Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 78 of 276
Found at i:23909273 original size:61 final size:61
Alignment explanation
Indices: 23909167--23909305 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 61
23909157 TTTTTACTTG
23909167 TATTATATATTTATTAATTATTTATATATATTATATATTATTTTTTA-AATA-TATAC-TTTT
1 TATTATATA-TTA-TAATTATTTATATATATTATATATTATTTTTTATAATATTATACATTTT
*
23909227 ATATTATATATTATAATTATTTTATTATATATTAT-TATGTCATTTTTTATATTATTATACATTT
1 -TATTATATATTATAATTA-TTTA-TATATATTATATAT-T-ATTTTTTATAATATTATACATTT
23909291 T
61 T
23909292 TATCTATATATTAT
1 TAT-TATATATTAT
23909306 TATCATTAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
59 6 0.09
60 10 0.14
61 20 0.29
62 8 0.12
63 3 0.04
64 8 0.12
65 14 0.20
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (61 bp):
TATTATATATTATAATTATTTATATATATTATATATTATTTTTTATAATATTATACATTTT
Found at i:23909292 original size:20 final size:22
Alignment explanation
Indices: 23909245--23909305 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
23909235 TATTATAATT
* *
23909245 ATTTTATTATATATTATTATGTC
1 ATTTTA-TCTATATTATTATGAC
23909268 ATTTT-T-TATATTATTAT-AC
1 ATTTTATCTATATTATTATGAC
23909287 ATTTTTATCTATA-TATTAT
1 A-TTTTATCTATATTATTAT
23909306 TATCATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 8 0.24
22 4 0.12
23 5 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATCTATATTATTATGAC
Found at i:23909497 original size:23 final size:21
Alignment explanation
Indices: 23909448--23909499 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
23909438 ATCATTAATT
*
23909448 ACTTATTTTATATTATTCTAA
1 ACTTATTTTATATTATTATAA
23909469 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATAT-TATTATA-A
23909493 A-TTATTT
1 ACTTATTT
23909500 CATTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
ACTTATTTTATATTATTATAA
Found at i:23909649 original size:26 final size:26
Alignment explanation
Indices: 23909601--23909650 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
23909591 CTATAAATAT
* * * *
23909601 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
23909627 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
23909651 TTTATTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:23913068 original size:42 final size:42
Alignment explanation
Indices: 23912948--23913069 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
23912938 TTTTGTTATG
23912948 TGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCT-GGACAG-TGGCATCGACTTC
* * *
23912991 TGTTTTACGTGTAAGACCATGTCTGAGACATTGGCATC-A-TATC
1 TGATTT-CGTGTAAGACCCTGTCTG-GACAGTGGCATCGACT-TC
*
23913034 TGATTTCGTGTAAGACCCTATCTAGGACAGTGGCAT
1 TGATTTCGTGTAAGACCCTGTCT-GGACAGTGGCAT
23913070 TGATGTTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
42 26 0.39
43 15 0.23
44 25 0.38
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGACAGTGGCATCGACTTC
Found at i:23913111 original size:43 final size:42
Alignment explanation
Indices: 23912948--23913114 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
23912938 TTTTGTTATG
* *
23912948 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TTC
* * * * *
23912991 TGTTTTACGTGTAAGACCATGTCTGAGACATTGGCA-TCATATC
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATTGAT-TC
* * * *
23913034 TGATTTCGTGTAAGACC-CTATCTAGGACAG-TGGCATTGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTGAT-TC
*
23913077 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATTG
23913115 TATATGTTCT
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.27
43 41 0.43
44 29 0.30
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATTGATTC
Found at i:23923559 original size:41 final size:40
Alignment explanation
Indices: 23923502--23923583 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 40
23923492 TAAGAACTGT
*
23923502 GCTAATCAATTGTAGGACATCGGAAGAGATCTCAGTAGCA
1 GCTAATCAATTGTAGGACATAGGAAGAGATCTCAGTAGCA
23923542 NGCTAATCAATTGTAGGACATAGGAAGAGATCTCAGTAGCA
1 -GCTAATCAATTGTAGGACATAGGAAGAGATCTCAGTAGCA
23923583 G
1 G
23923584 TCGTCGCGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (40 bp):
GCTAATCAATTGTAGGACATAGGAAGAGATCTCAGTAGCA
Found at i:23926685 original size:249 final size:249
Alignment explanation
Indices: 23926247--23926744 Score: 782
Period size: 249 Copynumber: 2.0 Consensus size: 249
23926237 CACGATACCC
* *
23926247 AAAGAGGATATTGCGATACCACTGAAGGGACTCCTTATTCTTCAACACTGTCAGAGGTATCACGA
1 AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
* * * * *
23926312 TTCCAAGGGTTGATATCATGACACCCTTGCCTTAGATGCCATTCTTGCTTGTTTTTAACCTCCAA
66 TTCCAAGGGTTGATATCATGACACACTTGCCCTAGATACCATTCTCGCTCGTTTTTAACCTCCAA
* * * *
23926377 TATGTCCTTACAGCATTTAAACACATGTTAGTCCTCCCAATGGCGTTATCGACCAATTTGGGTAA
131 CATGTCCTTACAGCATTTAAACACATGTTAGACCTCCCAATGGCGCTATCGACCAATTTGAGTAA
*
23926442 AAAATGAGACAAAAAGGAGACATTTTCATTTATTACCCGAA-ATTATTAAAATAA
196 AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCC-AAGATTATTAAAATAA
* * * *
23926496 AAAGAGGATATTGTGATACCACTGAAGGAAGTCCTTAGTCTTCTACACTGTCAGAGGTATCATGA
1 AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
* * *
23926561 TTCCAGGGGTTGATATCATGATACACTTGCCCTAGATACCGTTCTCGCTCGTTTTTAACCTCCAA
66 TTCCAAGGGTTGATATCATGACACACTTGCCCTAGATACCATTCTCGCTCGTTTTTAACCTCCAA
* *
23926626 CATGTCCTTACAGGATTTAAACACATGTTAGACCTCCCAATGGCGCTATCGGCCAATTTGAGTAA
131 CATGTCCTTACAGCATTTAAACACATGTTAGACCTCCCAATGGCGCTATCGACCAATTTGAGTAA
*
23926691 AAAATGAGACAAAAAGGTGACATTTTCACTTATTACCCAAGATTATTAAAATAA
196 AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCCAAGATTATTAAAATAA
23926745 TGAAAATAAC
Statistics
Matches: 226, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
248 2 0.01
249 224 0.99
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (249 bp):
AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
TTCCAAGGGTTGATATCATGACACACTTGCCCTAGATACCATTCTCGCTCGTTTTTAACCTCCAA
CATGTCCTTACAGCATTTAAACACATGTTAGACCTCCCAATGGCGCTATCGACCAATTTGAGTAA
AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCCAAGATTATTAAAATAA
Found at i:23927018 original size:26 final size:27
Alignment explanation
Indices: 23926963--23927027 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
23926953 AAAGCCTTAT
23926963 TAGAAGGGTATACATTTGAAAAAAAAA
1 TAGAAGGGTATACATTTGAAAAAAAAA
*
23926990 TAGAAGGGTATACATTTG-AAAAGAAA
1 TAGAAGGGTATACATTTGAAAAAAAAA
*
23927016 TAGAAGGATATA
1 TAGAAGGGTATA
23927028 GAAGAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 18 0.50
27 18 0.50
ACGTcount: A:0.52, C:0.03, G:0.22, T:0.23
Consensus pattern (27 bp):
TAGAAGGGTATACATTTGAAAAAAAAA
Found at i:23935956 original size:13 final size:13
Alignment explanation
Indices: 23935938--23935967 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23935928 GGTACACAAA
23935938 ACTTAGAACCTCC
1 ACTTAGAACCTCC
*
23935951 ACTTAGAATCTCC
1 ACTTAGAACCTCC
23935964 ACTT
1 ACTT
23935968 TTTCCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTAGAACCTCC
Found at i:23940343 original size:47 final size:44
Alignment explanation
Indices: 23940233--23940352 Score: 125
Period size: 47 Copynumber: 2.6 Consensus size: 44
23940223 TTATTTGTGT
*
23940233 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGAGA
* * *
23940279 GCCAATGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT---ACGAGA
*
23940327 GCTAGTGTAAGACATGTTTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
23940353 ACATTAGCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.07
46 10 0.16
47 25 0.41
48 22 0.36
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGAGA
Found at i:23953007 original size:17 final size:17
Alignment explanation
Indices: 23952985--23953019 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23952975 TTTGACTCGT
*
23952985 ATGCTTTGATGTAAGTG
1 ATGCTTCGATGTAAGTG
23953002 ATGCTTCGATGTAAGTG
1 ATGCTTCGATGTAAGTG
23953019 A
1 A
23953020 AAGCCTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (17 bp):
ATGCTTCGATGTAAGTG
Found at i:23960807 original size:35 final size:35
Alignment explanation
Indices: 23960749--23961590 Score: 1639
Period size: 35 Copynumber: 24.0 Consensus size: 35
23960739 AATCATATCT
23960749 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
23960786 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960821 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960856 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960891 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960926 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960961 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23960996 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961031 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961066 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961101 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961136 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961171 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961206 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961241 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961276 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961311 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961346 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961381 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961416 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961451 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961486 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
23961521 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
23961556 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
23961591 TGAAGATTAT
Statistics
Matches: 802, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
35 787 0.98
36 5 0.01
37 10 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:23976678 original size:25 final size:25
Alignment explanation
Indices: 23976649--23976726 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
23976639 TTAGGGATGG
23976649 AAATATGTATAAATTATGGTTGATC
1 AAATATGTATAAATTATGGTTGATC
*** *
23976674 AAATA--CCCAAATTATGGTTTATC
1 AAATATGTATAAATTATGGTTGATC
23976697 AAATATGTATAAATTATGGTTGATC
1 AAATATGTATAAATTATGGTTGATC
23976722 AAATA
1 AAATA
23976727 CCCAAATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 19 0.44
25 24 0.56
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (25 bp):
AAATATGTATAAATTATGGTTGATC
Found at i:23976686 original size:23 final size:23
Alignment explanation
Indices: 23976659--23976752 Score: 125
Period size: 23 Copynumber: 4.0 Consensus size: 23
23976649 AAATATGTAT
23976659 AAATTATGGTTGATCAAATACCC
1 AAATTATGGTTGATCAAATACCC
* ***
23976682 AAATTATGGTTTATCAAATATGTAT
1 AAATTATGGTTGATCAAATA--CCC
23976707 AAATTATGGTTGATCAAATACCC
1 AAATTATGGTTGATCAAATACCC
*
23976730 AAATTATGGTTTATCAAATACCC
1 AAATTATGGTTGATCAAATACCC
23976753 CCACACTTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
23 41 0.68
25 19 0.32
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (23 bp):
AAATTATGGTTGATCAAATACCC
Found at i:23976720 original size:48 final size:48
Alignment explanation
Indices: 23976649--23976749 Score: 202
Period size: 48 Copynumber: 2.1 Consensus size: 48
23976639 TTAGGGATGG
23976649 AAATATGTATAAATTATGGTTGATCAAATACCCAAATTATGGTTTATC
1 AAATATGTATAAATTATGGTTGATCAAATACCCAAATTATGGTTTATC
23976697 AAATATGTATAAATTATGGTTGATCAAATACCCAAATTATGGTTTATC
1 AAATATGTATAAATTATGGTTGATCAAATACCCAAATTATGGTTTATC
23976745 AAATA
1 AAATA
23976750 CCCCCACACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (48 bp):
AAATATGTATAAATTATGGTTGATCAAATACCCAAATTATGGTTTATC
Found at i:23982780 original size:21 final size:20
Alignment explanation
Indices: 23982743--23982785 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23982733 CTGCTCAAAG
*
23982743 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATC-CA
23982764 GAAGCCGGATTCA-CCATCCA
1 GAAGCC-GATTCATCCATCCA
23982784 GA
1 GA
23982786 CTGAAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCCA
Found at i:23987945 original size:49 final size:49
Alignment explanation
Indices: 23987867--23988050 Score: 242
Period size: 49 Copynumber: 3.7 Consensus size: 49
23987857 GTCACGTGTC
* *
23987867 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATGTG
* * * * * * *
23987916 TAGCACTAAGTGCAGGCTACTATGCGTACCCGAAAAATGTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAAT-TGGTCGCATGTG
* *
23987967 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATGTG
*
23988016 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
23988051 GCTTCGGCTA
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 69 0.61
50 7 0.06
51 37 0.33
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCATGTG
Found at i:23988031 original size:100 final size:100
Alignment explanation
Indices: 23987858--23988045 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
23987848 TATTGTGAGG
*
23987858 TCACGTGTCTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACT
1 TCACGTGTCTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
23987923 AAGTGCAGGCTACTATGCGTACCCGAAAAATGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAAATGTGA
* * *
23987958 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTCTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
23988023 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
23988046 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTCTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
AAGTGCAGGCTACTATGCGTACCCGAAAAATGTGA
Found at i:23988345 original size:41 final size:41
Alignment explanation
Indices: 23988300--23988382 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
23988290 AGTGTTGAAC
*
23988300 AGCAGCAGTGCATGACTTTGAAAATTCACTAAAAATTGTGT
1 AGCAGCAGTGCATGACTTTGAAAATTCACCAAAAATTGTGT
23988341 AGCAGCAGTGCATGACTTTGAAAATTCACCAAAAATTGTGT
1 AGCAGCAGTGCATGACTTTGAAAATTCACCAAAAATTGTGT
23988382 A
1 A
23988383 AGTTGAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCAGCAGTGCATGACTTTGAAAATTCACCAAAAATTGTGT
Found at i:23989880 original size:10 final size:10
Alignment explanation
Indices: 23989865--23989891 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
23989855 GATTGAACGT
23989865 TGAATGTTGA
1 TGAATGTTGA
23989875 TGAATGTTGA
1 TGAATGTTGA
23989885 TGAATGT
1 TGAATGT
23989892 CAATGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (10 bp):
TGAATGTTGA
Found at i:23990179 original size:17 final size:17
Alignment explanation
Indices: 23990157--23990189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23990147 AGATAACTGG
*
23990157 AAAGTGAGCATTAAATC
1 AAAGTGAACATTAAATC
23990174 AAAGTGAACATTAAAT
1 AAAGTGAACATTAAAT
23990190 GAGAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (17 bp):
AAAGTGAACATTAAATC
Found at i:23991130 original size:7 final size:6
Alignment explanation
Indices: 23991101--23991149 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
23991091 AAAAGTACTT
* * * *
23991101 TAAAGA TAAAAA TAAAGA TAAAAG TAAAAA TAGAAA TAATAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA-AAA TAAAAA
23991150 GTCTTTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:23999326 original size:16 final size:16
Alignment explanation
Indices: 23999303--23999340 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
23999293 GTCTTAAGAG
23999303 AAAT-AAATAAAACAA
1 AAATAAAATAAAACAA
*
23999318 AAATAAAATAAAATAA
1 AAATAAAATAAAACAA
23999334 AAATAAA
1 AAATAAA
23999341 TGGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAACAA
Found at i:24002069 original size:17 final size:17
Alignment explanation
Indices: 24002037--24002070 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24002027 ACGGTTAGAA
*
24002037 ATTTGAATTGATTAAAT
1 ATTTGAATTGAGTAAAT
*
24002054 ATTTGAATTTAGTAAAT
1 ATTTGAATTGAGTAAAT
24002071 TACTTTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTTGAATTGAGTAAAT
Found at i:24003890 original size:12 final size:12
Alignment explanation
Indices: 24003870--24003900 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24003860 CGTGTTATGG
*
24003870 CACATGGCCTAC
1 CACACGGCCTAC
24003882 CACACGGCCTAC
1 CACACGGCCTAC
24003894 CACACGG
1 CACACGG
24003901 TCGCCTAGTA
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:0.26, C:0.45, G:0.19, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:24004435 original size:31 final size:30
Alignment explanation
Indices: 24004393--24004459 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 30
24004383 AAAACAAGTC
*
24004393 AAAAGAGCAGGAATTTTTTTTTTAAAATCG
1 AAAAGAGCAGGAATGTTTTTTTTAAAATCG
24004423 AAAAGANGCAGGAATGTTTTTTTTAAAATCG
1 AAAAGA-GCAGGAATGTTTTTTTTAAAATCG
24004454 AAAAGA
1 AAAAGA
24004460 ATAAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.31
Consensus pattern (30 bp):
AAAAGAGCAGGAATGTTTTTTTTAAAATCG
Found at i:24006560 original size:24 final size:24
Alignment explanation
Indices: 24006528--24006598 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
24006518 CTGTCAGGAG
24006528 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24006552 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* **
24006576 AGGATTTAAGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24006599 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24008065 original size:27 final size:27
Alignment explanation
Indices: 24008027--24008135 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 27
24008017 AAGCATCCTA
* *
24008027 GTGGCTATGCCACAATTATTTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
24008054 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTCTGCCACA-ATTATCTGATCTG
*
24008081 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
* * *
24008109 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
24008135 G
1 G
24008136 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 18 0.25
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:24008130 original size:54 final size:54
Alignment explanation
Indices: 24008027--24008135 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
24008017 AAGCATCCTA
* * *
24008027 GTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * *
24008081 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
24008135 G
1 G
24008136 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:24008212 original size:33 final size:33
Alignment explanation
Indices: 24008165--24008230 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
24008155 TGTGGCGTGT
* *
24008165 AGCGGTTGGGTGGGTCGAGTAGTCTCCCTACAC
1 AGCGGTTGGATGGGTCGAGTAGTCTCCCCACAC
24008198 AGCGGTTGGATGGGTCGAGTAGTCTCCCCACAC
1 AGCGGTTGGATGGGTCGAGTAGTCTCCCCACAC
24008231 GGTGAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.23
Consensus pattern (33 bp):
AGCGGTTGGATGGGTCGAGTAGTCTCCCCACAC
Found at i:24023157 original size:30 final size:30
Alignment explanation
Indices: 24023121--24023180 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
24023111 GTATCGTATC
*
24023121 TTGGGTTTCTTTATTTTGGATTTCTTTATT
1 TTGGGTTTCTTTATCTTGGATTTCTTTATT
*
24023151 TTGGGTTTTTTTATCTTGGATTTCTTTATT
1 TTGGGTTTCTTTATCTTGGATTTCTTTATT
24023181 CGGTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (30 bp):
TTGGGTTTCTTTATCTTGGATTTCTTTATT
Found at i:24023190 original size:14 final size:15
Alignment explanation
Indices: 24023121--24023180 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
24023111 GTATCGTATC
*
24023121 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
24023136 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * *
24023151 TTGGGTTTTTTTATC
1 TTGGATTTCTTTATT
24023166 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
24023181 CGGTTTTCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:24023875 original size:42 final size:41
Alignment explanation
Indices: 24023816--24023898 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
24023806 TGTAATATCC
* *
24023816 CGAATTAGGGCCTAATCGGAAGAGTGGTTTTGTGACCACAA
1 CGAATTAGGGCCTAATCGGAAGAGTAGTTTCGTGACCACAA
24023857 NCGAATTAGGGCCTAATCGGAAGAGTAGTTTCGTGACCACAA
1 -CGAATTAGGGCCTAATCGGAAGAGTAGTTTCGTGACCACAA
24023899 ATTCGAGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (41 bp):
CGAATTAGGGCCTAATCGGAAGAGTAGTTTCGTGACCACAA
Found at i:24025491 original size:51 final size:49
Alignment explanation
Indices: 24025366--24025504 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 49
24025356 TATTGTGAAG
* * * *
24025366 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGA
* * *
24025415 TCGCATGTGTAGTACTAAGTGCAGGCTCCTATGTGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAA-T-TGA
* * *
24025466 TCATGTGTGTAGTACTAAGTACAGGCTACTATGCGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
24025505 AGATAGCTTC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 39 0.52
50 1 0.01
51 35 0.47
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGA
Found at i:24029133 original size:12 final size:12
Alignment explanation
Indices: 24029116--24029140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24029106 CTAATATGTA
24029116 TGTATGTTGTTG
1 TGTATGTTGTTG
24029128 TGTATGTTGTTG
1 TGTATGTTGTTG
24029140 T
1 T
24029141 TTTTTTTTTT
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:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (12 bp):
TGTATGTTGTTG
Found at i:24029133 original size:16 final size:15
Alignment explanation
Indices: 24029112--24029141 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
24029102 ATTACTAATA
24029112 TGTATGTATGTTGTTG
1 TGTATGT-TGTTGTTG
24029128 TGTATGTTGTTGTT
1 TGTATGTTGTTGTT
24029142 TTTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (15 bp):
TGTATGTTGTTGTTG
Found at i:24034519 original size:25 final size:25
Alignment explanation
Indices: 24034491--24034548 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
24034481 TTTTAGTCCT
*
24034491 TTTATTTCTTTTAAAAATTT-TATAA
1 TTTATTTATTTTAAAAATTTATAT-A
24034516 TTTATTTATTTTAAAAATTTATATA
1 TTTATTTATTTTAAAAATTTATATA
24034541 TATTATTT
1 T-TTATTT
24034549 TTATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTTATTTTAAAAATTTATATA
Found at i:24034555 original size:17 final size:17
Alignment explanation
Indices: 24034535--24034591 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
24034525 TTTAAAAATT
24034535 TATATATATTATTTTTA
1 TATATATATTATTTTTA
*
24034552 TATAAATATTATTTTTA
1 TATATATATTATTTTTA
*
24034569 TATATCAT-TTCATATTTA
1 TATAT-ATATT-ATTTTTA
24034587 TATAT
1 TATAT
24034592 TTTTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATATATTATTTTTA
Found at i:24034563 original size:26 final size:24
Alignment explanation
Indices: 24034491--24034563 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
24034481 TTTTAGTCCT
* *
24034491 TTTATTTCTTTTAAAAATTTTATAA
1 TTTATTTATTATAAAAA-TTTATAA
*
24034516 TTTATTTATTTTAAAAATTTATATA
1 TTTATTTATTATAAAAATTTATA-A
*
24034541 TATTATTT-TTATATAAATATTAT
1 T-TTATTTATTATAAAAAT-TTAT
24034564 TTTTATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.14
25 26 0.62
26 10 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATTTATTATAAAAATTTATAA
Found at i:24039694 original size:13 final size:12
Alignment explanation
Indices: 24039665--24039693 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24039655 AGATATATTG
24039665 AAAAATTTTAAA
1 AAAAATTTTAAA
24039677 AAAAATTTTAAA
1 AAAAATTTTAAA
24039689 AAAAA
1 AAAAA
24039694 ACTCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAAATTTTAAA
Found at i:24042930 original size:45 final size:45
Alignment explanation
Indices: 24042824--24042933 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
24042814 TACGTCTTCG
* * * *
24042824 ATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGG
1 ATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGA
*
24042869 ATCTACTCCCCGTCCATTGCAGAGAGATAAGATCTGTCATCTTGA
1 ATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGA
24042914 ATCTACTCCCCGTCCATTAC
1 ATCTACTCCCCGTCCATTAC
24042934 TCCCCGTCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (45 bp):
ATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGA
Found at i:24042934 original size:14 final size:14
Alignment explanation
Indices: 24042917--24042947 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24042907 ATCTTGAATC
24042917 TACTCCCCGTCCAT
1 TACTCCCCGTCCAT
24042931 TACTCCCCGTCCAT
1 TACTCCCCGTCCAT
24042945 TAC
1 TAC
24042948 AGAGAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.48, G:0.06, T:0.29
Consensus pattern (14 bp):
TACTCCCCGTCCAT
Found at i:24042964 original size:59 final size:59
Alignment explanation
Indices: 24042872--24042992 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
24042862 ATCTTGGATC
*
24042872 TACTCCCCGTCCATTGCAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCAT
1 TACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCAT
24042931 TACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCAT
1 TACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCAT
24042990 TAC
1 TAC
24042993 GGAGAGATAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (59 bp):
TACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCAT
Found at i:24043014 original size:45 final size:45
Alignment explanation
Indices: 24042931--24043016 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
24042921 CCCCGTCCAT
***
24042931 TACTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATC
1 TACTCCCCGTCCATTACAGAGAGATAAGATCCACCATCTTGAATC
*
24042976 TACTCCCCGTCCATTACGGAGAGATAAGATCCACCATCTTG
1 TACTCCCCGTCCATTACAGAGAGATAAGATCCACCATCTTG
24043017 GATTTGCCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (45 bp):
TACTCCCCGTCCATTACAGAGAGATAAGATCCACCATCTTGAATC
Found at i:24043014 original size:104 final size:104
Alignment explanation
Indices: 24042829--24043016 Score: 304
Period size: 104 Copynumber: 1.8 Consensus size: 104
24042819 CTTCGATCTG
* * *
24042829 CTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTGCAGAGA
1 CTCCCCGTCCAATACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACAGAGA
***
24042894 GATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTA
66 GATAAGATCCACCATCTTGAATCTACTCCCCGTCCATTA
* *
24042933 CTCCCCGTCCATTACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGA
1 CTCCCCGTCCAATACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACAGAGA
24042998 GATAAGATCCACCATCTTG
66 GATAAGATCCACCATCTTG
24043017 GATTTGCCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 76 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (104 bp):
CTCCCCGTCCAATACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACAGAGA
GATAAGATCCACCATCTTGAATCTACTCCCCGTCCATTA
Found at i:24043096 original size:82 final size:82
Alignment explanation
Indices: 24043010--24043185 Score: 266
Period size: 82 Copynumber: 2.1 Consensus size: 82
24043000 TAAGATCCAC
* * *
24043010 CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGA-TATGTCTTTGATCTGCTCTCC-GTCGAAT
1 CATCTTGGATCTGCCCCGATGAAGGTCAGATCT-ACTATGTCTTCGATCTGCTC-CCTGTCAAAT
24043073 ACAGAGAGATAAGATATGT
64 ACAGAGAGATAAGATATGT
*
24043092 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCTGTTCCCTGTCAAATAC
1 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCTGTCAAATAC
*
24043157 AGAGAGATAAGATCTGT
66 AGAGAGATAAGATATGT
*
24043174 CATCTTGAATCT
1 CATCTTGGATCT
24043186 ACTCCCCGTC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
81 3 0.03
82 83 0.97
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (82 bp):
CATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCTGTCAAATAC
AGAGAGATAAGATATGT
Found at i:24043195 original size:127 final size:127
Alignment explanation
Indices: 24043043--24043312 Score: 352
Period size: 127 Copynumber: 2.1 Consensus size: 127
24043033 GGTCAGATCT
* * * ***
24043043 GATATGTC-T-TTG-ATCTGCTCTCCGTCGAATACAGAGAGATAAGATATGTCATCTTGGATCTG
1 GATATGTCATCTTGAATCTACTCCCCGTCCAATACAGAGAGATAAGATACACCATCTTGGATCTG
*
24043105 CCCCGATGAAGGTCAGATCT-ACTATGTCTTCGATCTGTTC-CCTGTCAAATACAGAGAGATAA
66 CCCCGATGAAGGTCAGATCTGA-TATGTCTTCGATCTGCTCTCC-GTCAAATACAGAGAGATAA
* * * * *
24043167 GATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCACCATCTTGGATTTG
1 GATATGTCATCTTGAATCTACTCCCCGTCCAATACAGAGAGATAAGATACACCATCTTGGATCTG
* *
24043232 CCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATACAGAGAGATAA
66 CCCCGATGAAGGTCAGATCTGATATGTCTTCGATCTGCTCTCCGTCAAATACAGAGAGATAA
*
24043294 GATATGTCATCTTGGATCT
1 GATATGTCATCTTGAATCT
24043313 GCCCCGATGA
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
124 7 0.06
125 1 0.01
126 3 0.02
127 111 0.89
128 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (127 bp):
GATATGTCATCTTGAATCTACTCCCCGTCCAATACAGAGAGATAAGATACACCATCTTGGATCTG
CCCCGATGAAGGTCAGATCTGATATGTCTTCGATCTGCTCTCCGTCAAATACAGAGAGATAA
Found at i:24043305 original size:82 final size:82
Alignment explanation
Indices: 24043203--24044216 Score: 1879
Period size: 82 Copynumber: 12.4 Consensus size: 82
24043193 GTCCATTACG
*** * * *
24043203 GAGAGATAAGATCCACCATCTTGGATTTGCCCCGATGAAGGTCAGATCTGA-TATGTCTTTGATC
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCT-ACTATGTCTTCGATC
24043267 TGCTCTCC-GTCGAATACA
65 TGCTC-CCTGTCGAATACA
*
24043285 GAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043350 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043367 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043432 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043449 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043514 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043531 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043596 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043613 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043678 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043695 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043760 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043777 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043842 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043859 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24043924 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
24043941 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
24044006 GCTCCCTGTCGAATACA
66 GCTCCCTGTCGAATACA
*
24044023 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
* *
24044088 GTTCCCTGTCAAATACA
66 GCTCCCTGTCGAATACA
*
24044105 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATCT
1 GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
* *
24044170 GTTCCCTGTCAAATACA
66 GCTCCCTGTCGAATACA
24044187 GAGAGATAAGATCTGTCATCTTGGATCTGC
1 GAGAGATAAGATCTGTCATCTTGGATCTGC
24044217 TCCCCATCTA
Statistics
Matches: 919, Mismatches: 11, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
81 3 0.00
82 916 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (82 bp):
GAGAGATAAGATCTGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATCT
GCTCCCTGTCGAATACA
Found at i:24043305 original size:209 final size:209
Alignment explanation
Indices: 24042945--24043394 Score: 864
Period size: 209 Copynumber: 2.2 Consensus size: 209
24042935 CCCCGTCCAT
24042945 TACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCAC
1 TACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCAC
24043010 CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATAC
66 CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATAC
*
24043075 AGAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAGATCTACTATGTCTTCGATC
131 AGAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATC
*
24043140 TGTTCCCTGTCAAA
196 TGCTCCCTGTCAAA
24043154 TACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCAC
1 TACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCAC
24043219 CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATAC
66 CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATAC
24043284 AGAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATC
131 AGAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATC
*
24043349 TGCTCCCTGTCGAA
196 TGCTCCCTGTCAAA
*
24043363 TACAGAGAGATAAGATCTGTCATCTTGGATCT
1 TACAGAGAGATAAGATCTGTCATCTTGAATCT
24043395 GCCCCGATGA
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 237 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (209 bp):
TACAGAGAGATAAGATCTGTCATCTTGAATCTACTCCCCGTCCATTACGGAGAGATAAGATCCAC
CATCTTGGATTTGCCCCGATGAAGGTCAGATCTGATATGTCTTTGATCTGCTCTCCGTCGAATAC
AGAGAGATAAGATATGTCATCTTGGATCTGCCCCGATGAAGGTCAAATCTACTATGTCTTCGATC
TGCTCCCTGTCAAA
Found at i:24044133 original size:45 final size:46
Alignment explanation
Indices: 24044066--24044296 Score: 166
Period size: 45 Copynumber: 5.2 Consensus size: 46
24044056 GATGAAGGTC
24044066 AGATCTACTATGTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
1 AGATCTACTAT-TCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
* * * * *
24044113 AGATCT-GTCA-TCTTGGATCTG--CCC---C-GAT---GA-AGGTC
1 AGATCTACT-ATTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
24044148 AGATCTACTATGTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
1 AGATCTACTAT-TCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
* * * ** * *
24044195 AGATCT-GTCA-TCTTGGATCTGCTCCCCATCTATTACAGAGAGATA
1 AGATCTACT-ATTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
* ** * * *
24044240 AGATCTACTATTTTTTTATATGTTCCCTGTCGAATACAGAGAAATA
1 AGATCTACTATTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
24044286 AGATCTACTAT
1 AGATCTACTAT
24044297 CTTTAACTTG
Statistics
Matches: 139, Mismatches: 28, Indels: 35
0.69 0.14 0.17
Matches are distributed among these distances:
35 10 0.07
36 3 0.02
37 10 0.07
39 5 0.04
40 1 0.01
42 1 0.01
43 5 0.04
45 46 0.33
46 41 0.29
47 17 0.12
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (46 bp):
AGATCTACTATTCTTCGATCTGTTCCCTGTCAAATACAGAGAGATA
Found at i:24048712 original size:36 final size:36
Alignment explanation
Indices: 24048664--24048738 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
24048654 TAAAATGATA
*
24048664 TCCAGCACCTTTAATGTTTCTTGAGAGCTTTTAGAT
1 TCCAGCACCTTTAATGTTTCTTGAGAGCTTTCAGAT
*
24048700 TCCAGCATCTTTAATGTTTCTTGAGAGCTTTCAGAT
1 TCCAGCACCTTTAATGTTTCTTGAGAGCTTTCAGAT
24048736 TCC
1 TCC
24048739 TGTCTACGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TCCAGCACCTTTAATGTTTCTTGAGAGCTTTCAGAT
Found at i:24057063 original size:18 final size:17
Alignment explanation
Indices: 24057005--24057063 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
24056995 CAGTCAGTCA
*
24057005 TCAGTAATAATCAGTTAT
1 TCAGTAATAGTCA-TTAT
24057023 TCAGTAACT-GTCATTGA-
1 TCAGTAA-TAGTCATT-AT
24057040 TCAGTAATAGTCGATTAT
1 TCAGTAATAGTC-ATTAT
24057058 TCAGTA
1 TCAGTA
24057064 GCGGTCAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 13 0.37
18 20 0.57
19 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (17 bp):
TCAGTAATAGTCATTAT
Found at i:24057080 original size:35 final size:35
Alignment explanation
Indices: 24057004--24057070 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
24056994 ACAGTCAGTC
*
24057004 ATCAGTAATAATCAGTTATTCAGTAACTGTCATTG
1 ATCAGTAATAATCAGTTATTCAGTAACGGTCATTG
* *
24057039 ATCAGTAATAGTC-GATTATTCAGTAGCGGTCA
1 ATCAGTAATAATCAG-TTATTCAGTAACGGTCA
24057071 ATTTTCAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (35 bp):
ATCAGTAATAATCAGTTATTCAGTAACGGTCATTG
Found at i:24058963 original size:68 final size:68
Alignment explanation
Indices: 24058854--24058988 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
24058844 AAGAGAAATT
24058854 TAGATAATTCCACTTTAGTCCTAACTTTATTAAGTAAATTTTGCAATATTCCAATTTTACCCTTA
1 TAGATAATTCCACTTTAGTCCTAACTTTATTAAGTAAATTTTGCAATATTCCAATTTTACCCTTA
24058919 ATC
66 ATC
* * *
24058922 TAGATAATTTCACTTTAGTCCTAGCTTTATTAAGTAAATTTTGCAATATTCTAATTTTACCCTTA
1 TAGATAATTCCACTTTAGTCCTAACTTTATTAAGTAAATTTTGCAATATTCCAATTTTACCCTTA
24058987 AT
66 AT
24058989 TCTCCTTATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (68 bp):
TAGATAATTCCACTTTAGTCCTAACTTTATTAAGTAAATTTTGCAATATTCCAATTTTACCCTTA
ATC
Found at i:24060310 original size:51 final size:51
Alignment explanation
Indices: 24060253--24060355 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
24060243 AAATATTCTG
*
24060253 TATAAGCTTCTGAATTCTTCGGTACAACTTCTATTTCTAAATAGCAAACAA
1 TATAAGCTTCTGAATTCTTCGGTACAACTTCTATTTCCAAATAGCAAACAA
*
24060304 TATAAGCTTCTGAATTCTTTGGTACAACTTCTATTTCCAAATAGCAAACAA
1 TATAAGCTTCTGAATTCTTCGGTACAACTTCTATTTCCAAATAGCAAACAA
24060355 T
1 T
24060356 CATCGGATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (51 bp):
TATAAGCTTCTGAATTCTTCGGTACAACTTCTATTTCCAAATAGCAAACAA
Found at i:24065003 original size:17 final size:17
Alignment explanation
Indices: 24064976--24065028 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
24064966 GTAATAATCA
24064976 ATTATTCAGTAACGGTC
1 ATTATTCAGTAACGGTC
*
24064993 ATTGA-TCAGTAACAGTC
1 ATT-ATTCAGTAACGGTC
*
24065010 GATTATTCAGTAGCGGTC
1 -ATTATTCAGTAACGGTC
24065028 A
1 A
24065029 ATTTTCCGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (17 bp):
ATTATTCAGTAACGGTC
Found at i:24067662 original size:42 final size:42
Alignment explanation
Indices: 24067561--24067725 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
24067551 AACATATACA
* * * * *
24067561 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCTCAGACAG-GGTCTTACACGAAATCAGA-AGCG
* *
24067604 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAATGTCTCAGACAGGGTCTTACACGAAATCAGA-AGCG
** * * *
24067646 ATGCTGATGTCTCAGACATGGTCTTACACATAAAACAGAAGTCG
1 ATGCCAATGTCTCAGACAGGGTCTTACAC-GAAATCAGAAG-CG
*
24067690 ATGCCAACGTCTCAGAC-GTGGTCTTACACGAAATCA
1 ATGCCAATGTCTCAGACAG-GGTCTTACACGAAATCA
24067726 CATAACGAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.27
43 45 0.45
44 27 0.27
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCTCAGACAGGGTCTTACACGAAATCAGAAGCG
Found at i:24069531 original size:26 final size:26
Alignment explanation
Indices: 24069481--24069533 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
24069471 GATACAGATC
24069481 CAGATTCAGATATCAAATTACAAAAT
1 CAGATTCAGATATCAAATTACAAAAT
*
24069507 CAGATTCAGATATCATATTACAAAAT
1 CAGATTCAGATATCAAATTACAAAAT
24069533 C
1 C
24069534 CTCTACACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (26 bp):
CAGATTCAGATATCAAATTACAAAAT
Found at i:24069956 original size:18 final size:18
Alignment explanation
Indices: 24069933--24069977 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24069923 TTCAGTAAAA
*
24069933 TGGGCCTACATGCCCGTG
1 TGGGCCCACATGCCCGTG
* *
24069951 TGGGCCCACATTCTCGTG
1 TGGGCCCACATGCCCGTG
24069969 T-GGCCCACA
1 TGGGCCCACA
24069978 CGGCCTAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.13, C:0.36, G:0.29, T:0.22
Consensus pattern (18 bp):
TGGGCCCACATGCCCGTG
Found at i:24070468 original size:17 final size:17
Alignment explanation
Indices: 24070446--24070483 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24070436 TACATTTATA
*
24070446 CATTCACACTCAAAATC
1 CATTCACACTCAAAACC
*
24070463 CATTCATACTCAAAACC
1 CATTCACACTCAAAACC
24070480 CATT
1 CATT
24070484 TAAAACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.26
Consensus pattern (17 bp):
CATTCACACTCAAAACC
Found at i:24070647 original size:19 final size:19
Alignment explanation
Indices: 24070623--24070660 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24070613 ATACGCCCAC
24070623 GTGAACAGGCCGTGTGACA
1 GTGAACAGGCCGTGTGACA
24070642 GTGAACAGGCCGTGTGACA
1 GTGAACAGGCCGTGTGACA
24070661 CCAGACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.37, T:0.16
Consensus pattern (19 bp):
GTGAACAGGCCGTGTGACA
Found at i:24072035 original size:40 final size:40
Alignment explanation
Indices: 24071963--24072079 Score: 148
Period size: 40 Copynumber: 2.9 Consensus size: 40
24071953 ACTACCTCTC
*
24071963 ATAGCCGAAGCTATCTCAGTCTA-GCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTC-G-ATACGCACACTAAGTGCCATAT
* * * **
24072004 ATAGTCGAAGCTATTTCGATTCGCACACTAAGTGCTTTAT
1 ATAGCCGAAGCTATCTCGATACGCACACTAAGTGCCATAT
24072044 ATAGCCGAAGCTATCTCGATACGCACAC-AAGTGCCA
1 ATAGCCGAAGCTATCTCGATACGCACACTAAGTGCCA
24072080 AACATAATCA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 7 0.11
40 42 0.66
41 15 0.23
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCGATACGCACACTAAGTGCCATAT
Found at i:24081049 original size:16 final size:18
Alignment explanation
Indices: 24081028--24081065 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
24081018 CGAGCACTTA
*
24081028 TTATCTA-ATTCAAA-TT
1 TTATCTACATTAAAAGTT
24081044 TTATCTACATTAAAAGTT
1 TTATCTACATTAAAAGTT
24081062 TTAT
1 TTAT
24081066 GCATCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATCTACATTAAAAGTT
Found at i:24084445 original size:14 final size:14
Alignment explanation
Indices: 24084426--24084454 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24084416 TGTGTTAGTT
24084426 CGTAAGTCATCTTA
1 CGTAAGTCATCTTA
24084440 CGTAAGTCATCTTA
1 CGTAAGTCATCTTA
24084454 C
1 C
24084455 TCTTCAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (14 bp):
CGTAAGTCATCTTA
Found at i:24086982 original size:23 final size:21
Alignment explanation
Indices: 24086948--24086997 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
24086938 AATACTAATA
24086948 TTTACAGAAAATCACAAAAACCT
1 TTTA-AGAAAATCACAAAAA-CT
* *
24086971 TTTAAGAGAAATTACTAAAACT
1 TTTAAGA-AAATCACAAAAACT
24086993 TTTAA
1 TTTAA
24086998 TGCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (21 bp):
TTTAAGAAAATCACAAAAACT
Found at i:24087694 original size:24 final size:24
Alignment explanation
Indices: 24087667--24087715 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
24087657 TTGAACAGCT
24087667 ACATCATTTCAACTTCAAGCTTCA
1 ACATCATTTCAACTTCAAGCTTCA
*
24087691 ACATCATTTCAACTTCTAGCTTCA
1 ACATCATTTCAACTTCAAGCTTCA
24087715 A
1 A
24087716 TTTGTTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (24 bp):
ACATCATTTCAACTTCAAGCTTCA
Found at i:24089029 original size:84 final size:84
Alignment explanation
Indices: 24088877--24089033 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
24088867 AGAAACTAAA
* * * * * * **
24088877 ACTTTCTTGCGATTCAGAGTTCTCGTCCGGTGGAGATTCATATTCATCTGAACTTTCTTTAATGT
1 ACTTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAACTTTCATAAACAT
24088942 AGGAATCCTTATGATTTTC
66 AGGAATCCTTATGATTTTC
* * * *
24088961 ACTTTCTTGTGATTCGGAGCTCTCATCATGTGGAGATTCATATGCATCTG-AGTTTCCATAAACA
1 ACTTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAACTTT-CATAAACA
24089025 TAGGAATCC
65 TAGGAATCC
24089034 CCTGAAACTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
83 4 0.07
84 56 0.93
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (84 bp):
ACTTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAACTTTCATAAACAT
AGGAATCCTTATGATTTTC
Found at i:24096027 original size:170 final size:170
Alignment explanation
Indices: 24095745--24096083 Score: 642
Period size: 170 Copynumber: 2.0 Consensus size: 170
24095735 CATGCCATAG
*
24095745 TTTAAACATTTTGAAAAGCACATAATACCGAGATGGTTATGATAGTGTGATACGAGCTCCGACGG
1 TTTAAACATTTTGAAAAGCACATAATACCGAGATGGTTATGATAGTGTGATACGAGCTCCGACAG
* *
24095810 TCCACTATTCGATCAAGTTCAAATCACTATAAAACAAAGGAAAGAAAGAGATGTGTAAGCTATAA
66 TCCACTATTCGATAAAGTTCAAATCACTATAAAACAAAGGAAAGAAAGAAATGTGTAAGCTATAA
24095875 ATAGCTTAGTAAGTTACATGTAAACAATAATTACTCAATA
131 ATAGCTTAGTAAGTTACATGTAAACAATAATTACTCAATA
24095915 TTTAAACATTTTGAAAAGCACATAATACCGAGATGGTTATGATAGTGTGATACGAGCTCCGACAG
1 TTTAAACATTTTGAAAAGCACATAATACCGAGATGGTTATGATAGTGTGATACGAGCTCCGACAG
*
24095980 TCCACTATTTGATAAAGTTCAAATCACTATAAAACAAAGGAAAGAAAGAAATGTGTAAGCTATAA
66 TCCACTATTCGATAAAGTTCAAATCACTATAAAACAAAGGAAAGAAAGAAATGTGTAAGCTATAA
24096045 ATAGCTTAGTAAGTTACATGTAAACAATAATTACTCAAT
131 ATAGCTTAGTAAGTTACATGTAAACAATAATTACTCAAT
24096084 TAATAATTAA
Statistics
Matches: 165, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 165 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (170 bp):
TTTAAACATTTTGAAAAGCACATAATACCGAGATGGTTATGATAGTGTGATACGAGCTCCGACAG
TCCACTATTCGATAAAGTTCAAATCACTATAAAACAAAGGAAAGAAAGAAATGTGTAAGCTATAA
ATAGCTTAGTAAGTTACATGTAAACAATAATTACTCAATA
Found at i:24096308 original size:23 final size:23
Alignment explanation
Indices: 24096282--24096379 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
24096272 ATAAGTGCCA
24096282 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24096305 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
24096328 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24096350 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24096373 CACTGAT
1 CACTGAT
24096380 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24096347 original size:45 final size:45
Alignment explanation
Indices: 24096289--24096377 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
24096279 CCACACTGAT
* *
24096289 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
24096334 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
24096378 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:24096610 original size:75 final size:75
Alignment explanation
Indices: 24096528--24096675 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
24096518 CTATTCCTAA
24096528 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACCTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACCTGAATAATTCATGAA
24096593 CAACTTTCAT
66 CAACTTTCAT
*
24096603 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACCTGAATAATTCATGAA
24096668 CAACTTTC
66 CAACTTTC
24096676 CTTCCACATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACCTGAATAATTCATGAA
CAACTTTCAT
Found at i:24101870 original size:23 final size:23
Alignment explanation
Indices: 24101841--24101938 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
24101831 ATAAGTGCCA
24101841 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24101864 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
24101887 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24101909 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24101932 CACTGAT
1 CACTGAT
24101939 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24101906 original size:45 final size:45
Alignment explanation
Indices: 24101848--24101936 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
24101838 CCACACTGAT
* *
24101848 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
24101893 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
24101937 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:24102169 original size:75 final size:75
Alignment explanation
Indices: 24102087--24102309 Score: 437
Period size: 75 Copynumber: 3.0 Consensus size: 75
24102077 CTATTCCTAA
*
24102087 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACCTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
24102152 CAACTTTCAT
66 CAACTTTCAT
24102162 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
24102227 CAACTTTCAT
66 CAACTTTCAT
24102237 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
1 GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
24102302 CAACTTTC
66 CAACTTTC
24102310 CTTCCACATT
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 147 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (75 bp):
GTTCAACCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAA
CAACTTTCAT
Found at i:24103794 original size:7 final size:7
Alignment explanation
Indices: 24103739--24103793 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
24103729 CGTTTGTATT
24103739 ATTTTTA
1 ATTTTTA
24103746 ATTTTTA
1 ATTTTTA
24103753 ATTTTTA
1 ATTTTTA
24103760 ATTTTTA
1 ATTTTTA
*
24103767 ATTTTAA
1 ATTTTTA
*
24103774 ATTTAATA
1 ATTT-TTA
24103782 ATTTTT-
1 ATTTTTA
24103788 ATTTTT
1 ATTTTT
24103794 TTATTCATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
6 6 0.14
7 32 0.74
8 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:24108543 original size:13 final size:13
Alignment explanation
Indices: 24108521--24108601 Score: 90
Period size: 13 Copynumber: 6.2 Consensus size: 13
24108511 CTAGTTTAGC
24108521 AATATTTTTAAAA
1 AATATTTTTAAAA
*
24108534 AATGTTTTTAAAA
1 AATATTTTTAAAA
* * *
24108547 AGTATTATGAAAA
1 AATATTTTTAAAA
* *
24108560 AATATTATGAAAA
1 AATATTTTTAAAA
*
24108573 AATATTTTTTAAA
1 AATATTTTTAAAA
*
24108586 AATATTTTTTAAA
1 AATATTTTTAAAA
24108599 AAT
1 AAT
24108602 TTGGTTTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
AATATTTTTAAAA
Found at i:24108586 original size:12 final size:12
Alignment explanation
Indices: 24108571--24108613 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
24108561 ATATTATGAA
24108571 AAAATATTTTTT
1 AAAATATTTTTT
24108583 AAAAATATTTTTT
1 -AAAATATTTTTT
24108596 AAAA-ATTTGGTTT
1 AAAATATTT--TTT
24108609 AAAAT
1 AAAAT
24108614 TTGGGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 19 0.70
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:24109415 original size:16 final size:18
Alignment explanation
Indices: 24109384--24109420 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
24109374 GTTTTTCATT
*
24109384 TAAATATTTTATAATTTA
1 TAAATATTTTATAATTAA
24109402 TAAA-ATTTTA-AATTAA
1 TAAATATTTTATAATTAA
24109418 TAA
1 TAA
24109421 TAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATTTTATAATTAA
Found at i:24110348 original size:24 final size:25
Alignment explanation
Indices: 24110301--24110351 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24110291 TAATTGTTTA
* *
24110301 AAAAAACATATTTAATATTTAATAT
1 AAAAAACAGATTTAATATTAAATAT
*
24110326 AAAAAAGAGATTTAAT-TTAAATAT
1 AAAAAACAGATTTAATATTAAATAT
24110350 AA
1 AA
24110352 TTTAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAACAGATTTAATATTAAATAT
Found at i:24112902 original size:59 final size:58
Alignment explanation
Indices: 24112800--24112916 Score: 132
Period size: 59 Copynumber: 2.0 Consensus size: 58
24112790 ACCTTTTTCT
*
24112800 TTTTGTCCAAGTTAGGCCCTGAACTAGGCAACTGTTTCTATATTAGAGCTTGAACTTTG
1 TTTTGTCCAAGTTAGGCCCTGAACTAGGCAACTGTTTCTATATT-GAGCCTGAACTTTG
** * *
24112859 TTTTGTCCAAGTT-GGTCTTTGAACTGGGCAA-T-TATTCTCATATTGGGCCTGAACTTTG
1 TTTTGTCCAAGTTAGG-CCCTGAACTAGGCAACTGT-TTCT-ATATTGAGCCTGAACTTTG
24112917 CAATTTTTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 19 0.38
59 30 0.60
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (58 bp):
TTTTGTCCAAGTTAGGCCCTGAACTAGGCAACTGTTTCTATATTGAGCCTGAACTTTG
Found at i:24114621 original size:25 final size:25
Alignment explanation
Indices: 24114593--24114643 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24114583 AGCCAAATAG
24114593 AAAGAATATAAGAGATATACAAGGT
1 AAAGAATATAAGAGATATACAAGGT
24114618 AAAGAATATAAGAGATATACAAGGT
1 AAAGAATATAAGAGATATACAAGGT
24114643 A
1 A
24114644 CTGGCTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAGAATATAAGAGATATACAAGGT
Found at i:24118407 original size:29 final size:29
Alignment explanation
Indices: 24118362--24118417 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
24118352 TTTATTCTTT
* *
24118362 TTTAATAGTATAGGGACTAAATTGATCCA
1 TTTAATAATATAAGGACTAAATTGATCCA
*
24118391 TTTAATAATATAAGGACTAATTTGATC
1 TTTAATAATATAAGGACTAAATTGATC
24118418 AAATTCCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (29 bp):
TTTAATAATATAAGGACTAAATTGATCCA
Found at i:24125297 original size:125 final size:125
Alignment explanation
Indices: 24125075--24125324 Score: 473
Period size: 125 Copynumber: 2.0 Consensus size: 125
24125065 CAATGGACCT
*
24125075 TCCACTTTCACGAGACGTTGCTTCATCAAGCTTTCACCTATTGTAGAGAGTTTCTCATTGTCGCC
1 TCCACTTTCACGAGACGTTGCTTCATCAAGCTTTCACCTATTGTAGAGAGTTTCCCATTGTCGCC
*
24125140 TCCCGCAAGAGTTCGGCCATGTCTCAATCCCATTAAGCCCCATGTTGAATAAGAAACGAA
66 TCCCGCAAGAGTTCGGCCATGTCTCAATCCCATTAAGCCCCATGTTGAACAAGAAACGAA
24125200 TCCACTTTCACGAGACGTTGCTTCATCAAGCTTTCACCTATTGTAGAGAGTTTCCCATTGTCGCC
1 TCCACTTTCACGAGACGTTGCTTCATCAAGCTTTCACCTATTGTAGAGAGTTTCCCATTGTCGCC
*
24125265 TCCCGCAAGAGTTTGGCCATGTCTCAATCCCATTAAGCCCCATGTTGAACAAGAAACGAA
66 TCCCGCAAGAGTTCGGCCATGTCTCAATCCCATTAAGCCCCATGTTGAACAAGAAACGAA
24125325 CCCAAAATCA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (125 bp):
TCCACTTTCACGAGACGTTGCTTCATCAAGCTTTCACCTATTGTAGAGAGTTTCCCATTGTCGCC
TCCCGCAAGAGTTCGGCCATGTCTCAATCCCATTAAGCCCCATGTTGAACAAGAAACGAA
Found at i:24134056 original size:41 final size:41
Alignment explanation
Indices: 24134010--24134091 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
24134000 TTGTATCCTT
* *
24134010 TTTTAATTTGGTTCTTAT-ATTTTAGTTAAATTTGGGTATTA
1 TTTTAATTTGGCTCTT-TCATTTTAGTTAAATTTGGATATTA
*
24134051 TTTTAATTTGGCTCTTTCTTTTTAGTTAAATTTGGATATTA
1 TTTTAATTTGGCTCTTTCATTTTAGTTAAATTTGGATATTA
24134092 ATCTTCCGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (41 bp):
TTTTAATTTGGCTCTTTCATTTTAGTTAAATTTGGATATTA
Found at i:24145099 original size:24 final size:24
Alignment explanation
Indices: 24145070--24145121 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
24145060 CAACTACTGT
24145070 GTTAGCAAGTGTTATTTGAAATAG
1 GTTAGCAAGTGTTATTTGAAATAG
24145094 GTTAGCAAGTGTTATTTGAAATAG
1 GTTAGCAAGTGTTATTTGAAATAG
24145118 GTTA
1 GTTA
24145122 TATTTCGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
GTTAGCAAGTGTTATTTGAAATAG
Found at i:24147379 original size:18 final size:18
Alignment explanation
Indices: 24147358--24147405 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
24147348 GAATTATAAA
24147358 TATTTTGATTTTAAAAAT
1 TATTTTGATTTTAAAAAT
* * * *
24147376 TATTCTGAATTTGAAGAT
1 TATTTTGATTTTAAAAAT
*
24147394 TATTTTAATTTT
1 TATTTTGATTTT
24147406 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTTTGATTTTAAAAAT
Found at i:24151943 original size:3 final size:3
Alignment explanation
Indices: 24151931--24151962 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
24151921 AACATAAACA
24151931 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24151963 TCACTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24158229 original size:11 final size:11
Alignment explanation
Indices: 24158213--24158237 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24158203 TAATTATACA
24158213 AAAAAAATTAT
1 AAAAAAATTAT
24158224 AAAAAAATTAT
1 AAAAAAATTAT
24158235 AAA
1 AAA
24158238 TTTTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAAATTAT
Found at i:24164062 original size:21 final size:21
Alignment explanation
Indices: 24164036--24164078 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24164026 ATGTAAAGTT
24164036 AGCCATTAGTATGGTTAACAA
1 AGCCATTAGTATGGTTAACAA
24164057 AGCCATTAGTATGGTTAACAA
1 AGCCATTAGTATGGTTAACAA
24164078 A
1 A
24164079 CCTGGTTTTG
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:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (21 bp):
AGCCATTAGTATGGTTAACAA
Found at i:24165610 original size:29 final size:29
Alignment explanation
Indices: 24165568--24165624 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
24165558 CAATTAAATA
* * * *
24165568 TATTTATTTTTATATTAGATTAATATAAT
1 TATTTATGTATATAATAGATCAATATAAT
*
24165597 TATTTATGTATATAATATATCAATATAA
1 TATTTATGTATATAATAGATCAATATAA
24165625 AATTATATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (29 bp):
TATTTATGTATATAATAGATCAATATAAT
Found at i:24171448 original size:11 final size:11
Alignment explanation
Indices: 24171434--24171458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24171424 GATGAGTTAA
24171434 TATAGATTATT
1 TATAGATTATT
24171445 TATAGATTATT
1 TATAGATTATT
24171456 TAT
1 TAT
24171459 TAATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATAGATTATT
Found at i:24172696 original size:21 final size:22
Alignment explanation
Indices: 24172670--24172716 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24172660 CTCTGCTCAA
*
24172670 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
24172691 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
24172713 ACTC
1 ACTC
24172717 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:24175753 original size:19 final size:18
Alignment explanation
Indices: 24175725--24175766 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
24175715 GACCTAAATT
24175725 AAAAATTAAA-AATCTTTA
1 AAAAATTAAATAAT-TTTA
24175743 AAAAATATAAATTAATTTTA
1 AAAAAT-TAAA-TAATTTTA
24175763 AAAA
1 AAAA
24175767 GCATAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 8 0.38
21 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTAAATAATTTTA
Found at i:24175821 original size:32 final size:31
Alignment explanation
Indices: 24175785--24175863 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
24175775 TCTTTTTAAT
* *
24175785 AAATTCAGGTACCGACAATGTACCTTTTGGAC
1 AAATTCAGGTACCAACAAGGTA-CTTTTGGAC
* * * *
24175817 AAATTTAGGTATCAACTAGGTATTTTTGGAC
1 AAATTCAGGTACCAACAAGGTACTTTTGGAC
*
24175848 AAATTCAGATACCAAC
1 AAATTCAGGTACCAAC
24175864 TAAGTAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 21 0.55
32 17 0.45
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (31 bp):
AAATTCAGGTACCAACAAGGTACTTTTGGAC
Found at i:24179449 original size:16 final size:16
Alignment explanation
Indices: 24179428--24179458 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24179418 TTTATTATTT
24179428 TATTAACATAATATAA
1 TATTAACATAATATAA
*
24179444 TATTAATATAATATA
1 TATTAACATAATATA
24179459 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:24183463 original size:111 final size:110
Alignment explanation
Indices: 24183216--24183470 Score: 440
Period size: 110 Copynumber: 2.3 Consensus size: 110
24183206 AAATAACTAT
24183216 CATTAACTTATATTCAACAAAACCCAATTAAAATATAATTTTTTATTCCACTAACAAAGTATAGA
1 CATTAACTTATATTCAACAAAACCCAATTAAAATATAATTTTTTATTCCACTAACAAAGTATAGA
24183281 ATCATAATCCTTTCTTAAAACTTATTTTTTACTAAGATAATAAAC
66 ATCATAATCCTTTCTTAAAACTTATTTTTTACTAAGATAATAAAC
* * *
24183326 CATTAACTCATATTCAACAAACCCCAATTAAAATATAATTTTTTATTCCACTAACAGAGTATAGA
1 CATTAACTTATATTCAACAAAACCCAATTAAAATATAATTTTTTATTCCACTAACAAAGTATAGA
24183391 ATCATAATCCTTTCTTAAAACTTATTTTTTTTA-TAAGATAATAAAC
66 ATCATAATCCTTTCTTAAAACTTA--TTTTTTACTAAGATAATAAAC
* *
24183437 CATTAACTTACATTCAACAAAACCCAATCAAAAT
1 CATTAACTTATATTCAACAAAACCCAATTAAAAT
24183471 TTTATCTAGA
Statistics
Matches: 136, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
110 86 0.63
111 43 0.32
112 7 0.05
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (110 bp):
CATTAACTTATATTCAACAAAACCCAATTAAAATATAATTTTTTATTCCACTAACAAAGTATAGA
ATCATAATCCTTTCTTAAAACTTATTTTTTACTAAGATAATAAAC
Found at i:24185415 original size:29 final size:32
Alignment explanation
Indices: 24185370--24185428 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
24185360 TATATATTTA
24185370 TATTTTTAAATAATTAAA-T-TAATTTTATAT
1 TATTTTTAAATAATTAAAGTATAATTTTATAT
*
24185400 TATTTTTAAA-GATTAAAGTATAATTTTAT
1 TATTTTTAAATAATTAAAGTATAATTTTAT
24185429 CTTTACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.23
30 11 0.42
31 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (32 bp):
TATTTTTAAATAATTAAAGTATAATTTTATAT
Found at i:24186315 original size:21 final size:21
Alignment explanation
Indices: 24186291--24186333 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24186281 TCTTTAAATT
24186291 TAATTGTAAAATT-TTACAAAA
1 TAATTGTAAAATTATT-CAAAA
*
24186312 TAATTTTAAAATTATTCAAAA
1 TAATTGTAAAATTATTCAAAA
24186333 T
1 T
24186334 TTTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (21 bp):
TAATTGTAAAATTATTCAAAA
Found at i:24193970 original size:24 final size:23
Alignment explanation
Indices: 24193916--24193981 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
24193906 TTCGATGCCA
24193916 ATATTAAATTATATATTTTTAATG
1 ATATTAAATTATA-ATTTTTAATG
* * *
24193940 ATCATTAAAATATAATTTTATTATT
1 AT-ATTAAATTATAATTTT-TAATG
*
24193965 ATATTAAATTATTATTT
1 ATATTAAATTATAATTT
24193982 AAAAAAATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 20 0.57
25 15 0.43
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATTAAATTATAATTTTTAATG
Found at i:24197686 original size:32 final size:31
Alignment explanation
Indices: 24197639--24197716 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
24197629 GACCACTCGT
* * * *
24197639 TAAATAAAAAATATTAAAATATTAAAATTTA
1 TAAATATAATATATTAAAATATAAAAAATTA
* *
24197670 TATAATATAATTTATTAAAGTATAAAAAATTA
1 TA-AATATAATATATTAAAATATAAAAAATTA
*
24197702 TAAATGTAATATATT
1 TAAATATAATATATT
24197717 TAAGAATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (31 bp):
TAAATATAATATATTAAAATATAAAAAATTA
Found at i:24198378 original size:23 final size:23
Alignment explanation
Indices: 24198352--24198396 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24198342 ATGATTTTTA
24198352 AATGATTAAATAAAAAATTTATC
1 AATGATTAAATAAAAAATTTATC
24198375 AATGATTAAATAAAAAATTTAT
1 AATGATTAAATAAAAAATTTAT
24198397 AATTTTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AATGATTAAATAAAAAATTTATC
Found at i:24199192 original size:20 final size:21
Alignment explanation
Indices: 24199155--24199193 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24199145 CCTTTTTCTC
**
24199155 TTGCCAAGTATTTTAGTTGAG
1 TTGCCAAGTATTGAAGTTGAG
24199176 TTGCCAA-TATTGAAGTTG
1 TTGCCAAGTATTGAAGTTG
24199194 TCAAGTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (21 bp):
TTGCCAAGTATTGAAGTTGAG
Found at i:24212493 original size:4 final size:4
Alignment explanation
Indices: 24212469--24212509 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
24212459 TTCTTTTCTT
* *
24212469 TTTC TTGC TTTC TTGC TTTC TTTC TTTC TTTC -TTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
24212510 ATTGGTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:24212493 original size:12 final size:11
Alignment explanation
Indices: 24212454--24212509 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
24212444 TCCATGGCGC
24212454 CTTTCTTCTTTT
1 CTTTCTTC-TTT
*
24212466 CTTT-TTCTTG
1 CTTTCTTCTTT
24212476 CTTTCTTGCTTT
1 CTTTCTT-CTTT
24212488 C--T-TTCTTT
1 CTTTCTTCTTT
24212496 CTTTCTTCTTT
1 CTTTCTTCTTT
24212507 CTT
1 CTT
24212510 ATTGGTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
8 5 0.14
9 2 0.05
10 8 0.22
11 14 0.38
12 8 0.22
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (11 bp):
CTTTCTTCTTT
Found at i:24214733 original size:18 final size:17
Alignment explanation
Indices: 24214705--24214739 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24214695 ATTATTAAGA
*
24214705 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24214722 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24214740 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24214876 original size:144 final size:147
Alignment explanation
Indices: 24214693--24214964 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
24214683 ATAAGAATAT
*
24214693 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
24214758 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
24214820 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
24214837 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
24214902 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
24214965 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:24214877 original size:18 final size:17
Alignment explanation
Indices: 24214849--24214883 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24214839 ATTATTAAGA
*
24214849 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24214866 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24214884 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24215094 original size:44 final size:45
Alignment explanation
Indices: 24215045--24215139 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
24215035 TTACACCTCT
* *
24215045 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
24215089 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
24215134 ATTACA
1 ATTACA
24215140 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:24215139 original size:16 final size:16
Alignment explanation
Indices: 24215118--24215150 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24215108 TTGATTTGCT
*
24215118 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
24215134 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
24215150 A
1 A
24215151 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:24215160 original size:21 final size:21
Alignment explanation
Indices: 24215131--24215173 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
24215121 ACACCTCTAT
*
24215131 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
24215152 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
24215173 T
1 T
24215174 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:24216659 original size:31 final size:31
Alignment explanation
Indices: 24216623--24216681 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24216613 GTTGTTAAAT
*
24216623 TATTTGAAAGTTTTCATTCAAGTTATTGAAA
1 TATTTGAAAGTTTTCATTCAAGTCATTGAAA
* *
24216654 TATTTGAAAGTTTTTATTTAAGTCATTG
1 TATTTGAAAGTTTTCATTCAAGTCATTG
24216682 TGTTGTCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (31 bp):
TATTTGAAAGTTTTCATTCAAGTCATTGAAA
Found at i:24221365 original size:3 final size:3
Alignment explanation
Indices: 24221357--24221412 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
24221347 CTTTATTACC
24221357 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24221405 TAA TAA TA
1 TAA TAA TA
24221413 TTTTTTGGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24222874 original size:27 final size:28
Alignment explanation
Indices: 24222802--24222874 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
24222792 ATTTTATTTA
24222802 TTTTATTAAAAAATAAATAAATAAATTAT
1 TTTTATT-AAAAATAAATAAATAAATTAT
* *
24222831 TGTATATTATATCAAAT-AATAAATTAATTAT
1 T-TTTATTA-A--AAATAAATAAATAAATTAT
24222862 TTTTATTAAAAAT
1 TTTTATTAAAAAT
24222875 TAATCTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.11
29 3 0.08
30 12 0.32
31 14 0.38
32 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TTTTATTAAAAATAAATAAATAAATTAT
Found at i:24224077 original size:21 final size:20
Alignment explanation
Indices: 24224048--24224092 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
24224038 TCTATTAAAA
*
24224048 TTTTCTATATAAATTTATATT
1 TTTTCTATA-AAATTTACATT
* *
24224069 TTTTGTATAAAATTTCCATT
1 TTTTCTATAAAATTTACATT
24224089 TTTT
1 TTTT
24224093 TGCGTTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTCTATAAAATTTACATT
Found at i:24227672 original size:6 final size:6
Alignment explanation
Indices: 24227658--24227689 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
24227648 AAATCCTCCT
*
24227658 GCCAAA GCCACA GCCAAA GCCAAA GCCAAA GC
1 GCCAAA GCCAAA GCCAAA GCCAAA GCCAAA GC
24227690 TGAGAAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.44, C:0.38, G:0.19, T:0.00
Consensus pattern (6 bp):
GCCAAA
Found at i:24235117 original size:43 final size:42
Alignment explanation
Indices: 24235068--24235148 Score: 144
Period size: 43 Copynumber: 1.9 Consensus size: 42
24235058 TCCACTTTAA
24235068 AAATTATTATTTTATTCTTGTATAAATATAATTATTAAAAAAG
1 AAATTATTATTTTATTCTTGTAT-AATATAATTATTAAAAAAG
*
24235111 AAATTATTATTTTATTTTTGTATAATATAATTATTAAA
1 AAATTATTATTTTATTCTTGTATAATATAATTATTAAA
24235149 TTAAAGGGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 15 0.41
43 22 0.59
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (42 bp):
AAATTATTATTTTATTCTTGTATAATATAATTATTAAAAAAG
Found at i:24235228 original size:12 final size:12
Alignment explanation
Indices: 24235188--24235230 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
24235178 GTATGTTTCC
24235188 TATTTAAATATT
1 TATTTAAATATT
*
24235200 T-TTAAAAATATT
1 TATT-TAAATATT
24235212 ATATTTAAATATT
1 -TATTTAAATATT
24235225 TATTTA
1 TATTTA
24235231 CCATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 8 0.31
14 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTAAATATT
Found at i:24237377 original size:13 final size:13
Alignment explanation
Indices: 24237358--24237400 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 13
24237348 GATCTGTCGG
24237358 CTTTTTTTTTT--
1 CTTTTTTTTTTCC
24237369 CTTTTTTTTTTCC
1 CTTTTTTTTTTCC
*
24237382 C-TTTTTTTTCCC
1 CTTTTTTTTTTCC
24237394 CTTTTTT
1 CTTTTTT
24237401 ATTATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 11 0.39
12 11 0.39
13 6 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTTTTTTCC
Found at i:24237395 original size:12 final size:12
Alignment explanation
Indices: 24237371--24237400 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24237361 TTTTTTTTCT
*
24237371 TTTTTTTTTCCC
1 TTTTTTTTCCCC
24237383 TTTTTTTTCCCC
1 TTTTTTTTCCCC
24237395 TTTTTT
1 TTTTTT
24237401 ATTATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCCCC
Done.