Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 91
Found at i:8417094 original size:65 final size:64
Alignment explanation
Indices: 8416945--8417098 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 64
8416935 GTGCACTAAG
* *
8416945 AGTGCATCGATGCATCAAGTGCATTCGATGTTTTAAAATAGCCAGAGTGCATTGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGGCT
* * ** * *
8417009 GGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTTAGTGCATCGGTTCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTT-A-AAATAGCCAGAGTGCATCGATGCATGGC
8417072 T
64 T
*
8417073 AAGTGCATCGATGCATGAAATGCATT
1 -AGTGCATCGATGCATCAAATGCATT
8417099 TTATGTTCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 33 0.43
65 41 0.53
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGGCT
Found at i:8418234 original size:21 final size:21
Alignment explanation
Indices: 8418210--8418253 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8418200 CAGGAGGAGG
* *
8418210 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
8418231 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
8418252 AG
1 AG
8418254 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:8418653 original size:44 final size:44
Alignment explanation
Indices: 8418598--8418684 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
8418588 CCACCAAAAG
8418598 ATCATCAAATGGAGAAAAC-GATCATGATGAGATCATAGAGTACA
1 ATCATCAAATGGAGAAAACAG-TCATGATGAGATCATAGAGTACA
* * *
8418642 ATCATCTAATGGAGAAAACAGTCGTGATGAGATCGTAGAGTAC
1 ATCATCAAATGGAGAAAACAGTCATGATGAGATCATAGAGTAC
8418685 TAACACTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (44 bp):
ATCATCAAATGGAGAAAACAGTCATGATGAGATCATAGAGTACA
Found at i:8419935 original size:44 final size:44
Alignment explanation
Indices: 8419847--8419943 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
8419837 GCTCTTGTGC
* *
8419847 ATCGATGCACATTCAAGGGCGTGCATCGGTGCATCAGCTGGTGT
1 ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAGTGT
* *
8419891 ATCGATGCACATTCAAAGGG-ATGCATCGGTGCA-CTGTTAAGTGT
1 ATCGATGCACATTC-AAGGGCATGCATCGGTGCATCAGCT-AGTGT
8419935 ATCGATGCA
1 ATCGATGCA
8419944 TGAACTACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 3 0.06
44 39 0.83
45 5 0.11
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAGTGT
Found at i:8425859 original size:65 final size:65
Alignment explanation
Indices: 8425725--8425885 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
8425715 GTGCACTAAG
* * *
8425725 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATTAATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCAATGCATGGCT
* * * **
8425789 GGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAATGCATCGGTGCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAATGCATCAATGCATGGC
8425852 T
65 T
* *
8425853 AAGTGCATCGATGCATGAAATACATTCGATGTT
1 -AGTGCATCGATGCATCAAATGCATTCGATGTT
8425886 CAATTTAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 30 0.36
65 50 0.60
66 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCAATGCATGGCT
Found at i:8431315 original size:9 final size:9
Alignment explanation
Indices: 8431283--8431307 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8431273 AAAAGGGAAA
8431283 AAATAAAAT
1 AAATAAAAT
8431292 AAATAAAAT
1 AAATAAAAT
8431301 AAATAAA
1 AAATAAA
8431308 TAAGATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:8431375 original size:2 final size:2
Alignment explanation
Indices: 8431368--8431402 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8431358 AAAAAGGAAA
8431368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8431403 CATCAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8431460 original size:38 final size:40
Alignment explanation
Indices: 8431391--8431470 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
8431381 TATATATATA
*
8431391 TATATATATATACATCAAAATATTAATAAAATA-AATAAGC
1 TATATATATATACAACAAAATATTAATAAAATAGAA-AAGC
*
8431431 TATATATATATACAAC-AAATATTTA-AAAATAGAAAAGC
1 TATATATATATACAACAAAATATTAATAAAATAGAAAAGC
8431469 TA
1 TA
8431471 CCCTCTCACT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 10 0.27
40 15 0.41
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (40 bp):
TATATATATATACAACAAAATATTAATAAAATAGAAAAGC
Found at i:8431708 original size:2 final size:2
Alignment explanation
Indices: 8431668--8431692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8431658 AAAAAGCGAA
8431668 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8431693 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8431970 original size:18 final size:17
Alignment explanation
Indices: 8431949--8431991 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
8431939 ATATATACGT
8431949 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
8431967 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
8431984 ATAA-AATA
1 ATAATAATA
8431992 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:8433471 original size:106 final size:106
Alignment explanation
Indices: 8433280--8434135 Score: 1076
Period size: 106 Copynumber: 8.0 Consensus size: 106
8433270 GTATTGTTCT
*
8433280 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCCA-G-AACTGGGAAATTGTTTGTTGA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCT--ATGAAACTGGGAAATTGTTTGTTGA
* * * * *
8433342 CAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTTTGTTGTCTC
63 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * *
8433386 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTCTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
* * * ** *
8433451 CCAACCGTCCCTTCATTGTGAATTTGAACTTGTGTCATCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * *
8433492 GAGTCCAATATCCTTCGCTGTGAAATTGAAATTAGCTCTGAAATTGGGAAATTGTTTGCTGATAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
* *
8433557 CCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * * *
8433598 AAGTCCAATATCATTCGTTGTGAAGTTAAAATTGGCTCTGAAACT-GAAAAGTGGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAA-TTGTTTGTTGACA
* * * *
8433662 ACCAGCCGTCCCTTCATTGTGAAGTTTAACTTGTGTTATCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * *
8433704 AAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
* *
8433769 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* *
8433810 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG--GCT--ATGAAACTGGGAAA-TTGTTTGTT
8433874 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * *
8433920 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
8433985 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * *
8434026 GAGTCCAATATCCTTCGCTGTGAAGGTGAAATCGACTCTGAATGAAACT-GAAAAGTGGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG--GCT--ATGAAACTGGGAAA-TTGTTTGTT
*
8434090 GACAACCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTC
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
8434136 AAGTGGCGCG
Statistics
Matches: 658, Mismatches: 76, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
104 1 0.00
105 5 0.01
106 479 0.73
107 8 0.01
108 6 0.01
109 7 0.01
110 152 0.23
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
Found at i:8433658 original size:212 final size:213
Alignment explanation
Indices: 8433279--8434130 Score: 1201
Period size: 212 Copynumber: 4.0 Consensus size: 213
8433269 AGTATTGTTC
* * * *
8433279 TGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTC-CAGAACTGGGAAATTGTTTGTTGA
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTGCTGA
* * * * * *
8433342 CAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTTTGTTGTCTCGAGTTCAATATCCTTCGCTGT
64 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
* * * ** *
8433407 GAAGTTGAAATTGGCT-ATGAAATTGGGAAA-TTCTTTGTTGACAACCAACCGTCCCTTCATTGT
129 GAAGTTGAAATTGACTCATGAAACT-GAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGT
* *
8433470 GAATTTGAACTTGTGTCATCT
193 GAAGTTGAACTTGTGTTATCT
* * *
8433491 TGAGTCCAATATCCTTCGCTGTGAAATTGAAATTAGCTCTGAAATTGGGAAATTGTTTGCTGATA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACA
* ** * *
8433556 ACCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTTAAGTCCAATATCATTCGTTGTGA
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* *
8433621 AGTTAAAATTGGCTC-TGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAA
131 AGTTGAAATTGACTCATGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAA
*
8433685 GTTTAACTTGTGTTATCT
196 GTTGAACTTGTGTTATCT
*
8433703 TAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACA
* *
8433768 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTTGAGTCCAATATCCTTCGCTGTGA
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* *
8433833 AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
131 AGTTGAAATTGACTC---ATGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGT
*
8433898 GAAGTTGAACTTGTGTTGTCT
193 GAAGTTGAACTTGTGTTATCT
* * * *
8433919 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAATGGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACA
8433984 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* * **
8434049 AGGTGAAATCGACTCTGAATGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTTGTTGT
131 AGTTGAAATTGACTC---ATGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGT
8434114 GAAGTTGAACTTGTGTT
193 GAAGTTGAACTTGTGTT
8434131 GTCTCAAGTG
Statistics
Matches: 579, Mismatches: 53, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
211 4 0.01
212 309 0.53
213 2 0.00
216 264 0.46
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (213 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGCTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGACTCATGAAACTGAAAAGTGGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAA
GTTGAACTTGTGTTATCT
Found at i:8434971 original size:38 final size:38
Alignment explanation
Indices: 8434898--8434971 Score: 116
Period size: 36 Copynumber: 2.0 Consensus size: 38
8434888 GAAACAATTT
* *
8434898 CAAAGGTTTTTTTCCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTATCTCAAGAGAGA
8434936 CAAA-GTTTGTTT-CAAGGGAAACTATCTCAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTATCTCAAGAGAGA
8434972 TAATTGTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 23 0.68
37 7 0.21
38 4 0.12
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (38 bp):
CAAAGGTTTGTTTCCAAGGGAAACTATCTCAAGAGAGA
Found at i:8435488 original size:18 final size:18
Alignment explanation
Indices: 8435461--8435496 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8435451 TGTTGAATCC
* *
8435461 CCAAAGATGCCCTAATAT
1 CCAAAAATGCCCCAATAT
8435479 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
8435497 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:8436583 original size:10 final size:10
Alignment explanation
Indices: 8436570--8436607 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
8436560 TTTGCTTCTT
8436570 TTCTTTTTTG
1 TTCTTTTTTG
8436580 TTCTTGTTTT-
1 TTCTT-TTTTG
8436590 TTCTTTTTTG
1 TTCTTTTTTG
8436600 ATTCTTTT
1 -TTCTTTT
8436608 CTTTTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 10 0.40
11 11 0.44
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTG
Found at i:8436612 original size:21 final size:21
Alignment explanation
Indices: 8436565--8436612 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
8436555 TGATTTTTGC
8436565 TTCTTTTCTTTTTTGTTCTTG
1 TTCTTTTCTTTTTTGTTCTTG
8436586 TT-TTTTCTTTTTTGATTCTT-
1 TTCTTTTCTTTTTTG-TTCTTG
8436606 TTCTTTT
1 TTCTTTT
8436613 TTTGTTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (21 bp):
TTCTTTTCTTTTTTGTTCTTG
Found at i:8436620 original size:16 final size:17
Alignment explanation
Indices: 8436558--8436621 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
8436548 TTCCTTTTGA
*
8436558 TTTTTGCTTCTTTTCTT
1 TTTTTGATTCTTTTCTT
** * *
8436575 TTTTGTTCTTGTTTTTTCT
1 TTTT-TGATTCTTTTCT-T
8436594 TTTTTGATTCTTTTCTT
1 TTTTTGATTCTTTTCTT
8436611 TTTTTG-TTCTT
1 TTTTTGATTCTT
8436622 GATTGAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 5 0.13
17 11 0.29
18 17 0.45
19 5 0.13
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.78
Consensus pattern (17 bp):
TTTTTGATTCTTTTCTT
Found at i:8441733 original size:18 final size:17
Alignment explanation
Indices: 8441710--8441752 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
8441700 ATATATACGT
8441710 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
8441728 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
8441745 ATAA-AATA
1 ATAATAATA
8441753 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:8444243 original size:55 final size:54
Alignment explanation
Indices: 8444195--8444300 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
8444185 ATTTACGTGG
*
8444195 GTTGCACACTCACTACCAATACGAAAATTCATAAACTTATTATGAATTTCTAAGC
1 GTTGCACACACACTACCAATACGAAAATTCATAAACTTATTATGAATTTCT-AGC
* * * * *
8444250 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCT
1 GTTGCACACACACTACCAATACGAAAATTCATAAACTTATTATGAATTTCT
8444301 TACGGAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (54 bp):
GTTGCACACACACTACCAATACGAAAATTCATAAACTTATTATGAATTTCTAGC
Found at i:8444310 original size:32 final size:32
Alignment explanation
Indices: 8444269--8444334 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
8444259 ACAGTGCCCA
8444269 TACGGAAATTCATAAACTTATTATGAATTTCT
1 TACGGAAATTCATAAACTTATTATGAATTTCT
*
8444301 TACGGAAATTTATAAACTTATTATGAATTTCT
1 TACGGAAATTCATAAACTTATTATGAATTTCT
8444333 TA
1 TA
8444335 GTTTTGCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (32 bp):
TACGGAAATTCATAAACTTATTATGAATTTCT
Found at i:8444810 original size:52 final size:53
Alignment explanation
Indices: 8444715--8444831 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 53
8444705 TCTATACTAT
* * * *
8444715 GGTATTGATACTCCCTTTAGGTATCGATGCCATTTCTACATTCTG-GATCCAC
1 GGTATTGATACTCCATTTAGGTATCAATGCCATTTCGACATTCTGAAATCCAC
* * *
8444767 GGTATCGATACTCCATTTCA-GTATCAATGCCATTATGGA-ATTCTGAAATCCAT
1 GGTATTGATACTCCATTT-AGGTATCAATGCCATT-TCGACATTCTGAAATCCAC
8444820 GGTATTGATACT
1 GGTATTGATACT
8444832 TTCCTTTTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 35 0.65
53 19 0.35
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (53 bp):
GGTATTGATACTCCATTTAGGTATCAATGCCATTTCGACATTCTGAAATCCAC
Found at i:8454679 original size:23 final size:23
Alignment explanation
Indices: 8454646--8454702 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
8454636 ATACCATGTA
* * *
8454646 TAAACATAGTTTTCTGGCTCTCG
1 TAAACAGAGTTTTCTGGATCTAG
8454669 TAAACAGAGTTTTCTGGATCTAG
1 TAAACAGAGTTTTCTGGATCTAG
8454692 TAAACAGAGTT
1 TAAACAGAGTT
8454703 GTTCGACTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (23 bp):
TAAACAGAGTTTTCTGGATCTAG
Found at i:8460640 original size:13 final size:13
Alignment explanation
Indices: 8460622--8460648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8460612 TTTCTTTCTT
8460622 TCTTTCTGAAATC
1 TCTTTCTGAAATC
8460635 TCTTTCTGAAATC
1 TCTTTCTGAAATC
8460648 T
1 T
8460649 TTCATTTTCT
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:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TCTTTCTGAAATC
Found at i:8468438 original size:18 final size:18
Alignment explanation
Indices: 8468407--8468458 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8468397 CATGTTACTT
8468407 CATG-TAGTTCATTTAAG
1 CATGTTAGTTCATTTAAG
*
8468424 CATGTTAGTTTATTTAAG
1 CATGTTAGTTCATTTAAG
* *
8468442 TATGTTGGTTCATTTAA
1 CATGTTAGTTCATTTAA
8468459 TAAAGCTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (18 bp):
CATGTTAGTTCATTTAAG
Found at i:8473609 original size:30 final size:30
Alignment explanation
Indices: 8473574--8473640 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
8473564 ACACGATACT
*
8473574 TGATTTTCTGAATATTGT-TTATATGATATC
1 TGATTTTCTGAACATT-TCTTATATGATATC
* *
8473604 TGATTTACTGTACATTTCTTATATGATATC
1 TGATTTTCTGAACATTTCTTATATGATATC
*
8473634 TGTTTTT
1 TGATTTT
8473641 TTATTTATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (30 bp):
TGATTTTCTGAACATTTCTTATATGATATC
Found at i:8480414 original size:29 final size:29
Alignment explanation
Indices: 8480360--8480421 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
8480350 ATCATTTATC
8480360 TGATATCTGATTTATTGTACATTTCTAATA
1 TGATATCTGATTTATTGTACATTTCT-ATA
* *
8480390 TGATCTCTGATTT-TTGTA-TTCTTCTATA
1 TGATATCTGATTTATTGTACAT-TTCTATA
8480418 TGAT
1 TGAT
8480422 TTCTAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 8 0.28
29 9 0.31
30 12 0.41
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.53
Consensus pattern (29 bp):
TGATATCTGATTTATTGTACATTTCTATA
Found at i:8485942 original size:44 final size:44
Alignment explanation
Indices: 8485862--8486390 Score: 648
Period size: 44 Copynumber: 12.0 Consensus size: 44
8485852 ATACCATAAG
* * * * *
8485862 TGGCACCTTCCCGCCAATAATGCACCGCTATACATTTTCGTTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
** * *
8485906 TGGTTCCTTT-AGACCAATAATGCACCGTCATGCATTTTCATTTA
1 TGGCACCTTTCTG-CCAATAATGCACCGTTATGCATTTTCATTTA
* *
8485950 TGACACCTTTCTGCTAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
** * * * * *
8485994 TTACATCTTTCTGCCAATAATGCACCATTATACATTTTTATTTT
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
** *
8486038 TGGCACCTTTCTATCAATAATGCACAGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
8486082 TGACACCTTTCTTCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
8486126 TGGCACCTTTCTGCCAATAATGCGCCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
8486170 TGGAATCTTTCTGCCCATAATGCACCGTTATGCATTTTTATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
8486214 TGACACCTTTCTGCTAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
** * * *
8486258 TGGCATATTTCTTCCAATAATGCACCATTATACATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
8486302 TGGCACCTTTCTGCCAATAATGTACCATTATGCATTTTGATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
8486346 TGGCACATTTCT-CCTAATAATGAACCGTTATGCATTTTTATTTA
1 TGGCACCTTTCTGCC-AATAATGCACCGTTATGCATTTTCATTTA
8486390 T
1 T
8486391 TTCGATAACA
Statistics
Matches: 414, Mismatches: 68, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
43 3 0.01
44 410 0.99
45 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:8492228 original size:44 final size:44
Alignment explanation
Indices: 8492151--8492500 Score: 472
Period size: 44 Copynumber: 8.0 Consensus size: 44
8492141 CCATGAGTGG
* * * *
8492151 CACCTTTGTGTCAATAATGCACTGTTATACATTTTCATTTATGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
*
8492195 CAGCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
** * *
8492239 CATATTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* * *
8492283 CACCTTTCTGCCAATTATGCACCATTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* * *
8492327 CACCTTTATGCCAATAATGCATCGTTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* *
8492371 CACTTTTCTGCCAATAATGCACCGTTGTGCATTTTCATTTATAGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT-GA
* *
8492416 -ACCTTTATGCCAATAATGCACCATTATGCATTTTCATTTATGGA
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT-GA
*
8492460 TCA--TTTCTTCCAATAATGCACCGTTATGCATTTTCATTTAT
1 -CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
8492501 TTTGGTAACA
Statistics
Matches: 272, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
44 270 0.99
45 1 0.00
46 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.41
Consensus pattern (44 bp):
CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
Found at i:8492330 original size:25 final size:24
Alignment explanation
Indices: 8492257--8492337 Score: 64
Period size: 25 Copynumber: 3.5 Consensus size: 24
8492247 TGCCAATAAT
*
8492257 GCACCGTTATGCATTTTTATTTATG
1 GCACC-TTATGCATTTTCATTTATG
** *
8492282 GCACCTT-T-C--TGCCAATTAT-
1 GCACCTTATGCATTTTCATTTATG
8492301 GCACCATTATGCATTTTCATTTATG
1 GCACC-TTATGCATTTTCATTTATG
8492326 GCACCTTTATGC
1 GCACC-TTATGC
8492338 CAATAATGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 5 0.12
20 8 0.19
21 1 0.02
22 2 0.05
23 1 0.02
24 9 0.21
25 16 0.38
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (24 bp):
GCACCTTATGCATTTTCATTTATG
Found at i:8501452 original size:13 final size:13
Alignment explanation
Indices: 8501434--8501479 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
8501424 CATCTAACTA
8501434 ATTTTTATTTTTT
1 ATTTTTATTTTTT
8501447 ATTTTTA-TTTTT
1 ATTTTTATTTTTT
8501459 ATTTTTATTTTTT
1 ATTTTTATTTTTT
8501472 ATATTTTA
1 AT-TTTTA
8501480 ATGTATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.39
13 14 0.45
14 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:8501479 original size:7 final size:6
Alignment explanation
Indices: 8501434--8501470 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
8501424 CATCTAACTA
8501434 ATTTTT ATTTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT
8501471 TATATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
ATTTTT
Found at i:8501486 original size:25 final size:25
Alignment explanation
Indices: 8501434--8501487 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
8501424 CATCTAACTA
* *
8501434 ATTTTTATTTTTTATTTTTATTTTT
1 ATTTTTATTTTTTATTTTTATATGT
8501459 ATTTTTATTTTTTATATTTTA-ATGT
1 ATTTTTATTTTTTAT-TTTTATATGT
8501484 ATTT
1 ATTT
8501488 GTTTACATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (25 bp):
ATTTTTATTTTTTATTTTTATATGT
Found at i:8504834 original size:12 final size:11
Alignment explanation
Indices: 8504806--8504835 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
8504796 ACTTAGTGGA
8504806 TCTAAGATTTT
1 TCTAAGATTTT
8504817 TCTAAGATTTT
1 TCTAAGATTTT
8504828 TCTTAAGA
1 TC-TAAGA
8504836 GTGGTTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (11 bp):
TCTAAGATTTT
Found at i:8506538 original size:38 final size:38
Alignment explanation
Indices: 8506490--8506566 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
8506480 CCTAAACCTG
*
8506490 AACCCGACCCGA-TCCGACCTGAATATCACACGTAAAAA
1 AACCCGACCCGACT-CGACCCGAATATCACACGTAAAAA
* *
8506528 AACCTGACCCGACTCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACTCGACCCGAATATCACACGTAAAAA
8506566 A
1 A
8506567 TCCGACCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.34, G:0.12, T:0.14
Consensus pattern (38 bp):
AACCCGACCCGACTCGACCCGAATATCACACGTAAAAA
Found at i:8506751 original size:263 final size:259
Alignment explanation
Indices: 8506275--8507071 Score: 1122
Period size: 268 Copynumber: 3.1 Consensus size: 259
8506265 CCCGAACCCG
*
8506275 ACCCGACCCGACCTGACCCGAATATCACACTTAAAAAACCAGACCCGACCTGAACAAAATAAAGT
1 ACCCGACCCGACC-GACCCGAATATCACACTTAAAAAACC-GA-CCGACCCGAACAAAATAAAGT
*
8506340 TTCATCCGACCCGACCTGAATATATGAATTAGAAA--T---CCGACCC-A---AAATAATAAAAA
63 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCGAAATAATAAAAA
* *
8506396 ATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCAGACTCGAATTATATATATTTTCGGG
128 ATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGG
* *
8506461 TGGATCCGGGTTTTTTCACCCTAAACCTGAACCCGACCCGATCCGACCTGAATATCACACGTAAA
193 TGG-TTCGGGTTTTTTCACCCTAAACCTGAACCCGACCCGATCCGACCTGAATATCACACTTAAA
8506526 AAA
257 AAA
*
8506529 ACCTGACCCGACTCGACCCGAATATCACACTTAAAAAATCCGACCTGACCCGAACAAAATAAAGT
1 ACCCGACCCGAC-CGACCCGAATATCACACTTAAAAAA-CCGACC-GACCCGAACAAAATAAAGT
* *
8506594 TTCATCAGACCCGACCCAAATATATGAATTAGAAATCTGACCCGACCCGACCCGAAATAAT-AAA
63 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGA-CCGAAATAATAAAA
*
8506658 AATAATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGG
127 AATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGG
*
8506723 GTCGGTTCGGGTTTTTTCACCCTAAACCTGAACCCGACCCAATCCGATCCGACTCGAATATCACA
192 GT-GGTTCGGGTTTTTTCACCCTAAACCTGAACCCGACCCGATCCGA--C--CT-GAATATCACA
8506788 CTTAAAAAA
251 CTTAAAAAA
*
8506797 ACCCGACCCGACTCGACCCAAATATCACACTTAAAAAACCCGATCCGACCCGAACAAAATAAAGT
1 ACCCGACCCGAC-CGACCCGAATATCACACTTAAAAAA-CCGA-CCGACCCGAACAAAATAAAGT
*
8506862 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCTGAAATAATAAAA
63 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACC-GAAATAATAAAA
* * * *
8506927 AATTATTTTTCTTTAATAAAAATAGTGACTTAATCCGACCCGACCTGAATTATATATGTTTTCGG
127 AATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGG
* * *
8506992 GTTGG-TCCGGTTTTTTCACCTTAAACCCGAACCCGACCCGA--C--CC-GAATATCACACTTAA
192 G-TGGTTCGGGTTTTTTCACCCTAAACCTGAACCCGACCCGATCCGACCTGAATATCACACTTAA
8507051 AAAA
256 AAAA
*
8507055 ACCCGATCCGACCGACC
1 ACCCGACCCGACCGACC
8507072 AAAATAAAGT
Statistics
Matches: 493, Mismatches: 27, Indels: 43
0.88 0.05 0.08
Matches are distributed among these distances:
253 2 0.00
254 87 0.18
255 3 0.01
256 1 0.00
257 5 0.01
258 30 0.06
259 7 0.01
260 2 0.00
262 1 0.00
263 107 0.22
264 9 0.02
265 1 0.00
266 1 0.00
267 4 0.01
268 164 0.33
269 68 0.14
270 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (259 bp):
ACCCGACCCGACCGACCCGAATATCACACTTAAAAAACCGACCGACCCGAACAAAATAAAGTTTC
ATCCGACCCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCGAAATAATAAAAAATT
ATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTGG
TTCGGGTTTTTTCACCCTAAACCTGAACCCGACCCGATCCGACCTGAATATCACACTTAAAAAA
Found at i:8506857 original size:37 final size:38
Alignment explanation
Indices: 8506779--8506857 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 38
8506769 ATCCGACTCG
* * *
8506779 AATATCACACTTAAAAAAACCCGACCCGACTCGACCCA
1 AATATCACACTTAAAAAAACCCGACCCGACCCGAACAA
*
8506817 AATATCACACTT-AAAAAACCCGATCCGACCCGAACAA
1 AATATCACACTTAAAAAAACCCGACCCGACCCGAACAA
8506854 AATA
1 AATA
8506858 AAGTTTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.46, C:0.33, G:0.08, T:0.14
Consensus pattern (38 bp):
AATATCACACTTAAAAAAACCCGACCCGACCCGAACAA
Found at i:8522979 original size:43 final size:43
Alignment explanation
Indices: 8522918--8523001 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
8522908 TGATACGTTG
*
8522918 CTATGGAATCAGGTGAAGATTAGGGATAAGTCTCAATCTCATA
1 CTATGGAAACAGGTGAAGATTAGGGATAAGTCTCAATCTCATA
*
8522961 CTATGGAAACAGGTGAAGATTCGGGATAAGTCTCAATCTCA
1 CTATGGAAACAGGTGAAGATTAGGGATAAGTCTCAATCTCA
8523002 AACTCTACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (43 bp):
CTATGGAAACAGGTGAAGATTAGGGATAAGTCTCAATCTCATA
Found at i:8532341 original size:22 final size:22
Alignment explanation
Indices: 8532309--8532357 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
8532299 AAAAAATCCG
*
8532309 CAACTCAAATTCGCCAATTTCA
1 CAACTCAAATTCACCAATTTCA
* *
8532331 CAACTCGAATTCACCAATTTCG
1 CAACTCAAATTCACCAATTTCA
8532353 CAACT
1 CAACT
8532358 TAATTACCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.33, G:0.06, T:0.27
Consensus pattern (22 bp):
CAACTCAAATTCACCAATTTCA
Found at i:8533928 original size:12 final size:12
Alignment explanation
Indices: 8533911--8533936 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8533901 AAATGATAAC
8533911 AGATAGGGGATA
1 AGATAGGGGATA
8533923 AGATAGGGGATA
1 AGATAGGGGATA
8533935 AG
1 AG
8533937 TGTTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (12 bp):
AGATAGGGGATA
Found at i:8539323 original size:2 final size:2
Alignment explanation
Indices: 8539316--8539346 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8539306 ATGCATGATT
8539316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8539347 CATTTATCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8540380 original size:13 final size:13
Alignment explanation
Indices: 8540362--8540389 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8540352 GAAGTCAACC
8540362 TGGTGGAGAACAA
1 TGGTGGAGAACAA
8540375 TGGTGGAGAACAA
1 TGGTGGAGAACAA
8540388 TG
1 TG
8540390 TTGAGTAAAT
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:0.36, C:0.07, G:0.39, T:0.18
Consensus pattern (13 bp):
TGGTGGAGAACAA
Found at i:8544554 original size:2 final size:2
Alignment explanation
Indices: 8544549--8544580 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8544539 AAAATTCTAT
8544549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8544581 AGGAAAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8545375 original size:21 final size:21
Alignment explanation
Indices: 8545333--8545375 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8545323 TTTATCATAG
* *
8545333 TTACAAATATAATATATGTTA
1 TTACAAATATAATAAATATTA
* *
8545354 TTACAATTATTATAAATATTA
1 TTACAAATATAATAAATATTA
8545375 T
1 T
8545376 AGTTATACAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TTACAAATATAATAAATATTA
Found at i:8546049 original size:5 final size:5
Alignment explanation
Indices: 8546041--8546168 Score: 170
Period size: 5 Copynumber: 25.4 Consensus size: 5
8546031 AAATTCGGTC
* *
8546041 ATATC ATATC ATATT ATATT ATATAT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT
8546092 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT-TAT ATTATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T A-TATT
* * *
8546143 AAATT GTATT GTATT ATATT A-ATT AT
1 ATATT ATATT ATATT ATATT ATATT AT
8546169 TTACTATTTT
Statistics
Matches: 113, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
4 5 0.04
5 99 0.88
6 8 0.07
7 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:8547188 original size:19 final size:21
Alignment explanation
Indices: 8547164--8547202 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8547154 TATAACCTAA
*
8547164 TAACAA-ATTTTAAA-AATAT
1 TAACAATAATTTAAATAATAT
8547183 TAACAATAATTTAAATAATA
1 TAACAATAATTTAAATAATA
8547203 AAATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TAACAATAATTTAAATAATAT
Found at i:8548012 original size:22 final size:21
Alignment explanation
Indices: 8547983--8548023 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8547973 AGTAATTAAT
8547983 TTTA-TTTTTAATATGTTTATA
1 TTTATTTTTTAA-ATGTTTATA
8548004 TTTACTTTTTTAAATGTTTA
1 TTTA-TTTTTTAAATGTTTA
8548024 AATACTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTATTTTTTAAATGTTTATA
Found at i:8553259 original size:21 final size:21
Alignment explanation
Indices: 8553234--8553280 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
8553224 TGACACCAGG
*
8553234 TTCAGTTCGGGTTACTTTCAT
1 TTCAGATCGGGTTACTTTCAT
8553255 TTCAGATCGGGTTACTTTCAT
1 TTCAGATCGGGTTACTTTCAT
8553276 TTCAG
1 TTCAG
8553281 GTCGATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
TTCAGATCGGGTTACTTTCAT
Found at i:8553968 original size:2 final size:2
Alignment explanation
Indices: 8553957--8554147 Score: 124
Period size: 2 Copynumber: 92.0 Consensus size: 2
8553947 GTAAAACATT
8553957 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
8553997 -A TA TA GTA TA TA TA AA CTA TG TA GTG TA TA TA TGA -A CTA TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA -TA TA TA
* * * * *
8554040 TA AA CTA TA T- TA TG TA CTA TA TA TA AA CTA TA TA CTT TA TA GTT
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA -TA
* *
8554084 TA T- TGA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTT TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
*
8554126 TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
8554148 GTTTATATTA
Statistics
Matches: 148, Mismatches: 22, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
1 6 0.04
2 127 0.86
3 15 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8554027 original size:43 final size:43
Alignment explanation
Indices: 8553957--8554147 Score: 144
Period size: 42 Copynumber: 4.3 Consensus size: 43
8553947 GTAAAACATT
* *
8553957 TATA-ATATATATATA-TATATA-TATATATATATATATATTA
1 TATATATATATATAAACTATATAGTTTATATATATATATATTA
*
8553997 -ATATAGTATATATAAACTATGTAGTGTATATATGAACTATATATAAACTATA
1 TATATA-TATATATAAACTATATAGT-T-TATAT--A-TATATAT--A-T-TA
* * *
8554049 TTATGTACTATATATAAACTATATACTTTATAGTTTAT-TGATA-TA
1 -TATATA-TATATATAAACTATATAGTTTATA-TATATAT-ATATTA
8554094 TATATATATATATAAACTATATAGTTTATATATATATATA-TA
1 TATATATATATATAAACTATATAGTTTATATATATATATATTA
*
8554136 TATATATCTATA
1 TATATATATATA
8554148 GTTTATATTA
Statistics
Matches: 121, Mismatches: 12, Indels: 34
0.72 0.07 0.20
Matches are distributed among these distances:
39 3 0.02
40 1 0.01
41 9 0.07
42 25 0.21
43 25 0.21
44 5 0.04
45 7 0.06
47 1 0.01
48 8 0.07
49 1 0.01
50 6 0.05
51 1 0.01
52 6 0.05
53 2 0.02
54 21 0.17
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (43 bp):
TATATATATATATAAACTATATAGTTTATATATATATATATTA
Found at i:8554039 original size:11 final size:11
Alignment explanation
Indices: 8554023--8554073 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
8554013 CTATGTAGTG
*
8554023 TATATATGAAC
1 TATATATAAAC
8554034 TATATATAAAC
1 TATATATAAAC
**
8554045 TATATTATGTAC
1 TATA-TATAAAC
8554057 TATATATAAAC
1 TATATATAAAC
8554068 TATATA
1 TATATA
8554074 CTTTATAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (11 bp):
TATATATAAAC
Found at i:8554058 original size:23 final size:23
Alignment explanation
Indices: 8554023--8554072 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
8554013 CTATGTAGTG
8554023 TATA-TATGAACTATATATAAAC
1 TATATTATGAACTATATATAAAC
*
8554045 TATATTATGTACTATATATAAAC
1 TATATTATGAACTATATATAAAC
8554068 TATAT
1 TATAT
8554073 ACTTTATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (23 bp):
TATATTATGAACTATATATAAAC
Found at i:8554120 original size:36 final size:36
Alignment explanation
Indices: 8553968--8554142 Score: 138
Period size: 36 Copynumber: 4.6 Consensus size: 36
8553958 ATAATATATA
* * *
8553968 TATATATATATATATATATATATATATTAATATAGTA
1 TATATATATATATATATATATATAAACT-ATATAGTT
* * * * *
8554005 TATATAAACTATGTAGTGTATATATGAACTATATA-TAAAC
1 TATATATA-TATATA-TATATATATAAACTATATAGT---T
* * * *
8554045 TATATTATGTACTATATATAAACTATATACTTTATAGTT
1 TATA-TATATA-TATATATATA-TATAAACTATATAGTT
8554084 TAT-TGATATATATATATATATATAAACTATATAGTT
1 TATAT-ATATATATATATATATATAAACTATATAGTT
8554120 TATATATATATATATATATATAT
1 TATATATATATATATATATATAT
8554143 CTATAGTTTA
Statistics
Matches: 107, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
36 35 0.33
37 19 0.18
38 14 0.13
39 13 0.12
40 10 0.09
41 15 0.14
42 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATATATATATATATATATATAAACTATATAGTT
Found at i:8554248 original size:18 final size:18
Alignment explanation
Indices: 8554222--8554266 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8554212 TATAGTTCAT
8554222 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
8554240 TAGTTTATATAAATTATA
1 TAGTATATATAAACTATA
*
8554258 TATTATATA
1 TAGTATATA
8554267 GTTCATTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:8569989 original size:30 final size:30
Alignment explanation
Indices: 8569953--8570012 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8569943 TAAAGTAAGG
8569953 GGGAGTAATTTCAAAACTTGATTTCAAAAT
1 GGGAGTAATTTCAAAACTTGATTTCAAAAT
8569983 GGGAGTAATTTCAAAACTTGATTTCAAAAT
1 GGGAGTAATTTCAAAACTTGATTTCAAAAT
8570013 CTTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (30 bp):
GGGAGTAATTTCAAAACTTGATTTCAAAAT
Found at i:8579014 original size:149 final size:149
Alignment explanation
Indices: 8578744--8579043 Score: 528
Period size: 149 Copynumber: 2.0 Consensus size: 149
8578734 AAATTTTGTG
** **
8578744 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGTGATTTAGAGTGGTTTGACTTTCTCAATCA
1 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAAAGATTTAGAGTGGTTCAACTTTCTCAATCA
*
8578809 AAGGCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
66 AAGGCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAAAAAATTCACTAATTTGTTC
8578874 TTTCTTTTGAGGCCAAAGA
131 TTTCTTTTGAGGCCAAAGA
8578893 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAAAGATTTAGAGTGGTTCAACTTTCTCAATCA
1 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAAAGATTTAGAGTGGTTCAACTTTCTCAATCA
* * *
8578958 AAGTCTACGTCCACTACCTTAGCTATTCATACTAAGGATTTTCCAAAAAATTCACTAATTTGTTC
66 AAGGCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAAAAAATTCACTAATTTGTTC
8579023 TTTCTTTTGAGGCCAAAGA
131 TTTCTTTTGAGGCCAAAGA
8579042 GA
1 GA
8579044 TAACCTTACA
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (149 bp):
GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAAAGATTTAGAGTGGTTCAACTTTCTCAATCA
AAGGCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAAAAAATTCACTAATTTGTTC
TTTCTTTTGAGGCCAAAGA
Found at i:8587724 original size:149 final size:149
Alignment explanation
Indices: 8587454--8587902 Score: 844
Period size: 149 Copynumber: 3.0 Consensus size: 149
8587444 AAATTTTGTG
8587454 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
1 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
* *
8587519 AAGTCTACGTCCACTACCTTAGCTATCCAAACTAAGGATTTTCCAAAAAATTCACTAATTTGTTC
66 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
8587584 TTTCTTTTCAGGCCAAAGA
131 TTTCTTTTCAGGCCAAAGA
*
8587603 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGTGATTTAGAGTGGTTCGACTTTCTCAATCA
1 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
8587668 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
66 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
8587733 TTTCTTTTCAGGCCAAAGA
131 TTTCTTTTCAGGCCAAAGA
*
8587752 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCATAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
1 GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
*
8587817 AAGTCTACGTCCACTACCTTAGCTATCCACAGTAAGGATTTTCCAACAAATTCACTAATTTGTTC
66 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
*
8587882 TTTCTTTTGAGGCCAAAGA
131 TTTCTTTTCAGGCCAAAGA
8587901 GA
1 GA
8587903 TAACCTCACC
Statistics
Matches: 293, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 293 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (149 bp):
GAAGCTTTTGCAGAAAATTGAAAGTATTTGCACAGCGATTTAGAGTGGTTCGACTTTCTCAATCA
AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
TTTCTTTTCAGGCCAAAGA
Found at i:8589010 original size:54 final size:54
Alignment explanation
Indices: 8588947--8589384 Score: 466
Period size: 54 Copynumber: 8.2 Consensus size: 54
8588937 ATTCATAACA
* * * *
8588947 GAATTCATAATAAGTTTATAAACAACTGTATCAGCACTAAGTGTGCAACCCAAG
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCAAG
** * *
8589001 GAATTCATAATATGTTTATGAACGACCGTATC-GACACTAAGTACGCTACCCATG
1 GAATTCATAATATGTTTATGAACGACCGTATCAG-CACTAAGTGTGCAACCCAAG
* * * *
8589055 GAATTCATAATATGTTTATGAACAATCGTATCGGCACTAAATGTGCAACCCACA-
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCA-AG
* *
8589109 GAATTCGTAATATGTTTATGAATGACC-TATCAGCACTAAGTGTGCAACCCACA-
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCA-AG
* *
8589162 -AATTTCATAATATGTTTATGAATGACCGTATC-GACACTAAGTGTGCAGCCCATA-
1 GAA-TTCATAATATGTTTATGAACGACCGTATCAG-CACTAAGTGTGCAACCCA-AG
* * *
8589216 GAATTCGTAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGTAACCCACG
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCAAG
* * * * *
8589270 GAATTCATAATA---TTATAAACGACCATATCGGCACTAAGTGTGCAACCTACG
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCAAG
* ** * * *
8589321 GAATTCATAATATGTTTATAAACGATTGTATCGGCACTACGTGTGC-ACCCAAA
1 GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCAAG
*
8589374 GAATTTATAAT
1 GAATTCATAAT
8589385 GATTTGAAAT
Statistics
Matches: 329, Mismatches: 43, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
51 46 0.14
52 2 0.01
53 63 0.19
54 214 0.65
55 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (54 bp):
GAATTCATAATATGTTTATGAACGACCGTATCAGCACTAAGTGTGCAACCCAAG
Found at i:8589255 original size:161 final size:157
Alignment explanation
Indices: 8588944--8589384 Score: 517
Period size: 161 Copynumber: 2.7 Consensus size: 157
8588934 AAAATTCATA
* **
8588944 ACAGAATTCATAATAAGTTTATAAACAACTGTATCAGCACTAAGTGTGCAACCCA-AGGAATTCA
1 ACAGAATTCATAAT-A--TTATAAACGACCATATCAGCACTAAGTGTGCAACCCACA--AATTCA
** *
8589008 TAATATGTTTATGAACGACCGTATCGACACTAAGTACGCTACCCATGGAATTCATAATATGTTTA
61 TAATATGTTTATGAACGACCGTATCGACACTAAGTGTGC-ACCCATAGAATTCATAATATGTTTA
* *
8589073 TGAACAATCGTATCGGCACTAAATGTGCAACCC
125 TGAACAACCGTATCAGCACTAAATGTGCAACCC
* * *
8589106 ACAGAATTCGTAATATGTTTATGAATGACC-TATCAGCACTAAGTGTGCAACCCACAAATTTCAT
1 ACAGAATTCATAATA---TTATAAACGACCATATCAGCACTAAGTGTGCAACCCACAAA-TTCAT
* *
8589170 AATATGTTTATGAATGACCGTATCGACACTAAGTGTGCAGCCCATAGAATTCGTAATATGTTTAT
62 AATATGTTTATGAACGACCGTATCGACACTAAGTGTGCA-CCCATAGAATTCATAATATGTTTAT
* * *
8589235 GAACGACCGTATCAGCACTAAGTGTGTAACCC
126 GAACAACCGTATCAGCACTAAATGTGCAACCC
* * * *
8589267 ACGGAATTCATAATATTATAAACGACCATATCGGCACTAAGTGTGCAACCTACGGAATTCATAAT
1 ACAGAATTCATAATATTATAAACGACCATATCAGCACTAAGTGTGCAACCCAC-AAATTCATAAT
* ** * * * *
8589332 ATGTTTATAAACGATTGTATCGGCACTACGTGTGCACCCAAAGAATTTATAAT
65 ATGTTTATGAACGACCGTATCGACACTAAGTGTGCACCCATAGAATTCATAAT
8589385 GATTTGAAAT
Statistics
Matches: 242, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
158 24 0.10
159 61 0.25
160 5 0.02
161 128 0.53
162 24 0.10
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (157 bp):
ACAGAATTCATAATATTATAAACGACCATATCAGCACTAAGTGTGCAACCCACAAATTCATAATA
TGTTTATGAACGACCGTATCGACACTAAGTGTGCACCCATAGAATTCATAATATGTTTATGAACA
ACCGTATCAGCACTAAATGTGCAACCC
Found at i:8590657 original size:14 final size:14
Alignment explanation
Indices: 8590633--8590671 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8590623 GATTATATTG
* *
8590633 AAGATTTATAACAT
1 AAGAATTATAAAAT
*
8590647 ACGAATTATAAAAT
1 AAGAATTATAAAAT
8590661 AAGAATTATAA
1 AAGAATTATAA
8590672 TTAATATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (14 bp):
AAGAATTATAAAAT
Found at i:8590853 original size:16 final size:16
Alignment explanation
Indices: 8590800--8590854 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
8590790 CGGATCATTT
*
8590800 ACAGGTCAGCTTGAAA
1 ACAGGTCAGGTTGAAA
* * *
8590816 ACAAGTCAGGTTCATA
1 ACAGGTCAGGTTGAAA
8590832 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
*
8590848 ATAGGTC
1 ACAGGTC
8590855 GGGTAATACC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:8591536 original size:14 final size:16
Alignment explanation
Indices: 8591517--8591550 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
8591507 AAAGAAAAAT
8591517 AAATAAATA-AAT-AA
1 AAATAAATATAATGAA
8591531 AAATAAATATAATGAA
1 AAATAAATATAATGAA
8591547 AAAT
1 AAAT
8591551 TAAAATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 3 0.17
16 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATAAATATAATGAA
Found at i:8591538 original size:22 final size:22
Alignment explanation
Indices: 8591513--8591557 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8591503 ATTCAAAGAA
8591513 AAATA-AATAAATAAATAAAAAT
1 AAATATAATAAA-AAATAAAAAT
* *
8591535 AAATATAATGAAAAATTAAAAT
1 AAATATAATAAAAAATAAAAAT
8591557 A
1 A
8591558 GGTTGTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATATAATAAAAAATAAAAAT
Found at i:8598047 original size:29 final size:29
Alignment explanation
Indices: 8598024--8598108 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
8598014 CCATTATTCT
*
8598024 TTTACTCAATAGTGTTTAACCATTCATTG
1 TTTACTCAATAGTATTTAACCATTCATTG
* *
8598053 TTTACTCAATAGTATTTAACCGTTCAACT-
1 TTTACTCAATAGTATTTAACCATTC-ATTG
* * *
8598082 TTTACCCAACAGTATTTAACTATTCAT
1 TTTACTCAATAGTATTTAACCATTCAT
8598109 CTATCTAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.02
29 44 0.94
30 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTACTCAATAGTATTTAACCATTCATTG
Found at i:8598217 original size:29 final size:29
Alignment explanation
Indices: 8598162--8598220 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8598152 GCCATTATTA
* * *
8598162 TTTTAGTCAACAGTGTTTGACCATTCATC
1 TTTTACTCAACAGTATTTAACCATTCATC
*
8598191 TTTTACTCAACAGTATTTAACCGTTCATC
1 TTTTACTCAACAGTATTTAACCATTCATC
8598220 T
1 T
8598221 AACTGGCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTTACTCAACAGTATTTAACCATTCATC
Found at i:8598744 original size:45 final size:44
Alignment explanation
Indices: 8598680--8599139 Score: 311
Period size: 45 Copynumber: 11.5 Consensus size: 44
8598670 TTTTATGTCT
8598680 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-CTATGGCATCCTTTCATGCCA
* *
8598725 ATAATGCACCCATATGCA-TT-A-T-T--C-T-C-TT-ATTCCG
1 ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
* *
8598759 ATAATGCACCTATATGCATTTCATCTATGGTATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-CTATGGCATCCTTTCATGCCA
8598804 ATAATGCACCCATATGCA-TT-A-T-T--C-T--TTT-ATGCCA
1 ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
* * *
8598838 ATATTGCACCCATATGCATTTCAACTATGGCAACATTTCATGCCA
1 ATAATGCACCCATATGCATTTC-ACTATGGCATCCTTTCATGCCA
* * * *
8598883 ATAATGTACCCCTTTGCA-TT-A-T-T--C-T--TTT-ATGCCG
1 ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
*
8598917 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-CTATGGCATCCTTTCATGCCA
* *
8598962 ATAATGCACCCAGATGCA-TT-A-T-T--C-T--TTT-ATGACA
1 ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
*
8598996 ATAAAT-CACCCATATGCATTTCAGCTATGGCATCTTTTCATGCCA
1 AT-AATGCACCCATATGCATTTCA-CTATGGCATCCTTTCATGCCA
* * *
8599041 ATAATGCACACATATGCA-TT-A-T-T--C-T-C-TT-ATGTCG
1 ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
* * *
8599075 ATAATACACCCATATGCATTTCAACTATGACATCCTTTCATGGCA
1 ATAATGCACCCATATGCATTTC-ACTATGGCATCCTTTCATGCCA
8599120 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
8599140 ATTCTTTTAT
Statistics
Matches: 325, Mismatches: 33, Indels: 114
0.69 0.07 0.24
Matches are distributed among these distances:
34 102 0.31
35 26 0.08
36 4 0.01
37 6 0.02
38 9 0.03
39 5 0.02
40 5 0.02
41 9 0.03
42 5 0.02
43 6 0.02
44 26 0.08
45 122 0.38
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCACTATGGCATCCTTTCATGCCA
Found at i:8598811 original size:79 final size:79
Alignment explanation
Indices: 8598669--8599149 Score: 703
Period size: 79 Copynumber: 6.1 Consensus size: 79
8598659 ATATAGTATA
* *
8598669 CTTTTATGTCTATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
8598734 CCATATGCATTATT
66 CCATATGCATTATT
* * * * *
8598748 CTCTTATTCCGATAATGCACCTATATGCATTTCATCTATGGTATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
8598813 CCATATGCATTATT
66 CCATATGCATTATT
* * * * * *
8598827 CTTTTATGCCAATATTGCACCCATATGCATTTCAACTATGGCAACATTTCATGCCAATAATGTAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
* *
8598892 CCCTTTGCATTATT
66 CCATATGCATTATT
*
8598906 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
8598971 CCAGATGCATTATT
66 CCATATGCATTATT
* * *
8598985 CTTTTATGACAATAAAT-CACCCATATGCATTTCAGCTATGGCATCTTTTCATGCCAATAATGCA
1 CTTTTATGCCGAT-AATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCA
*
8599049 CACATATGCATTATT
65 CCCATATGCATTATT
* * * * * *
8599064 CTCTTATGTCGATAATACACCCATATGCATTTCAACTATGACATCCTTTCATGGCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
8599129 CCATATGCATTATT
66 CCATATGCATTATT
8599143 CTTTTAT
1 CTTTTAT
8599150 TCATTCGTTC
Statistics
Matches: 356, Mismatches: 44, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
78 3 0.01
79 350 0.98
80 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:8598836 original size:34 final size:34
Alignment explanation
Indices: 8598793--8599094 Score: 149
Period size: 34 Copynumber: 7.9 Consensus size: 34
8598783 CTATGGTATC
8598793 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATT
* *
8598827 CTTTTATGCCAATATTGCACCCATATGCATTTCAACTAT
1 CTTTCATGCCAATAATGCACCCATATGCA-TT--A-T-T
* * *
8598866 GGCAACATTTCATGCCAATAATGTACCCCTTTGCATTATT
1 -----C-TTTCATGCCAATAATGCACCCATATGCATTATT
* *
8598906 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGACAT
1 CTTTCATGCCAATAATGCACCCATATGCA--T----TAT----T
*
8598950 CCTTTCATGCCAATAATGCACCCAGATGCATTATT
1 -CTTTCATGCCAATAATGCACCCATATGCATTATT
* *
8598985 CTTTTATGACAATAAAT-CACCCATATGCATTTCAGCTATGGCAT
1 CTTTCATGCCAAT-AATGCACCCATATGCA--T----TAT----T
*
8599029 CTTTTCATGCCAATAATGCACACATATGCATTATT
1 C-TTTCATGCCAATAATGCACCCATATGCATTATT
* * *
8599064 CTCTT-ATGTCGATAATACACCCATATGCATT
1 CT-TTCATGCCAATAATGCACCCATATGCATT
8599095 TCAACTATGA
Statistics
Matches: 207, Mismatches: 25, Indels: 72
0.68 0.08 0.24
Matches are distributed among these distances:
34 95 0.46
35 11 0.05
36 2 0.01
37 1 0.00
38 1 0.00
39 7 0.03
40 7 0.03
41 1 0.00
42 1 0.00
43 2 0.01
44 9 0.04
45 70 0.34
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (34 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:8600871 original size:51 final size:51
Alignment explanation
Indices: 8600816--8600914 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
8600806 TGCAATCATC
* * *
8600816 CTAAAGCTAATGTTGGAGCCAGTTGTAGGCCATGT-TAACTTATTCGATTTT
1 CTAAAACTAATGTTGGAGCCAGTTGCAGGCCAT-TCCAACTTATTCGATTTT
*
8600867 CTAAAACTAATGTTGGAGCCAGTTGCAGGCTATTCCAACTTATTCGAT
1 CTAAAACTAATGTTGGAGCCAGTTGCAGGCCATTCCAACTTATTCGAT
8600915 ATATTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (51 bp):
CTAAAACTAATGTTGGAGCCAGTTGCAGGCCATTCCAACTTATTCGATTTT
Found at i:8608871 original size:19 final size:19
Alignment explanation
Indices: 8608847--8608884 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8608837 TGTTCCCATA
*
8608847 AGCATTTGCATTATCATTC
1 AGCATTCGCATTATCATTC
8608866 AGCATTCGCATTATCATTC
1 AGCATTCGCATTATCATTC
8608885 CTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (19 bp):
AGCATTCGCATTATCATTC
Found at i:8611087 original size:13 final size:13
Alignment explanation
Indices: 8611069--8611094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8611059 AGTGACTCAG
8611069 CACAACATCACTT
1 CACAACATCACTT
8611082 CACAACATCACTT
1 CACAACATCACTT
8611095 ACAGCATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (13 bp):
CACAACATCACTT
Found at i:8627500 original size:32 final size:32
Alignment explanation
Indices: 8627464--8627535 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
8627454 GATTAGATAG
8627464 CTTAAATCTACCTGAGAGATAAGTTTAGCATC
1 CTTAAATCTACCTGAGAGATAAGTTTAGCATC
8627496 CTTAAATCTACCTGAGAGATAAGTTTAGCATC
1 CTTAAATCTACCTGAGAGATAAGTTTAGCATC
8627528 CTTAAATC
1 CTTAAATC
8627536 AATCCCTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (32 bp):
CTTAAATCTACCTGAGAGATAAGTTTAGCATC
Found at i:8628634 original size:27 final size:28
Alignment explanation
Indices: 8628604--8628667 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
8628594 GAAAGGATTG
8628604 AAATACCCTTGAACTGTA-AAATGACC-A
1 AAATACCCTTGAACTG-AGAAATGACCTA
* * *
8628631 AAATACTCATGAAGTGAGAAATGACCTA
1 AAATACCCTTGAACTGAGAAATGACCTA
*
8628659 TAATACCCT
1 AAATACCCT
8628668 CATGCCTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.72
28 7 0.24
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.23
Consensus pattern (28 bp):
AAATACCCTTGAACTGAGAAATGACCTA
Found at i:8629702 original size:32 final size:32
Alignment explanation
Indices: 8629632--8629738 Score: 124
Period size: 32 Copynumber: 3.3 Consensus size: 32
8629622 CCTAAGGTGA
* * * * *
8629632 CCTTGGATAGGCTCAAAGGCCCCAAGGCATTT
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGTACTT
* *
8629664 CTTTGGGTAGGATCTAAGGCCCTAAGGTACTT
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGTACTT
* * *
8629696 CCTTGGGTAGCCTCTTAGGCCCTAAGGTACTC
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGTACTT
8629728 CCTTGGGTAGG
1 CCTTGGGTAGG
8629739 TTGTAATGCC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCCTAAGGTACTT
Found at i:8630647 original size:19 final size:21
Alignment explanation
Indices: 8630623--8630675 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
8630613 ACGTAATTTT
8630623 GGTATCGATACC-A-TATAGG
1 GGTATCGATACCAAGTATAGG
* *
8630642 GGTATCGGTACCATAGTATAGT
1 GGTATCGATACCA-AGTATAGG
8630664 GGTATCGATACC
1 GGTATCGATACC
8630676 TATGGTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
21 1 0.04
22 16 0.57
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCAAGTATAGG
Found at i:8630744 original size:96 final size:94
Alignment explanation
Indices: 8630549--8630729 Score: 217
Period size: 96 Copynumber: 1.9 Consensus size: 94
8630539 GATTCAATCA
* * * *
8630549 GTATCGGTACC-TAATGAAGTGGTATCGATACCATTGTGAAGGTATCGATACCTGGTAACATTGA
1 GTATCGGTACCATAGT-AAGTGGTATCGATACCATGGTGAAGGTATCGATACCTGGGAACATCGA
8630613 ACGTAATTTTGGTATCGATACCATATAGGG
65 ACGTAATTTTGGTATCGATACCATATAGGG
* *
8630643 GTATCGGTACCATAGTATAGTGGTATCGATACCTATGGT-AAGGGTATCTATA-TTGGGACACAT
1 GTATCGGTACCATAGTA-AGTGGTATCGATACC-ATGGTGAA-GGTATCGATACCTGGGA-ACAT
*
8630706 CGAATC-TAATTTTGGTATTGATAC
62 CGAA-CGTAATTTTGGTATCGATAC
8630730 TGGTAGGGGG
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
94 12 0.16
95 24 0.32
96 37 0.50
97 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (94 bp):
GTATCGGTACCATAGTAAGTGGTATCGATACCATGGTGAAGGTATCGATACCTGGGAACATCGAA
CGTAATTTTGGTATCGATACCATATAGGG
Found at i:8630767 original size:22 final size:22
Alignment explanation
Indices: 8630739--8630780 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8630729 CTGGTAGGGG
8630739 GTATCGATACAACAGTAGGGTA
1 GTATCGATACAACAGTAGGGTA
* *
8630761 GTATCGATACCATAGTAGGG
1 GTATCGATACAACAGTAGGG
8630781 AATTAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GTATCGATACAACAGTAGGGTA
Found at i:8633126 original size:20 final size:20
Alignment explanation
Indices: 8633101--8633156 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
8633091 CTAATGAAGT
8633101 GGTATCGATACCATGGTGAG
1 GGTATCGATACCATGGTGAG
8633121 GGTATCGATACCATGGTGAG
1 GGTATCGATACCATGGTGAG
8633141 GGTATCGATACC-TGGT
1 GGTATCGATACCATGGT
8633157 AACATTGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (20 bp):
GGTATCGATACCATGGTGAG
Found at i:8633219 original size:22 final size:20
Alignment explanation
Indices: 8633175--8633246 Score: 83
Period size: 19 Copynumber: 3.5 Consensus size: 20
8633165 ACCTAATTTT
*
8633175 GGTATCGATACCATA-TACG
1 GGTATCGATACCATAGTAAG
*
8633194 GGTATCGGTACCATAGTATAG
1 GGTATCGATACCATAGTA-AG
*
8633215 TGGTATCGATACCTATGGTAAG
1 -GGTATCGATACC-ATAGTAAG
8633237 GGTATCGATA
1 GGTATCGATA
8633247 TTGGGCCACA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 14 0.31
20 2 0.04
21 11 0.24
22 13 0.29
23 5 0.11
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:8633267 original size:96 final size:93
Alignment explanation
Indices: 8633101--8633340 Score: 245
Period size: 94 Copynumber: 2.6 Consensus size: 93
8633091 CTAATGAAGT
* * * * *
8633101 GGTATCGATACCATGGT-GAG-GGTATCGATACCATGGTGAGGGTATCGATACCTGGTAACATTG
1 GGTATCGATACAATAGTAGAGTGGTATCGATACCATGGTAAGGGTATCGATACCTGGCAACATCG
8633164 AACCTAATTTTGGTATCGATACCAT-ATACG
66 AACCTAATTTT-GTATCGATA-C-TGATACG
* * * * *
8633194 GGTATCGGTACCATAGTATAGTGGTATCGATACCTATGGTAAGGGTATCGATA-TTGGGCCACAT
1 GGTATCGATACAATAGTAGAGTGGTATCGATACC-ATGGTAAGGGTATCGATACCT-GGCAACAT
* * * *
8633258 CGAATCTAATTTTGTATTGATACTGGTAGG
64 CGAACCTAATTTTGTATCGATACTGATACG
* * * *
8633288 GGTATCGATACAATAGTAGGGTAGTATCGATACCATAGTAGGGGTATCGATAC
1 GGTATCGATACAATAGTAGAGTGGTATCGATACCATGGTAAGGGTATCGATAC
8633341 TGAAGGGCCA
Statistics
Matches: 122, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
93 32 0.26
94 35 0.29
95 21 0.17
96 34 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (93 bp):
GGTATCGATACAATAGTAGAGTGGTATCGATACCATGGTAAGGGTATCGATACCTGGCAACATCG
AACCTAATTTTGTATCGATACTGATACG
Found at i:8633316 original size:22 final size:20
Alignment explanation
Indices: 8633283--8633340 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 20
8633273 ATTGATACTG
8633283 GTAGGGGTATCGATACAATA
1 GTAGGGGTATCGATACAATA
*
8633303 GTAGGGTAGTATCGATACCATA
1 GTAGGG--GTATCGATACAATA
8633325 GTAGGGGTATCGATAC
1 GTAGGGGTATCGATAC
8633341 TGAAGGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 16 0.46
22 19 0.54
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (20 bp):
GTAGGGGTATCGATACAATA
Found at i:8633878 original size:79 final size:79
Alignment explanation
Indices: 8633744--8633894 Score: 250
Period size: 79 Copynumber: 1.9 Consensus size: 79
8633734 AAAATGAATG
* *
8633744 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATATCTGAAATGTATATAG
1 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGATCTGAAATGCATATAG
8633809 GTACATTGTCAGTA
66 GTACATTGTCAGTA
*
8633823 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGT-TGAAATGCATATG
1 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGA-TCTGAAATGCATATA
*
8633887 GGTGCATT
65 GGTACATT
8633895 ATCAACAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 66 0.99
80 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGATCTGAAATGCATATAG
GTACATTGTCAGTA
Found at i:8633921 original size:44 final size:44
Alignment explanation
Indices: 8633832--8634054 Score: 207
Period size: 45 Copynumber: 5.0 Consensus size: 44
8633822 ATAAAAGAAT
* *** * * *
8633832 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGTTGA
1 AATGCATATGGGTACATTATCAACA-GAAAGTATACTAGAGTTGA
* *
8633877 AATGCATATGGGTGCATTATCAACAGAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTACATTATCAACAGAAAGTATACTAGAGTTGA
*
8633921 AATGCATATGGGTTCATTATCAACAGAAAAGTATACTAGAGTTGA
1 AATGCATATGGGTACATTATCAACAG-AAAGTATACTAGAGTTGA
* * * *
8633966 TATGTATATGGGTACATTATCCAA-AGAAAAGTTTACTACG-GTTGT
1 AATGCATATGGGTACATTAT-CAACAG-AAAGTATACTA-GAGTTGA
** * * *
8634011 AATATATATGGGTACATTATCAACATAAAAGTATATTATAGTTG
1 AATGCATATGGGTACATTATCAACA-GAAAGTATACTAGAGTTG
8634055 TAACATAAAA
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
44 45 0.29
45 105 0.68
46 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (44 bp):
AATGCATATGGGTACATTATCAACAGAAAGTATACTAGAGTTGA
Found at i:8633995 original size:45 final size:45
Alignment explanation
Indices: 8633869--8634054 Score: 225
Period size: 45 Copynumber: 4.2 Consensus size: 45
8633859 AAAGGATGCC
* *
8633869 AGAGTTGAAATGCATATGGGTGCATTATCAACAG-AAAGTATGCT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
8633913 AGAGTTGAAATGCATATGGGTTCATTATCAACAGAAAAGTATACT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * *
8633958 AGAGTTGATATGTATATGGGTACATTATCCAA-AGAAAAGTTTACT
1 AGAGTTGAAATGCATATGGGTACATTAT-CAACAGAAAAGTATACT
* ** * *
8634003 ACG-GTTGTAATATATATGGGTACATTATCAACATAAAAGTATATT
1 A-GAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
8634048 ATAGTTG
1 AGAGTTG
8634055 TAACATAAAA
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
44 36 0.29
45 84 0.68
46 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (45 bp):
AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:8634880 original size:32 final size:31
Alignment explanation
Indices: 8634804--8634880 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
8634794 CTAATGTGAC
* *
8634804 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
* **
8634835 TCTCAGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
8634867 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
8634881 CATAGCCCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:8641133 original size:10 final size:10
Alignment explanation
Indices: 8641104--8641152 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
8641094 GCTGCTGGAA
8641104 AACCGGTTTG
1 AACCGGTTTG
*
8641114 -ACCAGTTTTG
1 AACC-GGTTTG
8641124 AACCGGTTTG
1 AACCGGTTTG
*
8641134 -ACCGGTCTG
1 AACCGGTTTG
8641143 AACCGGTTTG
1 AACCGGTTTG
8641153 GCCGGTCTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 11 0.34
10 18 0.56
11 3 0.09
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:8641137 original size:9 final size:9
Alignment explanation
Indices: 8641105--8641158 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
8641095 CTGCTGGAAA
8641105 ACCGGTTTG
1 ACCGGTTTG
*
8641114 ACCAGTTTTG
1 ACC-GGTTTG
8641124 AACCGGTTTG
1 -ACCGGTTTG
*
8641134 ACCGGTCTG
1 ACCGGTTTG
8641143 AACCGGTTTG
1 -ACCGGTTTG
*
8641153 GCCGGT
1 ACCGGT
8641159 CTGAACTGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 16 0.43
10 18 0.49
11 3 0.08
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:8641146 original size:19 final size:19
Alignment explanation
Indices: 8641104--8641174 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
8641094 GCTGCTGGAA
* *
8641104 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
8641124 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
8641143 AACCGGTTTGGCCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
8641162 AACTGGGTTGACC
1 AACCGGTTTGACC
8641175 CGACCCGACT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 32 0.71
20 13 0.29
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:8641190 original size:17 final size:17
Alignment explanation
Indices: 8641168--8641213 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
8641158 TCTGAACTGG
8641168 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
8641185 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
8641202 GTTGACCCGACC
1 GTTGACCCGACC
8641214 GTTGACCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:8641232 original size:19 final size:19
Alignment explanation
Indices: 8641210--8641246 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8641200 CTGTTGACCC
8641210 GACCGTTGACCGTTGACTG
1 GACCGTTGACCGTTGACTG
8641229 GACCGTTGACCGTTGACT
1 GACCGTTGACCGTTGACT
8641247 TTCTTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (19 bp):
GACCGTTGACCGTTGACTG
Found at i:8642183 original size:63 final size:63
Alignment explanation
Indices: 8642115--8642238 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
8642105 CTAATGTGAC
* * * *
8642115 TCTTAGGTAGGCTCTACGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
8642178 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
8642239 TCCCTTAGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.02
63 51 0.96
64 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:8642189 original size:32 final size:31
Alignment explanation
Indices: 8642115--8642199 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
8642105 CTAATGTGAC
* *
8642115 TCTTAGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** * **
8642146 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
*
8642178 TCTTAGGTAGGCCCCACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
8642200 CGAAATCTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:8646017 original size:13 final size:13
Alignment explanation
Indices: 8645999--8646039 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
8645989 ACCGGGTCAA
8645999 ACTGAGTCAACTC
1 ACTGAGTCAACTC
*
8646012 ACTGAGTCAACCTG
1 ACTGAGTCAA-CTC
*
8646026 ATTGAGTCAACTC
1 ACTGAGTCAACTC
8646039 A
1 A
8646040 AACAAAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (13 bp):
ACTGAGTCAACTC
Found at i:8646033 original size:14 final size:14
Alignment explanation
Indices: 8645999--8646036 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8645989 ACCGGGTCAA
8645999 ACTGAGTCAA-CTC
1 ACTGAGTCAACCTC
*
8646012 ACTGAGTCAACCTG
1 ACTGAGTCAACCTC
*
8646026 ATTGAGTCAAC
1 ACTGAGTCAAC
8646037 TCAAACAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (14 bp):
ACTGAGTCAACCTC
Found at i:8646137 original size:16 final size:17
Alignment explanation
Indices: 8646105--8646137 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8646095 TGATTTTGAC
8646105 CAAAAAGTTAAATTTTT
1 CAAAAAGTTAAATTTTT
8646122 CAAAAAGTTAAATTTT
1 CAAAAAGTTAAATTTT
8646138 ATGCTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
CAAAAAGTTAAATTTTT
Found at i:8647993 original size:22 final size:22
Alignment explanation
Indices: 8647965--8648024 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
8647955 GGTACCCCTC
8647965 CTATGGTATCGATACTTCTATG
1 CTATGGTATCGATACTTCTATG
* *
8647987 TTATGGTATTGATACTTCTATG
1 CTATGGTATCGATACTTCTATG
8648009 CTATGGTATCGATACT
1 CTATGGTATCGATACT
8648025 CCCTTCAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (22 bp):
CTATGGTATCGATACTTCTATG
Found at i:8649371 original size:27 final size:27
Alignment explanation
Indices: 8649313--8649365 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
8649303 CTATATGGAA
* * * *
8649313 AAAATGACTAAAATGCCCTTGAATTGT
1 AAAATGACCAAAATACCCCTGAAGTGT
8649340 AAAATGACCAAAATACCCCTGAAGTG
1 AAAATGACCAAAATACCCCTGAAGTG
8649366 AGAAATAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAATGACCAAAATACCCCTGAAGTGT
Found at i:8654240 original size:24 final size:23
Alignment explanation
Indices: 8654213--8654271 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
8654203 AATCATCTCA
*
8654213 AAGCATTATGCTCTTCTCTCTTTG
1 AAGCATTATGCTCTTC-CACTTTG
*
8654237 AAGCATTACGCTC-TCCACTTTG
1 AAGCATTATGCTCTTCCACTTTG
8654259 AAGCATT-TGCTCT
1 AAGCATTATGCTCT
8654272 CTTTCAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 13 0.42
23 2 0.06
24 12 0.39
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (23 bp):
AAGCATTATGCTCTTCCACTTTG
Found at i:8661868 original size:77 final size:77
Alignment explanation
Indices: 8661780--8661956 Score: 338
Period size: 77 Copynumber: 2.3 Consensus size: 77
8661770 AATGGTTAAT
8661780 TGTGATTATTCATATTGCTATGTGGTCATGCAAGTATAAGTCATTCAATTTTTTAGCTTTAGTTC
1 TGTGATTATTCATATTGCTATGTGGTCATGCAAGTATAAGTCATTCAATTTTTTAGCTTTAGTTC
8661845 TGATTCTGAAAG
66 TGATTCTGAAAG
8661857 TGTGATTATTCATATTGCTATGTGGTCATGCAAGTATAAGTCATTCAATTTTTTAGCTTTAGTTC
1 TGTGATTATTCATATTGCTATGTGGTCATGCAAGTATAAGTCATTCAATTTTTTAGCTTTAGTTC
8661922 TGATTCTGAAAG
66 TGATTCTGAAAG
8661934 TGTGATTATTCATATGTG-TATGT
1 TGTGATTATTCATAT-TGCTATGT
8661957 ATATGATAAA
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 97 0.98
78 2 0.02
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (77 bp):
TGTGATTATTCATATTGCTATGTGGTCATGCAAGTATAAGTCATTCAATTTTTTAGCTTTAGTTC
TGATTCTGAAAG
Found at i:8663294 original size:37 final size:38
Alignment explanation
Indices: 8663253--8663362 Score: 152
Period size: 37 Copynumber: 2.9 Consensus size: 38
8663243 TACAATATCG
*
8663253 TATTTTACTCAAATATAAATTCAT-AATAATATATTTT
1 TATTTTAATCAAATATAAATTCATAAATAATATATTTT
* **
8663290 TATTTTAGTTGAATATAAATTCATAAATAATATATTTT
1 TATTTTAATCAAATATAAATTCATAAATAATATATTTT
* *
8663328 TA-TTTAATCAAATATAAATTTATAAATGATATATT
1 TATTTTAATCAAATATAAATTCATAAATAATATATT
8663363 AACATTTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 49 0.77
38 15 0.23
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (38 bp):
TATTTTAATCAAATATAAATTCATAAATAATATATTTT
Found at i:8663370 original size:37 final size:38
Alignment explanation
Indices: 8663261--8663384 Score: 117
Period size: 37 Copynumber: 3.3 Consensus size: 38
8663251 CGTATTTTAC
*** * *
8663261 TCAAATATAAATTCAT-AATAATATATTTTTATTTTAG
1 TCAAATATAAATTCATAAATAATATATTAACATTTAAA
** ***
8663298 TTGAATATAAATTCATAAATAATATATTTTTATTT-AA
1 TCAAATATAAATTCATAAATAATATATTAACATTTAAA
* *
8663335 TCAAATATAAATTTATAAATGATATATTAACATTTAAA
1 TCAAATATAAATTCATAAATAATATATTAACATTTAAA
*
8663373 TCGAATATAAAT
1 TCAAATATAAAT
8663385 CTGTAAATAC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
37 43 0.58
38 31 0.42
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (38 bp):
TCAAATATAAATTCATAAATAATATATTAACATTTAAA
Found at i:8663392 original size:75 final size:74
Alignment explanation
Indices: 8663256--8663401 Score: 161
Period size: 75 Copynumber: 2.0 Consensus size: 74
8663246 AATATCGTAT
* *** * * *
8663256 TTTACTCAAATATAAATTCATAATAATATATTTTTATTTTAGTTGAATATAAATTCATAAATA-A
1 TTTAATCAAATATAAATTCATAATAATATATTAACATTTAAATCGAATATAAATTCATAAATACA
8663320 TATATTTTTA
66 -ATATTTTTA
* * *
8663330 TTTAATCAAATATAAATTTATAAATGATATATTAACATTTAAATCGAATATAAA-TCTGTAAATA
1 TTTAATCAAATATAAATTCAT-AATAATATATTAACATTTAAATCGAATATAAATTC-ATAAATA
8663394 CAATATTT
64 CAATATTT
8663402 GAATTTTAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
74 21 0.36
75 37 0.63
76 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (74 bp):
TTTAATCAAATATAAATTCATAATAATATATTAACATTTAAATCGAATATAAATTCATAAATACA
ATATTTTTA
Found at i:8663400 original size:38 final size:38
Alignment explanation
Indices: 8663356--8663431 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
8663346 TTTATAAATG
*
8663356 ATATATTAACATTTAAATCGAATATAAATCTGTAAATACA
1 ATAT-TTAA-ATTTAAATCGAATACAAATCTGTAAATACA
* * * *
8663396 ATATTTGAATTTTAATTGAATACAAATCTTTAAATA
1 ATATTTAAATTTAAATCGAATACAAATCTGTAAATA
8663432 AAAGAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 24 0.77
39 3 0.10
40 4 0.13
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (38 bp):
ATATTTAAATTTAAATCGAATACAAATCTGTAAATACA
Found at i:8663951 original size:15 final size:15
Alignment explanation
Indices: 8663939--8663968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8663929 TATATTATAT
8663939 TATGTATTATTATTA
1 TATGTATTATTATTA
*
8663954 TATTTATTATTATTA
1 TATGTATTATTATTA
8663969 ATAGAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TATGTATTATTATTA
Found at i:8663954 original size:18 final size:18
Alignment explanation
Indices: 8663931--8663968 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8663921 AAAAAATATA
8663931 TATTATA-TTATGTATTAT
1 TATTATATTTAT-TATTAT
8663949 TATTATATTTATTATTAT
1 TATTATATTTATTATTAT
8663967 TA
1 TA
8663969 ATAGAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TATTATATTTATTATTAT
Found at i:8663960 original size:12 final size:13
Alignment explanation
Indices: 8663927--8663966 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
8663917 GATTAAAAAA
8663927 TATATATTA-TAT
1 TATATATTATTAT
*
8663939 TATGTATTATTAT
1 TATATATTATTAT
8663952 TATAT-TTATTAT
1 TATATATTATTAT
8663964 TAT
1 TAT
8663967 TAATAGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 18 0.72
13 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:8663978 original size:18 final size:19
Alignment explanation
Indices: 8663937--8663978 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8663927 TATATATTAT
* *
8663937 ATTATGTATTATTATTATA
1 ATTATGTATTATTAATAGA
*
8663956 TTTAT-TATTATTAATAGA
1 ATTATGTATTATTAATAGA
8663974 ATTAT
1 ATTAT
8663979 AATACATGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTATGTATTATTAATAGA
Found at i:8664962 original size:2 final size:2
Alignment explanation
Indices: 8664945--8664988 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
8664935 ACCTAAAATA
* *
8664945 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8664987 AT
1 AT
8664989 TCATCAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8665240 original size:18 final size:17
Alignment explanation
Indices: 8665217--8665252 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8665207 ATTTTAGGCC
8665217 TATTATTACATGATATAT
1 TATTATTACATGA-ATAT
*
8665235 TATTATTATATGAATAT
1 TATTATTACATGAATAT
8665252 T
1 T
8665253 TGATTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTATTACATGAATAT
Found at i:8672624 original size:21 final size:21
Alignment explanation
Indices: 8672598--8672639 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8672588 AACTTAACAC
8672598 AAAAATC-AATTGAATAAACTT
1 AAAAATCAAATTGAA-AAACTT
8672619 AAAAATCAAATTGAAAAACTT
1 AAAAATCAAATTGAAAAACTT
8672640 CCCATACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAATCAAATTGAAAAACTT
Found at i:8676553 original size:90 final size:90
Alignment explanation
Indices: 8676400--8676579 Score: 297
Period size: 90 Copynumber: 2.0 Consensus size: 90
8676390 ACCCAGCAAG
** *
8676400 ACCTAAGAATTTATGCACTTCAATAACGTTCTTTGGTGACTCCCATTCTAACACTACTTGAATAT
1 ACCTAAGAAACTATGCACTTCAATAACGTTCTTTGGTGACTCCCATTCTAACACTACCTGAATAT
*
8676465 TTTGAAGATCAACCCATATGTCGTC
66 TTTGAAGATCAACCCAGATGTCGTC
* *
8676490 ACCTAAGAAACTATGCACTTCGATAACGTTCTTTGGTGACTCTCATTCTAACACTACCTGAATAT
1 ACCTAAGAAACTATGCACTTCAATAACGTTCTTTGGTGACTCCCATTCTAACACTACCTGAATAT
*
8676555 TTTGAAGATCAACCCAGGTGTCGTC
66 TTTGAAGATCAACCCAGATGTCGTC
8676580 TATTGCTACT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (90 bp):
ACCTAAGAAACTATGCACTTCAATAACGTTCTTTGGTGACTCCCATTCTAACACTACCTGAATAT
TTTGAAGATCAACCCAGATGTCGTC
Found at i:8677499 original size:8 final size:8
Alignment explanation
Indices: 8677419--8677515 Score: 51
Period size: 8 Copynumber: 12.5 Consensus size: 8
8677409 TTAATATTAA
8677419 TATAATAT
1 TATAATAT
* *
8677427 TTTAGTAT
1 TATAATAT
**
8677435 TATTTTAT
1 TATAATAT
*
8677443 TAAAATAT
1 TATAATAT
*
8677451 TA-ACTAT
1 TATAATAT
*
8677458 TAAAATAT
1 TATAATAT
*
8677466 T-TAATAA
1 TATAATAT
8677473 TATAAT-T
1 TATAATAT
8677480 T-T-ATAT
1 TATAATAT
*
8677486 TTTAATAT
1 TATAATAT
8677494 TATAATAAT
1 TATAAT-AT
*
8677503 ATATGATAT
1 -TATAATAT
8677512 TATA
1 TATA
8677516 TTCTTATTTT
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 13 0.20
8 39 0.59
9 4 0.06
10 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (8 bp):
TATAATAT
Found at i:8677504 original size:39 final size:39
Alignment explanation
Indices: 8677461--8677540 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
8677451 TAACTATTAA
* *
8677461 AATATTTAATAATATAATTTTATATTTTAAT-AT-TATAAT
1 AATATATAATAATAT-ATTCT-TATTTTAATGATATATAAT
* *
8677500 AATATATGATATTATATTCTTATTTTAATGATATATAAT
1 AATATATAATAATATATTCTTATTTTAATGATATATAAT
8677539 AA
1 AA
8677541 ACTACTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 9 0.26
38 6 0.17
39 20 0.57
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (39 bp):
AATATATAATAATATATTCTTATTTTAATGATATATAAT
Found at i:8677505 original size:21 final size:21
Alignment explanation
Indices: 8677465--8677506 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8677455 TATTAAAATA
**
8677465 TTTAATAATATAATTTTATAT
1 TTTAATAATATAATAATATAT
*
8677486 TTTAATATTATAATAATATAT
1 TTTAATAATATAATAATATAT
8677507 GATATTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATAATATAATAATATAT
Found at i:8677721 original size:19 final size:19
Alignment explanation
Indices: 8677697--8677751 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 19
8677687 ATTTTCAAAC
8677697 TATAATATAATATTATTAT
1 TATAATATAATATTATTAT
*
8677716 TATAATA-AATA--ATTAA
1 TATAATATAATATTATTAT
*
8677732 TATAAT-TTATATTATT-T
1 TATAATATAATATTATTAT
8677749 TAT
1 TAT
8677752 TTTAATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
16 13 0.43
17 3 0.10
18 7 0.23
19 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATATAATATTATTAT
Found at i:8678151 original size:17 final size:17
Alignment explanation
Indices: 8678104--8678151 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8678094 TGATATCACA
8678104 TATATCCCAAAATCTAG
1 TATATCCCAAAATCTAG
*
8678121 TATAGTTACCAAAA-CTCAG
1 TATA--TCCCAAAATCT-AG
8678140 TATATCCCAAAA
1 TATATCCCAAAA
8678152 ACACTCGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 11 0.42
18 2 0.08
19 13 0.50
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (17 bp):
TATATCCCAAAATCTAG
Found at i:8681053 original size:24 final size:24
Alignment explanation
Indices: 8681026--8681100 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
8681016 ATTCATTAAA
*
8681026 ACTTTAAAATGTTCATCATAATAC
1 ACTTTAAAATATTCATCATAATAC
*
8681050 ACTTTTATGAAA-AATCAT--TAA-A-
1 AC-TTTA--AAATATTCATCATAATAC
*
8681072 ACTTTAAAATTTTCATCATAATAC
1 ACTTTAAAATATTCATCATAATAC
8681096 ACTTT
1 ACTTT
8681101 TCAACATACA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 4 0.10
21 4 0.10
22 5 0.13
23 2 0.05
24 10 0.26
25 4 0.10
26 4 0.10
27 3 0.08
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.40
Consensus pattern (24 bp):
ACTTTAAAATATTCATCATAATAC
Found at i:8681070 original size:46 final size:46
Alignment explanation
Indices: 8681013--8681101 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
8681003 AATTTTGACC
*
8681013 AAAATTCATTAAAACTTTAAAATGTTCATCATAATACACTTTTATG
1 AAAAATCATTAAAACTTTAAAATGTTCATCATAATACACTTTTATG
*
8681059 AAAAATCATTAAAACTTTAAAATTTTCATCATAATACACTTTT
1 AAAAATCATTAAAACTTTAAAATGTTCATCATAATACACTTTT
8681102 CAACATACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.39
Consensus pattern (46 bp):
AAAAATCATTAAAACTTTAAAATGTTCATCATAATACACTTTTATG
Found at i:8681427 original size:216 final size:216
Alignment explanation
Indices: 8681053--8681686 Score: 1056
Period size: 216 Copynumber: 2.9 Consensus size: 216
8681043 ATAATACACT
* * *
8681053 TTTATGAAAAATCATTAAAACTTTAAAATTTTCATCATAATACACTTTTCAACATACATGATATG
1 TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAATATACTTTTCAACATACATGAGATG
* * *
8681118 AAAACATAAAATTATTTAAAATCAAAACTCATGCATACATACAACAAAT-CGGAAACCAATTAAT
66 AAAACATAAAATTATTTAAAATCAAAACTCATGCATGCATACAACAAATAAGCAAA-CAATTAAT
8681182 CAAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAAC
130 CAAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAAC
8681247 ATCTTCATATGATGAAT-AAGCA
195 ATCTTCATATGATGAATGAA-CA
*
8681269 TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAAAATACTTTTCAACATACATGAGATG
1 TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAATATACTTTTCAACATACATGAGATG
*
8681334 AAAACATAAAATTATTTAAAATCAAAACTTATGCATGCATACAACAAATAAGCAAACAATTAATC
66 AAAACATAAAATTATTTAAAATCAAAACTCATGCATGCATACAACAAATAAGCAAACAATTAATC
*
8681399 AAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAAAA
131 AAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAACA
8681464 TCTTCATATGATGAATGAACA
196 TCTTCATATGATGAATGAACA
8681485 TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAATATACTTTTCAACATACATGAGATG
1 TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAATATACTTTTCAACATACATGAGATG
* *
8681550 AAAACATAAAATTATTTAAAATCAAAACTCATGCATGCATACAACAAATAGGCAACCAATTAATC
66 AAAACATAAAATTATTTAAAATCAAAACTCATGCATGCATACAACAAATAAGCAAACAATTAATC
* * * * * ** * *
8681615 AAAACAAAGATATTAAGCTTAAAGGTTACACATTCCATTAAAAGTGTGGCTAGAGAATTTGGACA
131 AAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAACA
8681680 TCTTCAT
196 TCTTCAT
8681687 TTTCATCACC
Statistics
Matches: 393, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
216 387 0.98
217 6 0.02
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.29
Consensus pattern (216 bp):
TTTATGAAAAATCATTAAAACTTTAAAATGTTCATCATAATATACTTTTCAACATACATGAGATG
AAAACATAAAATTATTTAAAATCAAAACTCATGCATGCATACAACAAATAAGCAAACAATTAATC
AAAACAAAGACATCAAGCTTAGAGGTTACCCATTCCTTTTCAAGTGTGGCTAGAGCATTTGAACA
TCTTCATATGATGAATGAACA
Found at i:8685328 original size:2 final size:2
Alignment explanation
Indices: 8685289--8685316 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8685279 TGATCCGACC
8685289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8685317 TCTTTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8688390 original size:19 final size:19
Alignment explanation
Indices: 8688363--8688416 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
8688353 CTTTGAAATA
* *
8688363 TGTTATGATCTCTGATTTC
1 TGTTCTGATCTCTGATCTC
*
8688382 TGTTCTGATCTTTGATCTC
1 TGTTCTGATCTCTGATCTC
*
8688401 TGTTCTGATTTCTGAT
1 TGTTCTGATCTCTGAT
8688417 ATCTCTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.54
Consensus pattern (19 bp):
TGTTCTGATCTCTGATCTC
Done.