Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 122 of 325
Found at i:38041697 original size:30 final size:30
Alignment explanation
Indices: 38041663--38041720 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
38041653 ACATGGTCGC
38041663 GTGTCTCAG-TAGTGTAGGGGACACGGCCGT
1 GTGTCTCAGCT-GTGTAGGGGACACGGCCGT
*
38041693 GTGTCTCAGCTGTGTAGGGGACATGGCC
1 GTGTCTCAGCTGTGTAGGGGACACGGCC
38041721 TTAGCACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.16, C:0.21, G:0.40, T:0.24
Consensus pattern (30 bp):
GTGTCTCAGCTGTGTAGGGGACACGGCCGT
Found at i:38044263 original size:26 final size:26
Alignment explanation
Indices: 38044227--38044280 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
38044217 CCCTAGCCAC
38044227 CAATATAACTCACGAAGGTCTTGGTA
1 CAATATAACTCACGAAGGTCTTGGTA
*
38044253 CAATATAACTCATGAAGGTCTTGGTA
1 CAATATAACTCACGAAGGTCTTGGTA
38044279 CA
1 CA
38044281 TCTTATTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
CAATATAACTCACGAAGGTCTTGGTA
Found at i:38047770 original size:25 final size:23
Alignment explanation
Indices: 38047740--38047795 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
38047730 TTAACTATAG
38047740 TTTTCAGTATGTACTAACTAGAGTA
1 TTTTCAGTA--TACTAACTAGAGTA
*
38047765 TTTTCACAGTATACTAACTATAGTA
1 TTTT--CAGTATACTAACTAGAGTA
*
38047790 GTTTCA
1 TTTTCA
38047796 AAATAGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
25 20 0.74
27 5 0.19
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (23 bp):
TTTTCAGTATACTAACTAGAGTA
Found at i:38052079 original size:13 final size:13
Alignment explanation
Indices: 38052061--38052086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38052051 TGGGCTCGCA
38052061 TGCCCATGTGGCC
1 TGCCCATGTGGCC
38052074 TGCCCATGTGGCC
1 TGCCCATGTGGCC
38052087 CCACACGACT
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:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
TGCCCATGTGGCC
Found at i:38056559 original size:22 final size:21
Alignment explanation
Indices: 38056529--38056594 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
38056519 TACAAATTAA
38056529 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
38056551 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
38056572 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
38056591 ATCT
1 ATCT
38056595 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:38056581 original size:19 final size:19
Alignment explanation
Indices: 38056546--38056643 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
38056536 AGATTACAAG
38056546 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
38056567 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
38056586 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
38056603 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
38056622 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
38056641 ATC
1 ATC
38056644 CCTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:38056610 original size:36 final size:37
Alignment explanation
Indices: 38056546--38056643 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
38056536 AGATTACAAG
38056546 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
38056586 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
38056622 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
38056644 CCTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:38056874 original size:28 final size:29
Alignment explanation
Indices: 38056842--38056914 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
38056832 GATTAGGCCT
*
38056842 AATGGGCCATATGAATGTGATTGGGCCCG
1 AATGGGCCATATGAATGAGATTGGGCCCG
* *
38056871 -ATGGGCTATATGAATGAGATTGGGCCTG
1 AATGGGCCATATGAATGAGATTGGGCCCG
* *
38056899 AAGGGGCCAAATGAAT
1 AATGGGCCATATGAAT
38056915 AAGTATGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 25 0.68
29 12 0.32
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (29 bp):
AATGGGCCATATGAATGAGATTGGGCCCG
Found at i:38065813 original size:16 final size:16
Alignment explanation
Indices: 38065794--38065838 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
38065784 TTTGAAATGT
38065794 CGAAAAGCCGAAATAC
1 CGAAAAGCCGAAATAC
*
38065810 CGAAAAGCTGAAATAC
1 CGAAAAGCCGAAATAC
38065826 CGAAAAGCCGAAA
1 CGAAAAGCCGAAA
38065839 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.07
Consensus pattern (16 bp):
CGAAAAGCCGAAATAC
Found at i:38066065 original size:28 final size:28
Alignment explanation
Indices: 38066032--38066134 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
38066022 ATTGCATGAC
*
38066032 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
38066060 TATGAAAGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
38066088 TATGAATTTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
38066116 TACGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
38066135 AAAAGGGCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:38066100 original size:56 final size:57
Alignment explanation
Indices: 38066032--38066151 Score: 161
Period size: 56 Copynumber: 2.1 Consensus size: 57
38066022 ATTGCATGAC
* * * *
38066032 TATGAATGTGATTGGGCCTGACGGGCCATATGAAAGTGATTGGGCCT-AATGGGCCA
1 TATGAATGTGATTGGGCCCGACGGGCCATACGAAAGAGATTGGGCCTAAAAGGGCCA
* * *
38066088 TATGAATTTGATTGGGCCCGATGGGCCATACGAATGAGATTGGGCCTAAAAGGGCCA
1 TATGAATGTGATTGGGCCCGACGGGCCATACGAAAGAGATTGGGCCTAAAAGGGCCA
*
38066145 AATGAAT
1 TATGAAT
38066152 AAGTATCGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 41 0.75
57 14 0.25
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (57 bp):
TATGAATGTGATTGGGCCCGACGGGCCATACGAAAGAGATTGGGCCTAAAAGGGCCA
Found at i:38068879 original size:16 final size:16
Alignment explanation
Indices: 38068858--38068892 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
38068848 GTTTGTATAA
38068858 AACCAAATTACACTCT
1 AACCAAATTACACTCT
38068874 AACCAAATTACACTCT
1 AACCAAATTACACTCT
38068890 AAC
1 AAC
38068893 AAGTTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (16 bp):
AACCAAATTACACTCT
Found at i:38070585 original size:224 final size:224
Alignment explanation
Indices: 38070195--38070614 Score: 718
Period size: 224 Copynumber: 1.9 Consensus size: 224
38070185 ATGGAGTAAG
*
38070195 CATATAAAAACCTTAGTAAGTTCATAGGTATTAAAAAAAACTTACCTTATCTTTCATTTAAATAC
1 CATATAAAAACCTTAGTAAGTTCATAGGTATTAAAAAAAACTTACATTATCTTTCATTTAAATAC
*
38070260 AATAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCAGAACATTAACTAGGTGA
66 AATAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCACAACATTAACTAGGTGA
* *
38070325 GTATTAACTTGTAAATAAAACATATGACACCACAAACACATATCATTCTAATTGATCATGCCTCG
131 GTATTAACTTGTAAATAAAACATATGACACCACAAACACATATCATGCCAATTGATCATGCCTCG
38070390 ATGTACGTGCATCGGGGCTTGTAAATCTA
196 ATGTACGTGCATCGGGGCTTGTAAATCTA
**
38070419 CATATAAAATGCTTAGTAAGTTCATAGGTATTAAACAAAAACTTACATTATCTTTCATTTAAATA
1 CATATAAAAACCTTAGTAAGTTCATAGGTATTAAA-AAAAACTTACATTATCTTTCATTTAAATA
*
38070484 -AATTAAGCTATCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCACAACATTAACTAGGT
65 CAA-TAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCACAACATTAACTAGGT
* **
38070548 -TGTATTAACTTGTAAATAAAACATATGACACCACAAACACATATCATGCCAATTGATTGTGCCT
129 GAGTATTAACTTGTAAATAAAACATATGACACCACAAACACATATCATGCCAATTGATCATGCCT
38070612 CGA
194 CGA
38070615 CGTGTATGCG
Statistics
Matches: 184, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
224 97 0.53
225 87 0.47
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (224 bp):
CATATAAAAACCTTAGTAAGTTCATAGGTATTAAAAAAAACTTACATTATCTTTCATTTAAATAC
AATAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCACAACATTAACTAGGTGA
GTATTAACTTGTAAATAAAACATATGACACCACAAACACATATCATGCCAATTGATCATGCCTCG
ATGTACGTGCATCGGGGCTTGTAAATCTA
Found at i:38082152 original size:10 final size:10
Alignment explanation
Indices: 38082137--38082181 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
38082127 AGCAGATGTT
38082137 TATATATAGA
1 TATATATAGA
*
38082147 TATATATATA
1 TATATATAGA
*
38082157 TATATATAAA
1 TATATATAGA
* *
38082167 TCTATGTAGA
1 TATATATAGA
38082177 TATAT
1 TATAT
38082182 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (10 bp):
TATATATAGA
Found at i:38094951 original size:24 final size:25
Alignment explanation
Indices: 38094924--38094977 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
38094914 TAGACAAGTC
38094924 ACATTTTCG-TATAATATTTTAACA
1 ACATTTTCGTTATAATATTTTAACA
* * * *
38094948 ACA-TCTCGTTATCATATTTTTACT
1 ACATTTTCGTTATAATATTTTAACA
38094972 ACATTT
1 ACATTT
38094978 CCCTTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (25 bp):
ACATTTTCGTTATAATATTTTAACA
Found at i:38095136 original size:34 final size:34
Alignment explanation
Indices: 38095058--38095152 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 34
38095048 TGGTGACTTG
* * * * *
38095058 TAACAACATATTCAACCAACACACTAGTGGCTTA
1 TAACAACATATCCAACCAACACACCAATAGCTCA
38095092 TAACAACATATCCAACCAACACACCAATAGCTCA
1 TAACAACATATCCAACCAACACACCAATAGCTCA
* * *
38095126 TAAGAGCATATCCATCCAACACACCAA
1 TAACAACATATCCAACCAACACACCAA
38095153 GGCACATAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.44, C:0.32, G:0.06, T:0.18
Consensus pattern (34 bp):
TAACAACATATCCAACCAACACACCAATAGCTCA
Found at i:38098307 original size:11 final size:11
Alignment explanation
Indices: 38098291--38098326 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
38098281 GATTGGTTAG
38098291 AATATTTTATT
1 AATATTTTATT
38098302 AATATTTTATCAT
1 AATATTTTAT--T
38098315 AATATTTTATT
1 AATATTTTATT
38098326 A
1 A
38098327 TAAGAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
AATATTTTATT
Found at i:38098319 original size:13 final size:12
Alignment explanation
Indices: 38098291--38098329 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
38098281 GATTGGTTAG
38098291 AATATTTTAT-T
1 AATATTTTATAT
38098302 AATATTTTATCAT
1 AATATTTTAT-AT
38098315 AATATTTTATTAT
1 AATATTTTA-TAT
38098328 AA
1 AA
38098330 GAATTTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.40
13 14 0.56
14 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTTTATAT
Found at i:38101564 original size:50 final size:49
Alignment explanation
Indices: 38101459--38101674 Score: 273
Period size: 48 Copynumber: 4.5 Consensus size: 49
38101449 TATGTGTGCT
* * * *
38101459 AGTGTAAGACATGTCTGGGACATGCATTGG-C-C-ACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATAT-ACAAGCC
* *
38101505 AGTATAAGACATGTTTGGGACATGCATCGGCCTCGAGATATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-ATATACAAGCC
*
38101555 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAG-ATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATATACAAGCC
* *
38101603 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-AATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATATACAAGCC
* *
38101651 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
38101675 GCATTAGCTT
Statistics
Matches: 150, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
46 27 0.18
47 1 0.01
48 78 0.52
49 3 0.02
50 41 0.27
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATATACAAGCC
Found at i:38101615 original size:48 final size:47
Alignment explanation
Indices: 38101459--38101822 Score: 260
Period size: 48 Copynumber: 7.6 Consensus size: 47
38101449 TATGTGTGCT
* * *
38101459 AGTGTAAGACATGTCTGGGACATGCATTGGCC---ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TAT-AAAGCC
* * *
38101505 AGTATAAGACATGTTTGGGACATGCATCGGCCTCGAGATATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAG--ATATA-AAGCC
38101555 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATA-AAGCC
* * * *
38101603 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAAATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATA-AAGCC
* * ** * * *
38101651 AGTGTAAGACCTGTCTAGGACATGGCATTAG-CTTGTTG-TGT---GTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTG-AGATATAAAGCC
* * * * * *
38101695 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTTGAGATAT-AAAGCC
* * * * **
38101744 AGTGTAAGACCTATCTGGGACATGACATTGGCCTTGATATATGAAATTC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCCTTGAGATAT-AAAGCC
*
38101793 AGTGTAAGACCTGTCTGGGACATTGCATCG
1 AGTGTAAGACATGTCTGGGACA-TGCATCG
38101823 ACTTTGATGT
Statistics
Matches: 259, Mismatches: 41, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
44 28 0.11
45 2 0.01
46 30 0.12
48 83 0.32
49 72 0.28
50 43 0.17
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATAAAGCC
Found at i:38101627 original size:98 final size:98
Alignment explanation
Indices: 38101459--38101822 Score: 335
Period size: 98 Copynumber: 3.8 Consensus size: 98
38101449 TATGTGTGCT
* * * *
38101459 AGTGTAAGACATGTCTGGGACATGCATTGGCC---ACATTATGAGAGCCAGTATAAGACATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGA-TATGAAAGCCAGTGTAAGACATGTCT
38101521 GGGACATGCATCGGCCTCGAGATATATACAAGCC
65 GGGACATGCATCGGCCTCGAGATATATACAAGCC
*
38101555 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-ACAAGCCAGTGTAAGACATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATATGA-AAGCCAGTGTAAGACATGTCT
* *
38101619 GGGACATGCATCAGCCTCGA-A-ATATACAAGCT
65 GGGACATGCATCGGCCTCGAGATATATACAAGCC
* * * *** * *
38101651 AGTGTAAGACCTGTCTAGGACATGGCATTAG-CTT--G-T-TGTGTGTCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCTTGAGATATGAAAGCCAGTGTAAGACATGTCT
* * *
38101711 GGGACATGGCATCGACAC-C--GATAGATGA-GAGCC
65 GGGACAT-GCATCGGC-CTCGAGATATAT-ACAAGCC
* * * ** *
38101744 AGTGTAAGACCTATCTGGGACATGACATTGGCCTTGATATATGAAATTCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACATG-CATTGGCCTTGAGATATGAAAGCCAGTGTAAGACATGTCT
38101809 GGGACATTGCATCG
65 GGGACA-TGCATCG
38101823 ACTTTGATGT
Statistics
Matches: 221, Mismatches: 29, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
92 27 0.12
93 40 0.18
94 6 0.03
96 65 0.29
97 8 0.04
98 72 0.33
99 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (98 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATATGAAAGCCAGTGTAAGACATGTCTG
GGACATGCATCGGCCTCGAGATATATACAAGCC
Found at i:38101754 original size:49 final size:48
Alignment explanation
Indices: 38101459--38101870 Score: 217
Period size: 48 Copynumber: 8.6 Consensus size: 48
38101449 TATGTGTGCT
* * * ** * *
38101459 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAGATGAAAGCC
* * * * *
38101505 AGTATAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCT---GATAGATGA-AAGCC
* * * *
38101555 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-TGATAGATGA-AAGCC
* * * *
38101603 AGTGTAAGACATGTCTGGGACAT-GCATC-AGCCTCGAAATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCT-GATAGATGA-AAGCC
* * * * * *
38101651 AGTGTAAGACCTGTCTAGGACATGGCAT-TAGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTGATAGATGAAAGCC
* *
38101695 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGCC
* * * * * **
38101744 AGTGTAAGACCTATCTGGGACATGACATTGGCCTTGATATATGAAATTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-TGATAGATGAAAGCC
* * **
38101793 AGTGTAAGACCTGTCTGGGACATTGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGCC
* *
38101840 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
38101871 GCATCTTACC
Statistics
Matches: 295, Mismatches: 51, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
44 29 0.10
45 2 0.01
46 32 0.11
47 18 0.06
48 94 0.32
49 82 0.28
50 37 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAGATGAAAGCC
Found at i:38104544 original size:22 final size:22
Alignment explanation
Indices: 38104519--38104560 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38104509 ATGATTATGG
*
38104519 TTGCTCATACAAGCTAACATAT
1 TTGCTCACACAAGCTAACATAT
*
38104541 TTGCTCACACAAGCTGACAT
1 TTGCTCACACAAGCTAACAT
38104561 TATAACCTCT
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:0.26, G:0.12, T:0.29
Consensus pattern (22 bp):
TTGCTCACACAAGCTAACATAT
Found at i:38105392 original size:39 final size:40
Alignment explanation
Indices: 38105343--38105434 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 40
38105333 TTTTTCATTT
*
38105343 AAACGCCGCTAAAGAAT-GAGTATTAGCAGCAC-TTTTTAA
1 AAACGCCGCTAAA-AATCAAGTATTAGCAGCACTTTTTTAA
* * *
38105382 AAACGTCGCTAAAAATCAAGTATTAGCGGCGCTTTTTTTAA
1 AAACGCCGCTAAAAATCAAGTATTAGCAGCAC-TTTTTTAA
*
38105423 AAACGCTGCTAA
1 AAACGCCGCTAA
38105435 TGCTTGATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
38 3 0.07
39 24 0.55
41 17 0.39
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (40 bp):
AAACGCCGCTAAAAATCAAGTATTAGCAGCACTTTTTTAA
Found at i:38105566 original size:40 final size:39
Alignment explanation
Indices: 38105480--38105667 Score: 170
Period size: 40 Copynumber: 4.7 Consensus size: 39
38105470 CCTTTAGTGG
* ** *
38105480 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACAC
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTA-ATGTTGAT
* *
38105520 CATTAGCAGCGCTTTTCAAAAAACGCCGCTAATGCTTGAT
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATG-TTGAT
* *
38105560 CTTTAGC-GACG-TTTTTTAAAAA-GCTCGCTAAAGATTGAGT
1 CTTTAGCAG-CGCTTTTTAAAAAACGC-CGCTAATG-TTGA-T
* * *
38105600 -ATTAGCGGCGCTTTTTAAGAAACGCCGCTAATGTTCGAT
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGTT-GAT
38105639 CTTTAGCAGCG-TTTTTCAAAAAACGCCGC
1 CTTTAGCAGCGCTTTTT-AAAAAACGCCGC
38105668 AAAAGAATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.02
39 39 0.32
40 77 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (39 bp):
CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGTTGAT
Found at i:38105986 original size:14 final size:14
Alignment explanation
Indices: 38105956--38106020 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
38105946 TATGGATTAT
38105956 GGTTTAAGGG-T--
1 GGTTTAAGGGTTGG
38105967 GGTTTAAGGGTTGG
1 GGTTTAAGGGTTGG
**
38105981 GGTTTAA-GGTTTA
1 GGTTTAAGGGTTGG
*
38105994 GGTGTTAGGGGTTAGG
1 GGT-TTAAGGGTT-GG
38106010 GG-TTAAGGGTT
1 GGTTTAAGGGTT
38106021 CATAGTTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
11 10 0.24
12 1 0.02
13 7 0.17
14 18 0.43
15 4 0.10
16 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (14 bp):
GGTTTAAGGGTTGG
Found at i:38106035 original size:7 final size:7
Alignment explanation
Indices: 38105967--38106087 Score: 66
Period size: 7 Copynumber: 17.0 Consensus size: 7
38105957 GTTTAAGGGT
38105967 GGTTTAAG
1 GGTTT-AG
*
38105975 GG-TTGG
1 GGTTTAG
*
38105981 GGTTTAA
1 GGTTTAG
38105988 GGTTTA-
1 GGTTTAG
38105994 GGTGTTAG
1 GGT-TTAG
*
38106002 GGGTTAGG
1 GGTTTA-G
*
38106010 GGTTAAG
1 GGTTTAG
* *
38106017 GGTTCAT
1 GGTTTAG
*
38106024 AGTTTAG
1 GGTTTAG
*
38106031 GGTTTAT
1 GGTTTAG
*
38106038 GTTTTAG
1 GGTTTAG
* *
38106045 GATTTAT
1 GGTTTAG
38106052 GGTTTAG
1 GGTTTAG
38106059 GGTTTAG
1 GGTTTAG
* *
38106066 TGATTAAG
1 -GGTTTAG
*
38106074 AGTTTAG
1 GGTTTAG
38106081 GGTTTAG
1 GGTTTAG
38106088 ATTAATTAGC
Statistics
Matches: 83, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
6 6 0.07
7 63 0.76
8 14 0.17
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:38106267 original size:15 final size:15
Alignment explanation
Indices: 38106245--38106278 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38106235 AGTTACTATT
*
38106245 TTAT-GGTTTATGGA
1 TTATGGGTTTAGGGA
38106259 TTATGGGTTTAGGGA
1 TTATGGGTTTAGGGA
38106274 TTATG
1 TTATG
38106279 ATTTATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (15 bp):
TTATGGGTTTAGGGA
Found at i:38107113 original size:7 final size:8
Alignment explanation
Indices: 38107071--38107167 Score: 92
Period size: 8 Copynumber: 11.9 Consensus size: 8
38107061 TTTATATGAT
38107071 AATTTAAA
1 AATTTAAA
38107079 AATTATAAA
1 AATT-TAAA
38107088 AATCTTCAAAAA
1 AAT-TT---AAA
38107100 AATTTAAA
1 AATTTAAA
38107108 AA-TTAAA
1 AATTTAAA
38107115 AA-TTAAA
1 AATTTAAA
*
38107122 AATTTGAA
1 AATTTAAA
38107130 AATTTAAA
1 AATTTAAA
38107138 AATTTAAA
1 AATTTAAA
*
38107146 AA-TAAAA
1 AATTTAAA
*
38107153 AACTTAAA
1 AATTTAAA
*
38107161 TATTTAA
1 AATTTAA
38107168 TATTTTAGTC
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
7 20 0.26
8 39 0.51
9 8 0.11
10 1 0.01
11 2 0.03
12 6 0.08
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:38107122 original size:6 final size:7
Alignment explanation
Indices: 38107097--38107160 Score: 65
Period size: 7 Copynumber: 8.4 Consensus size: 7
38107087 AAATCTTCAA
38107097 AAAAATTT
1 AAAAA-TT
38107105 AAAAATT
1 AAAAATT
38107112 AAAAATT
1 AAAAATT
38107119 AAAAATTT
1 AAAAA-TT
*
38107127 GAAAATTT
1 -AAAAATT
38107135 AAAAATTT
1 AAAAA-TT
*
38107143 AAAAATA
1 AAAAATT
38107150 AAAAACTT
1 AAAAA-TT
38107158 AAA
1 AAA
38107161 TATTTAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
7 24 0.50
8 20 0.42
9 4 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (7 bp):
AAAAATT
Found at i:38107154 original size:16 final size:15
Alignment explanation
Indices: 38107097--38107160 Score: 76
Period size: 15 Copynumber: 4.2 Consensus size: 15
38107087 AAATCTTCAA
38107097 AAAAATTTAAAAA-TT
1 AAAAA-TTAAAAATTT
38107112 AAAAATTAAAAATTT
1 AAAAATTAAAAATTT
*
38107127 GAAAATTTAAAAATTT
1 -AAAAATTAAAAATTT
* *
38107143 AAAAATAAAAAACTT
1 AAAAATTAAAAATTT
38107158 AAA
1 AAA
38107161 TATTTAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.16
15 22 0.51
16 14 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:38107154 original size:23 final size:23
Alignment explanation
Indices: 38107097--38107167 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
38107087 AAATCTTCAA
*
38107097 AAAAATTTAAAAATTAAAAA-TT
1 AAAAATTAAAAAATTAAAAATTT
* *
38107119 AAAAATTTGAAAATTTAAAAATTT
1 AAAAA-TTAAAAAATTAAAAATTT
*
38107143 AAAAA-TAAAAAACTTAAATATTT
1 AAAAATTAAAAAA-TTAAAAATTT
38107166 AA
1 AA
38107168 TATTTTAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.24
23 24 0.59
24 7 0.17
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (23 bp):
AAAAATTAAAAAATTAAAAATTT
Found at i:38112030 original size:13 final size:14
Alignment explanation
Indices: 38112012--38112053 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38112002 TCGTGTCAAC
38112012 TAATTATTTT-TTT
1 TAATTATTTTGTTT
38112025 TAATTATTTTGTTT
1 TAATTATTTTGTTT
*
38112039 TCAA-CATTTTGTTT
1 T-AATTATTTTGTTT
38112053 T
1 T
38112054 TATTTGAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 10 0.38
14 14 0.54
15 2 0.08
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (14 bp):
TAATTATTTTGTTT
Found at i:38112480 original size:43 final size:43
Alignment explanation
Indices: 38112433--38112643 Score: 113
Period size: 43 Copynumber: 4.9 Consensus size: 43
38112423 CGTTTGTGAG
*
38112433 AAAAGCGTCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAAA
1 AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAAA
* * * * * ****
38112476 AAAAGTGCCGCTAAATGTCATGGTTTTTAGCGGCGTTTTGGGG
1 AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAAA
* * * * * * * *
38112519 AAAAGTGCCGTTAAATGTTATGGTTTTTAGTGGC-GTTTGAAGA
1 AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAA-A
* * * * * * *
38112562 AAAAGCGCTGTTAAAGGTCATGGTATTTAACGG--TGTTTGAGGA
1 AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCAT-TTTCA-AA
* * * *
38112605 AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGCGTTTT
1 AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCATTTT
38112644 TTTTTAATAA
Statistics
Matches: 132, Mismatches: 31, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
42 4 0.03
43 124 0.94
44 3 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAAA
Found at i:38112542 original size:86 final size:86
Alignment explanation
Indices: 38112433--38112643 Score: 228
Period size: 86 Copynumber: 2.4 Consensus size: 86
38112423 CGTTTGTGAG
* * * * * *
38112433 AAAAGCGTCGCTAAAGGTAATGGTCTTTAGCGGCATTTTCAA-AAAAAGTGCCGCTAAATGTCAT
1 AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGC-TTTTCAAGAAAAAGCGCCGCTAAAGGTCAT
* * *
38112497 GGTTTTTAGCGGCGTTTTG-GGG
65 GGTATTTAACGGCG-TTTGAGGA
* * * * * * *
38112519 AAAAGTGCCGTTAAATGTTATGGTTTTTAGTGGCGTTTGAAGAAAAAGCGCTGTTAAAGGTCATG
1 AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGCTTTTCAAGAAAAAGCGCCGCTAAAGGTCATG
*
38112584 GTATTTAACGGTGTTTGAGGA
66 GTATTTAACGGCGTTTGAGGA
38112605 AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGCGTTTT
1 AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGC-TTTT
38112644 TTTTTAATAA
Statistics
Matches: 101, Mismatches: 21, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
85 9 0.09
86 89 0.88
87 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (86 bp):
AAAAGCGCCGTTAAATGTTATGGTCTTTAGCGGCTTTTCAAGAAAAAGCGCCGCTAAAGGTCATG
GTATTTAACGGCGTTTGAGGA
Found at i:38114339 original size:12 final size:12
Alignment explanation
Indices: 38114322--38114354 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
38114312 TTCTCTGTAA
38114322 AATAGTAAAAAT
1 AATAGTAAAAAT
38114334 AATAGTAAAAAT
1 AATAGTAAAAAT
38114346 AATAGTAAA
1 AATAGTAAA
38114355 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:38115283 original size:10 final size:10
Alignment explanation
Indices: 38115264--38115323 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
38115254 TGAAATTCTA
38115264 AAAGATAAAT
1 AAAGATAAAT
38115274 ACAA-ATAAAT
1 A-AAGATAAAT
* *
38115284 AAATATAATT
1 AAAGATAAAT
38115294 AAAGATAAAT
1 AAAGATAAAT
38115304 AAAGATAAAT
1 AAAGATAAAT
38115314 GAAA-ATAAAT
1 -AAAGATAAAT
38115324 CTTAAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:38115298 original size:30 final size:30
Alignment explanation
Indices: 38115264--38115321 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
38115254 TGAAATTCTA
38115264 AAAGATAAATACAA-ATAAAT-AAATATAATT
1 AAAGATAAATA-AAGATAAATGAAA-ATAATT
38115294 AAAGATAAATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAGATAAATGAAAATAA
38115322 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATGAAAATAATT
Found at i:38125865 original size:20 final size:19
Alignment explanation
Indices: 38125840--38125887 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
38125830 TCATGTTGAA
38125840 TAAATTGA-AGAATTAGAGGT
1 TAAATTGATAGAATTA-A-GT
38125860 TAAATTGATAGAATTAAGT
1 TAAATTGATAGAATTAAGT
38125879 TAGAATTGA
1 TA-AATTGA
38125888 GAAAAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 15 0.58
21 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (19 bp):
TAAATTGATAGAATTAAGT
Found at i:38126325 original size:5 final size:5
Alignment explanation
Indices: 38126317--38126364 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
38126307 GTATTATGGT
* *
38126317 ATTGA ATTGA ATTAA ATTAA ATTGA ATT-A AGTTGA ATTGA ATTGA ATT
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATT
38126365 ATGAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 2 0.05
5 35 0.90
6 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:38126772 original size:22 final size:23
Alignment explanation
Indices: 38126721--38126772 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
38126711 GGTAATTAAA
38126721 TGAAATGACATTATGATTGATAT
1 TGAAATGACATTATGATTGATAT
* *
38126744 TG-GATGATATTAT-ATGTGAT-T
1 TGAAATGACATTATGAT-TGATAT
38126765 TGAAATGA
1 TGAAATGA
38126773 GAAAGTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (23 bp):
TGAAATGACATTATGATTGATAT
Found at i:38132887 original size:5 final size:5
Alignment explanation
Indices: 38132877--38132925 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
38132867 TATGTCTTTC
38132877 AAAAT AAAAT --AAT AAAATT AAAAT GAAAAT AAAA- AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT -AAAAT
38132922 AAAA
1 AAAA
38132926 AGATAGGAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.08
4 4 0.11
5 16 0.42
6 15 0.39
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:38132907 original size:20 final size:19
Alignment explanation
Indices: 38132877--38132925 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
38132867 TATGTCTTTC
* *
38132877 AAAATAAAATAATAAAATT
1 AAAATAAAATAAAAAAAAT
38132896 AAAATGAAAATAAAAAAAAT
1 AAAAT-AAAATAAAAAAAAT
38132916 AAAAATAAAA
1 -AAAATAAAA
38132926 AGATAGGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 16 0.62
21 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAATAAAATAAAAAAAAT
Found at i:38137012 original size:40 final size:40
Alignment explanation
Indices: 38136928--38137112 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
38136918 TCGAATGATG
* *
38136928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
38136967 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
38137008 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
38137047 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
38137086 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38137113 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:38137064 original size:79 final size:81
Alignment explanation
Indices: 38136928--38137110 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
38136918 TCGAATGATG
* *
38136928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
38136992 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
38137007 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
38137069 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
38137087 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38137111 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:38137134 original size:79 final size:78
Alignment explanation
Indices: 38136929--38137145 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
38136919 CGAATGATGT
* *
38136929 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
38136992 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
38137009 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
38137072 GTGTGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
38137088 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
38137146 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 46 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:38142543 original size:16 final size:15
Alignment explanation
Indices: 38142516--38142556 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 15
38142506 ATCTTAAAAC
38142516 TTTATTTTTATTTGA
1 TTTATTTTTATTTGA
38142531 TTTATTATTTATTTGA
1 TTTATT-TTTATTTGA
38142547 TTTTATTTTT
1 -TTTATTTTT
38142557 TTAAAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATTTGA
Found at i:38144119 original size:16 final size:17
Alignment explanation
Indices: 38144078--38144116 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
38144068 TCTTTAGACA
38144078 TTTGGGATTGTTTTTGT
1 TTTGGGATTGTTTTTGT
38144095 TTTGGGATTGTTTTTGT
1 TTTGGGATTGTTTTTGT
38144112 TTTGG
1 TTTGG
38144117 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.05, C:0.00, G:0.31, T:0.64
Consensus pattern (17 bp):
TTTGGGATTGTTTTTGT
Found at i:38144127 original size:13 final size:13
Alignment explanation
Indices: 38144105--38144135 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
38144095 TTTGGGATTG
*
38144105 TTTTTGTTTTGGA
1 TTTTTATTTTGGA
38144118 TTTTTATTTTGGA
1 TTTTTATTTTGGA
38144131 TTTTT
1 TTTTT
38144136 GACATTACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTGGA
Found at i:38149824 original size:17 final size:18
Alignment explanation
Indices: 38149802--38149898 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 18
38149792 ATGGAAATAT
38149802 AATCTT-TAAGGATATGC
1 AATCTTATAAGGATATGC
* *
38149819 AATCTTAGTTATGATATGC
1 AATCTTA-TAAGGATATGC
* *
38149838 AATCTTAGATGTGATA--C
1 AATCTTATAAG-GATATGC
* *
38149855 AATCTTAGATATGATATGC
1 AATCTTATA-AGGATATGC
* *
38149874 AATCTTAGATATGATATGC
1 AATCTTATA-AGGATATGC
38149893 AATCTT
1 AATCTT
38149899 GAAGATATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
17 20 0.30
19 46 0.70
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATCTTATAAGGATATGC
Found at i:38149836 original size:19 final size:19
Alignment explanation
Indices: 38149812--38149909 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
38149802 AATCTTTAAG
*
38149812 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
*
38149831 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
38149850 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38149867 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38149886 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
38149907 GAT
1 GAT
38149910 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
21 9 0.12
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38149858 original size:36 final size:37
Alignment explanation
Indices: 38149812--38149909 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
38149802 AATCTTTAAG
* *
38149812 GATATGCAATCTTAGTTATGATATGCAATCTTAGATGT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
38149850 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
38149886 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
38149910 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
40 9 0.17
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:38158081 original size:78 final size:78
Alignment explanation
Indices: 38157984--38158512 Score: 717
Period size: 78 Copynumber: 6.8 Consensus size: 78
38157974 CGAAGAAACA
* * *
38157984 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAAAAT-TGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGC-AGATCTGACCTTCATTGA
*
38158048 AACAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
38158062 GATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
38158127 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
38158140 GATTTGGCATCTCTATATTAGACGTG-GAGCAAATCGAAGACACAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACG-GAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
38158204 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * * * * *
38158218 GATTTGGCATCTCCATATTCGATGGAGAGAAAATTGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
38158283 GCATATCCAAGAT
66 GCAGATCCAAGAT
* * * *
38158296 GATTTGGCATCTCTATATTAGACGG-GCAGCAGATCAAAGACACAGTAGATCTAACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGAG-AGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
38158360 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
38158374 GATTTGGCATCTTTGTATTAGAC-GAGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTG
1 GATTTGGCATCTCTATATTAGACGGA-GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTG
*
38158437 AAGCAGATCCAATAT
64 AAGCAGATCCAAGAT
* * * *
38158452 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAAATTTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
38158513 GTGTTTACAT
Statistics
Matches: 402, Mismatches: 40, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
77 7 0.02
78 391 0.97
79 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:38158647 original size:44 final size:45
Alignment explanation
Indices: 38158452--38158719 Score: 247
Period size: 45 Copynumber: 5.9 Consensus size: 45
38158442 GATCCAATAT
*
38158452 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * ** * * *
38158499 AATTTGACCT-TCATGTGTTTACATC--AAAGCAGATCCAAGATGATA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
38158544 GATTTGGCATCTTTATATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
38158589 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
38158633 GATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
38158678 GATTTGCCGTCTCTGTATTAGACGGGGAACATATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA
38158720 GTAGATATCG
Statistics
Matches: 174, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 44 0.25
45 100 0.57
46 3 0.02
47 21 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:38158654 original size:89 final size:89
Alignment explanation
Indices: 38158543--38158705 Score: 254
Period size: 89 Copynumber: 1.8 Consensus size: 89
38158533 CCAAGATGAT
* * *
38158543 AGATTTGGCATCTTTATATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATTTGCCATCTCTGTATT
38158608 AGACGGGGAGCAGATTGAAGAAGC
66 AGACGGGGAGCAGATTGAAGAAGC
* * * * *
38158632 AGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACAGATTTGCCGTCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATTTGCCATCTCTGTATT
38158697 AGACGGGGA
66 AGACGGGGA
38158706 ACATATCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (89 bp):
AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATTTGCCATCTCTGTATT
AGACGGGGAGCAGATTGAAGAAGC
Found at i:38158719 original size:134 final size:136
Alignment explanation
Indices: 38158452--38158719 Score: 301
Period size: 134 Copynumber: 2.0 Consensus size: 136
38158442 GATCCAATAT
*
38158452 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAAATTTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAAATTTGACCTTCATGTGA
* * * * * **
38158517 TTACATCAAAGCAGATCCAAGATGATAGATTTGGCATCTTTATATTAGACGGGGAGCAAATCGGA
65 TTACATCAAAGCAGATCCAAGATAACAGATTTGCCATCTCTATATTAGACGGGGAACAAATCAAA
38158582 GATAACA
130 GATAACA
* * * *
38158589 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAAATTTGACCT-TCATGTGA
* *** * * * *
38158650 TTAGATGGGGAGCAGATCGAAGATAACAGATTTGCCGTCTCTGTATTAGACGGGGAACATATCAA
65 TTACAT-CAAAGCAGATCCAAGATAACAGATTTGCCATCTCTATATTAGACGGGGAACAAATCAA
38158715 AGATA
129 AGATA
38158720 GTAGATATCG
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
133 5 0.05
134 63 0.58
135 3 0.03
137 38 0.35
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAAATTTGACCTTCATGTGAT
TACATCAAAGCAGATCCAAGATAACAGATTTGCCATCTCTATATTAGACGGGGAACAAATCAAAG
ATAACA
Found at i:38159128 original size:19 final size:19
Alignment explanation
Indices: 38159081--38159140 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
38159071 AATCATTAAG
38159081 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38159100 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38159117 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
38159138 GAT
1 GAT
38159141 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
21 9 0.24
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38161692 original size:8 final size:8
Alignment explanation
Indices: 38161669--38161698 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
38161659 CATCAAACTA
38161669 TTTTTCTT
1 TTTTTCTT
38161677 TCTTTTCTT
1 T-TTTTCTT
38161686 TTTTTCTT
1 TTTTTCTT
38161694 TTTTT
1 TTTTT
38161699 TCGAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:38171690 original size:13 final size:13
Alignment explanation
Indices: 38171668--38171711 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
38171658 TTTGTGATTG
*
38171668 TTTTTGTTTTGGA
1 TTTTTATTTTGGA
38171681 TTTTTATTTTGGA
1 TTTTTATTTTGGA
*
38171694 TTTTTATTTTTGA
1 TTTTTATTTTGGA
38171707 TTTTT
1 TTTTT
38171712 GACATGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.75
Consensus pattern (13 bp):
TTTTTATTTTGGA
Found at i:38171711 original size:7 final size:7
Alignment explanation
Indices: 38171668--38171713 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
38171658 TTTGTGATTG
38171668 TTTTTG-
1 TTTTTGA
*
38171674 TTTTGGA
1 TTTTTGA
38171681 TTTTT-A
1 TTTTTGA
*
38171687 TTTTGGA
1 TTTTTGA
38171694 TTTTT-A
1 TTTTTGA
38171700 TTTTTGA
1 TTTTTGA
38171707 TTTTTGA
1 TTTTTGA
38171714 CATGATACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 16 0.48
7 17 0.52
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (7 bp):
TTTTTGA
Found at i:38171893 original size:26 final size:26
Alignment explanation
Indices: 38171864--38171916 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38171854 TTAAATAAGT
38171864 ATGACAAACACGTTTTAAATAAAGCG
1 ATGACAAACACGTTTTAAATAAAGCG
38171890 ATGACAAACACGTTTTAAATAAAGCG
1 ATGACAAACACGTTTTAAATAAAGCG
38171916 A
1 A
38171917 GCTTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (26 bp):
ATGACAAACACGTTTTAAATAAAGCG
Found at i:38177674 original size:46 final size:44
Alignment explanation
Indices: 38177616--38177751 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 44
38177606 AGTGAATGGT
*
38177616 ATAAA-CAACTTAAAATAATTAATATACAAAACAATTTAAAATAAA
1 ATAAAGCAACTTAAAATAAATAATAT--AAAACAATTTAAAATAAA
* *
38177661 ATAAAGCAACTTAAAATAAATAATATATAACAATTTAAAATAAC
1 ATAAAGCAACTTAAAATAAATAATATAAAACAATTTAAAATAAA
* * * * *
38177705 ATATAGAAAGTCTAAAATAAATAATATGTAAAAAAAATTAAAATAAA
1 ATAAAGCAACT-TAAAATAAATAATA--TAAAACAATTTAAAATAAA
38177752 TAATATTAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
44 24 0.31
45 19 0.25
46 19 0.25
47 15 0.19
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (44 bp):
ATAAAGCAACTTAAAATAAATAATATAAAACAATTTAAAATAAA
Found at i:38177681 original size:24 final size:24
Alignment explanation
Indices: 38177654--38177703 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38177644 AAACAATTTA
38177654 AAATAAAATA-AAGCAACTTAAAAT
1 AAATAAAATATAA-CAACTTAAAAT
* *
38177678 AAATAATATATAACAATTTAAAAT
1 AAATAAAATATAACAACTTAAAAT
38177702 AA
1 AA
38177704 CATATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (24 bp):
AAATAAAATATAACAACTTAAAAT
Found at i:38177877 original size:27 final size:28
Alignment explanation
Indices: 38177847--38177923 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
38177837 TAAAAATTTA
38177847 AAATA-GATAAAATAGTTTAAAATAAAT
1 AAATATGATAAAATAGTTTAAAATAAAT
38177874 AAATATG-TAAAAATA-TTTAAAATAAAT
1 AAATATGAT-AAAATAGTTTAAAATAAAT
* *
38177901 AATATATAATAAAACAGTTTAAA
1 AA-ATATGATAAAATAGTTTAAA
38177924 GTATAGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 20 0.47
28 16 0.37
29 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (28 bp):
AAATATGATAAAATAGTTTAAAATAAAT
Found at i:38179603 original size:44 final size:43
Alignment explanation
Indices: 38179534--38180008 Score: 254
Period size: 44 Copynumber: 10.7 Consensus size: 43
38179524 TATCTTTATC
* * ** *
38179534 CTGCTCTACTGTAACTTCAAAGAGATAAGTATTATGGCTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAG-ATTATGGCTTCAAT
38179578 CTGCTCCACTGCAACTTCAGGGAGATAAG---A---C-T---T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTCAAT
* * * * *
38179611 CTGCTCCACTACAACTTCAAGGAGATAAGACT-TGCTACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTATG--GCTTCAAT
** * * **
38179655 CTGCTCCACTATAACTTCAGGGAGATAAGGTT-TGTGTTTTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTATG-G--CTTCAAT
* * * **
38179700 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTTGAT
1 -CTGCTCCACTGCAACTTCAGGGAGATAA-GATTATGGCTTCAAT
* * *
38179745 ATGCTCCACTGCAACTTTAGGGAGATAAGACTTGTGGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATGGCTTCAAT
* * * *
38179789 CTACTCCACTACAACTTCAGGAAGATAAGATTCACCATGATTTGTAGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-T-----T-A--TG--GCTTCAAT
* * * * *
38179843 CTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTGTCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-A-TGGCTTCAAT
* * * * *
38179888 CTGCTCCGCTGCAACTTCAGGGAAATAAGATTCACTGTCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-A-TGGCTTCAAT
** *
38179933 CTGCTCCGTTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATGGCTTCAAT
* *
38179977 CTACTCCACTGCAACTTCAGGAAGATAAGATT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT
38180009 CGCCATGATG
Statistics
Matches: 343, Mismatches: 59, Indels: 59
0.74 0.13 0.13
Matches are distributed among these distances:
33 28 0.08
36 1 0.00
37 1 0.00
40 2 0.01
41 1 0.00
43 5 0.01
44 147 0.43
45 86 0.25
46 26 0.08
47 6 0.02
48 4 0.01
49 1 0.00
52 2 0.01
53 1 0.00
54 32 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTCAAT
Found at i:38179619 original size:33 final size:33
Alignment explanation
Indices: 38179577--38179643 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
38179567 ATGGCTTCGA
* *
38179577 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTACAACTTCAAGGAGATAAGACT
38179610 TCTGCTCCACTACAACTTCAAGGAGATAAGACT
1 TCTGCTCCACTACAACTTCAAGGAGATAAGACT
38179643 T
1 T
38179644 GCTACTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (33 bp):
TCTGCTCCACTACAACTTCAAGGAGATAAGACT
Found at i:38179758 original size:167 final size:168
Alignment explanation
Indices: 38179455--38179777 Score: 495
Period size: 167 Copynumber: 1.9 Consensus size: 168
38179445 ACTCCGCTGG
* * *
38179455 AACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCACCACTACAACTTCAGAGAGATAAGGTT
1 AACTTCAAGGAGATAAGAATTGCTAACTTCAACCTGCACCACTACAACTTCAGAGAGATAAGGTT
* * *
38179520 TGTGTATCTTTATCCTGCTCTACTGTAACTTCAAAGAGATAAGTATTATGGCTTCGATCTGCTCC
66 TGTGTATCTTTATCCTGCTCTACTGCAACTTCAAAGAGATAAGGATTATGGCTTCGATATGCTCC
38179585 ACTGCAACTTCAGGGAGATAAGACTTCTGCTCCACTAC
131 ACTGCAACTTCAGGGAGATAAGACTTCTGCTCCACTAC
* * * *
38179623 AACTTCAAGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGGTT
1 AACTTCAAGGAGATAAGAATTGCTAACTTCAACCTGCACCACTACAACTTCAGAGAGATAAGGTT
* * * * *
38179687 TGTGTTTTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGTTTTGATATGCTCC
66 TGTGTATCTTTATCCTGCTCTACTGCAACTTCAAAGAGATAAGGATTATGGCTTCGATATGCTCC
*
38179752 ACTGCAACTTTAGGGAGATAAGACTT
131 ACTGCAACTTCAGGGAGATAAGACTT
38179778 GTGGCTTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
167 118 0.85
168 21 0.15
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (168 bp):
AACTTCAAGGAGATAAGAATTGCTAACTTCAACCTGCACCACTACAACTTCAGAGAGATAAGGTT
TGTGTATCTTTATCCTGCTCTACTGCAACTTCAAAGAGATAAGGATTATGGCTTCGATATGCTCC
ACTGCAACTTCAGGGAGATAAGACTTCTGCTCCACTAC
Found at i:38179902 original size:45 final size:45
Alignment explanation
Indices: 38179836--38180009 Score: 217
Period size: 45 Copynumber: 3.9 Consensus size: 45
38179826 TGATTTGTAG
*
38179836 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTGT
* *
38179881 CTTTAGTCTGCTCCGCTGCAACTTCAGGGAAATAAGATTCACTGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTGT
* ** * ** *
38179926 CTTTAGTCTGCTCCGTTGCAACTTCAGGGAGATAAGATT-TGTGG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTGT
* *
38179970 CTTCAATCTACTCCACTGCAACTTCA-GGAAGATAAGATTC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTC
38180010 GCCATGATGA
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 3 0.03
44 31 0.27
45 79 0.70
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTGT
Found at i:38180462 original size:46 final size:46
Alignment explanation
Indices: 38180406--38180505 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
38180396 ATTTGTGGTT
* *
38180406 TCTTCTATCCACCCCATTGCAACTCAAT-GGTATAGGATGTGTATCA
1 TCTTCAATCCACCCCACTGCAACT-AATGGGTATAGGATGTGTATCA
* * * *
38180452 TCTTCAATCCATCCCACTGCAACTTATGGGTATAGGATTTGTATCT
1 TCTTCAATCCACCCCACTGCAACTAATGGGTATAGGATGTGTATCA
38180498 TCTTCAAT
1 TCTTCAAT
38180506 TCATACCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 2 0.04
46 45 0.96
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (46 bp):
TCTTCAATCCACCCCACTGCAACTAATGGGTATAGGATGTGTATCA
Found at i:38180529 original size:46 final size:46
Alignment explanation
Indices: 38180423--38180534 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
38180413 TCCACCCCAT
** *
38180423 TGCAACTCAATGGTATAGGATGTGTATCATCTTCAATCCATCCCAC
1 TGCAACTCAGGGGTATAGGATGTGTATCATCTTCAATCCATACCAC
* * * * *
38180469 TGCAACTTATGGGTATAGGATTTGTATCTTCTTCAATTCATACCAC
1 TGCAACTCAGGGGTATAGGATGTGTATCATCTTCAATCCATACCAC
* *
38180515 TGCAGCTCAGGGGTACAGGA
1 TGCAACTCAGGGGTATAGGA
38180535 CATATGACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (46 bp):
TGCAACTCAGGGGTATAGGATGTGTATCATCTTCAATCCATACCAC
Found at i:38181029 original size:53 final size:53
Alignment explanation
Indices: 38180949--38181105 Score: 251
Period size: 53 Copynumber: 3.0 Consensus size: 53
38180939 AGGAGCATAG
* *
38180949 CTTGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
1 CTTGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
38181002 CTTGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
1 CTTGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
* * * * *
38181055 CTCGAAATGAGTAAGTTAATCAAATATAGAAAATGTAATAAAAAGGAAATT
1 CTTGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
38181106 GGTTGGGAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 97 1.00
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.24
Consensus pattern (53 bp):
CTTGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
Found at i:38184605 original size:13 final size:13
Alignment explanation
Indices: 38184587--38184632 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
38184577 AAACCCAACT
*
38184587 ACCCAACTACCCA
1 ACCCAATTACCCA
38184600 ACCCAATTACCCA
1 ACCCAATTACCCA
* *
38184613 ACCTAATTTCCCA
1 ACCCAATTACCCA
38184626 ACCCAAT
1 ACCCAAT
38184633 AATTTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (13 bp):
ACCCAATTACCCA
Found at i:38191080 original size:17 final size:17
Alignment explanation
Indices: 38191060--38191157 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
38191050 ATTTCAAGAC
38191060 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
38191077 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
38191096 CTTATGTAATGTTTTTTA
1 -TTATGTAATGTTTTTAA
* ***
38191114 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
38191133 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
38191151 TTATGTA
1 TTATGTA
38191158 GTGATTTAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 25 0.44
18 7 0.12
19 7 0.12
20 18 0.32
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:38191096 original size:37 final size:37
Alignment explanation
Indices: 38191055--38191163 Score: 209
Period size: 37 Copynumber: 2.9 Consensus size: 37
38191045 TGTTAATTTC
38191055 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
38191092 AAGACTTATGTAATGTTTTTTATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
38191129 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
38191164 TAATTCAGTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:38191102 original size:20 final size:20
Alignment explanation
Indices: 38191077--38191140 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
38191067 ATGTTTTTAA
38191077 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ****
38191097 TTATGTAATG-TT-TTTTA-
1 TTATGTAGTGATTCAAAGAC
38191114 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
38191134 TTATGTA
1 TTATGTA
38191141 ATGTTTTTAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 9 0.29
18 3 0.10
19 3 0.10
20 16 0.52
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:38191177 original size:9 final size:9
Alignment explanation
Indices: 38191163--38191222 Score: 93
Period size: 9 Copynumber: 6.7 Consensus size: 9
38191153 ATGTAGTGAT
*
38191163 TTAATTCAG
1 TTAATTCGG
38191172 TTAATTCGG
1 TTAATTCGG
**
38191181 TTAATTCAA
1 TTAATTCGG
38191190 TTAATTCGG
1 TTAATTCGG
38191199 TTAATTCGG
1 TTAATTCGG
38191208 TTAATTCGG
1 TTAATTCGG
38191217 TTAATT
1 TTAATT
38191223 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:38193960 original size:26 final size:26
Alignment explanation
Indices: 38193924--38193974 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
38193914 AAATTCCAAT
38193924 CATGGAACATTTACCTAACCCATTAC
1 CATGGAACATTTACCTAACCCATTAC
38193950 CATGGAACATTTACCTAACCCATTA
1 CATGGAACATTTACCTAACCCATTA
38193975 TCAATTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAC
Found at i:38201001 original size:26 final size:26
Alignment explanation
Indices: 38200965--38201020 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
38200955 TGAAATTCCA
38200965 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38200991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38201017 ATCA
1 ATCA
38201021 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38201629 original size:19 final size:20
Alignment explanation
Indices: 38201605--38201649 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
38201595 TTGTGACATT
*
38201605 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
38201624 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
38201644 -AATGCA
1 CAATGCA
38201650 AAAAGAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:38203617 original size:24 final size:23
Alignment explanation
Indices: 38203590--38203679 Score: 87
Period size: 24 Copynumber: 3.9 Consensus size: 23
38203580 ATGTGAATGG
38203590 TATAAAACAACTTAAAATAATTAA
1 TATAAAACAACTTAAAATAA-TAA
*
38203614 TATACAAAACAATTTAAAAT-A-AA
1 TAT--AAAACAACTTAAAATAATAA
*
38203637 -ATAAAGCAACTTAAAATAAATAA
1 TATAAAACAACTTAAAAT-AATAA
* *
38203660 TATATAACAATTTAAAATAA
1 TATAAAACAACTTAAAATAA
38203680 CATATAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 13 0.24
22 3 0.06
23 6 0.11
24 17 0.31
25 1 0.02
26 14 0.26
ACGTcount: A:0.63, C:0.08, G:0.01, T:0.28
Consensus pattern (23 bp):
TATAAAACAACTTAAAATAATAA
Found at i:38203647 original size:46 final size:44
Alignment explanation
Indices: 38203591--38203679 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
38203581 TGTGAATGGT
*
38203591 ATAAAACAACTTAAAATAATTAATATACAAAACAATTTAAAATAAA
1 ATAAAACAACTTAAAATAAATAATAT--AAAACAATTTAAAATAAA
* *
38203637 ATAAAGCAACTTAAAATAAATAATATATAACAATTTAAAATAA
1 ATAAAACAACTTAAAATAAATAATATAAAACAATTTAAAATAA
38203680 CATATAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 16 0.40
46 24 0.60
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.27
Consensus pattern (44 bp):
ATAAAACAACTTAAAATAAATAATATAAAACAATTTAAAATAAA
Found at i:38203716 original size:28 final size:28
Alignment explanation
Indices: 38203685--38203741 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
38203675 AATAACATAT
* *
38203685 AGAAAGTCTAACATAAATAATATGTAAA
1 AGAAAATCTAAAATAAATAATATGTAAA
* *
38203713 AGAAAATTTAAAATAAATAATATTTAAA
1 AGAAAATCTAAAATAAATAATATGTAAA
38203741 A
1 A
38203742 ATATAAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AGAAAATCTAAAATAAATAATATGTAAA
Found at i:38203742 original size:24 final size:24
Alignment explanation
Indices: 38203647--38203749 Score: 61
Period size: 24 Copynumber: 4.2 Consensus size: 24
38203637 ATAAAGCAAC
* *
38203647 TTAAAATAAATAATATATAACAAT
1 TTAAAATAAATAATATTTAAAAAT
* *
38203671 TTAAAATAACAT-ATA---GAAAGT
1 TTAAAATAA-ATAATATTTAAAAAT
* * *
38203692 CTAACATAAATAATATGTAAAAGAAAAT
1 TTAAAATAAATAATAT-T--TA-AAAAT
38203720 TTAAAATAAATAATATTTAAAAAT
1 TTAAAATAAATAATATTTAAAAAT
*
38203744 ATAAAA
1 TTAAAA
38203750 CAGTTTAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
20 2 0.03
21 13 0.22
24 22 0.37
25 3 0.05
27 1 0.02
28 18 0.31
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
TTAAAATAAATAATATTTAAAAAT
Found at i:38203792 original size:29 final size:29
Alignment explanation
Indices: 38203738--38203793 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
38203728 AATAATATTT
* *
38203738 AAAAATATAAAACAGTTTAATAATAAACA
1 AAAAATATAAAACAATTAAATAATAAACA
*
38203767 AAAAATTTAAAACAATTAACAT-ATAAA
1 AAAAATATAAAACAATTAA-ATAATAAA
38203794 ACAGTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAAATATAAAACAATTAAATAATAAACA
Found at i:38208682 original size:48 final size:47
Alignment explanation
Indices: 38208582--38208709 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 47
38208572 GTAAATTGCC
* * *
38208582 GATGCCATGTCCCAGACATGGTCTTACACCAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG-ATCAATGCG
*
38208630 GATGCCATGTCCCAGACATGGTCTTACATTAGCTCTC-AT-AATGTGGCG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGATCAA--T-GCG
* *
38208678 GATG-CATGTCCCAAACATAGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
38208710 ACAGATATCA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
45 2 0.03
46 1 0.01
47 26 0.37
48 41 0.59
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGATCAATGCG
Found at i:38217730 original size:22 final size:22
Alignment explanation
Indices: 38217702--38217860 Score: 131
Period size: 22 Copynumber: 7.0 Consensus size: 22
38217692 TCTCTAATAT
*
38217702 TTAGCACGTCAGTGCTCTCTGA
1 TTAGCACATCAGTGCTCTCTGA
**
38217724 TTAGCACATTTGTGCTCTCTGATA
1 TTAGCACATCAGTGCTCTCTG--A
* *
38217748 TTTAGCACGTCAGAGCTCTCTGA
1 -TTAGCACATCAGTGCTCTCTGA
** * *
38217771 TTAGCACATTTGTGATCTCTAATA
1 TTAGCACATCAGTGCTCTCT--GA
*
38217795 TTTAGCACGTCAGTGCTCTCTGA
1 -TTAGCACATCAGTGCTCTCTGA
**
38217818 TTAGCACATTTGTGCTCTCTG-
1 TTAGCACATCAGTGCTCTCTGA
*
38217839 TATAGCACTTCAGTGCTCTCTG
1 T-TAGCACATCAGTGCTCTCTG
38217861 TTGATTAGTG
Statistics
Matches: 106, Mismatches: 24, Indels: 14
0.74 0.17 0.10
Matches are distributed among these distances:
21 1 0.01
22 68 0.64
23 2 0.02
24 2 0.02
25 33 0.31
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGA
Found at i:38217758 original size:47 final size:47
Alignment explanation
Indices: 38217689--38217860 Score: 278
Period size: 47 Copynumber: 3.7 Consensus size: 47
38217679 GACTTCAGCA
38217689 TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
* *
38217736 TGCTCTCTGATATTTAGCACGTCAGAGCTCTCTGATTAGCACATTTG
1 TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
*
38217783 TGATCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
1 TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
* *
38217830 TGCTCTCT-GTA--TAGCACTTCAGTGCTCTCTG
1 TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTG
38217861 TTGATTAGTG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
44 19 0.16
46 2 0.02
47 96 0.82
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (47 bp):
TGCTCTCTAATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTG
Found at i:38220415 original size:13 final size:13
Alignment explanation
Indices: 38220397--38220423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38220387 AGCAGGGGAG
38220397 GAAAAGAAAGAAA
1 GAAAAGAAAGAAA
38220410 GAAAAGAAAGAAA
1 GAAAAGAAAGAAA
38220423 G
1 G
38220424 GGAGAAAATG
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGAAA
Found at i:38225432 original size:3 final size:3
Alignment explanation
Indices: 38225419--38225451 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
38225409 GTAAAATATA
38225419 ATT ACTT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
38225452 GTTGTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:38239464 original size:25 final size:26
Alignment explanation
Indices: 38239435--38239499 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
38239425 CTCACCACAA
38239435 CTCGTATGAGCTTACCGAT-TATCAG
1 CTCGTATGAGCTTACCGATATATCAG
* * *
38239460 CTCGTAAGAGCTTA-CTATATTTCAG
1 CTCGTATGAGCTTACCGATATATCAG
*
38239485 CTCGGATGAGCTTAC
1 CTCGTATGAGCTTAC
38239500 TAATTATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 3 0.09
25 30 0.91
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (26 bp):
CTCGTATGAGCTTACCGATATATCAG
Found at i:38243659 original size:17 final size:17
Alignment explanation
Indices: 38243634--38243678 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
38243624 ATGACCCAGA
*
38243634 TCGAAATTGACATGAAC
1 TCGAAATTGACACGAAC
*
38243651 TCTAAATTGACACGAAC
1 TCGAAATTGACACGAAC
38243668 TCGAAATTGAC
1 TCGAAATTGAC
38243679 TTAAATTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (17 bp):
TCGAAATTGACACGAAC
Found at i:38244998 original size:21 final size:21
Alignment explanation
Indices: 38244956--38244998 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
38244946 TAAGTTGTAC
* *
38244956 AAGACAAATTTAGATAAGTAT
1 AAGACAAATTTAGAAAAATAT
38244977 AAGACAAATTTA-AAACAATAT
1 AAGACAAATTTAGAAA-AATAT
38244998 A
1 A
38244999 GATAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (21 bp):
AAGACAAATTTAGAAAAATAT
Found at i:38245110 original size:26 final size:26
Alignment explanation
Indices: 38245057--38245119 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
38245047 AAAAGAAATC
* * *
38245057 TAAAGTAAATAATATATATGAAATTT
1 TAAAGTAAATAACATATATAAAAGTT
38245083 TAAAGTAAATAACATATA-AAACAGTT
1 TAAAGTAAATAACATATATAAA-AGTT
*
38245109 TAAATTAAATA
1 TAAAGTAAATA
38245120 TTATACGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (26 bp):
TAAAGTAAATAACATATATAAAAGTT
Found at i:38253293 original size:102 final size:102
Alignment explanation
Indices: 38253171--38253385 Score: 394
Period size: 102 Copynumber: 2.1 Consensus size: 102
38253161 TTTCATAAAA
*
38253171 ATATATCAAATTTAAAAAGCAAAAATATATATAAAAAGTTAAAAATTTGAAATTCACAGATACCC
1 ATATAT-ATATTTAAAAAGCAAAAATATATATAAAAAGTTAAAAATTTGAAATTCACAGATACCC
38253236 TTAAATATAATTAAAGAGAATGATAGGATTTATAATAT
65 TTAAATATAATTAAAGAGAATGATAGGATTTATAATAT
* *
38253274 ATATATATATTTAAAAAGCAAAAATATATATAAAAAGTTAAAATTTTGAAATTCACATATACCCT
1 ATATATATATTTAAAAAGCAAAAATATATATAAAAAGTTAAAAATTTGAAATTCACAGATACCCT
38253339 TAAATATAATTAAAGAGAATGATAGGATTTATAATAT
66 TAAATATAATTAAAGAGAATGATAGGATTTATAATAT
38253376 ATATATATAT
1 ATATATATAT
38253386 ATCAACAAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 103 0.94
103 6 0.06
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (102 bp):
ATATATATATTTAAAAAGCAAAAATATATATAAAAAGTTAAAAATTTGAAATTCACAGATACCCT
TAAATATAATTAAAGAGAATGATAGGATTTATAATAT
Found at i:38257812 original size:18 final size:18
Alignment explanation
Indices: 38257774--38257866 Score: 75
Period size: 18 Copynumber: 5.3 Consensus size: 18
38257764 TTTATTGTTT
* *
38257774 AGTAACAATCAGTCA-TC
1 AGTAATAATCAGTTATTC
38257791 AGTAATAATCAGTTATTC
1 AGTAATAATCAGTTATTC
***
38257809 AGTAACGGTC-GTTATTC
1 AGTAATAATCAGTTATTC
* *
38257826 AAT-ATCAATCAATTATTC
1 AGTAAT-AATCAGTTATTC
* *
38257844 AGTAGTAGTCAGTTATTC
1 AGTAATAATCAGTTATTC
38257862 AGTAA
1 AGTAA
38257867 CAGTTATTGA
Statistics
Matches: 57, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
16 1 0.02
17 24 0.42
18 31 0.54
19 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (18 bp):
AGTAATAATCAGTTATTC
Found at i:38257903 original size:18 final size:18
Alignment explanation
Indices: 38257803--38257903 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 18
38257793 TAATAATCAG
*
38257803 TTATTCAGTAACGGTCG-
1 TTATTCAGTAACAGTCGA
* * * *
38257820 TTATTCAATATCAATCAA
1 TTATTCAGTAACAGTCGA
**
38257838 TTATTCAGTAGTAGTC-A
1 TTATTCAGTAACAGTCGA
*
38257855 GTTATTCAGTAACAGT-TA
1 -TTATTCAGTAACAGTCGA
*
38257873 TTGATTTAGTAACAGTCGA
1 TT-ATTCAGTAACAGTCGA
*
38257892 TTATTCAATAAC
1 TTATTCAGTAAC
38257904 GGTCAATTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 15 0.23
18 46 0.72
19 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAACAGTCGA
Found at i:38258108 original size:53 final size:51
Alignment explanation
Indices: 38258045--38258162 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
38258035 TGGTAACAGT
* * * * *
38258045 AACAGTAACAGTAGCAGTACGGTACACAGAGTACCTCATC-AGAACGAATCTGA
1 AACAGTAACAGTAACAATAAGGT--ACAGAGTACCTCATCGA-AACAAATCCGA
** *
38258098 AACAGTAACAGTAACAATAAGGTATGGAGTACCTCTTCGAAACAAATCCGA
1 AACAGTAACAGTAACAATAAGGTACAGAGTACCTCATCGAAACAAATCCGA
38258149 AACAGTAACAGTAA
1 AACAGTAACAGTAA
38258163 GGCGACACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 35 0.62
52 1 0.02
53 20 0.36
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (51 bp):
AACAGTAACAGTAACAATAAGGTACAGAGTACCTCATCGAAACAAATCCGA
Found at i:38272239 original size:27 final size:27
Alignment explanation
Indices: 38272203--38272257 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
38272193 GATTATAATA
38272203 ATATTAATAAACTAAATAAATTGAAAT
1 ATATTAATAAACTAAATAAATTGAAAT
38272230 ATATTAATAAACTAAATAAATTGAAAT
1 ATATTAATAAACTAAATAAATTGAAAT
38272257 A
1 A
38272258 AACTTAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (27 bp):
ATATTAATAAACTAAATAAATTGAAAT
Found at i:38272258 original size:10 final size:9
Alignment explanation
Indices: 38272194--38272266 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 9
38272184 TGGAAGGAAG
38272194 ATTATAATAA
1 ATTA-AATAA
38272204 TATT-AATAA
1 -ATTAAATAA
*
38272213 ACTAAATAA
1 ATTAAATAA
*
38272222 ATTGAAATAT
1 ATT-AAATAA
38272232 ATT-AATAA
1 ATTAAATAA
*
38272240 ACTAAATAA
1 ATTAAATAA
38272249 ATTGAAATAA
1 ATT-AAATAA
38272259 ACTTAAAT
1 A-TTAAAT
38272267 CTACTCCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 8 0.16
9 19 0.37
10 19 0.37
11 5 0.10
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (9 bp):
ATTAAATAA
Found at i:38273826 original size:5 final size:5
Alignment explanation
Indices: 38273818--38273847 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
38273808 ATAAATTGAA
38273818 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
38273848 TCATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:38274040 original size:43 final size:41
Alignment explanation
Indices: 38273981--38274066 Score: 104
Period size: 41 Copynumber: 2.0 Consensus size: 41
38273971 ATTAGCAATG
**
38273981 AAAATATCACAATTTTA-CTTTAAATGAATATTATTAACAATAA
1 AAAATATCACAATTTTAGAATT-AA--AATATTATTAACAATAA
38274024 AAAATATCA-AAGTTTTAGAATTAAAATATTATTAACAATAA
1 AAAATATCACAA-TTTTAGAATTAAAATATTATTAACAATAA
38274065 AA
1 AA
38274067 TATTTATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 19 0.49
42 2 0.05
43 16 0.41
44 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (41 bp):
AAAATATCACAATTTTAGAATTAAAATATTATTAACAATAA
Found at i:38275559 original size:2 final size:2
Alignment explanation
Indices: 38275552--38275579 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38275542 ATGCACCTGC
38275552 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
38275580 TGTAGTAGCT
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:38276910 original size:19 final size:19
Alignment explanation
Indices: 38276886--38276943 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 19
38276876 ACTTATAAAT
38276886 TTATTTATTTAAAATTTTA
1 TTATTTATTTAAAATTTTA
*
38276905 TTATTTATTTAATATATATTA
1 TTATTTATTTAA-A-ATTTTA
38276926 TTATTTTATATTAAAATT
1 TTA-TTTAT-TTAAAATT
38276944 GTATGTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.36
20 1 0.03
21 10 0.30
22 6 0.18
23 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTATTTAAAATTTTA
Found at i:38280046 original size:22 final size:20
Alignment explanation
Indices: 38280008--38280059 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
38279998 TATTAACATT
38280008 ATATTATGTATATTTTTTAA
1 ATATTATGTATATTTTTTAA
38280028 ATATTATGTATGTATTTTTT--
1 ATATTATGTA--TATTTTTTAA
38280048 -TATTATGTATAT
1 ATATTATGTATAT
38280060 ATATTATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.10
19 9 0.30
20 10 0.33
22 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
ATATTATGTATATTTTTTAA
Found at i:38280490 original size:23 final size:23
Alignment explanation
Indices: 38280464--38280508 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38280454 TTACTATCAT
38280464 GTTTAATACCATATGTTA-TTATC
1 GTTTAATACCAT-TGTTACTTATC
* *
38280487 GTTTTATACTATTGTTACTTAT
1 GTTTAATACCATTGTTACTTAT
38280509 ATTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (23 bp):
GTTTAATACCATTGTTACTTATC
Found at i:38283516 original size:35 final size:34
Alignment explanation
Indices: 38283475--38283551 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
38283465 ATTGCATATC
*
38283475 TGCATCTGT-ATCTG-AGATGGGCTTGGGCCTGAATA
1 TGCATCTGTGA-CTGTA-ATGGGCTTAGGCC-GAATA
*
38283510 TGCATCTGTGACTGTAATGGGCTTAGGCCGAATC
1 TGCATCTGTGACTGTAATGGGCTTAGGCCGAATA
*
38283544 TGTATCTG
1 TGCATCTG
38283552 ACTGATTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 11 0.30
35 24 0.65
36 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.32
Consensus pattern (34 bp):
TGCATCTGTGACTGTAATGGGCTTAGGCCGAATA
Found at i:38295037 original size:13 final size:13
Alignment explanation
Indices: 38295019--38295045 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38295009 CCTTTGATTT
38295019 TCGGTAAAAACAA
1 TCGGTAAAAACAA
38295032 TCGGTAAAAACAA
1 TCGGTAAAAACAA
38295045 T
1 T
38295046 GTGTTTATGG
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:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (13 bp):
TCGGTAAAAACAA
Found at i:38297140 original size:24 final size:25
Alignment explanation
Indices: 38297104--38297175 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
38297094 AAATAAAAAT
*
38297104 TTTAACATAAATAATATATAAAAGG
1 TTTAAAATAAATAATATATAAAAGG
*
38297129 TTTAAAAT-AATAATATATGAAACGG
1 TTTAAAATAAATAATATAT-AAAAGG
* * *
38297154 TTCAGAATAAACAATATATAAA
1 TTTAAAATAAATAATATATAAA
38297176 TTTTTAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.25
25 21 0.52
26 9 0.22
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (25 bp):
TTTAAAATAAATAATATATAAAAGG
Found at i:38297500 original size:11 final size:11
Alignment explanation
Indices: 38297486--38297512 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38297476 TTTTGCTACC
38297486 ATTTTACTATT
1 ATTTTACTATT
38297497 ATTTTACTATT
1 ATTTTACTATT
38297508 ATTTT
1 ATTTT
38297513 GTTGTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTACTATT
Found at i:38297584 original size:30 final size:31
Alignment explanation
Indices: 38297550--38297611 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
38297540 ATTTATTTTA
*
38297550 TTGTTAATTTTCTTATTATTTTA-AAGGAAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAAT
*
38297580 TTGTTAATTTTTTTATTATTTTAGAAGCAAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAAT
38297611 T
1 T
38297612 GCTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAAT
Found at i:38297990 original size:27 final size:27
Alignment explanation
Indices: 38297960--38298052 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
38297950 AAATAATTTA
38297960 AAATAATAATACAAAACAAATTAAAAT
1 AAATAATAATACAAAACAAATTAAAAT
* * * *
38297987 AAATAAT-ATGATATAACAATTTAAAAC
1 AAATAATAAT-ACAAAACAAATTAAAAT
* ** *
38298014 AAATACTATATGGAAAA-AGACTTAAAAT
1 AAATAATA-ATACAAAACA-AATTAAAAT
38298042 AAATAATAATA
1 AAATAATAATA
38298053 AAACTGTTCA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
26 2 0.04
27 29 0.58
28 17 0.34
29 2 0.04
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.26
Consensus pattern (27 bp):
AAATAATAATACAAAACAAATTAAAAT
Found at i:38299407 original size:25 final size:26
Alignment explanation
Indices: 38299379--38299428 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
38299369 CCAGGATAGG
38299379 TTGGGCTTAG-TTGGTTTAATTGGGA
1 TTGGGCTTAGTTTGGTTTAATTGGGA
*
38299404 TTGGGTTTAGTTTGGTTTAATTGGG
1 TTGGGCTTAGTTTGGTTTAATTGGG
38299429 TTTTGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (26 bp):
TTGGGCTTAGTTTGGTTTAATTGGGA
Found at i:38307291 original size:19 final size:19
Alignment explanation
Indices: 38307245--38307292 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
38307235 GTATATATTT
38307245 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
38307263 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
38307282 TAAGTTTTATT
1 TAAATTTTATT
38307293 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:38307373 original size:42 final size:42
Alignment explanation
Indices: 38307309--38307397 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
38307299 CTAGGAATAT
* *
38307309 TTTTATTTTATCTTTTTGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
*
38307351 TTTTCTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
38307393 TTTTC
1 TTTTC
38307398 CCAATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.53
Consensus pattern (42 bp):
TTTTCTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
Found at i:38308524 original size:11 final size:11
Alignment explanation
Indices: 38308491--38308543 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
38308481 CAATGACAAC
* *
38308491 AAAATAGTAGC
1 AAAATAATAGA
*
38308502 AATATAATAGA
1 AAAATAATAGA
*
38308513 AAAATGATAGA
1 AAAATAATAGA
*
38308524 AAAATAATAGC
1 AAAATAATAGA
*
38308535 AAAACAATA
1 AAAATAATA
38308544 ACAAATGGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (11 bp):
AAAATAATAGA
Found at i:38310068 original size:49 final size:49
Alignment explanation
Indices: 38309996--38310289 Score: 363
Period size: 49 Copynumber: 5.9 Consensus size: 49
38309986 TCTATTGTGA
*
38309996 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
38310045 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
** * * * **
38310095 CAATCACATGTGTAGTACTAAATGCAGGCTATTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * **
38310145 AGGTCACGTGTGTAGTACTAAGTGCAGGCTCCTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
38310195 GGTCACATGTGTAGTATTAAGTGCAGGGTACTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
38310244 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
38310290 GCTTTGGCTA
Statistics
Matches: 204, Mismatches: 39, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
49 125 0.61
50 42 0.21
51 37 0.18
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:38314736 original size:19 final size:19
Alignment explanation
Indices: 38314714--38314750 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38314704 AAAATTTTTA
* *
38314714 AAAATCATTAAAATCCAAC
1 AAAATCATAAAAAACCAAC
38314733 AAAATCATAAAAAACCAA
1 AAAATCATAAAAAACCAA
38314751 AAACAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATCATAAAAAACCAAC
Found at i:38314832 original size:40 final size:39
Alignment explanation
Indices: 38314763--38314838 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
38314753 ACAATTAATA
*
38314763 ACTTAGAAAATTATAAAAACTAAAAAAAATTCATAATCT
1 ACTTAGAAAATTATAAAAACAAAAAAAAATTCATAATCT
* *
38314802 ACTTTGAAAATTATAAAAA-AAAGATAAAAATTTATAA
1 ACTTAGAAAATTATAAAAACAAA-A-AAAAATTCATAA
38314839 GTATGTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.06
39 19 0.59
40 11 0.34
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.29
Consensus pattern (39 bp):
ACTTAGAAAATTATAAAAACAAAAAAAAATTCATAATCT
Found at i:38315003 original size:30 final size:28
Alignment explanation
Indices: 38314958--38315017 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
38314948 AATTTTATGG
38314958 TTTTGTTTTTTTGAAAATTTTAAGATTT
1 TTTTGTTTTTTTGAAAATTTTAAGATTT
* *
38314986 TTTTGTATTTTTATGAAAATTTTTATATTT
1 TTTTGT-TTTTT-TGAAAATTTTAAGATTT
38315016 TT
1 TT
38315018 AAGAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.21
29 5 0.18
30 17 0.61
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (28 bp):
TTTTGTTTTTTTGAAAATTTTAAGATTT
Found at i:38315024 original size:19 final size:19
Alignment explanation
Indices: 38314975--38315036 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 19
38314965 TTTTTGAAAA
** *
38314975 TTTTAAGATTTTTTTGTAT
1 TTTTAAGAAATTTTTATAT
*
38314994 TTTTATGAAAATTTTTATAT
1 TTTTAAG-AAATTTTTATAT
*
38315014 TTTTAAGAAA-TTTTAAAT
1 TTTTAAGAAATTTTTATAT
38315032 TTTTA
1 TTTTA
38315037 CACTGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 15 0.42
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTAAGAAATTTTTATAT
Done.