Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 219 of 444
Found at i:61466926 original size:29 final size:28
Alignment explanation
Indices: 61466869--61466983 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 28
61466859 TACCTGTATC
*
61466869 TGGCCCATTAAGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
61466897 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
*
61466926 TGGCCCATTAGCCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
* *
61466955 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
61466983 T
1 T
61466984 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
27 2 0.03
28 24 0.32
29 48 0.63
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:61466960 original size:58 final size:57
Alignment explanation
Indices: 61466860--61466970 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 57
61466850 AAATTCACAT
* *
61466860 ACCTGTATCTGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* *
61466917 ACCTATATATGGCCCATT-AGCCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAG-CCC-AATCACATTCATATGGCCCATTAGGCCCA
61466971 GTCACATTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 2 0.04
57 19 0.40
58 27 0.56
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.25
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:61468895 original size:30 final size:30
Alignment explanation
Indices: 61468880--61469059 Score: 248
Period size: 30 Copynumber: 6.1 Consensus size: 30
61468870 AACCAAAATG
*
61468880 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
61468910 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
61468940 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
61468965 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
61468995 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
61469025 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
61469056 AGAA
1 AGAA
61469060 CCAAATGTGA
Statistics
Matches: 134, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.68
31 17 0.13
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:61468980 original size:85 final size:85
Alignment explanation
Indices: 61468880--61469059 Score: 342
Period size: 85 Copynumber: 2.1 Consensus size: 85
61468870 AACCAAAATG
61468880 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
61468945 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
61468965 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
61469030 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
61469050 AGAATCAGAA
1 AGAATCAGAA
61469060 CCAAATGTGA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:61469059 original size:6 final size:6
Alignment explanation
Indices: 61468880--61469041 Score: 174
Period size: 6 Copynumber: 26.8 Consensus size: 6
61468870 AACCAAAATG
*
61468880 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
61468928 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
61468977 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
61469025 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
61469042 TACGTGACAG
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61469238 original size:27 final size:26
Alignment explanation
Indices: 61469199--61469297 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
61469189 CAGTTATCAT
* *
61469199 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
61469226 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
* *
61469252 ATATTTGTGGCATAGCCACCAGAAACAT
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* *
61469280 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
61469298 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:61469483 original size:22 final size:22
Alignment explanation
Indices: 61469455--61469519 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
61469445 GCAAATACTT
*
61469455 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
61469477 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
61469499 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
61469520 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:61470002 original size:27 final size:27
Alignment explanation
Indices: 61469944--61470255 Score: 338
Period size: 27 Copynumber: 11.3 Consensus size: 27
61469934 AAGGGCAAAA
* * * *
61469944 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61469970 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
61469997 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61470024 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
61470051 CGGTAATTCTACCCTAGAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61470078 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61470105 CTGTATTTCTGTATTTCTACCCTACAGGGGTATTT
1 -TG-------GTAATTCTACCCTACAGGGGTATTT
* *
61470140 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61470167 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61470194 CGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61470221 CGGTAATTCTACCCTGCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
61470248 TGGTAATT
1 TGGTAATT
61470256 TTATTGATCG
Statistics
Matches: 246, Mismatches: 31, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
26 15 0.06
27 206 0.84
28 1 0.00
34 1 0.00
35 23 0.09
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:61470241 original size:143 final size:143
Alignment explanation
Indices: 61469980--61470247 Score: 421
Period size: 143 Copynumber: 1.9 Consensus size: 143
61469970 TGGTAATTCC
* * * **
61469980 ACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
* *
61470045 GTATTTCGGTAATTCTACCCTAGAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
66 GTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
61470110 TTTCTGTATTTCT
131 TTTCTGTATTTCT
*
61470123 ACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGA-TAATTCTACCCTACAGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT-CGAGTAATTCTACCCTACAGG
* * *
61470187 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTGCAGGGGTATTT
65 GGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
61470248 TGGTAATTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
143 112 0.99
144 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (143 bp):
ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
GTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
TTTCTGTATTTCT
Found at i:61470270 original size:27 final size:27
Alignment explanation
Indices: 61470240--61470587 Score: 157
Period size: 27 Copynumber: 13.1 Consensus size: 27
61470230 TACCCTGCAG
* **
61470240 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* **
61470267 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTATAAATC-GA
* *
61470294 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
61470321 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
61470347 GGGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
61470374 -GGTATTTTAGTAATTTCAT-AATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
61470399 GGGTAAAAT-GGTAATTTTGTAAA-CTGA
1 GGGT-ATTTCGGTAATTTTATAAATC-GA
** *
61470426 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
*** * *
61470453 GGGTAAAACAGTAA--TTCTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
61470478 GGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** *
61470505 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** * *
61470532 GGGTGA-AACGGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
* *
61470559 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
61470586 GG
1 GG
61470588 ACATTTTAGT
Statistics
Matches: 257, Mismatches: 47, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
25 25 0.10
26 50 0.19
27 180 0.70
28 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:61470281 original size:54 final size:53
Alignment explanation
Indices: 61470107--61470282 Score: 203
Period size: 54 Copynumber: 3.3 Consensus size: 53
61470097 GGGTATTTCT
* * *
61470107 GTATTTCTGTATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAAGG
*
61470161 GTATTGC-GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGG
1 GTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAAGG
* * * * * *
61470215 GTATTTCGGTAATTCTACCCTGCAGGGGTATTTTGGTAATTTTA-TTGATCGAGG
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT-A-CAAGG
61470269 GTATTTCAGTAATT
1 GTATTTCAGTAATT
61470283 TTGCAAACTG
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 104 0.96
55 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (53 bp):
GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTACAAGG
Found at i:61470438 original size:79 final size:79
Alignment explanation
Indices: 61470393--61470563 Score: 236
Period size: 79 Copynumber: 2.1 Consensus size: 79
61470383 GTAATTTCAT
* * **
61470393 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTACAAATCGAGGGT
61470457 AAAACAGTAATTCTA
65 AAAACAGTAATTCTA
** *
61470472 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGTA
*
61470537 AAACGGTAATTCTGTA
66 AAACAGTAATTC--TA
61470553 AATCGAGGGTA
1 AATCGAGGGTA
61470564 CTTTGGTAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
79 71 0.84
80 1 0.01
81 13 0.15
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (79 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGTA
AAACAGTAATTCTA
Found at i:61470608 original size:81 final size:79
Alignment explanation
Indices: 61470393--61470608 Score: 209
Period size: 79 Copynumber: 2.7 Consensus size: 79
61470383 GTAATTTCAT
* ** ** *
61470393 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGAGGGT
61470457 AAAACAGTAATTCTA
65 AAAACAGTAATTCTA
* ** * *
61470472 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
*
61470537 AAACGGTAATTCTGTA
66 AAACAGTAATTC--TA
*** * * *** *
61470553 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAA
61470609 CTAAAGTATT
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 71 0.61
80 1 0.01
81 45 0.38
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (79 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTA
Found at i:61471949 original size:24 final size:24
Alignment explanation
Indices: 61471920--61472097 Score: 209
Period size: 24 Copynumber: 7.1 Consensus size: 24
61471910 GTAACACCCC
61471920 AATCAGAATCAGAATCAGTAACAG
1 AATCAGAATCAGAATCAGTAACAG
61471944 AATCAGAATCAGAATCAGTAACAG
1 AATCAGAATCAGAATCAGTAACAG
*
61471968 AATCAGAATCA-ATATTAGTAACAG
1 AATCAGAATCAGA-ATCAGTAACAG
61471992 AATCAGAATCAGAATCAGAGTTAGGTGACAG
1 AATCAGAATCAGAATC--AG-TA----ACAG
*
61472023 AATCAGAATCAGAATCAATAACAG
1 AATCAGAATCAGAATCAGTAACAG
**
61472047 AATCAGAATCAGAATCAGTATTAG
1 AATCAGAATCAGAATCAGTAACAG
61472071 TAA-CAGAATCAGAATCAG-AATCAG
1 -AATCAGAATCAGAATCAGTAA-CAG
61472095 AAT
1 AAT
61472098 TACGTGACAG
Statistics
Matches: 134, Mismatches: 8, Indels: 24
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.03
24 100 0.75
25 3 0.02
26 2 0.01
27 2 0.01
28 2 0.01
29 1 0.01
31 20 0.15
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (24 bp):
AATCAGAATCAGAATCAGTAACAG
Found at i:61472115 original size:6 final size:6
Alignment explanation
Indices: 61471920--61472097 Score: 172
Period size: 6 Copynumber: 29.5 Consensus size: 6
61471910 GTAACACCCC
61471920 AATCAG AATCAG AATCAG TAA-CAG AATCAG AATCAG AATCAG TAA-CAG
1 AATCAG AATCAG AATCAG -AATCAG AATCAG AATCAG AATCAG -AATCAG
* * *
61471968 AATCAG AATCA- ATATTAG TAA-CAG AATCAG AATCAG AATCAG AGTTAG
1 AATCAG AATCAG A-ATCAG -AATCAG AATCAG AATCAG AATCAG AATCAG
* *
61472016 -GTGACAG AATCAG AATCAG AATCA- ATAACAG AATCAG AATCAG AATCAG
1 AAT--CAG AATCAG AATCAG AATCAG A-ATCAG AATCAG AATCAG AATCAG
* *
61472065 TATTAG TAA-CAG AATCAG AATCAG AATCAG AAT
1 AATCAG -AATCAG AATCAG AATCAG AATCAG AAT
61472098 TACGTGACAG
Statistics
Matches: 145, Mismatches: 12, Indels: 30
0.78 0.06 0.16
Matches are distributed among these distances:
5 12 0.08
6 122 0.84
7 9 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AATCAG
Found at i:61472325 original size:26 final size:26
Alignment explanation
Indices: 61472257--61472354 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
61472247 CAGTTATCAT
* *
61472257 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
61472284 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
* *
61472310 ATATT-TGTGCATAGCCACCAGAAACAT
1 ATATTGTG-GCAGAGCCACCAG-AACAG
* *
61472337 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
61472355 TTAACAGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.03
26 21 0.34
27 37 0.60
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:61472540 original size:22 final size:22
Alignment explanation
Indices: 61472512--61472576 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
61472502 GCAAATACTT
*
61472512 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
61472534 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
61472556 TTGACAAAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
61472577 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:61473059 original size:27 final size:27
Alignment explanation
Indices: 61473001--61473312 Score: 329
Period size: 27 Copynumber: 11.3 Consensus size: 27
61472991 AAGGGCAAAA
* * * *
61473001 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61473027 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
61473054 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61473081 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
61473108 CGGTAATTCTACCCTAAAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61473135 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
61473162 CTGTATTTCTGTATTTCTACCCTACAGGGGTATTT
1 -TG-------GTAATTCTACCCTACAGGGGTATTT
* * *
61473197 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61473224 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61473251 CGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
61473278 CGGTAATTCTACCCTGCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
61473305 TGGTAATT
1 TGGTAATT
61473313 TTATTGATCG
Statistics
Matches: 246, Mismatches: 31, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
26 15 0.06
27 206 0.84
28 1 0.00
34 1 0.00
35 23 0.09
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:61473298 original size:143 final size:143
Alignment explanation
Indices: 61473037--61473304 Score: 416
Period size: 143 Copynumber: 1.9 Consensus size: 143
61473027 TGGTAATTCC
* * * **
61473037 ACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGG
1 ACCCTACAGGGGTATTTGAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
61473102 GTATTTCGGTAATTCTACCCTAAAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
66 GTATTTCGGTAATTCTACCCTAAAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
61473167 TTTCTGTATTTCT
131 TTTCTGTATTTCT
61473180 ACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTGCGA-TAATTCTACCCTACAG
1 ACCCTACAGGGGTATTT-GAGTAATTCTACCCTACAGGGGTATT-CGAGTAATTCTACCCTACAG
* * *
61473243 GGGTATTTCGGTAATTCTACCCTACAA-GGGTATTTCGGTAATTCTACCCTGCAGGGGTATTT
64 GGGTATTTCGGTAATTCTACCCTA-AAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTT
61473305 TGGTAATTTT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
143 110 0.96
144 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (143 bp):
ACCCTACAGGGGTATTTGAGTAATTCTACCCTACAGGGGTATTCGAGTAATTCTACCCTACAGGG
GTATTTCGGTAATTCTACCCTAAAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCTGTA
TTTCTGTATTTCT
Found at i:61473327 original size:27 final size:27
Alignment explanation
Indices: 61473297--61473646 Score: 166
Period size: 27 Copynumber: 13.1 Consensus size: 27
61473287 TACCCTGCAG
* **
61473297 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* **
61473324 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTATAAATC-GA
*
61473351 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
61473378 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCGGTAATTTTATAAATCGA
* * *
61473404 GGGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
** *
61473431 -GGTATTTTAGTAATTTCAT-AATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** *
61473456 GGGTAAAAT-GGTAATTTTGTAAA-CTGA
1 GGGT-ATTTCGGTAATTTTATAAATC-GA
** *
61473483 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
*** * * *
61473510 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTCGGTAATTTTATAAATCGA
** * *
61473537 GGGTAAAAT-GGTAATTCTATAAATTGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** *
61473564 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
** * *
61473591 GGGTGA-AACGGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTATAAATCGA
* *
61473618 GGGTACTTT-GGTAATTTTACAAATTGA
1 GGGTA-TTTCGGTAATTTTATAAATCGA
61473645 GG
1 GG
61473647 ACATTTTAGT
Statistics
Matches: 262, Mismatches: 46, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
25 7 0.03
26 47 0.18
27 203 0.77
28 5 0.02
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTATAAATCGA
Found at i:61473338 original size:54 final size:53
Alignment explanation
Indices: 61473164--61473339 Score: 194
Period size: 54 Copynumber: 3.3 Consensus size: 53
61473154 GGGTATTTCT
* * * *
61473164 GTATTTCTGTATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAAGG
*
61473218 GTATTGC-GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGG
1 GTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTACAAGG
* * * * * *
61473272 GTATTTCGGTAATTCTACCCTGCAGGGGTATTTTGGTAATTTTA-TTGATCGAGG
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT-A-CAAGG
61473326 GTATTTCAGTAATT
1 GTATTTCAGTAATT
61473340 TTGCAAACTG
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 103 0.96
55 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (53 bp):
GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTACAAGG
Found at i:61473630 original size:81 final size:81
Alignment explanation
Indices: 61473450--61473646 Score: 313
Period size: 81 Copynumber: 2.4 Consensus size: 81
61473440 GTAATTTCAT
* *
61473450 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
61473515 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
61473531 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
61473596 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
*** *
61473612 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGG
61473647 ACATTTTAGT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:61473635 original size:54 final size:54
Alignment explanation
Indices: 61473450--61473622 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
61473440 GTAATTTCAT
*
61473450 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTGTA
** * *
61473504 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
* * *
61473558 AATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
61473612 AATCGAGGGTA
1 AATCGAGGGTA
61473623 CTTTGGTAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
Found at i:61481280 original size:32 final size:32
Alignment explanation
Indices: 61481239--61481304 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
61481229 CATGATATGA
61481239 AGTACTATTTCTAGGAAGAACCATACTTGTTT
1 AGTACTATTTCTAGGAAGAACCATACTTGTTT
*
61481271 AGTACTATTTCTGGGAAGAACCATACTTGTTT
1 AGTACTATTTCTAGGAAGAACCATACTTGTTT
61481303 AG
1 AG
61481305 AAAGTGTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (32 bp):
AGTACTATTTCTAGGAAGAACCATACTTGTTT
Found at i:61482865 original size:18 final size:18
Alignment explanation
Indices: 61482839--61482873 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61482829 TAAATAGTTT
* *
61482839 ATAATTATATTTATTATA
1 ATAAATATATTAATTATA
61482857 ATAAATATATTAATTAT
1 ATAAATATATTAATTAT
61482874 TATCAACTTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATATATTAATTATA
Found at i:61485714 original size:27 final size:27
Alignment explanation
Indices: 61485684--61485737 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61485674 TCATACAACC
* *
61485684 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
61485711 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
61485738 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:61488231 original size:15 final size:16
Alignment explanation
Indices: 61488212--61488256 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
61488202 AGAAGCCCAG
61488212 GATAAAGAAATCCAAT
1 GATAAAGAAATCCAAT
61488228 -ATAAAGAAATCC-AT
1 GATAAAGAAATCCAAT
*
61488242 GATAAGGAAATCCAA
1 GATAAAGAAATCCAA
61488257 ATTACAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 23 0.88
16 1 0.04
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (16 bp):
GATAAAGAAATCCAAT
Found at i:61488404 original size:2 final size:2
Alignment explanation
Indices: 61488397--61488425 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61488387 TATGCTTCTC
61488397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61488426 ATCAGTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61492349 original size:27 final size:27
Alignment explanation
Indices: 61492286--61492349 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
61492276 GTGTAACAAT
* * * *
61492286 TCATACAATCCATGTAATAGTAATTTA
1 TCATTCAATTCATGTAACAATAATTTA
* *
61492313 ACATTCAATTCATGTAACAATAATTTG
1 TCATTCAATTCATGTAACAATAATTTA
61492340 TCATTCAATT
1 TCATTCAATT
61492350 TCACATGACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (27 bp):
TCATTCAATTCATGTAACAATAATTTA
Found at i:61497774 original size:20 final size:20
Alignment explanation
Indices: 61497737--61497781 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
61497727 CTGTTTTATT
*
61497737 ATGGG-CCAATTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
61497756 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
61497776 ATGGGC
1 ATGGGC
61497782 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:61499503 original size:18 final size:19
Alignment explanation
Indices: 61499462--61499505 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
61499452 TTTCAAGCAA
61499462 ACCTTGATGAATTTTTATC
1 ACCTTGATGAATTTTTATC
61499481 ACCTTGATGAATTTTTATC
1 ACCTTGATGAATTTTTATC
61499500 -CCTTGA
1 ACCTTGA
61499506 AACCCAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.45
Consensus pattern (19 bp):
ACCTTGATGAATTTTTATC
Found at i:61501346 original size:20 final size:18
Alignment explanation
Indices: 61501313--61501349 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
61501303 TGTGTTGTTG
61501313 ATATGCTTAATTTAATTA
1 ATATGCTTAATTTAATTA
61501331 ATATGGCTTAAATTTAATT
1 ATAT-GCTT-AATTTAATT
61501350 CGTATTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATATGCTTAATTTAATTA
Found at i:61506525 original size:25 final size:24
Alignment explanation
Indices: 61506497--61506548 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
61506487 ATAGGATACT
**
61506497 TCACAACTTGAAATCTGACCCGTCC
1 TCACAACCCGAAATCTGACCC-TCC
61506522 TCACAACCCGAAATCTGACCCTCC
1 TCACAACCCGAAATCTGACCCTCC
61506546 TCA
1 TCA
61506549 AGAGGTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.40, G:0.10, T:0.21
Consensus pattern (24 bp):
TCACAACCCGAAATCTGACCCTCC
Found at i:61507696 original size:21 final size:23
Alignment explanation
Indices: 61507657--61507709 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
61507647 AAATTTAGTT
61507657 TTTAATATTTATAT-TTTTTTTAG
1 TTTAAT-TTTATATCTTTTTTTAG
61507680 TTTAATTTT-TATCTTTTTTTAG
1 TTTAATTTTATATCTTTTTTTAG
*
61507702 TTAAATTT
1 TTTAATTT
61507710 AATTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 19 0.68
23 6 0.21
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTAATTTTATATCTTTTTTTAG
Found at i:61507699 original size:22 final size:22
Alignment explanation
Indices: 61507657--61507716 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
61507647 AAATTTAGTT
61507657 TTTAATATTTATATTTTTTTTAG
1 TTTAAT-TTTATATTTTTTTTAG
61507680 TTTAATTTT-TATCTTTTTTTAG
1 TTTAATTTTATAT-TTTTTTTAG
*
61507702 -TTAAATTTA-ATTTTT
1 TTTAATTTTATATTTTT
61507717 AATTTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 4 0.12
21 12 0.35
22 12 0.35
23 6 0.18
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTAATTTTATATTTTTTTTAG
Found at i:61507915 original size:19 final size:20
Alignment explanation
Indices: 61507862--61507914 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
61507852 ATATAAAAAT
**
61507862 TAAATATATTTAAAATTCAA
1 TAAATATATAAAAAATTCAA
61507882 TAAATATATAAAAAATTC-A
1 TAAATATATAAAAAATTCAA
*
61507901 TAAAT-TTTAAAAAA
1 TAAATATATAAAAAA
61507915 AAAGTATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 16 0.53
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATATATAAAAAATTCAA
Found at i:61515325 original size:47 final size:47
Alignment explanation
Indices: 61515271--61515557 Score: 405
Period size: 47 Copynumber: 6.1 Consensus size: 47
61515261 TTAGGATTTT
** * * *
61515271 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61515318 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61515365 ATGTGATGAATGTGAACATGCGTACGTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATA--TATGTGATAAGGCCGAATGGCCA
61515414 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61515461 ATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
61515508 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
61515555 ATG
1 ATG
61515558 CGAAATGTGT
Statistics
Matches: 218, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 170 0.78
48 3 0.01
49 45 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61515409 original size:96 final size:94
Alignment explanation
Indices: 61515271--61515557 Score: 405
Period size: 96 Copynumber: 3.0 Consensus size: 94
61515261 TTAGGATTTT
** * * *
61515271 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
61515336 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
* *
61515365 ATGTGATGAATGTGAACATGCGTACGTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAACATGCATA--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
61515430 CATGCATATATGTGATAAGGCCGAATGGCCA
64 CATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61515461 ATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGCCAATGTGATGAACGTGGAA-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAAC
* * * * *
61515525 GTGTATATATGTGGTAAAGCCGAATGGCTA
65 ATGCATATATGTGATAAGGCCGAATGGCCA
61515555 ATG
1 ATG
61515558 CGAAATGTGT
Statistics
Matches: 173, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
94 80 0.46
95 3 0.02
96 90 0.52
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61515418 original size:22 final size:22
Alignment explanation
Indices: 61515393--61515467 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
61515383 TGCGTACGTG
61515393 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
61515415 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
61515440 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
61515462 TGTGAT
1 TGTGAT
61515468 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:61515587 original size:46 final size:46
Alignment explanation
Indices: 61515531--61515667 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
61515521 GGAAGTGTAT
*
61515531 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
61515577 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATAAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * * *
61515623 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
61515668 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:61522125 original size:79 final size:81
Alignment explanation
Indices: 61522024--61522173 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 81
61522014 TATAATAATT
* * *
61522024 CACCGGCATAAATCCTGCTAGGCCTAAGCCTGAATCT-CA-CACCAGCACAAGGCCTGCT-GACT
1 CACCGGCATAAAGCCTGCTAGGCATAAGCCTG-ATCTAAATCACCAGCACAAGGCCTGCTAGACT
61522086 CAAAGTCTGATTTTATA
65 CAAAGTCTGATTTTATA
* * *
61522103 CACCGGCA-ATAAGCCTGCTAGGCATAAGCCTGATTTAAATCACCAGCACAAGGCTTGCTAGGCT
1 CACCGGCATA-AAGCCTGCTAGGCATAAGCCTGATCTAAATCACCAGCACAAGGCCTGCTAGACT
61522167 CAAAGTC
65 CAAAGTC
61522174 CGAATATCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 4 0.07
79 29 0.48
80 18 0.30
81 10 0.16
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (81 bp):
CACCGGCATAAAGCCTGCTAGGCATAAGCCTGATCTAAATCACCAGCACAAGGCCTGCTAGACTC
AAAGTCTGATTTTATA
Found at i:61524305 original size:26 final size:26
Alignment explanation
Indices: 61524273--61524328 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
61524263 CTTCCCGATA
61524273 GGCTCTTTGTGAGCTTCCTGATTA-AT
1 GGCTCTTTGTGAGCTTCCTG-TTATAT
61524299 GGCTCTTTGTGAGCTTCCTGTTATAT
1 GGCTCTTTGTGAGCTTCCTGTTATAT
61524325 GGCT
1 GGCT
61524329 TGAGAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGTTATAT
Found at i:61530808 original size:39 final size:39
Alignment explanation
Indices: 61530763--61530880 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
61530753 AAGCAAGACA
*
61530763 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
61530802 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
61530841 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
61530880 C
1 C
61530881 CGGTAACATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:61534346 original size:40 final size:40
Alignment explanation
Indices: 61534209--61534389 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
61534199 ATGATGTCCA
* *
61534209 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCG
* * * * *
61534249 GACTAGGAT-CTGAAGGCATTCGTGCGAGTTAAC-AAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCAAGTT-ACTAAATCCG
*
61534289 GGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAACCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCG
* * * *
61534328 GGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AATCCG
**
61534368 GGCTTCGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
61534390 AGCGAGTCGT
Statistics
Matches: 113, Mismatches: 21, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.27
40 70 0.62
41 11 0.10
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCG
Found at i:61536640 original size:46 final size:47
Alignment explanation
Indices: 61536587--61536856 Score: 234
Period size: 46 Copynumber: 5.7 Consensus size: 47
61536577 TATTTGTGCT
61536587 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGTAA
* * **
61536633 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTATAAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGTAA
* * * * *
61536677 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGT-A-A
* * * *
61536727 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGA-TTTTGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGT-A-A
* * * *
61536776 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATG--A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGA--GATGTAA
61536823 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
61536857 GCATTATACC
Statistics
Matches: 183, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 46 0.25
47 35 0.19
48 5 0.03
49 34 0.19
50 34 0.19
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTAA
Found at i:61536789 original size:99 final size:96
Alignment explanation
Indices: 61536677--61536852 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
61536667 TATAAGATGT
* *
61536677 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGATATGTGA-GAGCTAGTGTAAGACC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TGG--ATG-GATGAGCCAGTGTAAGACC
61536741 ATGTCTGGGACATGGCGTCAGCCTCGATTTTGATA
62 ATGTCTGGGACATGGCGTCAGCCTCGATTTTGATA
* * *
61536776 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTGGATGGATGAGCCAGTGTAAGACCATGT
61536841 CTGGGACATGGC
66 CTGGGACATGGC
61536853 ATCGGCATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 34 0.48
98 2 0.03
99 33 0.46
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTGGATGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTCAGCCTCGATTTTGATA
Found at i:61536848 original size:146 final size:140
Alignment explanation
Indices: 61536590--61536860 Score: 357
Period size: 146 Copynumber: 1.9 Consensus size: 140
61536580 TTGTGCTGCC
61536590 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTAGG
* * *
61536655 ACATGCATCGGCTATAAGATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGATA
66 ACATGCATCGACTATAAGATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGATA
61536720 TGTGAGAGCT
131 TGTGAGAGCT
* * * *
61536730 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGA-TTTTGATAGTCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGT-A-AGCCAGTGTAAGA-CATGT
* * * *
61536794 TTGGGACATGGCATCGACT-TGATGGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
61 CTAGGACAT-GCATCGACTAT-A-AGATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG
61536858 CAT
123 CAT
61536861 TATACCCTAT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
140 9 0.08
141 16 0.14
142 13 0.12
143 12 0.11
144 13 0.12
145 9 0.08
146 40 0.36
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTAGG
ACATGCATCGACTATAAGATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGATA
TGTGAGAGCT
Found at i:61538790 original size:21 final size:21
Alignment explanation
Indices: 61538766--61538805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
61538756 TGTTTCATGG
*
61538766 GAAAATTTTCTAAGTTTTCCT
1 GAAAATTTTCAAAGTTTTCCT
61538787 GAAAATTTTCAAAGTTTTC
1 GAAAATTTTCAAAGTTTTC
61538806 GGTTTAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
GAAAATTTTCAAAGTTTTCCT
Found at i:61548461 original size:40 final size:40
Alignment explanation
Indices: 61548411--61548510 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
61548401 AATTCGGATA
* *
61548411 TATATATGGCACTCAGTGTGCGATTCAAG-AAAACTTCGGC
1 TATATTTGGCACTTAGTGTGCGATTC-AGCAAAACTTCGGC
* * *
61548451 TATATTTGGCACTTAGTGTGCGATTCGGCATAGCTTCGGC
1 TATATTTGGCACTTAGTGTGCGATTCAGCAAAACTTCGGC
61548491 TATATTTGGCACTTAGTGTG
1 TATATTTGGCACTTAGTGTG
61548511 TGAGACTGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 53 0.98
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
TATATTTGGCACTTAGTGTGCGATTCAGCAAAACTTCGGC
Found at i:61548546 original size:41 final size:42
Alignment explanation
Indices: 61548480--61548598 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 42
61548470 GCGATTCGGC
* ** * * *
61548480 ATAGCTTCGGCTATATTTGGCACTTAGTGTGTGAGACTGA-G
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGAGAGAATGATA
* *
61548521 ATAGCTTCGGCTATGTAAGGAACTTAGTGTGAGA-AATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGAGAGAATGATA
* *
61548562 ATAGCTTCGGCTATGTATCGGCACTTAGTGTGCGAGA
1 ATAGCTTCGGCTATGTA-AGGCACTTAGTGTGAGAGA
61548599 TATCAAATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.05
41 46 0.72
42 14 0.22
43 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (42 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGAGAGAATGATA
Found at i:61549974 original size:17 final size:17
Alignment explanation
Indices: 61549952--61549985 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61549942 CCCAAAGGAA
61549952 CTAAAAGTACTAGTATT
1 CTAAAAGTACTAGTATT
61549969 CTAAAAGTACTAGTATT
1 CTAAAAGTACTAGTATT
61549986 AATTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CTAAAAGTACTAGTATT
Found at i:61555073 original size:40 final size:39
Alignment explanation
Indices: 61555028--61555235 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
61555018 CGGAATACAA
*
61555028 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
61555068 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
61555108 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
61555148 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
61555188 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
61555228 CCGGATAT
1 CCGGATAT
61555236 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:61555175 original size:80 final size:81
Alignment explanation
Indices: 61555028--61555233 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
61555018 CGGAATACAA
* * * *
61555028 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
61555092 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
61555108 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
61555171 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
61555188 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
61555234 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:61557669 original size:28 final size:28
Alignment explanation
Indices: 61557622--61557690 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
61557612 TTTAAAACCC
61557622 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
61557649 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
61557677 TAAGGGTAATTTCG
1 TAGGGGTAATTTCG
61557691 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:61562275 original size:46 final size:46
Alignment explanation
Indices: 61562220--61562400 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
61562210 TAGGATGGTT
61562220 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
61562266 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
61562312 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
61562359 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61562401 GCGGTTACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:61562381 original size:93 final size:93
Alignment explanation
Indices: 61562222--61562392 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
61562212 GGATGGTTGA
* *
61562222 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61562287 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
61562315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61562380 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61562393 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61567245 original size:70 final size:71
Alignment explanation
Indices: 61567162--61567324 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
61567152 CGATTTGTCT
61567162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61567227 C-TTCA
66 CTTTCA
61567232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61567297 CTTTCA
66 CTTTCA
61567303 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61567325 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 66 0.72
71 26 0.28
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61567362 original size:71 final size:69
Alignment explanation
Indices: 61567162--61567358 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
61567152 CGATTTGTCT
* * * *
61567162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61567227 CTTCA
65 CTTCA
* * * *
61567232 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61567297 CTTTCA
65 C-TTCA
* *
61567303 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61567359 TACAGGTGTC
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 67 0.56
71 29 0.24
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTCA
Found at i:61574820 original size:71 final size:71
Alignment explanation
Indices: 61574736--61574899 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61574726 CGATTTGTCT
61574736 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61574801 CTTTCA
66 CTTTCA
61574807 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
61574872 CTTTCA
66 CTTTCA
61574878 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61574900 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:61574937 original size:71 final size:70
Alignment explanation
Indices: 61574736--61574933 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
61574726 CGATTTGTCT
* * * *
61574736 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61574801 CTTTCA
65 CTTTCA
* * * *
61574807 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61574872 CTTTCA
65 CTTTCA
* *
61574878 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61574934 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61578183 original size:40 final size:40
Alignment explanation
Indices: 61578117--61578295 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
61578107 TCGAATGATT
* * * * *
61578117 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61578158 TCCGGGTCAATTCCC-AAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61578197 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61578237 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61578278 -CCGGGCT-ATGTCCCGAAG
1 TCCGGGTTAAT-TCCCGAAG
61578296 ACAATCGAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 22 0.18
40 83 0.70
41 14 0.12
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61578257 original size:80 final size:80
Alignment explanation
Indices: 61578118--61578295 Score: 250
Period size: 80 Copynumber: 2.2 Consensus size: 80
61578108 CGAATGATTT
* *
61578118 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAGGCAATTG
*
61578183 TGCGAGTTACCAAAA
66 TGCGAATTACCAAAA
* * * *
61578198 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCC-AAGGCAATT
* *
61578262 GTGCGAATTACTATAA
65 GTGCGAATTACCAAAA
*
61578278 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
61578296 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 23 0.27
80 63 0.73
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAGGCAATTG
TGCGAATTACCAAAA
Found at i:61578320 original size:80 final size:79
Alignment explanation
Indices: 61578152--61578325 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 79
61578142 GTGCTAAGTG
* * * * *
61578152 ACTAAATCCGGGTCAATTCCCAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTTAATTCCCAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGA
* * * *
61578217 CATTTGTGCGAGTT
66 CAATCGAGCGAGTC
* * *
61578231 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCC-AAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
61578296 ACAATCGAGCTAGTC
65 ACAATCGAGCGAGTC
* *
61578311 GCTATATCC-GGTTAA
1 ACTAAATCCGGGTTAA
61578326 ATTCTGAAGG
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 26 0.33
80 53 0.67
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAATTCCCAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGA
CAATCGAGCGAGTC
Found at i:61584146 original size:28 final size:29
Alignment explanation
Indices: 61584048--61584146 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61584038 TCACAAATTG
* *
61584048 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
61584077 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
61584105 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
61584133 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61584147 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:61591209 original size:23 final size:22
Alignment explanation
Indices: 61591177--61591221 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
61591167 GGAATGGTGA
*
61591177 TTTATTGCATTTTTACTGGCAG
1 TTTATTGCATTGTTACTGGCAG
*
61591199 TTTATCTGCATTGTTATTGGCAG
1 TTTAT-TGCATTGTTACTGGCAG
61591222 AATTTTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.18, C:0.13, G:0.20, T:0.49
Consensus pattern (22 bp):
TTTATTGCATTGTTACTGGCAG
Found at i:61594273 original size:13 final size:13
Alignment explanation
Indices: 61594255--61594279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61594245 GGCGCATTCG
61594255 TAGTTAATTTAGC
1 TAGTTAATTTAGC
61594268 TAGTTAATTTAG
1 TAGTTAATTTAG
61594280 TTTTAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TAGTTAATTTAGC
Found at i:61597739 original size:22 final size:22
Alignment explanation
Indices: 61597714--61597760 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
61597704 AGATAGAAGC
*
61597714 TAGAAGTAGCATGAGAACAGCT
1 TAGAAGTAGCATGAGAACAACT
*
61597736 TAGAAGTAGCGTGAGAACAACT
1 TAGAAGTAGCATGAGAACAACT
61597758 TAG
1 TAG
61597761 CTCATAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (22 bp):
TAGAAGTAGCATGAGAACAACT
Found at i:61599169 original size:27 final size:27
Alignment explanation
Indices: 61599111--61599180 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
61599101 AGTAGAAGGC
*
61599111 TTATAAATA-AAAAATTAATAACTTTA
1 TTATAAATATAAAAATTAATAACTTAA
61599137 TT-TAAATATAATTAAA-TAATAA-TTAA
1 TTATAAATATAA--AAATTAATAACTTAA
*
61599163 TTATAAA-ATAAATATTAA
1 TTATAAATATAAAAATTAA
61599181 AGACCCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
24 2 0.05
25 9 0.24
26 13 0.35
27 10 0.27
28 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (27 bp):
TTATAAATATAAAAATTAATAACTTAA
Found at i:61599839 original size:3 final size:3
Alignment explanation
Indices: 61599831--61599884 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
61599821 TTATCCAATT
61599831 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61599879 TAA TAA
1 TAA TAA
61599885 CTACGAGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61600197 original size:19 final size:19
Alignment explanation
Indices: 61600165--61600201 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61600155 TTTAAAAAAT
* *
61600165 ATTTTTATACTTTTTAATA
1 ATTTTAATAATTTTTAATA
61600184 ATTTTAATAATTTTTAAT
1 ATTTTAATAATTTTTAAT
61600202 TTATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAATAATTTTTAATA
Found at i:61600201 original size:10 final size:10
Alignment explanation
Indices: 61600135--61600201 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 10
61600125 CAAGTTAACA
61600135 TTTAATTAATT
1 TTTAA-TAATT
61600146 TTTAA-AATT
1 TTTAATAATT
*
61600155 TTTAAAAAATAT
1 TTT-AATAAT-T
* *
61600167 TTTTATACTT
1 TTTAATAATT
61600177 TTTAATAA-T
1 TTTAATAATT
61600186 TTTAATAATT
1 TTTAATAATT
61600196 TTTAAT
1 TTTAAT
61600202 TTATAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.34
10 16 0.34
11 11 0.23
12 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAATAATT
Found at i:61602524 original size:10 final size:10
Alignment explanation
Indices: 61602509--61602535 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
61602499 ATGCTTGTTC
61602509 AAGCTCGGTT
1 AAGCTCGGTT
61602519 AAGCTCGGTT
1 AAGCTCGGTT
61602529 AAGCTCG
1 AAGCTCG
61602536 TACTTTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (10 bp):
AAGCTCGGTT
Found at i:61606895 original size:40 final size:40
Alignment explanation
Indices: 61606851--61606991 Score: 255
Period size: 40 Copynumber: 3.5 Consensus size: 40
61606841 TTGGCTCAGA
* *
61606851 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCTGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGT
61606891 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGT
*
61606931 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGT
61606971 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
61606992 TATGCACATA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCTGGT
Found at i:61614374 original size:37 final size:37
Alignment explanation
Indices: 61614324--61614397 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
61614314 TGATCCTTTC
61614324 TTGCATGGACCCTACCACGGAAGAATCAAAAAATGGG
1 TTGCATGGACCCTACCACGGAAGAATCAAAAAATGGG
*
61614361 TTGCATGGACCCTACCGCGGAAGAATCAAAAAATGGG
1 TTGCATGGACCCTACCACGGAAGAATCAAAAAATGGG
61614398 GTTCTCCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (37 bp):
TTGCATGGACCCTACCACGGAAGAATCAAAAAATGGG
Found at i:61620075 original size:28 final size:27
Alignment explanation
Indices: 61620027--61620098 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 27
61620017 ATTTGACTAA
*
61620027 GTTTAAAAAATTTTAGTTAAGGTCTAG
1 GTTTAAAAATTTTTAGTTAAGGTCTAG
*
61620054 GTTTAAACAGTTTTTAGTTAAGGTCTAG
1 GTTTAAA-AATTTTTAGTTAAGGTCTAG
61620082 GTTTAAAAATTTTTAGT
1 GTTTAAAAATTTTTAGT
61620099 AACGGGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (27 bp):
GTTTAAAAATTTTTAGTTAAGGTCTAG
Found at i:61621513 original size:20 final size:20
Alignment explanation
Indices: 61621466--61621519 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
61621456 TGCATTTAAT
61621466 TTTTTAAAAGTTTAATCATTC
1 TTTTTAAAA-TTTAATCATTC
*
61621487 TTTTTAAAATTATAATTATTC
1 TTTTTAAAATT-TAATCATTC
61621508 -TTTTAAAATTTA
1 TTTTTAAAATTTA
61621520 TGTTAAACGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 17 0.55
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAAAATTTAATCATTC
Found at i:61623185 original size:23 final size:23
Alignment explanation
Indices: 61623133--61623190 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
61623123 TAATATTTTT
61623133 ATATTTAAAATTATTTAATATAA
1 ATATTTAAAATTATTTAATATAA
* *
61623156 TTCATTTAATA-TATTTAATATTAA
1 AT-ATTTAAAATTATTTAATA-TAA
61623180 ATATTTTAAAA
1 ATA-TTTAAAA
61623191 AAATCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTTAAAATTATTTAATATAA
Found at i:61628092 original size:21 final size:22
Alignment explanation
Indices: 61628046--61628092 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
61628036 TTTTTTAATC
* *
61628046 TAAACCTTAAATCTCGAATTCA
1 TAAACCCTAAACCTCGAATTCA
*
61628068 -AAACCCTAAACCTTGAATT-A
1 TAAACCCTAAACCTCGAATTCA
61628088 TAAAC
1 TAAAC
61628093 TCAAACTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (22 bp):
TAAACCCTAAACCTCGAATTCA
Found at i:61634983 original size:2 final size:2
Alignment explanation
Indices: 61634976--61635006 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61634966 AATTGAATGT
61634976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61635007 TAATTGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61635508 original size:24 final size:23
Alignment explanation
Indices: 61635481--61635525 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
61635471 CAGTTATTGA
61635481 CTCGCATGAGCTTCCCTATTATGG
1 CTCGCATGAGCTTCCC-ATTATGG
61635505 CTCGCATGAGCTTCCCATTAT
1 CTCGCATGAGCTTCCCATTAT
61635526 ATAGCCCGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (23 bp):
CTCGCATGAGCTTCCCATTATGG
Found at i:61640599 original size:19 final size:20
Alignment explanation
Indices: 61640572--61640609 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61640562 TCTAGTAGGT
*
61640572 GAAGGAGAAGAAA-AGAAGA
1 GAAGAAGAAGAAAGAGAAGA
61640591 GAAGAAGAAGAAAGAGAAG
1 GAAGAAGAAGAAAGAGAAG
61640610 GGGAGGGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAGAAAGAGAAGA
Found at i:61641400 original size:11 final size:11
Alignment explanation
Indices: 61641361--61641397 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
61641351 ATTATGTCTC
61641361 GTTTATGTTAT
1 GTTTATGTTAT
61641372 GTTTATGTTAT
1 GTTTATGTTAT
* *
61641383 ATTTTTGTTAT
1 GTTTATGTTAT
61641394 GTTT
1 GTTT
61641398 TTGCTATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (11 bp):
GTTTATGTTAT
Found at i:61644125 original size:65 final size:64
Alignment explanation
Indices: 61643938--61644161 Score: 351
Period size: 64 Copynumber: 3.5 Consensus size: 64
61643928 ACAAACTTAG
61643938 CTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
1 CTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
61644002 CTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
1 CTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
* * * * *
61644066 CATTGTAATATAATTTTTTTTTATATAAATTAAATGCATTACAA-CATTAATCTAATTGGAACAA
1 CTTTGTAATATAA-ATTATGTTATATAAATTAAATACATTACAACCA-TAATCTAATTGGAACAA
61644130 A
64 A
* * *
61644131 CTTTGTAATATAATTTTTTTTATATAAATTA
1 CTTTGTAATATAAATTATGTTATATAAATTA
61644162 CATAAACTCA
Statistics
Matches: 152, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
64 96 0.63
65 56 0.37
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (64 bp):
CTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
Found at i:61646648 original size:22 final size:22
Alignment explanation
Indices: 61646622--61646669 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
61646612 TTTACTCTAT
* *
61646622 AATTTCAATTGTACGAAGACTA
1 AATTTCAAATATACGAAGACTA
*
61646644 AATTTCAAATATATGAAGACTA
1 AATTTCAAATATACGAAGACTA
61646666 AATT
1 AATT
61646670 CCTGAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (22 bp):
AATTTCAAATATACGAAGACTA
Found at i:61649300 original size:21 final size:20
Alignment explanation
Indices: 61649269--61649328 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
61649259 TCATAAAATT
* *
61649269 TTTTAAAAAATTACATGAGTAA
1 TTTT-AAAAATTACA-AAATAA
*
61649291 TTTTAAAAATTTCAAAATAA
1 TTTTAAAAATTACAAAATAA
61649311 TTTTAAAAATT-CAAAATA
1 TTTTAAAAATTACAAAATA
61649329 TTTATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.20
20 15 0.43
21 9 0.26
22 4 0.11
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTAAAAATTACAAAATAA
Found at i:61649323 original size:19 final size:19
Alignment explanation
Indices: 61649288--61649341 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
61649278 ATTACATGAG
61649288 TAATTTTAAAAATTTCAAAA
1 TAATTTTAAAAA-TTCAAAA
61649308 TAATTTTAAAAATTCAAAA
1 TAATTTTAAAAATTCAAAA
*
61649327 T-ATTTATATAAATTC
1 TAATTT-TAAAAATTC
61649342 CAACTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 4 0.12
19 16 0.50
20 12 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTTTAAAAATTCAAAA
Found at i:61649391 original size:21 final size:19
Alignment explanation
Indices: 61649367--61649422 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 19
61649357 TTAACAAATA
61649367 TAAAAATTATAAAAAAATTCT
1 TAAAAATTATAAAAAAA--CT
*
61649388 TAAAGAATATATAAAAAAAGT
1 TAAA-AAT-TATAAAAAAACT
61649409 TAAAAATTA-AAAAA
1 TAAAAATTATAAAAA
61649423 TCTAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.16
19 2 0.06
20 3 0.09
21 9 0.28
22 3 0.09
23 10 0.31
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
TAAAAATTATAAAAAAACT
Found at i:61652987 original size:31 final size:31
Alignment explanation
Indices: 61652926--61652988 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
61652916 AATTTATATC
*
61652926 TTTATAATTTGTAAAGGATTAAATTGAATTT
1 TTTATAATTTGTAAAGGATTAAAGTGAATTT
** *
61652957 TTTATAATTT-TAGGGGGTTAAAGTGCAATTT
1 TTTATAATTTGTAAAGGATTAAAGTG-AATTT
61652988 T
1 T
61652989 ACCTTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (31 bp):
TTTATAATTTGTAAAGGATTAAAGTGAATTT
Found at i:61653527 original size:2 final size:2
Alignment explanation
Indices: 61653520--61653547 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61653510 AAATAAATAA
61653520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61653548 TCAAGGTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61654218 original size:20 final size:21
Alignment explanation
Indices: 61654193--61654238 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
61654183 AAAATTACAA
*
61654193 AAAAATTCAAAATA-ATTTTT
1 AAAAATTCAAAATATATATTT
61654213 AAAAATTCAAAATATATATTT
1 AAAAATTCAAAATATATATTT
61654234 AAAAA
1 AAAAA
61654239 AATATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTCAAAATATATATTT
Found at i:61664147 original size:19 final size:19
Alignment explanation
Indices: 61664125--61664161 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61664115 AATATGTAAT
*
61664125 TAGCTAATTACTATGGATA
1 TAGCTAATTACTAGGGATA
*
61664144 TAGCTGATTACTAGGGAT
1 TAGCTAATTACTAGGGAT
61664162 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (19 bp):
TAGCTAATTACTAGGGATA
Found at i:61675249 original size:20 final size:20
Alignment explanation
Indices: 61675210--61675250 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
61675200 ATGCAATATG
*
61675210 TCATGCATTGTATCATAATA
1 TCATGCATTGTATCAAAATA
61675230 TCATGCA-TGTATACAAAATA
1 TCATGCATTGTAT-CAAAATA
61675250 T
1 T
61675251 ATAAAATGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGCATTGTATCAAAATA
Found at i:61679150 original size:124 final size:124
Alignment explanation
Indices: 61678928--61679152 Score: 299
Period size: 124 Copynumber: 1.8 Consensus size: 124
61678918 GAATTATGTG
* * * * * * *
61678928 AAATGAAATATGGATGTGTAATGATTATCGATTTTTGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* ** **
61678993 GCTAAGTCCCGAAGGTGATTATGCTAGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGACCCGAAGACGATTATGCTAGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
61679052 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
61679117 GCTAAGACCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGACCCGAAGACGATTA-TGCTAGAAATTATAT
61679153 CCGGGCTAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
123 3 0.04
124 82 0.96
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGACCCGAAGACGATTATGCTAGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:61683840 original size:29 final size:29
Alignment explanation
Indices: 61683778--61683880 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
61683768 GTGACGAGAT
* * *
61683778 TGGCACTGAGTGTGTGAGCTTGTAAT-GTA
1 TGGCACTAAGTGTGCGAGCTTG-AATCATA
* * *
61683807 CGGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* *
61683836 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
61683865 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61683881 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
28 1 0.02
29 57 0.97
30 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:61694938 original size:24 final size:24
Alignment explanation
Indices: 61694910--61694970 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
61694900 AACTGTATTT
* * *
61694910 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
61694934 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
61694958 GCACACATAGTGC
1 GCACACATAGTGC
61694971 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:61696870 original size:40 final size:40
Alignment explanation
Indices: 61696743--61696872 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
61696733 TTGCTGGAAA
* * *
61696743 TTATATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGG-CATTCGTGCGAGTGG
* * *
61696783 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
61696823 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
61696863 TTATATCCGG
1 TTATATCCGG
61696873 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 5 0.06
40 72 0.94
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:61702793 original size:30 final size:30
Alignment explanation
Indices: 61702759--61702819 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61702749 TCCTTAACTC
61702759 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61702789 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61702819 A
1 A
61702820 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61705073 original size:20 final size:21
Alignment explanation
Indices: 61705023--61705074 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
61705013 AACCCATCCC
* * *
61705023 TATGCAATATGTCATGCATCG
1 TATGCAAAATATCATACATCG
*
61705044 TAT-CATAATATCATACAT-G
1 TATGCAAAATATCATACATCG
61705063 TATGCAAAATAT
1 TATGCAAAATAT
61705075 ATAAAATGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 3 0.12
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (21 bp):
TATGCAAAATATCATACATCG
Found at i:61705413 original size:17 final size:17
Alignment explanation
Indices: 61705387--61705432 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
61705377 GTTTACCCGT
*
61705387 GTGGGTCCCACAAGTCC
1 GTGGGGCCCACAAGTCC
*
61705404 GTGGGGCCCACAAGTTC
1 GTGGGGCCCACAAGTCC
61705421 GTGGGGCCCACA
1 GTGGGGCCCACA
61705433 CGACCTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (17 bp):
GTGGGGCCCACAAGTCC
Found at i:61707560 original size:18 final size:17
Alignment explanation
Indices: 61707533--61707568 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
61707523 TAAGCAAGCT
61707533 AAACAAAAACAAAATAA
1 AAACAAAAACAAAATAA
61707550 AAACTAAAAACAAAATAA
1 AAAC-AAAAACAAAATAA
61707568 A
1 A
61707569 TTGAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.08
Consensus pattern (17 bp):
AAACAAAAACAAAATAA
Found at i:61710961 original size:13 final size:12
Alignment explanation
Indices: 61710926--61710968 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
61710916 CGTATACATA
61710926 ATTCATATAACT
1 ATTCATATAACT
61710938 ACTTCCATATAACT
1 A-TT-CATATAACT
*
61710952 GATTCATATAATT
1 -ATTCATATAACT
61710965 ATTC
1 ATTC
61710969 TGTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 11 0.41
15 1 0.04
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (12 bp):
ATTCATATAACT
Found at i:61711013 original size:13 final size:13
Alignment explanation
Indices: 61710997--61711056 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
61710987 TAACCGATTC
61710997 ATATAATCATTTT
1 ATATAATCATTTT
*
61711010 ATATATTCATTTTT
1 ATATAATCA-TTTT
* *
61711024 CCATATAACCGA-TTC
1 --ATATAATC-ATTTT
61711039 ATATAATCATTTT
1 ATATAATCATTTT
61711052 ATATA
1 ATATA
61711057 TTCGTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
12 1 0.03
13 22 0.61
14 4 0.11
15 2 0.06
16 6 0.17
17 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:61711040 original size:42 final size:41
Alignment explanation
Indices: 61710940--61711068 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 41
61710930 ATATAACTAC
* * * * *
61710940 TTCCATATAACTGATTCATATAATTATTCTGTATATT-TAT
1 TTCCATATAACCGATTCATATAATCATTTTATATATTCTTT
*
61710980 GTCCATATAACCGATTCATATAATCATTTTATATATTCATTT
1 TTCCATATAACCGATTCATATAATCATTTTATATATTC-TTT
61711022 TTCCATATAACCGATTCATATAATCATTTTATATATTCGTTT
1 TTCCATATAACCGATTCATATAATCATTTTATATATTC-TTT
61711064 TTCCA
1 TTCCA
61711069 CCCAATGAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 32 0.41
42 47 0.59
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (41 bp):
TTCCATATAACCGATTCATATAATCATTTTATATATTCTTT
Found at i:61711141 original size:25 final size:24
Alignment explanation
Indices: 61711108--61711174 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
61711098 ATACACAAGA
*
61711108 ATAATGCTCATACAAGCTATAACT
1 ATAATGCTCACACAAGCTATAACT
* * *
61711132 ATAATTGCTCACCCGAGCTATAATT
1 ATAA-TGCTCACACAAGCTATAACT
*
61711157 GTAAATGCTCACACAAGC
1 AT-AATGCTCACACAAGC
61711175 AATGAAATGG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
24 4 0.12
25 28 0.82
26 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (24 bp):
ATAATGCTCACACAAGCTATAACT
Found at i:61722419 original size:27 final size:27
Alignment explanation
Indices: 61722379--61722554 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
61722369 AACACTCCAG
61722379 GAAAGGAATGCCTTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
61722406 GAAAGGAATACCTTTGTGGCAATATCT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
61722433 -AAGAGAAATGCCTTTGTGGCAATTTAT
1 GAA-AGGAATGCCTTTGTGGCAATATAT
* *
61722460 GAAATGAATGCCCTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
** * *
61722487 GAAAAAAATGCCTTTGTGACAATATAC
1 GAAAGGAATGCCTTTGTGGCAATATAT
* * * *
61722514 GAAAAG-ATGTCTTTGTGGTAGA-ATTT
1 GAAAGGAATGCCTTTGTGGCA-ATATAT
*
61722540 GGAAGGAATGCCTTT
1 GAAAGGAATGCCTTT
61722555 ACGACATACT
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 19 0.16
27 100 0.83
28 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAATATAT
Found at i:61735889 original size:40 final size:40
Alignment explanation
Indices: 61735840--61735947 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
61735830 CACAATTTGT
*
61735840 ACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCA-CTAGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCAGC-AGC
* * *
61735880 ACAATTGCCTTCGGGTCTTAACCCGGATGTAATTAGCAGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCAGCAGC
* * *
61735920 ATAAATGTCTTCGGGACTTAGCCCGGAT
1 ACAAATGCCTTCGGGTCTTAGCCCGGAT
61735948 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 57 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCAGCAGC
Found at i:61744447 original size:57 final size:58
Alignment explanation
Indices: 61744330--61744454 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 58
61744320 CATTACAGAA
* *
61744330 AGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAAAGAT
1 AGGATTTAGCCCGGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAAAGAT
* * *
61744388 AGGATTTGGCCCGGACGGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTTGGAA-AT
1 AGGATTTAGCCCGGACGGGTAATCCTGATATAAGCCCTCT-TGAGCATATGTT-AAAGAT
61744445 AGGATTTAGC
1 AGGATTTAGC
61744455 TTGGACAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 1 0.02
57 30 0.51
58 28 0.47
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (58 bp):
AGGATTTAGCCCGGACGGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAAAGAT
Found at i:61755072 original size:27 final size:26
Alignment explanation
Indices: 61755024--61755083 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61755014 GCGAGGCTGC
*
61755024 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
61755051 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61755077 CAGATAT
1 CAGATAT
61755084 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61755447 original size:27 final size:27
Alignment explanation
Indices: 61755417--61755604 Score: 259
Period size: 27 Copynumber: 7.0 Consensus size: 27
61755407 GGGGTAAAAT
* * * *
61755417 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
61755444 GGTAATTCTACCTTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
61755471 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61755498 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61755525 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61755552 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
61755579 GGTATTTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
61755605 TGGTGATTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:61755632 original size:81 final size:81
Alignment explanation
Indices: 61755417--61755639 Score: 259
Period size: 81 Copynumber: 2.8 Consensus size: 81
61755407 GGGGTAAAAT
* * * ** * * *
61755417 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAAGAGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCAAACAAGGGCATTTTAGTAATTCTAC
*
61755482 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
** * *
61755498 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCAAACAAGGGCATTTTAGTAATTCTAC
61755563 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * *
61755579 GGTATTTCTACCCTACAGGGGTATTTTGGTGATTTTA-TAAACCAAGGGCATTTTAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCAAA-CAAGGGCATTTTAGTAATT
61755640 TTATAAACTA
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 122 0.99
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCAAACAAGGGCATTTTAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:61755782 original size:27 final size:27
Alignment explanation
Indices: 61755597--61755775 Score: 232
Period size: 27 Copynumber: 6.6 Consensus size: 27
61755587 TACCCTACAG
*
61755597 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
61755624 GGGCATTTTAGTAATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
61755651 GGGTTTTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
61755678 GGGTATTTTGGTAAATTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
61755705 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
61755732 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
61755759 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
61755776 GGTAAACTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:61755782 original size:54 final size:54
Alignment explanation
Indices: 61755594--61755775 Score: 265
Period size: 54 Copynumber: 3.4 Consensus size: 54
61755584 TTCTACCCTA
* * *
61755594 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGCATTTTAGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
* * * * * * *
61755648 TAAGGGTTTTTTAGTAATTTTGTAAACCAAGGGTATTTTGGTAAATTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
61755702 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
61755756 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
61755776 GGTAAACTAA
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
Found at i:61764540 original size:61 final size:61
Alignment explanation
Indices: 61764468--61764678 Score: 289
Period size: 61 Copynumber: 3.5 Consensus size: 61
61764458 ATTAAGGGAT
*
61764468 GCCTTTTTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
1 GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* *
61764529 GCCTTTGTGGTGAGTACTGAATA-TAAAGGACAACCTTTATGGCAAAACATTGGACAAGAAA
1 GCCTTTGTGGTGAGTACTGAA-AGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* * * * * * *
61764590 GCCTTTATGGTGAGTATTGAATGTAAAGGATAGCCTTTATGGCAAAACTCTGGATAGGAAA
1 GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
* * *
61764651 GCCTTTGAGGCGAGTACTGAATGTAAAG
1 GCCTTTGTGGTGAGTACTGAAAGTAAAG
61764679 AAAAGTCTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
61 131 0.99
62 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (61 bp):
GCCTTTGTGGTGAGTACTGAAAGTAAAGGACAACCTTTATGGCAAAACTTTGGACAGGAAA
Found at i:61765004 original size:25 final size:25
Alignment explanation
Indices: 61764976--61765025 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
61764966 ATGAACAATC
*
61764976 CTCTGAAGATAAAGTAAAG-GTAAGA
1 CTCTAAAGATAAAGT-AAGTGTAAGA
*
61765001 CTCTAAAGATAAGGTAAGTGTAAGA
1 CTCTAAAGATAAAGTAAGTGTAAGA
61765026 GATGATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (25 bp):
CTCTAAAGATAAAGTAAGTGTAAGA
Found at i:61771986 original size:29 final size:29
Alignment explanation
Indices: 61771954--61772027 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
61771944 CCTTCGAGCT
**
61771954 TGCACACCCAGTGCTGTATATTTCCAGCA
1 TGCACACCCAGTGCCATATATTTCCAGCA
**
61771983 TGCACACTTAGTGCCATATATTTCCAGCA
1 TGCACACCCAGTGCCATATATTTCCAGCA
**
61772012 TGCACACTTAGTGCCA
1 TGCACACCCAGTGCCA
61772028 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGCACACCCAGTGCCATATATTTCCAGCA
Found at i:61779890 original size:29 final size:28
Alignment explanation
Indices: 61779858--61779929 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
61779848 CTTCGAGCTC
*
61779858 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATA-TTCCAGCAT
**
61779887 GCACACTTAGTGCCATATATTCCAGCAT
1 GCACACCCAGTGCCATATATTCCAGCAT
**
61779915 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
61779930 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (28 bp):
GCACACCCAGTGCCATATATTCCAGCAT
Found at i:61779918 original size:28 final size:29
Alignment explanation
Indices: 61779866--61779929 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 29
61779856 TCGCACACCC
*
61779866 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61779895 AGTGCCATATA-TTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61779923 AGTGCCA
1 AGTGCCA
61779930 ATCTCGTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:61781805 original size:80 final size:81
Alignment explanation
Indices: 61781708--61781886 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
61781698 GCTCGATTGT
* * * * *
61781708 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
61781772 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
61781788 CTTCGGGACTTAACCCGGTTTTCGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
61781853 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
*
61781869 CTTCGAGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
61781887 ATACCATTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 57 0.68
81 27 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:61781886 original size:41 final size:41
Alignment explanation
Indices: 61781708--61781888 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 41
61781698 GCTCGATTGT
* * *
61781708 CTTCGGGACA-TAGCCCGG-TTATAGTGA-TTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTTAGCACAAATGC
*
61781748 CTTCGGGAATTAGCCCGGATTTAGTAAC-TCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTTAGCACAAATGC
* * * * *
61781788 CTTCGGGACTTAACCCGGTTTTCGTAACTCA-CACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTTAGCACAAATGC
* *
61781828 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAACTTAGCACAAATGC
* *
61781869 CTTCGAGACTTAGCCCGGAT
1 CTTCGGGAATTAGCCCGGAT
61781889 ACCATTCGAA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 89 0.76
41 26 0.22
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTTAGCACAAATGC
Found at i:61784772 original size:40 final size:40
Alignment explanation
Indices: 61784727--61784893 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
61784717 CGGAATATAA
61784727 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61784767 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
61784807 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61784847 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61784886 CCGGATAT
1 CCGGATAT
61784894 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.