Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 112 of 318
Found at i:35735410 original size:24 final size:23
Alignment explanation
Indices: 35735377--35735449 Score: 92
Period size: 24 Copynumber: 3.1 Consensus size: 23
35735367 TCCGGGCTAT
35735377 ATAACAGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
*
35735400 ATAATCAGGAAGCTCATACGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* **
35735424 AATAACAGGTAGCTCCGAAGAGCC
1 -ATAACAGGAAGCTCATAAGAGCC
35735448 AT
1 AT
35735450 TAATTAGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 6 0.14
24 33 0.77
25 4 0.09
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:35735509 original size:25 final size:25
Alignment explanation
Indices: 35735420--35735513 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
35735410 AGCTCATACG
* *
35735420 AGCCAATAA-CAGGTAGCTCC-GAA
1 AGCCATTAATCAGGAAGCTCCGGAA
* * * *
35735443 GAGCCATTAATTAGGAAACTTCGGAT
1 -AGCCATTAATCAGGAAGCTCCGGAA
* *
35735469 AGCTA-TATATCGGGAAGCTCCGGAA
1 AGCCATTA-ATCAGGAAGCTCCGGAA
35735494 AGCCATTAATCAGGAAGCTC
1 AGCCATTAATCAGGAAGCTC
35735514 ACAAAAAGCC
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
24 10 0.19
25 38 0.73
26 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
AGCCATTAATCAGGAAGCTCCGGAA
Found at i:35735560 original size:26 final size:26
Alignment explanation
Indices: 35735472--35735560 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
35735462 TTCGGATAGC
35735472 TATATATCGGGAAGCTC-CGGAAAGCCA
1 TATA-ATCGGGAAGCTCAC-GAAAGCCA
* *
35735499 T-TAATCAGGAAGCTCACAAAAAGCC-
1 TATAATCGGGAAGCTCAC-GAAAGCCA
* *
35735524 TTTAATTGGGAAGCTCACGAAGAGCCA
1 TATAATCGGGAAGCTCACGAA-AGCCA
35735551 TAT-ATCGGGA
1 TATAATCGGGA
35735561 CACTCATAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
25 14 0.28
26 33 0.66
27 3 0.06
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
TATAATCGGGAAGCTCACGAAAGCCA
Found at i:35736056 original size:16 final size:16
Alignment explanation
Indices: 35736035--35736065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35736025 GTTTAACTCA
35736035 ATTTAATACAATTCAT
1 ATTTAATACAATTCAT
*
35736051 ATTTAATTCAATTCA
1 ATTTAATACAATTCA
35736066 ATTCAATTCA
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:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATACAATTCAT
Found at i:35736062 original size:26 final size:26
Alignment explanation
Indices: 35736026--35736075 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35736016 TATGAGTAAG
*
35736026 TTTAACTCAATTTAATACAATTCATA
1 TTTAACTCAATTCAATACAATTCATA
* *
35736052 TTTAATTCAATTCAATTCAATTCA
1 TTTAACTCAATTCAATACAATTCA
35736076 CATCTTAGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAACTCAATTCAATACAATTCATA
Found at i:35736065 original size:5 final size:5
Alignment explanation
Indices: 35736032--35736075 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
35736022 TAAGTTTAAC
* * *
35736032 TCAAT TTAAT ACAAT TCATAT TTAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
35736076 CATCTTAGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (5 bp):
TCAAT
Found at i:35738140 original size:14 final size:14
Alignment explanation
Indices: 35738121--35738148 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35738111 TACAATACCC
35738121 AAACAATAGCAACA
1 AAACAATAGCAACA
35738135 AAACAATAGCAACA
1 AAACAATAGCAACA
35738149 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.21, G:0.07, T:0.07
Consensus pattern (14 bp):
AAACAATAGCAACA
Found at i:35743053 original size:20 final size:21
Alignment explanation
Indices: 35743019--35743072 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
35743009 TGATGATATT
*
35743019 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
35743040 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
35743060 TTTTATTATTTTA
1 TTATATTATTTTA
35743073 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:35743076 original size:3 final size:3
Alignment explanation
Indices: 35743058--35743106 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
35743048 TTTAATGAGA
*
35743058 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
35743103 TAT T
1 TAT T
35743107 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:35743078 original size:11 final size:11
Alignment explanation
Indices: 35743062--35743100 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
35743052 ATGAGATATT
35743062 TTATTATTTTA
1 TTATTATTTTA
*
35743073 TTATTATTTCA
1 TTATTATTTTA
35743084 TTATTATTTTA
1 TTATTATTTTA
35743095 TTATTA
1 TTATTA
35743101 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:35743086 original size:19 final size:19
Alignment explanation
Indices: 35743058--35743099 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
35743048 TTTAATGAGA
*
35743058 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
35743077 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
35743096 TATT
1 TATT
35743100 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:35744786 original size:46 final size:46
Alignment explanation
Indices: 35744733--35745119 Score: 546
Period size: 46 Copynumber: 8.4 Consensus size: 46
35744723 GTGGAAAAGA
* *
35744733 AAAGATACCATGGCAACATGATATGAAATGTGCAAGACTATGGTTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
*
35744779 AAAGATACCATGGCAACATGAT-TAGAAATGTGTAAGACCATGATTG
1 AAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCATGGTTG
*
35744825 AAAGATACCATGGAAACATGATATGAAATGTGTAAGACCATGGTTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
* *
35744871 AAAGATACCATGGCAACCTTATATGAAATGTGTAAGACCATGGTTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
* * * * **
35744917 AAAGATACCATAGTAACGTGACATGAAA-GAATAAGACCATGGTTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
*
35744962 AAAGATACCATAGCAACATGATATGAAATGTGTAAGACCATGGTTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
* *
35745008 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGATTG
1 AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
* * *
35745054 AAAGATACCATGGCAACATGACA-GAAATTGAGTAAGACCATAGTTG
1 AAAGATACCATGGCAACATGATATGAAA-TGTGTAAGACCATGGTTG
* * *
35745100 AAAGACACTATGGCATCATG
1 AAAGATACCATGGCAACATG
35745120 TCAAAGATAA
Statistics
Matches: 306, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 45 0.15
46 260 0.85
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
AAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTG
Found at i:35745016 original size:183 final size:183
Alignment explanation
Indices: 35744766--35745104 Score: 547
Period size: 183 Copynumber: 1.9 Consensus size: 183
35744756 TGAAATGTGC
* *
35744766 AAGACTATGGTTGAAAGATACCATGGCAACATGATTAGAAATGTGTAAGACCATGATTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATAGCAACATGATTAGAAATGTGTAAGACCATGATTGAAAGAT
* * * *
35744831 ACCATGGAAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTTATATG
66 ACCATGGAAACATGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGACA-G
* *
35744896 AAA-TGTGTAAGACCATGGTTGAAAGATACCATAGTAACGTGACATGAAAGAAT
130 AAATTGAGTAAGACCATAGTTGAAAGATACCATAGTAACGTGACATGAAAGAAT
*
35744949 AAGACCATGGTTGAAAGATACCATAGCAACATGA-TATGAAATGTGTAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATAGCAACATGATTA-GAAATGTGTAAGACCATGATTGAAAGA
* *
35745013 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGACAG
65 TACCATGGAAACATGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGACAG
35745078 AAATTGAGTAAGACCATAGTTGAAAGA
130 AAATTGAGTAAGACCATAGTTGAAAGA
35745105 CACTATGGCA
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
182 6 0.04
183 137 0.96
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (183 bp):
AAGACCATGGTTGAAAGATACCATAGCAACATGATTAGAAATGTGTAAGACCATGATTGAAAGAT
ACCATGGAAACATGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGACAGA
AATTGAGTAAGACCATAGTTGAAAGATACCATAGTAACGTGACATGAAAGAAT
Found at i:35746610 original size:19 final size:20
Alignment explanation
Indices: 35746588--35746634 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
35746578 TCTTTTTTCC
35746588 TCTTCTTTCGAATT-TTTTT
1 TCTTCTTTCGAATTGTTTTT
* * *
35746607 TCTTTTTTTGTATTGTTTTT
1 TCTTCTTTCGAATTGTTTTT
35746627 T-TTCTTTC
1 TCTTCTTTC
35746635 TTTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (20 bp):
TCTTCTTTCGAATTGTTTTT
Found at i:35751296 original size:13 final size:13
Alignment explanation
Indices: 35751278--35751318 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
35751268 GGCAATCACA
35751278 TCACACGGTCGTG
1 TCACACGGTCGTG
35751291 TCACACGGTCGTG
1 TCACACGGTCGTG
*
35751304 TCACACGGGCGTG
1 TCACACGGTCGTG
35751317 TC
1 TC
35751319 CCTACTGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.32, G:0.32, T:0.22
Consensus pattern (13 bp):
TCACACGGTCGTG
Found at i:35766045 original size:24 final size:24
Alignment explanation
Indices: 35766001--35766055 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35765991 AAGTTCATGC
* *
35766001 GAGCCAATAACGGGTAGCTCCGAA
1 GAGCCATTAACGGGAAGCTCCGAA
* *
35766025 GAGCCATTAACGGGAATCTCCGGA
1 GAGCCATTAACGGGAAGCTCCGAA
*
35766049 TAGCCAT
1 GAGCCAT
35766056 ATATTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.16
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCGAA
Found at i:35766242 original size:24 final size:24
Alignment explanation
Indices: 35766215--35766269 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
35766205 CACAACCGAT
35766215 CGGGATGCTCCGA-AGAGCTATTAA
1 CGGGATGCT-CGAGAGAGCTATTAA
* *
35766239 CGGGAAGCTCGAGAGGGCTATTAA
1 CGGGATGCTCGAGAGAGCTATTAA
*
35766263 TGGGATG
1 CGGGATG
35766270 TTTTTTCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.27, C:0.16, G:0.36, T:0.20
Consensus pattern (24 bp):
CGGGATGCTCGAGAGAGCTATTAA
Found at i:35768356 original size:24 final size:23
Alignment explanation
Indices: 35768329--35768400 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
35768319 TATATTTAAA
*
35768329 AATTCAAATAATGAATAAAAAATT
1 AATT-AAATAATTAATAAAAAATT
**
35768353 AATTACAATAATTAA-AAATATTTT
1 AATTA-AATAATTAATAAA-AAATT
*
35768377 ATTTAAA-AATTAATAAAAAATT
1 AATTAAATAATTAATAAAAAATT
35768399 AA
1 AA
35768401 ACGCGTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
22 10 0.26
23 9 0.24
24 19 0.50
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (23 bp):
AATTAAATAATTAATAAAAAATT
Found at i:35770788 original size:5 final size:5
Alignment explanation
Indices: 35770739--35770766 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35770729 TAAATAGTGT
35770739 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
35770767 AGAAGAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:35771019 original size:24 final size:24
Alignment explanation
Indices: 35770988--35771036 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35770978 TAAGGGAAAT
35770988 TAAAAGATATTCAACTCCCTTTAC
1 TAAAAGATATTCAACTCCCTTTAC
35771012 TAAAAGATATTCAACTCCCTTTAC
1 TAAAAGATATTCAACTCCCTTTAC
35771036 T
1 T
35771037 TTCCCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAAAGATATTCAACTCCCTTTAC
Found at i:35772941 original size:13 final size:13
Alignment explanation
Indices: 35772923--35772947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35772913 CATGAGCAAA
35772923 ATTTTAAGTTGAT
1 ATTTTAAGTTGAT
35772936 ATTTTAAGTTGA
1 ATTTTAAGTTGA
35772948 ACCAAATTTA
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:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
ATTTTAAGTTGAT
Found at i:35788521 original size:13 final size:14
Alignment explanation
Indices: 35788494--35788524 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
35788484 TTGAGATGAG
35788494 AATATTATCTTAAA
1 AATATTATCTTAAA
35788508 AATATTAT-TTAAA
1 AATATTATCTTAAA
35788521 AATA
1 AATA
35788525 AAATAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATTATCTTAAA
Found at i:35794155 original size:24 final size:24
Alignment explanation
Indices: 35794128--35794179 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
35794118 AAATATTAAC
35794128 TATTAT-TT-TTTTAAAAATAGAAAA
1 TATTATATTATTTTAAAAAT--AAAA
*
35794152 TATTATATTATTTTAATAATAAAA
1 TATTATATTATTTTAAAAATAAAA
35794176 TATT
1 TATT
35794180 TGATCCGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 14 0.56
25 2 0.08
26 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTATATTATTTTAAAAATAAAA
Found at i:35796359 original size:21 final size:20
Alignment explanation
Indices: 35796325--35796378 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
35796315 TAAGTGATAC
35796325 TTTAA-TTTATTTATGCAAA
1 TTTAATTTTATTTATGCAAA
35796344 TTTAATTTTCATTTATGCAAA
1 TTTAATTTT-ATTTATGCAAA
35796365 TTTAAATTTT-TTTA
1 TTT-AATTTTATTTA
35796379 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.16
20 7 0.22
21 14 0.44
22 6 0.19
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTAATTTTATTTATGCAAA
Found at i:35797388 original size:7 final size:7
Alignment explanation
Indices: 35797376--35797400 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35797366 AGTCGTTTCA
35797376 TATTTAG
1 TATTTAG
35797383 TATTTAG
1 TATTTAG
35797390 TATTTAG
1 TATTTAG
35797397 TATT
1 TATT
35797401 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:35797936 original size:30 final size:30
Alignment explanation
Indices: 35797897--35797995 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
35797887 GGACGACGAT
35797897 GCAGGCCCATCAACAGCGCCCACACAATCA
1 GCAGGCCCATCAACAGCGCCCACACAATCA
* * *
35797927 GCTGGCCCATCAATAGCGCCCATACAATCA
1 GCAGGCCCATCAACAGCGCCCACACAATCA
*
35797957 GCAAGCCCATCAACAGCGCCGC-CACAATCA
1 GCAGGCCCATCAACAGCGCC-CACACAATCA
*
35797987 CCAGGCCCA
1 GCAGGCCCA
35797996 ACAGTTCAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 58 0.98
31 1 0.02
ACGTcount: A:0.31, C:0.42, G:0.17, T:0.09
Consensus pattern (30 bp):
GCAGGCCCATCAACAGCGCCCACACAATCA
Found at i:35797966 original size:17 final size:15
Alignment explanation
Indices: 35797901--35797976 Score: 65
Period size: 13 Copynumber: 5.2 Consensus size: 15
35797891 GACGATGCAG
35797901 GCCCAT-CAA-CAGC
1 GCCCATACAATCAGC
*
35797914 GCCCACACAATCAGC
1 GCCCATACAATCAGC
35797929 TGGCCCAT-CAAT-AGC
1 --GCCCATACAATCAGC
35797944 GCCCATACAATCAGC
1 GCCCATACAATCAGC
35797959 AAGCCCAT-CAA-CAGC
1 --GCCCATACAATCAGC
35797974 GCC
1 GCC
35797977 GCCACAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
13 14 0.26
14 7 0.13
15 14 0.26
16 7 0.13
17 11 0.21
ACGTcount: A:0.32, C:0.42, G:0.16, T:0.11
Consensus pattern (15 bp):
GCCCATACAATCAGC
Found at i:35798073 original size:18 final size:18
Alignment explanation
Indices: 35798052--35798094 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35798042 TGTCAGGTAC
*
35798052 GTATCCTATCCCTTATAT
1 GTATCCTAACCCTTATAT
*
35798070 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
35798088 GTTTCCT
1 GTATCCT
35798095 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:35802503 original size:126 final size:126
Alignment explanation
Indices: 35802278--35803279 Score: 1682
Period size: 126 Copynumber: 8.0 Consensus size: 126
35802268 ATAGCCTCAG
* * *
35802278 TTTTTCTACAAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTTCGAAATTTTGTTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
* *
35802343 CAGTGCATCCAGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * *
35802404 TTTTTCTACGAACTATTGTAGCAAAAGCGCGTCCATGTGGGAGATTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
35802469 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGCAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
*
35802530 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
35802595 CGGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * *
35802656 TTTTACTACGAACTACTGTAGCAAAAGCGCGTCCACGTAGGAGCTTTTTTCTGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
* * * *
35802721 CGGTGCATCCTGCTTGAAGTGTTTTTGACACTATTTGTTCAAAAACGTCTACTCAAAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* *
35802782 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGATCTTTTTTCTGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
35802847 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * * *
35802908 TTTTTCTATGAACTACTGTAGCAAAAGTGCGTCCACATGGTAGCTTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
35802973 CAGTGCATCCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* *
35803034 TTTTTCTACTAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCTAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
* *
35803099 CAGTGCATACTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGGATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * * *
35803160 TTTTTCTACGAACTATTATAGCAAAATG-GCGTCCACGTGGGAGCTTTTTTCTGAAATTTTACTG
1 TTTTTCTACGAACTACTGTAGCAAAA-GCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTG
*
35803224 ACAGTGCATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
65 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
35803280 ATTAACCTAA
Statistics
Matches: 824, Mismatches: 51, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
126 823 1.00
127 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (126 bp):
TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
Found at i:35803425 original size:19 final size:19
Alignment explanation
Indices: 35803401--35803473 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
35803391 ACCATTATGT
35803401 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
* * *
35803420 ATCAATTAACGCTCATTTA
1 ATCAATTAACCCTAAATTA
*
35803439 ATCGAA-TAACCCTAATTTA
1 ATC-AATTAACCCTAAATTA
* * *
35803458 ATTAACTAACCATAAA
1 ATCAATTAACCCTAAA
35803474 CCTTAAACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.05
19 40 0.91
20 2 0.05
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:35803568 original size:21 final size:21
Alignment explanation
Indices: 35803542--35803587 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
35803532 CCTAAAATCA
35803542 TAAACCACTAACCATAAACCC
1 TAAACCACTAACCATAAACCC
*
35803563 TAAACCACTAACTATAAACCC
1 TAAACCACTAACCATAAACCC
35803584 TAAA
1 TAAA
35803588 ACAACTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCACTAACCATAAACCC
Found at i:35804216 original size:16 final size:16
Alignment explanation
Indices: 35804176--35804220 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
35804166 TTTTGAAAGG
35804176 CTTAAAAATATTTTAT
1 CTTAAAAATATTTTAT
*
35804192 -TTAACAATATTTTAT
1 CTTAAAAATATTTTAT
35804207 CTTAAAAATATTTT
1 CTTAAAAATATTTT
35804221 TTTGTCCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
CTTAAAAATATTTTAT
Found at i:35805977 original size:260 final size:260
Alignment explanation
Indices: 35805515--35805987 Score: 743
Period size: 260 Copynumber: 1.8 Consensus size: 260
35805505 TCGGTTGAGC
*
35805515 AAAACTCGATTCGATTCGAAAAAATAAAAAAGAAATTCAATTTTGAGTTAACCGAATCAAGTTAT
1 AAAACTCGATTCGATTCGAAAAAATAAAAAAGAAATTAAATTTTGAGTTAACCGAATCAAGTTAT
* *
35805580 TCGAGTTTCGAGTTTGAGTAGAGTTGAATTTCACAATTCAAATAACTCGAATAATTCAAATAACA
66 TCGAGTTTCGAGTTTGAGTAGAGTTAAATTTCACAATTCAAATAACTCAAATAATTCAAATAACA
* * *
35805645 GATTGGTGTAAATACCCTTTTAATTCCTGTCAACTTTGAAAATAAATAAATTCGTCTCTCTCACA
131 AATTGGTGTAAATACCCTTTTAATCCCTGTCAACTTTGAAAATAAACAAATTCGTCTCTCTCACA
35805710 ACAAAAATTACAAAAAAATAATTTTAAAAAATTCAAAAAATTTATAACTTTTTTTAAAAAAATCT
196 ACAAAAATTACAAAAAAATAATTTTAAAAAATTCAAAAAATTTATAACTTTTTTTAAAAAAATCT
* *
35805775 AAAACTCGATTGGATTCGAAAAAAATTTAAAAA-AAA-TAAATTTTGAGTTAACCGAATCAAGTT
1 AAAACTCGATTCGATTCG-AAAAAA-TAAAAAAGAAATTAAATTTTGAGTTAACCGAATCAAGTT
* * **
35805838 ATTCGAGTTTCGAGTTTGAGTCGAGTTAAATTTTACAATTTGAATAACTCAAATAATTCAAATAA
64 ATTCGAGTTTCGAGTTTGAGTAGAGTTAAATTTCACAATTCAAATAACTCAAATAATTCAAATAA
* ** * * *
35805903 TAAATTGGTGTTGATACCCTTTTGATCCCTGTCAACTTTGAAAATAAGCAAGTTCGTCTCTCTCA
129 CAAATTGGTGTAAATACCCTTTTAATCCCTGTCAACTTTGAAAATAAACAAATTCGTCTCTCTCA
*
35805968 CAGCAAAAATTACAAAAAAA
194 CAACAAAAATTACAAAAAAA
35805988 ATTTAAAATA
Statistics
Matches: 192, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
260 177 0.92
261 9 0.05
262 6 0.03
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (260 bp):
AAAACTCGATTCGATTCGAAAAAATAAAAAAGAAATTAAATTTTGAGTTAACCGAATCAAGTTAT
TCGAGTTTCGAGTTTGAGTAGAGTTAAATTTCACAATTCAAATAACTCAAATAATTCAAATAACA
AATTGGTGTAAATACCCTTTTAATCCCTGTCAACTTTGAAAATAAACAAATTCGTCTCTCTCACA
ACAAAAATTACAAAAAAATAATTTTAAAAAATTCAAAAAATTTATAACTTTTTTTAAAAAAATCT
Found at i:35806034 original size:19 final size:19
Alignment explanation
Indices: 35805984--35806045 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
35805974 AAATTACAAA
*
35805984 AAAAATTTAAAATAATTT-T
1 AAAATTTTAAAAT-ATTTAT
* *
35806003 CAAATATTCAAAATATTTAT
1 AAAAT-TTTAAAATATTTAT
* *
35806023 AAAATTTTAAAAAAATTAT
1 AAAATTTTAAAATATTTAT
35806042 AAAA
1 AAAA
35806046 ATAAATAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 22 0.65
20 12 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTTTAAAATATTTAT
Found at i:35806307 original size:16 final size:17
Alignment explanation
Indices: 35806268--35806311 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
35806258 AACTCGAATA
35806268 ATTTCACTC-AA-TTCG
1 ATTTCACTCGAATTTCG
35806283 ACTTT-ACTCGAATTTC-
1 A-TTTCACTCGAATTTCG
35806299 ATTTCACTCGAAT
1 ATTTCACTCGAAT
35806312 CAATTCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 14 0.56
17 3 0.12
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (17 bp):
ATTTCACTCGAATTTCG
Found at i:35808389 original size:3 final size:3
Alignment explanation
Indices: 35808381--35808454 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
35808371 TCCATTTCGG
* * *
35808381 GAA GAA GAAA GAA GGA GAA AAA G-A GAA GAAA GAA GAA -AA GAA GGA
1 GAA GAA G-AA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
35808426 GAA GAA GAA -AA GAA GAA -AA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
35808455 GAGAGGAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
2 8 0.14
3 45 0.76
4 6 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:35808420 original size:8 final size:8
Alignment explanation
Indices: 35808404--35808450 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
35808394 GGAGAAAAAG
35808404 AGAAG-AA
1 AGAAGAAA
35808411 AGAAGAAA
1 AGAAGAAA
*
35808419 AGAAGGAGA
1 AGAA-GAAA
35808428 AGAAGAAA
1 AGAAGAAA
35808436 AGAAGAAA
1 AGAAGAAA
35808444 AGAAGAA
1 AGAAGAA
35808451 GAAGGAGAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 5 0.14
8 24 0.67
9 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (8 bp):
AGAAGAAA
Found at i:35808428 original size:11 final size:11
Alignment explanation
Indices: 35808381--35808453 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
35808371 TCCATTTCGG
35808381 GAAGAAG-AAA
1 GAAGAAGAAAA
*
35808391 GAAGGAGAAAA
1 GAAGAAGAAAA
35808402 -AGAGAAG-AAA
1 GA-AGAAGAAAA
35808412 GAAGAA-AAGAA
1 GAAGAAGAA-AA
*
35808423 GGAGAAGAAGAA
1 GAAGAAGAA-AA
35808435 -AAGAAGAAAA
1 GAAGAAGAAAA
35808445 GAAGAAGAA
1 GAAGAAGAA
35808454 GGAGAGGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 17 0.33
11 30 0.58
12 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
GAAGAAGAAAA
Found at i:35808437 original size:25 final size:24
Alignment explanation
Indices: 35808381--35808454 Score: 91
Period size: 25 Copynumber: 3.2 Consensus size: 24
35808371 TCCATTTCGG
* *
35808381 GAAGAAGAAAGAAG--GAGAAAAA
1 GAAGAAGAAAGAAGAAAAGAAGAA
*
35808403 G-AGAAGAAAGAAGAAAAGAAGGA
1 GAAGAAGAAAGAAGAAAAGAAGAA
35808426 GAAGAAGAAAAGAAGAAAAGAAGAA
1 GAAGAAG-AAAGAAGAAAAGAAGAA
35808451 GAAG
1 GAAG
35808455 GAGAGGAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 12 0.27
22 1 0.02
23 6 0.14
24 5 0.11
25 20 0.45
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAAGAAAGAAGAAAAGAAGAA
Found at i:35808534 original size:20 final size:20
Alignment explanation
Indices: 35808478--35808535 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
35808468 CGGTATCGGT
* *
35808478 GAGGGAAGAAAAAAGAAAAA
1 GAGGGAAGGAAAAAGAAGAA
* **
35808498 GA-GAAAGAGAAGGAGAAGAA
1 GAGGGAAG-GAAAAAGAAGAA
35808518 GAGGGAAGGAAAAAGAAG
1 GAGGGAAGGAAAAAGAAG
35808536 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
GAGGGAAGGAAAAAGAAGAA
Found at i:35809011 original size:15 final size:15
Alignment explanation
Indices: 35808965--35809033 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
35808955 AAATAGTATA
35808965 AAAAAATAAAATACT-
1 AAAAAATAAAATA-TG
***
35808980 AAAAAATATCTTAATG
1 AAAAAATAAAAT-ATG
35808996 AAAAAATAAAATATG
1 AAAAAATAAAATATG
*
35809011 AAAAGAAATAAAAGATG
1 -AAA-AAATAAAATATG
35809028 AAAAAA
1 AAAAAA
35809034 GACTTTTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 16 0.37
16 16 0.37
17 11 0.26
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (15 bp):
AAAAAATAAAATATG
Found at i:35809019 original size:17 final size:17
Alignment explanation
Indices: 35808999--35809031 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35808989 CTTAATGAAA
*
35808999 AAATAAAATATGAAAAG
1 AAATAAAAGATGAAAAG
35809016 AAATAAAAGATGAAAA
1 AAATAAAAGATGAAAA
35809032 AAGACTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (17 bp):
AAATAAAAGATGAAAAG
Found at i:35809296 original size:118 final size:120
Alignment explanation
Indices: 35809155--35809374 Score: 390
Period size: 119 Copynumber: 1.9 Consensus size: 120
35809145 AACAAAGGGC
*
35809155 CAAAATCAGGGTTATTTACTAAATTATTAT-AAAAACACTAAAATAATACATTTGAAACATTATG
1 CAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATG
*
35809219 TACTAAAATAATAT-AAAAAATAAAATCCGAAAATAAAAACTACCAATAAAGTGT
66 TACTAAAATAATATAAAAAAATAAAATACGAAAATAAAAACTACCAATAAAGTGT
* *
35809273 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAACATTATG
1 CAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATG
35809338 TACTAAAATAATATAAAAAAATAAAATACGAAAATAA
66 TACTAAAATAATATAAAAAAATAAAATACGAAAATAA
35809375 TATATATTAA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 28 0.29
119 47 0.49
120 21 0.22
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (120 bp):
CAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATG
TACTAAAATAATATAAAAAAATAAAATACGAAAATAAAAACTACCAATAAAGTGT
Found at i:35809360 original size:13 final size:13
Alignment explanation
Indices: 35809342--35809406 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
35809332 ATTATGTACT
*
35809342 AAAATAATATAAA
1 AAAATAAAATAAA
35809355 AAAATAAAATACGAA
1 AAAATAAAATA--AA
* *
35809370 AATAATATATATTAA
1 AA-AATA-AAATAAA
*
35809385 AAAATAAAATAAG
1 AAAATAAAATAAA
35809398 AAAATAAAA
1 AAAATAAAA
35809407 ATTTACCAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 23 0.55
14 4 0.10
15 8 0.19
16 4 0.10
17 3 0.07
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:35809389 original size:30 final size:29
Alignment explanation
Indices: 35809344--35809404 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
35809334 TATGTACTAA
*
35809344 AATAATATAAAAAAATAAAATACGAAAAT
1 AATAATATAAAAAAATAAAATAAGAAAAT
*
35809373 AATATATATTAAAAAATAAAATAAGAAAAT
1 AATA-ATATAAAAAAATAAAATAAGAAAAT
35809403 AA
1 AA
35809405 AAATTTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (29 bp):
AATAATATAAAAAAATAAAATAAGAAAAT
Found at i:35812160 original size:26 final size:26
Alignment explanation
Indices: 35812124--35812207 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
35812114 GGAACAAACT
35812124 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
35812150 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
35812180 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
35812206 TT
1 TT
35812208 GGAACAATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 5 0.10
28 2 0.04
29 5 0.10
30 15 0.31
31 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:35812213 original size:17 final size:17
Alignment explanation
Indices: 35812132--35812213 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
35812122 CTTTAAATAC
*
35812132 ATTACAACATTAATCTA
1 ATTAGAACATTAATCTA
*
35812149 ATTAAATACATTAATCTA
1 ATTAGA-ACATTAATCTA
* *
35812167 ATTGGAACATTAATTAAATA
1 ATTAGAACATTAA-T--CTA
*
35812187 CATTACAACATTAATCTA
1 -ATTAGAACATTAATCTA
*
35812205 ATTGGAACA
1 ATTAGAACA
35812214 ATCTTTGCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.37
18 18 0.35
20 3 0.06
21 11 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTAGAACATTAATCTA
Found at i:35815926 original size:39 final size:39
Alignment explanation
Indices: 35815857--35815977 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 39
35815847 AGGTTTTTTT
* *
35815857 ATAACTAACAATAAT--TAAG-GTTTTTTACTAACAATA
1 ATAACCAACAATAATAATAAGAATTTTTTACTAACAATA
** * *
35815893 ATAACCAACAATCCTAATAATAATTTTTTACTAACAACAACA
1 ATAACCAACAATAATAATAAGAATTTTTTACT---AACAATA
* *
35815935 ATAACTAACAATAATAATAAGAGTTTTTTACTAACAATA
1 ATAACCAACAATAATAATAAGAATTTTTTACTAACAATA
35815974 ATAA
1 ATAA
35815978 TAATATTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
36 12 0.18
38 3 0.04
39 19 0.28
42 33 0.49
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.32
Consensus pattern (39 bp):
ATAACCAACAATAATAATAAGAATTTTTTACTAACAATA
Found at i:35815932 original size:42 final size:42
Alignment explanation
Indices: 35815886--35815980 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
35815876 GTTTTTTACT
** *
35815886 AACAATAATAACCAACAATCCTAATAATAATTTTTTACTAAC
1 AACAATAATAACCAACAATAATAATAAGAATTTTTTACTAAC
* * *
35815928 AACAACAATAACTAACAATAATAATAAGAGTTTTTTACTAAC
1 AACAATAATAACCAACAATAATAATAAGAATTTTTTACTAAC
*
35815970 AATAATAATAA
1 AACAATAATAA
35815981 TATTTTTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (42 bp):
AACAATAATAACCAACAATAATAATAAGAATTTTTTACTAAC
Found at i:35815974 original size:26 final size:25
Alignment explanation
Indices: 35815938--35816003 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
35815928 AACAACAATA
35815938 ACTAACAATAATAATAAGAGTTTTTT
1 ACTAACAATAATAATAAGA-TTTTTT
*
35815964 ACTAACAATAATAATAATATTTTTT
1 ACTAACAATAATAATAAGATTTTTT
* *
35815989 TCTAATAATAATAAT
1 ACTAACAATAATAAT
35816004 TACTAACAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ACTAACAATAATAATAAGATTTTTT
Found at i:35816066 original size:23 final size:25
Alignment explanation
Indices: 35816018--35816066 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
35816008 AACAACAACA
* *
35816018 AACAATAAAAATCAACAATAATAAT
1 AACAACAAAAATCAACAATAACAAT
35816043 AACAACAAAAA-C-ACAATAACAAT
1 AACAACAAAAATCAACAATAACAAT
35816066 A
1 A
35816067 TAAAATTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.14
Consensus pattern (25 bp):
AACAACAAAAATCAACAATAACAAT
Found at i:35816136 original size:31 final size:32
Alignment explanation
Indices: 35816101--35816161 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
35816091 ATAATACCTT
*
35816101 CTCTTTTCTATT-TTTTTCCTTCTCTTTCTTC
1 CTCTTCTCTATTCTTTTTCCTTCTCTTTCTTC
* *
35816132 CTCTTCTCTATTCCTTTTTCTTTCTTTTTC
1 CTCTTCTCTATT-CTTTTTCCTTCTCTTTC
35816162 AATCTTCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.44
33 14 0.56
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (32 bp):
CTCTTCTCTATTCTTTTTCCTTCTCTTTCTTC
Found at i:35819525 original size:10 final size:11
Alignment explanation
Indices: 35819504--35819549 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
35819494 AAGTAATACA
35819504 AATATAACATG
1 AATATAACATG
35819515 AATAT-ACATG
1 AATATAACATG
*
35819525 ACATATAATATG
1 A-ATATAACATG
35819537 AA-ATAACATG
1 AATATAACATG
35819547 AAT
1 AAT
35819550 TATTGATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.50
11 10 0.33
12 5 0.17
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (11 bp):
AATATAACATG
Found at i:35819531 original size:22 final size:22
Alignment explanation
Indices: 35819505--35819547 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35819495 AGTAATACAA
35819505 ATATAACATG-AATATACATGAC
1 ATATAACATGAAATA-ACATGAC
*
35819527 ATATAATATGAAATAACATGA
1 ATATAACATGAAATAACATGA
35819548 ATTATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
ATATAACATGAAATAACATGAC
Found at i:35831157 original size:17 final size:18
Alignment explanation
Indices: 35831126--35831159 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35831116 TAAACACAGA
35831126 AATTAAAACTGAGTAAGC
1 AATTAAAACTGAGTAAGC
*
35831144 AATT-AAACTTAGTAAG
1 AATTAAAACTGAGTAAG
35831160 TTCGTATAGT
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:0.09, G:0.15, T:0.26
Consensus pattern (18 bp):
AATTAAAACTGAGTAAGC
Found at i:35833929 original size:25 final size:25
Alignment explanation
Indices: 35833901--35833953 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
35833891 AGTACATAAA
* *
35833901 TAATGATAACAATGGACAATA-ATAG
1 TAATAATAACAA-GAACAATATATAG
*
35833926 TAATAATAATAAGAACAATATATAG
1 TAATAATAACAAGAACAATATATAG
35833951 TAA
1 TAA
35833954 AAAAACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (25 bp):
TAATAATAACAAGAACAATATATAG
Found at i:35834009 original size:8 final size:8
Alignment explanation
Indices: 35833996--35834022 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
35833986 TATATAAATG
35833996 ATAAGCAA
1 ATAAGCAA
35834004 ATAAGCAA
1 ATAAGCAA
35834012 ATAAGCAA
1 ATAAGCAA
35834020 ATA
1 ATA
35834023 GATATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.15
Consensus pattern (8 bp):
ATAAGCAA
Found at i:35838770 original size:22 final size:23
Alignment explanation
Indices: 35838728--35838771 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
35838718 TACAAAGTTT
35838728 TGTTTATGAGAGGACTTAAAAGG
1 TGTTTATGAGAGGACTTAAAAGG
* *
35838751 TGTTTATG-GATGCCTTAAAAG
1 TGTTTATGAGAGGACTTAAAAG
35838772 CTTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (23 bp):
TGTTTATGAGAGGACTTAAAAGG
Found at i:35843509 original size:21 final size:21
Alignment explanation
Indices: 35843477--35843516 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35843467 TTAATATATT
35843477 AATAAATAAATTACTAGAATA
1 AATAAATAAATTACTAGAATA
*
35843498 AATATAAT-AATTATTAGAA
1 AATA-AATAAATTACTAGAA
35843517 ATTGATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
AATAAATAAATTACTAGAATA
Found at i:35850431 original size:26 final size:27
Alignment explanation
Indices: 35850388--35850438 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
35850378 ATATACCAAC
*
35850388 TTTTTAAAAAATATAAAACAATTTAAA
1 TTTTTAAAAAATACAAAACAATTTAAA
*
35850415 TTTTTAAGAAA-ACAAAACAATTTA
1 TTTTTAAAAAATACAAAACAATTTA
35850439 TTTTAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (27 bp):
TTTTTAAAAAATACAAAACAATTTAAA
Found at i:35852362 original size:15 final size:16
Alignment explanation
Indices: 35852344--35852382 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
35852334 AAGATATTTT
35852344 AACAAATAAAATTAA-
1 AACAAATAAAATTAAC
*
35852359 AACAAATGAAATTAAC
1 AACAAATAAAATTAAC
35852375 AACAAATA
1 AACAAATA
35852383 TAGTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAAC
Found at i:35860230 original size:120 final size:120
Alignment explanation
Indices: 35860098--35861080 Score: 1894
Period size: 120 Copynumber: 8.2 Consensus size: 120
35860088 TTTTCAAGTT
35860098 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
35860163 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
35860218 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
35860283 TAATATAAGAATATTAATTATTAATAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860338 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
35860403 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860458 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
35860523 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860578 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
35860643 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860698 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
35860763 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860818 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
35860883 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35860938 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
35861003 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
35861058 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
35861081 TAAATATGAT
Statistics
Matches: 852, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 852 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:35860333 original size:47 final size:44
Alignment explanation
Indices: 35860282--35860969 Score: 133
Period size: 44 Copynumber: 16.9 Consensus size: 44
35860272 TTTGAGTAAA
* *
35860282 TTAATATAAGAATATTAATTATTAATAATTTTATTAAATTATATAGT
1 TTAAT-TAA-AATA-TAATTAATAATAATTATATTAAATTATATAGT
* * *
35860329 TTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* ** * * *
35860371 TTACAGTATCATAT-ATT-ATGAT--TT-CAGTAAATTA-ATA--
1 TTA-ATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * * * *
35860408 -TAA-GAATAT-TAATTATTAAGAATTTTATTAAATTATATAGT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * *
35860449 TTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* ** * * *
35860491 TTACAGTATCATAT-ATT-ATGAT--TT-CAGTAAATTA-ATA--
1 TTA-ATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * * * *
35860528 -TAA-GAATAT-TAATTATTAAGAATT-TCATTAAATTATATATT
1 TTAATTAAAATATAATTAATAATAATTAT-ATTAAATTATATAGT
* * *
35860569 TTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* ** * * *
35860611 TTACAGTATCATAT-ATT-ATGAT--TT-CAGTAAATTA-ATA--
1 TTA-ATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * * * *
35860648 -TAA-GAATAT-TAATTATTAAGAATTTTATTAAATTATATAGT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * *
35860689 TTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* ** * * *
35860731 TTACAGTATCATAT-ATT-ATGAT--TT-CAGTAAATTA-ATA--
1 TTA-ATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * * * *
35860768 -TAA-GAATAT-TAATTATTAAGAATT-TCATTAAATTATATATT
1 TTAATTAAAATATAATTAATAATAATTAT-ATTAAATTATATAGT
* * *
35860809 TTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* ** * * *
35860851 TTACAGTATCATAT-ATT-ATGAT--TT-CAGTAAATTA-ATA--
1 TTA-ATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * * * * *
35860888 -TAA-GAATAT-TAATTATTAAGAATTTTATTAAATTATATATT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
* * *
35860929 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATAT
1 TTAATTAAAATATAATTAATAATAATTATATTAAATTATAT
35860970 TTTACAGTAT
Statistics
Matches: 448, Mismatches: 121, Indels: 147
0.63 0.17 0.21
Matches are distributed among these distances:
33 5 0.01
34 30 0.07
35 15 0.03
36 10 0.02
37 10 0.02
38 45 0.10
39 60 0.13
41 20 0.04
42 67 0.15
43 75 0.17
44 97 0.22
45 6 0.01
46 3 0.01
47 5 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (44 bp):
TTAATTAAAATATAATTAATAATAATTATATTAAATTATATAGT
Found at i:35860937 original size:18 final size:17
Alignment explanation
Indices: 35860909--35860943 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35860899 ATTATTAAGA
*
35860909 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35860926 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35860944 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35861057 original size:18 final size:17
Alignment explanation
Indices: 35861029--35861063 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35861019 ATTATTAAGA
*
35861029 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35861046 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35861064 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35861320 original size:16 final size:16
Alignment explanation
Indices: 35861299--35861367 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
35861289 GATTAGCTAT
*
35861299 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
35861315 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
35861332 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
*
35861348 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
35861364 TACA
1 TACA
35861368 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
16 33 0.70
17 14 0.30
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35861337 original size:33 final size:32
Alignment explanation
Indices: 35861299--35861367 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
35861289 GATTAGCTAT
*
35861299 TACACCTCTAATTCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
35861332 TACACCTTTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
35861364 TACA
1 TACA
35861368 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.36, C:0.35, G:0.01, T:0.28
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:35862294 original size:21 final size:21
Alignment explanation
Indices: 35862248--35862299 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
35862238 TAAATAATAT
* *
35862248 TTATATTTATGACAATATTAC
1 TTATTTTTATGACAATATTAA
*
35862269 TTATTTTTATGATAAT-TTAA
1 TTATTTTTATGACAATATTAA
35862289 TATATTTTTAT
1 T-TATTTTTAT
35862300 TTTCTTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTTTATGACAATATTAA
Found at i:35862334 original size:20 final size:20
Alignment explanation
Indices: 35862311--35862353 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
35862301 TTCTTACATA
35862311 AAAAATTATATAAAATTTTC
1 AAAAATTATATAAAATTTTC
* * **
35862331 AAAATTTATCTAACCTTTTC
1 AAAAATTATATAAAATTTTC
35862351 AAA
1 AAA
35862354 TTTTAGATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATATAAAATTTTC
Found at i:35864405 original size:29 final size:28
Alignment explanation
Indices: 35864372--35864427 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
35864362 ATGAAGAGAT
*
35864372 AGTTTAAATA-CCAAATTAAGATAAAAAAA
1 AGTTTAAATATCAAAATTAA-A-AAAAAAA
35864401 AGTTTAAATATCAAAATTAAAAAAAAA
1 AGTTTAAATATCAAAATTAAAAAAAAA
35864428 TGGTATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 11 0.44
30 8 0.32
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (28 bp):
AGTTTAAATATCAAAATTAAAAAAAAAA
Found at i:35865687 original size:3 final size:3
Alignment explanation
Indices: 35865679--35865708 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
35865669 AAGCATAAAC
35865679 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35865709 CATTGGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35869852 original size:20 final size:20
Alignment explanation
Indices: 35869827--35869872 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35869817 ATTAGGCCTT
35869827 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
35869847 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
35869866 GCCCATA
1 GCCCATA
35869873 ACAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:35876061 original size:22 final size:23
Alignment explanation
Indices: 35876036--35876094 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
35876026 ATTTAATTAT
*
35876036 TTATATTTAATCA-TATAATATA
1 TTATATTTAATAAGTATAATATA
* *
35876058 TTATTAATATAATAAGTATAATTTA
1 TTA-T-ATTTAATAAGTATAATATA
35876083 TTAT-TTTAATAA
1 TTATATTTAATAA
35876095 ATTATTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 10 0.33
23 1 0.03
24 8 0.27
25 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATATTTAATAAGTATAATATA
Found at i:35876132 original size:13 final size:14
Alignment explanation
Indices: 35876116--35876157 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
35876106 TTTAAATTTT
35876116 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
35876129 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
35876144 ATTTTAAATAATAT
1 ATTTT-AATAATAT
35876158 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:35876142 original size:16 final size:16
Alignment explanation
Indices: 35876120--35876156 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
35876110 AATTTTATTT
35876120 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
35876137 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
35876152 TAATA
1 TAATA
35876157 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:35876209 original size:15 final size:15
Alignment explanation
Indices: 35876189--35876245 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
35876179 ATTCAACATT
35876189 AATATTTTAATAATA
1 AATATTTTAATAATA
*
35876204 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
35876223 AATATATTAATAATA
1 AATATTTTAATAATA
*
35876238 AATGTTTT
1 AATATTTT
35876246 GTAGTATAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:35878823 original size:39 final size:39
Alignment explanation
Indices: 35878767--35878848 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
35878757 ATGTGTTAGC
* *
35878767 TTTTAGTCTAACGTGGTATTGTATTTGATAAAATATATA
1 TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
*
35878806 TTTTAGTCTAACATGGTATTGTATTTAATAAAATGTATA
1 TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
35878845 TTTT
1 TTTT
35878849 TTAATATCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (39 bp):
TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
Found at i:35882729 original size:20 final size:20
Alignment explanation
Indices: 35882704--35882752 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
35882694 GAATATAGAA
35882704 TTTCGATAAGTCAACAGTTT
1 TTTCGATAAGTCAACAGTTT
35882724 TTTCGATAAGTCAACAGTTT
1 TTTCGATAAGTCAACAGTTT
35882744 TTTCGATAA
1 TTTCGATAA
35882753 AAACACAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTCGATAAGTCAACAGTTT
Found at i:35885253 original size:19 final size:18
Alignment explanation
Indices: 35885208--35885243 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35885198 TTATATTAGT
*
35885208 TCTTTATTTAATTTTTCA
1 TCTTTATTTAATTTTTAA
35885226 TCTTTATTTAATTTTTAA
1 TCTTTATTTAATTTTTAA
35885244 ATTTGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTATTTAATTTTTAA
Found at i:35886156 original size:15 final size:16
Alignment explanation
Indices: 35886130--35886160 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
35886120 TATTCTTTTA
35886130 ATTAATTTAAATTATT
1 ATTAATTTAAATTATT
35886146 ATTAA-TTAAATTATT
1 ATTAATTTAAATTATT
35886161 TAATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAATTTAAATTATT
Found at i:35886321 original size:15 final size:17
Alignment explanation
Indices: 35886297--35886337 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
35886287 TATCATTGTG
35886297 TAATAATAA-TAAA-AT
1 TAATAATAATTAAATAT
*
35886312 TAATATTAATTAAATAT
1 TAATAATAATTAAATAT
35886329 TAATTAATA
1 TAA-TAATA
35886338 TGATAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 5 0.24
18 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATAATTAAATAT
Found at i:35890197 original size:10 final size:10
Alignment explanation
Indices: 35890182--35890231 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
35890172 TAATTTTAGG
35890182 ATTTAT-TTT
1 ATTTATCTTT
35890191 CATTTATCTTT
1 -ATTTATCTTT
*
35890202 AATTATCTTT
1 ATTTATCTTT
35890212 ATTTAT-TTGT
1 ATTTATCTT-T
35890222 ATTTATCTTT
1 ATTTATCTTT
35890232 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:35912244 original size:27 final size:27
Alignment explanation
Indices: 35912209--35912262 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
35912199 GATAAATGTT
*
35912209 TATTTATCAAGTATACTTATGTAATTA
1 TATTTATCAAGCATACTTATGTAATTA
35912236 TATTTATCAAGCATACTTATGTAATTA
1 TATTTATCAAGCATACTTATGTAATTA
35912263 AATAATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (27 bp):
TATTTATCAAGCATACTTATGTAATTA
Found at i:35925139 original size:124 final size:126
Alignment explanation
Indices: 35924903--35925404 Score: 643
Period size: 124 Copynumber: 4.0 Consensus size: 126
35924893 GGTCAATCAT
* * * *
35924903 GAACTATTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * * *
35924968 CAGCTTGAAG-AGTTTTTGACATTATTTGTTTAGAAACATCTTATCAAAATTATTTTTTCTG
66 CTGCTTGAAGCA-TTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCTG
* ** *
35925029 GAATTACTGTAGAAAAAGAGTGTCGACGTGGGA-C-TTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * *
35925092 CTGTTTGAAGCATTTTTTACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAT-
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTC-TG
* * * * *
35925153 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAACTTTTTTATTTTTATTTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTT-TCTGTAATTTTGCTGACAGTGCA
* * * *
35925218 TCCTACTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATGTTTTCAG
64 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCTG
* * *
35925281 GAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTTGTATTTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * *
35925346 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAATGTCATCTCAAAATTATTTTTTC
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTC
35925405 AGGGTACAAA
Statistics
Matches: 333, Mismatches: 36, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
124 107 0.32
125 4 0.01
126 107 0.32
127 9 0.03
128 106 0.32
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCTG
Found at i:35925394 original size:126 final size:126
Alignment explanation
Indices: 35924903--35925407 Score: 672
Period size: 126 Copynumber: 4.0 Consensus size: 126
35924893 GGTCAATCAT
* * * *
35924903 GAACTATTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * * * * *
35924968 CAGCTTGAAGAGTTTTTGACATTATTTGTTTAGAAACATCTTATCAAAATTATTTTTTCTG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* ** *
35925029 GAATTACTGTAGAAAAAGAGTGTCGACGTGGGA-C-TTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * * *
35925092 CTGTTTGAAGCATTTTTTACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAT
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * *
35925153 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAACTTTTTTATTTTTATTTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTT-TCTGTAATTTTGCTGACAGTGCA
* *
35925218 TCCTACTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATGTTTTCAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* * *
35925281 GAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTTGTATTTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* *
35925346 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAATGTCATCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
35925407 G
1 G
35925408 GTACAAAATA
Statistics
Matches: 335, Mismatches: 40, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
124 107 0.32
125 2 0.01
126 110 0.33
127 9 0.03
128 107 0.32
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:35925521 original size:29 final size:29
Alignment explanation
Indices: 35925464--35925806 Score: 152
Period size: 29 Copynumber: 11.8 Consensus size: 29
35925454 TTAAAAAAAA
*
35925464 CTAAACCCTAATTTAATTAAAATTT--AACC
1 CTAAACCCTAATTTAATT--TATTTAAAACC
35925493 CTAAACCCTAATTTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
* * * *
35925522 CT--A-CTTTACTTAATTTATTGAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
**
35925548 CTAGAATTCTAATTTACTTAATTTATTTAAAACC
1 CTA-AACCCTAA--T--TTAATTTATTTAAAACC
* *
35925582 ATAAGA-CCTAATTTAATTTATTTAAGACC
1 CTAA-ACCCTAATTTAATTTATTTAAAACC
* * *
35925611 CTAATA--CTTACTTAACTTATTTAAAAACC
1 CTAA-ACCCTAATTTAATTTATTT-AAAACC
* *
35925640 ATAAACCCTAAATTT-ATTTATTTAATACC
1 CTAAACCCT-AATTTAATTTATTTAAAACC
* * *
35925669 ATAAATCC-----TAATTTATTTAAAACT
1 CTAAACCCTAATTTAATTTATTTAAAACC
35925693 CTAAAACCCTAATTTATTTAATTTATTTAAAAACC
1 CT-AAACCCT-A---ATTTAATTTATTT-AAAACC
* * *
35925728 TTAAATCCTAAATCCTAATTTATTTAAAACC
1 CTAAACCCT-AAT-TTAATTTATTTAAAACC
35925759 CT-AA--C----TTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
* *
35925781 CTAAAACCCCTAATTTACTTAATTTA
1 CT-AAA-CCCTAATTTAATTTATTTA
35925807 TTTAAAAATC
Statistics
Matches: 240, Mismatches: 37, Indels: 72
0.69 0.11 0.21
Matches are distributed among these distances:
22 18 0.08
23 1 0.00
24 15 0.06
25 5 0.02
26 21 0.09
27 6 0.03
28 15 0.06
29 65 0.27
30 13 0.05
31 23 0.10
32 10 0.04
33 5 0.02
34 37 0.15
35 6 0.03
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (29 bp):
CTAAACCCTAATTTAATTTATTTAAAACC
Found at i:35925522 original size:22 final size:22
Alignment explanation
Indices: 35925495--35925538 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35925485 ATTTAACCCT
*
35925495 AAACCCTAATTTAATTTATTTA
1 AAACCCTAATTTAATTAATTTA
* *
35925517 AAACCCTACTTTACTTAATTTA
1 AAACCCTAATTTAATTAATTTA
35925539 TTGAAAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (22 bp):
AAACCCTAATTTAATTAATTTA
Found at i:35925685 original size:24 final size:25
Alignment explanation
Indices: 35925655--35925714 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
35925645 CCCTAAATTT
*
35925655 ATTTATTTAATAC-C-ATAAATCCTA
1 ATTTATTTAATACTCTA-AAACCCTA
*
35925679 ATTTATTTAAAACTCTAAAACCCTA
1 ATTTATTTAATACTCTAAAACCCTA
35925704 ATTTATTTAAT
1 ATTTATTTAAT
35925715 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.39
25 18 0.58
26 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTATTTAATACTCTAAAACCCTA
Found at i:35925769 original size:22 final size:22
Alignment explanation
Indices: 35925743--35925784 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
35925733 TCCTAAATCC
35925743 TAATTTATTTAAAACCCTAACT
1 TAATTTATTTAAAACCCTAACT
35925765 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
35925785 AACCCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAACT
Found at i:35925769 original size:88 final size:88
Alignment explanation
Indices: 35925515--35925814 Score: 283
Period size: 88 Copynumber: 3.4 Consensus size: 88
35925505 TTAATTTATT
* * * **
35925515 TAAAACCCTACTTTACTTAATTTA-TTGAAAACCCTAGAATTCTAATTTACTTAATTTATTTAAA
1 TAAAACCCTAATTTACTTAATTTATTTAAAAACCATA-AACCCTAA---A-TTAATTTATTTAAA
**
35925579 ACCATAAGA-CCTAATTTAATTT---A-TT
61 ACCATAA-ATCCTAATTT-ATTTAAAACCC
* * * *
35925604 TAAGACCCTAATACTTACTTAACTTATTTAAAAACCATAAACCCTAAATTTATTTATTTAATACC
1 TAAAACCCTAAT--TTACTTAATTTATTTAAAAACCATAAACCCTAAATTAATTTATTTAAAACC
*
35925669 ATAAATCCTAATTTATTTAAAACTC
64 ATAAATCCTAATTTATTTAAAACCC
* * *
35925694 TAAAACCCTAATTTATTTAATTTATTTAAAAACCTTAAATCCTAAATCCTAATTTATTTAAAACC
1 TAAAACCCTAATTTACTTAATTTATTTAAAAACCATAAACCCTAAAT--TAATTTATTTAAAACC
* *
35925759 CT-AA-CTTAATTTATTTAAAACCC
64 ATAAATCCTAATTTATTTAAAACCC
35925782 TAAAACCCCTAATTTACTTAATTTATTTAAAAA
1 TAAAA-CCCTAATTTACTTAATTTATTTAAAAA
35925815 TCCTAAAACT
Statistics
Matches: 179, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
86 5 0.03
87 27 0.15
88 54 0.30
89 39 0.22
90 27 0.15
91 17 0.09
92 10 0.06
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (88 bp):
TAAAACCCTAATTTACTTAATTTATTTAAAAACCATAAACCCTAAATTAATTTATTTAAAACCAT
AAATCCTAATTTATTTAAAACCC
Found at i:35925838 original size:34 final size:35
Alignment explanation
Indices: 35925765--35925847 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
35925755 AACCCTAACT
**
35925765 TAATTTATTT-AAAACCCTAAAACCCCTAATTTACT
1 TAATTTATTTAAAAACCCTAAAA-CCCTAATTTAAA
* *
35925800 TAATTTATTTAAAAATCCTAAAA-CTTAATTTAAA
1 TAATTTATTTAAAAACCCTAAAACCCTAATTTAAA
35925834 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
35925848 CAACACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.05
34 19 0.45
35 10 0.24
36 11 0.26
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (35 bp):
TAATTTATTTAAAAACCCTAAAACCCTAATTTAAA
Found at i:35927561 original size:21 final size:21
Alignment explanation
Indices: 35927523--35927570 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
35927513 TATTTAAATA
* * *
35927523 TATATTATTTATATTTATAAT
1 TATATTAATTAAACTTATAAT
35927544 TATATTAATTAAACTTATAAT
1 TATATTAATTAAACTTATAAT
35927565 TATATT
1 TATATT
35927571 TTTTTGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTAATTAAACTTATAAT
Found at i:35928144 original size:26 final size:26
Alignment explanation
Indices: 35928115--35928164 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
35928105 TTTATTTAAG
*
35928115 TTTTATGTAT-TACAAAATTATATTAT
1 TTTTATGAATATACAAAA-TATATTAT
*
35928141 TTTTATGAATATATAAAATATATT
1 TTTTATGAATATACAAAATATATT
35928165 TAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTATGAATATACAAAATATATTAT
Found at i:35932557 original size:16 final size:16
Alignment explanation
Indices: 35932524--35932556 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35932514 TATATATATG
*
35932524 TTAAGTATGGATTGTT
1 TTAAGCATGGATTGTT
35932540 TTAAGCATGGATT-TT
1 TTAAGCATGGATTGTT
35932555 TT
1 TT
35932557 TTCTGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (16 bp):
TTAAGCATGGATTGTT
Found at i:35933824 original size:20 final size:20
Alignment explanation
Indices: 35933801--35933857 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
35933791 TTCGGAAAAA
35933801 AAATATTTAAATTAATATTT
1 AAATATTTAAATTAATATTT
35933821 AAAT-TGTTAAA-TAA-A-TT
1 AAATAT-TTAAATTAATATTT
*
35933838 AATATATTTTAATT-ATATTT
1 AA-ATATTTAAATTAATATTT
35933858 CATAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 7 0.23
20 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATATTTAAATTAATATTT
Found at i:35951677 original size:17 final size:17
Alignment explanation
Indices: 35951655--35951694 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
35951645 CATATTTAAT
35951655 TATTTATTGAATAAACA
1 TATTTATTGAATAAACA
35951672 TATTTATTGAATAAACA
1 TATTTATTGAATAAACA
35951689 TATTTA
1 TATTTA
35951695 ATTAGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (17 bp):
TATTTATTGAATAAACA
Found at i:35958668 original size:24 final size:23
Alignment explanation
Indices: 35958635--35958697 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
35958625 TATTTATACT
*
35958635 TAATACTTAAGT-ATATAATATAA
1 TAATACTTAA-TAAAATAATATAA
35958658 TAATACATTAATAAAATAATATAA
1 TAATAC-TTAATAAAATAATATAA
* *
35958682 -AA-AATAAATAAAATAA
1 TAATACTTAATAAAATAA
35958698 AGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 11 0.31
22 1 0.03
23 9 0.26
24 14 0.40
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (23 bp):
TAATACTTAATAAAATAATATAA
Found at i:35958681 original size:21 final size:21
Alignment explanation
Indices: 35958649--35958697 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
35958639 ACTTAAGTAT
*
35958649 ATAATATAATAATACATTAATAAA
1 ATAATATAA-AA-A-ATAAATAAA
35958673 ATAATATAAAAAATAAATAAA
1 ATAATATAAAAAATAAATAAA
35958694 ATAA
1 ATAA
35958698 AGAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 1 0.04
23 2 0.08
24 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATATAAAAAATAAATAAA
Found at i:35958714 original size:29 final size:29
Alignment explanation
Indices: 35958681--35958773 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 29
35958671 AAATAATATA
* *
35958681 AAAAATAAATAAAATAAAGAAAC-AAAAAG
1 AAAAAGAAAT-AAAGAAAGAAACGAAAAAG
*
35958710 AAAAAGAAATAGAGAAAGAAACGAAAAAG
1 AAAAAGAAATAAAGAAAGAAACGAAAAAG
** * *
35958739 --AGGGAAAGAAAGAAGGAAA-GAAAAAG
1 AAAAAGAAATAAAGAAAGAAACGAAAAAG
35958765 AAAAAGAAA
1 AAAAAGAAA
35958774 ATTTAGGCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
26 7 0.14
27 14 0.27
28 15 0.29
29 15 0.29
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.04
Consensus pattern (29 bp):
AAAAAGAAATAAAGAAAGAAACGAAAAAG
Found at i:35958774 original size:5 final size:6
Alignment explanation
Indices: 35958704--35958774 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
35958694 ATAAAGAAAC
* * * *
35958704 AAAAAG AAAAAG AAATAG AGAAAG -AAACG AAAAAG AGGGAAAG AAAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A--AAAAG AAA-AAG
*
35958754 -GAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
35958775 TTTAGGCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 6 0.12
6 36 0.72
7 3 0.06
8 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.24, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:35963791 original size:36 final size:35
Alignment explanation
Indices: 35963744--35963829 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 35
35963734 TTATACCATC
* *
35963744 TTATGTATATATTTTTAAATACTATATT-GTATATG
1 TTATATATATATTTTT-AATACTATATTAGTATATA
* *
35963779 TATATATATATATTCTTAGTACTATATTACGTATATA
1 T-TATATATATATTTTTAATACTATATTA-GTATATA
*
35963816 TTATGTATATATTT
1 TTATATATATATTT
35963830 ATTTTTACCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
35 11 0.26
36 24 0.57
37 7 0.17
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (35 bp):
TTATATATATATTTTTAATACTATATTAGTATATA
Found at i:35975671 original size:16 final size:16
Alignment explanation
Indices: 35975650--35975680 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35975640 CTGAGGTAAT
*
35975650 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
35975666 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
35975681 TCAAAAATCA
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:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:35975742 original size:89 final size:86
Alignment explanation
Indices: 35975581--35975988 Score: 361
Period size: 89 Copynumber: 5.0 Consensus size: 86
35975571 CTGATGTTTT
*
35975581 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
1 ATTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
35975646 TAATTTCAATTTCTGTTTTCTTC
65 TAATTTCAATTTCTG-TTTCTTC
* *
35975669 AATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 -ATTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
35975734 GTATTTTCAATTTCTG---CTTC
64 GTAATTTCAATTTCTGTTTCTTC
*
35975754 ----TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
35975815 GTAATTTCAATTTATGTTT-GTC
64 GTAATTTCAATTTCTGTTTCTTC
* * *
35975837 A----------AAAAAATCAACTCATATTGCGAGAGGTGAGGTGAGTTGAGCCTCAGGGCACACT
1 ATTTTGTTTTTCAAAAATCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGGACACGCT
* * *
35975892 AAGGTATTTTCGATTTCTG---C-TC
61 GAGGTAATTTCAATTTCTGTTTCTTC
*** *
35975914 -------TTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGT
1 ATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
35975972 AATTTCAATTTCTGTTT
66 AATTTCAATTTCTGTTT
35975989 GTCAAAAATC
Statistics
Matches: 276, Mismatches: 24, Indels: 49
0.79 0.07 0.14
Matches are distributed among these distances:
75 59 0.21
77 4 0.01
78 2 0.01
79 7 0.03
80 60 0.22
81 63 0.23
83 2 0.01
85 4 0.01
89 75 0.27
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (86 bp):
ATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCAATTTCTGTTTCTTC
Found at i:35975865 original size:75 final size:73
Alignment explanation
Indices: 35975666--35976127 Score: 493
Period size: 75 Copynumber: 6.1 Consensus size: 73
35975656 TTCTGTTTTC
* * * *
35975666 TTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
35975731 GAGGTATT
66 GAGGTAAT
35975739 TTCAATTTCTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTCAATTTCTG-TT-TG----TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
35975804 GACACGCTGAGGTAAT
58 GACACGCTGAGGTAAT
*
35975820 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGGTGAGTTGAGCCTCAGG
1 TTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGG
* * * *
35975885 GCACACTAAGGTATT
59 ACACGCTGAGGTAAT
* *** *
35975900 TTCGATTTCTGCTCTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACG
1 TTCAATTTCTG-T-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
35975965 CTGAGGTAAT
64 CTGAGGTAAT
* *
35975975 TTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACAT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACAC
**
35976039 GCTGAGGTCTT
63 GCTGAGGTAAT
* * *
35976050 TTCAATTTCTGTTCGTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGG-CACGC
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGACACGC
35976112 TGAGGT-AT
65 TGAGGTAAT
35976120 TCTCAATT
1 T-TCAATT
35976128 AATGTTTTTT
Statistics
Matches: 333, Mismatches: 35, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
70 2 0.01
71 16 0.05
72 2 0.01
73 81 0.24
74 4 0.01
75 93 0.28
77 2 0.01
78 2 0.01
79 4 0.01
80 61 0.18
81 64 0.19
82 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (73 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAAT
Found at i:35975947 original size:155 final size:148
Alignment explanation
Indices: 35975666--35976134 Score: 567
Period size: 155 Copynumber: 3.1 Consensus size: 148
35975656 TTCTGTTTTC
* * *
35975666 TTCAATTTATGTTTTTCAAAAATCAGCTCATATTGC-GAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGGAGAGGTGAGTTGAGCCTCAGGGCACAC
35975730 TGAGGTATTTTCAATTTCTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 TGAGGTATTTTCAATTTCTG---CT-C--TT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
35975795 GAGCCTCAGGACACGCTGAGGTAAT
124 GAGCCTCAGGACACGCTGAGGTAAT
35975820 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGGTGAGTTGAGCCTCAGG
1 TTCAATTTATGTTTGTC--AAAAATCAACTCATATTGCG-GA---GAGGTGAGTTGAGCCTCAGG
* *
35975885 GCACACTAAGGTATTTTCGATTTCTGCTCTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
60 GCACACTGAGGTATTTTCAATTTCTGCTCTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
35975950 GAGCCTCAGGATACGCTGAGGTAAT
124 GAGCCTCAGGACACGCTGAGGTAAT
* * *
35975975 TTCAATTTCTGTTTGTCAAAAATCAACTCATATCGC-GAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGGAGAGGTGAGTTGAGCCTCAGG-GCACA
* * * * *
35976038 TGCTGAGGTCTTTTCAATTTCTGTTCGT---CAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
65 --CTGAGGTATTTTCAATTTCTGCTCTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
35976100 CTTGAGG-CACGCTGAGGT-AT
128 C-TCAGGACACGCTGAGGTAAT
*
35976120 TCTCAATTAATGTTT
1 T-TCAATTTATGTTT
35976135 TTTCAATTTA
Statistics
Matches: 282, Mismatches: 21, Indels: 32
0.84 0.06 0.10
Matches are distributed among these distances:
145 3 0.01
146 54 0.19
147 6 0.02
148 21 0.07
150 21 0.07
151 2 0.01
153 18 0.06
154 16 0.06
155 75 0.27
156 18 0.06
157 1 0.00
158 4 0.01
161 43 0.15
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (148 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGGAGAGGTGAGTTGAGCCTCAGGGCACAC
TGAGGTATTTTCAATTTCTGCTCTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTAAT
Found at i:35976262 original size:87 final size:89
Alignment explanation
Indices: 35976067--35976305 Score: 249
Period size: 87 Copynumber: 2.7 Consensus size: 89
35976057 TCTGTTCGTC
* * *
35976067 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGG-CAC--GCTGAGGTATTCTCAATTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGTCACATGCTGAGGTATTTTCAATT-
**
35976129 ATGTTTTTTCAATTTATACTTTTCAA
64 ATGTTTTAGCAATTTATACTTTTCAA
* * * *
35976155 GAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAGGTCACATGCCGAGGTATTTTCAAATT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTC-AATTA
*
35976219 TG-TTTAGCAAATTT-T-GTTTTCAA
65 TGTTTTAGC-AATTTATACTTTTCAA
* ** * *
35976242 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACATGCTGAGCTATTTTTCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTA-TTTTCAATT
35976306 TCTGCTTTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 60 0.48
88 43 0.34
89 7 0.06
90 12 0.10
91 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (89 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTCAATTAT
GTTTTAGCAATTTATACTTTTCAA
Found at i:35978533 original size:24 final size:24
Alignment explanation
Indices: 35978497--35978554 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
35978487 CTAGTTATAT
*
35978497 ATATTTCTTATA-CATTTTCATGTAC
1 ATATTT-TTATACCATCTT-ATGTAC
*
35978522 ATATTTTTATACCATCTTATGTAT
1 ATATTTTTATACCATCTTATGTAC
35978546 ATATTTTTA
1 ATATTTTTA
35978555 AATACTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (24 bp):
ATATTTTTATACCATCTTATGTAC
Found at i:35980134 original size:13 final size:15
Alignment explanation
Indices: 35980110--35980141 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35980100 ATTTAAAAGT
35980110 AAAAAAGAAAAGAA-
1 AAAAAAGAAAAGAAG
35980124 AAAAAAG-AAAGAAG
1 AAAAAAGAAAAGAAG
35980138 AAAA
1 AAAA
35980142 TACCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAG
Found at i:35983098 original size:26 final size:26
Alignment explanation
Indices: 35983062--35983111 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35983052 GAGAATTGTT
35983062 TTTTAAAAAATACTTTAGAAAAGTGA
1 TTTTAAAAAATACTTTAGAAAAGTGA
* * *
35983088 TTTTCAAAAATATTTTTGAAAAGT
1 TTTTAAAAAATACTTTAGAAAAGT
35983112 TTGGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAATACTTTAGAAAAGTGA
Found at i:35983515 original size:13 final size:13
Alignment explanation
Indices: 35983497--35983529 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
35983487 GCATTCCTTT
35983497 TGTTAAAAAGTAC
1 TGTTAAAAAGTAC
35983510 TGTTAAAAAGTAC
1 TGTTAAAAAGTAC
*
35983523 TGCTAAA
1 TGTTAAA
35983530 CACAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (13 bp):
TGTTAAAAAGTAC
Found at i:35984703 original size:12 final size:12
Alignment explanation
Indices: 35984686--35984710 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35984676 AGGCAGATAT
35984686 TCGTGTTTAAAC
1 TCGTGTTTAAAC
35984698 TCGTGTTTAAAC
1 TCGTGTTTAAAC
35984710 T
1 T
35984711 TTTAGGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TCGTGTTTAAAC
Found at i:36000030 original size:5 final size:5
Alignment explanation
Indices: 36000020--36000116 Score: 194
Period size: 5 Copynumber: 19.4 Consensus size: 5
36000010 AATATATTTT
36000020 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
36000070 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
36000117 ATCATATTTA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 92 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:36000128 original size:15 final size:16
Alignment explanation
Indices: 36000019--36000143 Score: 75
Period size: 15 Copynumber: 8.2 Consensus size: 16
36000009 TAATATATTT
*
36000019 TTATAAT-ATAATATA
1 TTATAATAATCATATA
* *
36000034 ATATAAT-ATAATATA
1 TTATAATAATCATATA
* *
36000049 ATATAAT-ATAATATA
1 TTATAATAATCATATA
* *
36000064 ATATAAT-ATAATATA
1 TTATAATAATCATATA
* *
36000079 ATATAAT-ATAATATA
1 TTATAATAATCATATA
* *
36000094 ATATAAT-ATAATATA
1 TTATAATAATCATATA
*
36000109 ATATAATAATCATAT-
1 TTATAATAATCATATA
* *
36000124 TTATATTAATTATATA
1 TTATAATAATCATATA
36000140 TTAT
1 TTAT
36000144 CTACAAATAA
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
15 93 0.90
16 10 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATAATAATCATATA
Found at i:36000310 original size:20 final size:20
Alignment explanation
Indices: 36000285--36000329 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
36000275 TTAATATATA
36000285 TATTAATTATGTTAATTAGC
1 TATTAATTATGTTAATTAGC
36000305 TATTAATTATGTTAATTAGC
1 TATTAATTATGTTAATTAGC
36000325 TATTA
1 TATTA
36000330 TTTTGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (20 bp):
TATTAATTATGTTAATTAGC
Found at i:36002007 original size:6 final size:6
Alignment explanation
Indices: 36001996--36002047 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
36001986 CATTTGCTAA
* * * *
36001996 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT AAAAAT AAAAAT AAAAAC
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
36002044 GAAA
1 GAAA
36002048 CGTCTTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (6 bp):
GAAAAT
Found at i:36004575 original size:3 final size:3
Alignment explanation
Indices: 36004567--36004602 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
36004557 CTCTACTTTA
36004567 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36004603 TCTAATGTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36004979 original size:18 final size:18
Alignment explanation
Indices: 36004958--36004992 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36004948 TATATTTCCC
*
36004958 TTATTTATTTTTTATTAG
1 TTATATATTTTTTATTAG
*
36004976 TTATATGTTTTTTATTA
1 TTATATATTTTTTATTA
36004993 TTTCATGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATATATTTTTTATTAG
Found at i:36005090 original size:24 final size:26
Alignment explanation
Indices: 36005045--36005092 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
36005035 TTAATACATG
36005045 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
36005071 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
36005093 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:36005170 original size:21 final size:20
Alignment explanation
Indices: 36005136--36005174 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36005126 TTTTGTACTA
*
36005136 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
36005156 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
36005175 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:36016600 original size:38 final size:42
Alignment explanation
Indices: 36016558--36016661 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 42
36016548 AAAAAAGAAA
36016558 ATCAAGATGAAAACCCGAAAGGGCATC-T-A-AA-A-AAAAGG
1 ATCAAGATGAAAACCCGAAAGGGCATCTTGATAACACAAAA-G
* *
36016596 ATCAATG-TGAAAACCTGAAAAGGGCGTCTTGATTAACACAAAAG
1 ATCAA-GATGAAAACCCG-AAAGGGCATCTTGA-TAACACAAAAG
*
36016640 ATTAAGATGAAAACCCGAAAGG
1 ATCAAGATGAAAACCCGAAAGG
36016662 ACGTCCTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
38 14 0.26
39 10 0.19
40 1 0.02
41 1 0.02
43 8 0.15
44 15 0.28
45 4 0.08
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (42 bp):
ATCAAGATGAAAACCCGAAAGGGCATCTTGATAACACAAAAG
Done.