Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 119 of 311
Found at i:39581618 original size:92 final size:93
Alignment explanation
Indices: 39581461--39581700 Score: 410
Period size: 92 Copynumber: 2.6 Consensus size: 93
39581451 CACTTCTACG
* *
39581461 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
*
39581526 CGGCCTTATCAC-ATGTGCATGTTCACA
66 CGGCCTTATCACAATATGCATGTTCACA
*
39581553 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
39581618 CGGCCTTATCACATATATGCATGTTCACA
66 CGGCCTTATCACA-ATATGCATGTTCACA
* *
39581647 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACATTCATCA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
39581701 GATTAAATCC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 74 0.53
94 65 0.47
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (93 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACAATATGCATGTTCACA
Found at i:39581747 original size:139 final size:135
Alignment explanation
Indices: 39581461--39581732 Score: 361
Period size: 139 Copynumber: 2.0 Consensus size: 135
39581451 CACTTCTACG
* *
39581461 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
* * * * * **
39581526 CGGCCTTATCACATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGC
66 CGGCCTTATCACATGTACATGTTCACATTCATCACATT-G-AAAT--GCCTAATCACAAATATAA
39581591 ATGTTCACA
127 ATGTTCACA
39581600 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
*
39581665 CGGCCTTATCACATATGTACATGTTCACATTCATCAGATT-AAAT-CCTAAATCA-AAATATAAA
66 CGGCCTTATCAC--ATGTACATGTTCACATTCATCACATTGAAATGCCT-AATCACAAATATAAA
*
39581727 TTTTCA
128 TGTTCA
39581733 TCTATTCACA
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
135 14 0.12
136 4 0.03
138 2 0.02
139 75 0.63
141 24 0.20
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (135 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATGTACATGTTCACATTCATCACATTGAAATGCCTAATCACAAATATAAATGT
TCACA
Found at i:39584022 original size:13 final size:13
Alignment explanation
Indices: 39584004--39584029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39583994 ATTTTTATTT
39584004 TTAACATAAAATA
1 TTAACATAAAATA
39584017 TTAACATAAAATA
1 TTAACATAAAATA
39584030 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:39584846 original size:51 final size:51
Alignment explanation
Indices: 39584785--39584888 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
39584775 GTACAAGTCA
* *
39584785 GTATACCCCCTAGTTGGCACACGGCTTAGCACACGGGCGTTTGACTTGACT
1 GTATACCCCCTAATTGGCACACGGCCTAGCACACGGGCGTTTGACTTGACT
*
39584836 GTATATCCCCTAATTGGCACACGGCCTAGCACACGGGCGTTTGACTTGACT
1 GTATACCCCCTAATTGGCACACGGCCTAGCACACGGGCGTTTGACTTGACT
39584887 GT
1 GT
39584889 GTTGCATAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (51 bp):
GTATACCCCCTAATTGGCACACGGCCTAGCACACGGGCGTTTGACTTGACT
Found at i:39591737 original size:96 final size:96
Alignment explanation
Indices: 39591552--39591730 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
39591542 AAAAAAATAA
* * *
39591552 ACTCAAAGCAAATATAACTAAAATAAATAACAAGAGGAAAGAGTAAACTCTATTCAGTTGAACAA
1 ACTCAAAGCAAACATAACTAAAATAAATAACAAGAGGAAAAAGTAAACTCTATTCAGTTCAACAA
**
39591617 CCTTTTGGATCTATTCTGTATGATGCACTCC
66 CCTTTCAGATCTATTCTGTATGATGCACTCC
*
39591648 ACTCAAAGCAAACATAATTAAAATAAATAA-ATAGAGGAAAAAGTAAACTCTATTCAGTTCAACA
1 ACTCAAAGCAAACATAACTAAAATAAATAACA-AGAGGAAAAAGTAAACTCTATTCAGTTCAACA
*
39591712 GCCTTTCAGATCTATTCTG
65 ACCTTTCAGATCTATTCTG
39591731 ATTGATGTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (96 bp):
ACTCAAAGCAAACATAACTAAAATAAATAACAAGAGGAAAAAGTAAACTCTATTCAGTTCAACAA
CCTTTCAGATCTATTCTGTATGATGCACTCC
Found at i:39599936 original size:26 final size:25
Alignment explanation
Indices: 39599900--39599948 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
39599890 ACGAATTTTC
*
39599900 TCAAAATTTTACTAGAGGTAAAATCG
1 TCAAAAATTTACTAGA-GTAAAATCG
*
39599926 TCAAAAATTTACTGGAGTAAAAT
1 TCAAAAATTTACTAGAGTAAAAT
39599949 TGGGATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (25 bp):
TCAAAAATTTACTAGAGTAAAATCG
Found at i:39604224 original size:48 final size:48
Alignment explanation
Indices: 39604167--39604342 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
39604157 TAAGTTGCTA
** *
39604167 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-TGTGGCCG
* *
39604215 ATACCATGTCCCAAACATGGTCTTACACT-GACTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATAATGTGGCCG
* * * *
39604263 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCGTAATGTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
*
39604311 ATGCCATGTCCTAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
39604343 ACACATATCA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 2 0.02
48 110 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
Found at i:39614497 original size:50 final size:50
Alignment explanation
Indices: 39614377--39614654 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
39614367 TTGGTACGTA
* * *
39614377 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
39614426 TAGTAGCCTACACGTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *** * * ** *
39614476 TAGTAGCCTGCACTTAATACTACACACGTGA-TTGAAGTTGTCGGGTATGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCT-AA-CCATCTGATACACG
* * * ** ** *
39614527 TAGTAGCTTGCACTTAGTACTACACATGCAACCTAAATATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
39614577 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
39614629 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
39614655 TGAGTTCTCA
Statistics
Matches: 183, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.17
50 84 0.46
51 34 0.19
52 34 0.19
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:39614552 original size:101 final size:101
Alignment explanation
Indices: 39614426--39614607 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
39614416 CTGATACACG
** *
39614426 TAGTAGCCTACACGTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
39614491 AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
66 AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
* * * * * * *
39614527 TAGTAGCTTGCACTTAGTACTACACATGCAACCTAAATATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
*
39614592 AGTACTACACACGTGA
66 AATACTACACACGTGA
39614608 CCTAAAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACGTAGTACTACACACGCAACCTAAACATCTGATACACGTAGTAGCCTGCACTT
AATACTACACACGTGATTGAAGTTGTCGGGTATGCA
Found at i:39617309 original size:16 final size:16
Alignment explanation
Indices: 39617290--39617320 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39617280 CTTCTTCAGT
39617290 TACTCACTTACTTAAC
1 TACTCACTTACTTAAC
*
39617306 TACTTACTTACTTAA
1 TACTCACTTACTTAA
39617321 TCAAATTTAT
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:0.26, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAC
Found at i:39617703 original size:108 final size:110
Alignment explanation
Indices: 39617560--39617758 Score: 305
Period size: 108 Copynumber: 1.8 Consensus size: 110
39617550 TCCTTTTGAG
* *
39617560 ACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC-AG
1 ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTA-GAAATCTCACCAAG
*
39617622 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
65 TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
* * * *
39617668 ACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTTACCAATT
1 ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTCACCAAGT
39617733 GCCATGCATTGGCATGGTCTTACATG
66 GCCATGCATTGGCATGGTCTTACATG
39617759 TTATCCTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 5 0.06
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
ACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAATCTCACCAAGT
GCCATGCATTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTA
Found at i:39617764 original size:55 final size:51
Alignment explanation
Indices: 39617512--39617766 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 51
39617502 ACATAGGTAC
* * *
39617512 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT--TT-GAGA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTCCTTAGAAA
*
39617561 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTT-CCTTA-GAAA
* * * * * *
39617614 CTCACCAGTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCC--T-TCCT-TAGAAA
* *
39617669 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAA
1 CTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTT-CCTTAGAAA
* *
39617722 TCTTACCAATTGCCATGCATTGGCATGGTCTTACATGTTATCCTT
1 -CTTACC-ATTGCCATGC-TTGACATGGTCTTACATGGTATCCTT
39617767 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 39 0.23
54 14 0.08
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (51 bp):
CTTACCATTGCCATGCTTGACATGGTCTTACATGGTATCCTTCCTTAGAAA
Found at i:39618938 original size:19 final size:19
Alignment explanation
Indices: 39618914--39618951 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39618904 TCAGGATGTT
39618914 ACCACAAGCTCCTTCGGTG
1 ACCACAAGCTCCTTCGGTG
39618933 ACCACAAGCTCCTTCGGTG
1 ACCACAAGCTCCTTCGGTG
39618952 CCATTCAATA
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:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (19 bp):
ACCACAAGCTCCTTCGGTG
Found at i:39627682 original size:42 final size:41
Alignment explanation
Indices: 39627582--39627689 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
39627572 GTTTCAATGC
*
39627582 CATATCCCCGATATGGTCTTACATGAAATATCATATCGATGA
1 CATAT-CCCGATATGGTCTTACACGAAATATCATATCGATGA
* * * *
39627624 CATGTCCTCGACATGGTCTTATACGAAATCA-CATATCGA-GG
1 CATATCC-CGATATGGTCTTACACGAAAT-ATCATATCGATGA
39627665 CTATATCCCGGATATGGTCTTACAC
1 C-ATATCCC-GATATGGTCTTACAC
39627690 AGAATCTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
41 5 0.09
42 48 0.89
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (41 bp):
CATATCCCGATATGGTCTTACACGAAATATCATATCGATGA
Found at i:39628058 original size:30 final size:30
Alignment explanation
Indices: 39628022--39628081 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
39628012 CAAATGTCAT
* *
39628022 ATTTTATCAAAATTACATTTTTGCCCCTAA
1 ATTTTATCAAAATTACACTTTTCCCCCTAA
*
39628052 ATTTTATCATAATTACACTTTTCCCCCTAA
1 ATTTTATCAAAATTACACTTTTCCCCCTAA
39628082 GCTCGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTTTATCAAAATTACACTTTTCCCCCTAA
Found at i:39631891 original size:47 final size:47
Alignment explanation
Indices: 39631823--39631943 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 47
39631813 ATTACGACAC
* *
39631823 CATGTCCCAGACATGGTCTTACACTGGCTATTACAT-TA-AAGTCGATGT
1 CATGTCCCAGACA-GGTCTTACACTGACT-TT-CATATACAAGCCGATGT
* * *
39631871 CGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGT
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATA-C-AAGCCGATGT
39631920 CATGTCCCAGACAGGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
39631944 AGCTCTCATC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.05
46 4 0.06
47 14 0.23
48 11 0.18
49 30 0.48
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGACTTTCATATACAAGCCGATGT
Found at i:39631926 original size:49 final size:49
Alignment explanation
Indices: 39631865--39631995 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
39631855 ACATTAAAGT
* *
39631865 CGATGTCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGTCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * *
39631914 CGATGTCATGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGT
1 CGATGTCATGTCCCAAACAGGTCTTACACTGA-CTCTCATATATCGGTGC
* *
39631963 CGATGCCAAGTCCCAAACAGGTCTTACACTGAC
1 CGATGTCATGTCCCAAACAGGTCTTACACTGAC
39631996 ACACAACAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.03
49 68 0.96
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGTCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:39632121 original size:46 final size:46
Alignment explanation
Indices: 39632058--39632181 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
39632048 CTCGAGGCTA
* * *
39632058 ATGCATGTCCCAGACATGTCTTACACTAGCTCTAGTCTTAA-T-GCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT--TCATAAGTAGCCG
*
39632104 ATGCATGTCCCAAACATGTCTTACACTGGCT-TTCATAATGTAGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTTCATAA-GTAGCCG
*
39632150 ATGGATGTCCCAGACATGTCTTACACTGGCTC
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC
39632182 ACATACCACC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 5 0.07
45 2 0.03
46 61 0.90
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTTCATAAGTAGCCG
Found at i:39636710 original size:36 final size:37
Alignment explanation
Indices: 39636587--39636689 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
39636577 TCGTTTACTT
* ****
39636587 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
* * *
39636624 AATGCCATAGCCCAGCTATGGTCTTACATGTCATTAC
1 GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
39636661 GATGCCATAGTCCAGCTATGGTCTTACAT
1 GATGCCATAGTCCAGCTATGGTCTTACAT
39636690 TCCACACTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (37 bp):
GATGCCATAGTCCAGCTATGGTCTTACATGTCATCAC
Found at i:39639530 original size:32 final size:32
Alignment explanation
Indices: 39639485--39639546 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
39639475 CTTACACTGG
39639485 CTCACATAACAATGCCGATGTCC-TGTCCCAAA
1 CTCACATAACAATGCCGATG-CCATGTCCCAAA
* *
39639517 CTCACATAGCAATGTCGATGCCATGTCCCA
1 CTCACATAACAATGCCGATGCCATGTCCCA
39639547 GACATGGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (32 bp):
CTCACATAACAATGCCGATGCCATGTCCCAAA
Found at i:39639588 original size:48 final size:48
Alignment explanation
Indices: 39639517--39639700 Score: 298
Period size: 48 Copynumber: 3.9 Consensus size: 48
39639507 CTGTCCCAAA
* *
39639517 CTCACATAGCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
*
39639565 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTATACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
* * *
39639613 CTCACATAACAACGCCGATGCCGTGTCCCAAACATGGTCTTACACTGG
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
*
39639661 CTCATATAACAATGCC-ATGCCATGTCCCAGACATGGTCTT
1 CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTT
39639701 GCACGGTTAC
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 22 0.18
48 103 0.82
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
CTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
Found at i:39641042 original size:27 final size:27
Alignment explanation
Indices: 39641009--39641068 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
39640999 CGTTGTCATA
39641009 AATTCAAATATTTTTGGGACATTAAAT
1 AATTCAAATATTTTTGGGACATTAAAT
*
39641036 AATTCAAATCTTTTTGGGACATTAAAT
1 AATTCAAATATTTTTGGGACATTAAAT
*
39641063 ACTTCA
1 AATTCA
39641069 CTCCTCACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AATTCAAATATTTTTGGGACATTAAAT
Found at i:39642694 original size:37 final size:37
Alignment explanation
Indices: 39642644--39642718 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
39642634 TGGAGACTCA
39642644 TTCTTGAGCATATTTACTTAATCTCACAAATTATCTT
1 TTCTTGAGCATATTTACTTAATCTCACAAATTATCTT
*
39642681 TTCTTGAGCATATTTACTTAATCTCACAAATTCTCTT
1 TTCTTGAGCATATTTACTTAATCTCACAAATTATCTT
39642718 T
1 T
39642719 CATACTCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (37 bp):
TTCTTGAGCATATTTACTTAATCTCACAAATTATCTT
Found at i:39647584 original size:43 final size:43
Alignment explanation
Indices: 39647459--39647622 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
39647449 CAGAAAGCTC
* * *
39647459 ATACAATGCCAACATCCCAGACGTGGTCTTACATGT-AATCAA
1 ATACGATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCAA
* ***
39647501 ATATCGATACCATTGTCCCAGACAG-GGTCTTACACG-AAATCAA
1 ATA-CGATGCCAACATCCCAGA-AGTGGTCTTACACGTAAATCAA
* * * *
39647544 ATACGATGCCAACATGCCAGATGTGGTTTTACAGGTAAATCATA
1 ATACGATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCA-A
* * *
39647588 AGT-CGATGCCAACGTCCTAGACGTGGTCTTACACG
1 A-TACGATGCCAACATCCCAGAAGTGGTCTTACACG
39647623 AAAACACATA
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 38 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCAA
Found at i:39652082 original size:49 final size:49
Alignment explanation
Indices: 39651985--39652393 Score: 688
Period size: 49 Copynumber: 8.5 Consensus size: 49
39651975 TTAGGATTTT
39651985 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
* * *
39652032 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGTCAAATGTCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
39652081 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
39652130 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
* *
39652179 ATGTGATGAATGTGAAAGTGTATGTATATGCGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
39652228 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
39652277 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
39652326 ATGTGATGAATGTGAAA--GTA--TATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
39652371 ATGTGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
39652394 AACTGTGATA
Statistics
Matches: 344, Mismatches: 12, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
45 36 0.10
46 3 0.01
47 30 0.09
49 275 0.80
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:39652332 original size:22 final size:22
Alignment explanation
Indices: 39652304--39652377 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
39652294 GTGTATGTAT
39652304 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * ***
39652326 ATGTGATGAATG-TGAAAGTATA
1 ATGTGAT-AAGGCCGAATGGCCA
*
39652348 TATATGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
39652371 ATGTGAT
1 ATGTGAT
39652378 GGAAGTGGAA
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:39655261 original size:27 final size:26
Alignment explanation
Indices: 39655219--39655270 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
39655209 ACGATGCTGC
*
39655219 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
39655245 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
39655271 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:39655933 original size:27 final size:27
Alignment explanation
Indices: 39655903--39656155 Score: 337
Period size: 27 Copynumber: 9.4 Consensus size: 27
39655893 AGGGCAAAAT
* * * *
39655903 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39655930 GGTAA-TCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39655956 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
39655983 AATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39656010 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39656037 AATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39656064 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39656091 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39656118 GGTAATTCTACCTTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39656145 GGTAATTCTAC
1 GGTAATTCTAC
39656156 AACTTATCCA
Statistics
Matches: 195, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.11
27 174 0.89
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39657088 original size:47 final size:44
Alignment explanation
Indices: 39656984--39657291 Score: 221
Period size: 47 Copynumber: 6.7 Consensus size: 44
39656974 GGCGTTACAT
* * *
39656984 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGCC
* * *
39657028 GATGCGTGACCCAGACACGTCTTACACTGGCTATCTCTGTCGAGACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AG-CC
*
39657075 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGCC
* *
39657121 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA--GCC
* ** ** *
39657169 GATGCATGTTCCAGACATGTCTTACACTAACCCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTA-GCC
* * *
39657215 GATACCATGTCCCAGACATGGGCTTACACT-GCT-TCTCATAATGTGGCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCTATCTC----TGTAGCC
* *
39657263 GAAGCATGTCCTAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
39657292 ACGCACAAAT
Statistics
Matches: 209, Mismatches: 34, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
43 5 0.02
44 28 0.13
45 7 0.03
46 40 0.19
47 86 0.41
48 31 0.15
49 4 0.02
50 8 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGCC
Found at i:39657189 original size:94 final size:94
Alignment explanation
Indices: 39656984--39657290 Score: 308
Period size: 94 Copynumber: 3.3 Consensus size: 94
39656974 GGCGTTACAT
* * *
39656984 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCCGATG-CGTGACCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT-GCCGATGCCATGTCCCAGACA
* * *
39657045 -CGTCTTACACTGGCTATC-TCTGTCGA-GACC
65 TGGTCTTACACTGGCTATCAT-AGT--ATGGCC
* *
39657075 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGTCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
*
39657140 GGTCTTACACTGGCTATCATAGTATGGCT
66 GGTCTTACACTGGCTATCATAGTATGGCC
* * * * * *
39657169 GATGCATGTTCCAGACATGTCTTACACTAACCCTCGTCT-GGATGCCGATACCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTG-TGCCGATGCCATGTCCCAGACA
* * * *
39657233 TGGGCTTACACT-GCTTCTCATAATGTGGCC
65 TGGTCTTACACTGGC-TATCATAGTATGGCC
* *
39657263 GAAGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
39657291 GACGCACAAA
Statistics
Matches: 182, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
91 31 0.17
93 16 0.09
94 115 0.63
95 19 0.10
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCATAGTATGGCC
Found at i:39658902 original size:40 final size:40
Alignment explanation
Indices: 39658844--39659006 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
39658834 TCTTCGGGAT
* *
39658844 TTAG-CCGGATATAACAACTCGCATAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
39658883 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTC-AGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGA-GTC
* * * * *
39658923 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGAGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGAGTC
* *
39658963 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCG-GATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAG-TC
39659003 TTAG
1 TTAG
39659007 TTTGATTATC
Statistics
Matches: 103, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
39 8 0.08
40 92 0.89
41 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
Found at i:39658984 original size:80 final size:80
Alignment explanation
Indices: 39658835--39659006 Score: 244
Period size: 80 Copynumber: 2.2 Consensus size: 80
39658825 ACCCAAGCAT
* * * *
39658835 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCATAAATGCCTTCGAGTCTTAGCCCGGATATAG
1 CTTC-GGATCTTAGCCCAGATATAACAACTAGCATAAATGCCTTCGAGACATAGCCCGGATATAG
39658898 CAACTCGCACAAATGC
65 CAACTCGCACAAATGC
39658914 CTTCAGG-TCTTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGAGACATAGCCCGGATATA
1 CTTC-GGATCTTAGCCCAGATATAA-CAACTAGCATAAATGCCTTCGAGACATAGCCCGGATATA
*
39658977 GCAACTCGCACGAATGC
64 GCAACTCGCACAAATGC
39658994 CTTCGGATCTTAG
1 CTTCGGATCTTAG
39659007 TTTGATTATC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 69 0.83
81 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCAGATATAACAACTAGCATAAATGCCTTCGAGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:39668743 original size:37 final size:37
Alignment explanation
Indices: 39668682--39668760 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39668672 TTATTACGAA
* * * *
39668682 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGAAAAAATCCCCACACGAAGTCATCGG
*
39668719 GTCTTACCCGGAAAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGAAAAAATCCCCACACGAAGTCATCGG
39668756 GTCTT
1 GTCTT
39668761 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGAAAAAATCCCCACACGAAGTCATCGG
Found at i:39669005 original size:49 final size:49
Alignment explanation
Indices: 39668879--39669277 Score: 643
Period size: 49 Copynumber: 8.3 Consensus size: 49
39668869 CCCTTCGGGA
* * * * *
39668879 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39668926 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39668973 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39669022 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39669069 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39669116 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39669165 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39669214 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39669263 CTTATCACATATATA
1 CTTATCACATATATA
39669278 CACTGTCTTG
Statistics
Matches: 331, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 134 0.40
49 196 0.59
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39669137 original size:143 final size:143
Alignment explanation
Indices: 39668879--39669280 Score: 669
Period size: 143 Copynumber: 2.8 Consensus size: 143
39668869 CCCTTCGGGA
* * * * * * *
39668879 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
39668944 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
39669009 TCGGCCATTAGGC
131 TCGGCCATTAGGC
39669022 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
39669087 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
39669152 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
39669165 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
* *
39669230 ACACTTTCACATTCATCACATCAGCCATTAGGTCTTATCACATATATACAC
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
39669281 TGTCTTGGCT
Statistics
Matches: 243, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
143 143 0.59
145 46 0.19
147 54 0.22
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:39674960 original size:51 final size:49
Alignment explanation
Indices: 39674834--39675027 Score: 244
Period size: 49 Copynumber: 3.9 Consensus size: 49
39674824 CTATTGTGAA
* * * * *
39674834 GTCACGTGTGTATTACTAAGTGCAGGCTATTACGTGTACCGGATAATTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
* * * *
39674883 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TG
* * *
39674934 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
* *
39674983 GTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
39675028 GCTTCGGCTA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 80 0.65
50 2 0.02
51 41 0.33
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG
Found at i:39675008 original size:100 final size:100
Alignment explanation
Indices: 39674835--39675022 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
39674825 TATTGTGAAG
* * *
39674835 TCACGTGTGTATTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
39674900 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * *
39674935 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCTTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
39675000 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
39675023 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:39687923 original size:16 final size:16
Alignment explanation
Indices: 39687899--39687950 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
39687889 TGGTTCACTG
*
39687899 TAATGGAATAGGGCTA
1 TAATGGAATAGAGCTA
* *
39687915 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
*
39687931 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTA
39687947 TAAT
1 TAAT
39687951 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:39688018 original size:44 final size:46
Alignment explanation
Indices: 39687932--39688025 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
39687922 ATAGAGCTGT
39687932 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
*** *
39687978 AATGGAATAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATTG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
39688022 AATG
1 AATG
39688026 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 2 0.05
46 19 0.43
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:39688499 original size:58 final size:57
Alignment explanation
Indices: 39688407--39688548 Score: 185
Period size: 58 Copynumber: 2.5 Consensus size: 57
39688397 TATTATTATT
* * * *
39688407 AAATTTTAATAAGATTATTATTAAAAATATTTTAATAAAAGTAATAAATAATTTAATC
1 AAATTTTAATATGATTATTATTAAATATAATTTAATAAAA-TAATAAATAATTTAATA
* * * *
39688465 ATATTTTAACATGATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAATATGATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATA
*
39688522 AAATTCTTAATATAATTATTATTAAAT
1 AAATT-TTAATATGATTATTATTAAAT
39688549 GAATTAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 19 0.27
58 52 0.73
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (57 bp):
AAATTTTAATATGATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATA
Found at i:39688566 original size:58 final size:57
Alignment explanation
Indices: 39688437--39688573 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 57
39688427 TTAAAAATAT
* * * * * *
39688437 TTTAATAAAAGTAATAAATAATTTAATCATATTTTAACATGATTATTACTAAATATAA
1 TTTAA-AAAAATAATATATAATTTAATAAAATTTTAACATAATTATTACTAAATAGAA
* * *
39688495 TTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTAAAT-GAA
1 TTTAAAAAAATAATATATAATTTAATAAAATT-TTAACATAATTATTACTAAATAGAA
39688552 -TTAAAAAATCATAATATATAAT
1 TTTAAAAAA--ATAATATATAAT
39688574 AGTATAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
56 7 0.11
57 24 0.36
58 35 0.53
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (57 bp):
TTTAAAAAAATAATATATAATTTAATAAAATTTTAACATAATTATTACTAAATAGAA
Found at i:39691064 original size:40 final size:40
Alignment explanation
Indices: 39691020--39691152 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
39691010 GCTCCTCGTT
* *
39691020 CAAATGCCTTCGGGACACAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACACAACCCGGATT-TAGTAACTCGCA
* ** *
39691060 CAAATGCCTTCGGGTCTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACACAACCCGGATTTAGTAACTCGCA
** * *
39691100 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACACAACCCGGATTTAGTAACTCGCA
*
39691140 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
39691153 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 81 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACACAACCCGGATTTAGTAACTCGCA
Found at i:39691132 original size:80 final size:80
Alignment explanation
Indices: 39691048--39691205 Score: 203
Period size: 80 Copynumber: 2.0 Consensus size: 80
39691038 AGCTCGGTTA
* * * *
39691048 TAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATTTAGT-A-TCTCGCACAAATGCCTTC
1 TAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAGTCACT-TAGCACAAA-GCCTTC
39691111 GGGACTTAACCCGGAAT
64 GGGACTTAACCCGGAAT
* ** *
39691128 TAGTATCTCGCACAAAGGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGG
*
39691193 GACTTAGCCCGGA
66 GACTTAACCCGGA
39691206 CATCATTCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 57 0.85
81 9 0.13
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGG
GACTTAACCCGGAAT
Found at i:39691165 original size:40 final size:40
Alignment explanation
Indices: 39691048--39691158 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
39691038 AGCTCGGTTA
* * *
39691048 TAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATT
1 TAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGAAT
39691088 TAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT
1 TAGTATCTCGCACAAATGCCTTC-GGATCTTAACCCGGAAT
*
39691128 TAGTATCTCGCACAAAGGCCTTCGGATCTTA
1 TAGTATCTCGCACAAATGCCTTCGGATCTTA
39691159 GTCCGGATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGAAT
Found at i:39698986 original size:40 final size:39
Alignment explanation
Indices: 39698942--39699114 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 39
39698932 GCTCCTCGTT
* *
39698942 CAAATGCCTTCGGGACATAGCCCGTTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-TTATAGTAACTCGCA
*
39698982 CAAATGCCTTCGGGTCTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-G-TTATAGTAACTCGCA
** *
39699022 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGTTA-TAGTAACTCGCA
*** *
39699062 CAAATGCCTTCGGGACTTAACCCAAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGTTA-TAGTAACTCGCA
*
39699102 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
39699115 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 115 0.97
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGTTATAGTAACTCGCA
Found at i:39699054 original size:80 final size:80
Alignment explanation
Indices: 39698942--39699114 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 80
39698932 GCTCCTCGTT
* ** * **
39698942 CAAATGCCTTCGGGACATAGCCCGTTTATAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAA
*
39699007 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
39699022 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACATAACCC-GAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
*
39699086 AAATTAGTATCTCGCA
65 AAATTAGTAACTCGCA
*
39699102 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
39699115 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 79 0.98
81 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAA
AATTAGTAACTCGCA
Found at i:39723541 original size:414 final size:414
Alignment explanation
Indices: 39722765--39723595 Score: 1446
Period size: 414 Copynumber: 2.0 Consensus size: 414
39722755 TGGTTCAAGC
* * *
39722765 CTTGATTTTTGTTTTGAAGGGATGTTTTAAAGAACTTTGTTTGGGTTATGGGAAATAGTTTACGC
1 CTTGATTTTAGTTTTCAAGGGATGTTTTAAAGAACTTTGTTTGGGTTATGGGAAATAGTTTAAGC
* *
39722830 AGAATAATATTTAAAAGAGAATCGTGCTGAGAATGTGTTATAAAGTAAATAGACAAAGAGTAAAG
66 AGAATAATATTTAAAAAAGAATCGTGCTGAGAATGTGTTATAAAATAAATAGACAAAGAGTAAAG
* * *
39722895 GACAAAGAAAATGGGAGAGCAAAAAGAGAATATATTTTATTCATCAATCGGAATAGTCTACAATG
131 AACAAAGAAAATGGGAGAGCAAAAAGAGAACATATTTTATTCATCAATCGGAATAGTCTACAATA
39722960 CTTTTCCAAAGTCTATATTTATAGACATAAGAAGTATAAATGAAATAGAGCTCTACTTCTAATTA
196 CTTTTCCAAAGTCTATATTTATAGACATAAGAAGTATAAATGAAATAGAGCTCTACTTCTAATTA
* *
39723025 CTATTAGAGCTTTAAGTACATCAAAATTTATCTTGATCTTAATGGACATCCACTTAATAATAAAA
261 CTATTAGAGCTTTAAATACATCAAAATTTATCTTGATATTAATGGACATCCACTTAATAATAAAA
39723090 TATTCATAACAAATATTAATTTTTTATGGTAAATAACAAGTTACTATAACAATAAAGAAATGACT
326 TATTCATAACAAATATTAATTTTTTATGGTAAATAACAAGTTACTATAACAATAAAGAAATGACT
*
39723155 CTGTTATCAATTAACAACTTAAAT
391 CTGTTATCAACTAACAACTTAAAT
*
39723179 CTTGATTTTAGTTTTCAAGGGATTTTTTAAAGAACTTTGTTTGGGTTATGGGAAATAGTTTAAGC
1 CTTGATTTTAGTTTTCAAGGGATGTTTTAAAGAACTTTGTTTGGGTTATGGGAAATAGTTTAAGC
* *
39723244 AGAATAATATTTAAAAAAGAATCGTGCTGATAATGTGTTATAAAATAAATAGACAAAGAGTAAAT
66 AGAATAATATTTAAAAAAGAATCGTGCTGAGAATGTGTTATAAAATAAATAGACAAAGAGTAAAG
* *
39723309 AACAAAGAAAATGGGAGAGCAAAGAGAGAACATATTTTATTGATCAATCGGAATAGTCTACAATA
131 AACAAAGAAAATGGGAGAGCAAAAAGAGAACATATTTTATTCATCAATCGGAATAGTCTACAATA
*
39723374 CTTTTTCAAAGTCTATATTTATAGACATAAGAAGTATAAATGAAATAGAGCTCTACTTCTAATTA
196 CTTTTCCAAAGTCTATATTTATAGACATAAGAAGTATAAATGAAATAGAGCTCTACTTCTAATTA
* *
39723439 CTATTAGAGTTTTAAATACATCAAAATTTATCTTGATATTGATGGACATCCACTTAATAATAAAA
261 CTATTAGAGCTTTAAATACATCAAAATTTATCTTGATATTAATGGACATCCACTTAATAATAAAA
* * * **
39723504 TATTCATAACAAATATTAATTTTTTATGGTCAATAACAAGTTACTGTAACGATAGGGAAATGACT
326 TATTCATAACAAATATTAATTTTTTATGGTAAATAACAAGTTACTATAACAATAAAGAAATGACT
39723569 CTGTTATCAACTAACAACTTAAAT
391 CTGTTATCAACTAACAACTTAAAT
39723593 CTT
1 CTT
39723596 AAATTCTAAG
Statistics
Matches: 393, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
414 393 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (414 bp):
CTTGATTTTAGTTTTCAAGGGATGTTTTAAAGAACTTTGTTTGGGTTATGGGAAATAGTTTAAGC
AGAATAATATTTAAAAAAGAATCGTGCTGAGAATGTGTTATAAAATAAATAGACAAAGAGTAAAG
AACAAAGAAAATGGGAGAGCAAAAAGAGAACATATTTTATTCATCAATCGGAATAGTCTACAATA
CTTTTCCAAAGTCTATATTTATAGACATAAGAAGTATAAATGAAATAGAGCTCTACTTCTAATTA
CTATTAGAGCTTTAAATACATCAAAATTTATCTTGATATTAATGGACATCCACTTAATAATAAAA
TATTCATAACAAATATTAATTTTTTATGGTAAATAACAAGTTACTATAACAATAAAGAAATGACT
CTGTTATCAACTAACAACTTAAAT
Found at i:39725722 original size:21 final size:21
Alignment explanation
Indices: 39725698--39725740 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
39725688 CATATAGTAA
39725698 TTCAATCATAT-AACATTTCAT
1 TTCAATCAT-TCAACATTTCAT
* *
39725719 TTCACTTATTCAACATTTCAT
1 TTCAATCATTCAACATTTCAT
39725740 T
1 T
39725741 ATCATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCAATCATTCAACATTTCAT
Found at i:39728267 original size:42 final size:43
Alignment explanation
Indices: 39728218--39728331 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
39728208 TGAGATTTAT
** * *
39728218 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATTTAATTTC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGGTATTGAATTAC
* *
39728260 GTGTAAGACCCTGTTTGGGACAGAGGCATCGGTATTGAATTAC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGGTATTGAATTAC
* **
39728303 ATGTAAGACCACATCTGGGAC-GTAGGCAT
1 GTGTAAGACCATGTCTGGGACAG-AGGCAT
39728332 TGTACTCCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGAGGCATCGGTATTGAATTAC
Found at i:39728416 original size:15 final size:16
Alignment explanation
Indices: 39728389--39728418 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39728379 AGAGTATGAG
39728389 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
39728405 ATATGA-AATGTATA
1 ATATGAGAATGTATA
39728419 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:39732096 original size:28 final size:28
Alignment explanation
Indices: 39732056--39732133 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
39732046 CGACAAAATG
*
39732056 TGGCACTTAGTGTACGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAAATATTGAGAA
*
39732084 TGGCACTTAGTGTGCGAGATATTGAGAA
1 TGGCACTTAGTGTGCGAAATATTGAGAA
* * *
39732112 TGACACTTCGTGTGCAAAATAT
1 TGGCACTTAGTGTGCGAAATAT
39732134 CGAATGATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAATATTGAGAA
Found at i:39732454 original size:40 final size:41
Alignment explanation
Indices: 39732306--39732453 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 41
39732296 CGGGCTTCGG
* *
39732306 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGTTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGAGTTTAAA
* * * *
39732349 GCCTAGCAGGCGAAATGCCGGTGAATGAGTT-TAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAG-TTTAAA
* ***
39732390 GTCTAGCAGGCTTTGTGCCGGTG-ATGAATTCGAGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGTTTAAA
*
39732430 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
39732454 TTTGATAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
40 30 0.37
41 29 0.35
42 11 0.13
43 12 0.15
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGTTTAAA
Found at i:39735071 original size:15 final size:15
Alignment explanation
Indices: 39735048--39735094 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
39735038 CATTTCACTA
* *
39735048 TTATGTCTTTTGTAT
1 TTATATCTTTTATAT
39735063 TTATATCTTTTATAT
1 TTATATCTTTTATAT
*
39735078 TCATATCTTTTATAT
1 TTATATCTTTTATAT
39735093 TT
1 TT
39735095 TTCATGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (15 bp):
TTATATCTTTTATAT
Found at i:39740681 original size:23 final size:24
Alignment explanation
Indices: 39740653--39740717 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
39740643 TAATAAGATT
39740653 AATATTAAATTTAATCTAATA-TA
1 AATATTAAATTTAATCTAATATTA
* * *
39740676 AATATTAGATTAAATATAATATTA
1 AATATTAAATTTAATCTAATATTA
*
39740700 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
39740718 ATAGTTGAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 18 0.56
24 4 0.12
25 1 0.03
26 9 0.28
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (24 bp):
AATATTAAATTTAATCTAATATTA
Found at i:39741986 original size:12 final size:12
Alignment explanation
Indices: 39741969--39741995 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39741959 CACTAACTAC
39741969 TTAGTAATTGCA
1 TTAGTAATTGCA
39741981 TTAGTAATTGCA
1 TTAGTAATTGCA
39741993 TTA
1 TTA
39741996 CACCTGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
TTAGTAATTGCA
Found at i:39753019 original size:46 final size:46
Alignment explanation
Indices: 39752838--39753019 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
39752828 TTTGACATGA
* * * ** *
39752838 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
39752884 TGCCATGGTATCTTTCAACCATGGTTTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39752930 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
39752976 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
39753020 AGAGCACACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:39760211 original size:20 final size:21
Alignment explanation
Indices: 39760186--39760224 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
39760176 ATGGGAAAAT
39760186 AATAAAAAATAT-AAAAATTA
1 AATAAAAAATATGAAAAATTA
*
39760206 AATAAAAATTATGAAAAAT
1 AATAAAAAATATGAAAAAT
39760225 AGAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (21 bp):
AATAAAAAATATGAAAAATTA
Found at i:39760470 original size:18 final size:18
Alignment explanation
Indices: 39760449--39760483 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39760439 TAAAATGAAT
39760449 AAAAATATAAAAAATTTG
1 AAAAATATAAAAAATTTG
* *
39760467 AAAAGTATAGAAAATTT
1 AAAAATATAAAAAATTT
39760484 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
AAAAATATAAAAAATTTG
Found at i:39760565 original size:40 final size:40
Alignment explanation
Indices: 39760457--39760564 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 40
39760447 ATAAAAATAT
* * * *
39760457 AAAAAATTTGAAAAGTATAGAAAATTTATTAAAATTTTTAGA
1 AAAAAATAT-AAAAATATA-AAAAATTATTAAAATTTATAGA
39760499 AAAAAATATAAAAATATAAAAAATTATTAAAA-TTATAG-
1 AAAAAATATAAAAATATAAAAAATTATTAAAATTTATAGA
** *
39760537 AAAAAATATTTATATAT-AAAAATTATTA
1 AAAAAATATAAAAATATAAAAAATTATTA
39760565 TAGAATAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
37 11 0.19
38 14 0.24
39 5 0.08
40 13 0.22
41 8 0.14
42 8 0.14
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (40 bp):
AAAAAATATAAAAATATAAAAAATTATTAAAATTTATAGA
Found at i:39761013 original size:17 final size:17
Alignment explanation
Indices: 39760971--39761015 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
39760961 TTTAATGAAA
39760971 ATTTTAAT-TTTTAAAT
1 ATTTTAATATTTTAAAT
*
39760987 ATTTT-CTATTTTATAAT
1 ATTTTAATATTTTA-AAT
39761004 -TTTTAATATTTT
1 ATTTTAATATTTT
39761016 TAACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 14 0.58
17 9 0.38
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTAATATTTTAAAT
Found at i:39761093 original size:23 final size:22
Alignment explanation
Indices: 39761056--39761098 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
39761046 TAATTAAATT
39761056 TATATTTTTCAATATTTTTATA
1 TATATTTTTCAATATTTTTATA
*
39761078 TATATTTTTTCTATATTTTTA
1 TATA-TTTTTCAATATTTTTA
39761099 ACGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (22 bp):
TATATTTTTCAATATTTTTATA
Found at i:39762098 original size:90 final size:90
Alignment explanation
Indices: 39761940--39762105 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
39761930 AACCACAAAG
* * * *
39761940 TTGCAGGTTAATATGTTGCTAAATAGTTGGGAATACACAACATAATTGCATATAAAAGCTGCCAG
1 TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
39762005 ATAATAGGTGGGCGAACCACCAGTT
66 ATAATAGGTGGGCGAACCACCAGTT
* * * * * * **
39762030 TTGCTGGTTAATATGCTGCTAGATGGTTATGAATACATAACATAATTGCAGATAATAGCTACTGG
1 TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
*
39762095 ATAATATGTGG
66 ATAATAGGTGG
39762106 ATGAATCTCC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (90 bp):
TTGCAGGTTAATATGCTGCTAAATAGTTAGGAATACACAACATAATTGCAGATAAAAGCTACCAG
ATAATAGGTGGGCGAACCACCAGTT
Found at i:39766571 original size:28 final size:29
Alignment explanation
Indices: 39766538--39766593 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
39766528 TTTGTAAAAA
*
39766538 TGTAAA-TTAGGGGCTAAATTGTGAAATG
1 TGTAAATTTAGGGGCTAAAATGTGAAATG
*
39766566 TGTAAATTTAGGGGTTAAAATGTGAAAT
1 TGTAAATTTAGGGGCTAAAATGTGAAAT
39766594 AAATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (29 bp):
TGTAAATTTAGGGGCTAAAATGTGAAATG
Found at i:39771882 original size:61 final size:61
Alignment explanation
Indices: 39771815--39771938 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
39771805 ATAAAATTTC
*
39771815 TTAACGAAATTTTCACACATCATATTATCATTCTGTAGACACTAAAATAATAAAATAATTA
1 TTAACGAAATTTTCACACATCATATTATCATGCTGTAGACACTAAAATAATAAAATAATTA
39771876 TTAACGAAATTTTCACACATCATATTATCATGCTGTAGACACTAAAATAATAAAATAATTA
1 TTAACGAAATTTTCACACATCATATTATCATGCTGTAGACACTAAAATAATAAAATAATTA
39771937 TT
1 TT
39771939 TTGACTTTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.35
Consensus pattern (61 bp):
TTAACGAAATTTTCACACATCATATTATCATGCTGTAGACACTAAAATAATAAAATAATTA
Found at i:39773867 original size:5 final size:5
Alignment explanation
Indices: 39773859--39773890 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
39773849 ATTCTTGTGA
39773859 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
39773891 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:39773884 original size:9 final size:9
Alignment explanation
Indices: 39773860--39773890 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
39773850 TTCTTGTGAA
39773860 AAATAAAAT
1 AAATAAAAT
39773869 AAAATAAAAT
1 -AAATAAAAT
39773879 AAATAAAAT
1 AAATAAAAT
39773888 AAA
1 AAA
39773891 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:39778295 original size:5 final size:5
Alignment explanation
Indices: 39778285--39778316 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
39778275 CAATTTGTAA
39778285 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
39778317 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:39778310 original size:9 final size:9
Alignment explanation
Indices: 39778286--39778316 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
39778276 AATTTGTAAA
39778286 AAATAAAAT
1 AAATAAAAT
39778295 AAAATAAAAT
1 -AAATAAAAT
39778305 AAATAAAAT
1 AAATAAAAT
39778314 AAA
1 AAA
39778317 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:39779500 original size:18 final size:19
Alignment explanation
Indices: 39779474--39779509 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39779464 TTGTGTTTGG
*
39779474 TTGTTTTTGTTTT-TGTGT
1 TTGTGTTTGTTTTATGTGT
39779492 TTGTGTTTGTTTTATGTG
1 TTGTGTTTGTTTTATGTG
39779510 CAGCGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.25, T:0.72
Consensus pattern (19 bp):
TTGTGTTTGTTTTATGTGT
Found at i:39785174 original size:25 final size:25
Alignment explanation
Indices: 39785127--39785174 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39785117 TTATAACGTG
* * * *
39785127 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
39785152 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
39785175 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:39785241 original size:20 final size:20
Alignment explanation
Indices: 39785218--39785275 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
39785208 TAAACATGGT
39785218 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
39785238 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
39785258 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
39785276 CTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:39785258 original size:11 final size:11
Alignment explanation
Indices: 39785222--39785275 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
39785212 CATGGTATGT
39785222 ATGATATGCAC
1 ATGATATGCAC
* *
39785233 ATGACATG--T
1 ATGATATGCAC
39785242 ATGATATGCAC
1 ATGATATGCAC
*
39785253 ATGATATG--T
1 ATGATATGCAC
39785262 ATGATATGCAC
1 ATGATATGCAC
39785273 ATG
1 ATG
39785276 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:39785358 original size:23 final size:23
Alignment explanation
Indices: 39785328--39785447 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
39785318 AGGAAGTGAA
*
39785328 AAAGGGCTTATGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39785351 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
39785374 AAAAGGGCTTATGCCTCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
39785398 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39785421 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
39785445 AAA
1 AAA
39785448 AGAGGCTAGC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 46 0.52
24 43 0.48
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:39785383 original size:24 final size:24
Alignment explanation
Indices: 39785327--39785454 Score: 197
Period size: 24 Copynumber: 5.4 Consensus size: 24
39785317 GAGGAAGTGA
*
39785327 AAAAGGGCTTATGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39785351 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
39785374 AAAAGGGCTTATGCCTCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39785398 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39785421 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39785445 AAAAGAGGCT
1 AAAAG-GGCT
39785455 AGCCCTCTAG
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
23 43 0.45
24 48 0.51
25 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39785397 original size:47 final size:47
Alignment explanation
Indices: 39785327--39785447 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
39785317 GAGGAAGTGA
*
39785327 AAAAGGGCTTATGCCCCGGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
39785374 AAAAGGGCTTATGCCTCAATTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
39785421 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
39785448 AGAGGCTAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:39785697 original size:31 final size:31
Alignment explanation
Indices: 39785662--39785725 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
39785652 CGTTTACAGT
*
39785662 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
39785693 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39785724 AA
1 AA
39785726 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39793433 original size:23 final size:23
Alignment explanation
Indices: 39793403--39793522 Score: 213
Period size: 23 Copynumber: 5.1 Consensus size: 23
39793393 AGGAAGTGAA
39793403 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39793426 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39793449 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
39793473 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39793496 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
39793520 AAA
1 AAA
39793523 AGAGGCTTGG
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
23 49 0.52
24 45 0.48
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:39793458 original size:24 final size:24
Alignment explanation
Indices: 39793402--39793543 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
39793392 GAGGAAGTGA
39793402 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39793426 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39793449 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39793473 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39793496 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39793520 AAAAGAGGCTT-GGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
39793544 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
23 46 0.41
24 53 0.47
25 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39793471 original size:47 final size:47
Alignment explanation
Indices: 39793402--39793522 Score: 233
Period size: 47 Copynumber: 2.6 Consensus size: 47
39793392 GAGGAAGTGA
39793402 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
39793449 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
39793496 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
39793523 AGAGGCTTGG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:39793772 original size:31 final size:31
Alignment explanation
Indices: 39793737--39793800 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
39793727 CGTTTACAGT
*
39793737 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
39793768 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
39793799 AA
1 AA
39793801 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:39795729 original size:26 final size:26
Alignment explanation
Indices: 39795700--39795751 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
39795690 TTTAAGTTAT
39795700 ATTAATAAGGTTAGTTTAGTAAATTA
1 ATTAATAAGGTTAGTTTAGTAAATTA
39795726 ATTAATAAGGTTAGTTTAGTAAATTA
1 ATTAATAAGGTTAGTTTAGTAAATTA
39795752 GTAATTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTAATAAGGTTAGTTTAGTAAATTA
Found at i:39811912 original size:15 final size:16
Alignment explanation
Indices: 39811894--39811941 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
39811884 AATAAAAACT
39811894 TTAA-AAAATTTAAAA
1 TTAACAAAATTTAAAA
** *
39811909 TTAACTTAATTGAAAA
1 TTAACAAAATTTAAAA
39811925 -TAACAAAATTTAAAA
1 TTAACAAAATTTAAAA
39811940 TT
1 TT
39811942 TTTCCTTACG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
TTAACAAAATTTAAAA
Found at i:39815101 original size:24 final size:24
Alignment explanation
Indices: 39815069--39815117 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
39815059 CCATTTTATT
*
39815069 TTATATAATATACATAATTCATAC
1 TTATATAATATACATAATCCATAC
* *
39815093 TTATATAATATCCATGATCCATAC
1 TTATATAATATACATAATCCATAC
39815117 T
1 T
39815118 AAAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATAATATACATAATCCATAC
Found at i:39818880 original size:42 final size:42
Alignment explanation
Indices: 39818810--39818957 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 42
39818800 TGTGATTTCG
* * *
39818810 TGTAAAACCATATCTTGGATATGACATCGATATTTGATCTCC
1 TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
* * *** * *
39818852 TGTAAGACCATGTCTAGGACATGGCATCGATACGAGATATCG
1 TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
* *
39818894 TGTAAGACCATAGCT-GGGCTATCGACATCGATATATGTGATC-CC
1 TGTAAGACCATATCTAGGAC-AT-GACATCGATAT-T-TGATCTCC
39818938 ATGTAAGACCATATCTAGGA
1 -TGTAAGACCATATCTAGGA
39818958 TATGGCATTG
Statistics
Matches: 79, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
41 3 0.04
42 47 0.59
43 9 0.11
44 1 0.01
45 17 0.22
46 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGACATGACATCGATATTTGATCTCC
Found at i:39818955 original size:87 final size:84
Alignment explanation
Indices: 39818807--39818965 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 84
39818797 ATGTGTGATT
* * *
39818807 TCGTGTAAAACCATATCTTGGATATGACATCGATATTTGATCTCCTGTAAGACCATGTCTAGGAC
1 TCGTGTAAAACCATAGCTGGGATATGACATCGATATTTGATCTCCTGTAAGACCATATCTAGGAC
39818872 ATGGCATCGATACGAGATA
66 ATGGCATCGATACGAGATA
* *
39818891 TCGTGTAAGACCATAGCTGGGCTATCGACATCGATATATGTGATC-CCATGTAAGACCATATCTA
1 TCGTGTAAAACCATAGCTGGGATAT-GACATCGATAT-T-TGATCTCC-TGTAAGACCATATCTA
*
39818955 GGATATGGCAT
62 GGACATGGCAT
39818966 TGGCATCTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
84 21 0.32
85 11 0.17
86 3 0.05
87 30 0.46
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (84 bp):
TCGTGTAAAACCATAGCTGGGATATGACATCGATATTTGATCTCCTGTAAGACCATATCTAGGAC
ATGGCATCGATACGAGATA
Found at i:39823552 original size:55 final size:55
Alignment explanation
Indices: 39823409--39823552 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 55
39823399 TGCGACATAG
* * * * **
39823409 CCGTGGGCGAACTTGCCAAAACAACACGGGTGTACGACATGCCCGTACCTTGAAA
1 CCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCGACACGCCCGTACCAAGAAA
** * * * *
39823464 CCGTGACCGAACTTGTCAAATTAACACTGGCGTGCGACACGCCCGTGCCAAGAAA
1 CCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCGACACGCCCGTACCAAGAAA
* *
39823519 CCGTGGGTGAACCTGCCAAAATAACACGGGCGTG
1 CCGTGGGCGAACTTGCCAAAATAACACGGGCGTG
39823553 GACCTTTATA
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.16
Consensus pattern (55 bp):
CCGTGGGCGAACTTGCCAAAATAACACGGGCGTGCGACACGCCCGTACCAAGAAA
Found at i:39834826 original size:23 final size:23
Alignment explanation
Indices: 39834800--39834854 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
39834790 CCAATATCGT
*
39834800 AGCATAGCTACTAATAGTAACGC
1 AGCAAAGCTACTAATAGTAACGC
*
39834823 AGCAAAGCTGCTAATAGTAACGC
1 AGCAAAGCTACTAATAGTAACGC
39834846 AGCAAAGCT
1 AGCAAAGCT
39834855 TCTAGTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (23 bp):
AGCAAAGCTACTAATAGTAACGC
Found at i:39835765 original size:20 final size:18
Alignment explanation
Indices: 39835718--39835765 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
39835708 ATGTGGGGCC
*
39835718 CATGAGCCCATTGGGCCCA
1 CATG-GCCCATTAGGCCCA
*
39835737 CACGGCCCATCTAGGCCCAA
1 CATGGCCCAT-TAGGCCC-A
39835757 CATGGCCCA
1 CATGGCCCA
39835766 GAACTACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.23, C:0.42, G:0.23, T:0.12
Consensus pattern (18 bp):
CATGGCCCATTAGGCCCA
Found at i:39837620 original size:19 final size:19
Alignment explanation
Indices: 39837596--39837661 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
39837586 TAGAAAAAAT
39837596 CTGATTTCTAGAACATACA
1 CTGATTTCTAGAACATACA
*
39837615 CTGATTTCCTTAGAA-A-AAA
1 CTGATTT-C-TAGAACATACA
39837634 TCTGATTTCTAGAACATACA
1 -CTGATTTCTAGAACATACA
39837654 CTGATTTC
1 CTGATTTC
39837662 CAGACTCGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.12
19 19 0.47
20 11 0.28
21 5 0.12
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (19 bp):
CTGATTTCTAGAACATACA
Found at i:39837638 original size:39 final size:39
Alignment explanation
Indices: 39837584--39837662 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
39837574 CTGTTGCTAA
39837584 CTTAGAAAAAATCTGATTTCTAGAACATACACTGATTTC
1 CTTAGAAAAAATCTGATTTCTAGAACATACACTGATTTC
39837623 CTTAGAAAAAATCTGATTTCTAGAACATACACTGATTTC
1 CTTAGAAAAAATCTGATTTCTAGAACATACACTGATTTC
39837662 C
1 C
39837663 AGACTCGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (39 bp):
CTTAGAAAAAATCTGATTTCTAGAACATACACTGATTTC
Found at i:39837640 original size:20 final size:20
Alignment explanation
Indices: 39837584--39837642 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
39837574 CTGTTGCTAA
39837584 CTTAGAAAAAATCTGATTT-
1 CTTAGAAAAAATCTGATTTC
*
39837603 C-TAGAACATACA-CTGATTTC
1 CTTAGAA-A-AAATCTGATTTC
39837623 CTTAGAAAAAATCTGATTTC
1 CTTAGAAAAAATCTGATTTC
39837643 TAGAACATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 5 0.15
19 11 0.33
20 12 0.36
21 5 0.15
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (20 bp):
CTTAGAAAAAATCTGATTTC
Found at i:39840756 original size:21 final size:22
Alignment explanation
Indices: 39840730--39840770 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
39840720 AAAATGGGCG
*
39840730 TGTCCC-AGGGTCACACAGGCA
1 TGTCCCTAGGATCACACAGGCA
*
39840751 TGTCCCTTGGATCACACAGG
1 TGTCCCTAGGATCACACAGG
39840771 TGTGTGAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.20
Consensus pattern (22 bp):
TGTCCCTAGGATCACACAGGCA
Found at i:39842485 original size:30 final size:30
Alignment explanation
Indices: 39842451--39842512 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
39842441 ATGTCATTAC
39842451 TAGTACATTCTTTCTACTTGATACTGATGT
1 TAGTACATTCTTTCTACTTGATACTGATGT
*
39842481 TAGTACATTTTTTCTACTTGATACTGATGT
1 TAGTACATTCTTTCTACTTGATACTGATGT
39842511 TA
1 TA
39842513 CTGCTTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (30 bp):
TAGTACATTCTTTCTACTTGATACTGATGT
Found at i:39850845 original size:22 final size:22
Alignment explanation
Indices: 39850812--39850863 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
39850802 TTGATAAGTA
39850812 AAGATAGA-ACTAGAAAGATATC
1 AAGAT-GATACTAGAAAGATATC
*
39850834 AGGATGATACTAGAAAGATATC
1 AAGATGATACTAGAAAGATATC
39850856 AAGATGAT
1 AAGATGAT
39850864 TTAAAGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (22 bp):
AAGATGATACTAGAAAGATATC
Found at i:39851436 original size:15 final size:14
Alignment explanation
Indices: 39851415--39851453 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
39851405 GATATTTTCT
*
39851415 TTTGGATTTCTTTA
1 TTTGGATTTCTATA
39851429 TGTTGGATTTCTATA
1 T-TTGGATTTCTATA
39851444 TTGTGGATTT
1 TT-TGGATTT
39851454 TTCTGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.15, C:0.05, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTGGATTTCTATA
Found at i:39854487 original size:13 final size:15
Alignment explanation
Indices: 39854469--39854501 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
39854459 GATATTAAAT
39854469 AGGAATA-AAAAA-A
1 AGGAATAGAAAAAGA
39854482 AGGAATAGAAAAAGA
1 AGGAATAGAAAAAGA
39854497 AGGAA
1 AGGAA
39854502 AGGATGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (15 bp):
AGGAATAGAAAAAGA
Found at i:39856698 original size:46 final size:46
Alignment explanation
Indices: 39856646--39856875 Score: 361
Period size: 46 Copynumber: 5.0 Consensus size: 46
39856636 AGTGTGCTCT
*
39856646 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
39856692 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
39856738 CTAATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
39856784 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
39856830 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
39856876 ATGACAGAAA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:39856935 original size:92 final size:90
Alignment explanation
Indices: 39856661--39856916 Score: 262
Period size: 92 Copynumber: 2.8 Consensus size: 90
39856651 ATGAAATGTG
* * * ** *
39856661 TAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGA
* * * * **
39856726 TACCATGGCAACCTAATATGAAATGTG
66 CACCATGG-AACAT-ACATGAAAAGAA
* * * *
39856753 TAAGATCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGA
* *
39856818 TACCATGGCAACGTGACATGAAAAGAA
66 CACCATGG-AACAT-ACATGAAAAGAA
39856845 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATG-A--A-TAAGACCATAGTTG
39856909 AAAGACAC
61 AAAGACAC
39856917 TATGACATCA
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 120 0.84
93 1 0.01
95 1 0.01
96 20 0.14
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGA
CACCATGGAACATACATGAAAAGAA
Found at i:39860357 original size:15 final size:15
Alignment explanation
Indices: 39860337--39860367 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39860327 ACAACCTCCC
39860337 CCACCTCCCCCGATT
1 CCACCTCCCCCGATT
*
39860352 CCACCTCCCCTGATT
1 CCACCTCCCCCGATT
39860367 C
1 C
39860368 TTCAACCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.58, G:0.06, T:0.23
Consensus pattern (15 bp):
CCACCTCCCCCGATT
Found at i:39863971 original size:282 final size:282
Alignment explanation
Indices: 39863467--39864030 Score: 1047
Period size: 282 Copynumber: 2.0 Consensus size: 282
39863457 TTTGATGGTT
**
39863467 GCTTGATGTTTAAAAACTGGATTTGTGTACCGAAAAATGATGAGTTGATTCAAAAGATTTTGCAT
1 GCTTGATGTTTAAAAACCAGATTTGTGTACCGAAAAATGATGAGTTGATTCAAAAGATTTTGCAT
*
39863532 GAAGCACATAATGGTTGTTTAGCGGTTCATCCGGGCAGTACGAAAATGTATAATGACTTGAAGAA
66 GAAGCACATAATGGTTGTTTAGCGGTTCATCCGGGCAGTACAAAAATGTATAATGACTTGAAGAA
39863597 AATGTACTGGTGGAGTGGAATGAAAAGAGATATTTCAGAGTTTGTATCAAAGTGCTTAGTTTGTA
131 AATGTACTGGTGGAGTGGAATGAAAAGAGATATTTCAGAGTTTGTATCAAAGTGCTTAGTTTGTA
39863662 AACAAGTGAAAGCTGAACACCAAGTACCTTCTGGATTACTCCAGCCTATCATGATTCCTGAATGG
196 AACAAGTGAAAGCTGAACACCAAGTACCTTCTGGATTACTCCAGCCTATCATGATTCCTGAATGG
39863727 AAATGGGATCGGAGTACTATGG
261 AAATGGGATCGGAGTACTATGG
39863749 GCTTGATGTTTAAAAACCAGATTTGTGTACCGAAAAATGATGAGTTGATTCAAAAGATTTTGCAT
1 GCTTGATGTTTAAAAACCAGATTTGTGTACCGAAAAATGATGAGTTGATTCAAAAGATTTTGCAT
*
39863814 GAAGCACATAATGGTTGTTTGGCGGTTCATCCGGGCAGTACAAAAATGTATAATGACTTGAAGAA
66 GAAGCACATAATGGTTGTTTAGCGGTTCATCCGGGCAGTACAAAAATGTATAATGACTTGAAGAA
* * * *
39863879 AATGTACTGGTGGAGTGGAATGAAAAGAGATATTTTAGAGTTTGTATCAAAGTGTTTTGTTTGTC
131 AATGTACTGGTGGAGTGGAATGAAAAGAGATATTTCAGAGTTTGTATCAAAGTGCTTAGTTTGTA
*
39863944 AACAAGTGAAAGTTGAACACCAAGTACCTTCTGGATTACTCCAGCCTATCATGATTCCTGAATGG
196 AACAAGTGAAAGCTGAACACCAAGTACCTTCTGGATTACTCCAGCCTATCATGATTCCTGAATGG
39864009 AAATGGGATCGGAGTACTATGG
261 AAATGGGATCGGAGTACTATGG
39864031 ATTTTGTATC
Statistics
Matches: 273, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
282 273 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (282 bp):
GCTTGATGTTTAAAAACCAGATTTGTGTACCGAAAAATGATGAGTTGATTCAAAAGATTTTGCAT
GAAGCACATAATGGTTGTTTAGCGGTTCATCCGGGCAGTACAAAAATGTATAATGACTTGAAGAA
AATGTACTGGTGGAGTGGAATGAAAAGAGATATTTCAGAGTTTGTATCAAAGTGCTTAGTTTGTA
AACAAGTGAAAGCTGAACACCAAGTACCTTCTGGATTACTCCAGCCTATCATGATTCCTGAATGG
AAATGGGATCGGAGTACTATGG
Found at i:39865978 original size:30 final size:30
Alignment explanation
Indices: 39865920--39865979 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39865910 TTCCCGAGCC
* ***
39865920 TAGGGGCAAAAGTGTAATTATGTGAAAGTT
1 TAGGGGCAAAAATGTAATTATCCCAAAGTT
*
39865950 TAGGGGCAAAAATGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAATGTAATTATCCCAAAGTT
39865980 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATCCCAAAGTT
Found at i:39871333 original size:20 final size:20
Alignment explanation
Indices: 39871308--39871351 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
39871298 CATGGGTAGA
39871308 CACACGGGCGTGTATCTTGC
1 CACACGGGCGTGTATCTTGC
*
39871328 CACACGGGCGTGTGTCTTGC
1 CACACGGGCGTGTATCTTGC
39871348 CACA
1 CACA
39871352 TAGCCTAGAA
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:0.16, C:0.32, G:0.30, T:0.23
Consensus pattern (20 bp):
CACACGGGCGTGTATCTTGC
Found at i:39875839 original size:45 final size:45
Alignment explanation
Indices: 39875775--39875955 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
39875765 TATCGTACAG
39875775 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
* * ** * *
39875820 TACTATTCGGGCCTTTGAGCCTATCAAGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
* * * * *
39875865 TCCTATTCAGGCCTTTGATCCTAGTAGGCTACAATGCCAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
* *
39875910 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
39875955 T
1 T
39875956 GATATCGGAC
Statistics
Matches: 112, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAA
Found at i:39875930 original size:90 final size:90
Alignment explanation
Indices: 39875777--39875952 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
39875767 TCGTACAGTA
* *
39875777 CTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATACTATTCGGGCCTTTGAGCCT
1 CTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGGGCCTTTGAGCCT
* * *
39875842 ATCAAGCTATGATGCTGGTGAGATC
66 AGCAAGCTATAATGCCGGTGAGATC
* * *
39875867 CTATTCAGGCCTTTGATCCTAGTAGGCTACAATGCCAGTGAAATACTATTTGGGCCTTTGAGCCT
1 CTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGGGCCTTTGAGCCT
*
39875932 AGCAGGCTATAATGCCGGTGA
66 AGCAAGCTATAATGCCGGTGA
39875953 AATGATATCG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (90 bp):
CTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGGGCCTTTGAGCCT
AGCAAGCTATAATGCCGGTGAGATC
Found at i:39876554 original size:16 final size:18
Alignment explanation
Indices: 39876523--39876555 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
39876513 AACTCGTCAC
39876523 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
39876541 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
39876556 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:39879921 original size:29 final size:30
Alignment explanation
Indices: 39879875--39879935 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
39879865 TCCTTAACTC
39879875 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
39879905 AAAC-TTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
39879934 AA
1 AA
39879936 GCTCGGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:39884023 original size:20 final size:20
Alignment explanation
Indices: 39883998--39884042 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
39883988 AGAGACTAAA
* * *
39883998 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTC
39884018 ATGAAAAATTCTAAAATTTC
1 ATGAAAAATTCTAAAATTTC
39884038 ATGAA
1 ATGAA
39884043 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTC
Found at i:39885090 original size:43 final size:43
Alignment explanation
Indices: 39885042--39885127 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
39885032 GAAACATAAC
39885042 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
1 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
39885085 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
1 ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
39885128 TCCATTATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (43 bp):
ATTGTATGCCTAGATTTAACAAGCAAGATTGGTAAGTTTAGTT
Found at i:39887338 original size:18 final size:18
Alignment explanation
Indices: 39887301--39887340 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39887291 TTCTTGTCGA
* *
39887301 AAAATAATTAAATATTTT
1 AAAATAATTAAACATGTT
*
39887319 AAAATAATTAAACGTGTT
1 AAAATAATTAAACATGTT
39887337 AAAA
1 AAAA
39887341 ATATAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
AAAATAATTAAACATGTT
Found at i:39892733 original size:28 final size:29
Alignment explanation
Indices: 39892690--39892804 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
39892680 TACTTGTATC
** *
39892690 TGGCCCATTAAACCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
39892718 TAGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
39892747 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
39892776 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
39892804 T
1 T
39892805 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 25 0.35
29 46 0.64
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:39899323 original size:22 final size:22
Alignment explanation
Indices: 39899298--39899339 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39899288 AGATAATCTT
39899298 TAATATATA-ATTATATCTATTA
1 TAATATATATATTA-ATCTATTA
*
39899320 TAATTTATATATTAATCTAT
1 TAATATATATATTAATCTAT
39899340 ATCAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATATATTAATCTATTA
Found at i:39916289 original size:25 final size:27
Alignment explanation
Indices: 39916234--39916289 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
39916224 AGATTCAACA
* *
39916234 CTTAGGGGTATTTTGGTCATTTTTTCC
1 CTTAGGGGTATTTCGGTCATATTTTCC
39916261 CTTAGGGGTATTTCGGT-A-ATTTTCC
1 CTTAGGGGTATTTCGGTCATATTTTCC
39916286 CTTA
1 CTTA
39916290 ATTATGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 10 0.37
26 1 0.04
27 16 0.59
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.48
Consensus pattern (27 bp):
CTTAGGGGTATTTCGGTCATATTTTCC
Found at i:39916631 original size:29 final size:29
Alignment explanation
Indices: 39916571--39916679 Score: 91
Period size: 28 Copynumber: 3.9 Consensus size: 29
39916561 TACTTGTATC
* * * * *
39916571 TGGCCCATTAAGCTC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATT
*
39916599 TGGCCCATTAGGCCCAAATCACCTGTT-TT
1 TGGCCCATTAGGCCCAAATCACAT-TTATT
**
39916628 TGGCCCA-TATTCCCAAATCACATTTATT
1 TGGCCCATTAGGCCCAAATCACATTTATT
* *
39916656 TGGCCCGTTAGGCCC-AGTCACATT
1 TGGCCCATTAGGCCCAAATCACATT
39916680 CATCTTCATG
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 42 0.66
29 19 0.30
30 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATT
Found at i:39918128 original size:16 final size:16
Alignment explanation
Indices: 39918107--39918137 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39918097 AAAATTCAAG
39918107 ATTTCAGGATTTTTGA
1 ATTTCAGGATTTTTGA
39918123 ATTTCAGGATTTTTG
1 ATTTCAGGATTTTTG
39918138 GGCCGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (16 bp):
ATTTCAGGATTTTTGA
Found at i:39923609 original size:29 final size:28
Alignment explanation
Indices: 39923548--39923649 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
39923538 TACCTGTCTC
*
39923548 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATT-ATA
*
39923576 TGGCCCATTAGGCCCAAATAATATGTATA
1 TGGCCCATTAGGCCCAAATCATAT-TATA
*
39923605 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCATA-TTATA
*
39923634 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
39923650 GTTACATTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.21
29 50 0.76
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCATATTATA
Found at i:39923679 original size:18 final size:17
Alignment explanation
Indices: 39923653--39923695 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
39923643 AGGCCCAGTT
* *
39923653 ACATTCAAATTCATGCTC
1 ACATACAAATTCAT-ATC
*
39923671 ACATACAAATTCCTATC
1 ACATACAAATTCATATC
39923688 ACATACAA
1 ACATACAA
39923696 TCAATATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (17 bp):
ACATACAAATTCATATC
Found at i:39928608 original size:21 final size:21
Alignment explanation
Indices: 39928583--39928669 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
39928573 AGTAAATTTA
* *
39928583 ATTCAATTTAATGAAATTCAT
1 ATTCAATTCAATCAAATTCAT
*
39928604 ATTCAATTCAATCAAATTAAATTT
1 ATTCAATTCAATCAAATT-CA--T
* * *
39928628 AACTCAATTTAATAAAATTCAT
1 -ATTCAATTCAATCAAATTCAT
39928650 ATTCAATTCAATCAAATTCA
1 ATTCAATTCAATCAAATTCA
39928670 CATTTTAGGG
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
21 33 0.63
22 2 0.04
24 2 0.04
25 15 0.29
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (21 bp):
ATTCAATTCAATCAAATTCAT
Found at i:39928628 original size:46 final size:46
Alignment explanation
Indices: 39928575--39928667 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
39928565 ATCTATCGAG
* *
39928575 TAAATTTAATTCAATTTAATGAAATTCATATTCAATTCAATCAAAT
1 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
39928621 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
1 TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
39928667 T
1 T
39928668 CACATTTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (46 bp):
TAAATTTAACTCAATTTAATAAAATTCATATTCAATTCAATCAAAT
Found at i:39932885 original size:46 final size:46
Alignment explanation
Indices: 39932722--39932987 Score: 172
Period size: 46 Copynumber: 5.7 Consensus size: 46
39932712 TTGAGCATCT
* * * * * **
39932722 GAACTCGTTGAATTGAGTCCTAGTGCACTTATGGATGCGAACGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCC
* * *
39932768 GAACTTGTTGAGTTGAGTCCGAGTT--C--ATGAGATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATG-GATGCGAA-T--GC--CC
* * *
39932815 GAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCC
* *
39932861 GAACTCGTTGAGTTGAGTCCGAGTTCG-TGA--GATG-TAATTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAA-T--GC--CC
** * *
39932908 GAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCC
* **
39932954 GAGCTTATTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
39932988 GCGGGTTACA
Statistics
Matches: 168, Mismatches: 32, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
42 7 0.04
43 9 0.05
44 1 0.01
45 5 0.03
46 76 0.45
47 47 0.28
48 6 0.04
49 1 0.01
50 9 0.05
51 7 0.04
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGCCC
Found at i:39932933 original size:47 final size:46
Alignment explanation
Indices: 39932767--39932926 Score: 166
Period size: 47 Copynumber: 3.4 Consensus size: 46
39932757 TGCGAACGTT
* *
39932767 CGAACTTGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-TAGGCATC
* * * * * *
39932814 TGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAAT--GC--C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCG-TGA--GATG-TAATAGGCATC
39932860 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAATTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-TAGGCATC
39932907 CGAACTCGTTGAGTTGAGTC
1 CGAACTCGTTGAGTTGAGTC
39932927 TAAGTTCACT
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 4 0.04
46 25 0.28
47 43 0.48
48 4 0.04
50 5 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAATAGGCATC
Done.