Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 99 of 103
Found at i:36627953 original size:23 final size:23
Alignment explanation
Indices: 36627927--36627972 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
36627917 TAGAATAACA
**
36627927 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
36627950 ATTCCTAATTAAATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
36627973 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (23 bp):
ATTCCTAATTAAATTAGGATAAG
Found at i:36634350 original size:163 final size:160
Alignment explanation
Indices: 36634107--36634403 Score: 567
Period size: 163 Copynumber: 1.8 Consensus size: 160
36634097 TCAAATATTA
36634107 TTCCTTCTTTTTCTTTCTTGTTTTTCATTTTATTTTCTATCTTTTTTTTTGGACTTTGAAAACTC
1 TTCCTTCTTTTTCTTTCTTGTTTTTCATTTTATTTTCTATCTTTTTTTTTGGACTTTGAAAACTC
36634172 TCTTTATTAGTTGATATTTCTTAGTTTATTGTTTGATATGACAATTATGTAATGTTTATTTATTC
66 TCTTTATTAGTTGATATTTCTTAGTTTATTGTTTGATATGACAATTATGTAATGTTTATTTATTC
36634237 TTAANAAAAACTACTATTCTAAGTTATTTAT
131 TTAA-AAAAACTACTATTCTAAGTTATTTAT
36634268 TTCCTTTCTTTTTTCTTTCTTGTTTTTCATTTTATTTTCTATCTTTTTTTTTGGACTTTGAAAAC
1 TTCC-TTC-TTTTTCTTTCTTGTTTTTCATTTTATTTTCTATCTTTTTTTTTGGACTTTGAAAAC
36634333 TCTCTTTATTAGTTGATATTTCTTAGTTTATTGTTTGATATGACAATTATGTAATGTTTATTTAT
64 TCTCTTTATTAGTTGATATTTCTTAGTTTATTGTTTGATATGACAATTATGTAATGTTTATTTAT
36634398 TCTTAA
129 TCTTAA
36634404 CTTCTTTATG
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 4 0.03
162 3 0.02
163 127 0.95
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.59
Consensus pattern (160 bp):
TTCCTTCTTTTTCTTTCTTGTTTTTCATTTTATTTTCTATCTTTTTTTTTGGACTTTGAAAACTC
TCTTTATTAGTTGATATTTCTTAGTTTATTGTTTGATATGACAATTATGTAATGTTTATTTATTC
TTAAAAAAACTACTATTCTAAGTTATTTAT
Found at i:36642483 original size:25 final size:23
Alignment explanation
Indices: 36642455--36642504 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
36642445 ACATTTAATT
*
36642455 TTAAATTACGTAACTGAAAACAAAA
1 TTAAATTACATAA-TGAAAA-AAAA
*
36642480 TTAAATTACATAATTAAAAAAAA
1 TTAAATTACATAATGAAAAAAAA
36642503 TT
1 TT
36642505 CTTTCTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
25 12 0.52
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (23 bp):
TTAAATTACATAATGAAAAAAAA
Found at i:36649223 original size:18 final size:18
Alignment explanation
Indices: 36649121--36649237 Score: 130
Period size: 18 Copynumber: 6.5 Consensus size: 18
36649111 CCGCATTTTC
*
36649121 CTCCAAGTTCAAG-TCAGG
1 CTCCAAGTTCAAGTTC-TG
*
36649139 CTCCAAGTTCAAGTTCGG
1 CTCCAAGTTCAAGTTCTG
36649157 CTCCAAGTTCAAGTT-TGG
1 CTCCAAGTTCAAGTTCT-G
*
36649175 CTCCAAGTTCAAGCTCTG
1 CTCCAAGTTCAAGTTCTG
* *
36649193 CTCCAAGCTCAAATTCTG
1 CTCCAAGTTCAAGTTCTG
* *
36649211 CTCCAAGTTCAAATTCTC
1 CTCCAAGTTCAAGTTCTG
*
36649229 CTCCGAGTT
1 CTCCAAGTT
36649238 TTCAGGTTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
18 85 0.97
19 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (18 bp):
CTCCAAGTTCAAGTTCTG
Found at i:36659397 original size:95 final size:92
Alignment explanation
Indices: 36659178--36659381 Score: 288
Period size: 90 Copynumber: 2.2 Consensus size: 92
36659168 TTCTGATTTC
* * *
36659178 ATTACTTTTTATCCAAAAATCAA-TAAAATTAAAAGTATAATTGCAAAATCTACCATTTACGTTA
1 ATTACTTTTTATCCAAAAATCAACAAAAATTAAAAGTACAATTGCAAAATCTAACATTTACGTT-
*
36659242 ACATAATATTTCATGGTATATTTCAATTTT
65 --ATAATATTTCATGGTATATTTCAATATT
* *
36659272 ATTACTTTTTATCCAAAAATCAACAAAAATTAAAAGTACAATTGTAAAATTTAACATTTACG-T-
1 ATTACTTTTTATCCAAAAATCAACAAAAATTAAAAGTACAATTGCAAAATCTAACATTTACGTTA
*
36659335 TAATATTTCGTGGTATATTTCAATATT
66 TAATATTTCATGGTATATTTCAATATT
*
36659362 ATTATTTTTTATCCAAAAAT
1 ATTACTTTTTATCCAAAAAT
36659382 TATTAGTGAC
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
90 44 0.44
94 24 0.24
95 33 0.33
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (92 bp):
ATTACTTTTTATCCAAAAATCAACAAAAATTAAAAGTACAATTGCAAAATCTAACATTTACGTTA
TAATATTTCATGGTATATTTCAATATT
Found at i:36661041 original size:14 final size:14
Alignment explanation
Indices: 36661022--36661056 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
36661012 AGAATCTTCC
36661022 AAATATATATACAT
1 AAATATATATACAT
*
36661036 AAATATATATATAT
1 AAATATATATACAT
*
36661050 ATATATA
1 AAATATA
36661057 AAGTTGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATATATATACAT
Found at i:36668198 original size:18 final size:18
Alignment explanation
Indices: 36668175--36668218 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
36668165 GACAATAAGC
36668175 CAAATGGTGTAGTGAATT
1 CAAATGGTGTAGTGAATT
*
36668193 CAAATGGTGTGGTGAATT
1 CAAATGGTGTAGTGAATT
36668211 CAAATGGT
1 CAAATGGT
36668219 AATCCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (18 bp):
CAAATGGTGTAGTGAATT
Found at i:36680187 original size:19 final size:20
Alignment explanation
Indices: 36680165--36680207 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36680155 GAAAAGCTCT
36680165 TAAAAAAAT-AATTTTTTTA
1 TAAAAAAATAAATTTTTTTA
*
36680184 T-AAAGAATAAATTTTTTTA
1 TAAAAAAATAAATTTTTTTA
36680203 -AAAAA
1 TAAAAA
36680208 GAACTTCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAAAAAATAAATTTTTTTA
Found at i:36680198 original size:18 final size:17
Alignment explanation
Indices: 36680171--36680204 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36680161 CTCTTAAAAA
*
36680171 AATAATTTTTTTATAAAG
1 AATAAATTTTTT-TAAAG
36680189 AATAAATTTTTTTAAA
1 AATAAATTTTTTTAAA
36680205 AAAGAACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATAAATTTTTTTAAAG
Found at i:36688785 original size:54 final size:54
Alignment explanation
Indices: 36688698--36688803 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
36688688 AATGGTTTAA
* ** *
36688698 GAATCAATGAGAAAAGCATTTTTTATCGACATAAAATGTCTTACACTCTTCACC
1 GAATCAATGAGAAAAACACCTCTTATCGACATAAAATGTCTTACACTCTTCACC
*
36688752 GAATCAATGAGAAAAACACCTCTTATTCG-CATAAAATGTCTTATACTCTTCA
1 GAATCAATGAGAAAAACACCTCTTA-TCGACATAAAATGTCTTACACTCTTCA
36688804 TAGGAGATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 43 0.93
55 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
GAATCAATGAGAAAAACACCTCTTATCGACATAAAATGTCTTACACTCTTCACC
Found at i:36689034 original size:79 final size:79
Alignment explanation
Indices: 36688777--36689036 Score: 230
Period size: 79 Copynumber: 3.3 Consensus size: 79
36688767 ACACCTCTTA
* * *
36688777 TTCGCATAAAATGTCTTATAC-TCTTCA-TAGGAGATTAAGAAGCTATGAAATTATTAAAAAAA-
1 TTCGCATAAAATATCTTACACTTC-TCACTA-GAGATTAAAAAGCTATGAAATTATTAAAAAAAT
* *
36688839 AAAAGAGAAAAACACTTG
64 GAAA-A-AAAATCACTTG
** * * * * * * *
36688857 TTATCAT-AAATATCTTATACTCTTTAAGC-A-AGATCAGAAAGCCATGAAATTATTTAAAAAAT
1 TTCGCATAAAATATCTTACACT-TCTCA-CTAGAGATTAAAAAGCTATGAAATTATTAAAAAAAT
36688919 GAGAAAAAAATCCACTT-
64 GA-AAAAAAAT-CACTTG
* *
36688936 TTCGTATAAAATGTCTTACACTTCTCACTAGAGATTAAAAAGCTATGAAATTATTAAAAAAATGA
1 TTCGCATAAAATATCTTACACTTCTCACTAGAGATTAAAAAGCTATGAAATTATTAAAAAAATGA
36689001 AAAAAAATCGA-TTG
66 AAAAAAATC-ACTTG
*
36689015 CTCGCATAAAATATCTTACACT
1 TTCGCATAAAATATCTTACACT
36689037 CTCTACCTAA
Statistics
Matches: 142, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
78 4 0.03
79 78 0.55
80 56 0.39
81 4 0.03
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (79 bp):
TTCGCATAAAATATCTTACACTTCTCACTAGAGATTAAAAAGCTATGAAATTATTAAAAAAATGA
AAAAAAATCACTTG
Found at i:36694726 original size:38 final size:38
Alignment explanation
Indices: 36694675--36694750 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
36694665 AGCATAAAGT
36694675 TATTAATACAGTAACAAAGATATGCACAAAGACTGGGA
1 TATTAATACAGTAACAAAGATATGCACAAAGACTGGGA
* *
36694713 TATTAGTACAGTAACAAAGATATGCATAAAGACTGGGA
1 TATTAATACAGTAACAAAGATATGCACAAAGACTGGGA
36694751 GTTTTCAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (38 bp):
TATTAATACAGTAACAAAGATATGCACAAAGACTGGGA
Found at i:36696766 original size:2 final size:2
Alignment explanation
Indices: 36696759--36696789 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36696749 GAATTAAGTC
36696759 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36696790 TGGCCTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36697943 original size:12 final size:13
Alignment explanation
Indices: 36697919--36697948 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
36697909 TAAACCCACC
36697919 AAAGAACAAAAAA
1 AAAGAACAAAAAA
36697932 AAAGAA-AAAAAA
1 AAAGAACAAAAAA
36697944 AAAGA
1 AAAGA
36697949 GTTCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAGAACAAAAAA
Found at i:36706497 original size:21 final size:22
Alignment explanation
Indices: 36706471--36706520 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
36706461 GGCTGGCAAC
*
36706471 AAAGGAAAGTA-ATATCAAACA
1 AAAGGAAAGTAGAAATCAAACA
*
36706492 AAAGG-AAGTAGAAATCAAACT
1 AAAGGAAAGTAGAAATCAAACA
*
36706513 ACAGGAAA
1 AAAGGAAA
36706521 AAAACAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 17 0.71
22 2 0.08
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAGGAAAGTAGAAATCAAACA
Found at i:36743682 original size:102 final size:102
Alignment explanation
Indices: 36743407--36743700 Score: 324
Period size: 101 Copynumber: 2.9 Consensus size: 102
36743397 AAAAAAGAAA
* * * * *
36743407 ATTCATATTT-AGCTGCTGGCTTTATCGCTTATATTTTGGTTGTAATTATATTATACTATTGGTT
1 ATTCATATTTCAGCTGCTAGCTTTATTGCTTATAATTTGGCTGTAATGATATTATACTATTGGTT
*
36743471 GCAAGCTTTATCGCTCATTCTTTGACCATAGTTCATC
66 GCAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
* * * * * * * * * * * *
36743508 ATTCTTACTTCAACCGCAAGCTTTACTGCTCAT-ATTTGGCTGCAATGATATTTTTCTATTAGTC
1 ATTCATATTTCAGCTGCTAGCTTTATTGCTTATAATTTGGCTGTAATGATATTATACTATTGGTT
* * * * * *
36743572 ACAAGCTTTATCGCTTATTCTTTTATCATAATTTATT
66 GCAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
* *
36743609 ATTCATATTTCAGCTGCTAGCTTTATTGCTTATAATTTGGCTGTAATGATGTTATGCTATTGGTT
1 ATTCATATTTCAGCTGCTAGCTTTATTGCTTATAATTTGGCTGTAATGATATTATACTATTGGTT
36743674 GCAAGCTTTATCGCTCATT-TCTTGACC
66 GCAAGCTTTATCGCTCATTCT-TTGACC
36743701 CTTGCTTATT
Statistics
Matches: 149, Mismatches: 41, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
101 88 0.59
102 61 0.41
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (102 bp):
ATTCATATTTCAGCTGCTAGCTTTATTGCTTATAATTTGGCTGTAATGATATTATACTATTGGTT
GCAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
Found at i:36746620 original size:33 final size:33
Alignment explanation
Indices: 36746581--36746643 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
36746571 CAGAGGGAGA
*
36746581 GCAAACAAGAAATTAAAAGAAGAAGAAAAACTT
1 GCAAACAAAAAATTAAAAGAAGAAGAAAAACTT
*
36746614 GCAAACAAAAAATTATAAGAAGAAGAAAAA
1 GCAAACAAAAAATTAAAAGAAGAAGAAAAA
36746644 TGTATGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.67, C:0.08, G:0.14, T:0.11
Consensus pattern (33 bp):
GCAAACAAAAAATTAAAAGAAGAAGAAAAACTT
Found at i:36747167 original size:35 final size:35
Alignment explanation
Indices: 36747114--36747228 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 35
36747104 TATTGTACAA
* * *
36747114 AGAACAACTAAAATAAGTGAAGCGCTATTTCACGC
1 AGAACAACTAAAACAAGTGAAGCGCTACTTCACAC
* * *
36747149 AGAATAACTAGAACAAGTGAAGTGCTACTTCACAC
1 AGAACAACTAAAACAAGTGAAGCGCTACTTCACAC
** *
36747184 AGAACAACTAAAACAAGTGAAGTACTACTT-AAAGC
1 AGAACAACTAAAACAAGTGAAGCGCTACTTCACA-C
36747219 AGAACAACTA
1 AGAACAACTA
36747229 GAGCAAGTAG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 2 0.03
35 67 0.97
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (35 bp):
AGAACAACTAAAACAAGTGAAGCGCTACTTCACAC
Found at i:36747247 original size:70 final size:70
Alignment explanation
Indices: 36747114--36747284 Score: 166
Period size: 70 Copynumber: 2.4 Consensus size: 70
36747104 TATTGTACAA
* * * * * * ** *
36747114 AGAACAACTAAAATAAGTGAAGCGCTATTTCACGCAGAATAACTAGAACAAGTGAAGTGCTACTT
1 AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAAGTGAAGCACTACTC
36747179 CACAC
66 CACAC
* *
36747184 AGAACAACTAAAACAAGTGAAGTACTACTTAAAGCAGAACAACTAGAGCAAGT-AGAGCACTACT
1 AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAAGTGA-AGCACTACT
* *
36747248 CCATAT
65 CCACAC
* *
36747254 GGAACAACTAATACAAGTAGAA-CAACTACTT
1 AGAACAACTAAAACAAGT-GAAGC-ACTACTT
36747285 CGAATAGAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
69 1 0.01
70 71 0.87
71 10 0.12
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.19
Consensus pattern (70 bp):
AGAACAACTAAAACAAGTGAAGCACTACTTAAAGCAGAACAACTAGAACAAGTGAAGCACTACTC
CACAC
Found at i:36747547 original size:29 final size:29
Alignment explanation
Indices: 36747484--36747547 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
36747474 TACCTGTTCT
* *
36747484 CATATATCTTCTTCTCTTGTACTTGTTTA
1 CATATAGCATCTTCTCTTGTACTTGTTTA
** *
36747513 TGTATAGCATCTTCTTTTGTACTT-TTGTA
1 CATATAGCATCTTCTCTTGTACTTGTT-TA
36747542 CATATA
1 CATATA
36747548 CCTCTTTTCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.53
Consensus pattern (29 bp):
CATATAGCATCTTCTCTTGTACTTGTTTA
Found at i:36753133 original size:26 final size:26
Alignment explanation
Indices: 36753092--36753385 Score: 286
Period size: 26 Copynumber: 12.1 Consensus size: 26
36753082 ACGTGATTGA
* *
36753092 TTTTTGATAAGCCATTACGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753118 TTTTTGATATGGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753144 ---TTAAT-AGGCATTGCGTGACT-G
1 TTTTTGATAAGGCATTGCGTGACTAG
**
36753165 ACTTTG----GGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753187 TTTTT-ATAAAGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
* * *
36753212 TTTCTGATAAAGCATTGCGTGACTAA
1 TTTTTGATAAGGCATTGCGTGACTAG
36753238 TTTTTGATAAGGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753264 TTTTTGATAAGGCATTGTGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753290 TTTCTGATAAGGCATTGCGTGAC---
1 TTTTTGATAAGGCATTGCGTGACTAG
*
36753313 TTGTTGAT-AGGCATTGCGTGAC---
1 TTTTTGATAAGGCATTGCGTGACTAG
* * *
36753335 TTGTTAATAAGGCATTGCATGACT--
1 TTTTTGATAAGGCATTGCGTGACTAG
* *
36753359 TGTTAG-TAAGGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCGTGACTAG
36753384 TT
1 TT
36753386 CATAAGGCAT
Statistics
Matches: 228, Mismatches: 27, Indels: 27
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.07
22 39 0.17
23 39 0.17
24 4 0.02
25 20 0.09
26 111 0.49
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (26 bp):
TTTTTGATAAGGCATTGCGTGACTAG
Found at i:36753139 original size:52 final size:50
Alignment explanation
Indices: 36753076--36753404 Score: 269
Period size: 52 Copynumber: 6.8 Consensus size: 50
36753066 ACTGACTTTG
* * * *
36753076 GGCATTACGTGATTGATTTTTGATAAGCCATTACGTGACTAGTTTTTGATA
1 GGCATTGCGTGACT-ATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATA
* * **
36753127 TGGCATTGCGTGACTA--GTTAAT-AGGCATTGCGTGACT-GACTTTG---
1 -GGCATTGCGTGACTATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATA
* *
36753171 GGCATTGCGTGACTAGTTTTT-ATAAAGCATTGCGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTA-TTTTTGATAAGGCATTGCGTGACTAGTTTTTGAT-A
*
36753222 AGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACT-ATTTTTGATAAGGCATTGCGTGACTAGTTTTTGAT-A
* * *
36753274 GGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGAC---TTGTTGATA
1 GGCATTGCGTGACTA-TTTTTGATAAGGCATTGCGTGACTAGTTTTTGATA
* * * * **
36753322 GGCATTGCGTGAC--TTGTTAATAAGGCATTGCATGACTTGTTAGT-A-A
1 GGCATTGCGTGACTATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATA
* * *
36753368 GGCATTGCGTGACTA--GTTCATAAGGCATTGTGTGACT
1 GGCATTGCGTGACTATTTTTGATAAGGCATTGCGTGACT
36753405 TAGGCATTGC
Statistics
Matches: 230, Mismatches: 30, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
43 15 0.07
45 21 0.09
46 49 0.21
47 10 0.04
48 29 0.13
49 11 0.05
51 20 0.09
52 75 0.33
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (50 bp):
GGCATTGCGTGACTATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATA
Found at i:36753159 original size:95 final size:94
Alignment explanation
Indices: 36753058--36753358 Score: 263
Period size: 95 Copynumber: 3.1 Consensus size: 94
36753048 GTTTTTAAGT
*
36753058 ATTGCGTGACTGACTTTGGGCATTACGTGA-TTGATTTTTGAT-AAGCCATTACGTGACTAGTTT
1 ATTGCGTGACTGACTTTGGGCATTACGTGACTAG-TTTTT-ATAAAG-CATTACGTGACTAGTTT
* **
36753121 TTGATATGGCATTGCGTGACTAGTTAATAGGC
63 CTGATAAAGCATTGCGTGACTAGTTAATAGGC
* *
36753153 ATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTATAAAGCATTGCGTGACTAGTTTCTG
1 ATTGCGTGACTGACTTTGGGCATTACGTGACTAGTTTTTATAAAGCATTACGTGACTAGTTTCTG
* *
36753218 ATAAAGCATTGCGTGACTAATTTTTGATAAGGC
66 ATAAAGCATTGCGTGACT-A--GTTAAT-AGGC
** ** * * *
36753251 ATTGCGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACT--
1 ATTGCGTGACT-GACTTTG----GGCATTACGTGACTAGTTT-TTATAAAGCATTACGTGACTAG
* * *
36753314 TGT-TGAT-AGGCATTGCGTGACTTGTTAATAAGGC
60 TTTCTGATAAAGCATTGCGTGACTAGTTAAT-AGGC
*
36753348 ATTGCATGACT
1 ATTGCGTGACT
36753359 TGTTAGTAAG
Statistics
Matches: 175, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
94 36 0.21
95 38 0.22
96 2 0.01
97 23 0.13
98 15 0.09
99 5 0.03
100 14 0.08
101 4 0.02
102 2 0.01
103 18 0.10
104 18 0.10
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (94 bp):
ATTGCGTGACTGACTTTGGGCATTACGTGACTAGTTTTTATAAAGCATTACGTGACTAGTTTCTG
ATAAAGCATTGCGTGACTAGTTAATAGGC
Found at i:36753261 original size:94 final size:93
Alignment explanation
Indices: 36753058--36753236 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 93
36753048 GTTTTTAAGT
* *
36753058 ATTGCGTGACTGACTTTGGGCATTACGTGATTGATTTTTGATAAGCCATTACGTGACTAGTTTTT
1 ATTGCG-GA-TGACTTTGGGCATTACGTGATAGATTTTTGATAAGCCATTACGTGACTAGTTTCT
**
36753123 GATATGGCATTGCGTGACTAGTTAATAGGC
64 GATAAAGCATTGCGTGACTAGTTAATAGGC
* *
36753153 ATTGCGTGACTGACTTTGGGCATTGCGTGACTAG-TTTTT-ATAAAG-CATTGCGTGACTAGTTT
1 ATTGCG-GA-TGACTTTGGGCATTACGTGA-TAGATTTTTGAT-AAGCCATTACGTGACTAGTTT
36753215 CTGATAAAGCATTGCGTGACTA
62 CTGATAAAGCATTGCGTGACTA
36753237 ATTTTTGATA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
94 37 0.49
95 37 0.49
96 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (93 bp):
ATTGCGGATGACTTTGGGCATTACGTGATAGATTTTTGATAAGCCATTACGTGACTAGTTTCTGA
TAAAGCATTGCGTGACTAGTTAATAGGC
Found at i:36753373 original size:146 final size:144
Alignment explanation
Indices: 36753076--36753382 Score: 354
Period size: 146 Copynumber: 2.1 Consensus size: 144
36753066 ACTGACTTTG
* * * *
36753076 GGCATTACGTGATTGATTTTTGATAAGCCATTACGTGACTAGTTTTTGATATGGCATTGCGTGAC
1 GGCATTGCGTGACTAATTTTTGATAAGCCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGAC
* * * *
36753141 TAGTTAATAGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTATAAAGCATTGCGT
66 TAGTTAATAGGCATTGCGTGACTGA-TTTAGGCATTGCGTGACTA-TGTTAATAAAGCATTGCAT
*
36753206 GACTAGTTTCTGATAA
129 GACTAGTTTCAGATAA
* * * *
36753222 AGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGTGTGAC
1 GGCATTGCGTGACTAATTTTTGATAAGCCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGAC
* *
36753287 TAGTTTCTGATAAGGCATTGCGTGACTTG-TTGATAGGCATTGCGTGACT-TGTTAATAAGGCAT
66 TAG--T-TAAT-AGGCATTGCGTGAC-TGATT--TAGGCATTGCGTGACTATGTTAATAAAGCAT
*
36753350 TGCATGACTTG-TT-AG-TAA
124 TGCATGACTAGTTTCAGATAA
36753368 GGCATTGCGTGACTA
1 GGCATTGCGTGACTA
36753383 GTTCATAAGG
Statistics
Matches: 137, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
146 77 0.56
147 1 0.01
148 3 0.02
149 25 0.18
150 14 0.10
151 17 0.12
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (144 bp):
GGCATTGCGTGACTAATTTTTGATAAGCCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGAC
TAGTTAATAGGCATTGCGTGACTGATTTAGGCATTGCGTGACTATGTTAATAAAGCATTGCATGA
CTAGTTTCAGATAA
Found at i:36753457 original size:22 final size:21
Alignment explanation
Indices: 36753432--36753494 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
36753422 TCAATAATGC
36753432 AATGTATAAAAACTAGTCACGT
1 AATG-ATAAAAACTAGTCACGT
* *
36753454 AATGCAT-AAAACCAATCACGT
1 AATG-ATAAAAACTAGTCACGT
36753475 AATGATTAAAAACTAGTCAC
1 AATGA-TAAAAACTAGTCAC
36753495 ATGGTAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.03
21 17 0.50
22 16 0.47
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (21 bp):
AATGATAAAAACTAGTCACGT
Found at i:36773236 original size:18 final size:19
Alignment explanation
Indices: 36773199--36773236 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
36773189 CAAACTGGCG
*
36773199 TAACATAATTGATATGACA
1 TAACATAATTAATATGACA
*
36773218 TAACAT-ATTAATTTGACA
1 TAACATAATTAATATGACA
36773236 T
1 T
36773237 GATAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (19 bp):
TAACATAATTAATATGACA
Found at i:36773636 original size:22 final size:22
Alignment explanation
Indices: 36773586--36773635 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
36773576 TATTTTCAAA
*
36773586 ATGAAAAGTTATGTCTTTTCAT
1 ATGAAAAGTTATGTCTTTTCAC
*
36773608 ATGAAAAGTTA-GTTTTTTCAC
1 ATGAAAAGTTATGTCTTTTCAC
36773629 ATGAAAA
1 ATGAAAA
36773636 ATTGTGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (22 bp):
ATGAAAAGTTATGTCTTTTCAC
Found at i:36789599 original size:18 final size:18
Alignment explanation
Indices: 36789578--36789627 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
36789568 GAGAAATAAA
36789578 ACTTTAATTTCAACATGT
1 ACTTTAATTTCAACATGT
*
36789596 ACTTTAATTTCAACCTGT
1 ACTTTAATTTCAACATGT
*
36789614 ACTTTGATTTCAAC
1 ACTTTAATTTCAAC
36789628 TTTAAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (18 bp):
ACTTTAATTTCAACATGT
Found at i:36792120 original size:17 final size:17
Alignment explanation
Indices: 36792098--36792131 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36792088 ATCTTAGAAA
36792098 CAATAAGAATTTTATTC
1 CAATAAGAATTTTATTC
*
36792115 CAATAAGACTTTTATTC
1 CAATAAGAATTTTATTC
36792132 GGTAGTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (17 bp):
CAATAAGAATTTTATTC
Found at i:36793024 original size:15 final size:16
Alignment explanation
Indices: 36792998--36793027 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36792988 TTTTTAATTT
36792998 TTAAAAATTAAAATCA
1 TTAAAAATTAAAATCA
36793014 TTAAAAA-TAAAATC
1 TTAAAAATTAAAATC
36793028 CACATAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAATCA
Found at i:36793177 original size:24 final size:24
Alignment explanation
Indices: 36793150--36793204 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
36793140 ACATATGAGC
*
36793150 AAATAGAATAGAATTA-AAAAAAAT
1 AAATA-AATAGAAATAGAAAAAAAT
* *
36793174 AAATAAATATAAATAGAAAAAATT
1 AAATAAATAGAAATAGAAAAAAAT
36793198 AAATAAA
1 AAATAAA
36793205 AACTTTACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (24 bp):
AAATAAATAGAAATAGAAAAAAAT
Found at i:36803304 original size:22 final size:23
Alignment explanation
Indices: 36803262--36803309 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
36803252 TTCGATTTTT
*
36803262 TTTTTTTCCTTTGTGCTTTCTTTC
1 TTTTTTTCCTTTGTGC-TTCTCTC
36803286 TTTTTTTCCTTTGTG-TTCTCTC
1 TTTTTTTCCTTTGTGCTTCTCTC
36803308 TT
1 TT
36803310 GATGGTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.71
Consensus pattern (23 bp):
TTTTTTTCCTTTGTGCTTCTCTC
Found at i:36810965 original size:31 final size:32
Alignment explanation
Indices: 36810930--36811008 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 32
36810920 CACATCATAA
*
36810930 GGATTAAATTGAATAAAAA-T-ATATAGTATAG
1 GGATTAAATTGAATAAAAATTGATAT-GTAGAG
* *
36810961 GGATTAAATTG-ATCAAAATTGATATGTCGAG
1 GGATTAAATTGAATAAAAATTGATATGTAGAG
36810992 GGATTAAATTGAA-AAAA
1 GGATTAAATTGAATAAAA
36811009 TATTTGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 6 0.15
31 30 0.73
32 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.30
Consensus pattern (32 bp):
GGATTAAATTGAATAAAAATTGATATGTAGAG
Found at i:36811476 original size:108 final size:108
Alignment explanation
Indices: 36811283--36811492 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 108
36811273 TAAAATGACT
* * * * *
36811283 AAATATGTTGATTTAGTTACAACTTTCATAATTTATAAATACACATTCTTTTGAAATTATTTAAC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
**
36811348 TCTTATTCAATTTACTTTTTATTTAAATTTACTCAAATTAGTA
66 TCTTACCCAATTTACTTTTTATTTAAATTTACTCAAATTAGTA
* **
36811391 AAATATGTTGATTTAGTTATAACTTTCACAATTTACAAATGTACATTCTTCTAAAATTATTCAAC
1 AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
36811456 TCTTACCCAATTTA-TCTTTTATTTAAATTTACTCAAA
66 TCTTACCCAATTTACT-TTTTATTTAAATTTACTCAAA
36811493 ATTTCTTATA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 90 0.99
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.46
Consensus pattern (108 bp):
AAATATGTTGATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTCTAAAATTATTCAAC
TCTTACCCAATTTACTTTTTATTTAAATTTACTCAAATTAGTA
Found at i:36812310 original size:30 final size:30
Alignment explanation
Indices: 36812246--36812319 Score: 71
Period size: 30 Copynumber: 2.4 Consensus size: 30
36812236 TTTTTCAAAA
*
36812246 TTTGTTTCAATTTAGTCCCTCAACATCTCAAT
1 TTTG-TTCAATTTAGTCCCTCAACATAT-AAT
36812278 TTTGTTCAATTTAGT-CCTCATAC-TATATAT
1 TTTGTTCAATTTAGTCCCTCA-ACATATA-AT
* *
36812308 TTTTTTTAATTT
1 TTTGTTCAATTT
36812320 TGTTCCTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.03
30 19 0.51
31 13 0.35
32 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (30 bp):
TTTGTTCAATTTAGTCCCTCAACATATAAT
Found at i:36833460 original size:15 final size:15
Alignment explanation
Indices: 36833440--36833472 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36833430 GAAGCATTAT
36833440 TGTTATTATTGTTGC
1 TGTTATTATTGTTGC
*
36833455 TGTTATTGTTGTTGC
1 TGTTATTATTGTTGC
36833470 TGT
1 TGT
36833473 CAACTACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.24, T:0.61
Consensus pattern (15 bp):
TGTTATTATTGTTGC
Found at i:36833937 original size:15 final size:15
Alignment explanation
Indices: 36833913--36833943 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36833903 AACTTGGTTC
36833913 TTTCTCTCTTTTTTT
1 TTTCTCTCTTTTTTT
*
36833928 TTTCTTTCTTTTTTT
1 TTTCTCTCTTTTTTT
36833943 T
1 T
36833944 CTTGGTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCTCTCTTTTTTT
Found at i:36845790 original size:11 final size:11
Alignment explanation
Indices: 36845776--36845805 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
36845766 CTTACACGCT
36845776 AAAATCATTTA
1 AAAATCATTTA
36845787 AAAATCATTTA
1 AAAATCATTTA
36845798 AAAATCAT
1 AAAATCAT
36845806 CTCAACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATCATTTA
Found at i:36847282 original size:13 final size:12
Alignment explanation
Indices: 36847261--36847290 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
36847251 AATTATAAAA
36847261 ATTAAAAAAATT
1 ATTAAAAAAATT
36847273 ATTAATAAAAATT
1 ATTAA-AAAAATT
36847286 ATTAA
1 ATTAA
36847291 GTGTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTAAAAAAATT
Found at i:36853882 original size:18 final size:18
Alignment explanation
Indices: 36853850--36853892 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
36853840 TTGTATCATA
*
36853850 ATAATAATGATATGATATT
1 ATAAT-ATGACATGATATT
*
36853869 TTAATATGACATGATATT
1 ATAATATGACATGATATT
36853887 ATAATA
1 ATAATA
36853893 ATTGTGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
ATAATATGACATGATATT
Found at i:36854117 original size:27 final size:28
Alignment explanation
Indices: 36854087--36854141 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
36854077 TTTGACTTAA
36854087 AATAAAAAAAAAAACTTGA-TTAAATTT
1 AATAAAAAAAAAAACTTGATTTAAATTT
* * *
36854114 AATAAAAAAATAAAGTTTATTTAAATTT
1 AATAAAAAAAAAAACTTGATTTAAATTT
36854142 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (28 bp):
AATAAAAAAAAAAACTTGATTTAAATTT
Found at i:36855544 original size:19 final size:20
Alignment explanation
Indices: 36855520--36855576 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
36855510 GATATTGTCT
36855520 TAATTTTAATAATATTA-AA
1 TAATTTTAATAATATTAGAA
**
36855539 TAATTTTAATTGTA-TAGAA
1 TAATTTTAATAATATTAGAA
36855558 TAATTTATAATTAATATTA
1 TAATTT-TAA-TAATATTA
36855577 TAAAATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.07
19 20 0.67
20 3 0.10
21 3 0.10
22 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TAATTTTAATAATATTAGAA
Found at i:36874045 original size:66 final size:66
Alignment explanation
Indices: 36873934--36874063 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
36873924 GCTATGAGAA
* *
36873934 GCTCGAACAGCCACAACTTCTGAAAAACACAGCGTATGCCATCGTTAGGTATTTCAAAACGGAAA
1 GCTCAAACAGCCACAACTTCTGAAAAACACAACGTATGCCATCGTTAGGTATTTCAAAACGGAAA
36873999 C
66 C
* * * * * * *
36874000 GCTCAAACAGCCACAACTTTTGAAACACACAACGTCTGCCGTCGTTTGGTATTTTAAAATGGAA
1 GCTCAAACAGCCACAACTTCTGAAAAACACAACGTATGCCATCGTTAGGTATTTCAAAACGGAA
36874064 GCTTGAACAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (66 bp):
GCTCAAACAGCCACAACTTCTGAAAAACACAACGTATGCCATCGTTAGGTATTTCAAAACGGAAA
C
Found at i:36875628 original size:47 final size:47
Alignment explanation
Indices: 36875575--36875670 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
36875565 TTAATCGGTA
36875575 AGGGCTCCTGGCAATTTTGATGAGTGTGAGGCTTTCACATTGGGTCC
1 AGGGCTCCTGGCAATTTTGATGAGTGTGAGGCTTTCACATTGGGTCC
36875622 AGGGCTCCTGGCAATTTTGATGAGTGTGAGGCTTTCACATTGGGTCC
1 AGGGCTCCTGGCAATTTTGATGAGTGTGAGGCTTTCACATTGGGTCC
36875669 AG
1 AG
36875671 ATCCTAACGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (47 bp):
AGGGCTCCTGGCAATTTTGATGAGTGTGAGGCTTTCACATTGGGTCC
Found at i:36880706 original size:19 final size:20
Alignment explanation
Indices: 36880679--36880719 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
36880669 ACAACTTTTG
*
36880679 AATAGTTATATTAT-AAAAA
1 AATAATTATATTATGAAAAA
36880698 AATAATTATATTATGAAAAA
1 AATAATTATATTATGAAAAA
36880718 AA
1 AA
36880720 ACAAGTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AATAATTATATTATGAAAAA
Found at i:36883187 original size:18 final size:20
Alignment explanation
Indices: 36883164--36883207 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
36883154 AATAATTAAC
*
36883164 AAAGAAAGATA-AT-ACTTA
1 AAAGAAAAATATATAACTTA
*
36883182 AAAGAAAAATATATAATTTA
1 AAAGAAAAATATATAACTTA
36883202 AAAGAA
1 AAAGAA
36883208 GGCAGAGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (20 bp):
AAAGAAAAATATATAACTTA
Found at i:36890709 original size:12 final size:12
Alignment explanation
Indices: 36890692--36890719 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36890682 GCCTCAAGAT
36890692 GGCAATTAGCAA
1 GGCAATTAGCAA
36890704 GGCAATTAGCAA
1 GGCAATTAGCAA
36890716 GGCA
1 GGCA
36890720 GGGCAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (12 bp):
GGCAATTAGCAA
Found at i:36892525 original size:25 final size:23
Alignment explanation
Indices: 36892501--36892546 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36892491 AAAGACATCA
36892501 AATAATAAATTAATATTTTATATC
1 AATAA-AAATTAATATTTTATATC
* *
36892525 ATTTAAAATTAATATTTTATAT
1 AATAAAAATTAATATTTTATAT
36892547 TTCATTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATAAAAATTAATATTTTATATC
Found at i:36893537 original size:28 final size:28
Alignment explanation
Indices: 36893505--36893561 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36893495 ATGCTTTGAA
36893505 CCTCTTGTGATTCAACATAAGTTCTAGC
1 CCTCTTGTGATTCAACATAAGTTCTAGC
36893533 CCTCTTGTGATTCAACATAAGTTCTAGC
1 CCTCTTGTGATTCAACATAAGTTCTAGC
36893561 C
1 C
36893562 GGTACCCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (28 bp):
CCTCTTGTGATTCAACATAAGTTCTAGC
Found at i:36896323 original size:133 final size:133
Alignment explanation
Indices: 36896085--36896403 Score: 469
Period size: 133 Copynumber: 2.4 Consensus size: 133
36896075 TATATNCACT
* * *
36896085 CCTTGCCGACTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCAGTTGTCGGCCTA
1 CCTTGCCGGCTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCAGCTGCCGGCCTA
*
36896150 CCACACCACACTCAGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAACCACCCAGCCATAGCC
66 CCACACCACACTCAGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAACCACCCAGCCACAGCC
36896215 ACG
131 ACG
* * *
36896218 CCTTGCCGGCTGCCTTGGTGTCGCCCCAAGCCCCACACCCTTGTTCTTCCCTAGCTGCCGGCCTA
1 CCTTGCCGGCTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCAGCTGCCGGCCTA
* ** * * * * *
36896283 CCACGCCATGCTC-GATTCCTTCATCAGTTCATCTTTCTTTTCTCCCTAGCCGCCCAGCCACAGC
66 CCACACCACACTCAG-CTCCTTCATCAATTCATCTTTCTTTTCTCCCCAACCACCCAGCCACAGC
36896347 CACG
130 CACG
* *
36896351 CCCTGCCGGTTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCA
1 CCTTGCCGGCTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCA
36896404 ATTGAGATTT
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 1 0.01
133 164 0.99
ACGTcount: A:0.13, C:0.45, G:0.16, T:0.25
Consensus pattern (133 bp):
CCTTGCCGGCTGCCTCGGTGTCGCCCCAAGCCCCACGCCCTTGTTCTTCCCCAGCTGCCGGCCTA
CCACACCACACTCAGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAACCACCCAGCCACAGCC
ACG
Found at i:36896966 original size:39 final size:40
Alignment explanation
Indices: 36896911--36897006 Score: 131
Period size: 39 Copynumber: 2.4 Consensus size: 40
36896901 ATTTTATGTA
* *
36896911 TAGTTATTTAAATTTATATCGTTGTATGAATATTT-GTTT
1 TAGTTATTTAAGTTTATATCGTTATATGAATATTTAGTTT
* * * *
36896950 TAGTTATTTAAGTTTATATTGTTATTTGGATATTTATTTT
1 TAGTTATTTAAGTTTATATCGTTATATGAATATTTAGTTT
36896990 TAGTTATTTAAGTTTAT
1 TAGTTATTTAAGTTTAT
36897007 GTTTAAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 30 0.60
40 20 0.40
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.59
Consensus pattern (40 bp):
TAGTTATTTAAGTTTATATCGTTATATGAATATTTAGTTT
Found at i:36899842 original size:2 final size:2
Alignment explanation
Indices: 36899835--36899875 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
36899825 ATAAATGGAA
*
36899835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36899876 CTTTCCCCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:36906698 original size:16 final size:17
Alignment explanation
Indices: 36906669--36906701 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36906659 AACCTCGACA
*
36906669 AAAAACCAAGAAAGACC
1 AAAAACCAAAAAAGACC
36906686 AAAAA-CAAAAAAGACC
1 AAAAACCAAAAAAGACC
36906702 CCAACTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.21, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAACCAAAAAAGACC
Found at i:36907485 original size:75 final size:75
Alignment explanation
Indices: 36907398--36907698 Score: 265
Period size: 75 Copynumber: 3.9 Consensus size: 75
36907388 AAATCGAAAT
* *
36907398 TTTTTAATTATTTTTCTTTTATATTTGAATCTATAAAAAATATTGTAGTTCAATTATTCTTATGT
1 TTTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTATTCTTATGT
36907463 ATGTCCAAAA
66 ATGTCCAAAA
* ** *
36907473 TTTTTAATTATTTTTCTTTTAAATTTGAATTTATAAAAGATATTGTCA-TTCAATTAAAGGCTTG
1 TTTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGT-AGTTCAATT--ATTCTTA
*
36907537 GGCTCAAT-TCCTTCTAAGCCCAA
63 TG-T--ATGT-C--C-AA----AA
** * * * * *
36907560 AATTT--TTAATTATT-TTTTATATTTAAATTTATAAAAGATATCGTAGTTCAATTATTGTTGTG
1 TTTTTAATT-ATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTATTCTTATG
*
36907622 TATG-CCCAAA
65 TATGTCCAAAA
*
36907632 TTTGTTAATTATTTTTCTTTTATATTTGAATTTAT-AAAGATATTGTAGTTCAATTATTGTTATG
1 TTT-TTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTATTCTTATG
36907696 TAT
65 TAT
36907699 TTTTAATTTA
Statistics
Matches: 181, Mismatches: 24, Indels: 43
0.73 0.10 0.17
Matches are distributed among these distances:
72 3 0.02
73 2 0.01
74 35 0.19
75 69 0.38
76 2 0.01
77 6 0.03
78 1 0.01
79 2 0.01
80 5 0.03
82 2 0.01
83 7 0.04
84 1 0.01
85 36 0.20
86 5 0.03
87 5 0.03
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.50
Consensus pattern (75 bp):
TTTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTATTCTTATGT
ATGTCCAAAA
Found at i:36907640 original size:71 final size:72
Alignment explanation
Indices: 36907554--36907698 Score: 206
Period size: 74 Copynumber: 2.0 Consensus size: 72
36907544 TTCCTTCTAA
36907554 GCCCAAAATTTTTAATTA-TT-TTTTATATTTAAATTTATAAAAGATATCGTAGTTCAATTATTG
1 GCCCAAAATTTTTAATTATTTCTTTTATATTTAAATTTAT-AAAGATATCGTAGTTCAATTATTG
*
36907617 TTGTGTAT
65 TTATGTAT
* *
36907625 GCCC-AAATTTGTTAATTATTTTTCTTTTATATTTGAATTTATAAAGATATTGTAGTTCAATTAT
1 GCCCAAAATTT-TTAATTA--TTTCTTTTATATTTAAATTTATAAAGATATCGTAGTTCAATTAT
36907689 TGTTATGTAT
63 TGTTATGTAT
36907699 TTTTAATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
70 6 0.09
71 11 0.17
74 32 0.48
75 17 0.26
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (72 bp):
GCCCAAAATTTTTAATTATTTCTTTTATATTTAAATTTATAAAGATATCGTAGTTCAATTATTGT
TATGTAT
Found at i:36907661 original size:160 final size:162
Alignment explanation
Indices: 36907310--36907687 Score: 514
Period size: 164 Copynumber: 2.3 Consensus size: 162
36907300 AGTCCAGATA
* * *
36907310 TTTTAATTACTTTTCTTTTATATTTGAATTTATAAACGATATTATAGTTCAATTAAAGGCTTGAG
1 TTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTAAAGGCTTGAG
* * * * * *
36907375 TTCAATCCCTTTTAAATCGAAATTTTTTAATTATTTTTCTTTTATATTTGAATCTATAAAAAATA
66 CTCAATCCCTTCTAAACCCAAAATTTTTAATTA--TTTCTTTTATATTTAAATCTATAAAAAATA
*
36907440 TTGTAGTTCAATTATTCTTATGTATGTCCAAAAT
129 TCGTAGTTCAATTATTCTTATGTATGTCCAAAAT
* *
36907474 TTTTAATTATTTTTCTTTTAAATTTGAATTTATAAAAGATATTGTCA-TTCAATTAAAGGCTTGG
1 TTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGT-AGTTCAATTAAAGGCTTGA
* * * *
36907538 GCTCAATTCCTTCTAAGCCCAAAATTTTTAATTA-TT-TTTTATATTTAAATTTATAAAAGATAT
65 GCTCAATCCCTTCTAAACCCAAAATTTTTAATTATTTCTTTTATATTTAAATCTATAAAAAATAT
* * *
36907601 CGTAGTTCAATTATTGTTGTGTATG-CCCAAAT
130 CGTAGTTCAATTATTCTTATGTATGTCCAAAAT
36907633 TTGTTAATTATTTTTCTTTTATATTTGAATTTAT-AAAGATATTGTAGTTCAATTA
1 TT-TTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTA
36907688 TTGTTATGTA
Statistics
Matches: 191, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
158 1 0.01
159 27 0.14
160 76 0.40
161 2 0.01
164 84 0.44
165 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (162 bp):
TTTTAATTATTTTTCTTTTATATTTGAATTTATAAAAGATATTGTAGTTCAATTAAAGGCTTGAG
CTCAATCCCTTCTAAACCCAAAATTTTTAATTATTTCTTTTATATTTAAATCTATAAAAAATATC
GTAGTTCAATTATTCTTATGTATGTCCAAAAT
Found at i:36907840 original size:23 final size:23
Alignment explanation
Indices: 36907802--36907846 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36907792 TTATGAAAAT
36907802 ATAACTTAAAAAAATAAATAAAG
1 ATAACTTAAAAAAATAAATAAAG
* * *
36907825 ATAACTTGAAAGAATAACTAAA
1 ATAACTTAAAAAAATAAATAAA
36907847 AAAAAGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (23 bp):
ATAACTTAAAAAAATAAATAAAG
Found at i:36908945 original size:23 final size:23
Alignment explanation
Indices: 36908915--36908961 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36908905 TTATGGAAAT
36908915 ATAACTTAAAAGAACAAATAAAG
1 ATAACTTAAAAGAACAAATAAAG
*
36908938 ATAACTTAAAAGAACAACTAAAG
1 ATAACTTAAAAGAACAAATAAAG
36908961 A
1 A
36908962 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.17
Consensus pattern (23 bp):
ATAACTTAAAAGAACAAATAAAG
Found at i:36909794 original size:2 final size:2
Alignment explanation
Indices: 36909789--36909817 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36909779 ATATATATAA
36909789 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36909818 CAAACATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36925551 original size:65 final size:65
Alignment explanation
Indices: 36925416--36925544 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
36925406 AATATCCTGG
36925416 GGCTTCTGCAGGTACTTGGTTTCAATATCACTCAAGTATCCTAACACCCTCCTCAAAAAACTAAA
1 GGCTTCTGCAGGTACTTGGTTTCAATATCACTCAAGTATCCTAACACCCTCCTCAAAAAACTAAA
*
36925481 GGCTTCTGCAGGTACTTGGTTTCAATATCACTCAAGTATCCTAACACCCTCCTCAAATAACTAA
1 GGCTTCTGCAGGTACTTGGTTTCAATATCACTCAAGTATCCTAACACCCTCCTCAAAAAACTAA
36925545 GTGCTTCCTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (65 bp):
GGCTTCTGCAGGTACTTGGTTTCAATATCACTCAAGTATCCTAACACCCTCCTCAAAAAACTAAA
Found at i:36941921 original size:2 final size:2
Alignment explanation
Indices: 36941914--36941963 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
36941904 ATGGAGAAAC
36941914 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36941955 TA TA TA TA T
1 TA TA TA TA T
36941964 TCAATCATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36944184 original size:2 final size:2
Alignment explanation
Indices: 36944134--36944171 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
36944124 ATACATTAGC
*
36944134 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36944172 CGTACTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:36944478 original size:2 final size:2
Alignment explanation
Indices: 36944435--36944464 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36944425 NNNNNNNNNN
36944435 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
36944465 CCGGTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36944529 original size:18 final size:17
Alignment explanation
Indices: 36944502--36944538 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
36944492 TTACATAAAC
36944502 ATGTTACATATATACAT
1 ATGTTACATATATACAT
*
36944519 ATGTGTACATATATATAT
1 ATGT-TACATATATACAT
36944537 AT
1 AT
36944539 ATATATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (17 bp):
ATGTTACATATATACAT
Found at i:36946199 original size:18 final size:18
Alignment explanation
Indices: 36946178--36946221 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
36946168 AAAAAAAAGA
36946178 AAAAAAATAAAAGAAATC
1 AAAAAAATAAAAGAAATC
*
36946196 AAAAAACA-AGAAGAAATC
1 AAAAAA-ATAAAAGAAATC
*
36946214 AAGAAAAT
1 AAAAAAAT
36946222 TAAACACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.75, C:0.07, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAATAAAAGAAATC
Found at i:36947556 original size:2 final size:2
Alignment explanation
Indices: 36947549--36947583 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
36947539 TTACTTACTA
*
36947549 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36947584 TTCAATATTG
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:36969655 original size:41 final size:41
Alignment explanation
Indices: 36969555--36969686 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
36969545 ATTTCTTTTG
*
36969555 TATATACAACACAATT-AGGATAAAATGAACACTGATTTTTAT
1 TATATACAACACAATTGA-GATAAAATGAACAC-GACTTTTAT
* *
36969597 TATATACAATACAATTGAGATAAAATGAACACGACATTTAT
1 TATATACAACACAATTGAGATAAAATGAACACGACTTTTAT
* * *
36969638 TATATACAACACTATTGAGATAAAATGAGCACAACTTTTAT
1 TATATACAACACAATTGAGATAAAATGAACACGACTTTTAT
36969679 TATATACA
1 TATATACA
36969687 CGTGATCAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 51 0.63
42 29 0.36
43 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (41 bp):
TATATACAACACAATTGAGATAAAATGAACACGACTTTTAT
Found at i:36980601 original size:22 final size:22
Alignment explanation
Indices: 36980576--36980626 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
36980566 TTTATTACAT
36980576 TTAATTAAATTTTTAT-ATTAAA
1 TTAATTAAATTTTTATAATT-AA
* *
36980598 TTAAATAAGTTTTTATAATTAA
1 TTAATTAAATTTTTATAATTAA
36980620 TTAATTA
1 TTAATTA
36980627 TTATTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTAAATTTTTATAATTAA
Found at i:36980617 original size:18 final size:18
Alignment explanation
Indices: 36980576--36980638 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
36980566 TTTATTACAT
**
36980576 TTAATTAAATTTTTA-TA
1 TTAATTAAATAATTATTA
*
36980593 TTAAATTAAATAAGTTTTTA
1 TT-AATTAAATAA-TTATTA
*
36980613 -TAATTAATTAATTATTA
1 TTAATTAAATAATTATTA
36980630 TTAATTAAA
1 TTAATTAAA
36980639 ATATCATTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
17 7 0.19
18 24 0.67
19 3 0.08
20 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTAATTAAATAATTATTA
Found at i:36980918 original size:30 final size:30
Alignment explanation
Indices: 36980872--36980947 Score: 136
Period size: 29 Copynumber: 2.6 Consensus size: 30
36980862 ATTTGGTTTA
36980872 AAATAAAAATATAAAAAACATTTTAGTTCC
1 AAATAAAAATATAAAAAACATTTTAGTTCC
*
36980902 AACT-AAAATATAAAAAACATTTTAGTTCC
1 AAATAAAAATATAAAAAACATTTTAGTTCC
36980931 AAATAAAAATATAAAAA
1 AAATAAAAATATAAAAA
36980948 TTTAATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 28 0.65
30 15 0.35
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.28
Consensus pattern (30 bp):
AAATAAAAATATAAAAAACATTTTAGTTCC
Found at i:36980984 original size:28 final size:28
Alignment explanation
Indices: 36980932--36980985 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
36980922 TTTAGTTCCA
* **
36980932 AATAAAAATATAAAAATTTAATTAATAT
1 AATAAAAACATAAAAAAATAATTAATAT
*
36980960 AATAAAAACATAAAAAAATATTTAAT
1 AATAAAAACATAAAAAAATAATTAAT
36980986 TTTTTTTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
AATAAAAACATAAAAAAATAATTAATAT
Found at i:36998052 original size:40 final size:40
Alignment explanation
Indices: 36997997--36998078 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
36997987 TCCTTTTCCC
36997997 TTTCTTTGTCTGGGGTCATATGATTCTGATCATCAAAATG
1 TTTCTTTGTCTGGGGTCATATGATTCTGATCATCAAAATG
36998037 TTTCTTTGTCTGGGGTCATATGATTCTGATCATCAAAATG
1 TTTCTTTGTCTGGGGTCATATGATTCTGATCATCAAAATG
36998077 TT
1 TT
36998079 ATTCATCTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (40 bp):
TTTCTTTGTCTGGGGTCATATGATTCTGATCATCAAAATG
Found at i:37000505 original size:16 final size:17
Alignment explanation
Indices: 37000438--37000505 Score: 68
Period size: 16 Copynumber: 4.0 Consensus size: 17
37000428 AAGTTAATTT
*
37000438 TTATTAATTAATATATAAA
1 TTATTAATTAAT-TA-ATA
*
37000457 TTATTAATTTATTAAT-
1 TTATTAATTAATTAATA
* *
37000473 TTATTGATTAAATAATA
1 TTATTAATTAATTAATA
37000490 TT-TTAATTAATTAATA
1 TTATTAATTAATTAATA
37000506 AATTTTTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
16 25 0.61
17 3 0.07
18 2 0.05
19 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TTATTAATTAATTAATA
Found at i:37001509 original size:78 final size:80
Alignment explanation
Indices: 37001388--37001544 Score: 255
Period size: 78 Copynumber: 2.0 Consensus size: 80
37001378 AAATTAACTT
* *
37001388 TAAATTCAACCCTAATTATAAAAAAAAAATAAAGATGACCCATTAGAAAATGAAATTACCTTTAA
1 TAAATTCAACCCTAAATATAAAAAAAAAATAAAGATGACCCATTAGAAAATGAAATTAACTTTAA
37001453 ATTCAACCCCAATTG
66 ATTCAACCCCAATTG
* *
37001468 TAAA-TCAACCCTAAATAT-AAAAAAAAATGAAGATGATCCATTAGAAAATGAAATTAACTTTAA
1 TAAATTCAACCCTAAATATAAAAAAAAAATAAAGATGACCCATTAGAAAATGAAATTAACTTTAA
*
37001531 ATTCAACCCTAATT
66 ATTCAACCCCAATT
37001545 ATTAAAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 55 0.76
79 13 0.18
80 4 0.06
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (80 bp):
TAAATTCAACCCTAAATATAAAAAAAAAATAAAGATGACCCATTAGAAAATGAAATTAACTTTAA
ATTCAACCCCAATTG
Found at i:37004711 original size:3 final size:3
Alignment explanation
Indices: 37004703--37004736 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
37004693 ATAGCCTCAT
*
37004703 CAG CAG CAG CAG CAG CAG CAG CAG CAG TAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
37004737 TGCAAGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.32, G:0.32, T:0.03
Consensus pattern (3 bp):
CAG
Found at i:37011876 original size:38 final size:38
Alignment explanation
Indices: 37011825--37011900 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
37011815 GTTAAAGCCC
*
37011825 TTGATTATGGATTTGGCATGTATGTATTCAATAACCAA
1 TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
*
37011863 TTGATTGTGGATTTAGCATGTATGTATTCAATAACCAA
1 TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
37011901 AGGAAGAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (38 bp):
TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
Found at i:37013109 original size:23 final size:24
Alignment explanation
Indices: 37013076--37013120 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
37013066 TTTTATTCTT
*
37013076 ATATATTTAATTATTAAATTATTA
1 ATATATTTAATTAATAAATTATTA
*
37013100 ATAT-TTTAATTAATAACTTAT
1 ATATATTTAATTAATAAATTAT
37013121 CAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATATTTAATTAATAAATTATTA
Found at i:37023470 original size:37 final size:37
Alignment explanation
Indices: 37023420--37023536 Score: 128
Period size: 37 Copynumber: 3.0 Consensus size: 37
37023410 ATCAGCCGAT
*
37023420 TTGATTTAGCTCTCCTCAAGAAGGGTTGGTTTTGATA
1 TTGATTCAGCTCTCCTCAAGAAGGGTTGGTTTTGATA
* *
37023457 TTGATTGAGCTCTCCTCGAGAAGGGTTGGTTTTGGTTTTGATA
1 TTGATTCAGCTCTCCTCAAGAA--G--GG--TTGGTTTTGATA
*
37023500 TTGATTCAGCTCTCCTCAAG-AGGAATTGGTTTTGATA
1 TTGATTCAGCTCTCCTCAAGAAGG-GTTGGTTTTGATA
37023537 CTAATTGTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
37 32 0.47
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 30 0.44
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.40
Consensus pattern (37 bp):
TTGATTCAGCTCTCCTCAAGAAGGGTTGGTTTTGATA
Found at i:37023511 original size:43 final size:43
Alignment explanation
Indices: 37023445--37023533 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
37023435 TCAAGAAGGG
* * *
37023445 TTGGTTTTGATATTGATTGAGCTCTCCTCGAGAAGG-GTTGGTT
1 TTGGTTTTGATATTGATTCAGCTCTCCTCAAG-AGGAATTGGTT
37023488 TTGGTTTTGATATTGATTCAGCTCTCCTCAAGAGGAATTGGTT
1 TTGGTTTTGATATTGATTCAGCTCTCCTCAAGAGGAATTGGTT
37023531 TTG
1 TTG
37023534 ATACTAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 3 0.07
43 39 0.93
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (43 bp):
TTGGTTTTGATATTGATTCAGCTCTCCTCAAGAGGAATTGGTT
Found at i:37024386 original size:12 final size:12
Alignment explanation
Indices: 37024369--37024399 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37024359 GGACGTGTGA
*
37024369 CAACTCCATCTG
1 CAACTCCACCTG
37024381 CAACTCCACCTG
1 CAACTCCACCTG
37024393 CAACTCC
1 CAACTCC
37024400 TTTCAAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (12 bp):
CAACTCCACCTG
Found at i:37029214 original size:2 final size:2
Alignment explanation
Indices: 37029209--37029234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37029199 TGTGTGTGTA
37029209 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
37029235 GAGGTACGAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37029295 original size:2 final size:2
Alignment explanation
Indices: 37029290--37029317 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37029280 TGTGTGTAGT
37029290 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
37029318 GTGAACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37035562 original size:2 final size:2
Alignment explanation
Indices: 37035555--37035579 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37035545 ACCCCGCATT
37035555 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
37035580 GTTTCTGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37055668 original size:50 final size:50
Alignment explanation
Indices: 37055603--37055697 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
37055593 TTTTTTTACT
* * * *
37055603 TTTATTGTTCGCCCTTTTTAGACTTATCATTGCCTTGAGGCTTTGTTTTC
1 TTTATGGTTCACCCTTGTTAGACTTACCATTGCCTTGAGGCTTTGTTTTC
37055653 TTTATGGTTCACCCTTGTTAGACTTACCATTGCCTTGAGGCTTTG
1 TTTATGGTTCACCCTTGTTAGACTTACCATTGCCTTGAGGCTTTG
37055698 GCGACTTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (50 bp):
TTTATGGTTCACCCTTGTTAGACTTACCATTGCCTTGAGGCTTTGTTTTC
Found at i:37067088 original size:7 final size:7
Alignment explanation
Indices: 37067076--37067107 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
37067066 AAATAAAATG
37067076 ATAATAA
1 ATAATAA
37067083 ATAATAA
1 ATAATAA
37067090 AT-ATAA
1 ATAATAA
37067096 ATAAT-A
1 ATAATAA
37067102 ATAATA
1 ATAATA
37067108 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAATAA
Found at i:37067097 original size:13 final size:15
Alignment explanation
Indices: 37067065--37067112 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
37067055 AATATACGAG
*
37067065 TAAATAA-AATGATAA
1 TAAATAATAATAAT-A
37067080 TAAATAAT-A-AATA
1 TAAATAATAATAATA
37067093 TAAATAATAATAATA
1 TAAATAATAATAATA
37067108 TAAAT
1 TAAAT
37067113 TAAAGAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 9 0.31
14 3 0.10
15 17 0.59
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAATAATAATAATA
Found at i:37082869 original size:4 final size:4
Alignment explanation
Indices: 37082860--37082885 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37082850 AAAACTCGAG
37082860 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
37082886 TGAAGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:37087901 original size:2 final size:2
Alignment explanation
Indices: 37087894--37087920 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37087884 AAAGCAACAT
37087894 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
37087921 GGATTTTCCC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37092878 original size:19 final size:18
Alignment explanation
Indices: 37092845--37092882 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
37092835 GAGCATCAGC
37092845 AAAACAAAGAGAAAAGAA
1 AAAACAAAGAGAAAAGAA
*
37092863 AAAAGAAAGAAGAAAAGAA
1 AAAACAAAG-AGAAAAGAA
37092882 A
1 A
37092883 GCTCTTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAACAAAGAGAAAAGAA
Found at i:37101903 original size:6 final size:6
Alignment explanation
Indices: 37101892--37101918 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37101882 CATGCGTAGA
37101892 CAAGGG CAAGGG CAAGGG CAAGGG CAA
1 CAAGGG CAAGGG CAAGGG CAAGGG CAA
37101919 TGTCAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.44, T:0.00
Consensus pattern (6 bp):
CAAGGG
Found at i:37106710 original size:45 final size:45
Alignment explanation
Indices: 37106660--37106753 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
37106650 TGCGGTTACG
37106660 AATAATCCAACCAAA-TCAATAGGAATTAGACCTAAGACGATTCCA
1 AATAATCCAACCAAAGT-AATAGGAATTAGACCTAAGACGATTCCA
* **
37106705 AATAATTCAGTCAAAGTAATAGGAATTAGACCTAAGACGATTCCA
1 AATAATCCAACCAAAGTAATAGGAATTAGACCTAAGACGATTCCA
37106750 AATA
1 AATA
37106754 GAAAAACTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (45 bp):
AATAATCCAACCAAAGTAATAGGAATTAGACCTAAGACGATTCCA
Found at i:37128490 original size:17 final size:16
Alignment explanation
Indices: 37128468--37128515 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
37128458 ATAAAAATAT
37128468 TTATTTTTATTTTCATA
1 TTATTTTTATTTT-ATA
*
37128485 TTATTTTTTATTGTATA
1 TTA-TTTTTATTTTATA
37128502 -TATTATTTATTTTA
1 TTATT-TTTATTTTA
37128516 ATTTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 10 0.37
17 6 0.22
18 9 0.33
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTTATTTTATA
Found at i:37128522 original size:19 final size:19
Alignment explanation
Indices: 37128465--37128522 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
37128455 ATTATAAAAA
37128465 TATTTATTTTTATTTTCATAT
1 TATTTA-TTTTATTTT-ATAT
37128486 TA-TT-TTTTATTGTATATAT
1 TATTTATTTTATT-T-TATAT
*
37128505 TATTTATTTTAATTTATA
1 TATTTATTTTATTTTATA
37128523 AAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
18 7 0.22
19 11 0.34
20 6 0.19
21 8 0.25
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTATTTTATTTTATAT
Found at i:37130268 original size:22 final size:20
Alignment explanation
Indices: 37130222--37130269 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
37130212 TAATTATTCC
37130222 TTAAATATAAAATTTGAAAT
1 TTAAATATAAAATTTGAAAT
* * *
37130242 ATAAATAATTAAAATTTGTATT
1 TTAAAT-A-TAAAATTTGAAAT
37130264 TTAAAT
1 TTAAAT
37130270 CCATATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.23
21 1 0.05
22 16 0.73
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAAATATAAAATTTGAAAT
Found at i:37130621 original size:24 final size:23
Alignment explanation
Indices: 37130585--37130631 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
37130575 GATAGATTAT
*
37130585 AAATTATATTTATGGTTATAAAA
1 AAATTATATTTATGGTTACAAAA
* *
37130608 AAATGTATTTTTATGTTTACAAAA
1 AAAT-TATATTTATGGTTACAAAA
37130632 TTTTGAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (23 bp):
AAATTATATTTATGGTTACAAAA
Found at i:37131216 original size:18 final size:18
Alignment explanation
Indices: 37131193--37131227 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37131183 TGATGTTGGA
37131193 TTTTAG-TCTTATGGTTTT
1 TTTTAGATCTT-TGGTTTT
37131211 TTTTAGATCTTTGGTTT
1 TTTTAGATCTTTGGTTT
37131228 CCTTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.66
Consensus pattern (18 bp):
TTTTAGATCTTTGGTTTT
Found at i:37133384 original size:37 final size:37
Alignment explanation
Indices: 37133334--37133409 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
37133324 ACTTTTATAA
*
37133334 TGAACAGATCTAGTTCATTTGATTGGGGTTTTGTCCC
1 TGAACAGATCTAGTTCATTTGATTGGGGTTATGTCCC
37133371 TGAACAGATCTAGTTCATTTGATTGGGGTTATGTCCC
1 TGAACAGATCTAGTTCATTTGATTGGGGTTATGTCCC
37133408 TG
1 TG
37133410 TCCTTTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (37 bp):
TGAACAGATCTAGTTCATTTGATTGGGGTTATGTCCC
Found at i:37133945 original size:33 final size:33
Alignment explanation
Indices: 37133903--37133968 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
37133893 GAGAAACAGA
*
37133903 TAAAAGAGAGGGAGATGGAACTTGGATGTGGAT
1 TAAAAGAGAGGGAGATGGAACTTAGATGTGGAT
37133936 TAAAAGAGAGGGAGATGGAACTTAGATGTGGAT
1 TAAAAGAGAGGGAGATGGAACTTAGATGTGGAT
37133969 CATCGGCGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.38, T:0.21
Consensus pattern (33 bp):
TAAAAGAGAGGGAGATGGAACTTAGATGTGGAT
Found at i:37138120 original size:345 final size:344
Alignment explanation
Indices: 37137490--37138182 Score: 1190
Period size: 345 Copynumber: 2.0 Consensus size: 344
37137480 AAATATTATC
*
37137490 CAATAATTTTTTAACCTATAATAATTGCAAGATATTAATGTATAATTGAGCTACGCCATTATTGA
1 CAATAATTTTTTAACCTATAATAATTGCAAGATATTAATGTATAATTCAGCTACGCCATTATTGA
* * * *
37137555 CCTTTGCTCGTGGAATTTGTGATTCACGTTTTTGGGCACTTTAGGCTTGATCATAGTGGGGTTAT
66 CCTTTGCTCCTGGAATTTGTGATGCACGTTTGTGGGCACTTAAGGCTTGATCATAGTGGGGTTAT
*
37137620 TCCTAGTGCAAGGTATCTCTTTCTTTCCGAGCTTCATTAATGAAAAAAGAAAAATAATATTTTAT
131 TCCTAGTGCAAGGTATCTCTTTCTTTCCAAGCTTCATTAATGAAAAAAGAAAAATAATATTTTAT
* * *
37137685 TTAAACGAATAAGAACAATTACACGTATGTTTAAAGTTGATTTCATAGATAAATTTATATGTTTT
196 TTAAACGAATAAAAACAATTACACGCATGTTTAAAGTTGATTTCACAGATAAATTTATATGTTTT
**
37137750 TAATGAATAATTAATTTTAAATTTAAAACCTGTAAAGTAAATTTTGCAATGAAGTTAATCTTGGT
261 TAATGAATAATTAATTTTAAATTTAAAACCTGTAAAGTAAATTTTGCAATGAAGTTAATCTTAAT
37137815 TTGAGCAATAACAAATACT
326 TTGAGCAATAACAAATACT
*
37137834 CAATAATTTTTTAACCTATAATAATTGCAAGATATTAATGTACT-ATTCAGGTACGCCATTATTG
1 CAATAATTTTTTAACCTATAATAATTGCAAGATATTAATGTA-TAATTCAGCTACGCCATTATTG
* *
37137898 TCCTTTGCCTCCTGGAATTTGTGATGCACGTTTGTGGTCACTTAAGGCTTGATCATAGTGGGGTT
65 ACCTTTG-CTCCTGGAATTTGTGATGCACGTTTGTGGGCACTTAAGGCTTGATCATAGTGGGGTT
37137963 ATTCCTAGTGCAAGGTATCTCTTTCTTTCCAAGCTTCATTAATGAAAAAAGAAAAATAATATTTT
129 ATTCCTAGTGCAAGGTATCTCTTTCTTTCCAAGCTTCATTAATGAAAAAAGAAAAATAATATTTT
* *
37138028 ATTTAAACGAATAAAAACAATTACATGCATGTTTAAAGTTGATTTCACGGATAAATTTATATGTT
194 ATTTAAACGAATAAAAACAATTACACGCATGTTTAAAGTTGATTTCACAGATAAATTTATATGTT
* * *
37138093 TTTAATGAATAATTAATTTTAAATTTAAAACTTGTAAAGTAATTTTTGTAATGAAGTTAATCTTA
259 TTTAATGAATAATTAATTTTAAATTTAAAACCTGTAAAGTAAATTTTGCAATGAAGTTAATCTTA
37138158 ATTTGAGCAATAACAAATACT
324 ATTTGAGCAATAACAAATACT
37138179 CAAT
1 CAAT
37138183 TGCATGTTAA
Statistics
Matches: 328, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
344 66 0.20
345 262 0.80
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (344 bp):
CAATAATTTTTTAACCTATAATAATTGCAAGATATTAATGTATAATTCAGCTACGCCATTATTGA
CCTTTGCTCCTGGAATTTGTGATGCACGTTTGTGGGCACTTAAGGCTTGATCATAGTGGGGTTAT
TCCTAGTGCAAGGTATCTCTTTCTTTCCAAGCTTCATTAATGAAAAAAGAAAAATAATATTTTAT
TTAAACGAATAAAAACAATTACACGCATGTTTAAAGTTGATTTCACAGATAAATTTATATGTTTT
TAATGAATAATTAATTTTAAATTTAAAACCTGTAAAGTAAATTTTGCAATGAAGTTAATCTTAAT
TTGAGCAATAACAAATACT
Found at i:37138257 original size:21 final size:20
Alignment explanation
Indices: 37138216--37138260 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
37138206 AATAGGAAAT
** *
37138216 AAAAGTAAAATATTAAGTAG
1 AAAAGTAAAATAACAAATAG
37138236 AAAAGTAACAATAACAAATAG
1 AAAAGTAA-AATAACAAATAG
37138257 AAAA
1 AAAA
37138261 TAATTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAAGTAAAATAACAAATAG
Found at i:37145749 original size:2 final size:2
Alignment explanation
Indices: 37145742--37145775 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
37145732 ATGACCTCAT
* *
37145742 TG TG TG TG TG TG TG TG TG TG AG TG TG TG TC TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37145776 ACTTCTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.03, G:0.47, T:0.47
Consensus pattern (2 bp):
TG
Found at i:37157196 original size:2 final size:2
Alignment explanation
Indices: 37157189--37157235 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
37157179 CTTATATTAG
* *
37157189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37157231 TA TA T
1 TA TA T
37157236 TCATTATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37161438 original size:15 final size:15
Alignment explanation
Indices: 37161415--37161459 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
37161405 ATTTATAAAA
37161415 AATAT-TATTATTATT
1 AATATATATTATT-TT
*
37161430 -ATATATATTGTTTT
1 AATATATATTATTTT
37161444 AATATATA-TATTTT
1 AATATATATTATTTT
37161458 AA
1 AA
37161460 ATGTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
AATATATATTATTTT
Found at i:37161519 original size:15 final size:15
Alignment explanation
Indices: 37161499--37161530 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37161489 TTAATGTTAA
37161499 AAAATTATAATTTAT
1 AAAATTATAATTTAT
*
37161514 AAAATTATTATTTAT
1 AAAATTATAATTTAT
37161529 AA
1 AA
37161531 TATATTTTTT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTATAATTTAT
Found at i:37162416 original size:30 final size:25
Alignment explanation
Indices: 37162341--37162400 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
37162331 AATATTAATG
37162341 TGATATGATAATATTATATAAATAA
1 TGATATGATAATATTATATAAATAA
37162366 TGATATGATAATATTATATAAATAA
1 TGATATGATAATATTATATAAATAA
37162391 TGATATGATA
1 TGATATGATA
37162401 CATTGATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (25 bp):
TGATATGATAATATTATATAAATAA
Found at i:37162420 original size:13 final size:13
Alignment explanation
Indices: 37162341--37162425 Score: 61
Period size: 13 Copynumber: 6.7 Consensus size: 13
37162331 AATATTAATG
37162341 TGATATGATA-ATA
1 TGATATGATATA-A
* *
37162354 TTATAT-AAATAA
1 TGATATGATATAA
37162366 TGATATGATA-ATA
1 TGATATGATATA-A
* *
37162379 TTATAT-AAATAA
1 TGATATGATATAA
* *
37162391 TGATATGATACAT
1 TGATATGATATAA
*
37162404 TGATGTGATATAA
1 TGATATGATATAA
37162417 TGATATGAT
1 TGATATGAT
37162426 CATTAGTGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
12 17 0.32
13 36 0.68
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (13 bp):
TGATATGATATAA
Found at i:37162530 original size:27 final size:27
Alignment explanation
Indices: 37162500--37162583 Score: 73
Period size: 30 Copynumber: 3.0 Consensus size: 27
37162490 AATATTTTGA
37162500 TTAATAGAAAAATAAGAA-TTATTTAAT
1 TTAATA-AAAAATAAGAATTTATTTAAT
* *
37162527 TTAAAATAAAATATATGAGAATTTAATTAAAT
1 TT--AATAAAA-A-ATAAGAATTT-ATTTAAT
*
37162559 ATAATAAAAAATAA-AATTTATTTAA
1 TTAATAAAAAATAAGAATTTATTTAA
37162584 AAATTTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
26 5 0.11
27 7 0.15
28 6 0.13
29 6 0.13
30 13 0.28
31 2 0.04
32 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (27 bp):
TTAATAAAAAATAAGAATTTATTTAAT
Found at i:37165287 original size:91 final size:91
Alignment explanation
Indices: 37165127--37165297 Score: 272
Period size: 91 Copynumber: 1.9 Consensus size: 91
37165117 TAGAATCCCA
* *
37165127 AACAACTAAGACGTGTTCCTAGAAACCTATGAATAATCAAATTAATCGGAGATTCTTGAACTTTG
1 AACAACTAAGACGCGTTCCTAGAAACCTATGAATAATCAAATTAATCGAAGATTCTTGAACTTTG
37165192 ACACAACTACAGACTGCTTAATCACG
66 ACACAACTACAGACTGCTTAATCACG
* * *
37165218 AACAGCTAAGATGCGTTCCTAGAAACCTATGAATAATCAAATTAAAT-GAAGATTCTTGAATTTT
1 AACAACTAAGACGCGTTCCTAGAAACCTATGAATAATCAAATT-AATCGAAGATTCTTGAACTTT
*
37165282 GACACAACTACGGACT
65 GACACAACTACAGACT
37165298 CTGATTAATC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
91 70 0.96
92 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (91 bp):
AACAACTAAGACGCGTTCCTAGAAACCTATGAATAATCAAATTAATCGAAGATTCTTGAACTTTG
ACACAACTACAGACTGCTTAATCACG
Found at i:37179809 original size:2 final size:2
Alignment explanation
Indices: 37179804--37179877 Score: 105
Period size: 2 Copynumber: 37.0 Consensus size: 2
37179794 AAAGTAATAA
* * *
37179804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGN GT AA AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
37179846 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
37179878 GAAAATGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:37181112 original size:17 final size:16
Alignment explanation
Indices: 37181073--37181112 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
37181063 ATTAAGACAT
37181073 AGAAAATAAAGAAAAG
1 AGAAAATAAAGAAAAG
*
37181089 ACTAAAATAAAAGAAAAG
1 A-GAAAAT-AAAGAAAAG
37181107 AGAAAA
1 AGAAAA
37181113 GAGACTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 9 0.45
18 10 0.50
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (16 bp):
AGAAAATAAAGAAAAG
Found at i:37195371 original size:2 final size:2
Alignment explanation
Indices: 37195364--37195388 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37195354 TTATTTTAAT
37195364 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 T
37195389 GATACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37196097 original size:2 final size:2
Alignment explanation
Indices: 37196090--37196129 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
37196080 TTTTGTCATT
37196090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37196130 ATTTTTTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37196998 original size:20 final size:20
Alignment explanation
Indices: 37196973--37197011 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37196963 TGGAGAAAGT
37196973 AAAAAGAG-GGAAAGAGGAGA
1 AAAAAGAGAGGAAAG-GGAGA
37196993 AAAAAGAGAGGAAAGGGAG
1 AAAAAGAGAGGAAAGGGAG
37197012 GGGCGGCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAGGAAAGGGAGA
Found at i:37203637 original size:20 final size:21
Alignment explanation
Indices: 37203588--37203638 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
37203578 AAAAAATTTT
*
37203588 AATTTTAATTTTTATATTAAA
1 AATTTTAATATTTATATTAAA
*
37203609 AA-TTAAATATTTA-ATTAAA
1 AATTTTAATATTTATATTAAA
37203628 AATTTTAATAT
1 AATTTTAATAT
37203639 AAAGTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTTAATATTTATATTAAA
Found at i:37212231 original size:2 final size:2
Alignment explanation
Indices: 37212224--37212252 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37212214 TCCTACCTAC
37212224 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37212253 AGACCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37233210 original size:17 final size:18
Alignment explanation
Indices: 37233183--37233216 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37233173 ATGAAAATGA
*
37233183 AAAATATATATTTTATTT
1 AAAATATATATATTATTT
37233201 AAAA-ATATATATTATT
1 AAAATATATATATTATT
37233217 AAGGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATATATATATTATTT
Found at i:37234350 original size:27 final size:27
Alignment explanation
Indices: 37234295--37234350 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
37234285 CCCAACCAAT
* **
37234295 GCCAGTCTAAATATCTTTTTGAATTTA
1 GCCAGTCTAAATATCTTATTGAAGATA
37234322 GCCAGTCTAAATATCTTATTGAAGATA
1 GCCAGTCTAAATATCTTATTGAAGATA
37234349 GC
1 GC
37234351 AGTATCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (27 bp):
GCCAGTCTAAATATCTTATTGAAGATA
Found at i:37237812 original size:113 final size:111
Alignment explanation
Indices: 37237678--37237899 Score: 313
Period size: 113 Copynumber: 2.0 Consensus size: 111
37237668 TTTGAAGGTC
* *
37237678 AAATTTTTTTATATTGATTATGAAACTTAAGTTTGAGTATGTTTCA-ATTTGGAAGTACAGATAA
1 AAATTTTTTTATATTGATTATGAAACTTAAGTTGGAGTATGTTTCATA-TTAGAAGTACAGATAA
*
37237742 AATTATGTTAATTCAAAAA-AGGTTGCTAATTTATTGGATCGTTTTCA
65 AATTATGTTAATTCAAAAATAGGTTGCAAATTTATTGGATC-TTTTCA
** * * *
37237789 AAATTATTTTTATATTTTTTTATGAAACTTATGTTGGAGTATTTTTCATATTAGAAGTATAGATA
1 AAATT-TTTTTATA-TTGATTATGAAACTTAAGTTGGAGTATGTTTCATATTAGAAGTACAGATA
*
37237854 AAATTATGTTAATTCAAAAATGGGTTGCAAATTTATTGGATCTTTT
64 AAATTATGTTAATTCAAAAATAGGTTGCAAATTTATTGGATCTTTT
37237900 AGTGCAGTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
111 5 0.05
112 8 0.08
113 65 0.66
114 20 0.20
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.45
Consensus pattern (111 bp):
AAATTTTTTTATATTGATTATGAAACTTAAGTTGGAGTATGTTTCATATTAGAAGTACAGATAAA
ATTATGTTAATTCAAAAATAGGTTGCAAATTTATTGGATCTTTTCA
Found at i:37238883 original size:41 final size:41
Alignment explanation
Indices: 37238832--37238916 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
37238822 AACACTTGCA
* *
37238832 ATAAATAAATTAAGATTTGCGATAAAGATGTATTAAAAGTG
1 ATAAACAAATTAAGATTTGCGATAAAGATATATTAAAAGTG
* **
37238873 ATAAACAAATTAAGATTTGCGATTAAGATATATTGGAAGTG
1 ATAAACAAATTAAGATTTGCGATAAAGATATATTAAAAGTG
37238914 ATA
1 ATA
37238917 GAGAAGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.32
Consensus pattern (41 bp):
ATAAACAAATTAAGATTTGCGATAAAGATATATTAAAAGTG
Done.