Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 15
Found at i:1409405 original size:211 final size:211
Alignment explanation
Indices: 1408787--1409684 Score: 1476
Period size: 211 Copynumber: 4.3 Consensus size: 211
1408777 TTCAGTTTCA
* *
1408787 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
* * * *
1408852 CAACGAAGGGACGGCTTGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
1408917 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1408982 ACAACAACATT-CCAAT
196 ACAACAAC-TTCCCAAT
*
1408998 TTCAGAGCCAATTTCAACTTCAGAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
* * * *
1409063 CGACGAATGGACTGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* **
1409127 ACGAAGGATATTGGACTCTTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
1409192 ACAATAACTTCCCAAT
196 ACAACAACTTCCCAAT
*
1409208 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
* * *
1409273 CGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
1409338 GTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
1409403 ACAACAACTTCCCAAA
196 ACAACAACTTCCCAAT
*
1409419 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
*
1409484 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * * *
1409549 GCGAAGGATATCGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
1409614 ACAAACAATTTCCCAAT
196 AC-AACAACTTCCCAAT
* * *
1409631 TTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAA
1409685 CTTTCATTGG
Statistics
Matches: 641, Mismatches: 43, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
209 2 0.00
210 195 0.30
211 382 0.60
212 62 0.10
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (211 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ACAACAACTTCCCAAT
Found at i:1409843 original size:124 final size:124
Alignment explanation
Indices: 1409690--1409934 Score: 366
Period size: 124 Copynumber: 2.0 Consensus size: 124
1409680 CACAACTTTC
* *
1409690 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACGACGGAGGGGCCA
1 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
* *
1409755 TCCACGGTTTCAACTTCATGACGAAGGGAATCGTGCACA-CAAGCAACATTCATCTTTAG
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACCAA-CAACATTCATCTTTAG
* * * * *
1409814 ATTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCA
1 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
* * *
1409879 TCCACGGTTTCAACTTTACGACGAAGGGAATCGTACCCACCAACAATATTCATCTT
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACCAACAACATTCATCTT
1409935 CAGAAACAAG
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
124 105 0.97
125 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACCAACAACATTCATCTTTAG
Found at i:1410035 original size:37 final size:37
Alignment explanation
Indices: 1409994--1410131 Score: 135
Period size: 37 Copynumber: 3.8 Consensus size: 37
1409984 AAGGGGGCTC
*
1409994 CTCTCTTTAGACTAATTTACTCT-AAACAAAGTTTTGT
1 CTCTCTTGAGACTAATTTACTCTGAAACAAA-TTTTGT
* * *
1410031 CTCTCTTGAGA-TAGTTTCCTTTGAAACAAATTTTGT
1 CTCTCTTGAGACTAATTTACTCTGAAACAAATTTTGT
* *
1410067 CTCTCTTGAGAC-AGTTT-CCCTTGAAACAACATTTTGT
1 CTCTCTTGAGACTAATTTACTC-TGAAACAA-ATTTTGT
*
1410104 CTCTCTTGAGAC-AGTTT-CTCTTGAAACA
1 CTCTCTTGAGACTAATTTACTC-TGAAACA
1410132 CCAACCTTTG
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
35 1 0.01
36 38 0.42
37 51 0.57
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (37 bp):
CTCTCTTGAGACTAATTTACTCTGAAACAAATTTTGT
Found at i:1410072 original size:36 final size:36
Alignment explanation
Indices: 1410017--1410131 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 36
1410007 AATTTACTCT
*
1410017 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCCTTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCTTTG
*
1410054 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTG
1410090 AAACAACATTTTGTCTCTCTTGAGACAGTTT-CTCTTG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCT-TTG
1410127 AAACA
1 AAACA
1410132 CCAACCTTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 34 0.47
37 39 0.53
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTG
Found at i:1410180 original size:35 final size:34
Alignment explanation
Indices: 1410134--1410225 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 34
1410124 TTGAAACACC
1410134 AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAAA
1 AACCTTTGAAATCGTTTCTCTTGAAAC-AAAAAAA
1410169 AACCTTTGAAATCGTTTCTCTTG-----AAAAAA
1 AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAA
1410198 AACCTTTGAACAT-GTTTCTCTTGAAACA
1 AACCTTTGAA-ATCGTTTCTCTTGAAACA
1410226 CAAAGACTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
29 26 0.51
30 2 0.04
35 23 0.45
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (34 bp):
AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAA
Found at i:1410205 original size:29 final size:29
Alignment explanation
Indices: 1410117--1410223 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
1410107 TCTTGAGACA
**
1410117 GTTTCTCTTGAAACACCAACCTTTGAAATC
1 GTTTCTCTTGAAA-AAAAACCTTTGAAATC
1410147 GTTTCTCTTGAAACAAAAAAAAAACCTTTGAAATC
1 GTTTCTCTTG------AAAAAAAACCTTTGAAATC
1410182 GTTTCTCTTGAAAAAAAACCTTTGAACAT-
1 GTTTCTCTTGAAAAAAAACCTTTGAA-ATC
1410211 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
1410224 CACAAAGACT
Statistics
Matches: 68, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
29 29 0.43
30 12 0.18
35 24 0.35
36 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (29 bp):
GTTTCTCTTGAAAAAAAACCTTTGAAATC
Found at i:1410437 original size:85 final size:84
Alignment explanation
Indices: 1410295--1410521 Score: 264
Period size: 85 Copynumber: 2.7 Consensus size: 84
1410285 ACTCAAGGCT
* * * ** *
1410295 AGAAGGGTTATTTG-C--C-AAAGACCTTAGAGTTCGATTCCATTCAGCTCCAAGGTACATCATT
1 AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1410356 AGCAACATAGCTTAAGGAA
66 AGCAACATAGCTTAAGGAA
*
1410375 AGAAGGGTTATTTGCCAACAAAAGACCTTCGAAGTTCGACTACGCTCAGCTCCAAGGCACATCCT
1 AGAAGGGTTATTTGCCAACAAAAGACCTTCG-AGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * *
1410440 TCGCAGCATAGCTTAATGAA
65 TAGCAACATAGCTTAAGGAA
* * * * * * *
1410460 AGAAAGGCTATTTACTAACAAAATACCTTCGAGTTCGACTATGCTCAGCTCGAAGGCACATC
1 AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
1410522 CTTTGAAGTA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
80 14 0.11
81 1 0.01
83 1 0.01
84 39 0.31
85 70 0.56
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (84 bp):
AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
AGCAACATAGCTTAAGGAA
Found at i:1410755 original size:3 final size:3
Alignment explanation
Indices: 1410743--1410792 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
1410733 CTACGAAAAC
*
1410743 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT TTT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
1410787 A-T ATT A
1 ATT ATT A
1410793 ATGATTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1410762 original size:14 final size:14
Alignment explanation
Indices: 1410743--1410792 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
1410733 CTACGAAAAC
1410743 ATTATATTATTATT
1 ATTATATTATTATT
1410757 ATTATATTATTATT
1 ATTATATTATTATT
1410771 ATTAT-TT-TTATT
1 ATTATATTATTATT
1410783 AATTATATTA
1 -ATTATATTA
1410793 ATGATTTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.15
13 7 0.21
14 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:1412102 original size:19 final size:19
Alignment explanation
Indices: 1412061--1412102 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1412051 ATATTTTAAC
*
1412061 ATTTTTTCTCTTAATTTAT
1 ATTTTTTCTCTTAAGTTAT
*
1412080 ATTTTTTCCTCTTTAGTTA-
1 ATTTTTT-CTCTTAAGTTAT
1412099 ATTT
1 ATTT
1412103 AGTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTCTCTTAAGTTAT
Found at i:1415074 original size:8 final size:7
Alignment explanation
Indices: 1415061--1415120 Score: 52
Period size: 7 Copynumber: 8.3 Consensus size: 7
1415051 TTCAATAAGA
1415061 AAAAAAGG
1 AAAAAA-G
1415069 AAAAAAG
1 AAAAAAG
1415076 AAAAGAA-
1 AAAA-AAG
*
1415083 AAAAAAC
1 AAAAAAG
*
1415090 AAAAAGG
1 AAAAAAG
1415097 AAAAAA-
1 AAAAAAG
1415103 AACAAAAG
1 AA-AAAAG
1415111 AAAAAGAG
1 AAAAA-AG
1415119 AA
1 AA
1415121 GAGCAAAGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
6 4 0.09
7 26 0.59
8 14 0.32
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1415083 original size:21 final size:21
Alignment explanation
Indices: 1415057--1415120 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
1415047 AAGATTCAAT
*
1415057 AAGAAAAAAAGGAAAAAAGAA
1 AAGAAAAAAAAGAAAAAAGAA
* *
1415078 AAGAAAAAAAACAAAAAGGAA
1 AAGAAAAAAAAGAAAAAAGAA
1415099 AA-AAAACAAAAGAAAAAGAGAA
1 AAGAAAA-AAAAGAAAAA-AGAA
1415121 GAGCAAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.11
21 29 0.81
22 3 0.08
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAAAGAA
Found at i:1415087 original size:15 final size:14
Alignment explanation
Indices: 1415060--1415115 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
1415050 ATTCAATAAG
*
1415060 AAAAAAAG-GAAAA
1 AAAAAAAGAAAAAA
*
1415073 AAGAAAAGAAAAAA
1 AAAAAAAGAAAAAA
1415087 AACAAAAAGGAAAAAA
1 AA-AAAAA-GAAAAAA
*
1415103 AACAAAAGAAAAA
1 AAAAAAAGAAAAA
1415116 GAGAAGAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.19
14 12 0.33
15 8 0.22
16 9 0.25
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:1415767 original size:21 final size:22
Alignment explanation
Indices: 1415741--1415788 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1415731 AGCTACCCCA
1415741 TCAAACC-TTGAACATCAAATG
1 TCAAACCATTGAACATCAAATG
*
1415762 TCAAACCATTGAGCATCAAATG
1 TCAAACCATTGAACATCAAATG
*
1415784 ACAAA
1 TCAAA
1415789 AATGCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (22 bp):
TCAAACCATTGAACATCAAATG
Found at i:1416909 original size:211 final size:212
Alignment explanation
Indices: 1416511--1417089 Score: 964
Period size: 211 Copynumber: 2.7 Consensus size: 212
1416501 TTCAGTTTCA
* *
1416511 TTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * *
1416576 CAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
1416641 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
* *
1416706 ATAAATAATTTCCCAAT
196 ACAAACAATTTCCCAAT
* * *
1416723 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * *
1416788 CGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAAATTCAGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
1416852 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
131 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
1416917 ACAAACAATTTCCCAAT
196 ACAAACAATTTCCCAAT
* *
1416934 TTCGGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
*
1416999 CAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCAATTTCTGAGCCAATTTCAACTTCAC
66 CAACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCAC
* *
1417063 AACGAAGGATATTGGACTCGAGACAAC
130 AGCGAAGGATATTGGACTCCAGACAAC
1417090 ACAACTTTCA
Statistics
Matches: 340, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
210 2 0.01
211 195 0.57
212 143 0.42
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (212 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
ACAAACAATTTCCCAAT
Found at i:1417089 original size:317 final size:317
Alignment explanation
Indices: 1416510--1417089 Score: 982
Period size: 317 Copynumber: 1.8 Consensus size: 317
1416500 TTTCAGTTTC
* *
1416510 ATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTC
1 ATTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACACAAGTTCAACTTC
* * *
1416575 ACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCAC
66 ACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCAC
* * *
1416640 AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
131 AGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTC
* * **
1416705 AATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGAC
196 AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
1416770 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
261 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
* *
1416827 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 ATTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACACAAGTTCAACTTC
*
1416892 ACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCAC
66 ACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCAC
*
1416957 AGCGAAGGATATCGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGT
131 AGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCG-CTGGTTGT
* *
1417021 CAACAAACAATTTCCCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
195 CAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1417086 CAAC
260 CAAC
1417090 ACAACTTTCA
Statistics
Matches: 244, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
316 2 0.01
317 242 0.99
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (317 bp):
ATTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACACAAGTTCAACTTC
ACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCAC
AGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTC
AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
Found at i:1417119 original size:106 final size:106
Alignment explanation
Indices: 1416511--1417089 Score: 946
Period size: 106 Copynumber: 5.5 Consensus size: 106
1416501 TTCAGTTTCA
* * * *
1416511 TTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
1416576 CAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
*
1416617 TTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
1416682 CGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAAT
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
*
1416723 TTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
1416788 CGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAAA
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
1416828 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1416893 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
66 CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * * *
1416934 TTCGGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1416999 CAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCAAT
66 CAACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAAT
* * *
1417040 TTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAAC
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
1417090 ACAACTTTCA
Statistics
Matches: 446, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
105 102 0.23
106 344 0.77
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
Found at i:1417339 original size:124 final size:124
Alignment explanation
Indices: 1417099--1417343 Score: 348
Period size: 124 Copynumber: 2.0 Consensus size: 124
1417089 CACAACTTTC
* *
1417099 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACGACGGAGGGGCCA
1 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
* * *
1417164 TCCACGGTTTCAACTTCATGACGAAGGGAATTGTGCACACAAGCAACATTCATCTTTAG
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAG
* ** * * *
1417223 ATTGGATTTCAACTTCATGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCA
1 ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
* * *
1417288 TCCACGGTTTCAACTTTACGACGAAGGGAATCGTACCCACCAA-CAATATTCATCTT
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACA-CAAGCAACATTCATCTT
1417344 CAGAAACAAG
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
124 103 0.97
125 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGGCCA
TCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAG
Found at i:1417444 original size:37 final size:37
Alignment explanation
Indices: 1417403--1417541 Score: 119
Period size: 36 Copynumber: 3.8 Consensus size: 37
1417393 AAGGGGGCTC
*
1417403 CTCTCTTTAGACTAATTTACTCT-AAACAAAGTTTTGT
1 CTCTCTTGAGACTAATTTACTCTGAAACAAA-TTTTGT
* * *
1417440 CTCTCTTGAGA-TAGTTTCCTTTGAAACAAATTTTGT
1 CTCTCTTGAGACTAATTTACTCTGAAACAAATTTTGT
* * *
1417476 CTCTCTTGAGAC-AGTTT-CCCTTGAAACAACATTTTTTT
1 CTCTCTTGAGACTAATTTACTC-TGAAACAA-A-TTTTGT
*
1417514 CTCTCTTGAGAC-AGTTT-CTCTTGAAACA
1 CTCTCTTGAGACTAATTTACTC-TGAAACA
1417542 CCAACCTTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.01
36 38 0.43
37 18 0.20
38 32 0.36
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (37 bp):
CTCTCTTGAGACTAATTTACTCTGAAACAAATTTTGT
Found at i:1417517 original size:38 final size:36
Alignment explanation
Indices: 1417426--1417541 Score: 169
Period size: 36 Copynumber: 3.1 Consensus size: 36
1417416 AATTTACTCT
* *
1417426 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCCTTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
1417463 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
1417499 AAACAACATTTTTTTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAA-A-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
1417537 AAACA
1 AAACA
1417542 CCAACCTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
36 33 0.45
37 8 0.11
38 32 0.44
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:1417590 original size:35 final size:34
Alignment explanation
Indices: 1417544--1417635 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 34
1417534 TTGAAACACC
1417544 AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAAA
1 AACCTTTGAAATCGTTTCTCTTGAAAC-AAAAAAA
1417579 AACCTTTGAAATCGTTTCTCTTG-----AAAAAA
1 AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAA
1417608 AACCTTTGAACAT-GTTTCTCTTGAAACA
1 AACCTTTGAA-ATCGTTTCTCTTGAAACA
1417636 CAAAGACTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
29 26 0.51
30 2 0.04
35 23 0.45
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (34 bp):
AACCTTTGAAATCGTTTCTCTTGAAACAAAAAAA
Found at i:1417615 original size:29 final size:29
Alignment explanation
Indices: 1417527--1417633 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
1417517 TCTTGAGACA
**
1417527 GTTTCTCTTGAAACACCAACCTTTGAAATC
1 GTTTCTCTTGAAA-AAAAACCTTTGAAATC
1417557 GTTTCTCTTGAAACAAAAAAAAAACCTTTGAAATC
1 GTTTCTCTTG------AAAAAAAACCTTTGAAATC
1417592 GTTTCTCTTGAAAAAAAACCTTTGAACAT-
1 GTTTCTCTTGAAAAAAAACCTTTGAA-ATC
1417621 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
1417634 CACAAAGACT
Statistics
Matches: 68, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
29 29 0.43
30 12 0.18
35 24 0.35
36 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (29 bp):
GTTTCTCTTGAAAAAAAACCTTTGAAATC
Found at i:1417835 original size:85 final size:84
Alignment explanation
Indices: 1417721--1417931 Score: 260
Period size: 85 Copynumber: 2.5 Consensus size: 84
1417711 GTTATCTGCC
* * * * *
1417721 AAAGACCTTAGAGTTCGATTCCATTCAGCTCCAAGGTACATCATTAGCAACATAGCTTAAGGAAA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTAGCAACATAGCTTAAGGAAA
* *
1417786 GAAGGGCTATTTGCCAACA
66 GAAAGGCTATTTACCAACA
* * * * *
1417805 AAAGACCTTCGAAGTTCGACTACACTCAGCTCCAAGGCACATCCTTCGCAGCATAGCTTAATGCA
1 AAAGACCTTCG-AGTTCGACTACACTCAGCTCCAAGGCACATCATTAGCAACATAGCTTAAGGAA
*
1417870 AGAAAGGCTATTTACTAACA
65 AGAAAGGCTATTTACCAACA
* ** *
1417890 AAATACCTTCGAGTTCGACTATGCTCAGCTCGAAGGCACATC
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
1417932 CTTTGAAGTA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 38 0.35
85 71 0.65
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTAGCAACATAGCTTAAGGAAA
GAAAGGCTATTTACCAACA
Found at i:1418166 original size:3 final size:3
Alignment explanation
Indices: 1418154--1418203 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
1418144 CTACGAAAAC
*
1418154 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT TTT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
1418198 A-T ATT A
1 ATT ATT A
1418204 ATGATTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1418173 original size:14 final size:14
Alignment explanation
Indices: 1418154--1418203 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
1418144 CTACGAAAAC
1418154 ATTATATTATTATT
1 ATTATATTATTATT
1418168 ATTATATTATTATT
1 ATTATATTATTATT
1418182 ATTAT-TT-TTATT
1 ATTATATTATTATT
1418194 AATTATATTA
1 -ATTATATTA
1418204 ATGATTTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.15
13 7 0.21
14 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:1419519 original size:19 final size:19
Alignment explanation
Indices: 1419478--1419519 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1419468 ATATTTTAAC
*
1419478 ATTTTTTCTCTTAATTTAT
1 ATTTTTTCTCTTAAGTTAT
*
1419497 ATTTTTTCCTCTTTAGTTA-
1 ATTTTTT-CTCTTAAGTTAT
1419516 ATTT
1 ATTT
1419520 AGTATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTCTCTTAAGTTAT
Found at i:1420147 original size:45 final size:45
Alignment explanation
Indices: 1420092--1420263 Score: 227
Period size: 45 Copynumber: 3.8 Consensus size: 45
1420082 AACATAACAT
* * *
1420092 CTTTTCTGTTGATAATGCACTCATATGCATTTCAACTATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * * *
1420137 CTTTTATGTTGATAATGTACCCATATACATCTCAACCATAGCATA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* ** *
1420182 CTTTTATGTTGATAATGTACCCATATACATTTCAACTCCAGTAAA
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* *
1420227 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
1 CTTTTATGTTGATAATGCACCCATATACATTTCAACT
1420264 CTGGCATCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
CTTTTATGTTGATAATGCACCCATATACATTTCAACTATAGTATA
Found at i:1420287 original size:90 final size:90
Alignment explanation
Indices: 1420103--1420302 Score: 233
Period size: 90 Copynumber: 2.2 Consensus size: 90
1420093 TTTTCTGTTG
* * * *
1420103 ATAATGCACTCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCCATATACATC
1 ATAATGCACCCATATGCATTTCAACTACAGTAAACTTTTATGTTGATAATGCACCCATATACATC
* ***
1420168 TCAACCATAGCATACTTTTATGTTG
66 TCAACCATAGCATACTTTCATGCCA
* * * * * *
1420193 ATAATGTACCCATATACATTTCAACTCCAGTAAACTTTTCTGTTGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAACTACAGTAAACTTTTATGTTGATAATGCACCCATATACATC
*
1420258 TCAACTC-TGGCAT-CATTTCATGCCA
66 TCAAC-CATAGCATAC-TTTCATGCCA
1420283 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1420303 ATTCTTTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
89 1 0.01
90 89 0.98
91 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.36
Consensus pattern (90 bp):
ATAATGCACCCATATGCATTTCAACTACAGTAAACTTTTATGTTGATAATGCACCCATATACATC
TCAACCATAGCATACTTTCATGCCA
Found at i:1420358 original size:79 final size:79
Alignment explanation
Indices: 1420240--1420390 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 79
1420230 TTCTGTTGAT
* * * *
1420240 AATGCACCCATATGCATTTCAACTCTGGCATCATTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCATTTCATGCCAATAATGCACCCAAATACATTAT
1420305 TCTTTTATGCTGAC
66 TCTTTTATGCTGAC
* * *
1420319 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCAAATACATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCATTTCATGCCAATAATGCACCCAAATACATTAT
1420384 TCTTTTA
66 TCTTTTA
1420391 CATTCATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGGCATCATTTCATGCCAATAATGCACCCAAATACATTAT
TCTTTTATGCTGAC
Found at i:1420991 original size:96 final size:93
Alignment explanation
Indices: 1420798--1420982 Score: 212
Period size: 96 Copynumber: 1.9 Consensus size: 93
1420788 GGCCCTTCGT
* * *
1420798 TATCGATACCCCTACTATGGTATTGATACCCCTACCACTATCAATACCAAAATTAGATTCGATGT
1 TATCGATACCCATACTATGGTACTGATACCCCTACCACTATCAATAACAAAATTAGATTCGATGT
*
1420863 AGCCCAGTATCGATACCCTTACCGCATG
66 AGCCCAGTATCGATACCCTCACCGCATG
* * * *
1420891 TATCGATACCACTATACTATGGTACTGATACCCCTA-TATGGTATCGATAACAAAATTAGGTTCG
1 TATCGATACC-C-ATACTATGGTACTGATACCCCTACCA--CTATCAATAACAAAATTAGATTCG
* *
1420955 ATGTTTA-CCCGGTATTGATACCCTCACC
62 ATG--TAGCCCAGTATCGATACCCTCACC
1420983 ATGGTATCGG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
93 10 0.13
94 2 0.03
95 21 0.28
96 23 0.30
97 18 0.24
98 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (93 bp):
TATCGATACCCATACTATGGTACTGATACCCCTACCACTATCAATAACAAAATTAGATTCGATGT
AGCCCAGTATCGATACCCTCACCGCATG
Found at i:1424139 original size:49 final size:48
Alignment explanation
Indices: 1424076--1424213 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 48
1424066 TTCCTTCACC
* * *
1424076 CCAGGATCCGAGCATACCTATAACTAAATTGGAATTTACA-TCTTTTAGT
1 CCAGGAT-CAAGCATACCTATAATTAAATTGGAATTTACATTC-TCTAGT
1424125 CCAGGATCTAAGCATACCTATAATTAAATTGGAATTTACATTCTCTAGT
1 CCAGGATC-AAGCATACCTATAATTAAATTGGAATTTACATTCTCTAGT
* * * *
1424174 CCAAGATCAGAGTATACTTATAATTAAATTGAAATTTACA
1 CCAGGATCA-AGCATACCTATAATTAAATTGGAATTTACA
1424214 GATTGTTCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
48 2 0.03
49 75 0.95
50 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (48 bp):
CCAGGATCAAGCATACCTATAATTAAATTGGAATTTACATTCTCTAGT
Found at i:1424911 original size:18 final size:20
Alignment explanation
Indices: 1424888--1424926 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
1424878 AGTTAGAAAA
1424888 TTATAAAAT-TA-TAAATAT
1 TTATAAAATGTATTAAATAT
1424906 TTATAAAATGTATTAAATAT
1 TTATAAAATGTATTAAATAT
1424926 T
1 T
1424927 ATTATAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAAAATGTATTAAATAT
Found at i:1425406 original size:39 final size:39
Alignment explanation
Indices: 1425361--1425470 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 39
1425351 AGTTAAAAGA
* * *
1425361 AATAATTTAGATTGTTAG-CGTCAAATAATTTAAGAAATT
1 AATAATTTAGAATGTT-GTAGTCAAATAATTTAAGAAACT
* * *
1425400 AATAATTTATAATGTTGTAGTTAAATGATTTAAGAAACT
1 AATAATTTAGAATGTTGTAGTCAAATAATTTAAGAAACT
* * *
1425439 AAGAATTTAGAATG-TGAAGGTAAAATAATTTA
1 AATAATTTAGAATGTTGTA-GTCAAATAATTTA
1425471 GGAATTAGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
38 4 0.07
39 54 0.93
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (39 bp):
AATAATTTAGAATGTTGTAGTCAAATAATTTAAGAAACT
Found at i:1425996 original size:18 final size:16
Alignment explanation
Indices: 1425972--1426015 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
1425962 ATAAAAACTA
*
1425972 TTTAAAATTTCATATT
1 TTTAAAATTTAATATT
1425988 TCATTAAAATATTAATATT
1 T--TTAAAAT-TTAATATT
1426007 TTTAAAATT
1 TTTAAAATT
1426016 AAAATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 7 0.29
19 8 0.33
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAAATTTAATATT
Found at i:1427143 original size:3 final size:3
Alignment explanation
Indices: 1427128--1427166 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1427118 CATTTAAAAC
*
1427128 TAA TAA TTA -AA TAA TAA T-A TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1427167 TAAAATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1427154 original size:14 final size:14
Alignment explanation
Indices: 1427128--1427173 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1427118 CATTTAAAAC
1427128 TAATAATTAA-ATAA
1 TAATAA-TAATATAA
1427142 TAAT-ATAATAATAA
1 TAATAATAAT-ATAA
1427156 TAATAATAATATAA
1 TAATAATAATATAA
1427170 -AATA
1 TAATA
1427174 CATATATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 16 0.55
15 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:1427169 original size:11 final size:11
Alignment explanation
Indices: 1427128--1427179 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
1427118 CATTTAAAAC
1427128 TAATAAT-TAAA
1 TAATAATAT-AA
1427139 TAATAATATAA
1 TAATAATATAA
1427150 TAAT-A-ATAA
1 TAATAATATAA
1427159 TAATAATATAA
1 TAATAATATAA
1427170 -AATACATATA
1 TAATA-ATATA
1427180 TAGATTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.22
10 6 0.16
11 22 0.59
12 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAATATAA
Found at i:1428535 original size:21 final size:22
Alignment explanation
Indices: 1428509--1428559 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
1428499 TGATCACGTT
*
1428509 ATAATTTACCCTT-TGTTTTAA
1 ATAATTTACCCTTATATTTTAA
*
1428530 ATAATTTACCTTTATATTTTAA
1 ATAATTTACCCTTATATTTTAA
*
1428552 CTAATTTA
1 ATAATTTA
1428560 TAATTATACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATTTACCCTTATATTTTAA
Found at i:1430626 original size:21 final size:21
Alignment explanation
Indices: 1430602--1430664 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
1430592 TTGTTAATGC
1430602 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
1430623 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
1430642 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
1430663 AT
1 AT
1430665 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:1430634 original size:25 final size:27
Alignment explanation
Indices: 1430577--1430637 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1430567 CGAATGTATG
*
1430577 ATATGTATATATAATTTGTTAATGCAT
1 ATATGTATATATAATATGTTAATGCAT
** *
1430604 GCATGTATGTATAATATG-T-ATGCAT
1 ATATGTATATATAATATGTTAATGCAT
1430629 ATATGTATA
1 ATATGTATA
1430638 ATTTATTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 12 0.44
26 1 0.04
27 14 0.52
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (27 bp):
ATATGTATATATAATATGTTAATGCAT
Found at i:1430992 original size:13 final size:13
Alignment explanation
Indices: 1430960--1430986 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1430950 TAATTTACAT
1430960 TTAAATAATTTTA
1 TTAAATAATTTTA
1430973 TTAAATAATTTTA
1 TTAAATAATTTTA
1430986 T
1 T
1430987 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:1431022 original size:20 final size:19
Alignment explanation
Indices: 1430990--1431048 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
1430980 ATTTTATATA
*
1430990 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACC-T
*
1431009 GTATAGTATATATAAA-CT
1 ATATAGTATATATAAACCT
1431027 ATATA-TATATATAAA-CT
1 ATATAGTATATATAAACCT
1431044 ATATA
1 ATATA
1431049 AAATAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 4 0.11
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAGTATATATAAACCT
Found at i:1431029 original size:9 final size:9
Alignment explanation
Indices: 1431017--1431050 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1431007 ATGTATAGTA
1431017 TATATAAAC
1 TATATAAAC
*
1431026 TATATATA-
1 TATATAAAC
1431034 TATATAAAC
1 TATATAAAC
1431043 TATATAAA
1 TATATAAA
1431051 ATAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:1431037 original size:17 final size:18
Alignment explanation
Indices: 1431010--1431048 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
1431000 ATAAACCATG
1431010 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
1431028 TATA-TATATATAAACTA
1 TATAGTATATATAAACTA
1431045 TATA
1 TATA
1431049 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:1431122 original size:48 final size:49
Alignment explanation
Indices: 1431032--1431140 Score: 139
Period size: 48 Copynumber: 2.2 Consensus size: 49
1431022 AAACTATATA
* * **
1431032 TATATATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAACAC
* *
1431081 TATACATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCC
1 TATACATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAACAC
*
1431129 TAAATCATAAAC
1 TATA-CATAAAC
1431141 CCTAAACCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 26 0.50
49 26 0.50
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (49 bp):
TATACATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAACAC
Found at i:1431146 original size:7 final size:7
Alignment explanation
Indices: 1431123--1431194 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
1431113 TAGTTTATAG
1431123 AAACCCT
1 AAACCCT
* *
1431130 AAATCAT
1 AAACCCT
1431137 AAACCCT
1 AAACCCT
1431144 AAACCCT
1 AAACCCT
**
1431151 AAACTTT
1 AAACCCT
1431158 AAACCAC-
1 AAACC-CT
*
1431165 AAACACT
1 AAACCCT
*
1431172 AAACACT
1 AAACCCT
* *
1431179 AAATCAT
1 AAACCCT
1431186 AAACCCT
1 AAACCCT
1431193 AA
1 AA
1431195 TATAAATAGA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 1 0.02
7 48 0.98
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:1431586 original size:15 final size:16
Alignment explanation
Indices: 1431561--1431593 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1431551 ATAAACCATG
1431561 TATAGTATATATAAAC
1 TATAGTATATATAAAC
1431577 TATA-TATATATAAAC
1 TATAGTATATATAAAC
1431592 TA
1 TA
1431594 AATAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1431648 original size:49 final size:48
Alignment explanation
Indices: 1431581--1431675 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
1431571 ATAAACTATA
* * **
1431581 TATATATAAACTAAATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTAAATAAAGT-AATAAAATATATAGTTTATAGAAACAC
* *
1431630 TATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTAAATAAAGTAATAAAATATATAGTTTATAGAAAC
1431676 CTTAAATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (48 bp):
TATACATAAACTAAATAAAGTAATAAAATATATAGTTTATAGAAACAC
Found at i:1431709 original size:21 final size:21
Alignment explanation
Indices: 1431672--1431743 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
1431662 TAGTTTATAG
*
1431672 AAACCTTAAAT-CATAAACCAT
1 AAACCCTAAATAC-TAAACCAT
* * *
1431693 AAACCCTAAACT-TTAAACAAC
1 AAACCCTAAA-TACTAAACCAT
* *
1431714 AAACACTAAATACTAAATCAT
1 AAACCCTAAATACTAAACCAT
1431735 AAACCCTAA
1 AAACCCTAA
1431744 TATAAATGGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAATACTAAACCAT
Found at i:1432958 original size:13 final size:13
Alignment explanation
Indices: 1432926--1432952 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1432916 TAATTTACAT
1432926 TTAAATAATTTTA
1 TTAAATAATTTTA
1432939 TTAAATAATTTTA
1 TTAAATAATTTTA
1432952 T
1 T
1432953 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:1433001 original size:15 final size:15
Alignment explanation
Indices: 1432976--1433012 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
1432966 ATAAACCATG
1432976 TATAGTATATATAAAC
1 TATA-TATATATAAAC
1432992 TATATATATATAAAC
1 TATATATATATAAAC
1433007 TATATA
1 TATATA
1433013 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:1433056 original size:49 final size:48
Alignment explanation
Indices: 1432996--1433104 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
1432986 ATAAACTATA
* * **
1432996 TATATATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAAT-AATAAAATATATAGTTTATAGAAACAC
* * *
1433045 TATACATAAACTATTTAAAGTAATAAAATATATAGTTTATAGAAACCC
1 TATACATAAACTATATAAAATAATAAAATATATAGTTTATAGAAACAC
*
1433093 TAAATCATAAAC
1 TATA-CATAAAC
1433105 CCTAAACCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 26 0.51
49 25 0.49
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (48 bp):
TATACATAAACTATATAAAATAATAAAATATATAGTTTATAGAAACAC
Found at i:1433110 original size:7 final size:7
Alignment explanation
Indices: 1433087--1433158 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
1433077 TAGTTTATAG
1433087 AAACCCT
1 AAACCCT
* *
1433094 AAATCAT
1 AAACCCT
1433101 AAACCCT
1 AAACCCT
1433108 AAACCCT
1 AAACCCT
**
1433115 AAACTTT
1 AAACCCT
1433122 AAACCAC-
1 AAACC-CT
*
1433129 AAACACT
1 AAACCCT
*
1433136 AAACACT
1 AAACCCT
* *
1433143 AAATCAT
1 AAACCCT
1433150 AAACCCT
1 AAACCCT
1433157 AA
1 AA
1433159 TATAAATGGA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 1 0.02
7 48 0.98
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:1433475 original size:544 final size:544
Alignment explanation
Indices: 1432745--1433848 Score: 1907
Period size: 553 Copynumber: 2.0 Consensus size: 544
1432735 TTTCCACCCC
1432745 TACTTATTCA-ACACAACAAAATAAATGGGCCATTAATGTGAATTAACCTAACATGCAACTAAAA
1 TACTTATTCATACACAACAAAATAAATGGGCCATTAATGTGAATTAACCTAACATGCAACTAAAA
* *
1432809 TACTAATTATGCAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGGAATG
66 TACTAATTATGAAATGAAATTAATATGACATGCACTACTATTTATGAACCATATAATATGGAATG
1432874 TGACATACTAATTATTTAACACATAATTAATCATGTTTTATATAATTTACA-TT-TAA-A-TAAT
131 TGACATACTAATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTTATAATATTAAT
1432935 TTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATA
196 TTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATA
* *
1433000 TATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATTTAAAG
261 TATAAACTAAATAAAATAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAG
* *
1433065 TAATAAAATATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACTTTAAACCACA
326 TAATAAAATATATAGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAAACAACA
1433130 AACACTAAACACTAAATCATAAACCCTAATATAAATGGACTAG-CACTAATGCATATATATATAT
391 AACACTAAACACTAAATCATAAACCCTAATATAAATGGACT-GTCACTAATGC----ATATATAT
* *
1433194 TTGTAATAAAAGAGTGAGCTTGCATTGGGCCTATGTAAACTAATGTTAATTGACTAGCACTATTG
451 TTGTAATAAAAGAGTGAGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAACACTATTG
1433259 CAAATGGACTTATTTTTTGGTTTTATTAT
516 CAAATGGACTTATTTTTTGGTTTTATTAT
*
1433288 TACTTATTCATA-ACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAA
1 TACTTATTCATACACAACAAAATAAATGGGCCATTAATGTGAATTAACCTAACATGCAACTAAAA
1433352 TACTAATTATGTAAATGAAATTAATATGACATGCACTACTATTTATGAACCATATAATATGGAAT
66 TACTAATTATG-AAATGAAATTAATATGACATGCACTACTATTTATGAACCATATAATATGGAAT
*
1433417 GTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTT
130 GTGACATACTAATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTT--ATAA---T
1433482 ATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTA
190 ATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTA
*
1433547 TATATATATAAACTAAATAAAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTAT
255 TATATATATAAACTAAATAAAATAAATTACTTATATAGTTTATAGAAACACTATACATAAACTAT
* *
1433612 ATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAAACCCTAAACTTTAA
320 ATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAA
*
1433677 ACAACAAACACTAAATACTAAATCATAAACCCTAATATAAATGGACTGTCACTAATGCATATATA
385 ACAACAAACACTAAACACTAAATCATAAACCCTAATATAAATGGACTGTCACTAATGCATATATA
* *
1433742 TTTGTAATAAAAGAGTGGGCTTGCATTGGGTCTATGTAAACTAATGTTAATGGACTAACACTATT
450 TTTGTAATAAAAGAGTGAGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAACACTATT
*
1433807 GCAAATTGACTTATTTTTTGGTTTTATTAT
515 GCAAATGGACTTATTTTTTGGTTTTATTAT
1433837 TACTTATTCATA
1 TACTTATTCATA
1433849 GGGGTGGGAA
Statistics
Matches: 532, Mismatches: 17, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
543 72 0.14
544 103 0.19
545 2 0.00
548 3 0.01
549 109 0.20
552 2 0.00
553 241 0.45
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (544 bp):
TACTTATTCATACACAACAAAATAAATGGGCCATTAATGTGAATTAACCTAACATGCAACTAAAA
TACTAATTATGAAATGAAATTAATATGACATGCACTACTATTTATGAACCATATAATATGGAATG
TGACATACTAATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTTATAATATTAAT
TTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATA
TATAAACTAAATAAAATAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAG
TAATAAAATATATAGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAAACAACA
AACACTAAACACTAAATCATAAACCCTAATATAAATGGACTGTCACTAATGCATATATATTTGTA
ATAAAAGAGTGAGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTAACACTATTGCAAAT
GGACTTATTTTTTGGTTTTATTAT
Found at i:1433554 original size:15 final size:16
Alignment explanation
Indices: 1433529--1433561 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1433519 ATAAACCATG
1433529 TATAGTATATATAAAC
1 TATAGTATATATAAAC
1433545 TATA-TATATATAAAC
1 TATAGTATATATAAAC
1433560 TA
1 TA
1433562 AATAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1433616 original size:49 final size:48
Alignment explanation
Indices: 1433549--1433643 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
1433539 ATAAACTATA
* * **
1433549 TATATATAAACTAAATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTAAATAAAGT-AATAAAATATATAGTTTATAGAAACAC
* *
1433598 TATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTAAATAAAGTAATAAAATATATAGTTTATAGAAAC
1433644 CTTAAATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (48 bp):
TATACATAAACTAAATAAAGTAATAAAATATATAGTTTATAGAAACAC
Found at i:1433677 original size:21 final size:21
Alignment explanation
Indices: 1433640--1433711 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
1433630 TAGTTTATAG
*
1433640 AAACCTTAAAT-CATAAACCAT
1 AAACCCTAAATAC-TAAACCAT
* * *
1433661 AAACCCTAAACT-TTAAACAAC
1 AAACCCTAAA-TACTAAACCAT
* *
1433682 AAACACTAAATACTAAATCAT
1 AAACCCTAAATACTAAACCAT
1433703 AAACCCTAA
1 AAACCCTAA
1433712 TATAAATGGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAATACTAAACCAT
Found at i:1434929 original size:13 final size:13
Alignment explanation
Indices: 1434897--1434923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1434887 TAATTTACAT
1434897 TTAAATAATTTTA
1 TTAAATAATTTTA
1434910 TTAAATAATTTTA
1 TTAAATAATTTTA
1434923 T
1 T
1434924 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:1434968 original size:15 final size:15
Alignment explanation
Indices: 1434948--1434979 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1434938 AACCATGTAG
1434948 TATATATAAACTATA
1 TATATATAAACTATA
1434963 TATATATAAACTATA
1 TATATATAAACTATA
1434978 TA
1 TA
1434980 AAATAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:1435077 original size:7 final size:7
Alignment explanation
Indices: 1435054--1435125 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
1435044 TAGTTTATAG
1435054 AAACCCT
1 AAACCCT
* *
1435061 AAATCAT
1 AAACCCT
1435068 AAACCCT
1 AAACCCT
1435075 AAACCCT
1 AAACCCT
**
1435082 AAACTTT
1 AAACCCT
1435089 AAACCAC-
1 AAACC-CT
*
1435096 AAACACT
1 AAACCCT
*
1435103 AAACACT
1 AAACCCT
* *
1435110 AAATCAT
1 AAACCCT
1435117 AAACCCT
1 AAACCCT
1435124 AA
1 AA
1435126 TATAAATGGA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 1 0.02
7 48 0.98
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:1435521 original size:15 final size:15
Alignment explanation
Indices: 1435496--1435532 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
1435486 ATAAACCATG
1435496 TATAGTATATATAAAC
1 TATA-TATATATAAAC
1435512 TATATATATATAAAC
1 TATATATATATAAAC
1435527 TATATA
1 TATATA
1435533 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:1435632 original size:14 final size:14
Alignment explanation
Indices: 1435607--1435677 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
1435597 TAGTTTATAG
*
1435607 AAACCCTAAACCCT
1 AAACCATAAACCCT
**
1435621 AAATTATAAACCCT
1 AAACCATAAACCCT
** **
1435635 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
1435648 AAACCATAAACACT
1 AAACCATAAACCCT
1435662 AAACCATAAACCCT
1 AAACCATAAACCCT
1435676 AA
1 AA
1435678 TTTAAATGGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.20
14 35 0.80
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:1435643 original size:13 final size:14
Alignment explanation
Indices: 1435612--1435644 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1435602 TATAGAAACC
1435612 CTAAACCCTAAATT
1 CTAAACCCTAAATT
*
1435626 ATAAACCCT-AATT
1 CTAAACCCTAAATT
1435639 CTAAAC
1 CTAAAC
1435645 TTTAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCCTAAATT
Found at i:1435652 original size:41 final size:40
Alignment explanation
Indices: 1435607--1435683 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
1435597 TAGTTTATAG
* * **
1435607 AAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
1435648 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1435684 TGGACTAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:1435861 original size:14 final size:14
Alignment explanation
Indices: 1435842--1435888 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1435832 ATTTTTTCTT
1435842 TATATAAATTAAAC
1 TATATAAATTAAAC
1435856 TATAT-AATT----
1 TATATAAATTAAAC
1435865 TATATAAATTAAAC
1 TATATAAATTAAAC
*
1435879 TATATTAATT
1 TATATAAATT
1435889 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:1435867 original size:23 final size:24
Alignment explanation
Indices: 1435840--1435889 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
1435830 TTATTTTTTC
1435840 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
1435863 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
1435887 TTT
1 TTT
1435890 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:1436178 original size:16 final size:16
Alignment explanation
Indices: 1436157--1436227 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
1436147 TGGATCATTT
1436157 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
1436173 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
1436189 ACAAGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
*
1436205 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
1436221 ACAGGTC
1 ACAGGTC
1436228 GGGTAATACC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:1437471 original size:5 final size:5
Alignment explanation
Indices: 1437461--1437499 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
1437451 AAGGTAAAAT
1437461 TATTA TATTA TATTTA TATTA TATTA TATTA TATT- TATT
1 TATTA TATTA TA-TTA TATTA TATTA TATTA TATTA TATT
1437500 TAACCAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TATTA
Found at i:1437482 original size:16 final size:15
Alignment explanation
Indices: 1437461--1437499 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
1437451 AAGGTAAAAT
1437461 TATTATATTATATTTA
1 TATTATATTATA-TTA
1437477 TATTATATTATATTA
1 TATTATATTATATTA
1437492 TATT-TATT
1 TATTATATT
1437500 TAACCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.17
15 7 0.30
16 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATATTATATTA
Found at i:1440838 original size:13 final size:13
Alignment explanation
Indices: 1440815--1440868 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
1440805 AAAACAATTT
*
1440815 AAACAATTAAATAG
1 AAAC-ATTAAATAC
1440829 AAACATTAAATAC
1 AAACATTAAATAC
* *
1440842 AAACAATATAATTC
1 AAACATTA-AATAC
1440856 AAACAATTAAATA
1 AAAC-ATTAAATA
1440869 ATAACAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 15 0.45
14 15 0.45
15 3 0.09
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (13 bp):
AAACATTAAATAC
Found at i:1440876 original size:14 final size:14
Alignment explanation
Indices: 1440815--1440868 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
1440805 AAAACAATTT
*
1440815 AAACAATTAAATAG
1 AAACAATTAAATAC
1440829 AAAC-ATTAAATAC
1 AAACAATTAAATAC
*
1440842 AAACAA-TATAATTC
1 AAACAATTA-AATAC
1440856 AAACAATTAAATA
1 AAACAATTAAATA
1440869 ATAACAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 14 0.41
14 18 0.53
15 2 0.06
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (14 bp):
AAACAATTAAATAC
Found at i:1441375 original size:21 final size:21
Alignment explanation
Indices: 1441351--1441409 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1441341 ACCCTACGTT
* * *
1441351 GGTGGCATCTGAATTGGTTGC
1 GGTGCCATCTAAAATGGTTGC
1441372 GGTGCCATCTAAAATGGTTGC
1 GGTGCCATCTAAAATGGTTGC
1441393 GGTGCCATCTAAAATGG
1 GGTGCCATCTAAAATGG
1441410 ATGCAATGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (21 bp):
GGTGCCATCTAAAATGGTTGC
Found at i:1442181 original size:26 final size:26
Alignment explanation
Indices: 1442144--1442195 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1442134 TATTCAATGT
*
1442144 AAAATATATATTTCAT-TATATACTCA
1 AAAATATATATTT-ATATATAAACTCA
1442170 AAAATA-ATTATTTATATATAAACTCA
1 AAAATATA-TATTTATATATAAACTCA
1442196 GTATTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAATATATATTTATATATAAACTCA
Found at i:1443119 original size:24 final size:23
Alignment explanation
Indices: 1443084--1443128 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1443074 TGTAAAAAAG
*
1443084 TAATAAGAAAATTATTAAATTAAA
1 TAATAAGAAAA-TAATAAATTAAA
1443108 TAATAATG-AAATAATAAATTA
1 TAATAA-GAAAATAATAAATTA
1443129 TTAAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 9 0.47
25 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAAGAAAATAATAAATTAAA
Found at i:1445985 original size:13 final size:13
Alignment explanation
Indices: 1445967--1445994 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1445957 CATATTACCC
1445967 TTGCTTTTAAGAT
1 TTGCTTTTAAGAT
1445980 TTGCTTTTAAGAT
1 TTGCTTTTAAGAT
1445993 TT
1 TT
1445995 AACATATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGCTTTTAAGAT
Found at i:1447791 original size:42 final size:42
Alignment explanation
Indices: 1447743--1447922 Score: 231
Period size: 41 Copynumber: 4.3 Consensus size: 42
1447733 AGTCTTGCTG
* *
1447743 GTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAGTTA
1 GTGATTTGTGACGATAATTGTTTTTGTCACTAGTCTCAATTA
* * * * *
1447785 CTGATTTATGTCGATAATTGTTTTTGTCACTAGTCT-ACTTG
1 GTGATTTGTGACGATAATTGTTTTTGTCACTAGTCTCAATTA
*
1447826 GTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAATTA
1 GTGATTTGTGACGATAATTGTTTTTGTCACTAGTCTCAATTA
* * *
1447868 GTGATTTGT-TCGATAATTGTTTTTGTCACTAGTC-CTACTTG
1 GTGATTTGTGACGATAATTGTTTTTGTCACTAGTCTC-AATTA
1447909 GTGATTTGTGACGA
1 GTGATTTGTGACGA
1447923 CAATAATTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 70 0.59
42 47 0.40
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (42 bp):
GTGATTTGTGACGATAATTGTTTTTGTCACTAGTCTCAATTA
Found at i:1447933 original size:83 final size:83
Alignment explanation
Indices: 1447741--1447922 Score: 321
Period size: 83 Copynumber: 2.2 Consensus size: 83
1447731 TTAGTCTTGC
*
1447741 TGGTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAGTTACTGATTTATGTCGATAATTGT
1 TGGTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAATTACTGATTTATGTCGATAATTGT
1447806 TTTTGTCACTAGTCTACT
66 TTTTGTCACTAGTCTACT
* *
1447824 TGGTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAATTAGTGATTTGT-TCGATAATTGT
1 TGGTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAATTACTGATTTATGTCGATAATTGT
1447888 TTTTGTCACTAGTCCTACT
66 TTTTGTCACTAGT-CTACT
1447907 TGGTGATTTGTGACGA
1 TGGTGATTTGTGACGA
1447923 CAATAATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
82 24 0.25
83 71 0.75
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (83 bp):
TGGTGATTTGTGACGATAATTGTTTTTGTTACTAGTCTCAATTACTGATTTATGTCGATAATTGT
TTTTGTCACTAGTCTACT
Found at i:1452229 original size:28 final size:29
Alignment explanation
Indices: 1452198--1452264 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1452188 AATGTAGTGA
**
1452198 TTGTAAAAA-TATAGGTTGTTATTGTAAT
1 TTGTAAAAAGTATAGGTCATTATTGTAAT
* *
1452226 TTGTAAAAAGTATATGTCATTATTTTAAT
1 TTGTAAAAAGTATAGGTCATTATTGTAAT
*
1452255 TTATAAAAAG
1 TTGTAAAAAG
1452265 ATTTGTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.45
Consensus pattern (29 bp):
TTGTAAAAAGTATAGGTCATTATTGTAAT
Found at i:1452248 original size:29 final size:28
Alignment explanation
Indices: 1452216--1452408 Score: 188
Period size: 29 Copynumber: 6.7 Consensus size: 28
1452206 ATATAGGTTG
* * *
1452216 TTATTGTAATTTGTAAAAAGTATATGTCA
1 TTATTGTAATTTATAAAAAG-ATTTGTCT
* *
1452245 TTATTTTAATTTATAAAAAGATTTGTTT
1 TTATTGTAATTTATAAAAAGATTTGTCT
* * *
1452273 TCTATTTTAAATTATAAAAAGAGTTGTCCT
1 T-TATTGTAATTTATAAAAAGATTTGT-CT
* *
1452303 TTATTGTAATTTATAAGAAGATTTATCT
1 TTATTGTAATTTATAAAAAGATTTGTCT
* *
1452331 TCTATTATAATTTATAAAAAGATTTGTCCA
1 T-TATTGTAATTTATAAAAAGATTTGT-CT
* *
1452361 TTATTGTAATTTATAAAAAAAATTGTCCT
1 TTATTGTAATTTATAAAAAGATTTGT-CT
* *
1452390 TAAATGTAATTTATAAAAA
1 TTATTGTAATTTATAAAAA
1452409 AAATATTTAA
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
28 9 0.07
29 124 0.91
30 4 0.03
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (28 bp):
TTATTGTAATTTATAAAAAGATTTGTCT
Found at i:1452342 original size:87 final size:87
Alignment explanation
Indices: 1452246--1452405 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
1452236 TATATGTCAT
* ** * * * * *
1452246 TATTTTAATTTATAAAAAGATTTGT-TTTCTATTTTAAATTATAAAAAGAGTTGTCCTTTATTGT
1 TATTATAATTTATAAAAAGATTTGTCCAT-TATTGTAAATTATAAAAAAAATTGTCCTTAAATGT
1452310 AATTTATAAGAAGATTTATCTTC
65 AATTTATAAGAAGATTTATCTTC
*
1452333 TATTATAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAAAATTGTCCTTAAATGTA
1 TATTATAATTTATAAAAAGATTTGTCCATTATTGTAAATTATAAAAAAAATTGTCCTTAAATGTA
1452398 ATTTATAA
66 ATTTATAA
1452406 AAAAAATATT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (87 bp):
TATTATAATTTATAAAAAGATTTGTCCATTATTGTAAATTATAAAAAAAATTGTCCTTAAATGTA
ATTTATAAGAAGATTTATCTTC
Found at i:1452400 original size:58 final size:58
Alignment explanation
Indices: 1452217--1452408 Score: 217
Period size: 58 Copynumber: 3.3 Consensus size: 58
1452207 TATAGGTTGT
* * * *
1452217 TATTGTAATTTGTAAAAAGTATATGT-CATTATTTTAATTTATAAAAAGATTTGTTTTC
1 TATTGTAATTTATAAAAAG-ATTTGTCCATTATTGTAATTTATAAAAAGATTTGTCTTC
* * * * * *
1452275 TATTTTAAATTATAAAAAGAGTTGTCCTTTATTGTAATTTATAAGAAGATTTATCTTC
1 TATTGTAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAGATTTGTCTTC
* * *
1452333 TATTATAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAAAATTGTCCTT-
1 TATTGTAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAGATTTGT-CTTC
* *
1452391 AAATGTAATTTATAAAAA
1 TATTGTAATTTATAAAAA
1452409 AAATATTTAA
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
57 4 0.04
58 104 0.94
59 3 0.03
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (58 bp):
TATTGTAATTTATAAAAAGATTTGTCCATTATTGTAATTTATAAAAAGATTTGTCTTC
Found at i:1452418 original size:26 final size:28
Alignment explanation
Indices: 1452365--1452430 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
1452355 TGTCCATTAT
*
1452365 TGTAATTTATAAAAAAAATTGTCCTTAAA
1 TGTAATTTATAAAAAAAATTAT-CTTAAA
*
1452394 TGTAATTTATAAAAAAAA-TAT-TTAAT
1 TGTAATTTATAAAAAAAATTATCTTAAA
*
1452420 TTTAATTTATA
1 TGTAATTTATA
1452431 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.41
28 2 0.06
29 18 0.53
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
TGTAATTTATAAAAAAAATTATCTTAAA
Found at i:1458363 original size:22 final size:20
Alignment explanation
Indices: 1458334--1458373 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1458324 GGGATAGTTC
1458334 TGTTGTGAGGCGGTTAAAAAA
1 TGTTGTGA-GCGGTTAAAAAA
*
1458355 TGTTCGTGATCGGTTAAAA
1 TGTT-GTGAGCGGTTAAAA
1458374 TTTTGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (20 bp):
TGTTGTGAGCGGTTAAAAAA
Found at i:1458443 original size:23 final size:23
Alignment explanation
Indices: 1458417--1458465 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1458407 AACATATTAT
**
1458417 GTAACACTTATATAATGTAATAA
1 GTAACACTTATATAATAAAATAA
*
1458440 GTAACGCTTATATAATAAAATAA
1 GTAACACTTATATAATAAAATAA
1458463 GTA
1 GTA
1458466 TTTAATCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
GTAACACTTATATAATAAAATAA
Found at i:1458970 original size:197 final size:201
Alignment explanation
Indices: 1458691--1459134 Score: 539
Period size: 197 Copynumber: 2.2 Consensus size: 201
1458681 GCATTCATAT
* * * * * * * * *
1458691 TTCATTATGGA-AAAAAATATCGACACAAACTAAAAAAGTGTCGATATATTATTTAT-ATCTATT
1 TTCATTATGGACAATAAGTATCGACACAAATTTAACAAGTGTTGATATTTTA-TGATGGTCTATT
* * * *
1458754 TTCTCATAAAACTGATATATTTATATTGGGTACATTGTATATTTA-CATATCACATTGTAATTTT
65 TTCTCATAAAACTGATATATTTATATCGGGTACATTGTAAATTTATC-TATCACATTATAATTAT
*
1458818 C-GTTTTGATG-TTTTGGGATCGATA-TTTTAATAAATGCATCGACACTCTATGCGTGCA-TTCC
129 CAGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGCATCGACACTCTATGCGTGCACCT-C
1458879 GTTT-GACA
193 GTTTGGACA
* * *
1458887 TTCATTATGGACAA-AATGTATCGGCTCAAATTTAACTAGTGTTGATATTTTATGATGGTCTATT
1 TTCATTATGGACAATAA-GTATCGACACAAATTTAACAAGTGTTGATATTTTATGATGGTCTATT
* *
1458951 TTCTCATAAAA-TCGATATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTAT
65 TTCTCATAAAACT-GATATATTTATATCGGGTACATTGTAAATTTATCTATCACATTATAATTAT
* * *
1459015 CAGTTTTGATGTTTTTGTGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCG
129 CAGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGCATCGACACTCTATGCGTGCACCTCG
*
1459080 TTTGGGCA
194 TTTGGACA
* * *
1459088 TTCGTTCTGGACAATAAGTATCGACACAAATTTCACAAGTGTTGATA
1 TTCATTATGGACAATAAGTATCGACACAAATTTAACAAGTGTTGATA
1459135 CATGTTGTAG
Statistics
Matches: 209, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
196 17 0.08
197 89 0.43
198 10 0.05
199 13 0.06
200 36 0.17
201 42 0.20
202 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (201 bp):
TTCATTATGGACAATAAGTATCGACACAAATTTAACAAGTGTTGATATTTTATGATGGTCTATTT
TCTCATAAAACTGATATATTTATATCGGGTACATTGTAAATTTATCTATCACATTATAATTATCA
GTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGCATCGACACTCTATGCGTGCACCTCGTT
TGGACA
Found at i:1459174 original size:200 final size:197
Alignment explanation
Indices: 1458691--1459262 Score: 506
Period size: 200 Copynumber: 2.9 Consensus size: 197
1458681 GCATTCATAT
** * * * * * * *
1458691 TTCATTATGGA-AAAAAATATCGACACAAACTAAAAAAGTGTCGATATATTATTTAT-ATCTATT
1 TTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTTGATATGTTA-TGATGACCTA-T
* * * * * *
1458754 TTCTCATAAAA-CTGATATATTTATATTGGGTACATTGTATATTTACATATCACATTGTAATTTT
64 TTCTCATAAAATC-GATATATTTATATCGGTTACATTGTAAATTTAC-TATTACATTATAATTAT
* * *
1458818 CGTTTTGATG-TTTTGGGATCGATA-TTTTAATAAATGCATCGACACTCTATGCGTGCATTCCGT
127 CGTTTTGATGTTTTTGTGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACTCCGT
1458881 TTGACA
192 TTGACA
* * * * **
1458887 TTCATTATGGACAAAATGTATCGGCTCAAATTTAACTAGTGTTGATATTTTATGATGGTCTATTT
1 TTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTTGATATGTTATGATGACCTA-TT
1458952 TCTCATAAAATCGATATATTTATATCGGTTACATTGTAAATTTATCTATTACATTATAATTATCA
65 TCTCATAAAATCGATATATTTATATCGGTTACATTGTAAATTTA-CTATTACATTATAATTATC-
*
1459017 GTTTTGATGTTTTTGTGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCAC-CTCGT
128 GTTTTGATGTTTTTGTGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACTC-CGT
*
1459081 TTGGGCA
192 TT-GACA
* * * *
1459088 TTCGTTCTGGACAATAA-GTATCGACACAAATTTCACAAGTGTTGATACATGTTGT-A-GACCTA
1 TTCATTATGGACAA-AATGTATCGACACAAATTTAACAAGTGTTGAT--ATGTTATGATGACCTA
* * * * * * * *
1459150 -TTCT-ATAATTAATTGGTGTATTTATA-CAGGTTAAATTGTTATTTTACCTATTACATTTTTAT
63 TTTCTCATAA--AATCGATATATTTATATC-GGTTACATTGTAAATTTA-CTATTACATTATAAT
* * *
1459212 TATTGATTTTGATGTTTTT-TGGGTCGATACTTGTAGA-AAATGTATCGACAC
124 TATCG-TTTTGATGTTTTTGT-GATCGATACTTTTA-ATAAATGTATCGACAC
1459263 ATATTTAGAT
Statistics
Matches: 313, Mismatches: 45, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
196 14 0.04
197 91 0.29
198 15 0.05
199 21 0.07
200 119 0.38
201 45 0.14
202 3 0.01
203 5 0.02
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (197 bp):
TTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTTGATATGTTATGATGACCTATTT
CTCATAAAATCGATATATTTATATCGGTTACATTGTAAATTTACTATTACATTATAATTATCGTT
TTGATGTTTTTGTGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACTCCGTTTGA
CA
Found at i:1465599 original size:22 final size:18
Alignment explanation
Indices: 1465557--1465626 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
1465547 TTAAGGAGTA
*
1465557 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
1465575 GTCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
* *
1465597 GTCTTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
1465615 GTCCTACGGGAC
1 GTCCTACGGGAC
1465627 GAATACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 25 0.58
20 4 0.09
22 14 0.33
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:1467164 original size:200 final size:199
Alignment explanation
Indices: 1466813--1468066 Score: 1791
Period size: 200 Copynumber: 6.3 Consensus size: 199
1466803 CTCTCATAAA
* *
1466813 ACCGGTTATATTAAAATATTGCCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAA
1 ACCGGTTATATTAAAA-ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
1466878 ACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAG
65 ACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAG
* * * * * *
1466943 TATCTATACAAAATAAAAAAGTGTCGTTACATGTTGTAGACCTATTCTCTCATAAAACCAGTATA
130 TATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
1467008 TTTAT
195 TTTAT
* *
1467013 ACCGGTTATATTACAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTTTTGGGATAGAC
1 ACCGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * *
1467078 ACTTTTAATAAATGTATCGACACTTTGTGCATTCATCCTTTTTGCCATCCATTCTGGACATAAAG
65 ACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAG
* *
1467143 TATCAACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACC-GTATA
130 TATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
1467207 TTTAT
195 TTTAT
* * * *
1467212 ACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTCGGATCGAC
1 ACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * *
1467277 ACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACAAAAAA
65 ACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAG
*
1467342 TATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGGTATA
130 TATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
*
1467407 TTTTT
195 TTTAT
* * ** *
1467412 ACCGGTTATATTGAAAAATTACCAATTACATT-TATTTATGACTTCCGATGTTTCTT-GGATCGA
1 ACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT-TTGGGATCGA
* * *
1467475 TACTTTTTATAAATGGATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAA
64 CACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAA
* * *
1467540 GTATCGACACAGA-ATAAAAAAGTGTCGCTACATGTTGTAGACCTATTCTCTCATAAAACTGGTA
129 GTATCGACACA-ATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTA
1467604 TATTTAT
193 TATTTAT
* * * * *
1467611 ACCAGTTATATTATAAAAATACATATTACATTATAATTATGAGTTTCGATGCTTTTGGGATCGAC
1 ACCGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * *
1467676 ACTTTTAATAAATATATCGACACTTTGTGCGTTCATCCTTTTTGCCATCCATTCTGGACATAAAG
65 ACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAG
* * * *
1467741 TATCGACACAATATTAACAAGTGTCGATACATGTTATAGACATATTCTCTCATAAAACCAGTATA
130 TATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
1467806 TTTAT
195 TTTAT
* * *
1467811 ACCGGTTATATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTCGGATCGAC
1 ACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * * *
1467876 ACTTTTTGA-AAATGTATTGACACTTTGTGCGTTCATCCTTTTTGGCATCCATTCTGGACAAAAA
65 AC-TTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAA
* * * * *
1467940 GTATCGACGCAATATTAAAAAGTGTCGACACATGTTGTATACCTATT-TTTCATAAAAATCGGTA
129 GTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT-AAAACCGGTA
1468004 TATTTAT
193 TATTTAT
* * * * *
1468011 ACCGGTTACATTGAAAAATTACATATTACATTATAAATATCGGTTTCAATGTTTTT
1 ACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
1468067 AGGGTCGTTA
Statistics
Matches: 946, Mismatches: 96, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
198 1 0.00
199 366 0.39
200 571 0.60
201 8 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (199 bp):
ACCGGTTATATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACA
CTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTGGACATAAAGT
ATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATAT
TTAT
Found at i:1467386 original size:399 final size:397
Alignment explanation
Indices: 1466554--1468066 Score: 2083
Period size: 399 Copynumber: 3.8 Consensus size: 397
1466544 CGCGTTATTT
* * * *
1466554 AAAAGTATCGACGCAA-AATAAAAAGTGTCGCTACATGTTGTAGACCTATTCTCTCATAAAATCA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCA
*
1466618 GTATATTTATACCGGTTATATTAAAATATTACCTATTACATTATAATTATAGGTTTCGATGTTTT
66 GTATATTTATACCGGTTATATTAAAA-ATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * *
1466683 TGGGATCGAAACTTTTAATAAATGTATCGACACTTTGTGCTTTCACCCTTTTTGGCATCTATTCT
130 TGGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
* * *
1466748 GGACATAAAGTATCGACACGAAATAAAAAAGTATCGCTACATG-TGTAGACTTATTCTCTCATAA
195 GGACATAAAGTATCGACAC-AAATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAA
* * * *
1466812 AACCG----GTTATA----TTA-A----AATATTGCCTATTACATTATAATTATGGGTTTCGATG
259 AACCGTATATTTATACCGGTTACATTGTAAAATTACATATTACATTATAATTATGGGTTTCGATG
* *
1466864 TTTTTGGGATCGAAACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCA
324 TTTTTGGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCA
1466929 TTCTGGACA
389 TTCTGGACA
* * * * * *
1466938 TAAAGTATCTATACAAAATAAAAAAGTGTCGTTACATGTTGTAGACCTATTCTCTCATAAAACCA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCA
*
1467003 GTATATTTATACCGGTTATATTACAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
1467068 TGGGATAGACACTTTTAATAAATGTATCGACACTTTGTGCATTCATCCTTTTTGCCATCCATTCT
130 TGGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCT
* * *
1467133 GGACATAAAGTATCAACACAATATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAA
195 GGACATAAAGTATCGACACAA-ATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAA
* *
1467198 AACCGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATG
259 AACCGTATATTTATACCGGTTACATTGTAAAATTACATATTACATTATAATTATGGGTTTCGATG
*
1467263 TTTTTCGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCA
324 TTTTTGGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCA
1467328 TTCTGGACA
389 TTCTGGACA
* **
1467337 AAAAATATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTG
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCA
* * * ** *
1467402 GTATATTTTTACCGGTTATATTGAAAAATTACCAATTACATT-TATTTATGACTTCCGATGTTTC
66 GTATATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT-
* * *
1467466 TT-GGATCGATACTTTTTATAAATGGATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
129 TTGGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
*
1467530 TGGACATAAAGTATCGACACAGAATAAAAAAGTGTCGCTACATGTTGTAGACCTATTCTCTCATA
194 TGGACATAAAGTATCGACACA-AATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
* * * * * *
1467595 AAACTGGTATATTTATACCAGTTATATTATAAAAATACATATTACATTATAATTATGAGTTTCGA
258 AAAC-CGTATATTTATACCGGTTACATTGTAAAATTACATATTACATTATAATTATGGGTTTCGA
* * *
1467660 TGCTTTTGGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCATCCTTTTTGCCATC
322 TGTTTTTGGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATC
1467725 CATTCTGGACA
387 CATTCTGGACA
* * * *
1467736 TAAAGTATCGACACAATATTAACAAGTGTCGATACATGTTATAGACATATTCTCTCATAAAACCA
1 AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCA
* *
1467801 GTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * * *
1467866 TCGGATCGACACTTTTTGA-AAATGTATTGACACTTTGTGCGTTCATCCTTTTTGGCATCCATTC
130 TGGGATCGACAC-TTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTC
* * * * * *
1467930 TGGACAAAAAGTATCGACGCAATATTAAAAAGTGTCGACACATGTTGTATACCTATT-TTTCATA
194 TGGACATAAAGTATCGACACAA-ATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT-
* * * * *
1467994 AAAATCGGTATATTTATACCGGTTACATTGAAAAATTACATATTACATTATAAATATCGGTTTCA
257 AAAA-CCGTATATTTATACCGGTTACATTGTAAAATTACATATTACATTATAATTATGGGTTTCG
1468059 ATGTTTTT
321 ATGTTTTT
1468067 AGGGTCGTTA
Statistics
Matches: 997, Mismatches: 105, Indels: 38
0.87 0.09 0.03
Matches are distributed among these distances:
384 14 0.01
385 198 0.20
386 27 0.03
390 5 0.01
394 3 0.00
395 1 0.00
398 135 0.14
399 429 0.43
400 179 0.18
401 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (397 bp):
AAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCA
GTATATTTATACCGGTTATATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
GGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTCTG
GACATAAAGTATCGACACAAATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
CCGTATATTTATACCGGTTACATTGTAAAATTACATATTACATTATAATTATGGGTTTCGATGTT
TTTGGGATCGACACTTTTAATAAATATATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATT
CTGGACA
Found at i:1468933 original size:3 final size:3
Alignment explanation
Indices: 1468925--1469023 Score: 114
Period size: 3 Copynumber: 33.0 Consensus size: 3
1468915 CCATTTGTTT
*
1468925 TTA TTA TTA -TA TTA TTA TTA TTA TTG TTA TTA TTA TT- TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
1468969 TCA CTA TTA TTA TT- TTA TTA TTA TTA TATA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A
*
1469015 TTA ATA TTA
1 TTA TTA TTA
1469024 GTACAAACAG
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.07
3 67 0.82
4 9 0.11
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1468961 original size:29 final size:29
Alignment explanation
Indices: 1468919--1469023 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 29
1468909 TTTCATCCAT
*
1468919 TTGTTTTTATTATTATATTATTATTATTA
1 TTGTTATTATTATTATATTATTATTATTA
*
1468948 TTGTTATTATTATTTTATTTATCACTATTATTA
1 TTGTTATTATTATTATA-TTAT---TATTATTA
1468981 TT-TTATTATTATTATA-TATTATTATTA
1 TTGTTATTATTATTATATTATTATTATTA
* *
1469008 TTATTAATTAATATTA
1 TTGTT-ATTATTATTA
1469024 GTACAAACAG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
27 10 0.15
28 2 0.03
29 24 0.36
30 7 0.11
32 13 0.20
33 10 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
TTGTTATTATTATTATATTATTATTATTA
Found at i:1470380 original size:15 final size:15
Alignment explanation
Indices: 1470362--1470405 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1470352 ATTAATTATA
1470362 AATTAGGTAATAATT
1 AATTAGGTAATAATT
**
1470377 AATT-TTTAAATAATT
1 AATTAGGT-AATAATT
1470392 AATTAGGTAATAAT
1 AATTAGGTAATAAT
1470406 ATGTTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
AATTAGGTAATAATT
Found at i:1470510 original size:26 final size:24
Alignment explanation
Indices: 1470464--1470521 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
1470454 ACAAGTTTTA
1470464 TTATTTTTTTACTATTGTTTTAATT
1 TTATTTTTTTACTATTGTTTT-ATT
*
1470489 TTATTTATTTTAGTCATT-TTTTATT
1 TTATTT-TTTTACT-ATTGTTTTATT
1470514 TATATTTT
1 T-TATTTT
1470522 AATTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 11 0.38
26 15 0.52
27 3 0.10
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (24 bp):
TTATTTTTTTACTATTGTTTTATT
Found at i:1472384 original size:36 final size:36
Alignment explanation
Indices: 1472337--1472408 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
1472327 GAGCTATGCA
* *
1472337 CACAAAGATCCTGTTATATTAATACCAAAAGTATTC
1 CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
*
1472373 CACAAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
1472409 TACGGCAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (36 bp):
CACAAAGATCCTGTTAGATTAATACCAAAAGCATTC
Found at i:1480859 original size:22 final size:22
Alignment explanation
Indices: 1480832--1480886 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1480822 ATCTACATTC
1480832 TTCAAAGATGATAGATTCTCTA
1 TTCAAAGATGATAGATTCTCTA
*
1480854 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTA
*
1480876 TTCGAAGATGA
1 TTCAAAGATGA
1480887 ATGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTA
Found at i:1481432 original size:113 final size:113
Alignment explanation
Indices: 1481310--1481785 Score: 582
Period size: 113 Copynumber: 4.1 Consensus size: 113
1481300 GAAGAGGAAT
* *
1481310 AACTTGTTCAACCTTTTGCTCAAATTCATCATTCGATGGATCAACATTGCCAGGTAAAGTTCATA
1 AACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATA
*
1481375 ATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAG
66 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * *
1481423 AACTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCATTGCCAGGTAGAGTTCATA
1 AACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATA
*
1481488 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAG
66 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * * *
1481536 AATTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCAT
1 AACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAG-GTAAAGTTCAT
* *
1481600 AATGAGAAGAACTCATCTGAAG-AGGAATAAGAAGTTCATAATAAGAAG
65 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * * * * *
1481648 AACTTGTTGAACCTTTTGCTTG-ACTCTATCACATAAGGAGATAGATCAACACCAACATTTCCAG
1 AACTTGTTCAACCTTTTGCTCGAATTC-ATCAC-T----CGATGGAT------CAACATTGCCAG
* * * * *
1481712 ATAATGTTCATAATGAGAAAAACTTATATGAA-AAGGAAGAAGAAGTTCATAATGAGAAG
54 GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
*
1481771 AACTTGTTCGACCTT
1 AACTTGTTCAACCTT
1481786 AATTTGATTC
Statistics
Matches: 316, Mismatches: 32, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
111 3 0.01
112 48 0.15
113 184 0.58
114 1 0.00
117 6 0.02
123 74 0.23
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (113 bp):
AACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATA
ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
Found at i:1482149 original size:3 final size:3
Alignment explanation
Indices: 1482141--1482219 Score: 85
Period size: 3 Copynumber: 27.0 Consensus size: 3
1482131 CCATTTGTTT
* *
1482141 TTA TTA TTA -TA TTA TTA TTA -TA TTA TTA TT- TTA TTTA TCA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
1482184 TTA TTA TT- TTA TTA TTA TTA TTAA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1482220 CAAACAGGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.12
3 50 0.78
4 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1482157 original size:11 final size:11
Alignment explanation
Indices: 1482141--1482204 Score: 78
Period size: 11 Copynumber: 5.9 Consensus size: 11
1482131 CCATTTGTTT
1482141 TTATTATTATA
1 TTATTATTATA
1482152 TTATTATTATA
1 TTATTATTATA
*
1482163 TTATTATTTTA
1 TTATTATTATA
*
1482174 -T-TTATCACTA
1 TTATTATTA-TA
*
1482184 TTATTATTTTA
1 TTATTATTATA
1482195 TTATTATTAT
1 TTATTATTAT
1482205 TAATTAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
9 4 0.09
10 3 0.07
11 33 0.75
12 4 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATTATTATA
Found at i:1482188 original size:29 final size:30
Alignment explanation
Indices: 1482141--1482219 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
1482131 CCATTTGTTT
*
1482141 TTATTATT-AT-ATTATTATTATATTATTA
1 TTATTATTAATCAATATTATTATATTATTA
* * *
1482169 TT-TTATTTATCACTATTATTATTTTATTA
1 TTATTATTAATCAATATTATTATATTATTA
*
1482198 TTATTATTAATTAATATTATTA
1 TTATTATTAATCAATATTATTA
1482220 CAAACAGGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 5 0.12
28 4 0.09
29 18 0.42
30 16 0.37
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTATTATTAATCAATATTATTATATTATTA
Found at i:1483760 original size:15 final size:15
Alignment explanation
Indices: 1483742--1483785 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1483732 ATTAATTATA
1483742 AATTATGTAATAATT
1 AATTATGTAATAATT
*
1483757 AATT-TTTAAATAATT
1 AATTATGT-AATAATT
*
1483772 AATTAGGTAATAAT
1 AATTATGTAATAAT
1483786 ATGTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.08
15 21 0.88
16 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
AATTATGTAATAATT
Found at i:1483774 original size:22 final size:22
Alignment explanation
Indices: 1483728--1483774 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1483718 TAAAATTTTA
*
1483728 AATAATTAATTATAAATTATGT
1 AATAATTAATTATAAATAATGT
*
1483750 AATAATTAATTTTTAAATAAT-T
1 AATAATTAA-TTATAAATAATGT
1483772 AAT
1 AAT
1483775 TAGGTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATAATTAATTATAAATAATGT
Found at i:1483901 original size:37 final size:36
Alignment explanation
Indices: 1483839--1483908 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
1483829 TAGATACAAG
*
1483839 TTTTATCATTTTTTACTATAGTTTTAATTTTATTTA
1 TTTTATCATTGTTTACTATAGTTTTAATTTTATTTA
*
1483875 TTTTAGTCATTGTTTATTTATA-TTTTAATTTTAT
1 TTTTA-TCATTGTTTA-CTATAGTTTTAATTTTAT
1483909 ATGTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 5 0.17
37 21 0.70
38 4 0.13
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (36 bp):
TTTTATCATTGTTTACTATAGTTTTAATTTTATTTA
Found at i:1487231 original size:201 final size:199
Alignment explanation
Indices: 1486806--1488352 Score: 1895
Period size: 201 Copynumber: 7.8 Consensus size: 199
1486796 CACGATATTT
* * * * *
1486806 AAAATAGTATCGACACAA-ATTTAAAAAATATCGATAC-T-TTATAATGACCTATTTTCTCAAAA
1 AAAA-AGTATCGACACAATA-TTAAAAAGTGTCGATACATGTTGT-A-GACCTATTCTCTCATAA
* * * **
1486868 AATCGGTATAGTTATACCGGTTATATTTCAAAATTACCTATTACATTATAATTATGGATTTCGAT
62 AACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGAT
* * * * *
1486933 GTTT-TTGGATCGACA-TTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTAGGATTT
126 GTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGGGA-TT
* *
1486996 GATTTTGGAC
190 CATTCTGGAC
* * * *
1487006 AAAAAGTATCGACACAATATAAAAAAGTGTTGATACATGTTGTAGACTTATTCTCCCATAAAACC
1 AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
1487071 GATATATTTATACCGCTTACATTGAAAAATTACCTATTACATTATACTTATAGGTATTCGATGTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGT-TTCGATGTT
* *
1487136 TCTGGGATCGATACTTTTTATAAATGCATCGACACTTTATGGGTGCACCCTTTTTGGGATTTGAT
129 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGGGA-TTCAT
1487201 T-TGGAC
193 TCTGGAC
* *
1487207 AAAAAGTATCGACACAATATAAAAAAGTCTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * *
1487272 AGAATATTTATATCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTT
* *
1487337 CTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATT
130 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTG-GGATTCATT
*
1487402 CTGGTC
194 CTGGAC
* * * **
1487408 AAAATGTATCGACAC-ATAATTAACAAGTTTCGATACATGTTGTAGACCTATTCTCTCATGTAAC
1 AAAAAGTATCGACACAAT-ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* *
1487472 CGGTATATTTATACCGGTTACATTGAAATATTACCTATTACATTATAATTATGGATTTCGAAGAT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGATG-T
* * * * * * *
1487537 TT-TTGGATCGACATTTTTTAAAAATGTATCCACACTTTATGGGTGCACCCTTTTTGGGATTTGA
128 TTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGGGA-TTCA
1487601 TTCTGGAC
192 TTCTGGAC
* * *
1487609 AAAATA-TTTCGACACAATA-TAAAAAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAAT
1 AAAA-AGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* *
1487672 TGGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTT
* * *
1487737 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCAT
129 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTG-GGATTCAT
*
1487802 TCTGGTC
193 TCTGGAC
* * * *
1487809 AAAATGTATCAACAC-ATAATTAAAAAGTGTCGATAGATGTTTTAGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAT-ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
1487873 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGAT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGATG-T
* * * * *
1487938 TT-TTGGATCGACAC--TTTAT---CGG-T-GCACCCTTT-TTGG-G-A-----TTT--G----A
128 TTCTGGGATCGATACTTTTTATAAATGGATCG-ACACTTTATGGGTGCACCCTTTTTGGGATTCA
1487981 TTCTGGAC
192 TTCTGGAC
* *
1487989 AAAAAGTATCGACACAATA-TAAAAATTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
** *
1488053 GGTATATTTATATTGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGTTGTTT
66 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATG-GTTTCGATGTTT
* * *
1488118 CTGGGATCGATACTTTTTATAAATGGATCTACACTTTATGGATGCACCCTTTTTGTGCATTCATT
130 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTG-GGATTCATT
*
1488183 CTGGTC
194 CTGGAC
* * *
1488189 AAAATGTATCGACAC-ATAATTAAAAAGTGTCGATAGATGTTGTAGACCTATTATCTCATAAAAC
1 AAAAAGTATCGACACAAT-ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
*
1488253 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTT
1488318 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
129 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
1488353 ATATGCTTAC
Statistics
Matches: 1166, Mismatches: 129, Indels: 103
0.83 0.09 0.07
Matches are distributed among these distances:
178 3 0.00
179 108 0.09
180 23 0.02
181 7 0.01
184 2 0.00
185 7 0.01
186 2 0.00
187 4 0.00
188 1 0.00
192 1 0.00
193 4 0.00
194 2 0.00
195 7 0.01
196 2 0.00
199 99 0.08
200 280 0.24
201 556 0.48
202 58 0.05
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
AAAAAGTATCGACACAATATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTC
TGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGGGATTCATTCT
GGAC
Found at i:1487729 original size:401 final size:397
Alignment explanation
Indices: 1486806--1488352 Score: 2081
Period size: 401 Copynumber: 3.9 Consensus size: 397
1486796 CACGATATTT
* * * * * *
1486806 AAAATAGTATCGACACAAATTTAAAAAATATCGATAC-T-TTATAATGACCTATTTTCTCAAAAA
1 AAAA-AGTATCGACAC-AATATAAAAAGTGTCGATACATGTTGT-A-GACCTATTCTCTCATAAA
* * ** *
1486869 ATCGGTATAGTTATACCGGTTATATTTCAAAATTACCTATTACATTATAATTATGGATTTCGATG
62 ATCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
* * * * *
1486934 TTT-TTGGATCGA-CATTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTAG-G-ATT
127 TTTCTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGATGCACCCTTTTT-GTGCA-T
* * * * * * *
1486995 TGATTTTGGACAAAAAGTATCGACACA-ATATAAAAAAGTGTTGATACATGTTGTAGACTTATTC
190 TCATTCTGGTCAAAATGTATCGACACATA-ATTAAAAAGTGTCGATACATGTTGTAGACCTATTC
* * * *
1487059 TCCCATAAAACCGATATATTTATACCGCTTACATTGAAAAATTACCTATTACATTATACTTATAG
254 TCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-G
* *
1487124 G-TATTCGATG-TTTCTGGGATCGATACTTTTTATAAATGCATCGACACTTTATGGGTGCACCCT
318 GAT-TTCGATGATTT-TTGGATCGACA-TTTTTA-AAATG-ATC-ACACTTTATGGGTGCACCCT
1487187 TTTTGGGATTTGATT-TGGAC
377 TTTTGGGATTTGATTCTGGAC
* *
1487207 AAAAAGTATCGACACAATATAAAAAAGTCTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAATAT-AAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
* * * *
1487272 AGAATATTTATATCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
1487337 CTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATT
130 CTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATT
* *
1487402 CTGGTCAAAATGTATCGACACATAATTAACAAGTTTCGATACATGTTGTAGACCTATTCTCTCAT
195 CTGGTCAAAATGTATCGACACATAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT
** *
1487467 GTAACCGGTATATTTATACCGGTTACATTGAAATATTACCTATTACATTATAATTATGGATTTCG
260 AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCG
*
1487532 AAGATTTTTGGATCGACATTTTTTAAAAATGTATCCACACTTTATGGGTGCACCCTTTTTGGGAT
325 ATGATTTTTGGATCGACA-TTTTT-AAAATG-AT-CACACTTTATGGGTGCACCCTTTTTGGGAT
1487597 TTGATTCTGGAC
386 TTGATTCTGGAC
* * *
1487609 AAAATA-TTTCGACACAATATAAAAAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAATT
1 AAAA-AGTATCGACACAATATAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
*
1487673 GGTATATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* *
1487738 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCATT
130 CTGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATT
* * *
1487803 CTGGTCAAAATGTATCAACACATAATTAAAAAGTGTCGATAGATGTTTTAGACCTATTCTCTCAT
195 CTGGTCAAAATGTATCGACACATAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT
1487868 AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCG
260 AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCG
*
1487933 ATGATTTTTGGAT---C-----------G---ACACTTTATCGGTGCACCCTTTTTGGGATTTGA
325 ATGATTTTTGGATCGACATTTTTAAAATGATCACACTTTATGGGTGCACCCTTTTTGGGATTTGA
1487981 TTCTGGAC
390 TTCTGGAC
*
1487989 AAAAAGTATCGACACAATATAAAAATTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
1 AAAAAGTATCGACACAATATAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
** * *
1488054 GTATATTTATATTGGTTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGTTGTTTC
66 GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* *
1488119 TGGGATCGATACTTTTTATAAATGGATCTACACTTTATGGATGCACCCTTTTTGTGCATTCATTC
131 TGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATTC
* *
1488184 TGGTCAAAATGTATCGACACATAATTAAAAAGTGTCGATAGATGTTGTAGACCTATTATCTCATA
196 TGGTCAAAATGTATCGACACATAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
* *
1488249 AAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGA
261 AAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGA
* *
1488314 TG-TTTCTGGGATCGATACTTTTTATAAATGGATCGACAC
326 TGATTT-TTGGATCGACA-TTTTTA-AAAT-GATC-ACAC
1488353 ATATGCTTAC
Statistics
Matches: 1027, Mismatches: 82, Indels: 74
0.87 0.07 0.06
Matches are distributed among these distances:
379 4 0.00
380 354 0.34
385 1 0.00
397 1 0.00
398 1 0.00
399 4 0.00
400 98 0.10
401 379 0.37
402 182 0.18
403 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (397 bp):
AAAAAGTATCGACACAATATAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
TGGGATCGATAATTTTTATAAATGGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATTC
TGGTCAAAATGTATCGACACATAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
AAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGA
TGATTTTTGGATCGACATTTTTAAAATGATCACACTTTATGGGTGCACCCTTTTTGGGATTTGAT
TCTGGAC
Found at i:1488062 original size:179 final size:180
Alignment explanation
Indices: 1487761--1488104 Score: 525
Period size: 179 Copynumber: 1.9 Consensus size: 180
1487751 TTTTTATAAA
* *
1487761 TGGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCAACACAT
1 TGGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCATTCTGGACAAAAAGTATCAACACAT
* *
1487826 AATTAAAAAGTGTCGATAGATGTTTTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
66 AATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
1487891 TACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTT
131 TACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTT
* * * *
1487941 TGGATCGACACTTTATCGG-TGCACCCTTTTTG-GGATTTGATTCTGGACAAAAAGTATCGACAC
1 TGGATCGACACTTTA-AGGATGCACCCTTTTTGTGCA-TTCATTCTGGACAAAAAGTATCAACAC
* * **
1488004 --AATATAAAAATTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATATT
64 ATAAT-TAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACC
1488067 GGTTACATTGAAAAATTACCTATTACATTATAATTATG
128 GGTTACATTGAAAAATTACCTATTACATTATAATTATG
1488105 AGTTTCGTTG
Statistics
Matches: 149, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
178 3 0.02
179 93 0.62
180 51 0.34
181 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (180 bp):
TGGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCATTCTGGACAAAAAGTATCAACACAT
AATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
TACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTT
Found at i:1488076 original size:380 final size:382
Alignment explanation
Indices: 1487568--1488334 Score: 1308
Period size: 380 Copynumber: 2.0 Consensus size: 382
1487558 AAATGTATCC
*
1487568 ACACTTTATGGGTGCACCCTTTTTGGGATTTGATTCTGGACAAAATA-TTTCGACACAATATAAA
1 ACACTTTATGGGTGCACCCTTTTTGGGATTTGATTCTGGACAAAATAGTATCGACACAATATAAA
* * *
1487632 AAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAATTGGTATATTTATACCAGTTACATTG
66 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTG
1487697 AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
131 AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
* *
1487762 GGATCGACACTTTAAGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCAACACATA
196 GGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCGACACATA
* *
1487827 ATTAAAAAGTGTCGATAGATGTTTTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
261 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
1487892 ACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTT-TTGGATCG
326 ACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTATTGGATCG
*
1487948 ACACTTTATCGGTGCACCCTTTTTGGGATTTGATTCTGGACAAAA-AGTATCGACACAATATAAA
1 ACACTTTATGGGTGCACCCTTTTTGGGATTTGATTCTGGACAAAATAGTATCGACACAATATAAA
* **
1488012 AATTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATATTGGTTACATTG
66 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTG
* *
1488077 AAAAATTACCTATTACATTATAATTATGAGTTTCGTTGTTTCTGGGATCGATACTTTTTATAAAT
131 AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
*
1488142 GGATCTACACTTTATGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCGACACATA
196 GGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCGACACATA
* *
1488207 ATTAAAAAGTGTCGATAGATGTTGTAGACCTATTATCTCATAAAACCGGTATATTTATACCGGTT
261 ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
* * * *
1488272 ACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG-TTTCTGGGATCG
326 ACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTATTGGATCG
*
1488328 ATACTTT
1 ACACTTT
1488335 TTATAAATGG
Statistics
Matches: 366, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
379 4 0.01
380 362 0.99
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (382 bp):
ACACTTTATGGGTGCACCCTTTTTGGGATTTGATTCTGGACAAAATAGTATCGACACAATATAAA
AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTG
AAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
GGATCGACACTTTATGGATGCACCCTTTTTGTGCATTCATTCTGGTCAAAATGTATCGACACATA
ATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTT
ACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGATTTATTGGATCG
Found at i:1488727 original size:19 final size:19
Alignment explanation
Indices: 1488703--1488750 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1488693 TACATTCAAG
*
1488703 TACAAAATTATAAATCGTA
1 TACAAAATTATAAACCGTA
*
1488722 TACAAAATTATAAACCTTA
1 TACAAAATTATAAACCGTA
1488741 TACAAAATTA
1 TACAAAATTA
1488751 ACCCTACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
TACAAAATTATAAACCGTA
Found at i:1490333 original size:18 final size:18
Alignment explanation
Indices: 1490310--1490348 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1490300 CCTTCCTCAT
1490310 TTCCTCCATCTTTCCTTC
1 TTCCTCCATCTTTCCTTC
* *
1490328 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATCTTTCCTTC
1490346 TTC
1 TTC
1490349 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTTCCTTC
Found at i:1490578 original size:33 final size:33
Alignment explanation
Indices: 1490532--1490597 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1490522 CATCTTAAGA
*
1490532 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
* *
1490565 TCACTCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
1490598 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:1490678 original size:19 final size:19
Alignment explanation
Indices: 1490656--1490708 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
1490646 TTCTCATGTG
1490656 TCTCTTCGACTCTCAAGTT
1 TCTCTTCGACTCTCAAGTT
*
1490675 TCTCTTCAACTCTCTCAAGTT
1 TCTCTTCGA--CTCTCAAGTT
1490696 TCTCTTCGACTCT
1 TCTCTTCGACTCT
1490709 TAATTGTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.40
21 18 0.60
ACGTcount: A:0.15, C:0.34, G:0.08, T:0.43
Consensus pattern (19 bp):
TCTCTTCGACTCTCAAGTT
Found at i:1490811 original size:15 final size:15
Alignment explanation
Indices: 1490791--1490838 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
1490781 ACTCTGTTTT
1490791 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
1490806 CCCTCACCATCATCC
1 CCCTCACCGTCATCC
1490821 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
1490836 CCC
1 CCC
1490839 AATATAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.15, C:0.62, G:0.04, T:0.19
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:1493219 original size:182 final size:182
Alignment explanation
Indices: 1492909--1493384 Score: 735
Period size: 182 Copynumber: 2.6 Consensus size: 182
1492899 TACGCGTACT
* *
1492909 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGG--TTGTCTTTTCGTTACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCGTGACCG
* * *
1492972 GTTTTATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1493037 TTATAGGCCCTAAAATCGT-TTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCCCTAAAA-CGTCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
1493089 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTATCGGTTTTTTCTTTTCGTGATCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCGTGACCG
* *
1493154 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATTGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
** *
1493219 TTATAGGTGCTAAAACTTCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCCCTAAAACGTCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
1493271 TATTAAAGTATTGATACTTTCAATATATCCGGTAGTGCTTTACCGGTTTTGTT-TTTTCGTGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTT-TTCTTTTCGTGACC
* * *
1493335 GGTTTTGTCATATTTTTACCTGTTATATTGATATGGATCGATATATTTTT
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTT
1493385 TTATTTTGAT
Statistics
Matches: 270, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
180 44 0.16
181 2 0.01
182 222 0.82
183 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.45
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTTTCTTTTCGTGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCCCTAAAACGTCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:1494617 original size:45 final size:44
Alignment explanation
Indices: 1494551--1494669 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 44
1494541 TCGAGTAAGA
* ** *
1494551 TGATGTTGATCCAACTTCTTATGTGATGGAATCAAGTGAAAATGG
1 TGATGTTGATCCAACTCCTTATGTGATGGAATCAA-ACAAAAAGG
**
1494596 TGATGTTGATCCAACTCCTTATGACATGGAATCAAACAAAAAGG
1 TGATGTTGATCCAACTCCTTATGTGATGGAATCAAACAAAAAGG
* * *
1494640 TGATGTTTATCTAACTCTTTATGTGATGGA
1 TGATGTTGATCCAACTCCTTATGTGATGGA
1494670 TGAGCCAAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 31 0.49
45 32 0.51
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (44 bp):
TGATGTTGATCCAACTCCTTATGTGATGGAATCAAACAAAAAGG
Found at i:1494669 original size:44 final size:45
Alignment explanation
Indices: 1494551--1494669 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 45
1494541 TCGAGTAAGA
** *
1494551 TGATGTTGATCCAACT-TCTTATGTGATGGAATCAAGTGAAAATGG
1 TGATGTTGATCCAACTCT-TTATGTGATGGAATCAAGACAAAAAGG
* **
1494596 TGATGTTGATCCAACTCCTTATGACATGGAATCAA-ACAAAAAGG
1 TGATGTTGATCCAACTCTTTATGTGATGGAATCAAGACAAAAAGG
* *
1494640 TGATGTTTATCTAACTCTTTATGTGATGGA
1 TGATGTTGATCCAACTCTTTATGTGATGGA
1494670 TGAGCCAAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 31 0.50
45 31 0.50
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTGATCCAACTCTTTATGTGATGGAATCAAGACAAAAAGG
Found at i:1496837 original size:16 final size:16
Alignment explanation
Indices: 1496816--1496849 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1496806 ATCAATGCCT
*
1496816 TTAAGTTTTGTTGAGG
1 TTAAGTTTTATTGAGG
1496832 TTAAGTTTTATTGAGG
1 TTAAGTTTTATTGAGG
1496848 TT
1 TT
1496850 GGAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (16 bp):
TTAAGTTTTATTGAGG
Found at i:1500172 original size:24 final size:20
Alignment explanation
Indices: 1500119--1500176 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
1500109 TTCCCATTGA
*
1500119 AGTGCATCGGTGCATTCTTC
1 AGTGCATCGATGCATTCTTC
1500139 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TT--C
1500162 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1500177 CTACCATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
23 2 0.06
24 13 0.39
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTTC
Found at i:1504057 original size:20 final size:20
Alignment explanation
Indices: 1504032--1504070 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1504022 TTCCCATTGA
*
1504032 AGTGCATCGGTGAATTCTTC
1 AGTGCATCGATGAATTCTTC
*
1504052 AGTGCATCGATGCATTCTT
1 AGTGCATCGATGAATTCTT
1504071 TAACATGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (20 bp):
AGTGCATCGATGAATTCTTC
Found at i:1508060 original size:20 final size:20
Alignment explanation
Indices: 1508035--1508092 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 20
1508025 TTCCCATTGA
1508035 AGTGCATC-AGTGCATTCTTC
1 AGTGCATCGA-TGCATTCTTC
1508055 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TT--C
1508078 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1508093 CTGCCATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.45
21 3 0.09
23 2 0.06
24 13 0.39
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTTC
Found at i:1514161 original size:14 final size:14
Alignment explanation
Indices: 1514138--1514177 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1514128 CCGGGCCTAC
1514138 CCGACCTGCCTGAT
1 CCGACCTGCCTGAT
*
1514152 CCGACTTGCCTGAT
1 CCGACCTGCCTGAT
*
1514166 CCGACCCGCCTG
1 CCGACCTGCCTG
1514178 GTTTGTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.12, C:0.45, G:0.23, T:0.20
Consensus pattern (14 bp):
CCGACCTGCCTGAT
Found at i:1514263 original size:22 final size:22
Alignment explanation
Indices: 1514238--1514296 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1514228 AACGAGTCAC
1514238 CCATTGACGTTGACCGGTCTGA
1 CCATTGACGTTGACCGGTCTGA
* * * *
1514260 CCATTGACTTTTACTGGTTTGA
1 CCATTGACGTTGACCGGTCTGA
1514282 CCATTGATCGTTGAC
1 CCATTGA-CGTTGAC
1514297 TTTGACCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (22 bp):
CCATTGACGTTGACCGGTCTGA
Done.