Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:1630584 original size:35 final size:34
Alignment explanation
Indices: 1630538--1630634 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 34
1630528 GTCAGCATAT
* * *
1630538 TGGCAC-CTTTTCTTTTTTAAGTCCACAACTTCG
1 TGGCACTCTTTTCTTTTTTAAGCCCACAACTCCA
*
1630571 TGGCACTTCTTTTCTTTTGTAAGCCCACAACTCCA
1 TGGCAC-TCTTTTCTTTTTTAAGCCCACAACTCCA
*
1630606 TGGCACTCTTTT-TCCTTTTAAGCCCACAA
1 TGGCACTCTTTTCT-TTTTTAAGCCCACAA
1630635 GTCAGTGGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
33 7 0.13
34 19 0.35
35 29 0.53
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (34 bp):
TGGCACTCTTTTCTTTTTTAAGCCCACAACTCCA
Found at i:1630644 original size:34 final size:34
Alignment explanation
Indices: 1630552--1630674 Score: 98
Period size: 35 Copynumber: 3.7 Consensus size: 34
1630542 ACCTTTTCTT
* * *
1630552 TTTTAAGTCCACAACTTC-GTGGCACT-TCTTTTCT
1 TTTTAAGCCCACAA-GTCAGTGGCACTCT-TTTTCC
*
1630586 TTTGTAAGCCCACAACTCCA-TGGCACTCTTTTTCC
1 TTT-TAAGCCCACAAGT-CAGTGGCACTCTTTTTCC
*
1630621 TTTTAAGCCCACAAGTCAGTGGCA-TCCTTTT-C
1 TTTTAAGCCCACAAGTCAGTGGCACTCTTTTTCC
**
1630653 --AAAAGCCCACAAGTCAGTGGCA
1 TTTTAAGCCCACAAGTCAGTGGCA
1630675 ACCTTCAATC
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
30 20 0.26
32 1 0.01
33 8 0.10
34 21 0.27
35 26 0.34
36 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (34 bp):
TTTTAAGCCCACAAGTCAGTGGCACTCTTTTTCC
Found at i:1630795 original size:49 final size:49
Alignment explanation
Indices: 1630705--1631041 Score: 290
Period size: 49 Copynumber: 6.9 Consensus size: 49
1630695 GGTGGTGTCT
* * **
1630705 TCTTCTAAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * ** *
1630755 TTTTTAAGACTAATGTCGCTGGCCTTGAATCAATAGATTGGCA----C-
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * *
1630799 -CTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * *
1630847 TCTTTAAGGCCAATGTCCCTAGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
1630896 TCTTTAAGTCCAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
** * *
1630945 TCTTTAAAGATTAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCA
1 TCTTT-AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCA
* * * * *
1630998 TCTCTAAAACCCAATATCGTTGGCCTTGAATCAGCACATTGGCA
1 TCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
1631042 TTCTTCTCAT
Statistics
Matches: 231, Mismatches: 45, Indels: 19
0.78 0.15 0.06
Matches are distributed among these distances:
43 35 0.15
49 121 0.52
50 35 0.15
51 1 0.00
52 3 0.01
53 36 0.16
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:1630801 original size:21 final size:21
Alignment explanation
Indices: 1630777--1630844 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1630767 ATGTCGCTGG
*
1630777 CCTTGAATCAATAGATTGGCA
1 CCTTGAATCAATACATTGGCA
* *
1630798 CCTTTAAGTCCAATATCACTGG--
1 CCTTGAA-T-CAATA-CATTGGCA
* *
1630820 CCTTGAATCAACATATTGGCA
1 CCTTGAATCAATACATTGGCA
1630841 CCTT
1 CCTT
1630845 TATCTTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 11 0.31
22 7 0.20
23 5 0.14
24 4 0.11
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAATACATTGGCA
Found at i:1630872 original size:92 final size:94
Alignment explanation
Indices: 1630710--1630951 Score: 281
Period size: 92 Copynumber: 2.6 Consensus size: 94
1630700 TGTCTTCTTC
* * * * *
1630710 TAAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTTAAGACTAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCCCT
* * *
1630775 GGCCTTGAATCAATAGATTGGCA-C-CTT
66 AGCCTTGAATCAACACATTGGCATCACTT
* * *
1630802 TAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGGCCAATGTCCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCCCT
*
1630867 AGCCTTGAATCAGCACATTGGCATCTTCATCTT
66 AGCCTTGAATCAACACATTGGCA---TCA-CTT
* * * * *
1630900 TAAGTCCAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCATCTTTAA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAA
1630952 AGATTAGTAT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
92 76 0.61
96 1 0.01
98 48 0.38
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (94 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCCCT
AGCCTTGAATCAACACATTGGCATCACTT
Found at i:1631030 original size:103 final size:98
Alignment explanation
Indices: 1630715--1631041 Score: 270
Period size: 92 Copynumber: 3.3 Consensus size: 98
1630705 TCTTCTAAGG
* * ** * * * * *
1630715 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTTAAGACTAATGTCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCCCTAGCCT
** * **
1630780 TGAATCAATAGATTGGCA-C--C-T-TT-AAGT
66 TGAATCAGCACATTGGCATCGTCATCTTAAAAC
** * * * * *
1630807 CCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGGCCAATGTCCCTAGCCT
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCCCTAGCCT
* * **
1630872 TGAATCAGCACATTGGCATCTTCATCTTTAAGT
66 TGAATCAGCACATTGGCATCGTCATCTTAAAAC
* * ** * * *
1630905 CCAATGTCGTTGGCCTGGAATCAGCACATTGGCACCTTCATCTTTAAAGATTAGTATCGCTGGCC
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAGACCAATATCCCTAGCC
*
1630970 TTGAATCAGCATATTGGCACCTTCGTCATCTCTAAAAC
65 TTGAATCAGCACATTGGCA---TCGTCATCT-TAAAAC
1631008 CCAATATCGTTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGTTGGCCTTGAATCAGCACATTGGCA
1631042 TTCTTCTCAT
Statistics
Matches: 192, Mismatches: 32, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
92 72 0.38
93 1 0.01
95 1 0.01
96 1 0.01
97 2 0.01
98 42 0.22
99 30 0.16
102 8 0.04
103 35 0.18
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (98 bp):
CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCCCTAGCCT
TGAATCAGCACATTGGCATCGTCATCTTAAAAC
Found at i:1631810 original size:19 final size:18
Alignment explanation
Indices: 1631785--1631913 Score: 117
Period size: 19 Copynumber: 7.8 Consensus size: 18
1631775 ATTTCAACGA
1631785 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1631803 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1631819 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1631835 TGTTGTATCGATAC---A-
1 T-TTGTATCGATACATAAG
1631850 -TTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1631867 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1631883 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1631899 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1631914 ATGTATCGCT
Statistics
Matches: 92, Mismatches: 0, Indels: 37
0.71 0.00 0.29
Matches are distributed among these distances:
13 34 0.37
15 4 0.04
16 2 0.02
17 4 0.04
18 1 0.01
19 47 0.51
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1631823 original size:32 final size:32
Alignment explanation
Indices: 1631787--1631921 Score: 252
Period size: 32 Copynumber: 4.2 Consensus size: 32
1631777 TTCAACGATT
1631787 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1631819 TGTATCGATACATAAGTGTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1631851 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1631883 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1631915 TGTATCG
1 TGTATCG
1631922 CTATGAAGCT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 100 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1631824 original size:13 final size:13
Alignment explanation
Indices: 1631806--1631894 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
1631796 ACATAAGTGT
1631806 TGTATCGATACAA
1 TGTATCGATACAA
1631819 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
1631834 GTGTTGTATCGATACAT
1 ----TGTATCGATACAA
1631851 TGTATCGATACATAA
1 TGTATCGATAC--AA
1631866 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1631883 TGTATCGATACA
1 TGTATCGATACA
1631895 TAAGTTTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 34 0.55
15 3 0.05
17 3 0.05
19 22 0.35
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1632043 original size:52 final size:52
Alignment explanation
Indices: 1631999--1632127 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
1631989 CACTGATCTT
*
1631999 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
1632051 TGTATCGATACATATAGGCAAATTTGCTCAGATGTATCGATACACCATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
1632103 TGTATCAATACATGCAGACAAATTT
1 TGTATCGATACATACAGGCAAATTT
1632128 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1640324 original size:1 final size:1
Alignment explanation
Indices: 1640320--1640375 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
1640310 TTCTTTTTTC
* * * * * *
1640320 AAAAAAAAAACAAAAAACAACAAAAAAACAAAAAAAAACAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1640376 GAAGAATCTG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1640336 original size:10 final size:10
Alignment explanation
Indices: 1640320--1640375 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
1640310 TTCTTTTTTC
1640320 AAAAAAAA-A
1 AAAAAAAACA
*
1640329 ACAAAAAACA
1 AAAAAAAACA
1640339 ACAAAAAAACA
1 A-AAAAAAACA
1640350 AAAAAAAACA
1 AAAAAAAACA
1640360 AAAAAAAGA-A
1 AAAAAAA-ACA
1640370 AAAAAA
1 AAAAAA
1640376 GAAGAATCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 7 0.17
10 25 0.60
11 10 0.24
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:1640352 original size:28 final size:27
Alignment explanation
Indices: 1640321--1640374 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
1640311 TCTTTTTTCA
1640321 AAAAAAAAACAAAAAACAACAAAAAAAC
1 AAAAAAAAACAAAAAA-AACAAAAAAAC
*
1640349 AAAAAAAAACAAAAAAAAGAAAAAAA
1 AAAAAAAAACAAAAAAAACAAAAAAA
1640375 AGAAGAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACAAAAAAAACAAAAAAAC
Found at i:1640378 original size:9 final size:9
Alignment explanation
Indices: 1640322--1640375 Score: 74
Period size: 9 Copynumber: 5.9 Consensus size: 9
1640312 CTTTTTTCAA
1640322 AAAAAAAAC
1 AAAAAAAAC
1640331 AAAAAACAAC
1 AAAAAA-AAC
1640341 -AAAAAAAC
1 AAAAAAAAC
1640349 AAAAAAAAAC
1 -AAAAAAAAC
*
1640359 AAAAAAAAG
1 AAAAAAAAC
1640368 AAAAAAAA
1 AAAAAAAA
1640376 GAAGAATCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
8 3 0.07
9 27 0.66
10 11 0.27
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1641458 original size:55 final size:55
Alignment explanation
Indices: 1641347--1642401 Score: 1294
Period size: 55 Copynumber: 18.6 Consensus size: 55
1641337 TTCCACTTTT
1641347 CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
*
1641408 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
* *
1641463 CAGTCCTCAAAGGGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* ** *
1641518 CAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGCCGGTGGCACTT-T
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
*
1641572 CAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CAGTCCTCAAAGAGCAGGATG-C--CT--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
*
1641633 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
*
1641688 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * *
1641743 CAGTCCTCAAAGAACAGGATGCCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCC
* *
1641799 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CAGTCCTCAAAGAGCAGGATG-C--CT--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
* * *
1641860 CAGTCCTCAAAGGGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * ** *
1641915 CAGTCCTCAAAGAGAAAGACGCCTTTTAAAGCCCACACAAGAAGATGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * *
1641970 CAGTCCTCAAAGAGCAGGATACCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCC
*
1642026 CAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CAGTCCTCAAAGAGCAGGATG-C--CT--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
* **
1642087 CAGTCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * *
1642142 CAGTCCTCAAAGAGCAGGACGTCTTTTAAAACCCACACAAGTTGGTGGCATTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * *
1642197 CAGTCCTCAAAGAGCAGGATGGCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCC
** *
1642253 CAGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CAGTCCTCAAAGAGCAGGATG-C--CT--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
* *
1642314 CAGTCCTCAAAGGGCAGGATGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* *
1642369 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1 CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCC
1642402 TGTCGCAACG
Statistics
Matches: 881, Mismatches: 79, Indels: 74
0.85 0.08 0.07
Matches are distributed among these distances:
54 35 0.04
55 472 0.54
56 144 0.16
57 4 0.00
58 8 0.01
59 9 0.01
60 24 0.03
61 179 0.20
62 6 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (55 bp):
CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:1641889 original size:227 final size:227
Alignment explanation
Indices: 1641343--1642401 Score: 1716
Period size: 227 Copynumber: 4.7 Consensus size: 227
1641333 CTCCTTCCAC
* *
1641343 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
1641406 CCCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCT
66 -TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCT
* *
1641470 CAAAGGGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAG
129 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGTCCTCAAAGAGCAG
**
1641535 GATACCTTTT-AAAGCCCACACAAGCCGGTGGCA
194 GATACCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1641568 CTTT-CAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
*
1641632 TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCTCACACAAGTTGGTGGCACTTCCCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
* *
1641697 AAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGTCCTCAAAGAACAGGA
131 AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
* *
1641762 TGCCTTTTCAAAGCCCACACGAGTTGGTGGCA
196 TACCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1641794 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * *
1641859 TCAGTCCTCAAAGGGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
* * *
1641924 AAGAGAAAGACGCCTTTTAAAGCCCACACAAG-AAGATGGCACTTCCCAGTCCTCAAAGAGCAGG
131 AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAG-TGGCACTTCCCAGTCCTCAAAGAGCAGG
*
1641988 ATACCTTTTCAAAGCCCACACGAGTTGGTGGCA
195 ATACCTTTTCAAAGCCCACACAAGTTGGTGGCA
1642021 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* **
1642086 TCAGTCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
* * * *
1642151 AAGAGCAGGACGTCTTTTAAAACCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGA
131 AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
** *
1642216 TGGCTTTTCAAAGCCCACATAAGTTGGTGGCA
196 TACCTTTTCAAAGCCCACACAAGTTGGTGGCA
**
1642248 TTTTCCAGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
1642313 TCAGTCCTCAAAGGGCAGGATGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
*
1642378 AAGAGCAGGACGCCTTTCAAAGCC
131 AAGAGCAGGACGCCTTTTAAAGCC
1642402 TGTCGCAACG
Statistics
Matches: 776, Mismatches: 52, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
224 3 0.00
225 183 0.24
226 28 0.04
227 561 0.72
228 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (227 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCA
AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
TACCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1644611 original size:2 final size:2
Alignment explanation
Indices: 1644604--1644642 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1644594 GAGATTTTCA
*
1644604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1644643 AATAAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1645038 original size:11 final size:11
Alignment explanation
Indices: 1645022--1645079 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
1645012 CCATTTCATA
1645022 TTTTTTCTTTT
1 TTTTTTCTTTT
1645033 TTTTTTC-TTT
1 TTTTTTCTTTT
*
1645043 TTCTTTCTTTT
1 TTTTTTCTTTT
* *
1645054 TTCTTCATCTTCT
1 TT-TT-TTCTTTT
*
1645067 TTCTTTCTTTT
1 TTTTTTCTTTT
1645078 TT
1 TT
1645080 ACCTAACTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
12 2 0.05
13 7 0.19
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:1645045 original size:17 final size:17
Alignment explanation
Indices: 1645023--1645078 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
1645013 CATTTCATAT
1645023 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
*
1645040 TTTTTCTTTCTTTTTTC
1 TTTTTCTTTTTTTTTTC
** * *
1645057 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
1645074 TTTTT
1 TTTTT
1645079 TACCTAACTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:1646361 original size:32 final size:32
Alignment explanation
Indices: 1646306--1646491 Score: 266
Period size: 32 Copynumber: 5.8 Consensus size: 32
1646296 AAAATGGTGA
* * **
1646306 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1646338 TTTTAAATGGGTTGCTACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1646370 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1646402 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1646434 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1646466 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1646492 GATATAAAAG
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 13 0.09
32 125 0.91
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1646505 original size:27 final size:27
Alignment explanation
Indices: 1646474--1646670 Score: 306
Period size: 27 Copynumber: 7.2 Consensus size: 27
1646464 GCTTTGAAAT
1646474 GGGTGCCACAGAGTTGTGGA-TATAAAA
1 GGGTGCCACAGAGTTGTGGACT-TAAAA
1646501 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAA
*
1646528 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAA
*
1646555 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACAGAGTTGTGGAC-TTAAAA
1646583 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAA
* * *
1646610 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACAGAGTTGTGGACTTAAAA
*
1646638 GGGCGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAA
1646665 GGGTGC
1 GGGTGC
1646671 TGTCGCAACG
Statistics
Matches: 157, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
27 106 0.68
28 51 0.32
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GGGTGCCACAGAGTTGTGGACTTAAAA
Found at i:1646604 original size:55 final size:54
Alignment explanation
Indices: 1646474--1646670 Score: 315
Period size: 55 Copynumber: 3.6 Consensus size: 54
1646464 GCTTTGAAAT
*
1646474 GGGTGCCACAGAGTTGTGGA-TATAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
1646528 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1646583 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
*
1646638 GGGCGCCACAGAGTTGTGGACTTAAAAGGGTGC
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGC
1646671 TGTCGCAACG
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
54 48 0.36
55 67 0.50
56 18 0.14
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.22
Consensus pattern (54 bp):
GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1648998 original size:22 final size:22
Alignment explanation
Indices: 1648970--1649024 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1648960 TGGACATGTT
1648970 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1648992 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1649014 AAAAATGCATG
1 AAAAATGCATG
1649025 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1649981 original size:20 final size:20
Alignment explanation
Indices: 1649934--1650008 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1649924 AAAAAGACAT
*
1649934 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1649953 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1649974 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1649994 AATGTATCGATACAT
1 AATGTATCGATACAT
1650009 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1650002 original size:40 final size:39
Alignment explanation
Indices: 1649931--1650008 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1649921 GGTAAAAAGA
* *
1649931 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1649970 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1650009 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1650585 original size:32 final size:32
Alignment explanation
Indices: 1650536--1651073 Score: 871
Period size: 32 Copynumber: 16.8 Consensus size: 32
1650526 AAAATGGTGA
* * **
1650536 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650568 TTTTAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1650600 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650632 TTTGAAATGGATTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1650664 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1650696 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650728 TTTGGAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650760 TTTGGAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650792 TTTGGAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1650824 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1650856 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1650888 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1650920 TTTGGAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1650952 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1650984 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1651016 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1651048 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1651074 GATTTAAAAG
Statistics
Matches: 486, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
31 13 0.03
32 473 0.97
ACGTcount: A:0.15, C:0.19, G:0.35, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1651090 original size:27 final size:27
Alignment explanation
Indices: 1651056--1651876 Score: 1311
Period size: 27 Copynumber: 30.0 Consensus size: 27
1651046 GCTTTGAAAT
*
1651056 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651083 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651110 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* **
1651137 GGGTGCCACAGAGTTGTGGTTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651164 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1651192 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1651220 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651247 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651274 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651301 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651328 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651355 GGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651382 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651409 GGGTGCCACGGAGTTGTAGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651436 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1651464 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1651492 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651519 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
1651547 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
1651575 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651602 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1651630 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651656 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
1651684 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1651711 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651738 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1651766 GAGTGCCACGGAGTTGTGGACTTTAGAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1651794 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1651821 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1651849 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
1651877 AGAAATGCCA
Statistics
Matches: 739, Mismatches: 44, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.01
27 473 0.64
28 256 0.35
29 5 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1651212 original size:110 final size:108
Alignment explanation
Indices: 1651056--1651876 Score: 1311
Period size: 110 Copynumber: 7.5 Consensus size: 108
1651046 GCTTTGAAAT
* *
1651056 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* **
1651121 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTTTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1651164 GGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1651229 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1651274 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
1651339 AGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1651382 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGAGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACG
1651447 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
1651492 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACG
* * *
1651557 GAGTTGTGGACTTTAAAAGAGCGCTACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1651602 GGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* **
1651666 GAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTGAA
65 GAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1651711 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* * *
1651776 GAGTTGTGGACTTTAGAAGAGTGCCACGGAGTTGTGGATTTAAAA
65 GAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1651821 GGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
1651877 AGAAATGCCA
Statistics
Matches: 671, Mismatches: 31, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
108 138 0.21
109 173 0.26
110 316 0.47
111 44 0.07
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1654325 original size:27 final size:27
Alignment explanation
Indices: 1654295--1655461 Score: 1805
Period size: 27 Copynumber: 42.8 Consensus size: 27
1654285 GGTGTCTACA
*
1654295 GGTGCCACGGAGTTGCGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654322 GGTGTCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
1654350 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
1654377 AGATGCCATGGAATTAT-GACTTAAAAG
1 -GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654404 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654431 GGTGCCACGGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1654458 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
1654486 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* * *
1654513 AGATGACACGGAGTTATGGACTTAAAAG
1 -GGTGCCACGGAGTTGTGGACTTAAAAG
1654541 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
1654568 GGTGCCACAGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654595 GGATGCCACGAAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
* *
1654623 GGTGCCATGGAGTTGTGGACTTAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1654650 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
1654678 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
1654705 AGATGCCACGGAGTTATGGACTTAAAAG
1 -GGTGCCACGGAGTTGTGGACTTAAAAG
1654733 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
1654760 GGTGCCACAGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1654787 GGATGCCACGGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
1654815 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654842 GGTGCCACGGAGTTGTGGACTTAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1654869 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
**
1654896 AATGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1654923 GGTGCCACGGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1654950 GGATGCCACGGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
1654978 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1655005 GGTGCCACGGAGTTGTGGACTTAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1655032 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
**
1655059 AATGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
**
1655086 GGTGCCACGGAGTTGTGGTTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1655113 GGATGCCACAGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
*
1655141 GGTGCCACGGAGTTGTGGACTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1655168 GGTGCCACGGAGTTATGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1655195 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* * *
1655222 AGTGCCACAGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1655249 GGATGCCACGGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
* *
1655277 GGTGCCACGGAGTTGTGGACATAGAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
1655304 GGTGCCATGGAGTTGTGGACTTAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAG
1655331 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
**
1655358 AATGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1655385 GGTGCCACGGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
1655412 GGATGCCACGGAGTTGTGGACTTAAAAA
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
1655440 GGTGCCACGGAGTTGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
1655462 TGAAAAGGTC
Statistics
Matches: 1037, Mismatches: 90, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
26 11 0.01
27 743 0.72
28 283 0.27
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:1654902 original size:136 final size:135
Alignment explanation
Indices: 1654295--1655461 Score: 1805
Period size: 136 Copynumber: 8.6 Consensus size: 135
1654285 GGTGTCTACA
* * *
1654295 GGTGCCACGGAGTTGCGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* * * * *
1654360 AGTTGTGGACTTAAAAGAGATGCCATGGAATTAT-GACTTAAAAGGGTGCCACAGAGTTGTGGAC
65 AGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1654424 TTAAAAG
129 TTAAAAG
* *
1654431 GGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* * *
1654496 AGTTGTGGACTTAAAAGAGATGACACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 AGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1654561 TTAAAAG
129 TTAAAAG
* * * *
1654568 GGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCATGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
1654633 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC
65 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
1654698 TTAAAAG
129 TTAAAAG
* * *
1654705 AGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 -GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
1654770 AGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 AGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1654835 TTAAAAG
129 TTAAAAG
* **
1654842 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
*
1654907 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACT
66 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
1654972 TAAAAG
130 TAAAAG
*
1654978 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
** **
1655043 GTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTTTT
66 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1655108 AAAAG
131 AAAAG
* *
1655113 GGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAACGGGTGCCACGG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
1655178 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGTCT
65 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
1655243 TAAAAG
130 TAAAAG
* * *
1655249 GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACATAGAAGGGTGCCATGG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* **
1655314 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACT
65 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
1655379 TAAAAG
130 TAAAAG
* *
1655385 GGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1655450 AGTTGTGGACTT
65 AGTTGTGGACTT
1655462 TGAAAAGGTC
Statistics
Matches: 956, Mismatches: 67, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
135 77 0.08
136 609 0.64
137 210 0.22
138 60 0.06
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (135 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
AAAAG
Found at i:1654923 original size:163 final size:162
Alignment explanation
Indices: 1654295--1655461 Score: 1807
Period size: 163 Copynumber: 7.1 Consensus size: 162
1654285 GGTGTCTACA
* * *
1654295 GGTGCCACGGAGTTGCGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* * * * *
1654360 AGTTGTGGACTTAAAAGAGATGCCATGGAATTAT-GACTTAAAAGGGTGCCACAGAGTTGTGGAC
65 AGTTGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1654424 TTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
129 TTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
* * *
1654458 GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGACACG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACG
* * * *
1654523 GAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTC
64 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
1654588 TTAAAAGGGATGCCACGAAGTTGTGGACTTAAAAG
129 TTAAAAGGG-TGCCACGGAGTTGTGGTCTTAAAAG
* * *
1654623 GGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* *
1654688 AGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 AGTTGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1654753 TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAG
129 TTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
1654787 GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
**
1654852 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACT
65 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
1654917 TAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
130 TAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
1654950 GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
**
1655015 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACT
65 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
1655080 TAAAAGGGTGCCACGGAGTTGTGGTTTTAAAAG
130 TAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
* *
1655113 GGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAACGGGTGCCACGG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * * *
1655178 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTGTGGTCT
65 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
1655243 TAAAAGGGATGCCACGGAGTTGTGGACTTAAAAG
130 TAAAAGGG-TGCCACGGAGTTGTGGTCTTAAAAG
* * * *
1655277 GGTGCCACGGAGTTGTGGACATAGAAGGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCACGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* *
1655342 GTTGTGGACTT-AAAAGAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCT
66 GTTGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
* *
1655406 TAAAAGGGATGCCACGGAGTTGTGGACTTAAAAA
130 TAAAAGGG-TGCCACGGAGTTGTGGTCTTAAAAG
1655440 GGTGCCACGGAGTTGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
1655462 TGAAAAGGTC
Statistics
Matches: 934, Mismatches: 61, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
162 4 0.00
163 573 0.61
164 213 0.23
165 144 0.15
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (162 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
GTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
AAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
Found at i:1660771 original size:28 final size:27
Alignment explanation
Indices: 1660720--1660852 Score: 212
Period size: 28 Copynumber: 4.9 Consensus size: 27
1660710 CCTCGCGACG
1660720 GAGTTGTGGACTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCCACA
1660747 GAGTTGTGGACTTTAAAAGGGTGCCACA
1 GAGTTGTGGAC-TTAAAAGGGTGCCACA
* *
1660775 GAGTTGTGGACTTAAAAGAGATGCCACG
1 GAGTTGTGGACTTAAAAG-GGTGCCACA
* *
1660803 GAGTTATGGACTTAAAAGGATGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCCACA
1660830 GAGTTGTGGACTTAAAAGGGTGC
1 GAGTTGTGGACTTAAAAGGGTGC
1660853 TGTCGCAACG
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
27 47 0.48
28 51 0.52
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGGTGCCACA
Found at i:1660786 original size:55 final size:54
Alignment explanation
Indices: 1660720--1660852 Score: 212
Period size: 55 Copynumber: 2.4 Consensus size: 54
1660710 CCTCGCGACG
* *
1660720 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TTAAAAGGATGCCACA
* *
1660775 GAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACA
1 GAGTTGTGGACTTAAAAG-GGTGCCACAGAGTTATGGACTTAAAAGGATGCCACA
1660830 GAGTTGTGGACTTAAAAGGGTGC
1 GAGTTGTGGACTTAAAAGGGTGC
1660853 TGTCGCAACG
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 4 0.06
55 51 0.71
56 17 0.24
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (54 bp):
GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGATGCCACA
Found at i:1662917 original size:23 final size:25
Alignment explanation
Indices: 1662867--1662917 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
1662857 ATATTTTTTA
* * *
1662867 TTTTTTAAAACAAATAAAGATCATT
1 TTTTTTAAAACAAATAAACATAAAT
1662892 TTTTTTAAAA-AAA-AAACATAAAT
1 TTTTTTAAAACAAATAAACATAAAT
1662915 TTT
1 TTT
1662918 GAACTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 3 0.13
25 10 0.43
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTTTAAAACAAATAAACATAAAT
Found at i:1663466 original size:10 final size:10
Alignment explanation
Indices: 1663449--1663478 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1663439 CCATTTCATA
1663449 TTTTTTCTTT
1 TTTTTTCTTT
1663459 TTTTTTCTTT
1 TTTTTTCTTT
*
1663469 TTCTTTCTTT
1 TTTTTTCTTT
1663479 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1663475 original size:20 final size:22
Alignment explanation
Indices: 1663452--1663505 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
1663442 TTTCATATTT
*
1663452 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
1663472 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
1663496 TTTCTTTTTT
1 TTTCTTTTTT
1663506 ACCTAGCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:1664467 original size:61 final size:61
Alignment explanation
Indices: 1664391--1664740 Score: 403
Period size: 61 Copynumber: 5.8 Consensus size: 61
1664381 TTGGTGTCTA
1664391 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTG
1 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTG
* ** * * * *
1664452 CAAAGTCCACACAAGTTGGTGGCACCTTCCAGTACTTAAAGAGCAGGACGCATTTC-CTTTT
1 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTCTCTTTG
* * *
1664513 CAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA--C--GC-CTTT-
1 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTG
* * *
1664568 CAAAGCCCACACAAGCTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTG
1 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTG
* * ** ** *
1664629 CAAAGCCCACACGAGTTGATGGCACCTTCCAGTCCTCAAAGAGCAGGGCGCCTTT-TCTTTT
1 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCTTTG
** *
1664690 CAAAGCCCACATGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGATGC
1 CAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGC
1664741 ACTTTATTTT
Statistics
Matches: 242, Mismatches: 38, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
55 43 0.18
56 5 0.02
57 1 0.00
59 2 0.01
60 5 0.02
61 176 0.73
62 10 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (61 bp):
CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTG
Found at i:1664691 original size:177 final size:177
Alignment explanation
Indices: 1664391--1664737 Score: 570
Period size: 177 Copynumber: 2.0 Consensus size: 177
1664381 TTGGTGTCTA
* *
1664391 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAA
1 CAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAA
* * *
1664456 GTCCACACAAGTTGGTGGCACCTTCCAGTACTTAAAGAGCAGGACGCATTTCCTTTTCAAAGCCC
66 GCCCACACAAGTTGATGGCACCTTCCAGTACTCAAAGAGCAGGACGCATTTCCTTTTCAAAGCCC
1664521 ACACGAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCCTTT
131 ACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACGCCTTT
*
1664568 CAAAGCCCACACAAGCTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAA
1 CAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAA
* * * * *
1664633 GCCCACACGAGTTGATGGCACCTTCCAGTCCTCAAAGAGCAGGGCGCCTTTTCTTTTCAAAGCCC
66 GCCCACACAAGTTGATGGCACCTTCCAGTACTCAAAGAGCAGGACGCATTTCCTTTTCAAAGCCC
*
1664698 ACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
131 ACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1664738 TGCACTTTAT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
177 153 0.97
178 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (177 bp):
CAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAA
GCCCACACAAGTTGATGGCACCTTCCAGTACTCAAAGAGCAGGACGCATTTCCTTTTCAAAGCCC
ACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:1665474 original size:3 final size:3
Alignment explanation
Indices: 1665466--1665509 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
1665456 AAAAATGATA
*
1665466 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1665510 ATTAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1665661 original size:19 final size:21
Alignment explanation
Indices: 1665613--1665667 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1665603 AATTTCAATA
*
1665613 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
1665634 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
1665654 -TTTGTATCGATACA
1 ATTTGTATCGATACA
1665668 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:1665738 original size:13 final size:13
Alignment explanation
Indices: 1665720--1665745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1665710 ATTAAGGAAG
1665720 TGTATCGATACAT
1 TGTATCGATACAT
1665733 TGTATCGATACAT
1 TGTATCGATACAT
1665746 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1668135 original size:52 final size:51
Alignment explanation
Indices: 1668068--1668466 Score: 254
Period size: 52 Copynumber: 7.6 Consensus size: 51
1668058 TTAAGTTTCT
1668068 CAATTGTT-CATAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
* * *
1668119 CAATTTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGGTTTTATTTTC-AAAACAC
* * * ** ***** * *
1668172 CAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGGT-TTT-ATTTTCAAAACAC
** * * * * * *
1668225 CAA--CCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAATAT
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
** *
1668279 TGA-TTTCTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCTCGGTTTTATTTTC-AAAACAC
* * * * * *
1668330 TAATTTTTCACAATCGGAGATACTCCAACCCCGGTTTTATTTTCAAAACAT
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
* * * *
1668381 CAATTTTCCTTTAATTGGGGATACTCCAA-TTCTGATTTTATTTTCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCTC-GGTTTTATTTTC-AAAACAC
* * *
1668434 CAATTTTTCACAATCGAGGATACTCCAACCTCG
1 CAATTTTCCATAATCGGGGATACTCCAACCTCG
1668467 TTATTTCATC
Statistics
Matches: 260, Mismatches: 67, Indels: 41
0.71 0.18 0.11
Matches are distributed among these distances:
50 5 0.02
51 81 0.31
52 97 0.37
53 45 0.17
54 9 0.03
55 6 0.02
56 17 0.07
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
Found at i:1668308 original size:51 final size:51
Alignment explanation
Indices: 1668243--1668463 Score: 205
Period size: 51 Copynumber: 4.3 Consensus size: 51
1668233 TTACCTCCGA
* * * * * *
1668243 GGGGATACTCCAACCTCGGCTTTATTTCCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
* *
1668294 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
* * *
1668345 GGAGATACTCCAACCCCGGTTTTATTTTCAAAACA-TCAATTT-TC-CTTTAATT
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTCTCAC---AATC
** * * * * *
1668397 GGGGATACTCCAATTCTGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAACACTAATTTCTCACAATC
*
1668449 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1668464 TCGTTATTTC
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 3 0.02
51 80 0.58
52 37 0.27
53 14 0.10
54 2 0.01
55 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
Found at i:1668568 original size:80 final size:79
Alignment explanation
Indices: 1668480--1668656 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 79
1668470 TTTCATCGGA
* * *
1668480 GATACTCCAACCCTGTTACCTCCGAGGGGATACTTCCAACCCCGGCTTTATTTCCAAAAT-ATTG
1 GATACTCCAACCCTGTTACCTCCGAGGGGATAC-GCCAACCCCGACTTTATTTCC-AAATCATCG
* **
1668544 ATTTCTCATAATTGGG
64 ATTTCTCACAACCGGG
* ** * * * * *
1668560 GATACTCCAACCCCGTTATTTTCGAGGGGATACGCTAATCCCGATTTTATTTCCTAATCATCGAT
1 GATACTCCAACCCTGTTACCTCCGAGGGGATACGCCAACCCCGACTTTATTTCCAAATCATCGAT
*
1668625 TTTTCACAACCGGG
66 TTCTCACAACCGGG
1668639 GATACTCCAACCCTGTTA
1 GATACTCCAACCCTGTTA
1668657 TTTTCAAGGA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.04
79 48 0.60
80 29 0.36
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCTGTTACCTCCGAGGGGATACGCCAACCCCGACTTTATTTCCAAATCATCGAT
TTCTCACAACCGGG
Found at i:1672818 original size:79 final size:78
Alignment explanation
Indices: 1672733--1672982 Score: 297
Period size: 79 Copynumber: 3.2 Consensus size: 78
1672723 ATAAAGACGG
* *
1672733 GGTTGGAGTATCTCTTCAGAAATAACGAGGCTAGAGTATCCTCGATTGTGAAAAATTGATGTTTT
1 GGTTGGAGTATC-CTTCAGAAATAACGAGGCTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
*
1672798 GCAAATAAAATCGA
65 GAAAATAAAATCGA
*
1672812 GGTTGGAGTATCCCCTT-AGAAATAACGAGGCTGGAGTATCCCCGATGGTGAAAAATTTG-TGTT
1 GGTTGGAGTAT--CCTTCAGAAATAACGAGGCTGGAGTATCCCCGATTGTGAAAAA-TTGATGTT
1672875 TTGAAAATAAAATCGA
63 TTGAAAATAAAATCGA
* * * * * ** *
1672891 GGTTGGAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGTTCT
1 GGTTGGAGTATCC-TTCAGAAATAACGAGGCTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT
* *
1672956 AAAAATAAAATCGG
65 GAAAATAAAATCGA
**
1672970 GGTTTTAGTATCC
1 GGTTGGAGTATCC
1672983 CTGATGGTGA
Statistics
Matches: 148, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
77 2 0.01
78 3 0.02
79 136 0.92
80 6 0.04
81 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
GGTTGGAGTATCCTTCAGAAATAACGAGGCTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTG
AAAATAAAATCGA
Found at i:1672998 original size:130 final size:130
Alignment explanation
Indices: 1672846--1673111 Score: 408
Period size: 130 Copynumber: 2.0 Consensus size: 130
1672836 ACGAGGCTGG
* * ** *
1672846 AGTATCCCCGATGGTGAAAAATTTGTGTTTTGAAAATAAAATC-GAGGTTGGAGTATCCTTTCAA
1 AGTATCCCCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAG-GGTTGGAGTATCCCCTAAA
* * * *
1672910 AAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGTTCTAAAAATAAAATCGGGGTTT
65 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAAAAATAAAATCGGGATTG
1672975 T
130 T
*
1672976 AGTATCCCTGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTAAAA
1 AGTATCCCCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTAAAA
* *
1673041 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAGAAATAAAATTGGGATTGT
66 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAAAAATAAAATCGGGATTGT
1673106 AGTATC
1 AGTATC
1673112 TCCTAGAAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
130 122 0.99
131 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (130 bp):
AGTATCCCCGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTAAAA
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAAAAATAAAATCGGGATTGT
Found at i:1673050 original size:79 final size:79
Alignment explanation
Indices: 1672967--1673191 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
1672957 AAAATAAAAT
** * * * *
1672967 CGGGGTTTTAGTATCCCTGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACTAGGGTTGGAGTAT
1673032 CCCCTAAAAAATAA
66 CCCCTAAAAAATAA
** * * *
1673046 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCT-AGAAATAAAA-TTGGGATTGTAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGA-AAATAAAACTAGGG-TTGGAGT
* *
1673109 ATCTCCTAGAAAATAA
64 ATCCCCTAAAAAATAA
* * *
1673125 AGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGAAAATAAAACTAGGGTTGGAATAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACTAGGGTTGGAGTAT
1673190 CC
66 CC
1673192 TTGATTGTGA
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
78 4 0.03
79 111 0.93
80 5 0.04
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACTAGGGTTGGAGTAT
CCCCTAAAAAATAA
Found at i:1673132 original size:209 final size:208
Alignment explanation
Indices: 1672766--1673333 Score: 610
Period size: 209 Copynumber: 2.7 Consensus size: 208
1672756 AACGAGGCTA
* * *
1672766 GAGTAT-CCTCGATTGTGAAAAATTGATGTTTTGCAAATAAAATCGAGGTTGGAGTATCCCCTTA
1 GAGTATCCCT-GATTGTGAAAAATTGGTGTTTTGAAAATAAAATCG-GGTTGGAGTATCCCCTAA
* * * *** *
1672830 GAAATAACGAGGCTGGAGTATCCCCGATGGTGAAAAATTTGTGTTTTGAAAATAAAATCGAGGTT
64 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTAGAAAATAAAATCGAGGTT
* * * *
1672895 GGAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGTTCTAAAA
129 GGAGTATCCTCTCAAAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTAAAA
* *
1672960 ATAAAA-TCGGGGTTT
194 ATAAAACT-AGGGTTG
* * * *
1672975 TAGTATCCCTGATGGTGAAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTAAA
1 GAGTATCCCTGATTGTGAAAAATTGGTGTTTTGAAAATAAAATC-GGGTTGGAGTATCCCCTAAG
*
1673040 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAG-AAATAAAATTG-GGAT
65 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTT-TAGAAAATAAAATCGAGG-T
* ** * *
1673103 TGTAGTAT-CTC-CTAGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTG
128 TGGAGTATCCTCTC-A-AAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTA
1673166 AAAATAAAACTAGGGTTG
191 AAAATAAAACTAGGGTTG
* * * * *
1673184 GAATATCCTTGATTGTGAAAAATTGGTATTTT-AGAAATAAAATCGGGGTTGGAGTATCCCTTCA
1 GAGTATCCCTGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATC-GGGTTGGAGTATCCCCTAA
* * * * * * * * *
1673248 GAAATAACGGGGTTAGAGTATCCCTGATTGCGAAAAATTAGTATTTTGGAAATAAAATCGGGGTT
64 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTAGAAAATAAAATCGAGGTT
* * *
1673313 TGAGTATCCCCTCGAAAATAA
129 GGAGTATCCTCTCAAAAATAA
1673334 CGGAGTTTTG
Statistics
Matches: 299, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
207 1 0.00
208 8 0.03
209 278 0.93
210 11 0.04
211 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (208 bp):
GAGTATCCCTGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGTTGGAGTATCCCCTAAGA
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTAGAAAATAAAATCGAGGTTGG
AGTATCCTCTCAAAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTAAAAAT
AAAACTAGGGTTG
Found at i:1673182 original size:130 final size:130
Alignment explanation
Indices: 1673048--1673323 Score: 326
Period size: 130 Copynumber: 2.1 Consensus size: 130
1673038 AAAAATAACG
* * *
1673048 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTCTAGAAATAAAATTGGGATTGTAGTATCT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTAGAAATAAAATCGGGATTGGAGTATC-
* *
1673113 CC-T-AGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GATATTTTGAAAATAAAA
65 CCTTCAG-AAATAAAGGGGTTAGAGTATCCCCGATTGCGAAAAATTAG-TATTTTGAAAATAAAA
1673175 -CTA
128 TC-A
* ** *** * *
1673178 GGGTTGGAATATCCTTGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTAGAAATAAAATCGGGATTGGAGTATCC
* * * *
1673243 CTTCAGAAATAACGGGGTTAGAGTATCCCTGATTGCGAAAAATTAGTATTTTGGAAATAAAATCG
66 CTTCAGAAATAAAGGGGTTAGAGTATCCCCGATTGCGAAAAATTAGTATTTTGAAAATAAAATCA
*
1673308 GGGTTTGAGTATCCCC
1 GGGTTGGAGTATCCCC
1673324 TCGAAAATAA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
129 2 0.02
130 115 0.95
131 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (130 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTCTAGAAATAAAATCGGGATTGGAGTATCC
CTTCAGAAATAAAGGGGTTAGAGTATCCCCGATTGCGAAAAATTAGTATTTTGAAAATAAAATCA
Found at i:1673191 original size:51 final size:51
Alignment explanation
Indices: 1673127--1673243 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
1673117 GAAAATAAAG
1673127 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTT-GAAAATAAAA-CTA
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAG-AAATAAAATC-A
* ** * *
1673178 GGGTTGGAATATCCTTGATTGTGAAAAATTGGTATTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATCA
1673229 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
1673244 TTCAGAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.32
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATCA
Found at i:1673276 original size:79 final size:79
Alignment explanation
Indices: 1673178--1673336 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
1673168 AATAAAACTA
* * * *
1673178 GGGTTGGAATATCCTTGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTAGAATATCCCTGATTGCGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
*
1673243 CTTC-AGAAATAACG
66 CCTCGA-AAATAACG
* * *
1673257 GGGTTAGAGTATCCCTGATTGCGAAAAATTAGTATTTTGGAAATAAAATCGGGGTTTGAGTATCC
1 GGGTTAGAATATCCCTGATTGCGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1673322 CCTCGAAAATAACG
66 CCTCGAAAATAACG
1673336 G
1 G
1673337 AGTTTTGAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 70 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (79 bp):
GGGTTAGAATATCCCTGATTGCGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
CCTCGAAAATAACG
Found at i:1673349 original size:48 final size:48
Alignment explanation
Indices: 1673291--1673383 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
1673281 AAAATTAGTA
* * * *
1673291 TTTTGGAAATAAAATCGGGGTTTGAGTATCCCCTCGAAAATAACGGAG
1 TTTTGAAAATAAAATCGAGGTTAGAGTATCCCCTCAAAAATAACGGAG
*
1673339 TTTTGAAAATAAAATCGAGGTTAGAGTATCTCCTCAAAAATAACG
1 TTTTGAAAATAAAATCGAGGTTAGAGTATCCCCTCAAAAATAACG
1673384 AGATTGGAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (48 bp):
TTTTGAAAATAAAATCGAGGTTAGAGTATCCCCTCAAAAATAACGGAG
Found at i:1673410 original size:127 final size:127
Alignment explanation
Indices: 1673218--1673460 Score: 337
Period size: 127 Copynumber: 1.9 Consensus size: 127
1673208 GGTATTTTAG
* * * * * * *
1673218 AAATAAAATCGGGGTTGGAGTATCCCTTCAGAAATAACGGGGTTAGAGTATCCCTGATTGCGAAA
1 AAATAAAATCGAGGTTAGAGTATCCCTTCAAAAATAACGAGATTAGAGTATCCCCGATTACGAAA
*
1673283 AATTAGTATTTTGGAAATAAAATCGGGGTTTG-AGTATCCCCTCGAAAATAACGGAGTTTTGA
66 AATTAGTATTTTGGAAATAAAACCGGGG-TTGAAGTATCCCCTCGAAAATAACGGAGTTTTGA
* *
1673345 AAATAAAATCGAGGTTAGAGTATCTCC-TCAAAAATAACGAGATTGGAGTATCCCCGATTATGAA
1 AAATAAAATCGAGGTTAGAGTATC-CCTTCAAAAATAACGAGATTAGAGTATCCCCGATTACGAA
* * *
1673409 AAATTAGTGTTTTGGAAATAAAACCGGGGTTGAAGTATTCCCTCGGAAATAA
65 AAATTAGTATTTTGGAAATAAAACCGGGGTTGAAGTATCCCCTCGAAAATAA
1673461 AAACATGAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 3 0.03
127 96 0.95
128 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (127 bp):
AAATAAAATCGAGGTTAGAGTATCCCTTCAAAAATAACGAGATTAGAGTATCCCCGATTACGAAA
AATTAGTATTTTGGAAATAAAACCGGGGTTGAAGTATCCCCTCGAAAATAACGGAGTTTTGA
Found at i:1675819 original size:20 final size:20
Alignment explanation
Indices: 1675794--1675844 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1675784 AAATGCCTGG
1675794 ATGTATCGATACAATGAACA
1 ATGTATCGATACAATGAACA
*
1675814 ATGTATCAATACAATGAACA
1 ATGTATCGATACAATGAACA
1675834 ATGTATCGATA
1 ATGTATCGATA
1675845 TGTTTTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAATGAACA
Found at i:1679446 original size:49 final size:45
Alignment explanation
Indices: 1679393--1679508 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
1679383 ATGTGCCATT
* *
1679393 TCAAGGTCAACGACATCGGACTAAGGGAAAAGTGGACCAATATGCTGAC
1 TCAAGGCCAGCGACATCGGACTAA--GAAAAGT-G-CCAATATGCTGAC
* * * * *
1679442 TCAAGGCCAGCGACATTGGGCTTAGAAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCGACATCGGACTAAGAAAAGTGCCAATATGCTGAC
*
1679487 TCAAGGCCAGCGATATCGGACT
1 TCAAGGCCAGCGACATCGGACT
1679509 TTAAGATGAC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
45 31 0.54
46 1 0.02
47 6 0.11
49 19 0.33
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (45 bp):
TCAAGGCCAGCGACATCGGACTAAGAAAAGTGCCAATATGCTGAC
Found at i:1679579 original size:32 final size:32
Alignment explanation
Indices: 1679530--1680004 Score: 709
Period size: 32 Copynumber: 14.8 Consensus size: 32
1679520 AAAATGGTGA
* * **
1679530 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679562 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1679594 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1679626 TTTGAAATGAGTTGCCACTGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679658 TTTGGAATGGGTTGCCACGCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCAC-CGACTTGTGTGGGC
*
1679691 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1679723 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679755 TTTGAAATGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1679787 TTTGAAATGAGTTGCCACCGACTTATATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679819 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679851 TTCGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1679883 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1679915 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1679947 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1679979 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1680005 GATTTAAAAG
Statistics
Matches: 400, Mismatches: 42, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
31 13 0.03
32 358 0.89
33 29 0.07
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1680203 original size:82 final size:81
Alignment explanation
Indices: 1679987--1681760 Score: 2722
Period size: 82 Copynumber: 21.7 Consensus size: 81
1679977 GCTTTGAAAT
* * *
1679987 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1680052 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
1680068 GGGTGCCACGAAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
1680133 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
1680150 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCTACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1680215 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
1680232 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGCTGTGGACTTAAAAGAGATGACAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
1680297 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * *
1680315 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
*
1680380 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1680397 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
1680462 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
1680479 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1680544 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1680561 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1680626 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* ** *
1680643 AGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTCGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
**
1680708 AGTTGTGGTTTTAAAA
66 AGTTGTGGACTTAAAA
*
1680724 GGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1680789 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1680806 GGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1680871 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1680888 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1680953 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * ** * *
1680969 AGTTGCCACAAAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCA-G
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1681033 AGAGTTGTGGACTTAAAA
65 -GAGTTGTGGACTTAAAA
* *
1681051 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
1681116 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
1681133 GAGATGACATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1681198 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1681215 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1681280 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * *
1681298 GGGTGCCACAGCGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1681363 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1681380 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
1681445 AGTTATGGACTTAAAA
66 AGTTGTGGACTTAAAA
* **
1681461 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1681526 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* ** * *
1681542 GGATGCCACGGAGTTGTGGTTTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1681607 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1681624 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1681689 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * **
1681705 AGGTGCCACGGAGTTGTGGACTTAAAAAGATGCCACATAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
1681761 AAAATGCCAC
Statistics
Matches: 1549, Mismatches: 124, Indels: 39
0.90 0.07 0.02
Matches are distributed among these distances:
81 496 0.32
82 821 0.53
83 232 0.15
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:1681761 original size:27 final size:27
Alignment explanation
Indices: 1679987--1681760 Score: 2722
Period size: 27 Copynumber: 65.0 Consensus size: 27
1679977 GCTTTGAAAT
* *
1679987 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680014 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680041 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680068 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680095 GGGTGTCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1680123 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1680150 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
1680178 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1680205 GGGTGCTACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680232 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1680260 GGGTGCCACAGAGCTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1680287 GAGATGACACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1680315 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1680342 GGGTGCCACAGAGTTATGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680369 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1680397 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680424 AGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1680452 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1680479 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1680507 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1680534 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680561 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
1680589 GGGTGTCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680616 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680643 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
1680670 GAATGCCACGGAGTCGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
1680697 GGGTGCCACGGAGTTGTGGTTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680724 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1680752 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680779 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680806 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680833 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1680861 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680888 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1680915 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1680942 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * **
1680969 AGTTGCCACAAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1680996 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1681024 GGGTGCCA-GAGAGTTGTGGACTTAAAA
1 GGGTGCCACG-GAGTTGTGGACTTAAAA
*
1681051 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681078 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1681106 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1681133 GAGATGACATGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1681161 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1681188 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681215 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1681243 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1681270 AGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1681298 GGGTGCCACAGCGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1681325 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1681353 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681380 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681407 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1681434 GGGTGTCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681461 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1681488 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
1681515 GAATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* **
1681542 GGATGCCACGGAGTTGTGGTTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1681569 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
1681597 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681624 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1681651 GGGTGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1681678 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1681705 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * **
1681732 AGATGCCACATAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
1681760 G
1 G
1681761 AAAATGCCAC
Statistics
Matches: 1601, Mismatches: 126, Indels: 39
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.00
27 1178 0.74
28 422 0.26
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1689682 original size:26 final size:26
Alignment explanation
Indices: 1689646--1689704 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
1689636 AACCCAGAAA
1689646 CCGGCGATCGGCCACCACGCAAGTCG
1 CCGGCGATCGGCCACCACGCAAGTCG
1689672 CCGGCGATCGGCCACCACGCAAGTCG
1 CCGGCGATCGGCCACCACGCAAGTCG
1689698 CCGGCGA
1 CCGGCGA
1689705 CCACCGTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.19, C:0.42, G:0.32, T:0.07
Consensus pattern (26 bp):
CCGGCGATCGGCCACCACGCAAGTCG
Found at i:1690848 original size:59 final size:60
Alignment explanation
Indices: 1690744--1691368 Score: 689
Period size: 59 Copynumber: 10.4 Consensus size: 60
1690734 GAAGGAAATT
* * * * ** *
1690744 AAAGCGCGTCATGCTCTTTGGGGACTAGAATGTGCTATTAGCTTGTGTGGGCTTTGAAAGG
1 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
*
1690805 AAA-GCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
1690864 AAA-GCATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * * *
1690923 AAA-ACATCCTGCTCTTTGAGGACTGGAAGGTACCACCAACTTATGTGGGCTTTGAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
1690982 AAAAGGCGTCCTGCTCTTTGAGGACTA-ACAGGTGCCACCAACTTGTGTGGGATTTAAAAGG
1 -AAAGGCGTCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
1691043 AAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTGAAA-G
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
** * * * **
1691101 AAAAACTTCATGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGG
* * * *
1691162 AAAGGCGTCCTACTCTTTGAGGGCT-GACAGATGCCACCAACTTGTGT---CTTTAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
1691219 AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTTTGGCTTTAAAAGG
1 -AAAGGCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTG-TGGGCTTTGAAAGG
* * * * * *
1691281 AGAAGGTGTCTTGCTCTTTGAGGA-TTGAAAAGTGCCACCAACTTATGTGAGCTTTGAAAAGG
1 A-AAGGCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGG
* *
1691343 AAAAGGCATCCTACTCTTTGAGGACT
1 -AAAGGCGTCCTGCTCTTTGAGGACT
1691369 GAAAGGATAA
Statistics
Matches: 490, Mismatches: 55, Indels: 36
0.84 0.09 0.06
Matches are distributed among these distances:
57 3 0.01
58 49 0.10
59 257 0.52
60 13 0.03
61 94 0.19
62 72 0.15
63 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:1691051 original size:120 final size:120
Alignment explanation
Indices: 1690785--1691374 Score: 725
Period size: 120 Copynumber: 4.9 Consensus size: 120
1690775 GTGCTATTAG
* * *
1690785 CTTGTGTGGGCTTTGAAAGGAAAGCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTG
1 CTTGTGTGGGCTTTAAAAGGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATG
* *
1690850 TGGGCTTTGAAAGG-AAA-GCATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAA
66 TGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
* * * * *
1690903 CTTGTGTGGGCTTTGAAAGGAAAACATCCTGCTCTTTGAGGACTGGAAGGTACCACCAACTTATG
1 CTTGTGTGGGCTTTAAAAGGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATG
*
1690968 TGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AACAGGTGCCACCAA
66 TGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAA
* *
1691023 CTTGTGTGGGATTTAAAAGGAAAGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATG
1 CTTGTGTGGGCTTTAAAAGGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATG
* * * *
1691088 TGGGCTTTGAAA-GAAAA-ACTTCATGTTCTTTGAGGACT-AGAAGGTGCCACCAA
66 TGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAA
** * * *
1691141 CTTGTGTGGGCTTTGAAAAAAAAAGGCGTCCTACTCTTTGAGGGCT-GACAGATGCCACCAAC-T
1 CTTGTGTGGGCTTT-AAAAGGAAA-GCGTCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTT
* * *
1691204 -TGT-GTCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
63 ATGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
* * * * *
1691260 CTTGTGTTTGGCTTTAAAAGGAGAAGGTGTCTTGCTCTTTGAGGA-TTGAAAAGTGCCACCAACT
1 CTTGTG-TGGGCTTTAAAAGGA-AA-GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACT
* *
1691324 TATGTGAGCTTTGAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGG
62 TATGTGGGCTTTG-AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGG
1691375 ATAAAAGGTT
Statistics
Matches: 409, Mismatches: 45, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
117 8 0.02
118 124 0.30
119 62 0.15
120 171 0.42
121 2 0.00
122 3 0.01
123 4 0.01
124 35 0.09
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (120 bp):
CTTGTGTGGGCTTTAAAAGGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATG
TGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
Found at i:1691058 original size:179 final size:179
Alignment explanation
Indices: 1690752--1691368 Score: 760
Period size: 179 Copynumber: 3.4 Consensus size: 179
1690742 TTAAAGCGCG
* * * * ** * * *
1690752 TCATGCTCTTTGGGGACTAGAATGTGCTATTAGCTTGTGTGGGCTTTGAAAGG-AAA-GCGTCTT
1 TCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
* * *
1690815 GCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCATCTTGCTCT
66 ACTCTTTGAGGACTA-ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCATCCTGCTCT
1690879 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACA
130 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACA
* *
1690929 TCCTGCTCTTTGAGGACTGGAAGGTACCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
* *
1690994 GCTCTTTGAGGACTAACAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAGCATCCTGCTCTT
66 ACTCTTTGAGGACTAACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCATCCTGCTCTT
* * * *
1691059 TGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGAAAAACT
131 TGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACA
* * * **
1691108 TCATGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAGGCGTCCT
1 TCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
* * * *
1691173 ACTCTTTGAGGGCTGACAGATGCCACCAACTTGTGT---CTTTAAAAGGAAAAGGCGTCCTGCTC
66 ACTCTTTGAGGACTAACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAA-GCATCCTGCTC
* * * ***
1691235 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTTTGGCTTTAAAAGGAGAAGGTG
129 TTTGAGGACTGGAAGGTGCCACCAACTTGTG-TGGGCTTTGAAAGGA-AA-ACA
* * * * * *
1691289 TCTTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTATGTGAGCTTTGAAAAGGAAAAGGCATCC
1 TCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTG-AAAGGAAAAGGCGTCC
1691354 TACTCTTTGAGGACT
65 TACTCTTTGAGGACT
1691369 GAAAGGATAA
Statistics
Matches: 379, Mismatches: 52, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
176 9 0.02
177 46 0.12
178 42 0.11
179 213 0.56
180 2 0.01
181 40 0.11
182 27 0.07
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (179 bp):
TCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
ACTCTTTGAGGACTAACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCATCCTGCTCTT
TGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACA
Found at i:1693684 original size:2 final size:2
Alignment explanation
Indices: 1693677--1693710 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1693667 ATTGAACGTG
1693677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1693711 GTCCTTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1694230 original size:21 final size:20
Alignment explanation
Indices: 1694195--1694234 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1694185 AAGAAAAAAA
1694195 TAAAAATTTTATTTTGATTC
1 TAAAAATTTTATTTTGATTC
*
1694215 TAAAATTTTATATTTTGATT
1 TAAAAATTT-TATTTTGATT
1694235 TCAGCCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TAAAAATTTTATTTTGATTC
Found at i:1695444 original size:2 final size:2
Alignment explanation
Indices: 1695437--1695500 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1695427 AGCAACATCA
1695437 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
1695479 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1695501 CTGCTCTAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1696090 original size:19 final size:21
Alignment explanation
Indices: 1696039--1696091 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1696029 TATTTTTATT
1696039 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
1696060 TAAATATTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
1696080 -AATTTTTAATAT
1 TAAATTTTAATAT
1696092 TATTTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 11 0.39
22 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:1698055 original size:2 final size:2
Alignment explanation
Indices: 1698018--1698044 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1698008 AGATCCAAAT
1698018 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 T
1698045 TTCTTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1699512 original size:1 final size:1
Alignment explanation
Indices: 1699506--1699534 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1699496 TACAGGTTTC
1699506 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1699535 GCTTTTGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1704195 original size:18 final size:18
Alignment explanation
Indices: 1704174--1704212 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1704164 ATCTAATATG
1704174 TAACTA-TTAGAATAGATA
1 TAACTATTTA-AATAGATA
1704192 TAACTATTTAAATAGATA
1 TAACTATTTAAATAGATA
1704210 TAA
1 TAA
1704213 TCAAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (18 bp):
TAACTATTTAAATAGATA
Found at i:1705609 original size:16 final size:17
Alignment explanation
Indices: 1705588--1705620 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1705578 CGTTCAATTA
1705588 CTCCTTTCTC-TTTCAT
1 CTCCTTTCTCATTTCAT
*
1705604 CTCCTTTTTCATTTCAT
1 CTCCTTTCTCATTTCAT
1705621 TCTTCAAGCT
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:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (17 bp):
CTCCTTTCTCATTTCAT
Found at i:1706917 original size:58 final size:58
Alignment explanation
Indices: 1706821--1706933 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 58
1706811 TAAATCAAAT
*
1706821 TTACTGTTTGAGCTTTGAACGGTAGATCTTTCTGCATTTTATACCAAACTTTAGAAAG
1 TTACTGTTTGAGCTTTGAACGGTAGATCTTTCTACATTTTATACCAAACTTTAGAAAG
* * * *
1706879 TTACTGTTTGAGCTTTGAATGGCT-TATCTTTTTACATTTTATGCCAAACTTTAGA
1 TTACTGTTTGAGCTTTGAACGG-TAGATCTTTCTACATTTTATACCAAACTTTAGA
1706934 TTTATTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 48 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (58 bp):
TTACTGTTTGAGCTTTGAACGGTAGATCTTTCTACATTTTATACCAAACTTTAGAAAG
Found at i:1707447 original size:15 final size:15
Alignment explanation
Indices: 1707424--1707453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1707414 ACTCATCATT
1707424 TTATATTTTTTATAA
1 TTATATTTTTTATAA
*
1707439 TTATTTTTTTTATAA
1 TTATATTTTTTATAA
1707454 ACGGTGGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATTTTTTATAA
Found at i:1711804 original size:52 final size:51
Alignment explanation
Indices: 1711726--1711874 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
1711716 CGAAATATGA
*
1711726 AAATTTACCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1711778 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
1711830 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1711875 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1711881 original size:13 final size:13
Alignment explanation
Indices: 1711863--1711887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1711853 CAAAGATCAG
1711863 TGTATCGATACAA
1 TGTATCGATACAA
1711876 TGTATCGATACA
1 TGTATCGATACA
1711888 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1711953 original size:18 final size:18
Alignment explanation
Indices: 1711930--1711990 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
1711920 TAGCTTGAAT
1711930 TGTATCGATACAAAAAAA
1 TGTATCGATACAAAAAAA
*
1711948 TGTATCGATAC-----AT
1 TGTATCGATACAAAAAAA
1711961 TGTATCGATACAAAAAAA
1 TGTATCGATACAAAAAAA
1711979 TGTATCGATACA
1 TGTATCGATACA
1711991 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.33
18 24 0.67
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
TGTATCGATACAAAAAAA
Found at i:1711966 original size:13 final size:13
Alignment explanation
Indices: 1711948--1712003 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 13
1711938 TACAAAAAAA
1711948 TGTATCGATACAT
1 TGTATCGATACAT
*
1711961 TGTATCGATACAAAAAAA
1 TGTATCGATAC-----AT
1711979 TGTATCGATACAT
1 TGTATCGATACAT
1711992 TGTATCGATACA
1 TGTATCGATACA
1712004 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 24 0.67
18 12 0.33
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1711966 original size:31 final size:31
Alignment explanation
Indices: 1711928--1712004 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
1711918 AGTAGCTTGA
1711928 ATTGTATCGATACAAAAAAATGTATCGATAC
1 ATTGTATCGATACAAAAAAATGTATCGATAC
1711959 ATTGTATCGATACAAAAAAATGTATCGATAC
1 ATTGTATCGATACAAAAAAATGTATCGATAC
1711990 ATTGTATCGATACAA
1 ATTGTATCGATACAA
1712005 CACTTTATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (31 bp):
ATTGTATCGATACAAAAAAATGTATCGATAC
Found at i:1712562 original size:22 final size:20
Alignment explanation
Indices: 1712536--1712586 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
1712526 TAGTGAATTT
1712536 TAATAAATATTACATAAATAAA
1 TAATAAATATT-C-TAAATAAA
1712558 TAAT-AAT-TTCTAAATAAA
1 TAATAAATATTCTAAATAAA
1712576 TAATAATATAT
1 TAATAA-ATAT
1712587 ATAAAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 12 0.46
19 2 0.08
20 4 0.15
21 4 0.15
22 4 0.15
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAAATATTCTAAATAAA
Found at i:1713405 original size:16 final size:17
Alignment explanation
Indices: 1713379--1713420 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
1713369 ATATTTTTAT
1713379 AATAATATTTAAATAAA
1 AATAATATTTAAATAAA
1713396 AATAAT-TTTAAATAATTA
1 AATAATATTTAAATAA--A
1713414 AATAATA
1 AATAATA
1713421 ATTTGAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.41
17 6 0.27
18 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATATTTAAATAAA
Found at i:1713674 original size:23 final size:21
Alignment explanation
Indices: 1713621--1713674 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
1713611 AAGAAGGAAA
* *
1713621 AAAAAAGAGAGAGAGAAATGAAG
1 AAAAAA-A-AGAGAGAAATAAAC
1713644 AAAAAAAAGAGAGTAAATAAAC
1 AAAAAAAAGAGAG-AAATAAAC
1713666 AAAAGAAAA
1 AAAA-AAAA
1713675 ATTTTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 11 0.41
23 10 0.37
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (21 bp):
AAAAAAAAGAGAGAAATAAAC
Found at i:1714377 original size:20 final size:21
Alignment explanation
Indices: 1714340--1714380 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1714330 ATATCATATA
*
1714340 TTTATGTCGTATTCATATTTT
1 TTTATGTCGGATTCATATTTT
1714361 TTTATGTCGGA-TCATATTTT
1 TTTATGTCGGATTCATATTTT
1714381 AATTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.59
Consensus pattern (21 bp):
TTTATGTCGGATTCATATTTT
Found at i:1722260 original size:34 final size:34
Alignment explanation
Indices: 1722204--1722421 Score: 269
Period size: 34 Copynumber: 6.4 Consensus size: 34
1722194 ATGTTTGTTT
**
1722204 TTGTTGATTAAAT-GGTGATTTGGTAATTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
1722237 TTGTTGATTAAATGGGTGATTTGGTGGTTTGCCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
1722271 TTGTTGACTAAATGAGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* **
1722305 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* *
1722339 TTATTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
1722373 TTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGT-GATTTGGTAGCTTACCA
1722407 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
1722422 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 16 0.10
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
Found at i:1722379 original size:102 final size:101
Alignment explanation
Indices: 1722204--1722421 Score: 330
Period size: 102 Copynumber: 2.1 Consensus size: 101
1722194 ATGTTTGTTT
** * * * *
1722204 TTGTTGATTAAATGGTGATTTGGTAATTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TTGTTGATTAAATGGAAATTTGGTAACTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1722269 CATTGTTGACTAAATGAG-AGATTTGGTAGCTTACCA
66 CATTGTTGACTAAATG-GTAGATTTGGTAGCTTACCA
*
1722305 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
1 TTGTTGATTAAATG-GAAATTTGGTAACTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
* *
1722370 CCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCA
65 CCATTGTTGACTAAATGGTAGATTTGGTAGCTTACCA
1722407 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
1722422 TGGTTTTTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
TTGTTGATTAAATGGAAATTTGGTAACTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
CATTGTTGACTAAATGGTAGATTTGGTAGCTTACCA
Found at i:1726888 original size:34 final size:34
Alignment explanation
Indices: 1726831--1727049 Score: 289
Period size: 34 Copynumber: 6.5 Consensus size: 34
1726821 AAGTGGGAAA
*
1726831 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
1726864 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
1726898 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
1726932 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
1726966 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
1727000 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
1727034 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
1727050 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
33 17 0.10
34 144 0.89
35 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:1726974 original size:102 final size:101
Alignment explanation
Indices: 1726831--1727049 Score: 348
Period size: 102 Copynumber: 2.2 Consensus size: 101
1726821 AAGTGGGAAA
** * * * *
1726831 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
1726896 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1726932 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
1726997 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1727034 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
1727050 TGGTTTTTAC
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
101 16 0.15
102 92 0.85
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:1731495 original size:18 final size:20
Alignment explanation
Indices: 1731464--1731501 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
1731454 ATTGATATAT
1731464 TATTATAATAATAAATATTA
1 TATTATAATAATAAATATTA
*
1731484 TATTA-AAT-ATAATTATTA
1 TATTATAATAATAAATATTA
1731502 AAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTATAATAATAAATATTA
Found at i:1731854 original size:23 final size:23
Alignment explanation
Indices: 1731828--1731872 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1731818 GTTTTTAAGT
* * *
1731828 TTATATTTTATTTATTTATTTTA
1 TTATATTATAATTATGTATTTTA
1731851 TTATATTATAATTATGTATTTT
1 TTATATTATAATTATGTATTTT
1731873 TAAAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTATATTATAATTATGTATTTTA
Found at i:1731905 original size:18 final size:17
Alignment explanation
Indices: 1731867--1731931 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
1731857 TATAATTATG
1731867 TATTTTTA-AAATATATTA
1 TATTTTTATAAAT-T-TTA
1731885 TATTTTTATAAATTTTGA
1 TATTTTTATAAATTTT-A
* *
1731903 TATATTAAT-AA-TTTA
1 TATTTTTATAAATTTTA
1731918 TA-TTTTAT-AATTTT
1 TATTTTTATAAATTTT
1731932 TGAGATATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 6 0.15
15 6 0.15
16 3 0.08
17 4 0.10
18 17 0.43
19 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTTATAAATTTTA
Found at i:1731998 original size:5 final size:5
Alignment explanation
Indices: 1731988--1732132 Score: 61
Period size: 5 Copynumber: 28.4 Consensus size: 5
1731978 ATGTCATACT
* *
1731988 TTATA TTATA TTTATA TTACT- TTTTA -CATA TTAATA TTTATA TTATA
1 TTATA TTATA -TTATA TTA-TA TTATA TTATA TT-ATA -TTATA TTATA
* * * * * *
1732035 -TAAA TTTTA ATATA TT-TA -TATA TTTATT TTATCA TAATA ATACTA
1 TTATA TTATA TTATA TTATA TTATA -TTATA TTAT-A TTATA TTA-TA
* *
1732080 TTAATA TTATA TTATA TTATA TTATA -TATT TTACTTA TT-TT TTATA
1 TT-ATA TTATA TTATA TTATA TTATA TTATA TTA--TA TTATA TTATA
1732126 TTATA TT
1 TTATA TT
1732133 TATAACACAA
Statistics
Matches: 103, Mismatches: 20, Indels: 34
0.66 0.13 0.22
Matches are distributed among these distances:
3 1 0.01
4 16 0.16
5 55 0.53
6 25 0.24
7 6 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:1735413 original size:15 final size:15
Alignment explanation
Indices: 1735387--1735441 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
1735377 TTGAGTTAAT
1735387 AAAAAATT-AATATA
1 AAAAAATTAAATATA
1735401 AAAAAATTAAATATA
1 AAAAAATTAAATATA
*
1735416 TCAAATAA--AAATAT-
1 --AAAAAATTAAATATA
1735430 AAAAAATTAAAT
1 AAAAAATTAAAT
1735442 TTATAATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 5 0.15
14 12 0.35
15 12 0.35
17 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAATTAAATATA
Found at i:1735654 original size:23 final size:22
Alignment explanation
Indices: 1735628--1735674 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
1735618 ATTATTATTT
1735628 TAAAATAAAAATAATTATATAAA
1 TAAAATAAAAATAATT-TATAAA
* *
1735651 TAAAATATAAATAATTTATTAA
1 TAAAATAAAAATAATTTATAAA
1735673 TA
1 TA
1735675 TATTTTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATAAAAATAATTTATAAA
Found at i:1738527 original size:29 final size:30
Alignment explanation
Indices: 1738494--1738565 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
1738484 AAAATACTTT
1738494 TAATAATTTATTTTTAATA-TAAATATAAA
1 TAATAATTTATTTTTAATATTAAATATAAA
* * *
1738523 TAATAATTT-TTAATTATTATTTAATATAAA
1 TAATAATTTATT-TTTAATATTAAATATAAA
1738553 T-ATAATTTTATTT
1 TAATAA-TTTATTT
1738566 ATATTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 2 0.06
29 18 0.51
30 13 0.37
31 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TAATAATTTATTTTTAATATTAAATATAAA
Found at i:1738597 original size:35 final size:34
Alignment explanation
Indices: 1738483--1738620 Score: 108
Period size: 35 Copynumber: 4.1 Consensus size: 34
1738473 TTTTAGTTTT
* *
1738483 TAAA-ATACTTTTAATAA--TTTATT-TTTAATA
1 TAAATATAATTTTAATAATTTTTATTATTTAACA
* *
1738513 TAAATATAA--ATAATAATTTTTAATTATTATTTAATA
1 TAAATATAATTTTAATAA--TTT--TTATTATTTAACA
* *
1738549 TAAATATAATTTTATTTATATTTTATTATTTAACA
1 TAAATATAATTTTAATAAT-TTTTATTATTTAACA
* *
1738584 TAAATATATTTTTAATAATTTTTAATTATTTATCA
1 TAAATATAATTTTAATAATTTTT-ATTATTTAACA
1738619 TA
1 TA
1738621 TACAAATTGA
Statistics
Matches: 86, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
29 6 0.07
30 4 0.05
31 3 0.03
33 1 0.01
34 4 0.05
35 45 0.52
36 17 0.20
37 2 0.02
38 4 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (34 bp):
TAAATATAATTTTAATAATTTTTATTATTTAACA
Found at i:1741230 original size:2 final size:2
Alignment explanation
Indices: 1741218--1741255 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1741208 GCATTACCAG
*
1741218 AT AT CT AT AT 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 AT AT AT AT AT
1741256 TTTAAGTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1741708 original size:161 final size:166
Alignment explanation
Indices: 1741534--1741846 Score: 474
Period size: 161 Copynumber: 1.9 Consensus size: 166
1741524 ACAATTGTAC
* * * *
1741534 AAAGCTCTCTCTCCAAAATATTTGTTGGCAAAATTTTTATTTATATTTGTTTTA-TTCAATTGGA
1 AAAGCTCTCTCTCCAAAATATATGTGGGCAAAAATTTTATTTATATTTGTTTTATTTCAATTGCA
* * *
1741598 TTAATTACTTGATTTATCAGT-CACATA-ATA-TGGTTGGATCACCCCATACTACTCCTATTGA-
66 TTAATTACTTGATTTATCAATACACATAGATAGTGGTGGGATCACCCCATAATACTCCTATTGAT
1741659 TTTTCTTTTAATGAAACCCTTGAAATCTTGACATAA
131 TTTTCTTTTAATGAAACCCTTGAAATCTTGACATAA
* *
1741695 AAAGCTCTCTCTCCAAAATATATGTGGGTAAAAATTTTATTTATATTTGTTTTATTTTAATTGCA
1 AAAGCTCTCTCTCCAAAATATATGTGGGCAAAAATTTTATTTATATTTGTTTTATTTCAATTGCA
* *
1741760 TTAATTACTTGATTTATTAATCACACATAGATAGTGGTGGGATCACCTCATAATACTCCTATTGA
66 TTAATTACTTGATTTATCAAT-ACACATAGATAGTGGTGGGATCACCCCATAATACTCCTATTGA
*
1741825 TTTTTCTTTTGATGAAACCCTT
130 TTTTTCTTTTAATGAAACCCTT
1741847 CTTACTATAA
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
161 50 0.37
162 27 0.20
164 6 0.04
165 3 0.02
166 28 0.21
167 20 0.15
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (166 bp):
AAAGCTCTCTCTCCAAAATATATGTGGGCAAAAATTTTATTTATATTTGTTTTATTTCAATTGCA
TTAATTACTTGATTTATCAATACACATAGATAGTGGTGGGATCACCCCATAATACTCCTATTGAT
TTTTCTTTTAATGAAACCCTTGAAATCTTGACATAA
Found at i:1742670 original size:21 final size:22
Alignment explanation
Indices: 1742646--1742697 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
1742636 GAAAATTTCA
*
1742646 GTAATGATGAA-ATTAGTTATT
1 GTAATGATGAATATTAGATATT
1742667 GTAAT-A-GTAATATTAGATATT
1 GTAATGATG-AATATTAGATATT
*
1742688 GTAACGATGA
1 GTAATGATGA
1742698 GATTGAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 18 0.72
22 2 0.08
23 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (22 bp):
GTAATGATGAATATTAGATATT
Found at i:1742984 original size:72 final size:72
Alignment explanation
Indices: 1742867--1743002 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 72
1742857 ATCCATATAT
* *
1742867 ATAATATAATAGAAATTATTAAAATTGTGTTGATATCAAATAATAAAAGATAAATAAATTATATT
1 ATAATATAATAGAAATTATTAAAATTATGTTGATATCAAAAAATAAAAGATAAA-AAATTATATT
1742932 GTTATTGA
65 GTTATTGA
* * ** *
1742940 ATAATA-AATA-AAATTTATTAAAATTATATTTG-TATTAAAAAATAAATTATTAAAAATTATAT
1 ATAATATAATAGAAA-TTATTAAAATTAT-GTTGATATCAAAAAATAAAAGATAAAAAATTATAT
1743002 T
64 T
1743003 TATATTTACA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
71 13 0.24
72 32 0.59
73 9 0.17
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (72 bp):
ATAATATAATAGAAATTATTAAAATTATGTTGATATCAAAAAATAAAAGATAAAAAATTATATTG
TTATTGA
Found at i:1742996 original size:33 final size:34
Alignment explanation
Indices: 1742945--1743008 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
1742935 ATTGAATAAT
*
1742945 AAATAAAATTTATTAAAATTATATTTGTATTAAA
1 AAATAAAATTTATTAAAATTATATTTATATTAAA
1742979 AAAT-AAA-TTATTAAAAATTATATTTATATT
1 AAATAAAATTTATT-AAAATTATATTTATATT
1743009 TACATTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.18
33 19 0.68
34 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
AAATAAAATTTATTAAAATTATATTTATATTAAA
Found at i:1743007 original size:6 final size:6
Alignment explanation
Indices: 1742996--1743026 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1742986 TTATTAAAAA
*
1742996 TTATAT TTATAT TTACAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT TTATAT TTATAT T
1743027 AAATGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTATAT
Found at i:1743100 original size:26 final size:25
Alignment explanation
Indices: 1743046--1743101 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
1743036 AAAATATATC
* *
1743046 AAAATTATATTTACTAAATAATAATT
1 AAAATTATATTTA-TAAATAAAAAAT
1743072 AAAATTATATTT-TAAATTTAAAAAAT
1 AAAATTATATTTATAAA--TAAAAAAT
1743098 AAAA
1 AAAA
1743102 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
26 22 0.85
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAATTATATTTATAAATAAAAAAT
Found at i:1749906 original size:68 final size:67
Alignment explanation
Indices: 1749794--1749929 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 67
1749784 AAGGTGGTAA
* * *
1749794 ATATGGTGGAACCACGGATATTAAACCTACAAACTATTGAAAAAATAAAGATAATAAAAGAAGAA
1 ATATGGTGAAACCACGAATATTAAACCTACAAACTATTGAAAAAATAAAGACAATAAAAGAAGAA
1749859 AC
66 AC
** * *
1749861 ATATGGTGAAACCAGCGAATATTCCACCTACAATCTATTGGAAAAATAAAGACAATAAAAGAAGA
1 ATATGGTGAAACCA-CGAATATTAAACCTACAAACTATTGAAAAAATAAAGACAATAAAAGAAGA
1749926 AAC
65 AAC
1749929 A
1 A
1749930 GAACACCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
67 13 0.21
68 48 0.79
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (67 bp):
ATATGGTGAAACCACGAATATTAAACCTACAAACTATTGAAAAAATAAAGACAATAAAAGAAGAA
AC
Found at i:1750196 original size:27 final size:27
Alignment explanation
Indices: 1750140--1750205 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
1750130 AGCCTCCATA
* *
1750140 TTTGACAAATACAAAGGAAACCACTATT
1 TTTGACAAACACAAA-GAAACCACAATT
1750168 TTTGACAAACACAAA-ATAACCACAATT
1 TTTGACAAACACAAAGA-AACCACAATT
1750195 TTTGACAAACA
1 TTTGACAAACA
1750206 AATGGGTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.57
28 14 0.40
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (27 bp):
TTTGACAAACACAAAGAAACCACAATT
Found at i:1752127 original size:21 final size:22
Alignment explanation
Indices: 1752089--1752134 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1752079 ATCTGTTGAA
* **
1752089 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
1752110 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
1752132 ACT
1 ACT
1752135 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:1754632 original size:20 final size:21
Alignment explanation
Indices: 1754587--1754632 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
1754577 AAGAATTGAA
1754587 GAGGGATACAAGAGAGGGATG
1 GAGGGATACAAGAGAGGGATG
**
1754608 G-GGGATACTTGAGAGGGA-G
1 GAGGGATACAAGAGAGGGATG
1754627 GAGGGA
1 GAGGGA
1754633 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 19 0.86
21 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (21 bp):
GAGGGATACAAGAGAGGGATG
Found at i:1754731 original size:32 final size:32
Alignment explanation
Indices: 1754695--1754767 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 32
1754685 AAATTTTGAC
*
1754695 AAATAAACAAG-CCTCCATATTTGACAAACACA
1 AAATAAA-AAGACCACCATATTTGACAAACACA
*
1754727 AAATACAAAAGAAACCACCATTTTTGACAAACACA
1 AAATA-AAAAG--ACCACCATATTTGACAAACACA
1754762 AAATAA
1 AAATAA
1754768 CCACCATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 8 0.23
33 2 0.06
34 1 0.03
35 24 0.69
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.18
Consensus pattern (32 bp):
AAATAAAAAGACCACCATATTTGACAAACACA
Found at i:1756926 original size:58 final size:58
Alignment explanation
Indices: 1756864--1757087 Score: 217
Period size: 58 Copynumber: 3.9 Consensus size: 58
1756854 AAAATACATG
* * * *
1756864 AAATTGCATTAAAGTCTCTAAATCATAAAAAATGACTTAAATGACATC-ACTATTCATA
1 AAATTGCATTAAAGTCTCTAGATTATGAAAAATGACATAAATGACATCAAC-ATTCATA
* *
1756922 AAATTGCATTAAAGTCGT-TAGCTTATGAAAAATGACCTAAATGACATCAACATTCATA
1 AAATTGCATTAAAGTC-TCTAGATTATGAAAAATGACATAAATGACATCAACATTCATA
* * *
1756980 AAATTGTATCT-AAGTCTCTAGATTATGGAAAATGACATAAAT-AGCACCAACATTCATA
1 AAATTGCAT-TAAAGTCTCTAGATTATGAAAAATGACATAAATGA-CATCAACATTCATA
* * * * * *
1757038 AAATTGTATCAAAATC-CTCAGATCATGGAAAATGA-ACTATATGACATCAA
1 AAATTGCATTAAAGTCTCT-AGATTATGAAAAATGACA-TAAATGACATCAA
1757088 AACTCATGAA
Statistics
Matches: 142, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 5 0.04
58 132 0.93
59 5 0.04
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (58 bp):
AAATTGCATTAAAGTCTCTAGATTATGAAAAATGACATAAATGACATCAACATTCATA
Found at i:1757248 original size:57 final size:56
Alignment explanation
Indices: 1757092--1757264 Score: 161
Period size: 57 Copynumber: 3.0 Consensus size: 56
1757082 CATCAAAACT
* * *
1757092 CATGAAATAACATAAAAGTCCTTAAGTCATGGAAAATGACTAAAATGA-CAAAAAGAATA
1 CATGAAAT-ACATAAAA-TCCATAAGTCATGAAAAATGACTAAGAT-ATCAAAAA-AATA
* * * * *
1757151 CATTAAATATCAAAAAAATCTATAAGTCAT-AGAAACTGACTAAGATATCAGAAAAATA
1 CATGAAATA-C-ATAAAATCCATAAGTCATGA-AAAATGACTAAGATATCAAAAAAATA
* * *
1757209 CATGAAATGACATAAAATCCCTAAGTCATGAAAAATGACTAAGATATTATAAAAAT
1 CATGAAAT-ACATAAAATCCATAAGTCATGAAAAATGACTAAGATATCAAAAAAAT
1757265 GCAAATAATG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
57 37 0.40
58 15 0.16
59 36 0.39
60 5 0.05
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.23
Consensus pattern (56 bp):
CATGAAATACATAAAATCCATAAGTCATGAAAAATGACTAAGATATCAAAAAAATA
Found at i:1762743 original size:19 final size:18
Alignment explanation
Indices: 1762710--1762745 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1762700 CAACTCCTCT
*
1762710 TTATTTTATTATTTTTTA
1 TTATTTTAATATTTTTTA
1762728 TTATTATTAATATTTTTT
1 TTATT-TTAATATTTTTT
1762746 GGCCTTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTTAATATTTTTTA
Found at i:1768432 original size:19 final size:21
Alignment explanation
Indices: 1768385--1768440 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
1768375 ATTTTTACAG
1768385 TTTGTATCGATACAAACAGTA
1 TTTGTATCGATACAAACAGTA
** *
1768406 CATGTATCGATACATA-AGT-
1 TTTGTATCGATACAAACAGTA
1768425 TTTGTATCGATACAAA
1 TTTGTATCGATACAAA
1768441 TCCACCTTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (21 bp):
TTTGTATCGATACAAACAGTA
Found at i:1771218 original size:1 final size:1
Alignment explanation
Indices: 1771212--1771255 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
1771202 AAATCTTCAC
* * *
1771212 TTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1771256 ACAATTGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (1 bp):
T
Found at i:1771228 original size:10 final size:10
Alignment explanation
Indices: 1771213--1771252 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
1771203 AATCTTCACT
1771213 TTTTTTTTTG
1 TTTTTTTTTG
1771223 TTTTTTTTTTG
1 -TTTTTTTTTG
1771234 TTTTTTTTTG
1 TTTTTTTTTG
1771244 TTTTTTTTT
1 TTTTTTTTT
1771253 TTTACAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:1771228 original size:11 final size:11
Alignment explanation
Indices: 1771212--1771253 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
1771202 AAATCTTCAC
1771212 TTTTTTTTTTG
1 TTTTTTTTTTG
1771223 TTTTTTTTTTG
1 TTTTTTTTTTG
1771234 -TTTTTTTTTG
1 TTTTTTTTTTG
1771244 TTTTTTTTTT
1 TTTTTTTTTT
1771254 TTACAATTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1771239 original size:21 final size:21
Alignment explanation
Indices: 1771213--1771253 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1771203 AATCTTCACT
1771213 TTTTTTTTTGTTTTTTTTTTG
1 TTTTTTTTTGTTTTTTTTTTG
1771234 TTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTGTTTTTTTTTT
1771254 TTACAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (21 bp):
TTTTTTTTTGTTTTTTTTTTG
Found at i:1772528 original size:19 final size:19
Alignment explanation
Indices: 1772504--1772542 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1772494 TATGTGGGGA
1772504 CGAATCCATTTCCTATTGT
1 CGAATCCATTTCCTATTGT
1772523 CGAATCCATTTCCTATTGT
1 CGAATCCATTTCCTATTGT
1772542 C
1 C
1772543 CTTAGTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (19 bp):
CGAATCCATTTCCTATTGT
Found at i:1772631 original size:20 final size:20
Alignment explanation
Indices: 1772579--1772660 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
1772569 AAAAAAAAAA
1772579 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
1772598 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
1772619 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
1772639 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
1772660 A
1 A
1772661 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:1772640 original size:41 final size:40
Alignment explanation
Indices: 1772579--1772660 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
1772569 AAAAAAAAAA
* *
1772579 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
1772619 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
1772660 A
1 A
1772661 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:1772720 original size:19 final size:19
Alignment explanation
Indices: 1772696--1772763 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1772686 AATTCAACGA
1772696 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1772715 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1772730 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1772747 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1772764 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1772734 original size:32 final size:32
Alignment explanation
Indices: 1772698--1772760 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1772688 TTCAACGATT
*
1772698 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1772730 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1772761 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1772735 original size:13 final size:13
Alignment explanation
Indices: 1772717--1772741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1772707 ACATAAGTTT
1772717 TGTATCGATACAA
1 TGTATCGATACAA
1772730 TGTATCGATACA
1 TGTATCGATACA
1772742 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1772821 original size:13 final size:13
Alignment explanation
Indices: 1772803--1772828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1772793 CATTTTTCTG
1772803 TGTATCGATACAT
1 TGTATCGATACAT
1772816 TGTATCGATACAT
1 TGTATCGATACAT
1772829 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.