Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 163 of 335
Found at i:48008879 original size:31 final size:31
Alignment explanation
Indices: 48008841--48008914 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
48008831 TGGTTACTAG
48008841 GCCGAAGCCTTTTCATAAATCATACCACTGC
1 GCCGAAGCCTTTTCATAAATCATACCACTGC
* *
48008872 GCCGAAGCCTTTTCATAAATCATATCACTGG
1 GCCGAAGCCTTTTCATAAATCATACCACTGC
*
48008903 GCCAAAGCCTTT
1 GCCGAAGCCTTT
48008915 ACTGTAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (31 bp):
GCCGAAGCCTTTTCATAAATCATACCACTGC
Found at i:48008985 original size:42 final size:42
Alignment explanation
Indices: 48008938--48009029 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
48008928 TGGCCCACAG
* ** *
48008938 GCCCATTTCAATATCATATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
48008980 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
48009022 GCCCATTT
1 GCCCATTT
48009030 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
Found at i:48009245 original size:26 final size:26
Alignment explanation
Indices: 48009162--48009297 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
48009152 CTGGAGGCCT
48009162 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
48009186 AGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
48009211 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
48009237 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
48009263 AGCCCTTTTCAATAGACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
48009289 AGCCCTTTT
1 AGCCCTTTT
48009298 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.31
26 56 0.58
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:48009288 original size:52 final size:50
Alignment explanation
Indices: 48009162--48009297 Score: 204
Period size: 52 Copynumber: 2.7 Consensus size: 50
48009152 CTGGAGGCCT
*
48009162 AGCCTCTTTT-AATAACTGGGGCA-AAGCCCTTTTCGGTAAATTGGGGCAA
1 AGCC-CTTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
48009211 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAAT-AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
48009263 AGCCCTTTTCAATAGACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATA-ACTGGGGCATAAGCCCTTTT
48009298 TCACTTCCTC
Statistics
Matches: 79, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 25 0.32
52 33 0.42
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:48009372 original size:20 final size:20
Alignment explanation
Indices: 48009347--48009433 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
48009337 TTATGAATAC
48009347 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
48009367 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
48009387 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
48009407 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
48009427 ATCATGT
1 ATCATGT
48009434 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:48010202 original size:27 final size:27
Alignment explanation
Indices: 48010143--48010217 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
48010133 CGTATTCATC
48010143 ATTTTACCATACAGGGGTATTACGGTT
1 ATTTTACCATACAGGGGTATTACGGTT
* *
48010170 ACTTTACCCTACAGGGGCT-TTACGGTCT
1 ATTTTACCATACAGGGG-TATTACGGT-T
*
48010198 -TTTTACC-TATTAGGGGTATT
1 ATTTTACCATA-CAGGGGTATT
48010218 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTT
Found at i:48010288 original size:27 final size:27
Alignment explanation
Indices: 48010258--48010487 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
48010248 GTAAATCTAC
*
48010258 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
48010285 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* *
48010311 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCGGTAATTTTGT
* * * **
48010341 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
*** ***
48010368 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * **
48010395 AAA-CTAGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTGT
* *
48010422 AAACTAAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
48010449 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* *
48010476 AAATCGAGGGTA
1 AAACCAAGGGTA
48010488 AAATGATAAT
Statistics
Matches: 169, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.82
28 8 0.05
29 19 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTGT
Found at i:48010407 original size:54 final size:54
Alignment explanation
Indices: 48010348--48010487 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
48010338 TGTAAATCAG
48010348 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAA
* * * ***
48010401 GTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACTAA
1 G-GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAA
* ** *
48010456 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
48010488 AAATGATAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 70 0.96
55 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAA
Found at i:48010497 original size:27 final size:27
Alignment explanation
Indices: 48010466--48010622 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
48010456 GGGTATTTTA
*
48010466 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
48010493 ATAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
48010520 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
48010547 GCAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
** *
48010574 GTAATTCTGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
48010601 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
48010623 CTTTGGCAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:48010498 original size:54 final size:54
Alignment explanation
Indices: 48010440--48010613 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 54
48010430 GGTATTTTGG
* *** *
48010440 TAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGA
1 TAATTCTGTAAACTAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGA
* * * *
48010494 TAATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAACTAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGA
* * * * ** * *
48010548 CAATTCTATAAA-TCGAGGGTAAAATGGTAATTCTGTAAATTAAGGGTAAAACGG
1 TAATTCTGTAAACT-AAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGA
*
48010602 TAATTCTATAAA
1 TAATTCTGTAAA
48010614 TCGAGGGTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (54 bp):
TAATTCTGTAAACTAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGA
Found at i:48010498 original size:81 final size:81
Alignment explanation
Indices: 48010413--48010613 Score: 195
Period size: 81 Copynumber: 2.5 Consensus size: 81
48010403 GGTATTTTGG
* *** * *** * * *
48010413 TAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAA
1 TAATTCTACAAACTAAGGGTAAAATGGTAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAA
48010478 ATCGAGGGTAAAATGA
66 ATCGAGGGTAAAATGA
** * * * *
48010494 TAATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGCAATTCTATAA
1 TAATTCTACAAACTAAGGGTAAAATGGTAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAA
*
48010559 ATCGAGGGTAAAATGG
66 ATCGAGGGTAAAATGA
** * * *
48010575 TAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAA
1 TAATTCTACAAACTAAGGGTAAAATGGTAATTCTGTAAA
48010614 TCGAGGGTAC
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (81 bp):
TAATTCTACAAACTAAGGGTAAAATGGTAATTCTGTAAACTAAGGGTAAAATAGCAATTCTATAA
ATCGAGGGTAAAATGA
Found at i:48010642 original size:54 final size:54
Alignment explanation
Indices: 48010495--48010642 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
48010485 GTAAAATGAT
* ** * ** * *
48010495 AATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGC
1 AATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATTAAGGGTAAAACGGC
* ** *
48010549 AATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTAAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATTAAGGGTAAAACGGC
*** *
48010603 AATTCTATAAATCGAGGGTACTTTGGCAATTTTACAAATT
1 AATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATT
48010643 GAGGACATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
AATTCTATAAATCGAGGGTAAAATGGCAATTCTACAAATTAAGGGTAAAACGGC
Found at i:48010667 original size:81 final size:81
Alignment explanation
Indices: 48010476--48010649 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
48010466 GTAATTTTGT
** * * *
48010476 AAATCGAGGGTAAAAT-GATAATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGG
1 AAATCGAGGACAAAATAG-TAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGG
*
48010540 TAAAATGGCAATTCTAT
65 TAAAATGGCAATTCTAC
** *
48010557 AAATCGAGGGTAAAATGGTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGT
1 AAATCGAGGACAAAATAGTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*** *
48010622 ACTTTGGCAATTTTAC
66 AAAATGGCAATTCTAC
*
48010638 AAATTGAGGACA
1 AAATCGAGGACA
48010650 TTTTAGTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 80 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
AAATCGAGGACAAAATAGTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGT
AAAATGGCAATTCTAC
Found at i:48018020 original size:28 final size:28
Alignment explanation
Indices: 48017953--48018025 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
48017943 ATGTGATTTG
48017953 GGCCTAGTGGGCCATAAGAAAATGGACTA
1 GGCCTAGTGGGCCATAAGAAAA-GGACTA
** *
48017982 GGCC-AGATGGGCCATTTGAATAA-GATTA
1 GGCCTAG-TGGGCCATAAGAA-AAGGACTA
48018010 GGCCTAGTGGGCCATA
1 GGCCTAGTGGGCCATA
48018026 TGCATGTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
28 18 0.49
29 17 0.46
30 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (28 bp):
GGCCTAGTGGGCCATAAGAAAAGGACTA
Found at i:48021275 original size:37 final size:37
Alignment explanation
Indices: 48021225--48021313 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
48021215 ATTACGAAGC
48021225 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
48021262 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
*
48021299 CTCACCCGGAACATA
1 CTTACCCGG-ACATA
48021314 TTTCCAAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (37 bp):
CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
Found at i:48021408 original size:48 final size:48
Alignment explanation
Indices: 48021353--48021552 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
48021343 TGTTACAACA
*
48021353 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
48021401 TTCACATTAGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
48021449 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
48021497 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
48021545 TTCACATT
1 TTCACATT
48021553 CATCACATCG
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:48021599 original size:47 final size:47
Alignment explanation
Indices: 48021544--48021881 Score: 595
Period size: 47 Copynumber: 7.1 Consensus size: 47
48021534 CACACATATG
*
48021544 TTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
48021591 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
* *
48021640 CTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
48021687 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
48021734 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
48021781 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
48021828 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
48021875 TTTCACA
1 TTTCACA
48021882 AATTTTAATA
Statistics
Matches: 277, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 234 0.84
49 43 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:48026112 original size:40 final size:40
Alignment explanation
Indices: 48026053--48026220 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
48026043 CATTTGAATG
* * *
48026053 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
48026093 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
48026133 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
48026173 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
48026213 ATATCCGG
1 ATATCCGG
48026221 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 99 0.93
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:48034093 original size:40 final size:40
Alignment explanation
Indices: 48033992--48034157 Score: 178
Period size: 39 Copynumber: 4.2 Consensus size: 40
48033982 CATTTGAATG
* * *
48033992 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-TT
*
48034032 ATATCC-GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTTGTT
* ***
48034071 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTT
* * * *
48034111 AAAT-CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTT
48034150 ATATCCGG
1 ATATCCGG
48034158 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 60 0.58
40 39 0.38
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTT
Found at i:48034124 original size:79 final size:79
Alignment explanation
Indices: 48033992--48034157 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
48033982 CATTTGAATG
* * * ** *
48033992 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGCTAAGACCCGAAGGC-A
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGCTAAGACCCGAAGGCAA
*
48034056 TTCGTGCGAGTTGTT
66 TT-GTGCGAGTGGTT
* * * *
48034071 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGCTAAGACCCGAAGGCAA
**
48034136 TTGTGCTTGTGGTT
66 TTGTGCGAGTGGTT
48034150 ATATCCGG
1 ATATCCGG
48034158 TTAAATCCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 70 0.96
80 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGGTT
Found at i:48035863 original size:2 final size:2
Alignment explanation
Indices: 48035856--48035883 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48035846 ATGTGCAAAC
48035856 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
48035884 GTGCAAGTCA
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:48035978 original size:44 final size:44
Alignment explanation
Indices: 48035928--48036016 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
48035918 CATAAATCCA
* *
48035928 AAACACAAATTTTACCTACCATGCAATAAGTATAAATCATACTT
1 AAACACAAATCTTACCTACCATGCAATAAGCATAAATCATACTT
48035972 AAACACAAATCTTACCTACCATGCAATAAGCATAAATCATACTT
1 AAACACAAATCTTACCTACCATGCAATAAGCATAAATCATACTT
48036016 A
1 A
48036017 TGGATATACC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.27
Consensus pattern (44 bp):
AAACACAAATCTTACCTACCATGCAATAAGCATAAATCATACTT
Found at i:48043079 original size:38 final size:39
Alignment explanation
Indices: 48043022--48043200 Score: 110
Period size: 40 Copynumber: 4.5 Consensus size: 39
48043012 AATCAAGCAT
* * *
48043022 CTTCGGGT-TTAGCCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGTCTTAGCCCGATATAACCACTAGCATAAAGGC
*** *
48043059 CTTCGGGTCTTAGCCCGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGATATAACCACTAGCATAAAGGC
* ** * * *
48043098 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCC-GATATAACCACTAGCATAAAGGC
* * * ** * * *
48043138 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAG-CCCGATATAACCAC-TAGCATAAAGGC
*
48043179 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCC-GATAT
48043201 CATTCGAGTA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
37 8 0.07
38 18 0.16
39 19 0.16
40 43 0.37
41 28 0.24
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGATATAACCACTAGCATAAAGGC
Found at i:48043183 original size:41 final size:40
Alignment explanation
Indices: 48043057--48043200 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
48043047 CTCGCACAAG
* * * *
48043057 GCCTTCGGGTCTTAGCCC-GATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
48043096 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
48043136 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
48043177 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48043201 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 20 0.22
40 42 0.46
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:48047639 original size:27 final size:27
Alignment explanation
Indices: 48047591--48047748 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
48047581 GCGAGGCTGC
* *
48047591 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
48047618 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
48047644 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
48047671 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
48047698 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
48047725 TAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
48047749 AGACGCTTCC
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:48047681 original size:54 final size:54
Alignment explanation
Indices: 48047609--48047748 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
48047599 GTGACGAAGT
*
48047609 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-TAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
48047663 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
48047717 CACCAGATTAGATAATTGTGGCATAGCCACCA
1 CACCAGATTAGATAATTGTGGCATAGCCACCA
48047749 AGACGCTTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:48049983 original size:46 final size:46
Alignment explanation
Indices: 48049916--48050090 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
48049906 TGTAACCCAC
*
48049916 CCATAAGTTG-ACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAG-TGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * *
48049962 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTC-G--G-GT-GTTCGCAT
* *
48050012 CTCA-CA---AACTCGAACTCAACTCAACGAGCTCGTGTGTTCGCAT
1 C-CATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCAT
* *
48050055 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG
48050091 AACTCAAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 5 0.05
43 6 0.06
45 2 0.02
46 54 0.52
47 25 0.24
49 1 0.01
50 6 0.06
51 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:48051895 original size:27 final size:27
Alignment explanation
Indices: 48051865--48051969 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
48051855 CTGCCAGGAC
* *
48051865 AGATAATGTGACAGAGTCACCAGATAT
1 AGATAATGTGGCAGAGCCACCAGATAT
48051892 AGATAATCGTGGCAGAGCCACCAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAT
* *
48051919 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAT
*
48051946 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
48051970 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 50 0.74
28 17 0.25
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAT
Found at i:48054498 original size:3 final size:3
Alignment explanation
Indices: 48054490--48054514 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48054480 CTTTCCTGAA
48054490 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
48054515 AGAGCAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:48056754 original size:27 final size:27
Alignment explanation
Indices: 48056730--48056855 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
48056720 AAAGTACCAC
* *
48056730 CGATTTACATAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-ATTTTACCCT
* *
48056757 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
*
48056784 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
* *
48056811 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
*
48056838 CGATTTACAAAATTACTA
1 CGATTTACAGAATTACTA
48056856 AAATACCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACTATTTTACCCT
Found at i:48056771 original size:54 final size:54
Alignment explanation
Indices: 48056697--48056855 Score: 133
Period size: 54 Copynumber: 2.9 Consensus size: 54
48056687 ATTATTGAAA
* * * * *
48056697 TACCCTCGACTTGTAAAATTACCAAAGTACCAC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACCAAAGTACC-CTCGATTTACAGAATTACT-ATTT
*** *
48056751 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTACAGAATTACTATTT
* * ***** *
48056805 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTACAGAATTACTA
48056856 AAATACCATT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 86 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTACAGAATTACTATTT
Found at i:48056862 original size:27 final size:27
Alignment explanation
Indices: 48056832--48057067 Score: 160
Period size: 27 Copynumber: 8.8 Consensus size: 27
48056822 ATTACTGTTT
* *
48056832 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
48056859 TACCAT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
48056886 TACCCTCGA-TCAGTAAAATTACCAATA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
48056913 TACCCT-GGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
48056939 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * * *
48056966 TACCC-CTAGTTTGTCAAGTTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
48056993 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
48057020 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
48057047 TACCCTTGATTTACAAAATTA
1 TACCCTCGATTTATAAAATTA
48057068 TAGAAATACC
Statistics
Matches: 164, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
26 22 0.13
27 140 0.85
28 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:48056872 original size:54 final size:54
Alignment explanation
Indices: 48056758--48056882 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
48056748 TTTTACCCTC
* * * *** *
48056758 GATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCATT
**
48056812 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCATT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCATT
*
48056866 -AGTTTACAAAATTACCA
1 GA-TTTACAGAATTACCA
48056883 AAATACCCTC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCATT
Found at i:48056988 original size:80 final size:82
Alignment explanation
Indices: 48056846--48057051 Score: 213
Period size: 80 Copynumber: 2.5 Consensus size: 82
48056836 CTCGATTTAC
** ** *
48056846 AAAATTACTAAAATACCATTAGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
48056910 ATATACC-CTGGTCTAT
66 AAATACCACTGGTCTAT
* * ** * *
48056926 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTCAAGTTACCA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
* *
48056990 AAATACCACTGGTTTGT
66 AAATACCACTGGTCTAT
* ** *
48057007 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
48057052 TTGATTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
80 57 0.55
81 46 0.45
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (82 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAATACCACTGGTCTAT
Found at i:48057141 original size:27 final size:27
Alignment explanation
Indices: 48056805--48057141 Score: 139
Period size: 27 Copynumber: 12.4 Consensus size: 27
48056795 ATTACTATTT
* * ****
48056805 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
48056832 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * *
48056859 TACCATTAGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * * * *
48056886 TACCC-TCGATCAGTAAAATTACCAATA
1 TACCCTTGGTTTA-CAAAATTACTAAAA
* * *
48056913 TACCC-TGGTCTATAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
48056939 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * * * *
48056966 TACCCCTAGTTTGTC-AAGTTACCAAAA
1 TACCCTTGGTTT-ACAAAATTACTAAAA
*** **
48056993 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** ** *
48057020 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
48057047 TACCCTTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
**
48057074 TACCCTTTATTTTTTA-AAAATTA-TAGAAA
1 TACCC--T-TGGTTTACAAAATTACTA-AAA
* * *
48057103 TACCATTAGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
48057130 TACCCTTGGTTT
1 TACCCTTGGTTT
48057142 GTAGATTTAC
Statistics
Matches: 243, Mismatches: 55, Indels: 24
0.75 0.17 0.07
Matches are distributed among these distances:
26 27 0.11
27 191 0.79
28 2 0.01
29 18 0.07
30 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:48057259 original size:27 final size:27
Alignment explanation
Indices: 48057182--48057259 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
48057172 AAATGAATAA
* *
48057182 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
48057209 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
48057236 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
48057260 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:48058103 original size:25 final size:25
Alignment explanation
Indices: 48058065--48058158 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
48058055 AGGAAGTGCT
* *
48058065 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTAACG
* *
48058090 AAAAGGGCTTTGCCCTAGTTTAAGG
1 AAAAGGGCTTTGCCCCAGTTTAACG
*
48058115 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTAACG
48058139 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
48058159 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 20 0.32
25 42 0.68
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTAACG
Found at i:48058147 original size:24 final size:24
Alignment explanation
Indices: 48058065--48058171 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
48058055 AGGAAGTGCT
* *
48058065 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* **
48058089 GAAAAGGGCTTTGCCCTAGTTTAAGG
1 -AAAAGGGCTTTGCCCCAGTTT-ATC
48058115 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
48058139 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
48058162 AAAAGAGGCT
1 AAAAG-GGCT
48058172 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.12
24 23 0.32
25 39 0.54
26 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:48058455 original size:31 final size:31
Alignment explanation
Indices: 48058378--48058455 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
48058368 GTTTACAGTA
* *
48058378 AAGGCTTCGACCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
48058409 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
48058440 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
48058456 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:48061096 original size:42 final size:42
Alignment explanation
Indices: 48061033--48061143 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
48061023 TACTGTATCA
* * *
48061033 AATGCCATATCCCAAATATGGTCTTATATGAAAT-ATCATATC
1 AATGCCATATCCCAAACATGGTCTTATACGAAATCA-CATACC
* * **
48061075 GATGCCATGTCCCTCACATGGTCTTATACGAAATCACATACC
1 AATGCCATATCCCAAACATGGTCTTATACGAAATCACATACC
*
48061117 AATGCCATATCCCAAATATGGTCTTAT
1 AATGCCATATCCCAAACATGGTCTTAT
48061144 TTAGAATCTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (42 bp):
AATGCCATATCCCAAACATGGTCTTATACGAAATCACATACC
Found at i:48062222 original size:13 final size:13
Alignment explanation
Indices: 48062204--48062229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48062194 TGCCCAAACG
48062204 TCAAAATTTTCAA
1 TCAAAATTTTCAA
48062217 TCAAAATTTTCAA
1 TCAAAATTTTCAA
48062230 AAAAATCATT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TCAAAATTTTCAA
Found at i:48067419 original size:44 final size:43
Alignment explanation
Indices: 48067369--48067463 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
48067359 TCGGGCCTCG
* * *
48067369 GCCTAGCAAGCTTTAA-G-CTGGTGAAAAATATTATCTGGCTTCAA
1 GCCTAGCAAGCTATAATGTC-GGTG--AAATAATATCGGGCTTCAA
* *
48067413 GCCTAGCAGGCTATAATGTCGTTGAAATAATATCGGGCTTCAA
1 GCCTAGCAAGCTATAATGTCGGTGAAATAATATCGGGCTTCAA
48067456 GCCTAGCA
1 GCCTAGCA
48067464 TGCGGAATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 25 0.57
44 14 0.32
45 4 0.09
46 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
GCCTAGCAAGCTATAATGTCGGTGAAATAATATCGGGCTTCAA
Found at i:48071967 original size:14 final size:15
Alignment explanation
Indices: 48071948--48071977 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48071938 ATTTATTATA
48071948 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
48071962 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
48071977 T
1 T
48071978 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:48073732 original size:24 final size:24
Alignment explanation
Indices: 48073705--48073752 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48073695 AGGCTATAAT
*
48073705 GCCGATGAGATAATATCGGGCTTC
1 GCCGATGAAATAATATCGGGCTTC
* * *
48073729 GCCGGTGAAATGATATCGGTCTTC
1 GCCGATGAAATAATATCGGGCTTC
48073753 AAGCTTAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (24 bp):
GCCGATGAAATAATATCGGGCTTC
Found at i:48078752 original size:40 final size:40
Alignment explanation
Indices: 48078630--48078753 Score: 119
Period size: 40 Copynumber: 3.1 Consensus size: 40
48078620 TGAATGATAC
* * * ***
48078630 CCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGA-TATAT
* * *
48078670 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGATATAT
48078710 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGATATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGATATAT
48078750 CCGG
1 CCGG
48078754 TTGTATTCCG
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 4 0.06
40 64 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGATATAT
Found at i:48088677 original size:41 final size:41
Alignment explanation
Indices: 48088632--48088749 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48088622 TGAAAGATAA
48088632 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48088673 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48088703 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48088744 ATGTAG
1 ATGTAG
48088750 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48088688 original size:71 final size:71
Alignment explanation
Indices: 48088600--48088763 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48088590 GAGATGTATC
48088600 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48088665 AGGACA
66 AGGACA
48088671 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48088736 AGGACA
66 AGGACA
48088742 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48088764 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48096252 original size:41 final size:41
Alignment explanation
Indices: 48096207--48096324 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48096197 TGAAAGATAA
48096207 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48096248 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48096278 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48096319 ATGTAG
1 ATGTAG
48096325 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48096263 original size:71 final size:71
Alignment explanation
Indices: 48096175--48096338 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48096165 GAGATGTATC
48096175 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48096240 AGGACA
66 AGGACA
48096246 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48096311 AGGACA
66 AGGACA
48096317 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48096339 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48108883 original size:44 final size:43
Alignment explanation
Indices: 48108820--48108934 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
48108810 GGTGATTTCG
* *
48108820 TGTAAGACCACGTCCGGGACGTTGGCATCAATA-TATGATT-TA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATAGT-TGATTACA
** *
48108862 TGTGGAAGACC-CTGTCTGGGACAATGGCATCAATAGTTGGTTACA
1 TGT--AAGACCAC-GTCTGGGACGTTGGCATCAATAGTTGATTACA
48108907 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
48108935 TGTATGAGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.05
43 22 0.37
44 30 0.50
45 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATAGTTGATTACA
Found at i:48117855 original size:24 final size:24
Alignment explanation
Indices: 48117828--48117877 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
48117818 CAAGAGGGTT
48117828 TAAATTAATGTGGACATATGCACA
1 TAAATTAATGTGGACATATGCACA
*
48117852 TAAATTAATGTGGACATATGCGCA
1 TAAATTAATGTGGACATATGCACA
48117876 TA
1 TA
48117878 GTTTCGTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (24 bp):
TAAATTAATGTGGACATATGCACA
Found at i:48121585 original size:17 final size:17
Alignment explanation
Indices: 48121563--48121596 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48121553 CTGAGTCTTT
48121563 TTACAACAACAATTATC
1 TTACAACAACAATTATC
48121580 TTACAACAACAATTATC
1 TTACAACAACAATTATC
48121597 AGTTGAGCAT
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:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
TTACAACAACAATTATC
Found at i:48122559 original size:15 final size:15
Alignment explanation
Indices: 48122535--48122584 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
48122525 ATCAATTATG
* *
48122535 ATTAAGGTTTGGTTA
1 ATTAAAGTTTGATTA
*
48122550 ATTAAAGTTTAATTA
1 ATTAAAGTTTGATTA
*
48122565 ATT-AATTTTGATTA
1 ATTAAAGTTTGATTA
48122579 ATTAAA
1 ATTAAA
48122585 TTTTAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTAAAGTTTGATTA
Found at i:48122586 original size:15 final size:15
Alignment explanation
Indices: 48122542--48122588 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
48122532 ATGATTAAGG
* *
48122542 TTTGGTTAATTAAAG
1 TTTGATTAATTAAAT
*
48122557 TTTAATTAATT-AAT
1 TTTGATTAATTAAAT
48122571 TTTGATTAATTAAAT
1 TTTGATTAATTAAAT
48122586 TTT
1 TTT
48122589 AAATCAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TTTGATTAATTAAAT
Found at i:48123610 original size:9 final size:9
Alignment explanation
Indices: 48123596--48123622 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48123586 GATTCATTAC
48123596 CAAAACATT
1 CAAAACATT
48123605 CAAAACATT
1 CAAAACATT
48123614 CAAAACATT
1 CAAAACATT
48123623 TTCAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAAACATT
Found at i:48127681 original size:16 final size:17
Alignment explanation
Indices: 48127660--48127692 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48127650 ACACAGGAGC
48127660 TTTAATCAAT-AAAGCT
1 TTTAATCAATCAAAGCT
*
48127676 TTTAATCTATCAAAGCT
1 TTTAATCAATCAAAGCT
48127693 CTGTTGACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTAATCAATCAAAGCT
Found at i:48130434 original size:93 final size:93
Alignment explanation
Indices: 48130322--48130494 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
48130312 CGCCCATAAG
* *
48130322 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48130387 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48130415 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48130480 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
48130495 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48130490 original size:46 final size:46
Alignment explanation
Indices: 48130315--48130490 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48130305 TGTAACCCGC
* * *
48130315 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48130361 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48130411 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48130454 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48130491 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48138270 original size:27 final size:28
Alignment explanation
Indices: 48138214--48138283 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
48138204 AAACTAGTAC
48138214 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48138242 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48138269 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48138284 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48138294 original size:27 final size:27
Alignment explanation
Indices: 48138214--48138295 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
48138204 AAACTAGTAC
* *
48138214 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48138242 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
48138269 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48138296 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48139782 original size:27 final size:27
Alignment explanation
Indices: 48139752--48139836 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
48139742 GTTCGGAGTG
* *
48139752 TTACAATTCTACCCTCGATTTATAGAA
1 TTACCATTTTACCCTCGATTTATAGAA
48139779 TTACCATTTTACCCTCGATTTATAGAA
1 TTACCATTTTACCCTCGATTTATAGAA
* * *
48139806 TTACCGTTTTACCCTCGATTTACAAAA
1 TTACCATTTTACCCTCGATTTATAGAA
48139833 TTAC
1 TTAC
48139837 TAAAATACCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TTACCATTTTACCCTCGATTTATAGAA
Found at i:48139845 original size:27 final size:27
Alignment explanation
Indices: 48139761--48140003 Score: 148
Period size: 27 Copynumber: 8.9 Consensus size: 27
48139751 GTTACAATTC
* * ***
48139761 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* *****
48139788 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
48139815 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
48139842 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * *
48139869 TACCCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* *
48139897 TACCCCCTGATTTTTAAAATTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
** * * *
48139925 TACCCTTAATTTGTAAAAATTACCAAAG
1 TACCCTCGATTTAT-AAAATTACTAAAA
* ****
48139953 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* *
48139980 TACCCTCGATTTACAGAATTACTA
1 TACCCTCGATTTATAAAATTACTA
48140004 TTTTACTCCT
Statistics
Matches: 182, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 108 0.59
28 72 0.40
29 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:48139884 original size:28 final size:28
Alignment explanation
Indices: 48139829--48139929 Score: 161
Period size: 28 Copynumber: 3.6 Consensus size: 28
48139819 CTCGATTTAC
48139829 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGGTTTGT
48139856 AAAATTACTAAAATACCCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGGTTTGT
* *
48139884 AAAATTACTAAAATACCCCCTGATTTTT
1 AAAATTACTAAAATACCCCCTGGTTTGT
48139912 AAAATTAC-AGAAATACCC
1 AAAATTACTA-AAATACCC
48139930 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
27 16 0.23
28 54 0.77
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGGTTTGT
Found at i:48139943 original size:28 final size:28
Alignment explanation
Indices: 48139829--48139957 Score: 138
Period size: 28 Copynumber: 4.6 Consensus size: 28
48139819 CTCGATTTAC
**
48139829 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTAATTTGT
**
48139856 AAAATTACTAAAATACCCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTAATTTGT
* *
48139884 AAAATTACTAAAATACCCCCTGATTTTT
1 AAAATTACTAAAATACCCCCTAATTTGT
*
48139912 AAAATTAC-AGAAATA-CCCTTAATTTGT
1 AAAATTACTA-AAATACCCCCTAATTTGT
* *
48139939 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
48139958 TCGATTTATA
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
27 25 0.27
28 63 0.69
29 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTAATTTGT
Found at i:48139964 original size:28 final size:28
Alignment explanation
Indices: 48139815--48140250 Score: 182
Period size: 27 Copynumber: 16.2 Consensus size: 28
48139805 ATTACCGTTT
**
48139815 TACCCTC-GATTTACAAAATTACTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
*
48139842 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
48139869 TACCCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
48139897 TACCCCCTGATTTTTAAAATTAC-AGAAA
1 TACCCTCTGATTTGTAAAATTACTA-AAA
* * *
48139925 TACCCT-TAATTTGTAAAAATTACCAAAG
1 TACCCTCTGATTTGT-AAAATTACTAAAA
* * ****
48139953 TACCCTC-GATTTATAGAATTACTGTTT
1 TACCCTCTGATTTGTAAAATTACTAAAA
** * ***
48139980 TACCCTC-GATTTACAGAATTACTATTT
1 TACCCTCTGATTTGTAAAATTACTAAAA
* **
48140007 TACTC-CTGATTT-TCAAAATTACCT--TT
1 TACCCTCTGATTTGT-AAAATTA-CTAAAA
* *
48140033 TACCCTC-GA-TTGT-GAATTACTGAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* ** * *
48140058 TACCCTAT-A-GGGTAGAATTACCAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
48140084 CACCC-CT-AGTTTGTAAAATTACCAAAA
1 TACCCTCTGA-TTTGTAAAATTACTAAAA
* * * **
48140111 TA-CCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* *
48140138 TACCCT-TAATTTGTAAAATTACCAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
** *
48140165 TACCC-CTGATTTACAAAATTA-TAGAAT
1 TACCCTCTGATTTGTAAAATTACTA-AAA
* * *
48140192 TACCCT-TGATTTGTAGATTTACCAAAA
1 TACCCTCTGATTTGTAAAATTACTAAAA
* ** *
48140219 CACCCT-TG-TAGGATAAAATGACTAAAA
1 TACCCTCTGATTTG-TAAAATTACTAAAA
48140246 TACCC
1 TACCC
48140251 CTAATAGGTA
Statistics
Matches: 320, Mismatches: 64, Indels: 50
0.74 0.15 0.12
Matches are distributed among these distances:
23 2 0.01
24 5 0.02
25 13 0.04
26 30 0.09
27 192 0.60
28 77 0.24
29 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (28 bp):
TACCCTCTGATTTGTAAAATTACTAAAA
Found at i:48141202 original size:52 final size:52
Alignment explanation
Indices: 48141122--48141270 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
48141112 GAGGAAGTGC
* *
48141122 AAAAGGGCTTATGCCCCAATTTATCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
48141174 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
48141226 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
48141271 ATTAAAGAGG
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 10 0.11
51 25 0.26
52 60 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48141245 original size:25 final size:26
Alignment explanation
Indices: 48141122--48141270 Score: 239
Period size: 26 Copynumber: 5.8 Consensus size: 26
48141112 GAGGAAGTGC
*
48141122 AAAAGGGCTTATGCCCCAATTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
48141148 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
48141174 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
48141200 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
48141226 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
48141251 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48141271 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.29
26 82 0.71
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:48141462 original size:42 final size:42
Alignment explanation
Indices: 48141415--48141506 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
48141405 TAGTCTCCCC
* *** *
48141415 AAATGGGCTTGCATACATTCATTGGTGTTTCATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
*
48141457 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
48141499 AAATGGGC
1 AAATGGGC
48141507 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:48141608 original size:31 final size:31
Alignment explanation
Indices: 48141530--48141608 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
48141520 CGTTCATAGT
* *
48141530 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
48141561 AAAGGCTTCAGTCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
48141592 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
48141609 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:48145004 original size:43 final size:41
Alignment explanation
Indices: 48144848--48145003 Score: 129
Period size: 43 Copynumber: 3.7 Consensus size: 41
48144838 ATATCAAACA
*** *
48144848 ATGCCAACGTCCCAGATGCGGTCTTACATGCT-ATCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACA--CTAATC-CAAATCG
* * *
48144891 ATGCC-ACTATCCCAGACAAGGTCTTACACGAAT-CAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACTAATCCAAAT-CG
* * *
48144932 ATGTCGATGTCCCAGACATGGTCTTACACATAATCACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-TAATC-CAAATCG
*
48144975 ATGCCAACGTCCCAGACCTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
48145004 AAGAACACAT
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.04
41 26 0.29
42 8 0.09
43 48 0.53
44 5 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACACTAATCCAAATCG
Found at i:48151026 original size:30 final size:30
Alignment explanation
Indices: 48150975--48151037 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
48150965 AACATATTAG
* *
48150975 CCCATATTTATCATTTATTCACACATTGAAC
1 CCCACATTTATCATTTATTCACAAATT-AAC
48151006 CCCACATTT-TCATATT-TTCACAAATTAAC
1 CCCACATTTATCAT-TTATTCACAAATTAAC
48151035 CCC
1 CCC
48151038 TTTTATGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.21
30 13 0.45
31 10 0.34
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCACATTTATCATTTATTCACAAATTAAC
Found at i:48155004 original size:27 final size:27
Alignment explanation
Indices: 48154974--48155081 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
48154964 ACCCTCAAGC
* *
48154974 CTACAGGGGTATGTCAGTCATTTTACA
1 CTACAAGGGTATGTCAGTAATTTTACA
* *
48155001 CTACAAGGGTATTTCGGTAATTTTACA
1 CTACAAGGGTATGTCAGTAATTTTACA
*
48155028 CTACAAGGGTATTTC-GATAATTTTACA
1 CTACAAGGGTATGTCAG-TAATTTTACA
* * * *
48155055 -AATCGAGGGTGTTTCAGTAATTTTACA
1 CTA-CAAGGGTATGTCAGTAATTTTACA
48155082 AATTGAGGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.03
27 68 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (27 bp):
CTACAAGGGTATGTCAGTAATTTTACA
Found at i:48155064 original size:54 final size:54
Alignment explanation
Indices: 48155006--48155238 Score: 267
Period size: 54 Copynumber: 4.3 Consensus size: 54
48154996 TTACACTACA
* * *
48155006 AGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTGTTTCAGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATCG
** * *
48155060 AGGGTGTTTCAGTAATTTTACAAATTGAGGGTGTTTCGGTAATTTTAC-AATCG
1 AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
* * * *
48155113 AGGGTGTTT-TGATAATTTTAAAAATCAATGGTGTTTCGATAATTTTACAAATCG
1 AGGGTGTTTCAG-TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
* * * *
48155167 AGTGTGTTTCAGTAATTTCACAAATCAGGGGTATTTCGATAATTTTACAAAT-T
1 AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
*
48155220 AGGGGTATTTCAGTAATTT
1 A-GGGTGTTTCAGTAATTT
48155239 CTCTTTACTA
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 46 0.30
54 101 0.67
55 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTGTTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
Found at i:48155082 original size:27 final size:26
Alignment explanation
Indices: 48155006--48155218 Score: 207
Period size: 27 Copynumber: 7.9 Consensus size: 26
48154996 TTACACTACA
* * *
48155006 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTGTTTC-GTAATTTTACAAAT-CG
*
48155033 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTGTTTCG-TAATTTTACAAATCG
*
48155060 AGGGTGTTTCAGTAATTTTACAAATTG
1 AGGGTGTTTC-GTAATTTTACAAATCG
48155087 AGGGTGTTTCGGTAATTTTAC-AATCG
1 AGGGTGTTTC-GTAATTTTACAAATCG
* * *
48155113 AGGGTGTTTTGATAATTTTAAAAATCA
1 AGGGTGTTTCG-TAATTTTACAAATCG
*
48155140 ATGGTGTTTCGATAATTTTACAAATCG
1 AGGGTGTTTCG-TAATTTTACAAATCG
* *
48155167 AGTGTGTTTCAGTAATTTCACAAATC-
1 AGGGTGTTTC-GTAATTTTACAAATCG
*
48155193 AGGGGTATTTCGATAATTTTACAAAT
1 A-GGGTGTTTCG-TAATTTTACAAAT
48155219 TAGGGGTATT
Statistics
Matches: 159, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.01
26 24 0.15
27 130 0.82
28 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
AGGGTGTTTCGTAATTTTACAAATCG
Found at i:48155590 original size:28 final size:28
Alignment explanation
Indices: 48155555--48155615 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
48155545 TAGCCCCTTT
* * *
48155555 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGACCCATC
*
48155583 AGGCCCAATCACATTCATATGACCCATC
1 AGGCCCAATCACATTCACATGACCCATC
48155611 AGGCC
1 AGGCC
48155616 AAACAACTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGACCCATC
Found at i:48157968 original size:11 final size:11
Alignment explanation
Indices: 48157952--48157977 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48157942 CGAAGCCCAC
48157952 ATCACAATAAT
1 ATCACAATAAT
48157963 ATCACAATAAT
1 ATCACAATAAT
48157974 ATCA
1 ATCA
48157978 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:48158482 original size:27 final size:27
Alignment explanation
Indices: 48158435--48158506 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
48158425 GGGCAAAATA
* * *
48158435 GTCATTTTACCCTACAGGGGTATGTCG
1 GTCATTTTACACTATAAGGGTATGTCG
*
48158462 GTCATTTTACACTATAAGGGTATTTCG
1 GTCATTTTACACTATAAGGGTATGTCG
*
48158489 GT-AGTTTTATACTATAAG
1 GTCA-TTTTACACTATAAG
48158507 AGTACTTCGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (27 bp):
GTCATTTTACACTATAAGGGTATGTCG
Found at i:48158515 original size:27 final size:27
Alignment explanation
Indices: 48158465--48158526 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
48158455 TATGTCGGTC
* * * *
48158465 ATTTTACACTATAAGGGTATTTCGGTA
1 ATTTTATACTATAAGAGTACTTCGATA
*
48158492 GTTTTATACTATAAGAGTACTTCGATA
1 ATTTTATACTATAAGAGTACTTCGATA
48158519 ATTTTATA
1 ATTTTATA
48158527 AATCGGGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (27 bp):
ATTTTATACTATAAGAGTACTTCGATA
Found at i:48158576 original size:27 final size:27
Alignment explanation
Indices: 48158517--48158631 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
48158507 AGTACTTCGA
* * *
48158517 TAATTTTATAAATCGGGGGTGTTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * *
48158544 TGATTTTACAAATCGAGGGTGTTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
48158571 TAATTTCACAAA-CTGAGGGTATTTCAA
1 TAATTTTACAAATC-GAGGGTATTTCAG
*
48158598 TAATTTTACAAATCCAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
48158625 TAATTTT
1 TAATTTT
48158632 TGATAATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 72 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:48158647 original size:37 final size:37
Alignment explanation
Indices: 48158597--48158669 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
48158587 GGGTATTTCA
48158597 ATAATTTTACAAATCCA-GGGTATTTCAGTAATTTTTG
1 ATAATTTTACAAAT-CAGGGGTATTTCAGTAATTTTTG
* *
48158634 ATAATTTTACAAATTAGGGGTATTTCGGTAATTTTT
1 ATAATTTTACAAATCAGGGGTATTTCAGTAATTTTT
48158670 TATTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (37 bp):
ATAATTTTACAAATCAGGGGTATTTCAGTAATTTTTG
Found at i:48159042 original size:27 final size:28
Alignment explanation
Indices: 48158967--48159101 Score: 193
Period size: 27 Copynumber: 4.9 Consensus size: 28
48158957 ATCCACACTT
* * * *
48158967 ATTCATTTGGCCCTTTCAAGCCCAATCTC
1 ATTCATATGGCCC-ATCAGGCCCAATCAC
* *
48158996 GTTCACATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
48159024 ATTCATA-GGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
48159051 ATTCATA-GGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
48159078 ATTCATATGGCCCATCAGGCCCAA
1 ATTCATATGGCCCATCAGGCCCAA
48159102 CTACTTCTCA
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.56
28 33 0.34
29 10 0.10
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:48159094 original size:55 final size:56
Alignment explanation
Indices: 48158967--48159101 Score: 193
Period size: 55 Copynumber: 2.4 Consensus size: 56
48158957 ATCCACACTT
* * * * *
48158967 ATTCATTTGGCCCTTTCAAGCCCAATCTCGTTCACATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCC-ATCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCAC
*
48159024 ATTCATA-GGCCCATCAGGCCCAATCACATTCATA-GGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCAC
48159078 ATTCATATGGCCCATCAGGCCCAA
1 ATTCATATGGCCCATCAGGCCCAA
48159102 CTACTTCTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 27 0.38
55 33 0.46
56 5 0.07
57 6 0.08
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (56 bp):
ATTCATATGGCCCATCAGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCAC
Found at i:48164064 original size:17 final size:17
Alignment explanation
Indices: 48164042--48164078 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
48164032 GAGCTGATTT
48164042 GTTGGGATGTAATTTGA
1 GTTGGGATGTAATTTGA
* *
48164059 GTTGGGATGTGATTTTA
1 GTTGGGATGTAATTTGA
48164076 GTT
1 GTT
48164079 ATATGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (17 bp):
GTTGGGATGTAATTTGA
Found at i:48170313 original size:17 final size:19
Alignment explanation
Indices: 48170271--48170314 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48170261 ATGAAATTTT
*
48170271 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
48170290 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
48170308 AA-TATTA
1 AATTATTA
48170315 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:48172145 original size:27 final size:28
Alignment explanation
Indices: 48172099--48172166 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
48172089 GCGTAGATCA
48172099 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48172127 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48172154 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48172167 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48174577 original size:17 final size:19
Alignment explanation
Indices: 48174535--48174578 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48174525 ATGAAATTTT
*
48174535 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
48174554 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
48174572 AA-TATTA
1 AATTATTA
48174579 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:48176399 original size:28 final size:28
Alignment explanation
Indices: 48176367--48176435 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48176357 GCGTAGATCA
48176367 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48176395 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48176423 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48176436 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48179753 original size:30 final size:31
Alignment explanation
Indices: 48179696--48179758 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
48179686 CAGCACGAAG
* * *
48179696 CCTGCTAGGCTTTAAGTCTGAACTCA-TTCA
1 CCTGCTAGGCTTGAAGCCCGAACTCATTTCA
48179726 CCTGCTAGGCTTGAAGCCCGATA-TCATTTCA
1 CCTGCTAGGCTTGAAGCCCGA-ACTCATTTCA
48179757 CC
1 CC
48179759 GGTATTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (31 bp):
CCTGCTAGGCTTGAAGCCCGAACTCATTTCA
Found at i:48197452 original size:20 final size:20
Alignment explanation
Indices: 48197427--48197464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48197417 GTAACATATA
48197427 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
48197447 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
48197465 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:48206741 original size:119 final size:120
Alignment explanation
Indices: 48206557--48206781 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
48206547 GCTACTCGTT
* *
48206557 CAAATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
48206622 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
48206677 CAAATGCCTTC-GGACTTAACCCAGATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCC-GATTATAATAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
48206739 GGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
48206782 CATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 66 0.73
120 22 0.24
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGATTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48206781 original size:40 final size:40
Alignment explanation
Indices: 48206557--48206781 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
48206547 GCTACTCGTT
* * *
48206557 CAAATGCCTTCGGGACATAGCCCGG-TTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48206597 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48206637 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48206677 CAAATGCCTTC-GGACTTAACCCAGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
48206716 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48206757 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48206782 CATCATTCGA
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 40 0.24
40 116 0.69
41 12 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48207427 original size:38 final size:38
Alignment explanation
Indices: 48207376--48207465 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
48207366 AGGCTACCTA
48207376 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
48207414 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
48207452 TGGCCGAACATACA
1 TGGCCGAACATACA
48207466 TGTCTATGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:48214786 original size:40 final size:40
Alignment explanation
Indices: 48214749--48214974 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
48214739 GCTACTCGTT
* * * *
48214749 CAAATGCCTTCAGGACATAGCCCGG-TTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48214789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48214829 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
48214869 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTTGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
48214909 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48214950 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48214975 CATCATTCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.91
41 12 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48215621 original size:38 final size:38
Alignment explanation
Indices: 48215570--48215697 Score: 247
Period size: 38 Copynumber: 3.4 Consensus size: 38
48215560 AGGCTACCTA
48215570 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
48215608 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
48215646 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
*
48215684 TGGCTGAACATACA
1 TGGCCGAACATACA
48215698 TGTCTATGTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:48218330 original size:33 final size:33
Alignment explanation
Indices: 48218288--48218350 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
48218278 ATACAGCATT
*
48218288 AGTCTAGGCCTGAACCCTATTCAGTAACAGTGC
1 AGTCTAGGCCTGAACCCTATACAGTAACAGTGC
* *
48218321 AGTCTAGGCCTGAGCCCTATACAGTGACAG
1 AGTCTAGGCCTGAACCCTATACAGTAACAG
48218351 AGTGGGCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (33 bp):
AGTCTAGGCCTGAACCCTATACAGTAACAGTGC
Found at i:48237913 original size:27 final size:26
Alignment explanation
Indices: 48237875--48237932 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
48237865 TCATCTTTCC
*
48237875 CAAAACCAAATTTT-AGAAAAACTTTT
1 CAAAACCAAATTTTGAGAAAAA-ATTT
*
48237901 CAAAACTCTAATTTTGAGAAAAAATTT
1 CAAAAC-CAAATTTTGAGAAAAAATTT
48237928 CAAAA
1 CAAAA
48237933 ACCCATTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 15 0.54
28 7 0.25
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (26 bp):
CAAAACCAAATTTTGAGAAAAAATTT
Found at i:48239060 original size:27 final size:28
Alignment explanation
Indices: 48239011--48239070 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
48239001 CCTACCTCTA
* *
48239011 GGGTATAATAGTCATTTCCACCCAC-TAG
1 GGGTAAAATAGTAATTTCCACCC-CTTAG
*
48239039 GGGTAAAATAGTAATTT-TACCCCTTAG
1 GGGTAAAATAGTAATTTCCACCCCTTAG
48239066 GGGTA
1 GGGTA
48239071 TTTTGGTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 12 0.43
28 15 0.54
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (28 bp):
GGGTAAAATAGTAATTTCCACCCCTTAG
Found at i:48240329 original size:26 final size:26
Alignment explanation
Indices: 48240295--48240347 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
48240285 CAAAGATTTA
*
48240295 GAAGAGAAGAAAGAAAAGATAAATAT
1 GAAGAGAAGAAAGAAAAGAGAAATAT
*
48240321 GAAGGGAAGAAAGAAAAGAGAAATAT
1 GAAGAGAAGAAAGAAAAGAGAAATAT
48240347 G
1 G
48240348 TTTCGGCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09
Consensus pattern (26 bp):
GAAGAGAAGAAAGAAAAGAGAAATAT
Found at i:48247619 original size:30 final size:30
Alignment explanation
Indices: 48247584--48247651 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
48247574 ACCTTCAAAA
48247584 ACTAAGCAACAGAAAACCTTGATTAACATG
1 ACTAAGCAACAGAAAACCTTGATTAACATG
48247614 ACTAAGCAACAGAAAACCTTGATTAACATG
1 ACTAAGCAACAGAAAACCTTGATTAACATG
48247644 ACTAAGCA
1 ACTAAGCA
48247652 TGCATGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (30 bp):
ACTAAGCAACAGAAAACCTTGATTAACATG
Found at i:48248813 original size:30 final size:30
Alignment explanation
Indices: 48248779--48248841 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
48248769 ACTTATTTTA
48248779 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
48248809 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
48248839 TTG
1 TTG
48248842 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:48252019 original size:2 final size:2
Alignment explanation
Indices: 48252012--48252049 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
48252002 GCTTAGGTAA
48252012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48252050 GCCTAACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48252670 original size:23 final size:23
Alignment explanation
Indices: 48252640--48252686 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
48252630 ACCTACCTCC
48252640 CAACATCTCTTTCTTCTTTCTAT
1 CAACATCTCTTTCTTCTTTCTAT
48252663 CAACATCTCTTTCTTCTTTCTAT
1 CAACATCTCTTTCTTCTTTCTAT
48252686 C
1 C
48252687 GTTTCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.51
Consensus pattern (23 bp):
CAACATCTCTTTCTTCTTTCTAT
Found at i:48257209 original size:23 final size:24
Alignment explanation
Indices: 48257173--48257232 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
48257163 TTATTAGGAT
*
48257173 TTTTATGATATTATTTACATTTAA-
1 TTTTA-GATTTTATTTACATTTAAC
**
48257197 TTTTAGATTTTATTTTTATTTAAC
1 TTTTAGATTTTATTTACATTTAAC
*
48257221 TTTTAGAGTTTA
1 TTTTAGATTTTA
48257233 AATAGGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTTAGATTTTATTTACATTTAAC
Found at i:48259750 original size:6 final size:6
Alignment explanation
Indices: 48259727--48259774 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
48259717 TAATTAATTT
* *
48259727 TATTAC TATTTTAT TATTAC TATTAT TATTAC TATTAC TATTAC TATT
1 TATTAC TA--TTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATT
48259775 CTCTAAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 31 0.86
8 5 0.14
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (6 bp):
TATTAC
Found at i:48259754 original size:12 final size:12
Alignment explanation
Indices: 48259726--48259774 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
48259716 TTAATTAATT
48259726 TTATTACTATTTTA
1 TTATTACTA--TTA
48259740 TTATTACTATTA
1 TTATTACTATTA
48259752 TTATTACTATTA
1 TTATTACTATTA
*
48259764 CTATTACTATT
1 TTATTACTATT
48259775 CTCTAAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 25 0.74
14 9 0.26
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTACTATTA
Found at i:48259763 original size:32 final size:32
Alignment explanation
Indices: 48259701--48259768 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
48259691 TTATTTTAGT
*
48259701 TATTTTATTATTAAATTAATTAATTTTATTAC
1 TATTTTATTATTAAATTAATTAATTCTATTAC
*
48259733 TATTTTATTATTACTATT-ATT-ATTACTATTAC
1 TATTTTATTATTA-AATTAATTAATT-CTATTAC
48259765 TATT
1 TATT
48259769 ACTATTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 3 0.09
32 26 0.81
33 3 0.09
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTTTATTATTAAATTAATTAATTCTATTAC
Found at i:48259891 original size:3 final size:3
Alignment explanation
Indices: 48259876--48259910 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48259866 AAAAGCTTAG
* *
48259876 ATT ATT ATC ATT ATT ATT ATT TTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
48259911 CCTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:48260103 original size:24 final size:22
Alignment explanation
Indices: 48260068--48260115 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
48260058 TTCGTCTTTA
48260068 TTATTGTCATTCATATTAATGCAT
1 TTATTGTCATTC-TATT-ATGCAT
* *
48260092 TTATTGTTATTCTGTTATGCAT
1 TTATTGTCATTCTATTATGCAT
48260114 TT
1 TT
48260116 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (22 bp):
TTATTGTCATTCTATTATGCAT
Found at i:48262367 original size:3 final size:3
Alignment explanation
Indices: 48262361--48262413 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
48262351 CTAATTAATT
* * * * *
48262361 TTA TTA TTA TTA CTA TTA TTA TTA CTA TTA TTA CTA TTA CTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48262409 TTA TT
1 TTA TT
48262414 CTCTAAATGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:48262378 original size:21 final size:21
Alignment explanation
Indices: 48262337--48262413 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
48262327 TATTTTGGTT
*
48262337 ATTTTATTATTA-AACTAATTA
1 ATTTTATTATTATTACT-ATTA
48262358 ATTTTATTATTATTACTATT-
1 ATTTTATTATTATTACTATTA
*
48262378 ATTATTACTATTATTACTATTA
1 ATT-TTATTATTATTACTATTA
* *
48262400 CTGTTATTATTATT
1 ATTTTATTATTATT
48262414 CTCTAAATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 3 0.06
21 41 0.85
22 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTTATTATTATTACTATTA
Found at i:48262379 original size:15 final size:15
Alignment explanation
Indices: 48262361--48262413 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
48262351 CTAATTAATT
* *
48262361 TTATTATTATTACTA
1 TTATTATTACTATTA
48262376 TTATTATTACTATTA
1 TTATTATTACTATTA
* *
48262391 TTACTATTACTGTTA
1 TTATTATTACTATTA
48262406 TTATTATT
1 TTATTATT
48262414 CTCTAAATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:48262530 original size:3 final size:3
Alignment explanation
Indices: 48262515--48262549 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48262505 AAAAGCTTAG
* *
48262515 ATT ATT ATC ATT ATT ATT ATT CTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
48262550 CCTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:48262741 original size:24 final size:22
Alignment explanation
Indices: 48262706--48262753 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
48262696 TTCGTCTTTA
48262706 TTATTGTCATTCATATTAATGCAT
1 TTATTGTCATTC-TATT-ATGCAT
* *
48262730 TTATTGTTATTCTGTTATGCAT
1 TTATTGTCATTCTATTATGCAT
48262752 TT
1 TT
48262754 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (22 bp):
TTATTGTCATTCTATTATGCAT
Found at i:48266605 original size:40 final size:40
Alignment explanation
Indices: 48266540--48266747 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
48266530 TCTTCGGAAT
* ** *
48266540 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48266579 TTAACCCAGG-TATAGCAACTCGCACAAATGCCTTCGGATC
1 TTAGCCC-GGATATAACAACTCGCACAAATGCCTTCGGGTC
48266619 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48266659 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
48266699 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48266739 TTAGCCCGG
1 TTAGCCCGG
48266748 GTATCATTCA
Statistics
Matches: 150, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 5 0.03
40 142 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48276087 original size:39 final size:40
Alignment explanation
Indices: 48276044--48276168 Score: 191
Period size: 40 Copynumber: 3.1 Consensus size: 40
48276034 ACTCAAGTAT
* *
48276044 CTTCGGGATTTAG-CCAGATATAACAACTCGCACAAATGC
1 CTTCGGGATTTAGCCCGGATATAGCAACTCGCACAAATGC
48276083 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGAT-TTAGCCCGGATATAGCAACTCGCACAAATGC
**
48276123 CTTCGGGAAATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGATTTAGCCCGGATATAGCAACTCGCACAAATGC
48276163 CTTCGG
1 CTTCGG
48276169 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 11 0.14
40 67 0.85
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CTTCGGGATTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:48280248 original size:80 final size:80
Alignment explanation
Indices: 48280164--48280312 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
48280154 TATGGTAACC
* * * *
48280164 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
48280228 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
48280244 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
48280309 CCGG
66 CCGG
48280313 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:48280254 original size:40 final size:38
Alignment explanation
Indices: 48280205--48280312 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
48280195 ATCACGATTT
*
48280205 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
48280245 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
48280285 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
48280313 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:48282926 original size:40 final size:40
Alignment explanation
Indices: 48282859--48282995 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
48282849 ACTCAAGTAT
*
48282859 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
48282898 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
48282938 CTTCGAGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
48282978 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
48282996 TTATCATCCG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.13
40 74 0.86
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:48291135 original size:39 final size:40
Alignment explanation
Indices: 48291092--48291210 Score: 145
Period size: 40 Copynumber: 3.0 Consensus size: 40
48291082 ACTCAAGTAT
48291092 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGATTTAGCCCGGATATAACAACTCGCACAAATGC
* *
48291131 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGAT-TTAGCCCGGATATAA-CAACTCGCACAAATGC
** * *
48291171 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGATTTAGCCCGGATATAACAACTCGCACAAATGC
48291211 TTAGTCCGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.18
40 53 0.79
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGATTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:48295577 original size:40 final size:40
Alignment explanation
Indices: 48295502--48295726 Score: 314
Period size: 40 Copynumber: 5.6 Consensus size: 40
48295492 AACCCAAGTA
* *
48295502 CCTTCGGGATTTAG-CCGGATATAG-CAATTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
*
48295541 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48295581 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
48295624 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
48295664 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48295704 CCATCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48295727 CATCCGAATA
Statistics
Matches: 169, Mismatches: 9, Indels: 15
0.88 0.05 0.08
Matches are distributed among these distances:
39 14 0.08
40 117 0.69
41 1 0.01
43 36 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Done.