Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 40 of 352
Found at i:12776459 original size:53 final size:54
Alignment explanation
Indices: 12776382--12776498 Score: 155
Period size: 53 Copynumber: 2.1 Consensus size: 54
12776372 CCATGGCAAC
* *
12776382 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGTTATGACATCAGAGAT
1 ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCAGAGAT
* * * *
12776436 ATGTGATTATGT-ACTTCCGTATAAGACCATATCTGGGATATGGCATCAGTGTGAT
1 ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCA--GAGAT
12776491 ATGTGATC
1 ATGTGATC
12776499 CGTGTAAGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 32 0.59
54 11 0.20
55 11 0.20
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (54 bp):
ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCAGAGAT
Found at i:12776507 original size:46 final size:47
Alignment explanation
Indices: 12776383--12776544 Score: 139
Period size: 53 Copynumber: 3.3 Consensus size: 47
12776373 CATGGCAACA
* *
12776383 TGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGTTATGACATCAGAG
1 TGTGAT-ATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATC-GAG
*
12776434 ATATGTGATTATGT-ACTTCCGTATAAGACCATATCTGGGATATGGCATC-AG
1 ---TGTGA-TATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATCGAG
* * * * *
12776485 TGTGATATGTGATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGGTG
1 TGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATC-GAG
12776533 TGTGATATGTGA
1 TGTGATATGTGA
12776545 CTATGTGCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
46 27 0.29
47 5 0.05
48 19 0.20
51 2 0.02
53 31 0.33
54 9 0.10
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGAG
Found at i:12777645 original size:15 final size:15
Alignment explanation
Indices: 12777625--12777681 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
12777615 CGATGAATTT
12777625 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
12777640 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
12777655 ATTGAATTTATATTG
1 ATTGAATTTATATTG
12777670 ATTGAA-TTATAT
1 ATTGAATTTATAT
12777682 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:12778134 original size:21 final size:21
Alignment explanation
Indices: 12778049--12778132 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
12778039 GGCTTTATCG
* *
12778049 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
12778070 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
12778091 ATCAGGCACCTCGTGTGTTGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
12778112 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
12778133 TTACTGATCA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.37
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:12781107 original size:21 final size:21
Alignment explanation
Indices: 12781082--12781146 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
12781072 TAGCCTTTGG
12781082 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
12781103 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
12781121 GCTTCCGTTTAGCAATTATGT
1 GCTTCCGTTTAGCACTTATGT
12781142 GCTTC
1 GCTTC
12781147 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 7 0.21
21 12 0.35
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:12781108 original size:39 final size:39
Alignment explanation
Indices: 12781064--12781164 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
12781054 GCTCTGATGA
* *
12781064 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
12781103 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
* *
12781142 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
12781165 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
Found at i:12782817 original size:19 final size:21
Alignment explanation
Indices: 12782783--12782823 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
12782773 ATTGGATGGA
*
12782783 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
12782804 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
12782823 T
1 T
12782824 GGTGTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:12783924 original size:123 final size:121
Alignment explanation
Indices: 12783722--12783941 Score: 305
Period size: 123 Copynumber: 1.8 Consensus size: 121
12783712 TCCTATCTTA
* * * * * **
12783722 AATAAAAAATGAAGACATTAAAGATAAATGGACATGTTAAAAGTATTTGTAAAGCCATGAGAGGC
1 AATAAAAAATGAAGACATTAAAGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGAGACAC
* * *
12783787 TTCATTGGTGCAATATGAACATGATCCACTAACTATACAGGTTGCCTCCCCTTTTG
66 TTCATTGGTCCAATATGAAAACGATCCACTAACTATACAGGTTGCCTCCCCTTTTG
* *
12783843 AATAAAAAATGAAGACATTAAAGAGAGAAATGGAAATGTTAAAAATATTTGCGAAGCTAGGAGAC
1 AATAAAAAATGAAGACATT-AA-AGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGAGAC
*
12783908 ACTTTATTGGTCCAATATGAAAACGATCCACTAA
64 ACTTCATTGGTCCAATATGAAAACGATCCACTAA
12783942 TTGTATTCGT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
121 19 0.23
122 2 0.02
123 63 0.75
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (121 bp):
AATAAAAAATGAAGACATTAAAGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGAGACAC
TTCATTGGTCCAATATGAAAACGATCCACTAACTATACAGGTTGCCTCCCCTTTTG
Found at i:12785914 original size:40 final size:40
Alignment explanation
Indices: 12785792--12785930 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
12785782 ACTTCGAGTT
* * * *
12785792 GATGAGACAGTGGGTGTCAAGTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATCC
** * * * *
12785833 GATGAGGTACTGGGTG-CCAA-T-TTACTTCGGTTTAGCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCC
**
12785870 GATGAGACACTGGGTGTCAAATTATTACTTCAAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCC
* *
12785910 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
12785931 CTGGTGTGTT
Statistics
Matches: 75, Mismatches: 20, Indels: 7
0.74 0.20 0.07
Matches are distributed among these distances:
37 15 0.20
38 13 0.17
39 2 0.03
40 32 0.43
41 13 0.17
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCC
Found at i:12787281 original size:11 final size:11
Alignment explanation
Indices: 12787265--12787290 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12787255 ACTTAAAATA
12787265 AAAATATAAAG
1 AAAATATAAAG
12787276 AAAATATAAAG
1 AAAATATAAAG
12787287 AAAA
1 AAAA
12787291 GACAATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAATATAAAG
Found at i:12789384 original size:15 final size:15
Alignment explanation
Indices: 12789364--12789394 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12789354 TATTTGGACG
12789364 TAGTGGCACTACCAC
1 TAGTGGCACTACCAC
12789379 TAGTGGCACTACCAC
1 TAGTGGCACTACCAC
12789394 T
1 T
12789395 TCATCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (15 bp):
TAGTGGCACTACCAC
Found at i:12793948 original size:21 final size:21
Alignment explanation
Indices: 12793924--12793966 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
12793914 AAAGTTATTT
12793924 TTTCCAGTAGAAATCAACAAA
1 TTTCCAGTAGAAATCAACAAA
12793945 TTTCCAGTAGAAATCAACAAA
1 TTTCCAGTAGAAATCAACAAA
12793966 T
1 T
12793967 ATCATAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (21 bp):
TTTCCAGTAGAAATCAACAAA
Found at i:12797930 original size:20 final size:20
Alignment explanation
Indices: 12797905--12797944 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12797895 ACAAAAAAGA
12797905 AAGAATAATATACCAATGAT
1 AAGAATAATATACCAATGAT
12797925 AAGAATAATATACCAATGAT
1 AAGAATAATATACCAATGAT
12797945 TCATCCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
AAGAATAATATACCAATGAT
Found at i:12802094 original size:17 final size:16
Alignment explanation
Indices: 12802068--12802102 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12802058 ATAATATAAG
*
12802068 ATAATTTAAAACAATGA
1 ATAATATAAAA-AATGA
12802085 ATAATATAAAAAATGA
1 ATAATATAAAAAATGA
12802101 AT
1 AT
12802103 GATAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAATATAAAAAATGA
Found at i:12804755 original size:39 final size:39
Alignment explanation
Indices: 12804688--12805022 Score: 510
Period size: 39 Copynumber: 8.5 Consensus size: 39
12804678 ACAAAGCATG
* * * *
12804688 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
12804728 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
12804768 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
12804807 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * * * *
12804846 CGGGGCTAAGCTCGAATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12804885 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
12804924 TGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
12804963 CGGGACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12805002 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
12805023 TTCTCCATTA
Statistics
Matches: 275, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 255 0.93
40 20 0.07
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:12808528 original size:20 final size:19
Alignment explanation
Indices: 12808484--12808528 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
12808474 AATGGGAGGG
12808484 AGTAAAAATTTTGGGGAAA
1 AGTAAAAATTTTGGGGAAA
*
12808503 AATAAAAATTTTTGAGGG-AA
1 AGTAAAAA-TTTTG-GGGAAA
12808523 AGTAAA
1 AGTAAA
12808529 TGGGAGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 12 0.55
21 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (19 bp):
AGTAAAAATTTTGGGGAAA
Found at i:12812493 original size:46 final size:46
Alignment explanation
Indices: 12812431--12812843 Score: 533
Period size: 46 Copynumber: 9.0 Consensus size: 46
12812421 AGTGTGCTCT
12812431 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12812477 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
12812523 CTGCTATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
12812569 CTGATATGAAACGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
12812615 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
12812661 ATGACGGGAAATGAATAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
12812707 GTGACATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** ** *
12812753 GTGATGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGAT-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
12812800 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12812844 TCATGTCGAA
Statistics
Matches: 330, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 288 0.87
47 41 0.12
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12814432 original size:46 final size:46
Alignment explanation
Indices: 12814380--12814470 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
12814370 AATAATATTT
*
12814380 TAATTAAGATCGTTTTCATTTAATAAATGAAAATTAATAGGCTTGC
1 TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTGC
*
12814426 TAATTAAGATCATTTTCATTTAATAAATGATAATTAATAGGCTTG
1 TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTG
12814471 TTTATATGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (46 bp):
TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTGC
Found at i:12818104 original size:21 final size:21
Alignment explanation
Indices: 12818080--12818128 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12818070 TATAATTTTA
12818080 TTGATGATTTTAAGTTGAGCC
1 TTGATGATTTTAAGTTGAGCC
* *
12818101 TTGATGATTTTGAGTTGAGTC
1 TTGATGATTTTAAGTTGAGCC
12818122 TTGATGA
1 TTGATGA
12818129 AATTATGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.06, G:0.27, T:0.45
Consensus pattern (21 bp):
TTGATGATTTTAAGTTGAGCC
Found at i:12818353 original size:8 final size:8
Alignment explanation
Indices: 12818341--12818371 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
12818331 ATTAGGGACT
*
12818341 AAAATGTT
1 AAAATGTC
12818349 AAAATGTC
1 AAAATGTC
12818357 AAAATGTC
1 AAAATGTC
12818365 AAAATGT
1 AAAATGT
12818372 GAGGGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (8 bp):
AAAATGTC
Found at i:12823178 original size:33 final size:32
Alignment explanation
Indices: 12823141--12823215 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
12823131 GCCTGCCTCT
*
12823141 ACCCTTCAT-TAAGGGGTATTTATAGAGGAGATG
1 ACCCTT-ATCTAA-GGGTACTTATAGAGGAGATG
*
12823174 ACCCTTATCTTAGGGTACTTATAGAGGAGATG
1 ACCCTTATCTAAGGGTACTTATAGAGGAGATG
*
12823206 GCCCTTATCT
1 ACCCTTATCT
12823216 TTTGAGCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (32 bp):
ACCCTTATCTAAGGGTACTTATAGAGGAGATG
Found at i:12823196 original size:32 final size:32
Alignment explanation
Indices: 12823154--12823216 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
12823144 CTTCATTAAG
*
12823154 GGGTATTTATAGAGGAGATGACCCTTATCTTA
1 GGGTACTTATAGAGGAGATGACCCTTATCTTA
*
12823186 GGGTACTTATAGAGGAGATGGCCCTTATCTT
1 GGGTACTTATAGAGGAGATGACCCTTATCTT
12823217 TTGAGCCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (32 bp):
GGGTACTTATAGAGGAGATGACCCTTATCTTA
Found at i:12848746 original size:16 final size:17
Alignment explanation
Indices: 12848725--12848759 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
12848715 TAATGTCTAG
12848725 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
12848741 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
12848759 G
1 G
12848760 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:12858432 original size:27 final size:27
Alignment explanation
Indices: 12858402--12858531 Score: 115
Period size: 27 Copynumber: 4.8 Consensus size: 27
12858392 AATCATATAG
* *
12858402 AGTACGCCACCAAGTCGATCCATTCAA
1 AGTACGCCACAAAGGCGATCCATTCAA
* **
12858429 AGTATGCCACAAAGGTAATCCATTCAAA
1 AGTACGCCACAAAGGCGATCCATTC-AA
*
12858457 ATGTA--CCACAAAGGCGAGCCAGTT-AA
1 A-GTACGCCACAAAGGCGATCCA-TTCAA
*
12858483 AGTACGCCACAAAGGCGATCCAATT-AG
1 AGTACGCCACAAAGGCGATCC-ATTCAA
* *
12858510 AGTATGCCACAAAGGCAATCCA
1 AGTACGCCACAAAGGCGATCCA
12858532 GTTAGAGTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.04
26 4 0.05
27 69 0.81
28 6 0.07
29 3 0.04
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (27 bp):
AGTACGCCACAAAGGCGATCCATTCAA
Found at i:12861464 original size:31 final size:31
Alignment explanation
Indices: 12861429--12861488 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12861419 CAACCCAGTT
* *
12861429 ACTTAAATGAAAACTTTCGAATAGTTCAATG
1 ACTTAAATGAAAACTTCCAAATAGTTCAATG
* *
12861460 ACTTAAATGGAAGCTTCCAAATAGTTCAA
1 ACTTAAATGAAAACTTCCAAATAGTTCAA
12861489 CAATCATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (31 bp):
ACTTAAATGAAAACTTCCAAATAGTTCAATG
Found at i:12865018 original size:6 final size:6
Alignment explanation
Indices: 12865009--12865033 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12864999 CCTCTTGACC
12865009 GTCCTG GTCCTG GTCCTG GTCCTG G
1 GTCCTG GTCCTG GTCCTG GTCCTG G
12865034 AACACTGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (6 bp):
GTCCTG
Found at i:12875942 original size:19 final size:19
Alignment explanation
Indices: 12875910--12875970 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
12875900 TAAAATAAAT
* *
12875910 AAAAAATAAAAAAATACTTA
1 AAAAAATCACAAAATA-TTA
*
12875930 AAAAAA-CACAAAATATAA
1 AAAAAATCACAAAATATTA
*
12875948 AAAAAATCATAAAA-ATTA
1 AAAAAATCACAAAATATTA
12875966 AAAAA
1 AAAAA
12875971 CCCCAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 16 0.46
19 13 0.37
20 6 0.17
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAAATCACAAAATATTA
Found at i:12885356 original size:13 final size:13
Alignment explanation
Indices: 12885310--12885357 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
12885300 TTGGGAATAT
*
12885310 TTTTGAAAAGTAC
1 TTTTGAAAAGTGC
*
12885323 TTTTAAAAAGTG-
1 TTTTGAAAAGTGC
*
12885335 TTGTGGAAAAGTGC
1 TT-TTGAAAAGTGC
12885349 TTTTGAAAA
1 TTTTGAAAA
12885358 TTTCAGGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 2 0.07
13 24 0.86
14 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:12885623 original size:8 final size:8
Alignment explanation
Indices: 12885610--12885649 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
12885600 ATATAAACTG
12885610 TATTAAAA
1 TATTAAAA
12885618 TATTAAAA
1 TATTAAAA
*
12885626 TA-TAATA
1 TATTAAAA
12885633 -ATT-AAA
1 TATTAAAA
12885639 TATTAAAA
1 TATTAAAA
12885647 TAT
1 TAT
12885650 AAACTAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
6 3 0.11
7 8 0.30
8 16 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATTAAAA
Found at i:12887787 original size:16 final size:16
Alignment explanation
Indices: 12887754--12887787 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12887744 ACTTGGTGTT
* *
12887754 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
12887770 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12887786 AA
1 AA
12887788 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12890610 original size:21 final size:21
Alignment explanation
Indices: 12890584--12890624 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12890574 AGACGAGCAA
* *
12890584 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
12890605 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
12890625 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:12892562 original size:16 final size:16
Alignment explanation
Indices: 12892529--12892562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12892519 GGAGATTGTT
* *
12892529 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
12892545 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12892561 AA
1 AA
12892563 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12897314 original size:2 final size:2
Alignment explanation
Indices: 12897307--12897336 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12897297 TTAACTGAGG
12897307 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12897337 AGTACATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12901701 original size:32 final size:31
Alignment explanation
Indices: 12901643--12901717 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
12901633 TTTAAAATAT
* * *
12901643 TATAAATTGATTACTTGAATTTAATAACACA
1 TATAAATTAATTAATTGAATTCAATAACACA
* *
12901674 TGATAAATTAATTAATTTAATTCAATAACTCA
1 T-ATAAATTAATTAATTGAATTCAATAACACA
*
12901706 TATTAATTAATT
1 TATAAATTAATT
12901718 GAACTTGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 11 0.30
32 26 0.70
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (31 bp):
TATAAATTAATTAATTGAATTCAATAACACA
Found at i:12903405 original size:20 final size:20
Alignment explanation
Indices: 12903380--12903423 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
12903370 GGGGGACCTT
12903380 TAAGAATGATGAGGTTAGAG
1 TAAGAATGATGAGGTTAGAG
*
12903400 TAAGAATGATGAGGTTGGAG
1 TAAGAATGATGAGGTTAGAG
12903420 TAAG
1 TAAG
12903424 TGAGGGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (20 bp):
TAAGAATGATGAGGTTAGAG
Found at i:12906337 original size:17 final size:16
Alignment explanation
Indices: 12906315--12906374 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
12906305 ATAATGATTC
*
12906315 TTTAATTTTATATATTT
1 TTTAATTTT-TATAATT
12906332 TTTAATTTTTATAATT
1 TTTAATTTTTATAATT
* *
12906348 TATAATTTTTACTTATT
1 TTTAATTTTTA-TAATT
12906365 TTT-ATTTTTA
1 TTTAATTTTTA
12906375 ACGATTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 23 0.61
17 15 0.39
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTAATTTTTATAATT
Found at i:12906341 original size:9 final size:9
Alignment explanation
Indices: 12906320--12906369 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
12906310 GATTCTTTAA
12906320 TTTTATATAT
1 TTTTATA-AT
12906330 TTTT-TAAT
1 TTTTATAAT
12906338 TTTTATAA-
1 TTTTATAAT
12906346 -TTTATAAT
1 TTTTATAAT
*
12906354 TTTTACTTAT
1 TTTTA-TAAT
12906364 TTTTAT
1 TTTTAT
12906370 TTTTAACGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
7 7 0.20
8 6 0.17
9 10 0.29
10 12 0.34
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:12907190 original size:33 final size:31
Alignment explanation
Indices: 12907150--12907217 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 31
12907140 TGCATTCGTA
12907150 TTTTTATTTCAT-TTGTTTCAAGCTTTATTGTAT
1 TTTTTATTTCATATTGTTTCAAG-TTT-TT-TAT
*
12907183 TTTTTATTTTATATTGTTTCAAGTTTTTTAT
1 TTTTTATTTCATATTGTTTCAAGTTTTTTAT
12907214 TTTT
1 TTTT
12907218 AATTAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 7 0.21
32 2 0.06
33 14 0.42
34 10 0.30
ACGTcount: A:0.18, C:0.06, G:0.07, T:0.69
Consensus pattern (31 bp):
TTTTTATTTCATATTGTTTCAAGTTTTTTAT
Found at i:12907806 original size:49 final size:49
Alignment explanation
Indices: 12907744--12907837 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
12907734 TTGATTTTAT
* * *
12907744 AAATAAAAGATTTATTAATTAAAAAGATGAATTACA-AATAAAAAATTAA
1 AAATAAAAGATTTACTAACTAAAAAAATGAATTA-AGAATAAAAAATTAA
* * *
12907793 AAATAATATATTTACTAACTAAAAAAATTAATTAAGAATAAAAAA
1 AAATAAAAGATTTACTAACTAAAAAAATGAATTAAGAATAAAAAA
12907838 AGTTTGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.03
49 37 0.97
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (49 bp):
AAATAAAAGATTTACTAACTAAAAAAATGAATTAAGAATAAAAAATTAA
Found at i:12916808 original size:11 final size:11
Alignment explanation
Indices: 12916784--12916816 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
12916774 CAAATTATAG
12916784 AATTATTT-AA
1 AATTATTTAAA
12916794 AATTATTTAAA
1 AATTATTTAAA
12916805 AATTA-TTAAA
1 AATTATTTAAA
12916815 AA
1 AA
12916817 CAATGTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTATTTAAA
Found at i:12917734 original size:10 final size:10
Alignment explanation
Indices: 12917708--12917759 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
12917698 ATGTATACTT
12917708 TTTTTAATAA
1 TTTTTAATAA
* *
12917718 TTCTTAATCA
1 TTTTTAATAA
12917728 TTTTTAAATAA
1 TTTTT-AATAA
12917739 TTTTCT-ATAA
1 TTTT-TAATAA
12917749 TTATTTAATAA
1 TT-TTTAATAA
12917760 GCTAATCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 19 0.56
11 14 0.41
12 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:12924005 original size:12 final size:12
Alignment explanation
Indices: 12923988--12924012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12923978 GTTCTTGTTG
12923988 TTTTATTATTTC
1 TTTTATTATTTC
12924000 TTTTATTATTTC
1 TTTTATTATTTC
12924012 T
1 T
12924013 AATATCTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:12927840 original size:46 final size:46
Alignment explanation
Indices: 12927770--12928074 Score: 430
Period size: 46 Copynumber: 6.6 Consensus size: 46
12927760 ATGCATAGTG
* * * *
12927770 TCTTTCAACTATGGTCTTACTCATTTCTTGTCATGTTCCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* *
12927816 TCTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* **
12927862 TCTTTCAACCATAGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
**
12927908 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* *
12927954 TTTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* ** * *
12928000 TCTTTCAACCATAGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
**
12928046 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
12928075 TTCAGAAAGC
Statistics
Matches: 235, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 235 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
Found at i:12930157 original size:31 final size:30
Alignment explanation
Indices: 12930118--12930187 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
12930108 CCACCCTTCA
*** *
12930118 AATATTTACACTATTGGTCCTTCAAATTTTT
1 AATATTTACACT-TTAACCCTTCAAATTTTG
*
12930149 CATATTTACACTTTAACCCTTCAAATTTTG
1 AATATTTACACTTTAACCCTTCAAATTTTG
12930179 AATATTTAC
1 AATATTTAC
12930188 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (30 bp):
AATATTTACACTTTAACCCTTCAAATTTTG
Found at i:12932550 original size:14 final size:15
Alignment explanation
Indices: 12932531--12932559 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12932521 GTTTCCATTT
12932531 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
12932545 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
12932560 CTGCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:12933103 original size:40 final size:40
Alignment explanation
Indices: 12933055--12933192 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
12933045 CTTTTCAGGT
* *
12933055 CAAATCCTATCCACCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
12933095 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * **
12933135 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
12933175 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
12933193 TATTCTCGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:12937911 original size:46 final size:46
Alignment explanation
Indices: 12937697--12937924 Score: 291
Period size: 46 Copynumber: 5.0 Consensus size: 46
12937687 TTCGACATGA
* * * *
12937697 TGCCATGGTATCTTTCAACTATGGTTTTAC-TAGTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATA--TTTCATATCAGGT
* * * *
12937743 TGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTCATGTTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGT
* * *
12937789 TGCCATGGTATCTTTCAACCATAGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
12937835 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
* *
12937881 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
12937925 AGAGCACACT
Statistics
Matches: 163, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
45 4 0.02
46 158 0.97
47 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
Found at i:12943725 original size:43 final size:43
Alignment explanation
Indices: 12943641--12943769 Score: 105
Period size: 43 Copynumber: 3.0 Consensus size: 43
12943631 TGAAAGAAAT
* * * **
12943641 ACCGCTAAAGACCATGACCTTTAGCGGTGCTTTCCCCACAAAC
1 ACCGCTAAAAACCATAACCTTTAACGGCACTTTCCCCACAAAC
* ** *
12943684 GCCGCTAAAAACCATAACCTTTAACGGCACTTTTTCTACAAAC
1 ACCGCTAAAAACCATAACCTTTAACGGCACTTTCCCCACAAAC
* ** * * * * *
12943727 ACTGCTAAAAATAATGACTTTTAACAGCGCTTTTCCCACAAAC
1 ACCGCTAAAAACCATAACCTTTAACGGCACTTTCCCCACAAAC
12943770 GCTGCTATAG
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (43 bp):
ACCGCTAAAAACCATAACCTTTAACGGCACTTTCCCCACAAAC
Found at i:12943775 original size:43 final size:43
Alignment explanation
Indices: 12943669--12943776 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
12943659 CTTTAGCGGT
* * * *
12943669 GCTTTCCCCACAAACGCCGCTAAAAACCATAACCTTTAACGGC
1 GCTTTTCCCACAAACGCTGCTAAAAACAATAACCTTTAACAGC
* * * * * * *
12943712 ACTTTTTCTACAAACACTGCTAAAAATAATGACTTTTAACAGC
1 GCTTTTCCCACAAACGCTGCTAAAAACAATAACCTTTAACAGC
12943755 GCTTTTCCCACAAACGCTGCTA
1 GCTTTTCCCACAAACGCTGCTA
12943777 TAGAACAAGA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (43 bp):
GCTTTTCCCACAAACGCTGCTAAAAACAATAACCTTTAACAGC
Found at i:12944015 original size:12 final size:12
Alignment explanation
Indices: 12943998--12944025 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12943988 ACATTGATTC
12943998 AATATGTAATTT
1 AATATGTAATTT
12944010 AATATGTAATTT
1 AATATGTAATTT
12944022 AATA
1 AATA
12944026 CATTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (12 bp):
AATATGTAATTT
Found at i:12947252 original size:23 final size:23
Alignment explanation
Indices: 12947222--12947268 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
12947212 CAGAGAAAGA
12947222 AAAGAAACAACTACCTAAAAATT
1 AAAGAAACAACTACCTAAAAATT
* *
12947245 AAAGAAACAACTTCCTGAAAATT
1 AAAGAAACAACTACCTAAAAATT
12947268 A
1 A
12947269 TATCAACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAGAAACAACTACCTAAAAATT
Found at i:12947874 original size:19 final size:19
Alignment explanation
Indices: 12947847--12947891 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12947837 CTAATCTCTA
*
12947847 TTTTATATTTTATTTTTAT
1 TTTTATATTTCATTTTTAT
*
12947866 TTTTGTATTTCATTTTTAT
1 TTTTATATTTCATTTTTAT
12947885 TTGTTAT
1 TT-TTAT
12947892 CAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTATATTTCATTTTTAT
Found at i:12947921 original size:20 final size:20
Alignment explanation
Indices: 12947877--12947913 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
12947867 TTTGTATTTC
12947877 ATTTTTATTT-GTTATCAAT
1 ATTTTTATTTAGTTATCAAT
*
12947896 ATTTTTATTTATTTATCA
1 ATTTTTATTTAGTTATCA
12947914 TTGTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTTTATTTAGTTATCAAT
Found at i:12948235 original size:22 final size:21
Alignment explanation
Indices: 12948187--12948244 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
12948177 ACTAATTAAT
*
12948187 CTAAACCCTAAACCCTTAATC
1 CTAAACCCTAAACCCTAAATC
*
12948208 CATAAACTCTAAACCCTAAAATC
1 C-TAAACCCTAAACCCT-AAATC
* *
12948231 CTAAAACATAAACC
1 CTAAACCCTAAACC
12948245 ATTAACCCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.80
23 5 0.17
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAAACCCTAAACCCTAAATC
Found at i:12948240 original size:29 final size:29
Alignment explanation
Indices: 12948186--12948243 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12948176 CACTAATTAA
**
12948186 TCTAAACCCTAAACCCTTAATCCATAAAC
1 TCTAAACCCTAAACCCTTAAAACATAAAC
*
12948215 TCTAAACCCTAAAATCC-TAAAACATAAAC
1 TCTAAACCCT-AAACCCTTAAAACATAAAC
12948244 CATTAACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (29 bp):
TCTAAACCCTAAACCCTTAAAACATAAAC
Found at i:12948555 original size:15 final size:15
Alignment explanation
Indices: 12948533--12948566 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12948523 AAACCACCCT
*
12948533 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
12948547 TAAACCCATAATCCA
1 TAAACCCATAATCCA
12948562 TAAAC
1 TAAAC
12948567 GTTAAAATAG
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:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:12950108 original size:33 final size:33
Alignment explanation
Indices: 12950066--12950132 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12950056 GCAACTGAGA
12950066 ATGATAAAAGAACGCTGAGAAGATTAGCTGGTG
1 ATGATAAAAGAACGCTGAGAAGATTAGCTGGTG
*
12950099 ATGATAAAAGGACGCTGAGAAGATTAGCTGGTG
1 ATGATAAAAGAACGCTGAGAAGATTAGCTGGTG
12950132 A
1 A
12950133 CTATGTCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.31, T:0.21
Consensus pattern (33 bp):
ATGATAAAAGAACGCTGAGAAGATTAGCTGGTG
Found at i:12952227 original size:44 final size:44
Alignment explanation
Indices: 12952186--12953432 Score: 654
Period size: 44 Copynumber: 27.4 Consensus size: 44
12952176 TGTTATCTTT
** *
12952186 CTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* ** * * * *
12952230 CTAAAGTCACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * * *
12952275 CTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * * * *
12952319 CTAAAGTTGCAGTAGAGCAGGTTGAAG-TCACAAATCTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATAAATCTTATCTCC
** * *
12952363 CTGAAGTTGCAGTGGAGCAGACCGAAGATAGCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * * * *
12952408 CTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATCTAC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * * * * * * *
12952452 TTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * * * * *
12952496 CTGAAGTTGCAGTGGGGCAGACTAAAGATAGTGAATCTTATTTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * ** * * * *
12952541 CTGAAATGGCAGTGAAATATATTAAAGCTACAAATTAGAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATT---G--A-AGA-TATAAATCTTATCTCC
* * * * * *
12952592 CTGAAGTTGTAGTGGAGTAGATTGAAGTTACAGATTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * *
12952636 TTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * * *
12952681 CTGAAGCTGCAGTGGAGCAGATTGAAGTTATAGATCTTACCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * * * * * *
12952725 CTGAAGTTGCAGTAGAACAAATTGAAGTTACAGATCTTATCTCA
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* ** * *
12952769 TTGAAGTTGCAGTGGAATAGATCGAAGATAGGAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * * * *
12952814 ATGAAGTTGCAGTGGAACAAATTGAA-ACTACAAGTCTAATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGA-TATAAATCTTATCTCC
* * ** *
12952858 CTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
* * * * * * *
12952903 TTTAAGTTGCAGTAGAACAGATTAAAGCTACAAATTACAAGTCTCATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAG----ATA-TA-AA-TCTTATCTCC
* * * * * * *
12952954 TTAAAGTTGTAGTGGACCAGACTGAAGATAACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATAAATCTTATCTCC
* * * *
12952999 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAGTCTCATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAG----ATA-TA-AA-TCTTATCTCC
* * * * * * *
12953050 CTGAAGTTGCTGTGAAGCAAACTAAAGATAAAGAATCTTATTTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATA-AATCTTATCTCC
* * **
12953095 CTGAAGTTGCAGTAGAACAGATT-AATGATACAAATTTCAAATCGGATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAA-GAT----A--T-AAATCTTATCTCC
* * ** * *
12953146 CTGAAGTTACAGTGGAGAAGATTGAAGCCATTACTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * *
12953190 CTAAAGTTGCAGTGGAGCAGATTAAAGCA-ACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAG-ATATAAATCTTATCTCC
* * *** *
12953234 TTGAAGTTGCAGTGGAGAAGATTGAAGATGCGAATCTTATTTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
* * ** *
12953278 CTAAAATTGCAGTGGAATAGATTAAAGATACGAGTTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATT---GA-A-GA--TATAAATCTTATCTCC
* * *
12953329 CTGAAGTTGCAGTGGAGCAGATT-ATAGATACAAGTCTAATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGA-AGATATAAATCTTATCTCC
* * * * * *
12953373 TTGAAGTTACAGTGGAGTAGATCGAAG-TACTAATTCCTATC-CC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGATA-TAAATCTTATCTCC
*
12953416 ACTGAAGATGCAGTGGA
1 -CTGAAGTTGCAGTGGA
12953433 TTGGAATGAG
Statistics
Matches: 910, Mismatches: 241, Indels: 104
0.73 0.19 0.08
Matches are distributed among these distances:
43 6 0.01
44 454 0.50
45 261 0.29
46 8 0.01
47 10 0.01
48 4 0.00
49 7 0.01
50 5 0.01
51 150 0.16
52 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGATATAAATCTTATCTCC
Found at i:12952381 original size:133 final size:133
Alignment explanation
Indices: 12952186--12953394 Score: 666
Period size: 133 Copynumber: 8.8 Consensus size: 133
12952176 TGTTATCTTT
* ** ** * * ** *
12952186 CTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTCCCTAAAGTCACAGTAGAGCAGA
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
* * *
12952251 TTGAAAATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATC
66 TTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATC
12952316 TCC
131 TCC
* * *
12952319 CTAAAGTTGCAGTAGAGCAGGTTGAAGTCACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
** * *
12952384 CCGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATC
66 TTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATC
*
12952449 TAC
131 TCC
* * * * * * * * *
12952452 TTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGA
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
* * ** * * * ** *
12952517 CTAAAGATAGTGAATCTTATTTCTCTGAAATGGCAGT-GAAATATATTAAAGCTACAAATTAGAA
66 TTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAG-AGCAGATTAAAGCT----A-T--AA
*
12952581 ATCTTATCTCT
123 ATCTTATCTCC
* * * * * *
12952592 CTGAAGTTGTAGTGGAGTAGATTGAAGTTACAGATTTTATC-TCCTTGAAGTTGCAGTGGAGAAG
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAG
* * * * * * *
12952656 ATTGAAGATAGCAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAGTTATAGATCTTAC
65 ATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTAT
*
12952721 CTCT
130 CTCC
* * * * **
12952725 CTGAAGTTGCAGTAGAACAAATTGAAGTTACAGATCTTATC-TCATTGAAGTTGCAGTGGAATAG
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTC-CTGAAGTTGCAGTGGAGCAG
* * * * * * * *
12952789 ATCGAAGATAGGAAATCTTATCTC-CATGAAGTTGCAGTGGAACAAATTGAAA-CTACAAGTCTA
65 ATTGAAGATAGCAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATT-AAAGCTATAAATCTT
12952852 ATCTCC
128 ATCTCC
* * * * * *
12952858 CTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTAT-TTCCTTTAAGTTGCAGTAGAACA
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTA-CAAATCTTATCTTCC-TGAAGTTGCAGTGGAGCA
* * * * * * * * *
12952922 GATTAAAGCTA-CAAATTACAAGTCTCATCTC-CTTAAAGTTGTAGTGGACCAGACTGAAGATAA
64 GATTGAAGATAGCAAA-T-C---T-T-ATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGCT-A
* *
12952985 CAAATCTTATTTCC
120 TAAATCTTATCTCC
* * * * * *
12952999 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAGTCTCATCTCCCTGAAGTTGCTGTG
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAA-T-C---T-T-ATCTTCCTGAAGTTGCAGTG
* * * * * * * * *
12953064 AAGCAAACTAAAGATA-AAGAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAATGATACAA
59 GAGCAGATTGAAGATAGCA-AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA--A-GC--
* **
12953128 ATTTCAAATCGGATCTCC
118 -TAT-AAATCTTATCTCC
* * * ** ** * * *
12953146 CTGAAGTTACAGTGGAGAAGATTGAAGCCATTACTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
* * * * * ***
12953211 TTAAAGCA-A-CAAATCTTATCTC-CTTGAAGTTGCAGTGGAGAAGATTGAAGATGCGAATCTTA
66 TTGAAG-ATAGCAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTA
*
12953273 TTTCC
129 TCTCC
* * * ** *
12953278 CTAAAATTGCAGTGGAATAGATTAAAGATACGAGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
1 CTGAAGTTGCAGTAGAGCAGATT---G--A--AGTTACAAATCTTATCTTCCTGAAGTTGCAGTG
* * * * *
12953343 GAGCAGATT-ATAGATA-CAAGTCTAATCTC-CTTGAAGTTACAGTGGAGTAGAT
59 GAGCAGATTGA-AGATAGCAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGAT
12953395 CGAAGTACTA
Statistics
Matches: 836, Mismatches: 187, Indels: 100
0.74 0.17 0.09
Matches are distributed among these distances:
132 29 0.03
133 359 0.43
134 36 0.04
135 3 0.00
136 1 0.00
137 3 0.00
138 5 0.01
139 106 0.13
140 153 0.18
141 63 0.08
142 4 0.00
143 2 0.00
145 2 0.00
146 3 0.00
147 62 0.07
148 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (133 bp):
CTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
TTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATC
TCC
Found at i:12952403 original size:89 final size:88
Alignment explanation
Indices: 12952178--12953399 Score: 515
Period size: 89 Copynumber: 13.4 Consensus size: 88
12952168 ATGGCGAATG
* * ** **
12952178 TTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTCCCTAAAGTCACAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
*
12952243 AGAGCAGATTGAAAAT-AGCAAATC
66 AGAGCAGATTG-AAGTCA-CAAATC
* * * * *
12952267 TTATC-TCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTGCAG
1 TTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAG
*
12952331 TAGAGCAGGTTGAAGTCACAAATC
65 TAGAGCAGATTGAAGTCACAAATC
** * * * *
12952355 TTATCTTCCTGAAGTTGCAGTGGAGCAGACCGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAG
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCTCCCTAAAGTTGCAG
* * *
12952420 TAGAGCAGATTAAAG-CTATAAACC
65 TAGAGCAGATTGAAGTC-ACAAATC
* * * * * * * * *
12952444 TTATCTACTTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
* * * * **
12952509 GGGGCAGACTAAAGAT-AGTGAATC
66 AGAGCAGATTGAAG-TCA-CAAATC
* * * ** * * * *
12952533 TTAT-TTCTCTGAAATGGCAGTGAAATATATTAAAGCTACAAATTAGAAATCTTATCTCTCTGAA
1 TTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-------AAATCTTATCTCCCTAAA
* * * * * *
12952597 GTTGTAGTGGAGTAGATTGAAGTTACAGATT
58 GTTGCAGTAGAGCAGATTGAAGTCACAAATC
* * * *
12952628 TTATC-TCCTTGAAGTTGCAGTGGAGAAGATTGAAGATAGCAAATCTTATCTCCCTGAAGCTGCA
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCTCCCTAAAGTTGCA
* * * *
12952692 GTGGAGCAGATTGAAGTTATAGATC
64 GTAGAGCAGATTGAAGTCACAAATC
* * * * * * ** *
12952717 TTA-CCTCTCTGAAGTTGCAGTAGAACAAATTGAAGTTACAGATCTTATCTCATTGAAGTTGCAG
1 TTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAG
* ** * *
12952781 TGGAATAGATCGAAGAT-AGGAAATC
65 TAGAGCAGATTGAAG-TCA-CAAATC
* * * * * *
12952806 TTATC-TCCATGAAGTTGCAGTGGAACAAATTGAAACTACAAGTCTAATCTCCCTGAAGTTGCAG
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAG
* *
12952870 TAGAGCAGACTGAAGAT-AGCGAATC
65 TAGAGCAGATTGAAG-TCA-CAAATC
* * * * *
12952895 TTAT-TTCCTTTAAGTTGCAGTAGAACAGATTAAAGCTACAAATTACAAGTCTCATCTCCTTAAA
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-T-C---T-T-ATCTCCCTAAA
* * * * *
12952959 GTTGTAGTGGACCAGACTGAAGATAACAAATC
58 GTTGCAGTAGAGCAGATTGAAG-TCACAAATC
* * *
12952991 TTAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTACAAGTCTCATCTCCCTGAA
1 TTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-T-C---T-T-ATCTCCCTAAA
* * * * *
12953055 GTTGCTGT-GAAGCAAACTAAAGAT-AAAGAATC
58 GTTGCAGTAG-AGCAGATTGAAG-TCACA-AATC
* * * * *
12953087 TTAT-TTCCCTGAAGTTGCAGTAGAACAGATT-AATGATACAAATTTCAAATCGGATCTCCCTGA
1 TTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAA-GCTACAAA--TC---T--TATCTCCCTAA
* * * * ** *
12953150 AGTTACAGTGGAGAAGATTGAAGCCATTACTC
57 AGTTGCAGTAGAGCAGATTGAAGTCACAAATC
* * * * * *
12953182 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTATCTCCTTGAAGTTGCAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
* * * *
12953247 GGAGAAGATTGAAGAT-GCGAATC
66 AGAGCAGATTGAAG-TCACAAATC
* * ** * *
12953270 TTAT-TTCCCTAAAATTGCAGTGGAATAGATTAAAGATACGAGTTACAAATCTTATCTCCCTGAA
1 TTATCTT-CCTGAAGTTGCAGTGGAGCAGATT---G--A--AGCTACAAATCTTATCTCCCTAAA
* *
12953334 GTTGCAGTGGAGCAGATT-ATAGAT-ACAAGTC
58 GTTGCAGTAGAGCAGATTGA-AG-TCACAAATC
* * * *
12953365 TAATC-TCCTTGAAGTTACAGTGGAGTAGATCGAAG
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAG
12953400 TACTAATTCC
Statistics
Matches: 894, Mismatches: 182, Indels: 115
0.75 0.15 0.10
Matches are distributed among these distances:
87 1 0.00
88 176 0.20
89 342 0.38
90 5 0.01
91 1 0.00
92 1 0.00
93 3 0.00
94 5 0.01
95 136 0.15
96 218 0.24
97 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (88 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
AGAGCAGATTGAAGTCACAAATC
Found at i:12952799 original size:273 final size:273
Alignment explanation
Indices: 12952310--12952809 Score: 614
Period size: 273 Copynumber: 1.8 Consensus size: 273
12952300 AGCTATAAAC
*
12952310 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAGTCACAAATCTTATCTTCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGTCACAAATCTTATCTTCCTGAAGTTGCAG
* * * *
12952375 TGGAGCAGACCGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
66 TGGAGAAGACCGAAGATAGCAAATCTTATCTCCCTGAAGCTGCAGTAGAGCAGATTAAAGCTATA
* * ** ** *
12952440 AACCTTATCTACTTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
131 AACCTTACCTACTTAAAGTTACAGTAGAACAAATTGAAGTTACAAGTCTTATCTCACTGAAGTTG
**
12952505 CAGTGGGGCAGACTAAAGATAGTG-AATCTTATTTCTCTGAAATGGCAGTGAAATATATTAAAGC
196 CAGTGGAACAGACTAAAGATAG-GAAATCTTATTTCTCTGAAATGGCAGTGAAATATATTAAAGC
12952569 TACAAATTAGAAAT
260 TACAAATTAGAAAT
* * * * * * * *
12952583 CTTATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGTTACAGATTTTATC-TCCTTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGTCACAAATCTTATCTTCC-TGAAGTTGCA
** * * *
12952647 GTGGAGAAGATTGAAGATAGCAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAGTTAT
65 GTGGAGAAGACCGAAGATAGCAAATCTTATCTCCCTGAAGCTGCAGTAGAGCAGATTAAAGCTAT
* * * * *
12952712 AGATCTTACCT-CTCTGAAGTTGCAGTAGAACAAATTGAAGTTAC-AGATCTTATCTCATTGAAG
130 AAACCTTACCTACT-TAAAGTTACAGTAGAACAAATTGAAGTTACAAG-TCTTATCTCACTGAAG
* *
12952775 TTGCAGTGGAATAGA-TCGAAGATAGGAAATCTTAT
193 TTGCAGTGGAACAGACT-AAAGATAGGAAATCTTAT
12952810 CTCCATGAAG
Statistics
Matches: 188, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
272 9 0.05
273 179 0.95
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (273 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGTCACAAATCTTATCTTCCTGAAGTTGCAG
TGGAGAAGACCGAAGATAGCAAATCTTATCTCCCTGAAGCTGCAGTAGAGCAGATTAAAGCTATA
AACCTTACCTACTTAAAGTTACAGTAGAACAAATTGAAGTTACAAGTCTTATCTCACTGAAGTTG
CAGTGGAACAGACTAAAGATAGGAAATCTTATTTCTCTGAAATGGCAGTGAAATATATTAAAGCT
ACAAATTAGAAAT
Found at i:12953006 original size:96 final size:96
Alignment explanation
Indices: 12952479--12953349 Score: 567
Period size: 96 Copynumber: 9.4 Consensus size: 96
12952469 CAGGTTGAAG
* * * *** *
12952479 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGATAGTGAATCTTATTTCTCTG
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCT-
* * * *
12952544 AAA-TGGCAGTGAAATATATTAAAGCTACAAA
65 AAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * * * * * * * * * * *
12952575 TTAGAAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAG-TTACAGATTTTATCTCCTTG
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
* *
12952639 AAGTTGCAGTGGAGA-AGATTGAAGATAGCAAA
66 AAGTTGCAGTGGA-ACAGATTAAAGCTA-CAAA
* * * * * ** * *
12952671 -T-C---T-T-ATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAG-TTATAGATCTTACCTCTCTG
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
* * * * *
12952728 AAGTTGCAGTAGAACAAATTGAAGTTACAGA
66 AAGTTGCAGTGGAACAGATTAAAGCTACAAA
** ** ** * *
12952759 -T-C---T-T-ATCTCATTGAAGTTGCAGTGGAATAGA-TCGAAGATAGGAAATCTTATCTCCAT
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAACAAATCTTATTTCCCT
* *
12952816 GAAGTTGCAGTGGAACAAATT---G----AAA
65 AAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * * * * *
12952841 CTACAAGTCTAATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTT
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
*
12952906 AAGTTGCAGTAGAACAGATTAAAGCTACAAA
66 AAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * * *
12952937 TTACAAGTCTCATCTCCTTAAAGTTGTAGTGGACCAGACTGAAGATAACAAATCTTATTTCCCTG
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
12953002 AAGTTGCAGTGGAACAGATTAAAGCTACAAA
66 AAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * *
12953033 TTACAAGTCTCATCTCCCTGAAGTTGCTGTGAAGCAAACTAAAGATAA-AGAATCTTATTTCCCT
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA-AATCTTATTTCCCT
* * * *
12953097 GAAGTTGCAGTAGAACAGATTAATGATACAAA
65 AAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * ** * * * * *
12953129 TTTCAAATCGGATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGCCATTAC---TCTTATCTCCC
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAACAAATCTTATTTCCC
* *
12953191 TAAAGTTGCAGTGGAGCAGATTAAAGCAACAAA
64 TAAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * * * *
12953224 -T-C---T-T-ATCTCCTTGAAGTTGCAGTGGAGAAGATTGAAGAT-GCGAATCTTATTTCCCTA
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
* * * * *
12953281 AAATTGCAGTGGAATAGATTAAAGATACGAG
66 AAGTTGCAGTGGAACAGATTAAAGCTACAAA
* *
12953312 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA
12953350 TTATAGATAC
Statistics
Matches: 621, Mismatches: 119, Indels: 71
0.77 0.15 0.09
Matches are distributed among these distances:
82 2 0.00
83 1 0.00
84 1 0.00
85 1 0.00
86 3 0.00
87 2 0.00
88 102 0.16
89 159 0.26
90 4 0.01
91 1 0.00
92 1 0.00
93 2 0.00
94 4 0.01
95 91 0.15
96 244 0.39
98 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (96 bp):
TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTTATTTCCCTA
AAGTTGCAGTGGAACAGATTAAAGCTACAAA
Found at i:12955746 original size:26 final size:26
Alignment explanation
Indices: 12955710--12955791 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
12955700 TGATACAAAT
*
12955710 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
*
12955736 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGATAAATGTTCCA
12955762 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
12955788 TGAT
1 TGAT
12955792 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:12964227 original size:14 final size:14
Alignment explanation
Indices: 12964194--12964228 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12964184 CCCTTGTTTG
12964194 TGTTTTCTTGATAA
1 TGTTTTCTTGATAA
* *
12964208 TCTTTTCTTGATAT
1 TGTTTTCTTGATAA
12964222 TGTTTTC
1 TGTTTTC
12964229 CAATTTTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.63
Consensus pattern (14 bp):
TGTTTTCTTGATAA
Found at i:12964317 original size:2 final size:2
Alignment explanation
Indices: 12964310--12964353 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12964300 AAGATTTTAC
12964310 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12964352 CT
1 CT
12964354 TAAACAAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12966310 original size:31 final size:29
Alignment explanation
Indices: 12966243--12966311 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
12966233 ATGATAACGT
* ** *
12966243 AAATGATTAAAATGTAACATTTCAAATAT
1 AAATGACTAAAATGTAACAAGTCAAATAA
*
12966272 AAGTGACTAAAATGTAATCTAAGTCAAATAA
1 AAATGACTAAAATGTAA-C-AAGTCAAATAA
12966303 AAATGACTA
1 AAATGACTA
12966312 TTTTTATAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.47
30 1 0.03
31 16 0.50
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (29 bp):
AAATGACTAAAATGTAACAAGTCAAATAA
Found at i:12970011 original size:40 final size:37
Alignment explanation
Indices: 12969937--12970071 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 37
12969927 CATGGAAAAG
* *
12969937 TGTGAAATGTAGGTATGGTA--TCATCCATATTGAGT
1 TGTGAAATGTAGGTATGATATTTCATCCATACTGAGT
12969972 TGTGAAATGTAGGTATGATATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGATATT-TC--ATCCATACTGAGT
** * *
12970012 TAAGAAATGTAGGTATGACATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGATATTTCATCCATACTGAGT
* *
12970047 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGATATTTCA
12970072 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 48 0.58
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGATATTTCATCCATACTGAGT
Found at i:12974796 original size:3 final size:3
Alignment explanation
Indices: 12974782--12974820 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
12974772 TTCTTAGATT
* *
12974782 TTA TTAA TTA TTA TTG TTA ATA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12974821 TGATTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12975855 original size:27 final size:26
Alignment explanation
Indices: 12975804--12975897 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
12975794 ATGCCTTATT
12975804 GGTGTGTTTGGGAGGATATGA-TATACC
1 GGTGTGTTT-GGAGGATAT-ATTATACC
* *
12975831 GGTGTGTTTGGAAGGCTATATTATACT
1 GGTGTGTTTGG-AGGATATATTATACC
*
12975858 GGTGTGTTATGGAGGATTTATATTATTCC
1 GGTGTGTT-TGGAGGA--TATATTATACC
12975887 GGGTGTGTTTG
1 -GGTGTGTTTG
12975898 TGTTGGATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.05
27 31 0.55
28 3 0.05
29 11 0.20
30 8 0.14
ACGTcount: A:0.19, C:0.06, G:0.34, T:0.40
Consensus pattern (26 bp):
GGTGTGTTTGGAGGATATATTATACC
Found at i:12984464 original size:21 final size:21
Alignment explanation
Indices: 12984435--12984490 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
12984425 TAAACATATA
12984435 TATATATATAAATATAAAATAAT
1 TATA-ATATAAATAT-AAATAAT
*
12984458 TA-AATATAAATATTAATAAT
1 TATAATATAAATATAAATAAT
*
12984478 TATATTATAAATA
1 TATAATATAAATA
12984491 AATAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.27
21 19 0.63
22 1 0.03
23 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATATAAATATAAATAAT
Found at i:12985736 original size:26 final size:26
Alignment explanation
Indices: 12985700--12985752 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12985690 AGGTACGATG
12985700 TTTACTTAATTCCAATTTCAACATTT
1 TTTACTTAATTCCAATTTCAACATTT
12985726 TTTACTTAATTCCAATTTCAACATTT
1 TTTACTTAATTCCAATTTCAACATTT
12985752 T
1 T
12985753 GCATTTTTAA
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:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTACTTAATTCCAATTTCAACATTT
Found at i:12988019 original size:30 final size:30
Alignment explanation
Indices: 12987974--12988040 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
12987964 ATTATTTAAC
** **
12987974 TTCAAAAAATACAAAATGGTTATTAAATTA
1 TTCAAAAGTTACAAAATAATTATTAAATTA
*
12988004 TTTAAAAGTTACAAAATAATTATTAAATTA
1 TTCAAAAGTTACAAAATAATTATTAAATTA
12988034 TTCAAAA
1 TTCAAAA
12988041 AATTTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (30 bp):
TTCAAAAGTTACAAAATAATTATTAAATTA
Found at i:12993926 original size:18 final size:18
Alignment explanation
Indices: 12993889--12993942 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
12993879 AATTTTGAAA
12993889 AGATTTATATAAAAATATT
1 AGATTTATATAAAAA-ATT
*
12993908 AGATTTAAATAAAAAATT
1 AGATTTATATAAAAAATT
* *
12993926 ATATTTATTTAAAAAAT
1 AGATTTATATAAAAAAT
12993943 GGTCGAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
AGATTTATATAAAAAATT
Found at i:12994164 original size:21 final size:19
Alignment explanation
Indices: 12994127--12994165 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
12994117 AGAAATTTAA
12994127 TAAAAAATATTAATAATAG
1 TAAAAAATATTAATAATAG
*
12994146 TAAAAATTATATAATTAATA
1 TAAAAAATAT-TAA-TAATA
12994166 AGCAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAAAATATTAATAATAG
Found at i:12995173 original size:30 final size:30
Alignment explanation
Indices: 12995121--12995200 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
12995111 ATATTTTATG
12995121 TATCATTATATTAAACTATTTAAATATAATT
1 TATCATTATATTAAA-TATTTAAATATAATT
*
12995152 TATCATTATATTAAATATTTAAATATCATT
1 TATCATTATATTAAATATTTAAATATAATT
* *
12995182 TATTATTGTATTAAA-ATTT
1 TATCATTATATTAAATATTT
12995201 TTAAAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 4 0.09
30 27 0.59
31 15 0.33
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.51
Consensus pattern (30 bp):
TATCATTATATTAAATATTTAAATATAATT
Found at i:13008392 original size:11 final size:10
Alignment explanation
Indices: 13008377--13008452 Score: 64
Period size: 11 Copynumber: 7.2 Consensus size: 10
13008367 ATAAAGGATG
13008377 AATAAAAGAA
1 AATAAAAGAA
*
13008387 AGATAAAATTAA
1 A-ATAAAA-GAA
*
13008399 AATAAAATAAA
1 AATAAAA-GAA
*
13008410 GAATAAAATAA
1 -AATAAAAGAA
13008421 AATAAAAGAA
1 AATAAAAGAA
13008431 AAGTAAAAGAA
1 AA-TAAAAGAA
*
13008442 AA-CAAAGAA
1 AATAAAAGAA
13008451 AA
1 AA
13008453 GAAGAGGAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.14
10 12 0.21
11 27 0.47
12 10 0.18
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.13
Consensus pattern (10 bp):
AATAAAAGAA
Found at i:13008402 original size:22 final size:22
Alignment explanation
Indices: 13008377--13008431 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
13008367 ATAAAGGATG
13008377 AATAAAAGAAAG-ATAAAATTAA
1 AATAAAAGAAAGAATAAAA-TAA
*
13008399 AATAAAATAAAGAATAAAATAA
1 AATAAAAGAAAGAATAAAATAA
13008421 AATAAAAGAAA
1 AATAAAAGAAA
13008432 AGTAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (22 bp):
AATAAAAGAAAGAATAAAATAA
Found at i:13008406 original size:5 final size:5
Alignment explanation
Indices: 13008377--13008443 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
13008367 ATAAAGGATG
*
13008377 AATAA AAGAA AGATAA AATTAA AATAA AATAAA GAATAA AATAA AATAA
1 AATAA AATAA A-ATAA AA-TAA AATAA AAT-AA -AATAA AATAA AATAA
* *
13008426 AAGAA AAGTAA AAGAA AA
1 AATAA AA-TAA AATAA AA
13008444 CAAAGAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 32 0.62
6 17 0.33
7 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:13008416 original size:17 final size:17
Alignment explanation
Indices: 13008376--13008426 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
13008366 AATAAAGGAT
*
13008376 GAATAAAAGAAAGATAAA
1 GAATAAAATAAA-ATAAA
*
13008394 -ATTAAAATAAAATAAA
1 GAATAAAATAAAATAAA
13008410 GAATAAAATAAAATAAA
1 GAATAAAATAAAATAAA
13008427 AGAAAAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.18
Consensus pattern (17 bp):
GAATAAAATAAAATAAA
Found at i:13018116 original size:16 final size:16
Alignment explanation
Indices: 13018097--13018127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13018087 ATTTAAGTAA
*
13018097 ATATTATTTTATTATT
1 ATATTATTGTATTATT
13018113 ATATTATTGTATTAT
1 ATATTATTGTATTAT
13018128 ATTAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATATTATTGTATTATT
Found at i:13019259 original size:18 final size:18
Alignment explanation
Indices: 13019236--13019293 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
13019226 TAGATAAATG
13019236 TACTGAATGACTGATTGT
1 TACTGAATGACTGATTGT
*
13019254 TACTGAATGATTGATTGT
1 TACTGAATGACTGATTGT
* * *
13019272 TTCTGAATGACTAATTAT
1 TACTGAATGACTGATTGT
13019290 TACT
1 TACT
13019294 AAATAACAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (18 bp):
TACTGAATGACTGATTGT
Found at i:13021400 original size:12 final size:12
Alignment explanation
Indices: 13021383--13021407 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13021373 AAGGTAATGC
13021383 ACACGATATGGT
1 ACACGATATGGT
13021395 ACACGATATGGT
1 ACACGATATGGT
13021407 A
1 A
13021408 ACAAGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ACACGATATGGT
Found at i:13028950 original size:33 final size:33
Alignment explanation
Indices: 13028908--13028973 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
13028898 AGTGTGGGGG
13028908 TATTTGATAAACCGTAAATTATACATATTTTTA
1 TATTTGATAAACCGTAAATTATACATATTTTTA
13028941 TATTTGATAAACCGTAAATTATACATATTTTTA
1 TATTTGATAAACCGTAAATTATACATATTTTTA
13028974 CCCCATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (33 bp):
TATTTGATAAACCGTAAATTATACATATTTTTA
Found at i:13032271 original size:23 final size:22
Alignment explanation
Indices: 13032240--13032282 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
13032230 AAAATCCATA
* *
13032240 CCAAATCATGCCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
13032262 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
13032283 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:13033054 original size:42 final size:43
Alignment explanation
Indices: 13032945--13033115 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
13032935 AAGTTGTACA
* * * *
13032945 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* *
13032988 ATGCCACTGTCTCAGAAAAT-GTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCA-AACATGGTCTTACACGAAATCAAATATCG
* *
13033030 ATGCCGA-TGTCCCAAACATGGTCTTACACATAAATCTCAA-ATCG
1 ATGCC-ACTGTCCCAAACATGGTCTTACAC-GAAATC-AAATATCG
* * ** *
13033074 ATGCCAAC-GTCCTAGATGTGGTCTTACACGAAATCACATATC
1 ATGCC-ACTGTCCCAAACATGGTCTTACACGAAATCAAATATC
13033116 AGAATCCTAC
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
41 4 0.04
42 24 0.24
43 45 0.45
44 28 0.28
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAAACATGGTCTTACACGAAATCAAATATCG
Found at i:13041320 original size:4 final size:4
Alignment explanation
Indices: 13041313--13041397 Score: 71
Period size: 4 Copynumber: 20.8 Consensus size: 4
13041303 AAGTTAAAAA
* * *** * *
13041313 AAAG AAAG AAAG AAAG AAAG AAAG AACG ATAG AAAG AGTT ACAG AGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
**
13041361 CAAACG TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 -AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
13041398 TAGAAAAGGG
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 59 0.94
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:13049753 original size:10 final size:10
Alignment explanation
Indices: 13049734--13049793 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
13049724 TGAAATTCTA
13049734 AAAGATAAAT
1 AAAGATAAAT
13049744 ACAA-ATAAAT
1 A-AAGATAAAT
*
13049754 AAAGATAGAT
1 AAAGATAAAT
13049764 AAAGATAAAT
1 AAAGATAAAT
13049774 AAAGATAAAT
1 AAAGATAAAT
13049784 GAAA-ATAAAT
1 -AAAGATAAAT
13049794 CTTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13053730 original size:10 final size:10
Alignment explanation
Indices: 13053710--13053761 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
13053700 TTCATGCTTA
13053710 AAATCCATACC
1 AAAT-CATACC
13053721 AAATCATACC
1 AAATCATACC
13053731 AAATCATAAGCC
1 AAATCAT-A-CC
13053743 AAAGTCATACC
1 AAA-TCATACC
*
13053754 AAAACATA
1 AAATCATA
13053762 TGTTTCATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 17 0.46
11 10 0.27
12 6 0.16
13 4 0.11
ACGTcount: A:0.52, C:0.27, G:0.04, T:0.17
Consensus pattern (10 bp):
AAATCATACC
Found at i:13053751 original size:23 final size:22
Alignment explanation
Indices: 13053719--13053761 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
13053709 AAAATCCATA
*
13053719 CCAAATCATACCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
13053741 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
13053762 TGTTTCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:13054534 original size:42 final size:42
Alignment explanation
Indices: 13054431--13054596 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 42
13054421 GACAATGCCA
*
13054431 ATGTCCTAGACATGGTCTTACATGTAATCAAATATCGATGTC
1 ATGTCCTAGACATGGTCTTACATGAAATCAAATATCGATGTC
* * *
13054473 ACTGTCCTAGACAGGGTCTTACATGAAATCAAATA-CGCTGCTG
1 A-TGTCCTAGACATGGTCTTACATGAAATCAAATATCGATG-TC
* * *
13054516 ATGTCCTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCC
1 ATGTCCTAGACATGGTCTTACATG-AAATC-AAATATCGATGTC
* ** *
13054559 AACGTTCC-AGACATGGTCTTACACAAAATCACATATCG
1 -ATG-TCCTAGACATGGTCTTACATGAAATCAAATATCG
13054597 GAATCCTATG
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.26
43 48 0.47
44 24 0.24
45 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGTCCTAGACATGGTCTTACATGAAATCAAATATCGATGTC
Found at i:13054588 original size:86 final size:85
Alignment explanation
Indices: 13054431--13054589 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 85
13054421 GACAATGCCA
* *
13054431 ATGTCCTAGACATGGTCTTACATGTAATCAAATATCGATGTCACTGTCCTAGACAGGGTCTTACA
1 ATGTCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACA
**
13054496 TGAAATCAAATACGCTGCTG
66 CAAAATCAAATACGCTGCTG
* *
13054516 ATGTCCTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTTCC-AGACATGGTCT
1 ATGTCCTAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTG-TCCTAGACAGGGTCT
13054578 TACACAAAATCA
62 TACACAAAATCA
13054590 CATATCGGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 24 0.38
86 33 0.52
87 7 0.11
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (85 bp):
ATGTCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACA
CAAAATCAAATACGCTGCTG
Found at i:13054682 original size:28 final size:28
Alignment explanation
Indices: 13054642--13054699 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
13054632 CCTATGGTTC
*
13054642 ATACGGGGCTTTCAACAGTCGTTACATT
1 ATACGGGGCTTTCAAAAGTCGTTACATT
13054670 ATACGGGGCTTTCAAAAGTCGTTACATT
1 ATACGGGGCTTTCAAAAGTCGTTACATT
13054698 AT
1 AT
13054700 CGAAACTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (28 bp):
ATACGGGGCTTTCAAAAGTCGTTACATT
Found at i:13056730 original size:16 final size:16
Alignment explanation
Indices: 13056698--13056757 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
13056688 TTTACCGGTC
13056698 ATAATTATTAAATTAAT
1 ATAA-TATTAAATTAAT
13056715 ATAATATTAGAA-TAAT
1 ATAATATTA-AATTAAT
*
13056731 ATAATA-AACAATTAAT
1 ATAATATTA-AATTAAT
*
13056747 A-AAAATTAAAT
1 ATAATATTAAAT
13056758 AAAAGAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 9 0.25
16 21 0.58
17 6 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
ATAATATTAAATTAAT
Found at i:13057856 original size:18 final size:18
Alignment explanation
Indices: 13057831--13057891 Score: 104
Period size: 18 Copynumber: 3.4 Consensus size: 18
13057821 AGATAAATGC
13057831 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
* *
13057849 ATTGAATGATTGATTGTT
1 ACTGAATGACTGATTGTT
13057867 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
13057885 ACTGAAT
1 ACTGAAT
13057892 AACAATGAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (18 bp):
ACTGAATGACTGATTGTT
Found at i:13062323 original size:12 final size:12
Alignment explanation
Indices: 13062308--13062338 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13062298 AACCACACGC
13062308 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
13062320 CCGTGTGCTAGG
1 CCGTGTGCCAGG
13062332 CCGTGTG
1 CCGTGTG
13062339 AAAACTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:13068380 original size:6 final size:6
Alignment explanation
Indices: 13068369--13068393 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13068359 TAAGTAATAA
13068369 TTATAT TTATAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT TTATAT T
13068394 AAATCACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:13068699 original size:50 final size:50
Alignment explanation
Indices: 13068640--13068741 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
13068630 TAATATTAAA
*
13068640 AATCAAATATAGATGAACCGAGTCGAACCTAAATTTACCT-TTCTTAAATT
1 AATCAAATATAGATGAACCGAGTCGAACCCAAATTTA-CTATTCTTAAATT
* * *
13068690 AATCAAATATAGATGAATCGGGTCGAACCCAAATTTACTATTTTTAAATT
1 AATCAAATATAGATGAACCGAGTCGAACCCAAATTTACTATTCTTAAATT
13068740 AA
1 AA
13068742 ATTGAGTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
49 2 0.04
50 45 0.96
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (50 bp):
AATCAAATATAGATGAACCGAGTCGAACCCAAATTTACTATTCTTAAATT
Found at i:13083467 original size:15 final size:15
Alignment explanation
Indices: 13083447--13083475 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13083437 GAATATTGCA
13083447 AATATAAAAAAATAT
1 AATATAAAAAAATAT
13083462 AATATAAAAAAATA
1 AATATAAAAAAATA
13083476 AAAAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATATAAAAAAATAT
Found at i:13084125 original size:12 final size:12
Alignment explanation
Indices: 13084063--13084128 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
13084053 ATTTTCGTTT
13084063 TTATATATTGTTA
1 TTAT-TATTGTTA
* **
13084076 TTATTTTTCCTA
1 TTATTATTGTTA
* **
13084088 ATATTATTAATA
1 TTATTATTGTTA
13084100 TTATTATT-TCTA
1 TTATTATTGT-TA
13084112 TTATTATTGTTA
1 TTATTATTGTTA
13084124 TTATT
1 TTATT
13084129 GACATCCTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 37 0.88
13 5 0.12
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:13092659 original size:12 final size:12
Alignment explanation
Indices: 13092642--13092689 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
13092632 TGGGAGTAAA
13092642 GTTTTATATTTG
1 GTTTTATATTTG
*
13092654 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
13092669 GTTTTATATTTG
1 GTTTTATATTTG
*
13092681 GTTTCATAT
1 GTTTTATAT
13092690 GTTAATGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 17 0.57
13 2 0.07
14 2 0.07
15 9 0.30
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:13092672 original size:27 final size:27
Alignment explanation
Indices: 13092638--13092694 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
13092628 TTAGTGGGAG
*
13092638 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTCATATGT
13092665 TAAAGTTTTATATTTGGTTTCATATGT
1 TAAAGTTTTATATTTGGTTTCATATGT
13092692 TAA
1 TAA
13092695 TGACATACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTCATATGT
Found at i:13092674 original size:15 final size:14
Alignment explanation
Indices: 13092638--13092679 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
13092628 TTAGTGGGAG
13092638 TAAAGTTTTATATT
1 TAAAGTTTTATATT
*
13092652 T--GGTTTTATATGT
1 TAAAGTTTTATAT-T
13092665 TAAAGTTTTATATT
1 TAAAGTTTTATATT
13092679 T
1 T
13092680 GGTTTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 3 0.13
15 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (14 bp):
TAAAGTTTTATATT
Found at i:13101921 original size:23 final size:23
Alignment explanation
Indices: 13101873--13101921 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13101863 TTTTTATTTT
**
13101873 ATTTTTATTTTTCAATTTAACTA
1 ATTTTTATTTTTCAATTTAAAAA
13101896 ATTTTATATTTTT-AATTTAAAAA
1 ATTTT-TATTTTTCAATTTAAAAA
13101919 ATT
1 ATT
13101922 ATAAAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTATTTTTCAATTTAAAAA
Found at i:13102527 original size:14 final size:14
Alignment explanation
Indices: 13102508--13102546 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
13102498 GCGTCCGCCC
13102508 ATATTAATTTTTTA
1 ATATTAATTTTTTA
13102522 ATATT-A-TTTTT-
1 ATATTAATTTTTTA
13102533 ATA-TAATTTTTTA
1 ATATTAATTTTTTA
13102546 A
1 A
13102547 AAATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
10 1 0.05
11 4 0.18
12 10 0.45
13 2 0.09
14 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTAATTTTTTA
Found at i:13103185 original size:16 final size:16
Alignment explanation
Indices: 13103166--13103211 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 16
13103156 AAAGAAATTT
13103166 ATAATTAAATTTAATA
1 ATAATTAAATTTAATA
13103182 ATAATTAAAATATTTAATA
1 ATAATT--AA-ATTTAATA
13103201 ATAAATTAAAT
1 AT-AATTAAAT
13103212 AGATTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.23
17 2 0.08
18 4 0.15
19 10 0.38
20 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTAAATTTAATA
Found at i:13103220 original size:22 final size:19
Alignment explanation
Indices: 13103174--13103217 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
13103164 TTATAATTAA
*
13103174 ATTTAATAATAATTAAAAT
1 ATTTAATAATAATTAAAAG
13103193 ATTTAATAATAAATTAAATAG
1 ATTTAATAAT-AATTAAA-AG
13103214 ATTT
1 ATTT
13103218 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 7 0.32
21 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTAATAATAATTAAAAG
Found at i:13103566 original size:3 final size:3
Alignment explanation
Indices: 13103558--13103590 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13103548 ACGAAACCTT
13103558 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13103591 GGTATTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:13104257 original size:3 final size:3
Alignment explanation
Indices: 13104249--13104273 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13104239 ATTGGGGTTC
13104249 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13104274 CGTATTACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13106689 original size:21 final size:21
Alignment explanation
Indices: 13106663--13106718 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
13106653 CACCATTGTT
* *
13106663 TCTAATCTCACTGCTACATTA
1 TCTAATCTCACCGCTACAGTA
13106684 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
* *
13106705 ACTAATCTTACCGC
1 TCTAATCTCACCGC
13106719 CACCGCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:13107424 original size:15 final size:14
Alignment explanation
Indices: 13107406--13107457 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
13107396 ATTATATTAT
*
13107406 AATATAAAACAAAGA
1 AATA-AAAAAAAAGA
13107421 AATAAAAGAAAAAGA
1 AATAAAA-AAAAAGA
*
13107436 AATAGAAAAGAAAGA
1 AATA-AAAAAAAAGA
*
13107451 AAGAAAA
1 AATAAAA
13107458 CGAAACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 6 0.19
15 23 0.72
16 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (14 bp):
AATAAAAAAAAAGA
Found at i:13107810 original size:18 final size:19
Alignment explanation
Indices: 13107781--13107816 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13107771 TGTGAAAATT
*
13107781 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
13107800 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
13107817 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:13108429 original size:41 final size:38
Alignment explanation
Indices: 13108378--13108499 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 38
13108368 CTTCGAGTCA
13108378 ATGAGACACTACGTGTCAATTTATTACTTCGAATATATTCG
1 ATGAGACACTA-GTGTCAA-TTATTACTTCGAAT-TATTCG
* ** **
13108419 ATGAGGCACTAGATG-CTAA-T-TTACTTCGGTTTAGCCG
1 ATGAGACACTAG-TGTC-AATTATTACTTCGAATTATTCG
*
13108456 ATGAGACACTGGGTGTCAAGTTATTACTTCGAATTATTCG
1 ATGAGACACT-AGTGTCAA-TTATTACTTCGAATTATTCG
13108496 ATGA
1 ATGA
13108500 AGCATTGGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
37 17 0.27
38 11 0.17
39 2 0.03
40 19 0.30
41 14 0.22
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (38 bp):
ATGAGACACTAGTGTCAATTATTACTTCGAATTATTCG
Found at i:13111188 original size:26 final size:27
Alignment explanation
Indices: 13111140--13111190 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13111130 AAAATTTTCA
* *
13111140 TTTAAATTTATAATAAGTTATAAAAAT
1 TTTAAATTAATAATAAGTAATAAAAAT
13111167 TTTAAATTAATAATAA-TAATAAAA
1 TTTAAATTAATAATAAGTAATAAAA
13111191 GCCTGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTAAATTAATAATAAGTAATAAAAAT
Found at i:13113698 original size:18 final size:19
Alignment explanation
Indices: 13113662--13113700 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13113652 AATACTTTTT
* *
13113662 AAAAGTATTTTTAGGTTAA
1 AAAAATATTTTTAGATTAA
13113681 AAAAATATTTTTA-ATTAA
1 AAAAATATTTTTAGATTAA
13113699 AA
1 AA
13113701 GTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
AAAAATATTTTTAGATTAA
Found at i:13127547 original size:12 final size:12
Alignment explanation
Indices: 13127530--13127576 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
13127520 TATCAATTCG
13127530 ATTAAATAAATC
1 ATTAAATAAATC
13127542 ATTAAA-AAA--
1 ATTAAATAAATC
*
13127551 ACTAAATAAATC
1 ATTAAATAAATC
*
13127563 ATTAAAAAAATC
1 ATTAAATAAATC
13127575 AT
1 AT
13127577 GTTCAACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 3 0.10
12 18 0.62
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (12 bp):
ATTAAATAAATC
Found at i:13127556 original size:21 final size:21
Alignment explanation
Indices: 13127532--13127572 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13127522 TCAATTCGAT
13127532 TAAATAAATCATTAAAAAAAC
1 TAAATAAATCATTAAAAAAAC
13127553 TAAATAAATCATTAAAAAAA
1 TAAATAAATCATTAAAAAAA
13127573 TCATGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATAAATCATTAAAAAAAC
Found at i:13128353 original size:31 final size:32
Alignment explanation
Indices: 13128312--13128377 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
13128302 TTTAAATTAA
*
13128312 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
13128343 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
13128377 T
1 T
13128378 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:13130527 original size:21 final size:21
Alignment explanation
Indices: 13130503--13130574 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
13130493 TTCTCTGAAA
13130503 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
13130524 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTGTA--A-GAC--CATGGT
13130548 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
13130570 TGAAA
1 TGAAA
13130575 CCATGGTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:13130579 original size:12 final size:12
Alignment explanation
Indices: 13130562--13130586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13130552 AATGTGTAAG
13130562 ACCATGGTTGAA
1 ACCATGGTTGAA
13130574 ACCATGGTTGAA
1 ACCATGGTTGAA
13130586 A
1 A
13130587 GATACCATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ACCATGGTTGAA
Found at i:13130610 original size:58 final size:58
Alignment explanation
Indices: 13130516--13130632 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
13130506 AATGTGTAAG
*
13130516 ACCATGGTTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCATGGTTGAA
1 ACCATGGTTGAAAGATACCATGACAACATGACATGAAATGTGTAAGACCATGGTTGAA
* *
13130574 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGTGTAAGACCATGGTTGAA
1 ACCATGGTTGAAAGATACCATGACAACATGACATGAAATGTGTAAGACCATGGTTGAA
13130632 A
1 A
13130633 GATACCATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (58 bp):
ACCATGGTTGAAAGATACCATGACAACATGACATGAAATGTGTAAGACCATGGTTGAA
Done.