Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 70 of 106
Found at i:26669041 original size:67 final size:67
Alignment explanation
Indices: 26668965--26669153 Score: 202
Period size: 67 Copynumber: 2.8 Consensus size: 67
26668955 AAGTTGGTTG
* * * * * *
26668965 TTGGGTTTTGCTTGATCTCG-GTAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGCTTGAGCCCGTG-AAAAACCATTGTGAAAGGCTATGGTTGAGCCTTTGAAAAACC
26669029 ACT
65 ACT
* *
26669032 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGCTATGGTTGAGGCTTTGAAAAACCA
1 TTGGGTTTTGCTTGAGCCCGTGAAAAACCATTGTGAAAGGCTATGGTTGAGCCTTTGAAAAACCA
26669097 CT
66 CT
* * * * * * * *
26669099 TTGGATTTTAG-TTTAGCCCGTGAAAAACTAGTGTAAAAGGTTTTGGCTGAGCCTT
1 TTGGGTTTT-GCTTGAGCCCGTGAAAAACCATTGTGAAAGGCTATGGTTGAGCCTT
26669154 GTAAAAGCCA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 101 0.98
68 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (67 bp):
TTGGGTTTTGCTTGAGCCCGTGAAAAACCATTGTGAAAGGCTATGGTTGAGCCTTTGAAAAACCA
CT
Found at i:26669047 original size:32 final size:32
Alignment explanation
Indices: 26669003--26669126 Score: 106
Period size: 32 Copynumber: 3.8 Consensus size: 32
26668993 CATTGTTATA
* **
26669003 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTTTG
26669035 GGTTTTGGTTGAGCCCGTGAAAAACCA-TTGTG
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTT-TG
* * * **
26669067 AAAGGCTATGGTTGAGGCTTTGAAAAACCACTTTG
1 ---GGTTTTGGTTGAGCCCGTGAAAAACCACTTTG
* * *
26669102 GATTTTAGTTTAGCCCGTGAAAAAC
1 GGTTTTGGTTGAGCCCGTGAAAAAC
26669127 TAGTGTAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
31 2 0.03
32 43 0.61
35 24 0.34
36 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (32 bp):
GGTTTTGGTTGAGCCCGTGAAAAACCACTTTG
Found at i:26670696 original size:20 final size:20
Alignment explanation
Indices: 26670650--26670706 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
26670640 TGTTTTCTTC
26670650 TTTCAATTTATA-TTATTATT
1 TTTC-ATTTATATTTATTATT
* *
26670670 TTT-ATTTATATTTGTTTTT
1 TTTCATTTATATTTATTATT
*
26670689 TTTCATTTCTATTCTATT
1 TTTCATTTATATT-TATT
26670707 TGCTTATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.23
19 9 0.30
20 11 0.37
21 3 0.10
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTCATTTATATTTATTATT
Found at i:26671988 original size:39 final size:37
Alignment explanation
Indices: 26671942--26672073 Score: 110
Period size: 39 Copynumber: 3.5 Consensus size: 37
26671932 AACATCATCA
*
26671942 TGTGCACTCCCACATCGCACATGGCATATATCATTAGTG
1 TGTGCACT-CCACATCGCACATGGCA-ATATCATCAGTG
* * * * *
26671981 TGTGCACT-CACATAGCACA--CCACTATCA-CCGTCA
1 TGTGCACTCCACATCGCACATGGCAATATCATCAGT-G
*
26672015 TGTGCACTCTCACACCGCACATGGCACATATCATCAGTG
1 TGTGCACTC-CACATCGCACATGGCA-ATATCATCAGTG
*
26672054 TGTGCACTCACACAACGCAC
1 TGTGCACTC-CACATCGCAC
26672074 CACTATCACT
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
33 2 0.03
34 13 0.18
35 2 0.03
36 9 0.12
37 10 0.14
38 2 0.03
39 31 0.43
40 3 0.04
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (37 bp):
TGTGCACTCCACATCGCACATGGCAATATCATCAGTG
Found at i:26672019 original size:34 final size:34
Alignment explanation
Indices: 26671981--26672101 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
26671971 ATCATTAGTG
* *
26671981 TGTGCACTCACATAGCACACCACTATCACCGTCA
1 TGTGCACTCACACAGCACACCACTATCACAGTCA
* * *
26672015 TGTGCACTCTCACACCGCACATGGCACATATCATCAGT-G
1 TGTGCA--CTCACACAGCACA--CCAC-TATCA-CAGTCA
* * *
26672054 TGTGCACTCACACAACGCACCACTATCACTGTCA
1 TGTGCACTCACACAGCACACCACTATCACAGTCA
*
26672088 TGTGCACTCCCACA
1 TGTGCACTCACACA
26672102 CCGCACACGC
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
33 3 0.04
34 24 0.35
35 3 0.04
36 11 0.16
37 10 0.15
38 3 0.04
39 11 0.16
40 3 0.04
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.21
Consensus pattern (34 bp):
TGTGCACTCACACAGCACACCACTATCACAGTCA
Found at i:26672034 original size:73 final size:73
Alignment explanation
Indices: 26671939--26672108 Score: 268
Period size: 73 Copynumber: 2.3 Consensus size: 73
26671929 GGCAACATCA
* * * * *
26671939 TCATGTGCACTCCCACATCGCACATGGCATATATCATTAGTGTGTGCACTCACATAGCACACCAC
1 TCATGTGCACTCCCACACCGCACATGGCACATATCATCAGTGTGTGCACTCACACAACACACCAC
26672004 TATCACCG
66 TATCACCG
* *
26672012 TCATGTGCACTCTCACACCGCACATGGCACATATCATCAGTGTGTGCACTCACACAACGCACCAC
1 TCATGTGCACTCCCACACCGCACATGGCACATATCATCAGTGTGTGCACTCACACAACACACCAC
*
26672077 TATCACTG
66 TATCACCG
26672085 TCATGTGCACTCCCACACCGCACA
1 TCATGTGCACTCCCACACCGCACA
26672109 CGCATGGTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (73 bp):
TCATGTGCACTCCCACACCGCACATGGCACATATCATCAGTGTGTGCACTCACACAACACACCAC
TATCACCG
Found at i:26673804 original size:37 final size:37
Alignment explanation
Indices: 26673763--26673840 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26673753 CATATGCATT
*
26673763 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTACACTCCCTACTCGCACACTTC-AA
*
26673800 CATCATCATGTGTACACTCCCTACTCGTACACTTCAA
1 CATCATCATGTGTACACTCCCTACTCGCACACTTCAA
26673837 CATC
1 CATC
26673841 CTCACACAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.26, C:0.37, G:0.09, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTACACTCCCTACTCGCACACTTCAA
Found at i:26675721 original size:19 final size:19
Alignment explanation
Indices: 26675693--26675730 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
26675683 AAGAAGAGAA
26675693 AAGGAAAGAAAA-GAAAAT
1 AAGGAAAGAAAATGAAAAT
26675711 AAGGAAAAGAAAATGAAAAT
1 AAGG-AAAGAAAATGAAAAT
26675731 GTTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (19 bp):
AAGGAAAGAAAATGAAAAT
Found at i:26676821 original size:20 final size:21
Alignment explanation
Indices: 26676782--26676827 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
26676772 TATTTAACTA
* *
26676782 TTTATATTTTATGCATTATAAT
1 TTTATATTTAAT-CATTATAAG
26676804 TTTATATTTAAT-ATTATAAG
1 TTTATATTTAATCATTATAAG
26676824 TTTA
1 TTTA
26676828 AATAGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
22 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTATATTTAATCATTATAAG
Found at i:26690946 original size:73 final size:73
Alignment explanation
Indices: 26690838--26691017 Score: 175
Period size: 73 Copynumber: 2.5 Consensus size: 73
26690828 GGTAGGATGA
* * * *** *
26690838 TCTTAGTCGACTAA-TTGCGCTCTTAGTCAACTAAGTCGTCTCAATCTTTTGATCCCAG-TTTTT
1 TCTTAGTCGACTAACTTAC-TTCTTAGTCGACTAAGTCGTCTCAATCTTGAAAT-CCAGATATTT
*
26690901 GGTAGTAAGC
64 GGCAGTAAGC
* * * * * ***
26690911 TTTTAGTCGACTAACTTACTTTTTAGTCGATTAAGTTGTTTTTGTCTTGAAATCCAGATATTTGG
1 TCTTAGTCGACTAACTTACTTCTTAGTCGACTAAGTCGTCTCAATCTTGAAATCCAGATATTTGG
26690976 CAGTAAGC
66 CAGTAAGC
*
26690984 TCTTAGTCGACTAACTTACTTCTTGGTCGACTAA
1 TCTTAGTCGACTAACTTACTTCTTAGTCGACTAA
26691018 ATCTTCTCTA
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
72 4 0.05
73 78 0.92
74 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (73 bp):
TCTTAGTCGACTAACTTACTTCTTAGTCGACTAAGTCGTCTCAATCTTGAAATCCAGATATTTGG
CAGTAAGC
Found at i:26692413 original size:13 final size:13
Alignment explanation
Indices: 26692395--26692419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26692385 CAGAAGGCAT
26692395 TTAGTTGACTAAC
1 TTAGTTGACTAAC
26692408 TTAGTTGACTAA
1 TTAGTTGACTAA
26692420 GTTGGTTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
TTAGTTGACTAAC
Found at i:26714751 original size:28 final size:29
Alignment explanation
Indices: 26714702--26714895 Score: 216
Period size: 29 Copynumber: 6.7 Consensus size: 29
26714692 GTCTTAATTT
*
26714702 AAACATGTTTTGTCTTAATTTAGACGAGA
1 AAACATGTTTTGTCTTAATTTAGACAAGA
*
26714731 AAACATG-TTTATCTTAATTTAGACAAGA
1 AAACATGTTTTGTCTTAATTTAGACAAGA
* *
26714759 AAACATGTTTTGTCTTAATTTAAATAAGAA
1 AAACATGTTTTGTCTTAATTTAGACAAG-A
* *
26714789 AAACAT-ATTTGTCTTACCA-TAAGACAAGA
1 AAACATGTTTTGTCTTA--ATTTAGACAAGA
* * *
26714818 AAATTATGTTTTGTCTTAGTCTAGACAAGA
1 AAA-CATGTTTTGTCTTAATTTAGACAAGA
* *
26714848 AAACATG-TTTGTCTCAACTTAGACAAGA
1 AAACATGTTTTGTCTTAATTTAGACAAGA
*
26714876 TAACATGTTTTGTCTTAATT
1 AAACATGTTTTGTCTTAATT
26714896 AAAGAAAAGA
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
28 49 0.36
29 50 0.37
30 26 0.19
31 10 0.07
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (29 bp):
AAACATGTTTTGTCTTAATTTAGACAAGA
Found at i:26720493 original size:13 final size:13
Alignment explanation
Indices: 26720475--26720504 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26720465 CAATTAATCC
*
26720475 AATAATTTGATTA
1 AATAATTTAATTA
26720488 AATAATTTAATTA
1 AATAATTTAATTA
26720501 AATA
1 AATA
26720505 CTTAAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
AATAATTTAATTA
Found at i:26725593 original size:23 final size:21
Alignment explanation
Indices: 26725567--26725608 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
26725557 TGCCTTATCA
26725567 TTTTGGGATTTTACCTTCTTCCC
1 TTTTGGGATTTT--CTTCTTCCC
*
26725590 TTTTTGGATTTTCTTCTTC
1 TTTTGGGATTTTCTTCTTC
26725609 TGTTGCTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.07, C:0.21, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTGGGATTTTCTTCTTCCC
Found at i:26728776 original size:181 final size:180
Alignment explanation
Indices: 26728362--26728892 Score: 714
Period size: 181 Copynumber: 2.9 Consensus size: 180
26728352 GCCATGAAAA
* * *
26728362 TTTCCAGAAATAATTCTCATTGAACATTTTAATAAAGATAATTTTTCTGGAATTTTTCAG-GATT
1 TTTCTAGAAATAATTCTTATTGAACATTTTAACAAAGATAATTTTTCTGGAATTTTTCAGAG-TT
* * * *
26728426 AATCTT-CAAGAGTTTCTTGTCAATTAAAACTGAAATTCATGCCAAAACAGTGAGCTGGACTGAT
65 AAT-TTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGTCATAACAGTGAGCTGGACTGCT
* * * * * *
26728490 TT-ATATTTGCACCAATTTTCTTGCTTGAAAGCAGTATATTTGACCATGATAT
129 TTAATTTTTGCTCCAATTTT-TTGCTTAAAATCAGCATATTTGACCACGATAT
* * *
26728542 TTT-TCAGAAATAATCCTTATTAAACAGTTT-ACTAAAGATAATTTTTCTGGAATTTTTCAGAGT
1 TTTCT-AGAAATAATTCTTATTGAACATTTTAAC-AAAGATAATTTTTCTGGAATTTTTCAGAGT
* * * *
26728605 TAATTTCCAAGACTTTCTTATCAATTAAAATTGAAATTCATGTCATAACATTGAGCTAGACTGCT
64 TAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGTCATAACAGTGAGCTGGACTGCT
26728670 TTCAATTTTTGCTCCAATTTTTTGCTTAAAATCAGCATATTTGACCACGATAT
129 TT-AATTTTTGCTCCAATTTTTTGCTTAAAATCAGCATATTTGACCACGATAT
*
26728723 TTTCTAGAAATAATTTTTATTGAACATTTTAACAAAGATAATTTTTCTGGAATTTTTCAGAAG-T
1 TTTCTAGAAATAATTCTTATTGAACATTTTAACAAAGATAATTTTTCTGGAATTTTTCAG-AGTT
* *
26728787 AATTTCCAAGACTTTCTTGTTAGTTAAAACTGAAATTCATGTCATAACAGTGAGCTGGACTGCTT
65 AATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGTCATAACAGTGAGCTGGACTGC-T
* * *
26728852 TTACTTTTTGCTCCAATTTCTTGCTTAAAATCAGCCTATTT
129 TTAATTTTTGCTCCAATTTTTTGCTTAAAATCAGCATATTT
26728893 AATCATGAAC
Statistics
Matches: 308, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
179 3 0.01
180 108 0.35
181 174 0.56
182 23 0.07
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (180 bp):
TTTCTAGAAATAATTCTTATTGAACATTTTAACAAAGATAATTTTTCTGGAATTTTTCAGAGTTA
ATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGTCATAACAGTGAGCTGGACTGCTTT
AATTTTTGCTCCAATTTTTTGCTTAAAATCAGCATATTTGACCACGATAT
Found at i:26730013 original size:35 final size:35
Alignment explanation
Indices: 26729962--26730134 Score: 190
Period size: 35 Copynumber: 4.9 Consensus size: 35
26729952 AGTCCTTAAG
****
26729962 AGGCCCAATTAACTTAATTGTTTAATTTAATCAATT
1 AGGCCCAA-TAACTTAATTAAACAATTTAATCAATT
* *
26729998 AGGCTCAATAACTTAATTAAACAATTTAATTAATT
1 AGGCCCAATAACTTAATTAAACAATTTAATCAATT
* *
26730033 AGGCCCAACAATTTAATTAAACAATTTTAATCAATT
1 AGGCCCAATAACTTAATTAAACAA-TTTAATCAATT
* * *
26730069 AGGCCCAATGACTTAATTAAACAATTCAATTAATT
1 AGGCCCAATAACTTAATTAAACAATTTAATCAATT
*
26730104 AGG--C-ACAACTTAATTAAACAATTTTAATCAA
1 AGGCCCAATAACTTAATTAAACAA-TTTAATCAA
26730135 GTGCAGGAGA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
32 15 0.13
33 8 0.07
35 55 0.47
36 38 0.33
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (35 bp):
AGGCCCAATAACTTAATTAAACAATTTAATCAATT
Found at i:26730062 original size:71 final size:68
Alignment explanation
Indices: 26729987--26730134 Score: 233
Period size: 71 Copynumber: 2.1 Consensus size: 68
26729977 AATTGTTTAA
* * *
26729987 TTTAATCAATTAGGCTCAATAACTTAATTAAACAATTTAATTAATTAGGCCCAACAATTTAATTA
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAATTCAATTAATTAGG--C-ACAACTTAATTA
26730052 AACAAT
63 AACAAT
*
26730058 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTCAATTAATTAGGCACAACTTAATTAAAC
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAATTCAATTAATTAGGCACAACTTAATTAAAC
26730123 AAT
66 AAT
26730126 TTTAATCAA
1 TTTAATCAA
26730135 GTGCAGGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
68 26 0.36
69 1 0.01
71 46 0.63
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (68 bp):
TTTAATCAATTAGGCCCAATAACTTAATTAAACAATTCAATTAATTAGGCACAACTTAATTAAAC
AAT
Found at i:26730434 original size:15 final size:15
Alignment explanation
Indices: 26730416--26730444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26730406 ATGGTTTGAC
26730416 TCAACCTTTCAGTGA
1 TCAACCTTTCAGTGA
26730431 TCAACCTTTCAGTG
1 TCAACCTTTCAGTG
26730445 TAATTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (15 bp):
TCAACCTTTCAGTGA
Found at i:26736347 original size:50 final size:50
Alignment explanation
Indices: 26736291--26736411 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 50
26736281 GAAAACACAG
* ** *
26736291 AGCCATAGTCAACCCTAAGGCAAAGAGCATGTGGAAATGAAGTGTTTAAA
1 AGCCATAGTCAACCCTAAAGCAAAGAGCACATGGAAATGAAGTGTCTAAA
* *
26736341 AGCCATAGTCAACCTTGGCAAAGCAAAGAGCACATGGAAATGAAGTGTCTCAA
1 AGCCATAGTCAACCCT---AAAGCAAAGAGCACATGGAAATGAAGTGTCTAAA
**
26736394 AGCCATAGTTGACCCTAA
1 AGCCATAGTCAACCCTAA
26736412 CATCTACATA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
50 17 0.29
53 42 0.71
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (50 bp):
AGCCATAGTCAACCCTAAAGCAAAGAGCACATGGAAATGAAGTGTCTAAA
Found at i:26738016 original size:12 final size:12
Alignment explanation
Indices: 26737999--26738035 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
26737989 AGGGTATTGT
26737999 TTCTTAAGGTTC
1 TTCTTAAGGTTC
26738011 TTCTTAAGGTTC
1 TTCTTAAGGTTC
26738023 TTCTTAAGGTTC
1 TTCTTAAGGTTC
26738035 T
1 T
26738036 AAGAAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (12 bp):
TTCTTAAGGTTC
Found at i:26738955 original size:29 final size:29
Alignment explanation
Indices: 26738921--26738977 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
26738911 ATATTCGATA
*
26738921 TATCTTGCTTAGCTACTATGGATATTGTT
1 TATCTTGCTTACCTACTATGGATATTGTT
* * *
26738950 TATCTTGTTTACCTATTGTGGATATTGT
1 TATCTTGCTTACCTACTATGGATATTGT
26738978 ACATATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (29 bp):
TATCTTGCTTACCTACTATGGATATTGTT
Found at i:26740729 original size:21 final size:22
Alignment explanation
Indices: 26740700--26740740 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
26740690 AAACCCCAGA
*
26740700 GTTTCTCGCTGTAGCGAGATTC
1 GTTTCTCGCTGCAGCGAGATTC
26740722 GTTT-TCGCTGCAGCGAGAT
1 GTTTCTCGCTGCAGCGAGAT
26740741 GCTACAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (22 bp):
GTTTCTCGCTGCAGCGAGATTC
Found at i:26754882 original size:24 final size:22
Alignment explanation
Indices: 26754855--26754899 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
26754845 CCCAAATTAT
26754855 TATAAAAAATCAAAACACAAAAAA
1 TATAAAAAA-CAAAA-ACAAAAAA
* *
26754879 TATAAGAAAGAAAAACAAAAA
1 TATAAAAAACAAAAACAAAAA
26754900 CAAAAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.76, C:0.09, G:0.04, T:0.11
Consensus pattern (22 bp):
TATAAAAAACAAAAACAAAAAA
Found at i:26763544 original size:20 final size:20
Alignment explanation
Indices: 26763506--26763544 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26763496 TAAACATAAA
*
26763506 TAACATAAAACTAACATTAT
1 TAACATAAAACAAACATTAT
* *
26763526 TAACTTAAAACAAATATTA
1 TAACATAAAACAAACATTA
26763545 AAACATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
TAACATAAAACAAACATTAT
Found at i:26766006 original size:20 final size:21
Alignment explanation
Indices: 26765981--26766021 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26765971 TGAAGGGAAG
*
26765981 TGAA-TTAGAAGCTTTAAGAA
1 TGAATTTAGAAGCTTGAAGAA
*
26766001 TGAATTTAGAGGCTTGAAGAA
1 TGAATTTAGAAGCTTGAAGAA
26766022 ATGGAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (21 bp):
TGAATTTAGAAGCTTGAAGAA
Found at i:26766911 original size:2 final size:2
Alignment explanation
Indices: 26766898--26766932 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26766888 TGTTTATGTC
*
26766898 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26766933 NTTTAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26767020 original size:114 final size:113
Alignment explanation
Indices: 26766820--26767046 Score: 429
Period size: 114 Copynumber: 2.0 Consensus size: 113
26766810 TGTGAGTTTG
26766820 TTTAATTAAAAATGCATGTGATGTATGATGCCTTGATAAAGGAATTGCAATGGTGTTAGAATATA
1 TTTAATTAAAAATGCATGTGATGTATGATGCCTTGATAAAGGAATTGCAATGGTGTTAGAATATA
26766885 ATGTGTTTATGTCTATATGTATATATATATATATATATATATATATAT
66 ATGTGTTTATGTCTATATGTATATATATATATATATATATATATATAT
26766933 NTTTAATTAAAAATGCATGTGATGTATGATGCCTTGATAAAGGAATTGCAATGGTGTTAGAATAT
1 -TTTAATTAAAAATGCATGTGATGTATGATGCCTTGATAAAGGAATTGCAATGGTGTTAGAATAT
26766998 AATGTG-TTATTGTCTATATGTATATATATATATATATATATATATATAT
65 AATGTGTTTA-TGTCTATATGTATATATATATATATATATATATATATAT
26767047 GTATGCTTAC
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
113 3 0.03
114 109 0.97
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.42
Consensus pattern (113 bp):
TTTAATTAAAAATGCATGTGATGTATGATGCCTTGATAAAGGAATTGCAATGGTGTTAGAATATA
ATGTGTTTATGTCTATATGTATATATATATATATATATATATATATAT
Found at i:26767025 original size:2 final size:2
Alignment explanation
Indices: 26767012--26767046 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26767002 TGTTATTGTC
*
26767012 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26767047 GTATGCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26771358 original size:42 final size:42
Alignment explanation
Indices: 26771278--26771365 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
26771268 CAGGTCATCA
* *
26771278 TCAGCATTGGCTTATGCGCATTCCCTACTCGCACATAGCTGGG
1 TCAGCATCGGCTTAT-CGCATACCCTACTCGCACATAGCTGGG
26771321 TCAGCATCGGCTTAT-GCATACTCCTACTCGCACATAGCTGGG
1 TCAGCATCGGCTTATCGCATAC-CCTACTCGCACATAGCTGGG
26771363 TCA
1 TCA
26771366 ATATCATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 5 0.12
42 23 0.55
43 14 0.33
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (42 bp):
TCAGCATCGGCTTATCGCATACCCTACTCGCACATAGCTGGG
Found at i:26773089 original size:19 final size:19
Alignment explanation
Indices: 26773065--26773101 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26773055 AATTTATCAG
*
26773065 CTGGCCGAGGTTTTCTCAA
1 CTGGCCGAGGGTTTCTCAA
26773084 CTGGCCGAGGGTTTCTCA
1 CTGGCCGAGGGTTTCTCA
26773102 TTAATACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.30
Consensus pattern (19 bp):
CTGGCCGAGGGTTTCTCAA
Found at i:26773610 original size:40 final size:40
Alignment explanation
Indices: 26773524--26773610 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 40
26773514 AACTCAATGC
*
26773524 AATATCATCATCATGTGTGCACTCCTTACTCGCACACTCT
1 AATATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
26773564 -A-A-CATCATCATGTGTGCACTCCCTACTCGCACACT-T
1 AATATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
26773600 GAATATCATCA
1 -AATATCATCA
26773611 CACGATATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
36 1 0.02
37 32 0.76
38 2 0.05
39 2 0.05
40 5 0.12
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (40 bp):
AATATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
Found at i:26775748 original size:42 final size:42
Alignment explanation
Indices: 26775689--26775811 Score: 219
Period size: 42 Copynumber: 2.9 Consensus size: 42
26775679 GTTGATTTGA
26775689 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
*
26775731 ACCCGGCTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
26775773 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
26775812 TTGCCCCCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:26776107 original size:26 final size:26
Alignment explanation
Indices: 26776046--26776107 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
26776036 TTGCATATGA
*
26776046 GATGATGATAATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
26776072 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
26776098 GTTGATGATG
1 GATGATGATG
26776108 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:26777727 original size:24 final size:23
Alignment explanation
Indices: 26777680--26777728 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
26777670 TCATTATTTC
* *
26777680 TATTTTCTTCATCATTTAATCCT
1 TATTTTCATCATCATTTAAGCCT
*
26777703 TATTTTCATCATTCATTTACGCCT
1 TATTTTCATCA-TCATTTAAGCCT
26777727 TA
1 TA
26777729 GGCCTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTCATCATCATTTAAGCCT
Found at i:26780837 original size:16 final size:18
Alignment explanation
Indices: 26780816--26780853 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
26780806 ATCAAAAACT
26780816 TGGAGAAAAAGA-AAG-A
1 TGGAGAAAAAGACAAGAA
*
26780832 TGGAGAACAAGACAAGAA
1 TGGAGAAAAAGACAAGAA
26780850 TGGA
1 TGGA
26780854 ACGAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.08
Consensus pattern (18 bp):
TGGAGAAAAAGACAAGAA
Found at i:26781557 original size:31 final size:31
Alignment explanation
Indices: 26781485--26781653 Score: 98
Period size: 31 Copynumber: 5.5 Consensus size: 31
26781475 ATTCATTATT
* *
26781485 GTAAGGTTATATCTCCATTGCAAAAGGTAGA-
1 GTAAGGTTATACCTCCATTGTAAAAGGTA-AC
*
26781516 G-AACGATTATACCTCCATTGTAAAAGGTAAC
1 GTAA-GGTTATACCTCCATTGTAAAAGGTAAC
* * * * **
26781547 GTAAGGTTATAACTTCATAG-AAAATGTAGT
1 GTAAGGTTATACCTCCATTGTAAAAGGTAAC
** *
26781577 GTAAGGTTATACCT-TTTCTGTAAAAGGTATC
1 GTAAGGTTATACCTCCAT-TGTAAAAGGTAAC
* * * **
26781608 ATACA-GTTACACCTCCATTGTAGAAA-TTAGT
1 GTA-AGGTTATACCTCCATTGTA-AAAGGTAAC
26781639 GTAAGGTTATACCTC
1 GTAAGGTTATACCTC
26781654 TATAGAAAAG
Statistics
Matches: 103, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
29 1 0.01
30 25 0.24
31 70 0.68
32 7 0.07
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (31 bp):
GTAAGGTTATACCTCCATTGTAAAAGGTAAC
Found at i:26787608 original size:42 final size:43
Alignment explanation
Indices: 26787562--26787680 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 43
26787552 CAGCTCATAT
* *
26787562 GCAACGACTTATGTGCACTCCTACTCGCACATAGTCGGG-TTA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGATCA
*
26787604 GCAACGGCTTATGTGCACTCCCACTCGCACATAGTCGGGATCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGATCA
* * *
26787647 GCATCGGCTTATGCGCACTCCTACTTGCACATAG
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAG
26787681 CCTGGTCAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 37 0.54
43 32 0.46
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (43 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGATCA
Found at i:26794685 original size:42 final size:42
Alignment explanation
Indices: 26794578--26794694 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
26794568 TGCAACGACT
* * *
26794578 TATGCGCACTTCTACTCGCACATAGGCGGGTCAGCAATGGCT
1 TATGCGCACTCCTACTCGCACATAGCCGGGTCAGCAATGGCC
* *
26794620 TATGCGCACTCCCACTCACACATAGCCGGGTCAGC-ATCGGCC
1 TATGCGCACTCCTACTCGCACATAGCCGGGTCAGCAAT-GGCC
* * *
26794662 TATGCGCACTCCTAGTCGTACATAGCTGGGTCA
1 TATGCGCACTCCTACTCGCACATAGCCGGGTCA
26794695 ATATCATCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.22
Consensus pattern (42 bp):
TATGCGCACTCCTACTCGCACATAGCCGGGTCAGCAATGGCC
Found at i:26795564 original size:19 final size:19
Alignment explanation
Indices: 26795523--26795561 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26795513 GAAGAAGGAG
**
26795523 AAGAAGCTGCTGGAGAGTG
1 AAGAAGCTGCTGGAGAGAA
26795542 AAGAAGCTGCTGGA-AGAA
1 AAGAAGCTGCTGGAGAGAA
26795560 AA
1 AA
26795562 AGATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.36, T:0.13
Consensus pattern (19 bp):
AAGAAGCTGCTGGAGAGAA
Found at i:26802808 original size:42 final size:41
Alignment explanation
Indices: 26802777--26803256 Score: 384
Period size: 42 Copynumber: 11.4 Consensus size: 41
26802767 GTTTATGCAT
* * *
26802777 ACTCCCACTCGCATATAGCCAGGTCAGCAACGGCTTATGTGC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
*
26802819 ACTCCCACTCACACATAGTCGAGTCAGCAACGACTTATGTGC
1 ACTCCCACTCACACATAGTCG-GTCAGCAACGGCTTATGTGC
* *
26802861 ACTCCCACTCCCACATAGTCGGGTCAGCAACAGCTTATGTGC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
** * * * * *
26802903 ACTCTTACTCGCATATAGTCCCGTCCGCAATGGCTTATGTGC
1 ACTCCCACTCACACATAGT-CGGTCAGCAACGGCTTATGTGC
* **
26802945 ACTCCTACTCGTACATAGTCGAGTCAGCAACGGCTTATGTGC
1 ACTCCCACTCACACATAGTCG-GTCAGCAACGGCTTATGTGC
* ** * * * *
26802987 GCTCGTACTCGCACATAGCCAGGTTAGCAATGGCTTATGTGC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
* * * *
26803029 ACTCCTACTCGCACATAGTCGGGTCAACAATGGCTTATGTGC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
* * * * * * *
26803071 ACTCCTACTCGCACATAGCCAGGACAGTAACGACTTATGTGT
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
* *** * * *
26803113 ACTCCTACTCGTGCATAGCCGGGTCAACAACGGCTTATGTAC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
*** * * *
26803155 ACTCATTCTCGCACATAGTCGGGTCAGCAATGGCTTATGTGA
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
* * **
26803197 ACTCCTACTCCCACATAACCGGGTCAGCAACGGCTTATGTGC
1 ACTCCCACTCACACATAGTC-GGTCAGCAACGGCTTATGTGC
**
26803239 ACTCTTACTCACACATAG
1 ACTCCCACTCACACATAG
26803257 CTAGGTCCAC
Statistics
Matches: 364, Mismatches: 69, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
41 2 0.01
42 359 0.99
43 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (41 bp):
ACTCCCACTCACACATAGTCGGTCAGCAACGGCTTATGTGC
Found at i:26802865 original size:84 final size:84
Alignment explanation
Indices: 26802777--26803256 Score: 541
Period size: 84 Copynumber: 5.7 Consensus size: 84
26802767 GTTTATGCAT
* * * * * *
26802777 ACTCCCACTCGCATATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACTCACACATAGTCGAG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCAG
* *
26802842 TCAGCAACGACTTATGTGC
66 TCAGCAATGGCTTATGTGC
* * * * * * *
26802861 ACTCCCACTCCCACATAGTCGGGTCAGCAACAGCTTATGTGCACTCTTACTCGCATATAGTCCCG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCAG
*
26802926 TCCGCAATGGCTTATGTGC
66 TCAGCAATGGCTTATGTGC
* * * * *
26802945 ACTCCTACTCGTACATAGTCGAGTCAGCAACGGCTTATGTGCGCTCGTACTCGCACATAG-CCAG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCA-
*
26803009 GTTAGCAATGGCTTATGTGC
65 GTCAGCAATGGCTTATGTGC
* * *
26803029 ACTCCTACTCGCACATAGTCGGGTCAACAATGGCTTATGTGCACTCCTACTCGCACATAG-CCAG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCA-
* * * * *
26803093 GACAGTAACGACTTATGTGT
65 GTCAGCAATGGCTTATGTGC
** * * * * **
26803113 ACTCCTACTCGTGCATAGCCGGGTCAACAACGGCTTATGTACACTCATTCTCGCACATAGTCGGG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCAG
*
26803178 TCAGCAATGGCTTATGTGA
66 TCAGCAATGGCTTATGTGC
* * * *
26803197 ACTCCTACTCCCACATAACCGGGTCAGCAACGGCTTATGTGCACTCTTACTCACACATAG
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAG
26803257 CTAGGTCCAC
Statistics
Matches: 334, Mismatches: 60, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
83 2 0.01
84 331 0.99
85 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (84 bp):
ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCGCACATAGTCCAG
TCAGCAATGGCTTATGTGC
Found at i:26802986 original size:126 final size:126
Alignment explanation
Indices: 26802783--26803257 Score: 560
Period size: 126 Copynumber: 3.8 Consensus size: 126
26802773 GCATACTCCC
* * * *
26802783 ACTCGCATATAG-CCAGGTCAGCAACGGCTTATGTGCACTCCCACTCACACATAGTCGAGTCAGC
1 ACTCGCACATAGTCC-GGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGTCGAGTCAGC
* * * *
26802847 AACGACTTATGTGCACTCCCACTCCCACATAGTCGGGTCAGCAACAGCTTATGTGCACTCTT
65 AACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCTT
* * * *
26802909 ACTCGCATATAGTCCCGTCCGCAATGGCTTATGTGCACTCCTACTCGTACATAGTCGAGTCAGCA
1 ACTCGCACATAGTCCGGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGTCGAGTCAGCA
* * * * * * *
26802974 ACGGCTTATGTGCGCTCGTACTCGCACATAGCCAGGTTAGCAATGGCTTATGTGCACTCCT
66 ACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCTT
* * * * *
26803035 ACTCGCACATAGTCGGGTCAACAATGGCTTATGTGCACTCCTACTCGCACATAG-CCAGGACAGT
1 ACTCGCACATAGTCCGGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGTCGA-GTCAGC
* ** * *
26803099 AACGACTTATGTGTACTCCTACTCGTGCATAGCCGGGTCAACAACGGCTTATGTACACTCATT
65 AACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTC-TT
* * * ** *
26803162 -CTCGCACATAGTCGGGTCAGCAATGGCTTATGTGAACTCCTACTCCCACATAACCGGGTCAGCA
1 ACTCGCACATAGTCCGGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGTCGAGTCAGCA
* * *
26803226 ACGGCTTATGTGCACTCTTACTCACACATAGC
66 ACGACTTATGTGCACTCCTACTCGCACATAGC
26803258 TAGGTCCACA
Statistics
Matches: 293, Mismatches: 52, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
125 2 0.01
126 287 0.98
127 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (126 bp):
ACTCGCACATAGTCCGGTCAGCAATGGCTTATGTGCACTCCTACTCGCACATAGTCGAGTCAGCA
ACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCTT
Found at i:26822951 original size:21 final size:21
Alignment explanation
Indices: 26822912--26822952 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26822902 GATTAGTTAG
*
26822912 TTTAAGTTATTTTAGTTTAAT
1 TTTAAGTTATTTTACTTTAAT
* *
26822933 TTTATGTTATTTTTCTTTAA
1 TTTAAGTTATTTTACTTTAA
26822953 ATTACTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTAAGTTATTTTACTTTAAT
Found at i:26827021 original size:35 final size:35
Alignment explanation
Indices: 26826957--26827189 Score: 229
Period size: 35 Copynumber: 6.7 Consensus size: 35
26826947 CACTTGGTTA
* *
26826957 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
26826989 AAATTATTTCATTAAATCAATGGGCCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
* * *
26827024 AAATTGTTTAATTAAGTCATTGGGCATAATTAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
*** *
26827059 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
26827094 AAATTTGTTTAATTAAATTGTTGGGCTTAATTAATT
1 AAA-TTATTTAATTAAGTTATTGGGCCTAATTAATT
* *
26827130 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
*** *
26827165 AAATTAAACAATTAAGTTAATGGGC
1 AAATTATTTAATTAAGTTATTGGGC
26827190 TTCTTAAGGA
Statistics
Matches: 163, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
32 13 0.08
35 123 0.75
36 27 0.17
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (35 bp):
AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:26827130 original size:106 final size:105
Alignment explanation
Indices: 26826977--26827189 Score: 318
Period size: 106 Copynumber: 2.0 Consensus size: 105
26826967 ATTAAGTTGT
*
26826977 GCCTAATTAATTAAATTATTTCATTAAATCAATGGGCCTAATTAATTAAATTGTTTAATTAAGTC
1 GCCTAATTAATTAAATTATTTAATTAAATCAATGGGCCTAATTAATTAAATTGTTTAATTAAGTC
*
26827042 ATTGGGCATAATTAATTAAATTAAACAATTAAGTTATTGG
66 ATTGGGCATAATTAATTAAATTAAACAATTAAGTTAATGG
* * *** *
26827082 GCCTAATTGATTAAATTTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGT
1 GCCTAATTAATTAAA-TTATTTAATTAAATCAATGGGCCTAATTAATTAAATTGTTTAATTAAGT
* * *
26827147 TATTGGGCCTAATTGATTAAATTAAACAATTAAGTTAATGG
65 CATTGGGCATAATTAATTAAATTAAACAATTAAGTTAATGG
26827188 GC
1 GC
26827190 TTCTTAAGGA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
105 14 0.15
106 82 0.85
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (105 bp):
GCCTAATTAATTAAATTATTTAATTAAATCAATGGGCCTAATTAATTAAATTGTTTAATTAAGTC
ATTGGGCATAATTAATTAAATTAAACAATTAAGTTAATGG
Found at i:26827134 original size:71 final size:70
Alignment explanation
Indices: 26826954--26827169 Score: 251
Period size: 71 Copynumber: 3.1 Consensus size: 70
26826944 AAGCACTTGG
* * * * * *
26826954 TTAAAATTGTTTAATT-AA-GTTGTGCCTAATTAATTAAATTATTTC-ATTAAATCAATGGGCCT
1 TTAAATTTGTTTAATTAAATGTTGGGCATAATTAATTAAATTA-TTCAATTAAGTTATTGGGCCT
*
26827016 AATTAA
65 AATTGA
* * **
26827022 TTAAA-TTGTTTAATTAAGTCATTGGGCATAATTAATTAAATTAAACAATTAAGTTATTGGGCCT
1 TTAAATTTGTTTAATTAAAT-GTTGGGCATAATTAATTAAATTATTCAATTAAGTTATTGGGCCT
26827086 AATTGA
65 AATTGA
* * *
26827092 TTAAATTTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCT
1 TTAAATTTGTTTAATTAAA-TGTTGGGCATAATTAATTAAATTATTCAATTAAGTTATTGGGCCT
26827157 AATTGA
65 AATTGA
26827163 TTAAATT
1 TTAAATT
26827170 AAACAATTAA
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
67 10 0.08
68 6 0.05
69 1 0.01
70 44 0.35
71 63 0.50
72 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (70 bp):
TTAAATTTGTTTAATTAAATGTTGGGCATAATTAATTAAATTATTCAATTAAGTTATTGGGCCTA
ATTGA
Found at i:26838209 original size:28 final size:30
Alignment explanation
Indices: 26838146--26838212 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
26838136 NNNNNNTTTT
*
26838146 AAAAATTACACTTTTGCCCCCGTAAAAGTG
1 AAAAATTACACTTTTGCCCCCGAAAAAGTG
* *
26838176 AAAAATTACATTTTTG-CCCC-AAAAATTG
1 AAAAATTACACTTTTGCCCCCGAAAAAGTG
*
26838204 GAAAATTAC
1 AAAAATTAC
26838213 CAAAATGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 14 0.42
29 4 0.12
30 15 0.45
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (30 bp):
AAAAATTACACTTTTGCCCCCGAAAAAGTG
Found at i:26842535 original size:35 final size:35
Alignment explanation
Indices: 26842469--26842717 Score: 279
Period size: 35 Copynumber: 7.1 Consensus size: 35
26842459 CACTTGGTTA
*
26842469 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
26842501 AAATTGTTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
26842536 AAATTGTTTAATTAAGTCATTGGACCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
26842571 AAATTAAAAAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
26842606 AAATTTGTTTAATTAAGTCATTGTGCCTAATTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * ** *
26842642 AAAATTATTTAATTAAATTGTTGGGCTTAATTAATT
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * * *
26842678 AAATTATTTAATTAAGTTATTTGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
26842713 AAATT
1 AAATT
26842718 AAACAATTAA
Statistics
Matches: 183, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
32 15 0.08
35 114 0.62
36 51 0.28
37 3 0.02
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:26842688 original size:71 final size:70
Alignment explanation
Indices: 26842469--26842718 Score: 312
Period size: 71 Copynumber: 3.6 Consensus size: 70
26842459 CACTTGGTTA
* *
26842469 AAATTGTTTAATTAAG---TTGTGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCCTAAT
1 AAATTGTTTAATTAAGTCATTGTGCCTAATTAATTAAATTATTTAATTAAATTATTGGGCCTAAT
26842531 TAATT
66 TAATT
*** *
26842536 AAATTGTTTAATTAAGTCATTG-GACCTAATTAATTAAATTAAAAAATTAAGTTATTGGGCCTAA
1 AAATTGTTTAATTAAGTCATTGTG-CCTAATTAATTAAATTATTTAATTAAATTATTGGGCCTAA
*
26842600 TTGATT
65 TTAATT
* * *
26842606 AAATTTGTTTAATTAAGTCATTGTGCCTAATTGATTAAAATTATTTAATTAAATTGTTGGGCTTA
1 AAA-TTGTTTAATTAAGTCATTGTGCCTAATTAATT-AAATTATTTAATTAAATTATTGGGCCTA
26842671 ATTAATT
64 ATTAATT
* * *
26842678 AAATTATTTAATTAAGTTATT-TGGCCTAATTGATTAAATTA
1 AAATTGTTTAATTAAGTCATTGT-GCCTAATTAATTAAATTA
26842719 AACAATTAAG
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
67 16 0.10
69 1 0.01
70 52 0.33
71 57 0.36
72 32 0.20
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.44
Consensus pattern (70 bp):
AAATTGTTTAATTAAGTCATTGTGCCTAATTAATTAAATTATTTAATTAAATTATTGGGCCTAAT
TAATT
Found at i:26842688 original size:142 final size:139
Alignment explanation
Indices: 26842466--26842736 Score: 393
Period size: 142 Copynumber: 1.9 Consensus size: 139
26842456 AAGCACTTGG
*
26842466 TTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCCTAAT
1 TTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTAAT
*
26842531 TAATTAAATTGTTTAATTAAGTCA-TTGGACCTAATTAATTAAATTAAAAAATTAAGTT-ATTGG
66 TAATTAAATTATTTAATTAAGTCATTTGG-CCTAATTAATTAAATTAAAAAATTAAGTTAATTGG
26842594 GCCTAATTGA
130 GCCTAATTGA
* * ** *
26842604 TTAAATTTGTTTAATTAAGTCATTGTGCCTAATTGATTAAAATTATTTAATTAAATTGTTGGGCT
1 TTAAAATTGTTTAATTAAG---TTGTGCCTAATTAATT-AAATTATTTAATTAAATCATTGGGCC
* * *
26842669 TAATTAATTAAATTATTTAATTAAGTTATTTGGCCTAATTGATTAAATTAAACAATTAAGTTAAT
62 TAATTAATTAAATTATTTAATTAAGTCATTTGGCCTAATTAATTAAATTAAAAAATTAAGTTAAT
26842734 TGG
127 TGG
26842737 ACTTCTTCAG
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
138 18 0.15
141 15 0.13
142 75 0.64
143 9 0.08
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (139 bp):
TTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCCTAAT
TAATTAAATTATTTAATTAAGTCATTTGGCCTAATTAATTAAATTAAAAAATTAAGTTAATTGGG
CCTAATTGA
Found at i:26842691 original size:107 final size:106
Alignment explanation
Indices: 26842469--26842717 Score: 317
Period size: 107 Copynumber: 2.4 Consensus size: 106
26842459 CACTTGGTTA
* * *
26842469 AAATTGTTTAATTAAG---TTGTGCCTAATTAATTAAA-TTGTTTAATTAAATCATTGGGCCTAA
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAATCATTGGGCCTAA
* *
26842530 TTAATTAAATTGTTTAATTAAGTCATTGGACCTAATTAATT
66 TTAATTAAATTATTTAATTAAATCATTGGACCTAATTAATT
*** * *
26842571 AAATTAAAAAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATTGTGCCTAA
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAATCATTGGGCCTAA
* ** * *
26842636 TTGATTAAAATTATTTAATTAAATTGTTGGGCTTAATTAATT
66 TTAATT-AAATTATTTAATTAAATCATTGGACCTAATTAATT
*
26842678 AAATTATTTAATTAAGTTATTTGGCCTAATTGATTAAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATT
26842718 AAACAATTAA
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
102 12 0.10
105 17 0.14
106 29 0.24
107 65 0.53
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (106 bp):
AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTTGTTTAATTAAATCATTGGGCCTAA
TTAATTAAATTATTTAATTAAATCATTGGACCTAATTAATT
Found at i:26845735 original size:68 final size:68
Alignment explanation
Indices: 26845548--26845705 Score: 237
Period size: 68 Copynumber: 2.3 Consensus size: 68
26845538 TCATCCATAC
*
26845548 CTCATATAATATGTGGAAACAACATGACATACATGTCATCTTGGCATTTATCTCTTCCTTGTTAT
1 CTCATATAATATGTGGAAACAACATGACATACATGTCATCTTAGCATTTATCTCTTCCTTGTTAT
26845613 TAT
66 TAT
* * * * * *
26845616 CTCATATAGTATGTGGAAACAATATGACATACATGTCGTCTTAACATTTATCT-TATGCTTGTTC
1 CTCATATAATATGTGGAAACAACATGACATACATGTCATCTTAGCATTTATCTCT-TCCTTGTTA
26845680 TTAT
65 TTAT
26845684 CTCATATAATATGTGGAAACAA
1 CTCATATAATATGTGGAAACAA
26845706 GATCGCATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 1 0.01
68 80 0.99
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (68 bp):
CTCATATAATATGTGGAAACAACATGACATACATGTCATCTTAGCATTTATCTCTTCCTTGTTAT
TAT
Found at i:26847670 original size:54 final size:54
Alignment explanation
Indices: 26847575--26847779 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 54
26847565 TATACCACCA
* *
26847575 CATCTCATCC-AGCTCATGTGCATCCCCCCACATCGTTCACATAGCCGGACACCC
1 CATCTCA-CCAAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGACATCC
* * *
26847629 CATTTCACCAAGCTCATGTGCATCCCCCCACATCGTGCACATAACTGGACATCC
1 CATCTCACCAAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGACATCC
* * * * *
26847683 CATCTCACCTAA-CTTATGTGCATCCCTCCACATCGTACACATAGTCGAACATCC
1 CATCTCACC-AAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGACATCC
*
26847737 CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATA
1 CATCTCACCAAGCTCATGTGCATCCCCCCACATCGTGCACATA
26847780 ATTGGAATCA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.02
54 126 0.96
55 2 0.02
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.22
Consensus pattern (54 bp):
CATCTCACCAAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGACATCC
Found at i:26847764 original size:108 final size:108
Alignment explanation
Indices: 26847590--26847785 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
26847580 CATCCAGCTC
* * *
26847590 ATGTGCATCCCCCCACATCGTTCACATAGCCGGACACCCCATTTCACCAAGCTCATGTGCATCCC
1 ATGTGCATCCCCCCACATCGTACACATAGCCGAACACCCCATCTCACCAAGCTCATGTGCATCCC
26847655 CCCACATCGTGCACATAACTGGACATCCCATCTCACCTAACTT
66 CCCACATCGTGCACATAACTGGACATCCCATCTCACCTAACTT
* * * *
26847698 ATGTGCATCCCTCCACATCGTACACATAGTCGAACATCCCATCTCACCCAGCTCATGTGCATCCC
1 ATGTGCATCCCCCCACATCGTACACATAGCCGAACACCCCATCTCACCAAGCTCATGTGCATCCC
*
26847763 CCCACATCGTGCACATAATTGGA
66 CCCACATCGTGCACATAACTGGA
26847786 ATCATCATGT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.22
Consensus pattern (108 bp):
ATGTGCATCCCCCCACATCGTACACATAGCCGAACACCCCATCTCACCAAGCTCATGTGCATCCC
CCCACATCGTGCACATAACTGGACATCCCATCTCACCTAACTT
Found at i:26854950 original size:54 final size:54
Alignment explanation
Indices: 26854863--26855058 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
26854853 ATTAGTATAC
* * **
26854863 CACCACATCTCATCCAGCTTGTGTGCATCCCCCCACATCGTGCACATAGCTGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
*
26854917 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACAAAG-TCGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCT-GGA
** * * * * *
26854971 CATTCCATCTCACCTAACTCATGTGCATTCCCCCACATTGTGCACATAGCCGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
* *
26855025 CATCCCATCTCACCCAGCTCAAGTGCATCCCCCC
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCC
26855059 CCNNNNNNNN
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.99
ACGTcount: A:0.23, C:0.42, G:0.14, T:0.21
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
Found at i:26857123 original size:35 final size:36
Alignment explanation
Indices: 26857020--26857125 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 36
26857010 TTCAGTGTAA
* *
26857020 AGTGTAAGGGTTATCACTTGATCCCATTAAAAAGCT
1 AGTGTAAGGGTTATCGCTTGATCCCATTAAAAAGCC
**
26857056 AGTGTAAGGGTTATCGCTTGATTTC-TTCAAAAAGCC
1 AGTGTAAGGGTTATCGCTTGATCCCATT-AAAAAGCC
* * *
26857092 ATTGTGAGGGTT-TTGCTTGATCCCATTAAAAAGC
1 AGTGTAAGGGTTATCGCTTGATCCCATTAAAAAGC
26857126 AGATTGCTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 18 0.31
36 41 0.69
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (36 bp):
AGTGTAAGGGTTATCGCTTGATCCCATTAAAAAGCC
Found at i:26858402 original size:19 final size:19
Alignment explanation
Indices: 26858350--26858403 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
26858340 ATGGAGTCCA
26858350 TGAAGGCT-AAAGGAGGGTT
1 TGAAGGCTGAAA-GAGGGTT
* *
26858369 TGAAGAGTGTGAAAGAGTGTT
1 TGAAG-G-CTGAAAGAGGGTT
26858390 TGAAGGCTGAAAGA
1 TGAAGGCTGAAAGA
26858404 AGTGAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 12 0.41
22 3 0.10
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (19 bp):
TGAAGGCTGAAAGAGGGTT
Found at i:26860533 original size:33 final size:33
Alignment explanation
Indices: 26860470--26860533 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
26860460 TATATTAATG
* * *
26860470 AAAATTAAATTAATAAATTAAAGTTAATTTAAA
1 AAAAATAAATTAATAAATTAAAATCAATTTAAA
26860503 AAAAATAAATTAA-AAATTAAAATCATATTTA
1 AAAAATAAATTAATAAATTAAAATCA-ATTTA
26860534 GAACAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (33 bp):
AAAAATAAATTAATAAATTAAAATCAATTTAAA
Found at i:26861810 original size:2 final size:2
Alignment explanation
Indices: 26861803--26861848 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
26861793 AAAGCCAAAA
* *
26861803 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT TT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26861844 AT AT A
1 AT AT A
26861849 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26862953 original size:2 final size:2
Alignment explanation
Indices: 26862946--26862982 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26862936 NNNNNNNNNN
26862946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26862983 GTGTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26864385 original size:25 final size:25
Alignment explanation
Indices: 26864352--26864409 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
26864342 ACTTTAAAGA
26864352 GAGAATAATAGCGGTATTCTTTACC
1 GAGAATAATAGCGGTATTCTTTACC
26864377 GAGAATAATAGCGGTATTCTTTACC
1 GAGAATAATAGCGGTATTCTTTACC
*
26864402 AAGAATAA
1 GAGAATAA
26864410 GCAAATTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGAATAATAGCGGTATTCTTTACC
Found at i:26867094 original size:16 final size:16
Alignment explanation
Indices: 26867073--26867104 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26867063 CCAAAAATTA
26867073 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
26867089 GATTTTGATTTTTTTG
1 GATTTTGATTCTTTTG
26867105 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.19, T:0.66
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:26868510 original size:18 final size:18
Alignment explanation
Indices: 26868489--26868527 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26868479 TACTTAATCA
*
26868489 TGTTATCGTGTTTAAACG
1 TGTTATCATGTTTAAACG
26868507 TGTTATCATGTTTAAACG
1 TGTTATCATGTTTAAACG
26868525 TGT
1 TGT
26868528 ATACGTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (18 bp):
TGTTATCATGTTTAAACG
Found at i:26870178 original size:22 final size:21
Alignment explanation
Indices: 26870153--26870197 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26870143 CAAGATCATT
*
26870153 TTGCCTGAAATGTATTGATACA
1 TTGCCT-AAATGTATCGATACA
*
26870175 TTGCCTTAATGTATCGATACA
1 TTGCCTAAATGTATCGATACA
26870196 TT
1 TT
26870198 CATTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGCCTAAATGTATCGATACA
Found at i:26871863 original size:2 final size:2
Alignment explanation
Indices: 26871856--26871891 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26871846 CAAGAGTACA
26871856 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
26871892 GATTTTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26873551 original size:42 final size:42
Alignment explanation
Indices: 26873427--26873552 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
26873417 GTAATGATAT
* * * *
26873427 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTAC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
* * *
26873469 TGACCAGGCTATGTGCGAGTGGGAGTGCTCATAAGCCATTGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
* *
26873511 TGACCCGGTTATGTGCGAGTAAGAGTGCACATAAGCCATTGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
26873553 ATATGAGTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
Found at i:26877392 original size:20 final size:20
Alignment explanation
Indices: 26877366--26877411 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
26877356 AATCTTACCT
* *
26877366 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
26877387 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
26877408 TTTT
1 TTTT
26877412 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:26877413 original size:22 final size:22
Alignment explanation
Indices: 26877371--26877411 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
26877361 TACCTTTTTT
*
26877371 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
26877393 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
26877412 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:26891169 original size:21 final size:21
Alignment explanation
Indices: 26891145--26891190 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26891135 ACTCAGAAAC
*
26891145 AGAAAGTTTCTCACTACAGCG
1 AGAAAGTATCTCACTACAGCG
* * *
26891166 AGAATGTATCTCGCTGCAGCG
1 AGAAAGTATCTCACTACAGCG
26891187 AGAA
1 AGAA
26891191 GCTACAGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (21 bp):
AGAAAGTATCTCACTACAGCG
Found at i:26895627 original size:13 final size:13
Alignment explanation
Indices: 26895609--26895633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26895599 TTCCAGAAAA
26895609 TTTATAAAATCAT
1 TTTATAAAATCAT
26895622 TTTATAAAATCA
1 TTTATAAAATCA
26895634 CAATTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:26904105 original size:54 final size:54
Alignment explanation
Indices: 26904047--26904242 Score: 347
Period size: 54 Copynumber: 3.6 Consensus size: 54
26904037 CTATTCAACT
* **
26904047 ATGTGGTGGGATGCATATGAGCTGGGTGAGATGGGATGTTTGGCTATGTGCATG
1 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATG
*
26904101 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGATATGTGCATG
1 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATG
26904155 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATG
1 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATG
*
26904209 ATGTGGTGGGATGCACATGAGCTTGGTGAGATGG
1 ATGTGGTGGGATGCACATGAGCTGGGTGAGATGG
26904243 AATGATTGCT
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.19, C:0.10, G:0.43, T:0.28
Consensus pattern (54 bp):
ATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCATG
Found at i:26911978 original size:23 final size:19
Alignment explanation
Indices: 26911952--26911999 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
26911942 TTAATATTTT
26911952 AATATTATTTATTTATAAAATAA
1 AATATTATTT-TTT-T-AAA-AA
*
26911975 AATAATATTTTTTTAAAAA
1 AATATTATTTTTTTAAAAA
26911994 AATATT
1 AATATT
26912000 TTTCTCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 3 0.13
21 1 0.04
22 3 0.13
23 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATATTATTTTTTTAAAAA
Found at i:26911997 original size:16 final size:16
Alignment explanation
Indices: 26911972--26912002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26911962 ATTTATAAAA
*
26911972 TAAAATAATATTTTTT
1 TAAAAAAATATTTTTT
26911988 TAAAAAAATATTTTT
1 TAAAAAAATATTTTT
26912003 CTCATCCGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAAAAAATATTTTTT
Found at i:26913669 original size:60 final size:59
Alignment explanation
Indices: 26913574--26913753 Score: 243
Period size: 60 Copynumber: 3.0 Consensus size: 59
26913564 AGACATCATC
* * *
26913574 ACCTACTCGTGGCAACTGCCCATGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCATGGGAACTGCCCACGCCACCA-ATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * * *
26913634 ACCTATTCATGGGAACTGCCCACGTCACCTAATATAAATCGAGACTTCAGGTCCCCTTTT
1 ACCTACTCATGGGAACTGCCCACGCCACC-AATATAAATCGGGGCTTCAGGTCCCCCTTT
* *
26913694 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCATGGGAACTGCCCACGCCA-CCAATATAAATCGGGGCTTCAGGTCCCCCTTT
26913754 TTACAATCAA
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
60 100 0.97
61 3 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (59 bp):
ACCTACTCATGGGAACTGCCCACGCCACCAATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:26914767 original size:16 final size:16
Alignment explanation
Indices: 26914746--26914779 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
26914736 TCACCTTCCT
26914746 TTTCTTCTTCTTTTTC
1 TTTCTTCTTCTTTTTC
*
26914762 TTTCTTTTTCTTTTTC
1 TTTCTTCTTCTTTTTC
26914778 TT
1 TT
26914780 CTGTGAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTCTTCTTTTTC
Found at i:26915318 original size:28 final size:28
Alignment explanation
Indices: 26915286--26915341 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
26915276 TTTCGGAGTA
26915286 TAGGGGCAAAATCGT-AATTTTTTCACCC
1 TAGGGGCAAAATCGTAAATTTTTT-ACCC
* *
26915314 TAGGGGCAAATTGGTAAATTTTTTACCC
1 TAGGGGCAAAATCGTAAATTTTTTACCC
26915342 CAGCACTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (28 bp):
TAGGGGCAAAATCGTAAATTTTTTACCC
Found at i:26926075 original size:43 final size:43
Alignment explanation
Indices: 26926009--26926221 Score: 327
Period size: 43 Copynumber: 5.0 Consensus size: 43
26925999 TGTGATAATT
*
26926009 ATGACCCAGCTATGTACGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
26926052 ATGACCCAGCTATGTGCGATGTAGTAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
26926095 ATGACCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTAATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
26926138 ATGACCTAGCTATATGCGGTGTAGTAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
26926181 ATGACCCAGCTATGGGCGGTGTAGGAGTACACATGAGCTGA
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGA
26926222 GGGAGAGTTA
Statistics
Matches: 151, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:26928102 original size:2 final size:2
Alignment explanation
Indices: 26928092--26928124 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
26928082 ACATATTTAC
*
26928092 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26928125 CCCATCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26928217 original size:43 final size:43
Alignment explanation
Indices: 26928152--26928274 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
26928142 CACCATCCCA
* * ** *
26928152 TCATCATCAGCTCATGTC-CACTCCCTACTCGCACATGGCTGGG
1 TCATCATCGGCTTATG-CGCACTCCCTACTCGCACATAACCGGG
* *
26928195 TCATCA-CTGGTTTATGCGCACTCCCTACTAGCACATAACCGGG
1 TCATCATC-GGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* *
26928238 TCATCATCGGCTTATGCGCACTTCCTACTCGTACATA
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATA
26928275 GCCAAGTGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 63 0.95
44 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:26934160 original size:19 final size:19
Alignment explanation
Indices: 26934123--26934164 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26934113 AAATTTTTGG
***
26934123 AATAAAATAATATTTTATT
1 AATAAAATAATAAAATATT
26934142 AATAAAATAATAAAATATT
1 AATAAAATAATAAAATATT
26934161 AATA
1 AATA
26934165 TTTTATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAATAATAAAATATT
Found at i:26934615 original size:20 final size:20
Alignment explanation
Indices: 26934564--26934615 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
26934554 CTCCTCCACC
* *
26934564 TTCATGCGCCCAATGCCATT
1 TTCATGCACCCAACGCCATT
**
26934584 TTCACCCACCCAACGCCATT
1 TTCATGCACCCAACGCCATT
*
26934604 TTCATGCTCCCA
1 TTCATGCACCCA
26934616 TGCCATTTCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.42, G:0.10, T:0.27
Consensus pattern (20 bp):
TTCATGCACCCAACGCCATT
Found at i:26935857 original size:43 final size:43
Alignment explanation
Indices: 26935796--26935956 Score: 250
Period size: 43 Copynumber: 3.7 Consensus size: 43
26935786 TATAACCCAA
*
26935796 CTATGTGCGGTGTGGGAGTGCACATAAGCTGATGAAGACCTAG
1 CTATGTGCGGTGTGGGAGTGCACATAAGCTGATGATGACCTAG
* *
26935839 CTATGTGCGGTGTCGGAGTGCACATAAGTTGATGATGACCTAG
1 CTATGTGCGGTGTGGGAGTGCACATAAGCTGATGATGACCTAG
* *
26935882 CTATGTGCGGTGTGGGAGCGCACATGAGCTGATGATGACCTAG
1 CTATGTGCGGTGTGGGAGTGCACATAAGCTGATGATGACCTAG
* * *
26935925 TTATGTGCGGTGTGGGAGTGCACGTGAGCTGA
1 CTATGTGCGGTGTGGGAGTGCACATAAGCTGA
26935957 GGGAGAGTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (43 bp):
CTATGTGCGGTGTGGGAGTGCACATAAGCTGATGATGACCTAG
Found at i:26937508 original size:14 final size:13
Alignment explanation
Indices: 26937482--26937511 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
26937472 AGTAAATAAC
26937482 ATTAAAATTAAAA
1 ATTAAAATTAAAA
26937495 ATTAAAACTTAAAA
1 ATTAAAA-TTAAAA
26937509 ATT
1 ATT
26937512 TAAGGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTAAAATTAAAA
Found at i:26941267 original size:28 final size:28
Alignment explanation
Indices: 26941208--26941267 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
26941198 TGGGTGGTGT
* * *
26941208 AAAATTACAATTTTGCCCCTAGGGTGGC
1 AAAATGACAATTTTACCCCTAGGCTGGC
* * *
26941236 AAAATGACTATTTTACCCCTATGCTGGG
1 AAAATGACAATTTTACCCCTAGGCTGGC
26941264 AAAA
1 AAAA
26941268 ACGCCGAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAATGACAATTTTACCCCTAGGCTGGC
Found at i:26954748 original size:39 final size:40
Alignment explanation
Indices: 26954669--26954761 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 40
26954659 NNNNNCATTC
* ** *
26954669 TCGCTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGTAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGAAGAAATT
26954709 TCGCTGCAGCGAGAAACATTCTG-TTTCTGGGAAGAAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGAAGAAATT
*
26954748 TCACTGCAGCGAGA
1 TCGCTGCAGCGAGA
26954762 TTGAATCTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.54
40 22 0.46
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (40 bp):
TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGAAGAAATT
Found at i:26956999 original size:38 final size:38
Alignment explanation
Indices: 26956948--26957047 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 38
26956938 CAAAAGGTAG
*
26956948 AAAGGTTATGCTTGATCCTTAAAAGGCATTTTTCTTGT
1 AAAGGTTATGCTTGATCCTTAAAAGGCATTTTGCTTGT
* * *
26956986 AAAGGTTGTGCTTGATCCTTAAAAGGCGTTTTGGTTGT
1 AAAGGTTATGCTTGATCCTTAAAAGGCATTTTGCTTGT
* * *
26957024 AAAGGCTATACTTGATCCTAAAAA
1 AAAGGTTATGCTTGATCCTTAAAA
26957048 AGTAGTGACT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (38 bp):
AAAGGTTATGCTTGATCCTTAAAAGGCATTTTGCTTGT
Found at i:26960338 original size:80 final size:79
Alignment explanation
Indices: 26960199--26960441 Score: 360
Period size: 80 Copynumber: 3.0 Consensus size: 79
26960189 AGTACACATA
* * **
26960199 AAATCAACAACTTCTTTCAAAACCCTTGATTCCTTACACTTAACCTTTAGAACTGAATCAATTTC
1 AAATCAAC-ACTTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAGAACCAAATCAATTTC
26960264 TAAAAAAATGGCACC
65 TAAAAAAATGGCACC
26960279 AAATCAACACTTTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAGAACCAAATCAATTTC
1 AAATCAACAC-TTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAGAACCAAATCAATTTC
** *
26960344 TAGGAAGATGGCACC
65 TAAAAAAATGGCACC
* * *
26960359 AAATCAGCACCTTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAAAACCAAATCAATTTT
1 AAATCAACA-CTTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAGAACCAAATCAATTTC
*
26960424 TTAAAAAATGGCACC
65 TAAAAAAATGGCACC
26960439 AAA
1 AAA
26960442 AAGATCAAGA
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
79 2 0.01
80 144 0.98
81 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (79 bp):
AAATCAACACTTCTTTCAAAACCCTTGATTCCCTACACTTAACCTTCAGAACCAAATCAATTTCT
AAAAAAATGGCACC
Found at i:26963659 original size:37 final size:37
Alignment explanation
Indices: 26963608--26963762 Score: 141
Period size: 37 Copynumber: 4.1 Consensus size: 37
26963598 AAAAGTTAAG
* *
26963608 AGGTTGTGCGTGATCATTAAAAGGCATTTGGTTGTAA
1 AGGTTGTGCTTGATCATTAAAAGGCATTTAGTTGTAA
* * *
26963645 AGGTTATGCTTGATCCA-TGAAAGGCATTTAGATGTAA
1 AGGTTGTGCTTGAT-CATTAAAAGGCATTTAGTTGTAA
* * * * *
26963682 AGGTTGTGCTTGATCCTCAAAAGGTATTTTGGTTGTGA
1 AGGTTGTGCTTGATCATTAAAAGGCA-TTTAGTTGTAA
* * ** *
26963720 AGGTTGTGCTTGATCCTTGAAAAAGTGTTCAGTTGTAA
1 AGGTTGTGCTTGATCATT-AAAAGGCATTTAGTTGTAA
26963758 AGGTT
1 AGGTT
26963763 ATGCCTAATC
Statistics
Matches: 95, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
36 1 0.01
37 48 0.51
38 40 0.42
39 6 0.06
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (37 bp):
AGGTTGTGCTTGATCATTAAAAGGCATTTAGTTGTAA
Found at i:26963732 original size:38 final size:36
Alignment explanation
Indices: 26963608--26963736 Score: 150
Period size: 37 Copynumber: 3.5 Consensus size: 36
26963598 AAAAGTTAAG
* *
26963608 AGGTTGTGCGTGATCATTAAAAGGCATTTGGTTGTAA
1 AGGTTGTGCTTGATC-CTAAAAGGCATTTGGTTGTAA
* * * *
26963645 AGGTTATGCTTGATCCATGAAAGGCATTTAGATGTAA
1 AGGTTGTGCTTGATCC-TAAAAGGCATTTGGTTGTAA
* *
26963682 AGGTTGTGCTTGATCCTCAAAAGGTATTTTGGTTGTGA
1 AGGTTGTGCTTGATCCT-AAAAGGCA-TTTGGTTGTAA
26963720 AGGTTGTGCTTGATCCT
1 AGGTTGTGCTTGATCCT
26963737 TGAAAAAGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.01
37 51 0.66
38 25 0.32
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (36 bp):
AGGTTGTGCTTGATCCTAAAAGGCATTTGGTTGTAA
Found at i:26963755 original size:38 final size:38
Alignment explanation
Indices: 26963638--26963762 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 38
26963628 AAGGCATTTG
* * * * *
26963638 GTTGTAAAGGTTATGCTTGATCCAT-GAAAGGCA-TTTA
1 GTTGTAAAGGTTGTGCTTGATCC-TCAAAAAGTAGTTCA
* * * **
26963675 GATGTAAAGGTTGTGCTTGATCCTCAAAAGGTATTTTG
1 GTTGTAAAGGTTGTGCTTGATCCTCAAAAAGTAGTTCA
* *
26963713 GTTGTGAAGGTTGTGCTTGATCCTTGAAAAAGT-GTTCA
1 GTTGTAAAGGTTGTGCTTGATCC-TCAAAAAGTAGTTCA
26963751 GTTGTAAAGGTT
1 GTTGTAAAGGTT
26963763 ATGCCTAATC
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
36 1 0.01
37 27 0.38
38 37 0.51
39 7 0.10
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.37
Consensus pattern (38 bp):
GTTGTAAAGGTTGTGCTTGATCCTCAAAAAGTAGTTCA
Found at i:26964193 original size:2 final size:2
Alignment explanation
Indices: 26964186--26964224 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
26964176 TAAACATGCT
*
26964186 TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26964225 CAAAATTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26965424 original size:152 final size:151
Alignment explanation
Indices: 26965241--26965532 Score: 557
Period size: 152 Copynumber: 1.9 Consensus size: 151
26965231 TAATTTATAG
*
26965241 AATGCTATTAATTCTCAACTATATTCTCTTATTTTCAATCAACTAATGATCATATGTATTTAATC
1 AATGCTATTAATTCTCAACTATATTCTCTTATTTTCAATCAACTAACGATCATATGTATTTAATC
26965306 ATCTCTAACAGCTATTTTTTTTTCACTTATTTCTCTTGTTTCCAATCAACTCATTTAATAATTTC
66 ATCTCTAACAGCTATTTTTTTTTCACTTATTTCTCTTGTTTCCAATCAACTCATTTAATAATTTC
26965371 CAACTGCTATNCTTATTTTTAT
131 CAACTGCTAT-CTTATTTTTAT
*
26965393 AATGCTATTAATTCTCAACTATATTCTCTTATTTTCAATCAACTAACGGTCATATGTATTTAATC
1 AATGCTATTAATTCTCAACTATATTCTCTTATTTTCAATCAACTAACGATCATATGTATTTAATC
26965458 ATCTCTAACAGCTATTTTTTTTTCACTTATTTCTCTTGTTTCCAATCAACTCATTTAATAATTTC
66 ATCTCTAACAGCTATTTTTTTTTCACTTATTTCTCTTGTTTCCAATCAACTCATTTAATAATTTC
26965523 CAACTGCTAT
131 CAACTGCTAT
26965533 TTTTTCCCTA
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 138 1.00
ACGTcount: A:0.28, C:0.20, G:0.04, T:0.47
Consensus pattern (151 bp):
AATGCTATTAATTCTCAACTATATTCTCTTATTTTCAATCAACTAACGATCATATGTATTTAATC
ATCTCTAACAGCTATTTTTTTTTCACTTATTTCTCTTGTTTCCAATCAACTCATTTAATAATTTC
CAACTGCTATCTTATTTTTAT
Found at i:26967119 original size:42 final size:42
Alignment explanation
Indices: 26967088--26967273 Score: 282
Period size: 42 Copynumber: 4.4 Consensus size: 42
26967078 ACTTATTCGT
* * *
26967088 ACTCCCACTCGCATATAGTCGGGTCAGCAACGGCTTATGTGC
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
* * * *
26967130 ACTCCTACTCGCACATAGCTGGGTTAGCAACGACTTATGTGA
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
*
26967172 ACTCCTACTCGCACATAGCCAGGTCAGCAACGGCTTATGTGC
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
* *
26967214 ACTCCTATTCGCACATAACCGGGTCAGCAACGGCTTATGTGC
1 ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
26967256 ACTCCTACTCGCACATAG
1 ACTCCTACTCGCACATAG
26967274 ACAGGTCCAC
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (42 bp):
ACTCCTACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGC
Found at i:26967213 original size:84 final size:84
Alignment explanation
Indices: 26967072--26967280 Score: 294
Period size: 84 Copynumber: 2.5 Consensus size: 84
26967062 CATCTCATAT
* * * * *
26967072 GCAACGACTTAT-TCGTACTCCCACTCGCATATAGTCGGGTCAGCAACGGCTTATGTGCACTCCT
1 GCAACGACTTATGT-GAACTCCTACTCGCACATAGACAGGTCAGCAACGGCTTATGTGCACTCCT
* * *
26967136 ACTCGCACATAGCTGGGTTA
65 ACTCGCACATAACCGGGTCA
*
26967156 GCAACGACTTATGTGAACTCCTACTCGCACATAGCCAGGTCAGCAACGGCTTATGTGCACTCCTA
1 GCAACGACTTATGTGAACTCCTACTCGCACATAGACAGGTCAGCAACGGCTTATGTGCACTCCTA
*
26967221 TTCGCACATAACCGGGTCA
66 CTCGCACATAACCGGGTCA
* *
26967240 GCAACGGCTTATGTGCACTCCTACTCGCACATAGACAGGTC
1 GCAACGACTTATGTGAACTCCTACTCGCACATAGACAGGTC
26967281 CACATCAACA
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
84 111 0.99
85 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (84 bp):
GCAACGACTTATGTGAACTCCTACTCGCACATAGACAGGTCAGCAACGGCTTATGTGCACTCCTA
CTCGCACATAACCGGGTCA
Found at i:26971850 original size:42 final size:42
Alignment explanation
Indices: 26971797--26972047 Score: 322
Period size: 42 Copynumber: 6.0 Consensus size: 42
26971787 CATCTCATAT
* * * *
26971797 GCAACAGCTTATGCGTACTCCCACTCGCATATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * * * *
26971839 ACAATGGCTTATGTGCACTCCTACTCGCACATAGTCAGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * * *
26971881 GCAACGGCTTATGTGCACTCCTACTAGCACATAGCTGGGTTA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* *
26971923 GCAATGGCTTATGTGCATTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* *
26971965 GCAACGGCTTATGTGCACTCCCACTGGCACATAGTCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * *
26972007 GCAACGACTTATGTGCACTCCTACTCGCACATAGCCAGGTC
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTC
26972048 CACATCAACA
Statistics
Matches: 178, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 178 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:26972028 original size:126 final size:126
Alignment explanation
Indices: 26971815--26972041 Score: 382
Period size: 126 Copynumber: 1.8 Consensus size: 126
26971805 TTATGCGTAC
* * *
26971815 TCCCACTCGCATATAGCCGGGTCAACAATGGCTTATGTGCACTCCTACTCGCACATAGTCAGGTC
1 TCCCACTCGCACATAGCCGGGTCAACAACGGCTTATGTGCACTCCCACTCGCACATAGTCAGGTC
*
26971880 AGCAACGGCTTATGTGCACTCCTACTAGCACATAGCTGGGTTAGCAATGGCTTATGTGCAT
66 AGCAACGACTTATGTGCACTCCTACTAGCACATAGCTGGGTTAGCAATGGCTTATGTGCAT
* * *
26971941 TCCCACTCGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACTGGCACATAGTCGGGTC
1 TCCCACTCGCACATAGCCGGGTCAACAACGGCTTATGTGCACTCCCACTCGCACATAGTCAGGTC
*
26972006 AGCAACGACTTATGTGCACTCCTACTCGCACATAGC
66 AGCAACGACTTATGTGCACTCCTACTAGCACATAGC
26972042 CAGGTCCACA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 93 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (126 bp):
TCCCACTCGCACATAGCCGGGTCAACAACGGCTTATGTGCACTCCCACTCGCACATAGTCAGGTC
AGCAACGACTTATGTGCACTCCTACTAGCACATAGCTGGGTTAGCAATGGCTTATGTGCAT
Found at i:26974817 original size:15 final size:15
Alignment explanation
Indices: 26974788--26974826 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26974778 TATAGTAACG
* *
26974788 GTTACTCATATTAAT
1 GTTATTCATAATAAT
*
26974803 GTTCTTCATAATAAT
1 GTTATTCATAATAAT
26974818 GTTATTCAT
1 GTTATTCAT
26974827 TAGGTGCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (15 bp):
GTTATTCATAATAAT
Found at i:26976013 original size:3 final size:3
Alignment explanation
Indices: 26976005--26976033 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26975995 ATAATATTAA
26976005 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
26976034 AATATAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:26983042 original size:16 final size:16
Alignment explanation
Indices: 26982996--26983056 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
26982986 CTAATAATTT
* *
26982996 TAAATAAATATTATAA
1 TAAATAATTATTTTAA
*
26983012 TAAA-AATTTAGTTTAA
1 TAAATAA-TTATTTTAA
26983028 TAAATAATTATTTTAA
1 TAAATAATTATTTTAA
26983044 CT--ATAATTATTTT
1 -TAAATAATTATTTT
26983057 TTATCTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 13 0.34
16 22 0.58
17 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAATAATTATTTTAA
Found at i:26985952 original size:188 final size:187
Alignment explanation
Indices: 26985615--26985987 Score: 647
Period size: 188 Copynumber: 2.0 Consensus size: 187
26985605 ATAACAAGTA
*
26985615 TGAGATAAGTTCATTGTCTCATGCTGTGTGAATTGAAGACAACATAATTTTTAGTCATCTAATAT
1 TGAGATAAGTTCATTGTCTCAGGCTGTGTGAATTGAAGACAACATAATTTTTAGTCATCTAATAT
* * * **
26985680 GTTTGGTAAGATGTGATGAAAGCCAACAGATGCATCAGCATGGACTGTATGGATTCTAGTTTGAG
66 GTTTGGTAAGATGCGATGAAAGCCAACAAATGCATCAGCATGGACTATATAAATTCTAGTTTGAG
*
26985745 GCCATTCTGTAATGTGATGAAGGCCCACAGAACTTGAGTTGATGGTAGTGTAGGGGG
131 GCCATTCTATAATGTGATGAAGGCCCACAGAACTTGAGTTGATGGTAGTGTAGGGGG
26985802 TGAGATAAGTTCATTGTCTCAGGCTGTGTGAATTGAAGACAACATAATTTTTAGTCATCTAATAT
1 TGAGATAAGTTCATTGTCTCAGGCTGTGTGAATTGAAGACAACATAATTTTTAGTCATCTAATAT
*
26985867 GCTTTGGTAAGATGCGATGAAAGCCAACAAATGCATCAGCATGGACTATATAAATTCTAGTTTGG
66 G-TTTGGTAAGATGCGATGAAAGCCAACAAATGCATCAGCATGGACTATATAAATTCTAGTTTGA
* *
26985932 GGCCGTTCTATAATGTGATGAAGGCCCATAGAACTTGAGTTGATGGTAGTGTAGGG
130 GGCCATTCTATAATGTGATGAAGGCCCACAGAACTTGAGTTGATGGTAGTGTAGGG
26985988 TTCTTTTGAT
Statistics
Matches: 175, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
187 65 0.37
188 110 0.63
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (187 bp):
TGAGATAAGTTCATTGTCTCAGGCTGTGTGAATTGAAGACAACATAATTTTTAGTCATCTAATAT
GTTTGGTAAGATGCGATGAAAGCCAACAAATGCATCAGCATGGACTATATAAATTCTAGTTTGAG
GCCATTCTATAATGTGATGAAGGCCCACAGAACTTGAGTTGATGGTAGTGTAGGGGG
Found at i:26986699 original size:27 final size:27
Alignment explanation
Indices: 26986649--26986700 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26986639 TCATGCTTGT
* *
26986649 TCCTAGGTGTTTCCGCGCTTGGAACAC
1 TCCTAGGTGCTTCCGCGCTGGGAACAC
* *
26986676 TCCTAGGTGCTTCTGTGCTGGGAAC
1 TCCTAGGTGCTTCCGCGCTGGGAAC
26986701 GCCTTTGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.13, C:0.27, G:0.29, T:0.31
Consensus pattern (27 bp):
TCCTAGGTGCTTCCGCGCTGGGAACAC
Found at i:26987524 original size:54 final size:54
Alignment explanation
Indices: 26987461--26987571 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
26987451 CTTCTGAAGA
*
26987461 AATCAACTGTGGGTGCACGTGAGCAACAGCTTTTGATTCTTTTCCAATTGTTCT
1 AATCAACTGTGGGTGCACGTGAGCAACAGCTTCTGATTCTTTTCCAATTGTTCT
*
26987515 AATCAACTGTGGGTGCACGTGAGCAACGGCTTCTGATTCTTTTCCAATTGTTCT
1 AATCAACTGTGGGTGCACGTGAGCAACAGCTTCTGATTCTTTTCCAATTGTTCT
26987569 AAT
1 AAT
26987572 AATGTGTGTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (54 bp):
AATCAACTGTGGGTGCACGTGAGCAACAGCTTCTGATTCTTTTCCAATTGTTCT
Found at i:26997244 original size:2 final size:2
Alignment explanation
Indices: 26997224--26997337 Score: 167
Period size: 2 Copynumber: 57.0 Consensus size: 2
26997214 TCTATAACAC
* * *
26997224 AT AT AT CT AT AA AT GT 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
* *
26997266 AT AT AT AT AT AT NT A- AG AT AT AT ACT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
26997308 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
26997338 TCATCATCGT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.01
2 98 0.97
3 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26997459 original size:42 final size:42
Alignment explanation
Indices: 26997374--26997483 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
26997364 TCATCAACTC
* * * * *
26997374 ATGTGCACTCCCTACTAGTATATGGCTGGGTCATCATAAGCTT
1 ATGTGCACTCCC-ACTCGCACATAGCTAGGTCATCATAAGCTT
**
26997417 ATGTGCACTCCCACTCGCACATAGCTAGGTCATCATCGGCTT
1 ATGTGCACTCCCACTCGCACATAGCTAGGTCATCATAAGCTT
* * *
26997459 ATATGCATTCCTACTCGCACATAGC
1 ATGTGCACTCCCACTCGCACATAGC
26997484 CGGTTCCACA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 45 0.79
43 12 0.21
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGTGCACTCCCACTCGCACATAGCTAGGTCATCATAAGCTT
Found at i:26999648 original size:53 final size:53
Alignment explanation
Indices: 26999590--26999696 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
26999580 AACACAAAAG
26999590 TAGATAGAGAAAACTAATAGTTGAAGCTTTGTGATCTTGATTCTCCCTTCAAT
1 TAGATAGAGAAAACTAATAGTTGAAGCTTTGTGATCTTGATTCTCCCTTCAAT
26999643 TAGATAGAGAAAACTAATAGTTGAAGCTTTGTGATCTTGATTCTCCCTTCAAT
1 TAGATAGAGAAAACTAATAGTTGAAGCTTTGTGATCTTGATTCTCCCTTCAAT
26999696 T
1 T
26999697 CTCTTACTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (53 bp):
TAGATAGAGAAAACTAATAGTTGAAGCTTTGTGATCTTGATTCTCCCTTCAAT
Found at i:27002697 original size:15 final size:16
Alignment explanation
Indices: 27002672--27002713 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
27002662 GATTCTGAAA
*
27002672 AAAAGAAAAAATCTTG
1 AAAAGAAAAAATCTAG
27002688 AAAA-AAAAAATCTAG
1 AAAAGAAAAAATCTAG
*
27002703 AAAATAAAAAA
1 AAAAGAAAAAA
27002714 AATTCTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (16 bp):
AAAAGAAAAAATCTAG
Found at i:27030082 original size:36 final size:35
Alignment explanation
Indices: 27029968--27030181 Score: 281
Period size: 35 Copynumber: 6.1 Consensus size: 35
27029958 CACTTGATTA
*
27029968 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
27030000 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
27030035 AAATTGTTTAATTAAGTCATTAGGCCTAGTTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
27030070 AAAATTGTTTAATTAAGTCATTGGGCCTAACTAATT
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* ** * *
27030106 AAAATTGTTTAATTAAATTGTTGAGCTTAATTAATT
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
27030142 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATG
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
27030177 AAATT
1 AAATT
27030182 AAATAATTAA
Statistics
Matches: 160, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.10
35 82 0.51
36 62 0.39
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:27030087 original size:71 final size:68
Alignment explanation
Indices: 27029968--27030181 Score: 279
Period size: 71 Copynumber: 3.1 Consensus size: 68
27029958 CACTTGATTA
*
27029968 AAATTGTTTAATTAAG-TTGTGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTA
1 AAATTGTTTAATTAAGTTTGAGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTA
27030032 ATT
66 ATT
*
27030035 AAATTGTTTAATTAAGTCATT-AGGCCTAGTTAATTAAAATTGTTTAATTAAGTCATTGGGCCTA
1 AAATTGTTTAATTAAGT--TTGA-GCCTAATTAATT-AAATTGTTTAATTAAGTCATTGGGCCTA
*
27030099 ACTAATT
62 ATTAATT
* * *
27030106 AAAATTGTTTAATTAAATTGTTGAGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
1 -AAATTGTTTAATT-AAGT-TTGAGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
* *
27030171 TTGATG
63 TTAATT
27030177 AAATT
1 AAATT
27030182 AAATAATTAA
Statistics
Matches: 128, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
67 16 0.12
70 18 0.14
71 65 0.51
72 25 0.20
73 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (68 bp):
AAATTGTTTAATTAAGTTTGAGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTA
ATT
Found at i:27038185 original size:21 final size:20
Alignment explanation
Indices: 27038159--27038200 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
27038149 TAATTTAAAA
27038159 TAAAATAACATAAAATTTAAC
1 TAAAATAAC-TAAAATTTAAC
*
27038180 TAAAATAACTTAAA-TTAAC
1 TAAAATAACTAAAATTTAAC
27038199 TA
1 TA
27038201 CTCAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATAACTAAAATTTAAC
Found at i:27064832 original size:42 final size:42
Alignment explanation
Indices: 27064771--27064901 Score: 156
Period size: 42 Copynumber: 3.1 Consensus size: 42
27064761 GTAATGATAT
* * *
27064771 TGACCTGGCTATGTACGAGTAAGAGTGTGCGTAAGCCTATGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGTGCGTAAGCCGATGC
* * * *
27064813 TGACCGGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGTGCGTAAGCCGATGC
* * *
27064855 TGACCTGGCTATATGCTAGTAGGAGTGTGCAG-AAACCGATGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGTGC-GTAAGCCGATGC
27064897 TGACC
1 TGACC
27064902 CGACCATATG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (42 bp):
TGACCTGGCTATGTGCGAGTAGGAGTGTGCGTAAGCCGATGC
Found at i:27064911 original size:42 final size:42
Alignment explanation
Indices: 27064834--27064924 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
27064824 TGTGCGAGTG
* * * * *
27064834 GGAGTGCGCATAAGCCGATGCTGACCTGGCTATATGCTAGTA
1 GGAGTGCGCAGAAACCGATGCTGACCCGACCATATGCTAGTA
* *
27064876 GGAGTGTGCAGAAACCGATGCTGACCCGACCATATGCTAGTG
1 GGAGTGCGCAGAAACCGATGCTGACCCGACCATATGCTAGTA
27064918 GGAGTGC
1 GGAGTGC
27064925 ATATGAGTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (42 bp):
GGAGTGCGCAGAAACCGATGCTGACCCGACCATATGCTAGTA
Found at i:27064918 original size:84 final size:84
Alignment explanation
Indices: 27064771--27064924 Score: 193
Period size: 84 Copynumber: 1.8 Consensus size: 84
27064761 GTAATGATAT
* * * * * * *
27064771 TGACCTGGCTATGTACGAGTAAGAGTGTGCGTAAGCCTATGCTGACCGGGCTATGTGCGAGTGGG
1 TGACCTGGCTATATACGAGTAAGAGTGTGCGTAAACCGATGCTGACCCGACCATATGCGAGTGGG
27064836 AGTGCGCATAAGCCGATGC
66 AGTGCGCATAAGCCGATGC
* * * *
27064855 TGACCTGGCTATATGCTAGTAGGAGTGTGCAG-AAACCGATGCTGACCCGACCATATGCTAGTGG
1 TGACCTGGCTATATACGAGTAAGAGTGTGC-GTAAACCGATGCTGACCCGACCATATGCGAGTGG
27064919 GAGTGC
65 GAGTGC
27064925 ATATGAGTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 57 0.98
85 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (84 bp):
TGACCTGGCTATATACGAGTAAGAGTGTGCGTAAACCGATGCTGACCCGACCATATGCGAGTGGG
AGTGCGCATAAGCCGATGC
Found at i:27064972 original size:2 final size:2
Alignment explanation
Indices: 27064965--27065008 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27064955 ATGATGATGG
*
27064965 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27065007 AT
1 AT
27065009 GGATATGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27073497 original size:19 final size:20
Alignment explanation
Indices: 27073463--27073500 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
27073453 GAAGAAGACC
27073463 AGCTACTGGAAAATTCAAGA
1 AGCTACTGGAAAATTCAAGA
27073483 AGCTACTGG-AAATTCAAG
1 AGCTACTGGAAAATTCAAG
27073501 GTATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
AGCTACTGGAAAATTCAAGA
Found at i:27083150 original size:142 final size:141
Alignment explanation
Indices: 27082893--27083177 Score: 561
Period size: 142 Copynumber: 2.0 Consensus size: 141
27082883 CAACACAAAT
27082893 ACCCATCTAGCCATTCATGCCCACATTATCATAAGCCATTCAATTCAAAACATAATTTACAATAC
1 ACCCATCTAGCCATTCATGCCCACATTATCATAAGCCATTCAATTCAAAACATAATTTACAATAC
27082958 AGCAAGTAGTCTCCAATTACTCCATTTTCAAGTCATCATTAAATTTCAAAACAATTTATAAAATC
66 AGCAAGTAGTCTCCAATTACTCCATTTTCAAGTCATCATTAAATTTCAAAACAATTTATAAAATC
27083023 ATTTCATTTAA
131 ATTTCATTTAA
27083034 ANCCCATCTAGCCATTCATGCCCACATTATCATAAGCCATTCAATTCAAAACATAATTTACAATA
1 A-CCCATCTAGCCATTCATGCCCACATTATCATAAGCCATTCAATTCAAAACATAATTTACAATA
27083099 CAGCAAGTAGTCTCCAATTACTCCATTTTCAAGTCATCATTAAATTTCAAAACAATTTATAAAAT
65 CAGCAAGTAGTCTCCAATTACTCCATTTTCAAGTCATCATTAAATTTCAAAACAATTTATAAAAT
27083164 CATTTCATTTAA
130 CATTTCATTTAA
27083176 AC
1 AC
27083178 TCATTTTTCA
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
141 2 0.01
142 141 0.99
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (141 bp):
ACCCATCTAGCCATTCATGCCCACATTATCATAAGCCATTCAATTCAAAACATAATTTACAATAC
AGCAAGTAGTCTCCAATTACTCCATTTTCAAGTCATCATTAAATTTCAAAACAATTTATAAAATC
ATTTCATTTAA
Found at i:27090123 original size:21 final size:21
Alignment explanation
Indices: 27090090--27090132 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27090080 TTGAATGATG
*
27090090 CCATCATTCAAAGTCAAGCAA
1 CCATAATTCAAAGTCAAGCAA
*
27090111 CCATAATTTAAAGTCAAGCAA
1 CCATAATTCAAAGTCAAGCAA
27090132 C
1 C
27090133 ATCAGTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (21 bp):
CCATAATTCAAAGTCAAGCAA
Found at i:27094827 original size:37 final size:37
Alignment explanation
Indices: 27094785--27094866 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
27094775 TAATGTTATG
*
27094785 TGATGATGTTGAAGTGTGCAAGTAGGAAATGCACACA
1 TGATGATGTTGAAGTGCGCAAGTAGGAAATGCACACA
* * *
27094822 TGATGATGTTGAAGTGCGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGCGCAAGTAGGAAATGCACACA
27094859 TGATGATG
1 TGATGATG
27094867 ATAGAATGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.24
Consensus pattern (37 bp):
TGATGATGTTGAAGTGCGCAAGTAGGAAATGCACACA
Found at i:27094888 original size:37 final size:38
Alignment explanation
Indices: 27094785--27094910 Score: 120
Period size: 37 Copynumber: 3.4 Consensus size: 38
27094775 TAATGTTATG
* * * * *
27094785 TGATGATG-TTGAAGTGTGCAAGTAGGAAATGCACACA
1 TGATGATGATAGAAGTGCGCGAGTAGGGAGTGCACACA
*
27094822 TGATGATG-TTGAAGTGCGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGCGCGAGTAGGGAGTGCACACA
* * *
27094859 TGATGATGATAGAA-TGTGCTAGTATGGAGTG--CACA
1 TGATGATGATAGAAGTGCGCGAGTAGGGAGTGCACACA
27094894 TGATGATGA-ATGAAGTG
1 TGATGATGATA-GAAGTG
27094911 GAGTGGTGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
34 1 0.01
35 16 0.21
36 2 0.03
37 55 0.71
38 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.25
Consensus pattern (38 bp):
TGATGATGATAGAAGTGCGCGAGTAGGGAGTGCACACA
Found at i:27095834 original size:23 final size:24
Alignment explanation
Indices: 27095807--27095869 Score: 101
Period size: 26 Copynumber: 2.6 Consensus size: 24
27095797 CAACCATATA
27095807 CCCATCATCATCATGCACACCATC
1 CCCATCATCATCATGCACACCATC
27095831 CCATCATCATCATCATGCACACCAT-
1 CC--CATCATCATCATGCACACCATC
27095856 CCCATCATCATCAT
1 CCCATCATCATCAT
27095870 TCCTAGCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.32
24 2 0.05
25 2 0.05
26 21 0.57
ACGTcount: A:0.30, C:0.43, G:0.03, T:0.24
Consensus pattern (24 bp):
CCCATCATCATCATGCACACCATC
Found at i:27095927 original size:43 final size:43
Alignment explanation
Indices: 27095879--27095988 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
27095869 TTCCTAGCTC
* * ** * *
27095879 ATGCGCACTCCCTACTCTCCCATGGCTAGGTCATCA-CTGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGGCATCATC-GGCTT
27095922 ATGCGCACTCCCTACTCGCACATAACTAGGGCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGGCATCATCGGCTT
27095965 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
27095989 GCTGAGTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 59 0.98
44 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGGCATCATCGGCTT
Done.