
25 11 0.16
26 14 0.21
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (26 bp):
TTATGCATTTTCATTAGTGGCACCTT
Found at i:97783 original size:25 final size:25
Alignment explanation
Indices: 97710--97784 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
97700 TGCCGATAAT
*
97710 GCACAGTTATGCATTTTCATTAGTG
1 GCACCGTTATGCATTTTCATTAGTG
* * *
97735 GCACC-TT-T-TA-TGTCGA-TAAT-
1 GCACCGTTATGCATTTTC-ATTAGTG
97755 GCACCGTTATGCATTTTCATTAGTG
1 GCACCGTTATGCATTTTCATTAGTG
97780 GCACC
1 GCACC
97785 TTTTATGTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
20 5 0.14
21 8 0.22
22 3 0.08
23 3 0.08
24 8 0.22
25 9 0.25
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (25 bp):
GCACCGTTATGCATTTTCATTAGTG
Found at i:97816 original size:45 final size:45
Alignment explanation
Indices: 97596--97889 Score: 464
Period size: 45 Copynumber: 6.5 Consensus size: 45
97586 GAATACCACG
* *
97596 AGTGGCACCTTTTATG-CTGATAATTCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTC-GATAATGCACAGTTATGCATTTTCATT
*
97641 AGTGGCACCTTTTATGCCGATAATGCACAGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
*
97686 AGTGGCACCTTTTATGCCGATAATGCACAGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
*
97731 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
* *
97776 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGTATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
* *
97821 GGTGGCACCTTTTATTTCGATAATGCACAGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
* * *
97866 AATGACACCTTTTATATCGATAAT
1 AGTGGCACCTTTTATGTCGATAAT
97890 TATATTTAAA
Statistics
Matches: 235, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 234 1.00
46 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (45 bp):
AGTGGCACCTTTTATGTCGATAATGCACAGTTATGCATTTTCATT
Found at i:102558 original size:23 final size:23
Alignment explanation
Indices: 102448--102551 Score: 163
Period size: 23 Copynumber: 4.5 Consensus size: 23
102438 GAGTTGAAGG
102448 ATTCTATGTGGTCCTTCAGGACA
1 ATTCTATGTGGTCCTTCAGGACA
102471 ATTCTATGTGGTCCTTCAGGACA
1 ATTCTATGTGGTCCTTCAGGACA
*
102494 ATTCTATGTGGTCCTTCAGGATA
1 ATTCTATGTGGTCCTTCAGGACA
** *
102517 ATTCTATGTTTTCCTTCGGGACA
1 ATTCTATGTGGTCCTTCAGGACA
*
102540 AATCTATGTGGT
1 ATTCTATGTGGT
102552 AATTCGGTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
ATTCTATGTGGTCCTTCAGGACA
Found at i:105357 original size:43 final size:43
Alignment explanation
Indices: 105295--105615 Score: 371
Period size: 43 Copynumber: 7.5 Consensus size: 43
105285 CTAAAAACAC
* * *
105295 ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGT-GTGACAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT-AAAA
105338 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
* * *
105381 ACGCCGTAATAGGTATTGATATTTAGCGACGTTTGTCATAAAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
* * * * *
105424 ACGACGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGACAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
*
105467 ACGCTGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
* * * * *
105510 ACGTCGCAATAGGTGTTAATATTTAGCAGCGGTTT-TCAGACAA
1 ACGCCGCAATAGGTGTTGATATTTAGCGGC-GTTTGTCATAAAA
* * * *
105553 ACGCCGTAATAGGT-TATGATGTTTAGCGGCGTTTTTCGCT-AAA
1 ACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTGTC-ATAAAA
* *
105596 ACGACGCAGTAGGTGTTGAT
1 ACGCCGCAATAGGTGTTGAT
105616 GTCTTGCGAC
Statistics
Matches: 235, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
42 5 0.02
43 224 0.95
44 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
Found at i:105392 original size:86 final size:85
Alignment explanation
Indices: 105295--105615 Score: 414
Period size: 86 Copynumber: 3.7 Consensus size: 85
105285 CTAAAAACAC
* * *
105295 ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGT-GTGACAAACGCCGCAATAGGTGTTGATA
1 ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCAT-AAAAACGACGCAATAGGTGTTGATA
* * *
105359 TTTAGCGGCGTTTGTCATAAAA
65 TTTAGCAGCGTTT-TCAGACAA
* *
105381 ACGCCGTAATAGGTATTGATATTTAGCGACGTTTGTCATAAAAACGACGCAATAGGTGTTGATAT
1 ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGACGCAATAGGTGTTGATAT
105446 TTAGCAGCGTTTTTCAGACAA
66 TTAGCAGCG-TTTTCAGACAA
* * * *
105467 ACGCTGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAACGTCGCAATAGGTGTTAATAT
1 ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGACGCAATAGGTGTTGATAT
105532 TTAGCAGCGGTTTTCAGACAA
66 TTAGCAGC-GTTTTCAGACAA
* * * * *
105553 ACGCCGTAATAGGT-TATGATGTTTAGCGGCGTTTTTCGCT-AAAACGACGCAGTAGGTGTTGAT
1 ACGCCGCAATAGGTAT-TGATATTTAGCGGCGTTTGTC-ATAAAAACGACGCAATAGGTGTTGAT
105616 GTCTTGCGAC
Statistics
Matches: 208, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
85 1 0.00
86 201 0.97
87 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
ACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGACGCAATAGGTGTTGATAT
TTAGCAGCGTTTTCAGACAA
Found at i:105631 original size:43 final size:43
Alignment explanation
Indices: 105584--105667 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
105574 TTTAGCGGCG
*
105584 TTTTTCGCTA-AAACGACGCAGTAGGTGTTGATGTCTTGCGACA
1 TTTTTCGC-ACAAACGACGCAGTAGGTATTGATGTCTTGCGACA
** * *
105627 TTTTTTTCACAAACGCCGCAGTAGGTATTGATGTTTTGCGA
1 TTTTTCGCACAAACGACGCAGTAGGTATTGATGTCTTGCGA
105668 TGTTTCTGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.36
Consensus pattern (43 bp):
TTTTTCGCACAAACGACGCAGTAGGTATTGATGTCTTGCGACA
Found at i:106137 original size:23 final size:23
Alignment explanation
Indices: 106111--106178 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 23
106101 TGTCGCTGCT
106111 TCTCTCTGTGTTACCGCTAC-T-
1 TCTCTCTGTGTTACCGCTACTTC
* *
106132 TCTCTCTGTGCTACCGCTGCTTC
1 TCTCTCTGTGTTACCGCTACTTC
* * *
106155 TTTCTCTG-CTT-CCGCTACTGC
1 TCTCTCTGTGTTACCGCTACTTC
106176 TCT
1 TCT
106179 GGCTGCTGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 28 0.76
22 2 0.05
23 7 0.19
ACGTcount: A:0.06, C:0.37, G:0.15, T:0.43
Consensus pattern (23 bp):
TCTCTCTGTGTTACCGCTACTTC
Found at i:106164 original size:21 final size:21
Alignment explanation
Indices: 106084--106170 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
106074 CTTCTGATAT
* **
106084 GCTGCTTCTCTCTGTACTGTC
1 GCTGCTTCTCTCTGTGCTACC
*
106105 GCTGCTTCTCTCTGTGTTACC
1 GCTGCTTCTCTCTGTGCTACC
*
106126 GCTACTTCTCTCTGTGCTACC
1 GCTGCTTCTCTCTGTGCTACC
* * *
106147 GCTGCTTCTTTCTCTGCTTCC
1 GCTGCTTCTCTCTGTGCTACC
106168 GCT
1 GCT
106171 ACTGCTCTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.05, C:0.36, G:0.17, T:0.43
Consensus pattern (21 bp):
GCTGCTTCTCTCTGTGCTACC
Found at i:108760 original size:42 final size:42
Alignment explanation
Indices: 108711--108994 Score: 296
Period size: 42 Copynumber: 6.8 Consensus size: 42
108701 TTGTAAATAC
* * *
108711 AAACGCCACTAAAGCACGAGTC-ATTAGCAGCATTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTATTCA
* *
108753 AAACGCCACTAAAGTACGAGTCTATAGCGGTGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* *
108795 AAACGCCACTACAGTACGAGTCTATAGCGGCGTTTGTA-TAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * *
108836 AAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATA-TAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * * * * *
108877 AAATGCTACTAAAGTATGAGTCTTTAGAGGCGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * *
108919 AAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTTTTTGATAC-
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGT-ATTCA
108961 AAACGCCA-TAAATGT-C-AGATCTATAGCGGCGTTT
1 AAACGCCACTAAA-GTACGAG-TCTATAGCGGCGTTT
108995 CTAGATACAA
Statistics
Matches: 205, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
41 91 0.44
42 110 0.54
43 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
Found at i:108860 original size:83 final size:83
Alignment explanation
Indices: 108711--108994 Score: 303
Period size: 83 Copynumber: 3.4 Consensus size: 83
108701 TTGTAAATAC
* * *
108711 AAACGCCACTAAAGCACGAGTC-ATTAGCAGCATTTGTATTCAAAACGCCACTAAAGTACGAGTC
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTC
* *
108775 TATAGCGGTGTTTGCAT-TCA
65 TATAGCGGCGTTT--ATATAA
* * *
108795 AAACGCCACTACAGTACGAGTCTATAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTACTAGTCT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
108859 ATAGCGGCGTTTATATAA
66 ATAGCGGCGTTTATATAA
* * * * * * *
108877 AAATGCTACTAAAGTATGAGTCTTTAGAGGCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTTT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
* *
108941 ATAGCGGCGTTTTTTGATAC
66 ATAGCGGCG-TTTAT-ATAA
108961 AAACGCCA-TAAATGT-C-AGATCTATAGCGGCGTTT
1 AAACGCCACTAAA-GTACGAG-TCTATAGCGGCGTTT
108995 CTAGATACAA
Statistics
Matches: 168, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
81 2 0.01
82 48 0.29
83 74 0.44
84 43 0.26
85 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (83 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
ATAGCGGCGTTTATATAA
Found at i:108984 original size:124 final size:124
Alignment explanation
Indices: 108711--108994 Score: 335
Period size: 124 Copynumber: 2.3 Consensus size: 124
108701 TTGTAAATAC
* * * * * * * *
108711 AAACGCCACTAAAGCACGAGTC-ATTAGCAGCATTTGTATTCAAAACGCCACTAAAGTACGAGTC
1 AAACGCCACTAAAGTACTAGTCTA-TAGCGGCGTTTATA-TAAAAATGCTACTAAAGTACGAGTC
* * *
108775 TATAGCGGTGTTTGCATTCAAAACGCCACTACAGTACGAGTCTATAGCGGCGTTTGTATAA
64 TATAGAGGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* *
108836 AAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCTACTAAAGTATGAGTCTT
1 AAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCTACTAAAGTACGAGTCTA
* * *
108901 TAGAGGCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTTTTTGATAC
66 TAGAGGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGT-ATAA
108961 AAACGCCA-TAAATGT-C-AGATCTATAGCGGCGTTT
1 AAACGCCACTAAA-GTACTAG-TCTATAGCGGCGTTT
108995 CTAGATACAA
Statistics
Matches: 138, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
123 16 0.12
124 77 0.56
125 44 0.32
126 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (124 bp):
AAACGCCACTAAAGTACTAGTCTATAGCGGCGTTTATATAAAAATGCTACTAAAGTACGAGTCTA
TAGAGGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:109572 original size:41 final size:41
Alignment explanation
Indices: 109516--109635 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
109506 GTTTATACAA
* ** *
109516 AAAAATGCCACTATTGATTAAAACTATTATGGCGTTTTTGT
1 AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTCT
* * *
109557 AAAAACGCCACTATTGATTAACACTATTGCGGAGTTTGTCT
1 AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTCT
* *
109598 AAAAACGCCACTATTTATTATAACTATTGCGGCGTTTT
1 AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTT
109636 AAGAATAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (41 bp):
AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTCT
Found at i:109686 original size:42 final size:41
Alignment explanation
Indices: 109546--109833 Score: 200
Period size: 42 Copynumber: 7.0 Consensus size: 41
109536 AAACTATTAT
* * *
109546 GGCGTTT-TTGTAAAAACGCCACTAT-TGATTAACACTATTGC
1 GGCGTTTGTGGTATAAACGCCACTATATG-TTAA-TCTATTGC
* * * * * *
109587 GGAGTTTGT-CTAAAAACGCCACTATTTATTATAACTATTGC
1 GGCGTTTGTGGTATAAACGCCACTATATGTTA-ATCTATTGC
* * * *
109628 GGCGTTT-TAAGAATAAATGCCACTATATGTGTAATCTATTAC
1 GGCGTTTGT-GGTATAAACGCCACTATATGT-TAATCTATTGC
*
109670 GGCGTTTGTGGTATAAACGCCGCTA-AT-TTACTGATCTATTGC
1 GGCGTTTGTGGTATAAACGCCACTATATGTTA---ATCTATTGC
* *
109712 GACATTT-TGGCTA-AAACGCCACTATATGTTAATCTATTGC
1 GGCGTTTGTGG-TATAAACGCCACTATATGTTAATCTATTGC
*
109752 GGCGTTTGTGGTATAAACGCCGCTA-AT-TTACCACTCTATTGC
1 GGCGTTTGTGGTATAAACGCCACTATATGTTA--A-TCTATTGC
* * * *
109794 GGCGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATT
1 GGCGTTTGTGGTATAAACGCCACTATATGTTAA-TCTATT
109834 ACAGCTTTTT
Statistics
Matches: 201, Mismatches: 26, Indels: 39
0.76 0.10 0.15
Matches are distributed among these distances:
39 5 0.02
40 20 0.10
41 67 0.33
42 99 0.49
43 8 0.04
44 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
GGCGTTTGTGGTATAAACGCCACTATATGTTAATCTATTGC
Found at i:109809 original size:82 final size:82
Alignment explanation
Indices: 109546--109833 Score: 293
Period size: 82 Copynumber: 3.5 Consensus size: 82
109536 AAACTATTAT
* * * * *
109546 GGCGTTTTTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGAGTTTGT-CTAAAAACGCCAC
1 GGCGTTTTTGTAAAAACGCCACTATATG-TTAACTCTATTGCGGCGTTTGTGGTATAAACGCCGC
**
109609 T-ATTTATTATAACTATTGC
65 TAATTTACCAT--CTATTGC
* * *
109628 GGCGTTTTAAG-AATAAATGCCACTATATGTGTAA-TCTATTACGGCGTTTGTGGTATAAACGCC
1 GGCGTTTT-TGTAA-AAACGCCACTATATGT-TAACTCTATTGCGGCGTTTGTGGTATAAACGCC
*
109691 GCTAATTTACTGATCTATTGC
63 GCTAATTTAC-CATCTATTGC
* * *
109712 GACATTTTGGCT-AAAACGCCACTATATGTTAA-TCTATTGCGGCGTTTGTGGTATAAACGCCGC
1 GGCGTTTTTG-TAAAAACGCCACTATATGTTAACTCTATTGCGGCGTTTGTGGTATAAACGCCGC
109775 TAATTTACCACTCTATTGC
65 TAATTTACCA-TCTATTGC
* *
109794 GGCGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATT
1 GGCGTTT-TTGTAAAAACGCCACTATATGTTAACTCTATT
109834 ACAGCTTTTT
Statistics
Matches: 172, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
81 1 0.01
82 65 0.38
83 63 0.37
84 36 0.21
85 5 0.03
86 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (82 bp):
GGCGTTTTTGTAAAAACGCCACTATATGTTAACTCTATTGCGGCGTTTGTGGTATAAACGCCGCT
AATTTACCATCTATTGC
Found at i:109832 original size:124 final size:125
Alignment explanation
Indices: 109539--109833 Score: 277
Period size: 124 Copynumber: 2.4 Consensus size: 125
109529 TTGATTAAAA
* * * * * *
109539 CTATTATGGCGTTT-TTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGAGTTTGTCTAAAA
1 CTATTACGGCGTTTGTTGTAAAAACGCCGCTATATG-TCAACTCTATTGCGCAGTTTGGCTAAAA
* *
109602 ACGCCACTATTTATTATAACTATTGCGGCGTTTTAAGAATAAATGCCACTATATGTGTAAT
65 ACGCCACTATATATTATAACTATTGCGGCGTTTTAAGAATAAACGCCACTATATGTGTAAT
* * * * *
109663 CTATTACGGCGTTTGTGGTATAAACGCCGCTA-ATTTACTGA-TCTATTGCGACATTTTGGCT-A
1 CTATTACGGCGTTTGTTGTAAAAACGCCGCTATATGT-C-AACTCTATTGCG-CAGTTTGGCTAA
* * * * *
109725 AAACGCCACTATATGTTA-ATCTATTGCGGCGTTTGT-GGTATAAACGCCGCTA-AT-T-TACCA
63 AAACGCCACTATATATTATAACTATTGCGGCGTTT-TAAGAATAAACGCCACTATATGTGTA--A
109785 CT
125 -T
*
109787 CTATTGCGGCGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATT
1 CTATTACGGCGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATT
109834 ACAGCTTTTT
Statistics
Matches: 137, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
121 2 0.01
122 1 0.01
123 4 0.03
124 78 0.57
125 44 0.32
126 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (125 bp):
CTATTACGGCGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATTGCGCAGTTTGGCTAAAAA
CGCCACTATATATTATAACTATTGCGGCGTTTTAAGAATAAACGCCACTATATGTGTAAT
Found at i:112271 original size:65 final size:65
Alignment explanation
Indices: 112195--112350 Score: 190
Period size: 65 Copynumber: 2.4 Consensus size: 65
112185 ACACTAGGGG
* * *
112195 TGCATCGGTACACTAATTACATTTGATATTTCAAAATAACT-ATGAGTGCATCGATGCATGGTCT
1 TGCATCGGTACACTAAATACATTCGATATTTCAAAAT-ACTCAAGAGTGCATCGATGCATGG-CT
112259 GA
64 GA
* * * * * *
112261 -GCATCAGTACACTAAATGCATTCGATGTTTCAAAATATTCAAGGGTGCATCGATGCATGGCTTA
1 TGCATCGGTACACTAAATACATTCGATATTTCAAAATACTCAAGAGTGCATCGATGCATGGCTGA
*
112325 TGCATCGGTACACTAAATGCATTCGA
1 TGCATCGGTACACTAAATACATTCGA
112351 AATAGGGTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 5 0.06
65 73 0.94
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (65 bp):
TGCATCGGTACACTAAATACATTCGATATTTCAAAATACTCAAGAGTGCATCGATGCATGGCTGA
Found at i:113016 original size:44 final size:44
Alignment explanation
Indices: 112967--113059 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
112957 TTCCCCGAAG
* * * * *
112967 GACCACGTAGAAATGTCCCGATGGATCACATATATGTCCCAAAT
1 GACCACATAGAAATCTCCCGAAGGACCACATATATATCCCAAAT
** *
113011 GACCACATAGAAATCTCCTTAAGGACCACATATATATTCCAAAT
1 GACCACATAGAAATCTCCCGAAGGACCACATATATATCCCAAAT
113055 GACCA
1 GACCA
113060 AATATGTGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (44 bp):
GACCACATAGAAATCTCCCGAAGGACCACATATATATCCCAAAT
Found at i:113017 original size:21 final size:21
Alignment explanation
Indices: 112979--113123 Score: 92
Period size: 21 Copynumber: 6.8 Consensus size: 21
112969 CCACGTAGAA
* * *
112979 ATGTCCCGATGGATCACATAT
1 ATGTCCCAAAGGACCACATAT
* *
113000 ATGTCCCAAATGACCACATAGAA
1 ATGTCCCAAAGGACCACAT--AT
* **
113023 ATCTCCTTAAGGACCACATAT
1 ATGTCCCAAAGGACCACATAT
* * * *
113044 ATATTCCAAATGACCAAATAT
1 ATGTCCCAAAGGACCACATAT
* * * * *
113065 GTGTCTCAAAGAATCGCATAT
1 ATGTCCCAAAGGACCACATAT
* **
113086 ATGTTCCAAAGGATTACATAT
1 ATGTCCCAAAGGACCACATAT
113107 ATGTCCCAAAGGACCAC
1 ATGTCCCAAAGGACCAC
113124 GTAGAACTCT
Statistics
Matches: 88, Mismatches: 34, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
21 72 0.82
23 16 0.18
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (21 bp):
ATGTCCCAAAGGACCACATAT
Found at i:114027 original size:35 final size:35
Alignment explanation
Indices: 113980--114049 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
113970 CATTACAAAA
*
113980 ATGGTAGCGATACT-TCCACATT-GGTATCGATACCC
1 ATGGTAGCGATACTAT-CAC-TTCAGTATCGATACCC
114015 ATGGTA-CTGATACTATCACTTCAGTATCGATACCC
1 ATGGTAGC-GATACTATCACTTCAGTATCGATACCC
114050 CATGAAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
34 3 0.10
35 27 0.87
36 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (35 bp):
ATGGTAGCGATACTATCACTTCAGTATCGATACCC
Found at i:122810 original size:21 final size:18
Alignment explanation
Indices: 122769--122812 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
122759 TATATGGGAG
*
122769 ATCATTAAACTATGGTCA
1 ATCATCAAACTATGGTCA
122787 ATCATCAAACTATGGTCA
1 ATCATCAAACTATGGTCA
*
122805 ATAATCAA
1 ATCATCAA
122813 TTTGATCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (18 bp):
ATCATCAAACTATGGTCA
Found at i:123680 original size:111 final size:111
Alignment explanation
Indices: 123486--123707 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
123476 TGGAAATCAT
* *
123486 ATATCTCTACACTTTACTAATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
123551 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTACTAGATTAAGAATTAA
* * *
123597 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAG
1 ATATCTCGACACTTTACTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
123662 TAATTAGTTGATTTATTTAATGCATGATTACTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTACTAGATTAAGAATTAA
123708 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTACTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTACTAGATTAAGAATTAA
Found at i:125143 original size:18 final size:18
Alignment explanation
Indices: 125120--125159 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
125110 CCAGCAGCCA
125120 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
125138 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
125156 CCGC
1 CCGC
125160 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:132480 original size:3 final size:3
Alignment explanation
Indices: 132474--132519 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
132464 ATTATTATTT
* *
132474 TAA TAA TAA TAA TTA TAA TTA TATA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
132519 T
1 T
132520 GAGTAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:132503 original size:19 final size:17
Alignment explanation
Indices: 132476--132519 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
132466 TATTATTTTA
*
132476 ATAATAATAATTATAATT
1 ATAATAATAATAATAA-T
132494 ATATATAATAATAATAAT
1 ATA-ATAATAATAATAAT
132512 ATAATAAT
1 ATAATAAT
132520 GAGTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:132507 original size:16 final size:14
Alignment explanation
Indices: 132474--132519 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
132464 ATTATTATTT
132474 TAATAATAATAAT-
1 TAATAATAATAATA
*
132487 T-ATAATTAT-ATA
1 TAATAATAATAATA
132499 TAATAATAATAATA
1 TAATAATAATAATA
132513 TAATAAT
1 TAATAAT
132520 GAGTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 8 0.29
14 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:133065 original size:113 final size:113
Alignment explanation
Indices: 132744--133316 Score: 620
Period size: 113 Copynumber: 5.0 Consensus size: 113
132734 GAGTCATTCC
* * * * *
132744 AAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
**** * * *
132809 ATGAACTTTCTCTGGAAAGGTTGATGCTAACAT-ATATGTGATAAAATTATG--TA
66 ATGAACTCGAACTGGAAAAGCTGAT-C---CATCA-A-GTGAT-GAATT-TGAATA
* * * * * *
132862 AAAGATTGAACAGGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAGAT-AAGTTCTTCTTAT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAA-TTCTTCTCAT
**** * *
132925 TATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAATA
65 TATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAATA
*
132974 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAATTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
**
133039 ATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAGCA
66 ATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAATA
* *
133087 AAAGGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
*
133152 ATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCA-A
66 ATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGA--ATA
* * *
133201 AAAGGTTAAACGAA-TTCTTCTCATTATGAATTTCTTCTTCATTCTTCAAATGATGAGTTCTTCT
1 AAAGGTTAAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAATTCTTCT
* * * *
133265 CATTATGAACTCGAATTGGAAAATGCTAATCCATCAAATGATGGATTTGAAT
62 CATTATGAACTCGAACTGGAAAA-GCTGATCCATCAAGTGATGAATTTGAAT
133317 CTTTGTTAAA
Statistics
Matches: 405, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
110 2 0.00
111 4 0.01
112 43 0.11
113 168 0.41
114 47 0.12
115 2 0.00
116 4 0.01
117 76 0.19
118 59 0.15
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATT
ATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAATA
Found at i:134147 original size:94 final size:94
Alignment explanation
Indices: 134037--134209 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 94
134027 GTTCCTACTG
* *
134037 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCCTCTTCC-AAGT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACAGTCCTCTTCCAAATT
*
134101 CTAATGATTGGTTTTTCGAGGTTCATACCA
66 C-AATGATTGATTTTTCGAGGTTCATACCA
*
134131 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAGTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACAGTCCTCTTCCAAATT
134196 CAATGATTGATTTT
66 CAATGATTGATTTT
134210 ACTAAACCAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
94 70 0.95
95 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (94 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACAGTCCTCTTCCAAATT
CAATGATTGATTTTTCGAGGTTCATACCA
Found at i:135517 original size:1 final size:1
Alignment explanation
Indices: 135513--135607 Score: 55
Period size: 1 Copynumber: 95.0 Consensus size: 1
135503 CTTGACCCCC
* * * * * * * * *
135513 TTTTTCTTTTTCTTTTTCTTTTTCTTTCTTTTTTCTTTCTTTTTTTTTCTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
135578 CTCTTTTTTCTTTTCTTTCTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
135608 CTTCAAGCAT
Statistics
Matches: 64, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:135523 original size:6 final size:6
Alignment explanation
Indices: 135512--135604 Score: 100
Period size: 6 Copynumber: 15.0 Consensus size: 6
135502 TCTTGACCCC
* *
135512 CTTTTT CTTTTT CTTTTT CTTTTT CTTTCT -TTTTT CTTTCTTT TTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TT-TTT CTTTTT
*
135561 CTTTTT CTTTTT -TTTTT CTCTTTT TTCTTTT CTTTCTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT CT-TTTT CTTT-TT CTTTTT
135605 TTTCTTCAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
5 9 0.12
6 42 0.56
7 21 0.28
8 3 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:135542 original size:16 final size:16
Alignment explanation
Indices: 135521--135610 Score: 98
Period size: 16 Copynumber: 5.8 Consensus size: 16
135511 CCTTTTTCTT
135521 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
*
135537 TTTCTTTTT-TCTTTC
1 TTTCTTTTTCTTTTTC
*
135552 TTTTTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
* *
135568 TTTTTTTTTTCTCTTT-
1 -TTTCTTTTTCTTTTTC
135584 TTTC-TTTTCTTTCTTC
1 TTTCTTTTTCTTT-TTC
135600 TTT-TTTTTCTT
1 TTTCTTTTTCTT
135611 CAAGCATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
14 7 0.11
15 18 0.29
16 24 0.38
17 14 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:135544 original size:21 final size:21
Alignment explanation
Indices: 135515--135610 Score: 101
Period size: 21 Copynumber: 4.5 Consensus size: 21
135505 TGACCCCCTT
135515 TTTCTTTTTCTTTTTCTTTTTC
1 TTTC-TTTTCTTTTTCTTTTTC
*
135537 TTTCTTTT-TTCTTTCTTTTTT
1 TTTCTTTTCTT-TTTCTTTTTC
135558 TTTCTTTTTCTTTTT-TTTTTC
1 TTTC-TTTTCTTTTTCTTTTTC
135579 TCTT-TTTTC-TTTTCTTTCTTC
1 T-TTCTTTTCTTTTTCTTT-TTC
*
135600 TTTTTTTTCTT
1 TTTCTTTTCTT
135611 CAAGCATAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.06
20 12 0.19
21 32 0.50
22 14 0.22
23 2 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTCTTTTCTTTTTCTTTTTC
Found at i:135544 original size:27 final size:27
Alignment explanation
Indices: 135514--135604 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 27
135504 TTGACCCCCT
135514 TTTTCTTTTTCTTTTTCTTTTTCTTTC
1 TTTTCTTTTTCTTTTTCTTTTTCTTTC
135541 TTTT-TTCTTTC-TTTT-TTTTTC--T-
1 TTTTCTT-TTTCTTTTTCTTTTTCTTTC
*
135563 TTTTCTTTTT-TTTTTCTCTTT-TTTC
1 TTTTCTTTTTCTTTTTCTTTTTCTTTC
135588 TTTTCTTTCTTCTTTTT
1 TTTTCTTT-TTCTTTTT
135605 TTTCTTCAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
22 11 0.20
23 7 0.13
24 1 0.02
25 14 0.26
26 8 0.15
27 13 0.24
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (27 bp):
TTTTCTTTTTCTTTTTCTTTTTCTTTC
Found at i:135563 original size:31 final size:30
Alignment explanation
Indices: 135515--135607 Score: 116
Period size: 31 Copynumber: 2.9 Consensus size: 30
135505 TGACCCCCTT
135515 TTTCTTTTTCTTTTTCTTTTTCTTTCTTTTTTC
1 TTTC-TTTT-TTTTTCTTTTTCTTT-TTTTTTC
135548 TTTCTTTTTTTTTCTTTTTCTTTTTTTTTTC
1 TTTCTTTTTTTTTCTTTTTC-TTTTTTTTTC
*
135579 TCTT-TTTTCTTTTCTTTCTTCTTTTTTTT
1 T-TTCTTTTTTTTTCTTT-TTCTTTTTTTT
135608 CTTCAAGCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
31 40 0.71
32 12 0.21
33 4 0.07
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTCTTTTTTTTTCTTTTTCTTTTTTTTTC
Found at i:142857 original size:15 final size:15
Alignment explanation
Indices: 142834--142865 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
142824 TGAAAAGAAT
142834 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
142849 AATGTATGTATGCAA
1 AATGAATGTATGCAA
142864 AA
1 AA
142866 AGGTATTGAT
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:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:146731 original size:15 final size:15
Alignment explanation
Indices: 146708--146739 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
146698 TGAAAAGAAT
146708 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
146723 AATGTATGTATGCAA
1 AATGAATGTATGCAA
146738 AA
1 AA
146740 AGGTATTGAT
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:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:150636 original size:15 final size:15
Alignment explanation
Indices: 150613--150644 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
150603 TGAAAAGAAT
150613 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
150628 AATGTATGTATGCAA
1 AATGAATGTATGCAA
150643 AA
1 AA
150645 AGGTATTGAT
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:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:154810 original size:15 final size:15
Alignment explanation
Indices: 154787--154818 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
154777 TGAAAAGAAT
154787 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
154802 AATGTATGTATGCAA
1 AATGAATGTATGCAA
154817 AA
1 AA
154819 AGGTATTGAT
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:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:160181 original size:3 final size:3
Alignment explanation
Indices: 160175--160216 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
160165 TTATTTTTTT
*
160175 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
160217 AATGAGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:160863 original size:49 final size:49
Alignment explanation
Indices: 160791--160889 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
160781 TTTGATTTTT
*
160791 AGACGAGGGTAATGAAAATGGTTTGAAACTGAATGGGTTTTGTGTGAAA
1 AGACGAGGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
160840 AGACGAGGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
1 AGACGAGGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
160889 A
1 A
160890 AACTCATGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (49 bp):
AGACGAGGGTAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGTGAAA
Found at i:165171 original size:35 final size:34
Alignment explanation
Indices: 165086--165172 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
165076 ATTTGGTATT
*
165086 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
165120 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
165158 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
165173 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:165778 original size:18 final size:18
Alignment explanation
Indices: 165752--165791 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
165742 AAAGGCGATG
* *
165752 GCGGTATCATATATGGCT
1 GCGGCATCATAAATGGCT
*
165770 GCGGCATCATAAATGGTT
1 GCGGCATCATAAATGGCT
165788 GCGG
1 GCGG
165792 TGACTGCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (18 bp):
GCGGCATCATAAATGGCT
Found at i:167479 original size:17 final size:18
Alignment explanation
Indices: 167436--167476 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
167426 TAATTATATT
167436 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
167453 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
167471 ATTAAA
1 AGTAAA
167477 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:167543 original size:12 final size:10
Alignment explanation
Indices: 167526--167554 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
167516 GAGAGAGTAT
167526 TTGAGAGAAA
1 TTGAGAGAAA
167536 TTGAGAGAAA
1 TTGAGAGAAA
167546 TTGAGAGAA
1 TTGAGAGAA
167555 TTTGGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:168324 original size:2 final size:2
Alignment explanation
Indices: 168319--168353 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
168309 ACACACACAC
168319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
168354 AGGTGGTAAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:168747 original size:31 final size:30
Alignment explanation
Indices: 168662--168748 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
168652 TTCGATAATA
* *
168662 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
168693 TATTAATGATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
168724 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
168749 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:169486 original size:31 final size:29
Alignment explanation
Indices: 169444--169529 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 29
169434 TCAATAAAGT
169444 TTAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAATTATAAAATA-TTATTAAATTTA
*
169474 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAA-ATTATAAAA-TATTATTAAATTTA
* *
169505 TCTAAATACTATAAAATAATTATTA
1 T-TAAAAATTATAAAAT-ATTATTA
169530 TATTATCGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 7 0.15
31 35 0.73
32 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (29 bp):
TTAAAAATTATAAAATATTATTAAATTTA
Found at i:169505 original size:20 final size:20
Alignment explanation
Indices: 169439--169505 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
169429 GAGTTTCAAT
169439 AAAG-TTTA-AAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
169456 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
169477 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
169496 ATAA-ATTTAT
1 A-AAGATTTAT
169506 CTAAATACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 12 0.31
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:170185 original size:74 final size:74
Alignment explanation
Indices: 170105--170284 Score: 228
Period size: 74 Copynumber: 2.5 Consensus size: 74
170095 GGACCGTCTG
*
170105 TAAAATAAATAACTAATTGAAGAAAAATCAGATTTCAGGGTGGACACAAAAAAATTTAAG-GTGT
1 TAAAATAAATAACTAATTGAAGAAAAATTAGATTTCAGGGTGGACAC-AAAAAATTTAAGAGTG-
170169 G-TATCATCAA
64 GATATCATCAA
* * * * * *
170179 TAAAATAAGTAACTAATCG-AGAAAATTTTGGATTTCAGGGTGGACACGAAAAATTTCAGAGTGG
1 TAAAATAAATAACTAATTGAAGAAAA-ATTAGATTTCAGGGTGGACACAAAAAATTTAAGAGTGG
170243 ATATCATCAA
65 ATATCATCAA
170253 TAAAATAAATAACTAA-T-AA-AAAAATTAGATTT
1 TAAAATAAATAACTAATTGAAGAAAAATTAGATTT
170285 TAGGTGGGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
71 7 0.08
72 4 0.04
73 18 0.20
74 62 0.68
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (74 bp):
TAAAATAAATAACTAATTGAAGAAAAATTAGATTTCAGGGTGGACACAAAAAATTTAAGAGTGGA
TATCATCAA
Found at i:173577 original size:2 final size:2
Alignment explanation
Indices: 173564--173619 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
173554 AGAATTGTTC
*
173564 AT AT AC 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
*
173606 AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT
173620 GTATTTTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:176159 original size:26 final size:26
Alignment explanation
Indices: 176095--176159 Score: 62
Period size: 29 Copynumber: 2.4 Consensus size: 26
176085 AAATATTAGA
*
176095 AATAAA-AATAAAAATAGACTCCTAAT
1 AATAAATAA-AAAAATAGACTCATAAT
176121 AATTAATATTAAAAAAATA-ACCTCATAAT
1 AA-TAA-A-TAAAAAAATAGA-CTCATAAT
176150 AATAAATAAA
1 AATAAATAAA
176160 GGAAAAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
26 6 0.18
27 4 0.12
28 5 0.15
29 16 0.48
30 2 0.06
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
AATAAATAAAAAAATAGACTCATAAT
Found at i:176621 original size:19 final size:21
Alignment explanation
Indices: 176580--176621 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
176570 AATTATATAT
*
176580 AATAAATATTAAATTCGAACA
1 AATAAATATTAAATTAGAACA
*
176601 AATAAAT-TT-AATTAGACCA
1 AATAAATATTAAATTAGAACA
176620 AA
1 AA
176622 AAAAGACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 2 0.11
21 7 0.37
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAAATATTAAATTAGAACA
Found at i:176752 original size:14 final size:14
Alignment explanation
Indices: 176733--176762 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
176723 TTAGATTTTT
*
176733 TTAAAATTACATTA
1 TTAAAAATACATTA
176747 TTAAAAATACATTA
1 TTAAAAATACATTA
176761 TT
1 TT
176763 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:176864 original size:11 final size:11
Alignment explanation
Indices: 176848--176891 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
176838 TCGAGCTCAA
176848 AATCGAGCTTC
1 AATCGAGCTTC
*
176859 AATCGAGCTTG
1 AATCGAGCTTC
*
176870 AGTCTTGAGCTTC
1 AATC--GAGCTTC
176883 AATCGAGCT
1 AATCGAGCT
176892 CCTGAAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (11 bp):
AATCGAGCTTC
Found at i:182827 original size:18 final size:19
Alignment explanation
Indices: 182798--182840 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
182788 TTGAATTTAA
182798 AAAAAATCAGAAAAATTAC
1 AAAAAATCAGAAAAATTAC
182817 AAAAAAT-AGAAAAATTAC
1 AAAAAATCAGAAAAATTAC
182835 AAAAAA
1 AAAAAA
182841 AATTGGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAATCAGAAAAATTAC
Found at i:182911 original size:15 final size:17
Alignment explanation
Indices: 182880--182912 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
182870 TGTATTTTTT
182880 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
182897 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
182912 A
1 A
182913 AAAAAACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:184528 original size:15 final size:15
Alignment explanation
Indices: 184510--184549 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
184500 TTACATCATA
*
184510 ATCAATAGTTTCAGC
1 ATCAATAGTTTCAAC
184525 ATCAATAGTTTCAAC
1 ATCAATAGTTTCAAC
184540 ATCAATAGTT
1 ATCAATAGTT
184550 GCAGGTGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (15 bp):
ATCAATAGTTTCAAC
Found at i:186232 original size:21 final size:23
Alignment explanation
Indices: 186192--186233 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
186182 GTTATAAAAC
*
186192 TAAAATTTATGTATGAAATATCA
1 TAAAATATATGTATGAAATATCA
186215 TAAAATATAT-TA-GAAATAT
1 TAAAATATATGTATGAAATAT
186234 TAGAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAAATATATGTATGAAATATCA
Found at i:191490 original size:11 final size:12
Alignment explanation
Indices: 191458--191483 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
191448 TGAATATCTA
191458 AAAATAATTTTT
1 AAAATAATTTTT
191470 AAAATAATTTTT
1 AAAATAATTTTT
191482 AA
1 AA
191484 GAAATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATAATTTTT
Found at i:193409 original size:6 final size:6
Alignment explanation
Indices: 193398--193429 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
193388 GACTCCTGAT
193398 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GA
193430 CTAGTTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:200874 original size:51 final size:49
Alignment explanation
Indices: 200760--200886 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
200750 ATAATTATAC
** *
200760 AAGGCGCGGTACCTGCACCGCGCCT-TATATAATTATATCAGTTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCG-CTATATATAATTATATCAGTTAAAGGT
* ** *
200809 ATGGCATGGCCCCTGCCCCGCGCTATATATAATTATGTCAGAATTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCAG--TTAAAGGT
*
200860 AAGGCGCGGCCCCTGACCCGCGCTATA
1 AAGGCGCGGCCCCTGCCCCGCGCTATA
200887 CCCCTACGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.03
49 31 0.48
51 31 0.48
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (49 bp):
AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCAGTTAAAGGT
Found at i:201402 original size:23 final size:23
Alignment explanation
Indices: 201362--201439 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
201352 ACAACAACTG
* * *
201362 GCAAGCACCAATGTATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
201385 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
*
201408 GCAAGCATCATTGCATCAATTCG
1 GCAAGCATCATTGCATCAATTCA
201431 GCAAGCATC
1 GCAAGCATC
201440 CTGCATTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (23 bp):
GCAAGCATCATTGCATCAATTCA
Found at i:201567 original size:20 final size:20
Alignment explanation
Indices: 201544--201585 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
201534 TATCAAGTAT
* *
201544 AAGCAAACATTATCAAACAG
1 AAGCAAACAATATAAAACAG
201564 AAGCAAACAATATAAAACAG
1 AAGCAAACAATATAAAACAG
201584 AA
1 AA
201586 TAAAGCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.12
Consensus pattern (20 bp):
AAGCAAACAATATAAAACAG
Found at i:203815 original size:31 final size:31
Alignment explanation
Indices: 203717--203807 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
203707 CAATTTAAGG
203717 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
203748 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
203779 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
203808 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:203899 original size:19 final size:19
Alignment explanation
Indices: 203872--203938 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
203862 AATGTTTTTA
* *
203872 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
203891 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
203910 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
203929 TGAACAGTAA
1 TGAACAGTAA
203939 CCCGAGGCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:204070 original size:21 final size:21
Alignment explanation
Indices: 204044--204085 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
204034 ATTTGAATAT
*
204044 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
204065 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
204086 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:204152 original size:20 final size:22
Alignment explanation
Indices: 204114--204153 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
204104 TTTGAGTAGA
204114 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
204136 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
204154 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:204407 original size:34 final size:32
Alignment explanation
Indices: 204368--204437 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
204358 TTTTGTAAAG
* *
204368 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
204402 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
204434 GGGA
1 GGGA
204438 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:205202 original size:17 final size:18
Alignment explanation
Indices: 205166--205203 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
205156 ATTTCAAATA
*
205166 GTTTGGATTCGGGTTCGG
1 GTTTGGATTCGGGTTAGG
205184 GTTTGGATT-GGGTTAGG
1 GTTTGGATTCGGGTTAGG
205201 GTT
1 GTT
205204 AGGGTTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.08, C:0.05, G:0.45, T:0.42
Consensus pattern (18 bp):
GTTTGGATTCGGGTTAGG
Found at i:205227 original size:18 final size:18
Alignment explanation
Indices: 205206--205257 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
205196 TTAGGGTTAG
205206 GGTTCGAATTTGGGTTTA
1 GGTTCGAATTTGGGTTTA
*
205224 GGTTCGGAA-TTGGGTTTG
1 GGTTC-GAATTTGGGTTTA
* *
205242 GGTTCGGATTTTGGTT
1 GGTTCGAATTTGGGTT
205258 CAAGTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.83
19 3 0.10
ACGTcount: A:0.12, C:0.06, G:0.38, T:0.44
Consensus pattern (18 bp):
GGTTCGAATTTGGGTTTA
Found at i:206043 original size:61 final size:61
Alignment explanation
Indices: 205966--206102 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 61
205956 TTTTAGTTTT
* * * *
205966 AAATTTATTTAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTGATATTTC
1 AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
* * * *
206027 AAATTTCTTGAATTTAGTCCAAATTTAATGTTACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
*
206088 AAATTTGTTCAATTT
1 AAATTTATTCAATTT
206103 GATCCTTACA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (61 bp):
AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCATATTTA
Found at i:206196 original size:33 final size:33
Alignment explanation
Indices: 206159--206346 Score: 141
Period size: 33 Copynumber: 5.6 Consensus size: 33
206149 ATTAATAAAT
**
206159 TAATATATAGGTTATATATACTAATGAACTATA
1 TAATATATAATTTATATATACTAATGAACTATA
* * *
206192 TAATATATAATTTATATATAAT-AT-ATAGTTTA
1 TAATATATAATTTATATATACTAATGA-ACTATA
* * **
206224 TATATACTAATGAACTATATAATATA-TAGTTTA-TATA
1 TA-ATA-T-AT-AA-TTTAT-ATATACTAATGAACTATA
* *
206261 TACTATATAATTTATATATATTAATGAACTATA
1 TAATATATAATTTATATATACTAATGAACTATA
* * * *
206294 TAATGTATAGTTTATATATGCTAATGAACTTTA
1 TAATATATAATTTATATATACTAATGAACTATA
*
206327 TAATATATAGTTTATATATA
1 TAATATATAATTTATATATA
206347 TTATATAATT
Statistics
Matches: 122, Mismatches: 22, Indels: 22
0.73 0.13 0.13
Matches are distributed among these distances:
31 6 0.05
32 16 0.13
33 73 0.60
34 3 0.02
35 3 0.02
36 4 0.03
37 10 0.08
38 7 0.06
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (33 bp):
TAATATATAATTTATATATACTAATGAACTATA
Found at i:206210 original size:11 final size:11
Alignment explanation
Indices: 206189--206280 Score: 57
Period size: 11 Copynumber: 8.0 Consensus size: 11
206179 CTAATGAACT
206189 ATATAATATATA
1 ATAT-ATATATA
*
206201 ATTTATATATA
1 ATATATATATA
206212 ATATATAGT-T-
1 ATATATA-TATA
206222 -TATATATACTA
1 ATATATATA-TA
206233 ATGA-ACTATATA
1 AT-ATA-TATATA
*
206245 ATATATAGTTTA
1 ATATATA-TATA
206257 TATATACTATATA
1 -ATATA-TATATA
*
206270 ATTTATATATA
1 ATATATATATA
206281 TTAATGAACT
Statistics
Matches: 64, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
8 1 0.02
9 6 0.09
10 1 0.02
11 23 0.36
12 18 0.28
13 13 0.20
14 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
ATATATATATA
Found at i:206215 original size:51 final size:51
Alignment explanation
Indices: 206159--206312 Score: 254
Period size: 51 Copynumber: 3.0 Consensus size: 51
206149 ATTAATAAAT
* *
206159 TAATATATAGGTTATATATACTAATGAACTATATAATATATAATTTATATA
1 TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
206210 TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
1 TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
* * * *
206261 TACTATATAATTTATATATATTAATGAACTATATAATGTATAGTTTATATA
1 TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
206312 T
1 T
206313 GCTAATGAAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (51 bp):
TAATATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
Found at i:206258 original size:84 final size:84
Alignment explanation
Indices: 206159--206427 Score: 322
Period size: 84 Copynumber: 3.2 Consensus size: 84
206149 ATTAATAAAT
* *
206159 TAATATATAGGTTATATATACTA-ATGAACTATATAATATA-TAATTTA-TATATAATATATAGT
1 TAATATATAGTTTATATATACTATAT-AA-T-TATAATATACTAATTAACTATATAATATATAGT
*
206221 TTATATATACTAATGAACTATA
63 TTATATATACTAATGAACTTTA
* * *
206243 TAATATATAGTTTATATATACTATATAATT-TATATATATTAATGAACTATATAATGTATAGTTT
1 TAATATATAGTTTATATATACTATATAATTATA-ATATACTAATTAACTATATAATATATAGTTT
*
206307 ATATATGCTAATGAACTTTA
65 ATATATACTAATGAACTTTA
*
206327 TAATATATAGTTTATATATATTATATAATT-TACATATACTAA-TAACTATATAATATATAGTTT
1 TAATATATAGTTTATATATACTATATAATTATA-ATATACTAATTAACTATATAATATATAGTTT
* *
206390 GTATATAC-CAT-ATACTTTA
65 ATATATACTAATGA-ACTTTA
*
206409 T-ATATATAGTTTTTATATA
1 TAATATATAGTTTATATATA
206428 TAGTTCATAT
Statistics
Matches: 165, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
81 20 0.12
82 15 0.09
83 31 0.19
84 97 0.59
85 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (84 bp):
TAATATATAGTTTATATATACTATATAATTATAATATACTAATTAACTATATAATATATAGTTTA
TATATACTAATGAACTTTA
Found at i:206345 original size:51 final size:50
Alignment explanation
Indices: 206188--206414 Score: 192
Period size: 51 Copynumber: 4.5 Consensus size: 50
206178 ACTAATGAAC
* * * * **
206188 TATATAATATATAATTTATATATAAT-ATATAGTTTAT-ATATACTAATGAA
1 TATATAATATATAGTTTATATATACTAATA-ACTTTATAATATA-TAGTTTA
* **
206238 CTATATAATATATAGTTTATATATACTATATAA-TTTAT-ATATATTAATGAA
1 -TATATAATATATAGTTTATATATACTA-ATAACTTTATAATATA-TAGTTTA
* *
206289 CTATATAATGTATAGTTTATATATGCTAATGAACTTTATAATATATAGTTTA
1 -TATATAATATATAGTTTATATATACTAAT-AACTTTATAATATATAGTTTA
* * * * *
206341 TATATATTATATAATTTACATATACTAATAACTATATAATATATAGTTTG
1 TATATAATATATAGTTTATATATACTAATAACTTTATAATATATAGTTTA
** *
206391 TATATACCATATACTTTATATATA
1 TATATAATATATAGTTTATATATA
206415 TAGTTTTTAT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
50 41 0.27
51 93 0.61
52 10 0.07
53 8 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (50 bp):
TATATAATATATAGTTTATATATACTAATAACTTTATAATATATAGTTTA
Found at i:206396 original size:32 final size:32
Alignment explanation
Indices: 206341--206427 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 32
206331 ATATAGTTTA
* * *
206341 TATATATTATATAATTTACATATACTAATA-AC
1 TATATAATATATAGTTTATATATAC-AATATAC
* *
206373 TATATAATATATAGTTTGTATATACCATATAC
1 TATATAATATATAGTTTATATATACAATATAC
* *
206405 TTTAT-ATATATAGTTTTTATATA
1 TATATAATATATAGTTTATATATA
206428 TAGTTCATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 20 0.43
32 27 0.57
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (32 bp):
TATATAATATATAGTTTATATATACAATATAC
Found at i:206430 original size:13 final size:13
Alignment explanation
Indices: 206399--206437 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
206389 TGTATATACC
*
206399 ATATACTTTATAT
1 ATATAGTTTATAT
*
206412 ATATAGTTTTTAT
1 ATATAGTTTATAT
*
206425 ATATAGTTCATAT
1 ATATAGTTTATAT
206438 GTAAACTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:206476 original size:18 final size:18
Alignment explanation
Indices: 206424--206478 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
206414 ATAGTTTTTA
*
206424 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
206444 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
206462 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
206479 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:206481 original size:18 final size:17
Alignment explanation
Indices: 206441--206485 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
206431 TTCATATGTA
206441 AACTATATAGTATATAT
1 AACTATATAGTATATAT
206458 AAACTATATATGTAGTATAT
1 -AACTATATA-GTA-TATAT
206478 -ACTATATA
1 AACTATATA
206486 AATCGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.68
19 3 0.12
20 5 0.20
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (17 bp):
AACTATATAGTATATAT
Found at i:206629 original size:103 final size:103
Alignment explanation
Indices: 206513--206711 Score: 242
Period size: 103 Copynumber: 1.9 Consensus size: 103
206503 TGTATTCAAC
* * * * *
206513 TATATAGTATTCATACATATAATATATACTTTGAA-TTTATATAGTATAAAT-TATATTATATAG
1 TATATAGTATTCATACATA-AAT-TATACTATAAAGTATATATAGTATAAATATATAATATAGAG
* *
206576 TATATAAATATCAACTATAATATATAGTTTATATGGTTTT
64 TATATAAATATAAACTATAATATATAGTATATATGGTTTT
** * *
206616 TATATA-TAGTTCATATGTAAATTATACTATAAAGTATATATAGTTTATATATATAATATAGAGT
1 TATATAGTA-TTCATACATAAATTATACTATAAAGTATATATAGTATAAATATATAATATAGAGT
*
206680 ATATAAATATAAACTATAATATGTAGTATATA
65 ATATAAATATAAACTATAATATATAGTATATA
206712 AATATAAACT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
101 9 0.11
102 18 0.22
103 54 0.67
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (103 bp):
TATATAGTATTCATACATAAATTATACTATAAAGTATATATAGTATAAATATATAATATAGAGTA
TATAAATATAAACTATAATATATAGTATATATGGTTTT
Done.