Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 38
Found at i:1899447 original size:23 final size:23
Alignment explanation
Indices: 1899367--1899431 Score: 130
Period size: 23 Copynumber: 2.8 Consensus size: 23
1899357 TTTCCCGAGG
1899367 GACCACGTAGAATTGTCCCGAAA
1 GACCACGTAGAATTGTCCCGAAA
1899390 GACCACGTAGAATTGTCCCGAAA
1 GACCACGTAGAATTGTCCCGAAA
1899413 GACCACGTAGAATTGTCCC
1 GACCACGTAGAATTGTCCC
1899432 AATTGACTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (23 bp):
GACCACGTAGAATTGTCCCGAAA
Found at i:1902537 original size:29 final size:28
Alignment explanation
Indices: 1902469--1902525 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
1902459 ATATACTTCA
*
1902469 CATGTTCACATAACTTATATCACATAGG
1 CATGATCACATAACTTATATCACATAGG
*
1902497 CATGAATCACATAGCTTATTATCACATAG
1 CATG-ATCACATAACTTA-TATCACATAG
1902526 CTCATGTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (28 bp):
CATGATCACATAACTTATATCACATAGG
Found at i:1902939 original size:14 final size:15
Alignment explanation
Indices: 1902920--1902948 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1902910 GCACATACTT
1902920 ACATAGATC-ATATC
1 ACATAGATCAATATC
1902934 ACATAGATCAATATC
1 ACATAGATCAATATC
1902949 TTATCACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
ACATAGATCAATATC
Found at i:1907789 original size:31 final size:32
Alignment explanation
Indices: 1907685--1907807 Score: 140
Period size: 32 Copynumber: 3.9 Consensus size: 32
1907675 TTAAAGTGAC
* ** *
1907685 CCTTGGGTAGGCTCTTAGGCCACGAGATACTT
1 CCTTGGGTAGGCTCTAAGGCCATAAGGTACTT
* * * *
1907717 CCTTGGGTAGACTCTTAGGCCCTAAGGTACTC
1 CCTTGGGTAGGCTCTAAGGCCATAAGGTACTT
*
1907749 CCTTGGGTAGGCTCTAAGGCCTTAAGGTA-TT
1 CCTTGGGTAGGCTCTAAGGCCATAAGGTACTT
* *
1907780 CATTGGGTAGGCTCTAAGGGCATAAGGT
1 CCTTGGGTAGGCTCTAAGGCCATAAGGT
1907808 GCTCCCTTAG
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 26 0.33
32 52 0.67
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCATAAGGTACTT
Found at i:1907815 original size:63 final size:64
Alignment explanation
Indices: 1907684--1907815 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 64
1907674 CTTAAAGTGA
* * * * *
1907684 CCCTTGGGTAGGCTCTTAGGCCACGAGATACTTCCTTGGGTAGACTCTTAGGCCCTAAGGTACT
1 CCCTTGGGTAGGCTCTAAGGCCACAAGATACTTCATTGGGTAGACTCTAAGGCCATAAGGTACT
** * * * *
1907748 CCCTTGGGTAGGCTCTAAGGCCTTAAGGTA-TTCATTGGGTAGGCTCTAAGGGCATAAGGTGCT
1 CCCTTGGGTAGGCTCTAAGGCCACAAGATACTTCATTGGGTAGACTCTAAGGCCATAAGGTACT
1907811 CCCTT
1 CCCTT
1907816 AGGTTGACAC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 32 0.56
64 25 0.44
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (64 bp):
CCCTTGGGTAGGCTCTAAGGCCACAAGATACTTCATTGGGTAGACTCTAAGGCCATAAGGTACT
Found at i:1909393 original size:16 final size:16
Alignment explanation
Indices: 1909369--1909404 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1909359 AACCGAAATT
1909369 AACCCGAAACAAAAGC
1 AACCCGAAACAAAAGC
*
1909385 AACCTGAAACAAAAGC
1 AACCCGAAACAAAAGC
1909401 AACC
1 AACC
1909405 AAAACTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.31, G:0.11, T:0.03
Consensus pattern (16 bp):
AACCCGAAACAAAAGC
Found at i:1909455 original size:34 final size:33
Alignment explanation
Indices: 1909415--1909489 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
1909405 AAAACTGAAA
1909415 TTAACCCGAA-CCGAAAGAAACCCAAAACCAAATT
1 TTAACCCGAATCCGAAAGAAACCC-AAACCAAA-T
* * *
1909449 TTAACCC-AATCCGAAAGCAACCCGAACTAAAT
1 TTAACCCGAATCCGAAAGAAACCCAAACCAAAT
1909481 TTAACCCGA
1 TTAACCCGA
1909490 CCTAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 8 0.22
33 9 0.25
34 19 0.53
ACGTcount: A:0.45, C:0.31, G:0.09, T:0.15
Consensus pattern (33 bp):
TTAACCCGAATCCGAAAGAAACCCAAACCAAAT
Found at i:1920180 original size:18 final size:18
Alignment explanation
Indices: 1920153--1920204 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
1920143 GTAGAAAAAG
*
1920153 TATAATAAAATAAATAAT
1 TATAAAAAAATAAATAAT
*
1920171 TATAAAAAAA-AGAAAAAT
1 TATAAAAAAATA-AATAAT
* *
1920189 AATAAAATAATAAATA
1 TATAAAAAAATAAATA
1920205 TTAATAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
TATAAAAAAATAAATAAT
Found at i:1920209 original size:18 final size:17
Alignment explanation
Indices: 1920153--1920223 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 17
1920143 GTAGAAAAAG
*
1920153 TATAATAAAATAAATAAT
1 TATAATAAAAT-AATAAA
*
1920171 TATAA-AAAA-AAGAAA
1 TATAATAAAATAATAAA
*
1920186 AATAATAAAATAATAAA
1 TATAATAAAATAATAAA
*
1920203 TAT--TAATAGTAATAAA
1 TATAATAA-AATAATAAA
1920219 TATAA
1 TATAA
1920224 AAGGGGGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
15 11 0.26
16 15 0.36
17 11 0.26
18 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TATAATAAAATAATAAA
Found at i:1921015 original size:76 final size:76
Alignment explanation
Indices: 1920846--1921065 Score: 317
Period size: 76 Copynumber: 2.9 Consensus size: 76
1920836 AACAAGCTAA
* *
1920846 AATATCTTAAATCCTAATTAAAACACTTAAAA-CTATATAAACTAAAATACCT-AAA-AAA-ATA
1 AATATCTTAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATA
* *
1920907 ACAT-TTAAAAT
65 AAATATAAAAAT
*
1920918 AATAT-TCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATA
1 AATATCT-TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATA
1920982 AAATATAAAAAT
65 AAATATAAAAAT
* *
1920994 AATATCTTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAA
1 AATATCTTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAA
1921059 AATATAA
66 AATATAA
1921066 TTTTTAAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
71 6 0.05
72 41 0.31
73 3 0.02
74 3 0.02
75 6 0.05
76 73 0.55
77 1 0.01
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.29
Consensus pattern (76 bp):
AATATCTTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAA
AATATAAAAAT
Found at i:1922799 original size:11 final size:11
Alignment explanation
Indices: 1922783--1922807 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1922773 CTGTTCAGAG
1922783 AAAAATAAAAT
1 AAAAATAAAAT
1922794 AAAAATAAAAT
1 AAAAATAAAAT
1922805 AAA
1 AAA
1922808 TAGATTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:1928400 original size:18 final size:19
Alignment explanation
Indices: 1928379--1928421 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1928369 GTTGTTTTTA
*
1928379 AAATAAAAT-ATAATAATT
1 AAATAAAATGAAAATAATT
1928397 AAAT-AAATGAAAATAATT
1 AAATAAAATGAAAATAATT
1928415 AAATAAA
1 AAATAAA
1928422 CAAATTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATAAAATGAAAATAATT
Found at i:1928421 original size:22 final size:22
Alignment explanation
Indices: 1928379--1928426 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1928369 GTTGTTTTTA
* *
1928379 AAATAAAATATAATAATTAAAT
1 AAATAAAATATAATAAATAAAC
*
1928401 AAATGAAAATA-ATTAAATAAAC
1 AAAT-AAAATATAATAAATAAAC
1928423 AAAT
1 AAAT
1928427 TAAAGAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATAAAATATAATAAATAAAC
Found at i:1932052 original size:20 final size:20
Alignment explanation
Indices: 1932015--1932052 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1932005 AAAGAATTGA
*
1932015 AGGAAGTAAGAAAGGAAGGG
1 AGGAAGTAAGAAAAGAAGGG
1932035 AGGAAG-AAGAAGAAGAAG
1 AGGAAGTAAGAA-AAGAAG
1932053 AACTTGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (20 bp):
AGGAAGTAAGAAAAGAAGGG
Found at i:1939434 original size:69 final size:69
Alignment explanation
Indices: 1939350--1939493 Score: 272
Period size: 69 Copynumber: 2.1 Consensus size: 69
1939340 TTAATTTTAC
1939350 GTTTTGGGACAAAATGCTTTAAGTGAGGGGAGTAGAGTCTAGGTTGAATTTCAATTTGCTTGTCT
1 GTTTTGGGACAAAATGCTTTAAGTGAGGGGAGTAGAGTCTAGGTTGAATTTCAATTTGCTTGTCT
1939415 CTAT
66 CTAT
1939419 GTTTGTGGGAC-AAATGCTTTAAGTGAGGGGAGTAGAGTCTAGGTTGAATTTCAATTTGCTTGTC
1 GTTT-TGGGACAAAATGCTTTAAGTGAGGGGAGTAGAGTCTAGGTTGAATTTCAATTTGCTTGTC
1939483 TCTAT
65 TCTAT
1939488 GTTTTG
1 GTTTTG
1939494 ATGCTAGTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
68 2 0.03
69 66 0.89
70 6 0.08
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (69 bp):
GTTTTGGGACAAAATGCTTTAAGTGAGGGGAGTAGAGTCTAGGTTGAATTTCAATTTGCTTGTCT
CTAT
Found at i:1941818 original size:17 final size:17
Alignment explanation
Indices: 1941795--1941836 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1941785 TTATTTTCTT
1941795 ATTTTTACT-TTAAATC
1 ATTTTTACTATTAAATC
* *
1941811 ACTTTTTAGTATTTAATC
1 A-TTTTTACTATTAAATC
1941829 ATTTTTAC
1 ATTTTTAC
1941837 CAAAACCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTTACTATTAAATC
Found at i:1944939 original size:23 final size:23
Alignment explanation
Indices: 1944904--1944954 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1944894 AAAAGAGGAA
*
1944904 TAAAAATATATAATTATTAAGT-G
1 TAAAAATATATAA-TAATAAGTAG
1944927 TAAATAATA-ATAATAATAAGTAG
1 TAAA-AATATATAATAATAAGTAG
1944950 TAAAA
1 TAAAA
1944955 TAAAAAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 8 0.32
23 13 0.52
24 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
TAAAAATATATAATAATAAGTAG
Found at i:1944993 original size:13 final size:13
Alignment explanation
Indices: 1944975--1945000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1944965 CAATCACACC
1944975 AAAAGAAAGTAAA
1 AAAAGAAAGTAAA
1944988 AAAAGAAAGTAAA
1 AAAAGAAAGTAAA
1945001 GGTTTGGTGA
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:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAAGAAAGTAAA
Found at i:1945172 original size:21 final size:21
Alignment explanation
Indices: 1945132--1945178 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1945122 ATATATATAT
*
1945132 AATAATATAATAACGAAAAAA
1 AATAATATAATAAAGAAAAAA
* * *
1945153 AATAATTTAATAAAGTAAAAT
1 AATAATATAATAAAGAAAAAA
1945174 AATAA
1 AATAA
1945179 AAGTAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AATAATATAATAAAGAAAAAA
Found at i:1945952 original size:35 final size:36
Alignment explanation
Indices: 1945882--1945981 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
1945872 GTGCTTGTGG
* * *
1945882 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
1945919 ATCCTATTTTAGGAG-TTGAATCCTAGCATAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
* *
1945954 ATCATATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
1945982 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.47
36 11 0.20
37 18 0.33
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:1946847 original size:109 final size:109
Alignment explanation
Indices: 1946637--1946997 Score: 502
Period size: 109 Copynumber: 3.4 Consensus size: 109
1946627 AAAATATTTA
* *
1946637 TTGACAACCAGCCGTCCC-TCGTTGTG-AGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCT
* ** * **
1946700 CCGTCGTGGAGTTAAAATCGCG-GATGAAACTGAAAAGTTGTTCG
66 CCGTCGTGGAGTTGAAATCG-GTTCTGAAATTGGGAAGTTGTTCG
* *
1946744 TTGACAACCAGTCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTTTCCTCGGGTAGCACGATATCC
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT-CTCGGGTAGCACGATATCC
* *
1946808 TCCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCG
65 TCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGGAAGTTGTTCG
1946853 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC-GGTAGCACGATATCCT
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCT
* *
1946917 CCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTGTT-G
66 CCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGGAAGTTGTTCG
* * *
1946960 TTGGC-ACTAGACGTCCCTTCGTTGTGAAGTTGAACTTG
1 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
1946998 ACTCTAGCTA
Statistics
Matches: 228, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
106 31 0.14
107 26 0.11
108 74 0.32
109 76 0.33
110 21 0.09
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (109 bp):
TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCT
CCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGGAAGTTGTTCG
Found at i:1947808 original size:35 final size:36
Alignment explanation
Indices: 1947754--1947836 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
1947744 AATGTTTATG
* *
1947754 TTTC-AGGAGAAACTGTCTCAAG-GAGACAAAATT-T
1 TTTCAAGG-GAAACTATCTCAAGAGAGACAAAATTCA
1947788 TGTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
1 T-TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
1947825 TTTCAAGGGAAA
1 TTTCAAGGGAAA
1947837 TGTTTCCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 1 0.02
35 16 0.37
36 25 0.58
37 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:1947941 original size:101 final size:102
Alignment explanation
Indices: 1947690--1948020 Score: 562
Period size: 101 Copynumber: 3.3 Consensus size: 102
1947680 GACAAAATTG
* *
1947690 TTCAAGGGAAATTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* *
1947755 TTCAGGAGAAACTGTCTCAA-GGAGACAAAATTTTG-
66 TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGT
*
1947790 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
1947855 TTCAAGAG-AACTGTCTCAAGGGAGAAAAAATTTTGT
66 TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGT
* *
1947891 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGAAAATGTTTTCAATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
1947956 TTCAAGAGAAACTGTCTCAAGGGAG-AAAAATTTTGT
66 TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGT
*
1947992 TTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTCAAGGGAAACTATCTCAAGAGAGACAA
1948021 TGGTGAGCAC
Statistics
Matches: 219, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
99 11 0.05
100 83 0.38
101 109 0.50
102 16 0.07
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (102 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
TTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGT
Found at i:1949532 original size:16 final size:17
Alignment explanation
Indices: 1949504--1949551 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1949494 TTGCATGTGC
1949504 TTTTTGTTCCTTTTTT-A
1 TTTTTGTT-CTTTTTTCA
*
1949521 TTTTTGTTCTTTTTTCT
1 TTTTTGTTCTTTTTTCA
1949538 TTTTTGCTTCTTTT
1 TTTTTG-TTCTTTT
1949552 CTTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.25
17 14 0.50
18 7 0.25
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTGTTCTTTTTTCA
Found at i:1949537 original size:7 final size:7
Alignment explanation
Indices: 1949522--1949563 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
1949512 CCTTTTTTAT
1949522 TTTTGTTC
1 TTTT-TTC
1949530 TTTTTTC
1 TTTTTTC
1949537 TTTTTTGC
1 TTTTTT-C
1949545 TTCTTTTC
1 TT-TTTTC
1949553 TTTTTTC
1 TTTTTTC
1949560 TTTT
1 TTTT
1949564 GCCCCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 18 0.56
8 10 0.31
9 4 0.12
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:1949539 original size:23 final size:23
Alignment explanation
Indices: 1949513--1949563 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1949503 CTTTTTGTTC
*
1949513 CTTTTTT-ATTTTTGTTCTTTTTT
1 CTTTTTTGATTCTT-TTCTTTTTT
*
1949536 CTTTTTTGCTTCTTTTCTTTTTT
1 CTTTTTTGATTCTTTTCTTTTTT
1949559 CTTTT
1 CTTTT
1949564 GCCCCTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (23 bp):
CTTTTTTGATTCTTTTCTTTTTT
Found at i:1949557 original size:17 final size:15
Alignment explanation
Indices: 1949504--1949558 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
1949494 TTGCATGTGC
1949504 TTTTTGTTCCTTTTTT
1 TTTTTGTT-CTTTTTT
1949520 ATTTTTGTTCTTTTTTCT
1 -TTTTTGTTC-TTTTT-T
1949538 TTTTTGCTTCTTTTCTT
1 TTTTTG-TTCTTTT-TT
1949555 TTTT
1 TTTT
1949559 CTTTTGCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 28 0.82
18 5 0.15
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.80
Consensus pattern (15 bp):
TTTTTGTTCTTTTTT
Found at i:1949571 original size:21 final size:22
Alignment explanation
Indices: 1949527--1949577 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
1949517 TTTATTTTTG
**
1949527 TTCTTTTTTCTTTTTTGCTTCTT
1 TTCTTTTTTC-TTTTTGCCCCTT
1949550 TTCTTTTTTC-TTTTGCCCCTT
1 TTCTTTTTTCTTTTTGCCCCTT
*
1949571 TTGTTTT
1 TTCTTTT
1949578 GATTGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
23 10 0.40
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.75
Consensus pattern (22 bp):
TTCTTTTTTCTTTTTGCCCCTT
Found at i:1952886 original size:21 final size:21
Alignment explanation
Indices: 1952862--1952908 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1952852 ATATATATAT
*
1952862 ATAATTATAATAACG-AAAAAA
1 ATAATT-TAATAAAGTAAAAAA
*
1952883 ATAATTTAATAAAGTAAAATA
1 ATAATTTAATAAAGTAAAAAA
1952904 ATAAT
1 ATAAT
1952909 AATGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
ATAATTTAATAAAGTAAAAAA
Found at i:1953666 original size:36 final size:35
Alignment explanation
Indices: 1953616--1953697 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
1953606 GTACTTGTGG
*
1953616 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAG-TTAAAACATAACAAAATTCT
* * * *
1953653 ATCCTATTTTAGGAGTTGAATCCTAACAGAATTCT
1 ATCCTATTTTAGGAGTTAAAACATAACAAAATTCT
1953688 ATCCTATTTT
1 ATCCTATTTT
1953698 TTAGAGTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 25 0.62
36 8 0.20
37 7 0.17
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (35 bp):
ATCCTATTTTAGGAGTTAAAACATAACAAAATTCT
Found at i:1956421 original size:6 final size:6
Alignment explanation
Indices: 1956410--1956437 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1956400 AAATGACTCC
1956410 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
1956438 TATGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:1958667 original size:13 final size:13
Alignment explanation
Indices: 1958649--1958697 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
1958639 CTTAGCATGT
1958649 TTAAAAATAAAAC
1 TTAAAAATAAAAC
1958662 TT-AAAATAAAA-
1 TTAAAAATAAAAC
1958673 -TAAAAATGAAAAC
1 TTAAAAAT-AAAAC
* *
1958686 TTGAAAAGAAAA
1 TTAAAAATAAAA
1958698 TAAAAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
12 13 0.43
13 6 0.20
14 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.20
Consensus pattern (13 bp):
TTAAAAATAAAAC
Found at i:1958678 original size:24 final size:25
Alignment explanation
Indices: 1958650--1958702 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
1958640 TTAGCATGTT
*
1958650 TAAAAAT-AAAACTT-AAAATAAAA
1 TAAAAATGAAAACTTGAAAAGAAAA
1958673 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAATGAAAACTTGAAAAGAAAA
1958698 TAAAA
1 TAAAA
1958703 GAAATAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (25 bp):
TAAAAATGAAAACTTGAAAAGAAAA
Found at i:1958712 original size:25 final size:23
Alignment explanation
Indices: 1958650--1958706 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1958640 TTAGCATGTT
* *
1958650 TAAAAATAAAACTTAAAATAAAA
1 TAAAAAGAAAACTTAAAAGAAAA
1958673 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAA-GAAAACTT-AAAAGAAAA
1958698 T-AAAAGAAA
1 TAAAAAGAAA
1958707 TAACTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.33
24 11 0.37
25 9 0.30
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAAGAAAACTTAAAAGAAAA
Found at i:1972489 original size:18 final size:18
Alignment explanation
Indices: 1972467--1972684 Score: 61
Period size: 18 Copynumber: 13.1 Consensus size: 18
1972457 CTATATTTTA
1972467 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
1972485 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
1972499 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
1972517 AACT--A-CAA-T-A-AT
1 AAATAAATCAATTCATAC
* *
1972529 AAATCAATCCATATT-TTA-
1 AAATAAAT-CA-ATTCATAC
*
1972547 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
*
1972565 AAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
1972579 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
1972597 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
* *
1972611 AAATAAATCAATCCATATTTTA
1 AAATAAATCAATTCATA----C
*
1972633 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
1972651 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
1972665 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
1972683 AA
1 AA
1972685 CTACAATAAT
Statistics
Matches: 143, Mismatches: 28, Indels: 58
0.62 0.12 0.25
Matches are distributed among these distances:
12 4 0.03
13 1 0.01
14 31 0.22
15 20 0.14
16 5 0.03
17 22 0.15
18 42 0.29
19 1 0.01
22 17 0.12
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:1972496 original size:54 final size:54
Alignment explanation
Indices: 1972431--1973117 Score: 421
Period size: 54 Copynumber: 12.5 Consensus size: 54
1972421 ACAACTATAA
*
1972431 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
1972485 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAA-TC-TA-TATTTTAA-AATAAATCAATCCATA--C
* * ** * * *
1972545 TAAAATAAATCAATCCATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1972597 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
1972651 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATAC
** * * * * *
1972708 TTTTACAATAAATCAATACATACTAAT-AA-AT-TA-TTTAAAATAAATCAATCCATATTT
1 TAATA-AATTATTTAA-A-ATA--AATCAATCTATATTTTAAAATAAATCAATCCATA--C
* * ** * * *
1972765 TAAAATAAATCAATCCATACAAAT-AAT-T-T-TTTTTAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
1972817 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * * **
1972871 CAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATAC
** * * * *
1972928 TTTTAAAATAAATTAATACATACTAAT-AA-AT-TA-TTTAAAATAAATCAATCCATATTT
1 TAAT-AAATTATTTAA-A-ATA--AATCAATCTATATTTTAAAATAAATCAATCCATA--C
* * ** * * *
1972985 TAAAATAAATCAATCGATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1973037 TAATAAATTATTTAAAATAAATCAAT-TCATATTTAAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATCCATAC
1973091 TAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
1973118 CATACAACTA
Statistics
Matches: 494, Mismatches: 87, Indels: 103
0.72 0.13 0.15
Matches are distributed among these distances:
50 45 0.09
51 8 0.02
52 3 0.01
53 5 0.01
54 271 0.55
55 13 0.03
56 11 0.02
57 18 0.04
58 81 0.16
59 5 0.01
60 7 0.01
61 6 0.01
62 21 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:1972618 original size:166 final size:167
Alignment explanation
Indices: 1972431--1972847 Score: 646
Period size: 166 Copynumber: 2.5 Consensus size: 167
1972421 ACAACTATAA
*
1972431 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
1972496 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATAC
1972561 ATACAAATAAATTATTTAAAATAAATCAATCCATA-C
131 ATACAAATAAATTATTTAAAATAAATCAATCCATATC
*
1972597 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
1972662 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTACAATAAATCAATAC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATAC
* *
1972727 ATACTAATAAATTATTTAAAATAAATCAATCCATATTT
131 ATACAAATAAATTATTTAAAATAAATCAATCCATA-TC
* * ** * * *
1972765 TAAAATAAATCAATCCATACAAAT-AAT-T-T-TTTTTAAATAAATCAATCCATACTAATAAATT
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATT
1972826 ATTTAAAATAAATCAATCCATA
64 ATTTAAAATAAATCAATCCATA
1972848 TTTTAAAATA
Statistics
Matches: 232, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
166 212 0.91
167 1 0.00
168 1 0.00
169 3 0.01
170 15 0.06
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (167 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATAC
ATACAAATAAATTATTTAAAATAAATCAATCCATATC
Found at i:1972633 original size:22 final size:22
Alignment explanation
Indices: 1972607--1972649 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1972597 TAATAAATTA
1972607 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1972629 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1972650 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1972633 original size:134 final size:130
Alignment explanation
Indices: 1972575--1973035 Score: 459
Period size: 134 Copynumber: 3.4 Consensus size: 130
1972565 AAATAAATTA
*
1972575 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
1972640 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATAC-AATAAA-TA-TT-AAATAAATCAATCCATACAACTAAAATAATAAATCAATCA
1972705 ATAT
127 ATAT
*
1972709 TTTACAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
1972774 TCAATCCATACAAATAATTTTTTTTAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAA
66 TCAATCCATAC-AATAA---ATATTAAATAAATCAATCCATAC-AACTAAA--A--T--AATAAA
*
1972838 TCAATCCATAT
120 TCAATCAATAT
* * *** *
1972849 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAA
* * * * * *
1972913 ATAAATCAAT-CCAT--ATTTTAAAATAAATTAATACATACTAA-TAAATTATTTAAAATAAATC
65 ATCAATCCATACAATAAATATT-AAATAAATCAATCCATAC-AACTAAA--A--T--AATAAATC
*
1972974 AATCCATAT
122 AATCAATAT
*
1972983 TTTAAAATAAATCAAT-CGATACAAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATAC-ATACTAATAAATTATTTAAAATAAATCAATCCATA
1973036 CTAATAAATT
Statistics
Matches: 294, Mismatches: 20, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
133 5 0.02
134 198 0.67
135 4 0.01
136 2 0.01
138 3 0.01
139 1 0.00
140 76 0.26
141 5 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (130 bp):
TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACAATAAATATTAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATAT
Found at i:1972658 original size:22 final size:22
Alignment explanation
Indices: 1972609--1972657 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1972599 ATAAATTATT
**
1972609 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1972631 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1972654 TAAA
1 TAAA
1972658 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1972752 original size:220 final size:220
Alignment explanation
Indices: 1972526--1973255 Score: 1352
Period size: 220 Copynumber: 3.3 Consensus size: 220
1972516 CAACTACAAT
1972526 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1972591 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
*
1972656 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTACAATAAAT
131 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
1972721 CAATACATACTAATAAATTATTTAA
196 CAATACATACTAATAAATTATTTAA
* * *
1972746 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAATTTTTTTTAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* *
1972811 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACCAATA
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
1972876 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
131 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
*
1972941 TAATACATACTAATAAATTATTTAA
196 CAATACATACTAATAAATTATTTAA
*
1972966 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
* *
1973031 CCATACTAATAAATTATTTAAAATAAATCAATTCATATTTAAAAATAAATCAATCCATACTAATA
66 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
1973096 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
131 AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
*
1973161 CAATACATACTAATAAATTATATAA
196 CAATACATACTAATAAATTATTTAA
*
1973186 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1973251 CCATA
66 CCATA
1973256 TTTTAAAATA
Statistics
Matches: 491, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
220 491 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (220 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAAT
CAATACATACTAATAAATTATTTAA
Found at i:1972767 original size:22 final size:22
Alignment explanation
Indices: 1972741--1972783 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1972731 TAATAAATTA
1972741 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1972763 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1972784 CAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1972853 original size:22 final size:22
Alignment explanation
Indices: 1972827--1972869 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1972817 TAATAAATTA
1972827 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1972849 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1972870 CCAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1973069 original size:21 final size:22
Alignment explanation
Indices: 1973045--1973089 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1973035 ACTAATAAAT
*
1973045 TATTT-AAAATAAATCAATTCA
1 TATTTAAAAATAAATCAATCCA
1973066 TATTTAAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
1973088 TA
1 TA
1973090 CTAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:1973098 original size:22 final size:22
Alignment explanation
Indices: 1973050--1973098 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1973040 TAAATTATTT
* *
1973050 AAAATAAATCAATTCATATTTA
1 AAAATAAATCAATCCATATCTA
1973072 AAAATAAATCAATCCATA-CTA
1 AAAATAAATCAATCCATATCTA
1973093 ATAAAT
1 A-AAAT
1973099 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:1973178 original size:22 final size:22
Alignment explanation
Indices: 1973106--1973178 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
1973096 AATTATTTAA
* *
1973106 AATAAATCAATCCATACA-ACT
1 AATAAATAAATCAATACATACT
*
1973127 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATACATACT
**
1973149 TTTAAAATAAATCAATACATACT
1 AAT-AAATAAATCAATACATACT
1973172 AATAAAT
1 AATAAAT
1973179 TATATAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 2 0.05
22 32 0.84
23 4 0.11
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATACATACT
Found at i:1973192 original size:274 final size:270
Alignment explanation
Indices: 1972692--1973273 Score: 752
Period size: 274 Copynumber: 2.1 Consensus size: 270
1972682 CAACTACAAT
* *
1972692 AATAAATCAATCCATATTTTACAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-CATACAAATAAATTATTTAAAATAAATCAAT
* * * **
1972757 CCATATTTTAAAATAAATCAATCCATACAAATAATTTTTTTTAAATAAATCAATCCATACTAATA
65 CCATA-TCT-AAATAAATCAATCAAAACAAATAATTTTTTAAAAATAAATCAATCCATACTAATA
*** *
1972822 AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACCAATAAATTATTTAAA
128 AATTATTTAAAATAAATCAATCCATAAACTAAAATAAATCAAATCATACCAAT-AATTATTTAAA
* *
1972887 ATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATTAATACATACT
192 ATAAATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATACATACT
1972952 AATAAATTATTTAA
257 AATAAATTATTTAA
1972966 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACAAATAAATTATTTAAAATAAATCAAT
* * * *
1973031 CCATA-CT-AATAAATTATTTAAAATAAATCAATTCATATTTAAAAATAAATCAATCCATACTAA
65 CCATATCTAAATAAATCAATCAAAACAAAT-AATT--T-TTTAAAAATAAATCAATCCATACTAA
*
1973094 TAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AAATCA-ATCC-AT-A-T-TTT
126 TAAATTATTTAAAATAAATCAATCCATA-AACTAAAATAAATCAAATCATA-CCAATAATTATTT
*
1973152 AAAATAAATCAATACATACTAA-TAAATTATATAAAATAAATCAATCCATATTTTAAAATAAATC
189 AAAATAAATCAATACATAC-AACT--A-CA-AT--AATAAATCAATCCATATTTTAAAATAAATC
*
1973216 AATCCATACTAATAAATTATTTAA
247 AATACATACTAATAAATTATTTAA
1973240 AATAAATCAATCCATATTTTAAAATAAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATC
1973274 CATATTTTAT
Statistics
Matches: 274, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
268 22 0.08
269 3 0.01
270 17 0.06
271 5 0.02
272 6 0.02
273 9 0.03
274 207 0.76
275 5 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (270 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACAAATAAATTATTTAAAATAAATCAATC
CATATCTAAATAAATCAATCAAAACAAATAATTTTTTAAAAATAAATCAATCCATACTAATAAAT
TATTTAAAATAAATCAATCCATAAACTAAAATAAATCAAATCATACCAATAATTATTTAAAATAA
ATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATA
AATTATTTAA
Found at i:1973229 original size:18 final size:18
Alignment explanation
Indices: 1973131--1973232 Score: 59
Period size: 22 Copynumber: 5.4 Consensus size: 18
1973121 ACAACTACAA
*
1973131 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA--C
*
1973151 TAAAATAAATCAATACATAC
1 T--AATAAATCAATCCATAC
*
1973171 TAATAAAT-TAT--ATA-
1 TAATAAATCAATCCATAC
* *
1973185 AAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA--C
1973205 TAAAATAAATCAATCCATAC
1 T--AATAAATCAATCCATAC
1973225 TAATAAAT
1 TAATAAAT
1973233 TATTTAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
14 7 0.11
15 5 0.08
17 5 0.08
18 14 0.22
20 3 0.05
22 31 0.48
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATAAATCAATCCATAC
Found at i:1973232 original size:22 final size:22
Alignment explanation
Indices: 1973182--1973231 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
1973172 AATAAATTAT
*
1973182 ATAAAATAAATCAATCCATATT
1 ATAAAATAAATCAATCCATATA
*
1973204 TTAAAATAAATCAATCCATACTA
1 ATAAAATAAATCAATCCATA-TA
1973227 ATAAA
1 ATAAA
1973232 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAATAAATCAATCCATATA
Found at i:1973261 original size:22 final size:22
Alignment explanation
Indices: 1973235--1973288 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1973225 TAATAAATTA
1973235 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1973257 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1973279 TTTATAATAA
1 TTTAAAATAA
1973289 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1973292 original size:54 final size:53
Alignment explanation
Indices: 1972692--1973277 Score: 433
Period size: 54 Copynumber: 10.7 Consensus size: 53
1972682 CAACTACAAT
* *
1972692 AATAAATCAATCCATATTTTACAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
* * *
1972746 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAATTTTTTTTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA-TTATTTAA
** * * *
1972800 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATAATTATTTAA
1972854 AATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATC-A---AT-CC-AT--A-T-TTTAAAATAAATCAATCCATACTAA-TA-ATTATTTAA
* *
1972912 AATAAATCAATCCATATTTTAAAATAAATTAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
* *
1972966 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
** * ** * ** *
1973020 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATTCA-TATTTAAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAA-TAATTATTT-AA
1973074 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TA-ATTATTTAA
* *
1973132 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATATAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
1973186 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAA
1973240 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1973278 TTTTATAATA
Statistics
Matches: 434, Mismatches: 46, Indels: 104
0.74 0.08 0.18
Matches are distributed among these distances:
48 45 0.10
49 8 0.02
50 4 0.01
52 6 0.01
53 9 0.02
54 249 0.57
55 18 0.04
56 5 0.01
57 4 0.01
58 34 0.08
59 7 0.02
60 16 0.04
61 2 0.00
62 10 0.02
63 16 0.04
64 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTTAA
Found at i:1973296 original size:15 final size:15
Alignment explanation
Indices: 1973276--1973410 Score: 209
Period size: 15 Copynumber: 9.0 Consensus size: 15
1973266 AATCAATCCA
*
1973276 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
1973291 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1973306 TATTTTATAATAAAT
1 TATTTTATAATAAAT
1973321 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
1973336 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1973351 TATTTTATAATAAAT
1 TATTTTATAATAAAT
1973366 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
1973381 CT-TTTTAAAATAAAT
1 -TATTTTATAATAAAT
*
1973396 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1973411 AACCTTATTA
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
14 1 0.01
15 110 0.98
16 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1973381 original size:188 final size:188
Alignment explanation
Indices: 1972566--1973305 Score: 507
Period size: 188 Copynumber: 3.9 Consensus size: 188
1972556 AATCCATACA
* *
1972566 AATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATT
1 AATAAATAT-TTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAATCAATCCATATT
**
1972630 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
65 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--ATTTA-AA-AAT
** ** * * * * * *
1972695 AAATCAATCCAT-ATTTTACAA-TAAAT-CAATACAT-ACT-AATA-AATTATTTAA-AATAAAT
126 AAATCAATCCATAATAATA-AATTATTTAAAATAAATCAATCCATACAACTA--CAATAATAAAT
1972753 C
188 C
** * * * * * *
1972754 AATCCATATTTTAAAATAAATCAATCCATACAAATAATTTTTTTTAAATAAATCAATCCATACTA
1 AATAAATATTTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAATCAAT-C---C--
** * ** * * * * **
1972819 ATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATTCATACCAATAAATTATT
60 AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AAATCAATCCA-TATT
* * * *
1972883 T-AAAATAAATCAATCCATACA-ACTACA--A--T--AATAAATCAATCCATATTTTAAAATA-A
119 TAAAAATAAATCAATCCATA-ATAATAAATTATTTAAAATAAATCAATCCATA----CAACTACA
*
1972939 ATTAATACATAC
179 A-TAATAAAT-C
* ** * * * ** **
1972951 TAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCGATACAAATAAAT
1 -AATAAATAT-TTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAAT-C-AATCCAT
*
1973013 -TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTAAAAAT
62 AT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAAT
*
1973077 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATC
126 AAATCAATCCATAATAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATC
**
1973140 AATCCATATTTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAATCAATCCATATTT
1 AATAAATATTTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAATCAATCCATATTT
*
1973205 TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC
66 TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATC
*
1973270 AATCCATATTTTATAATAATTTATTTTAAAATAAAT
131 AATCCATA----ATAATAAATTA-TTTAAAATAAAT
1973306 TATTTTATAA
Statistics
Matches: 429, Mismatches: 75, Indels: 91
0.72 0.13 0.15
Matches are distributed among these distances:
187 5 0.01
188 204 0.48
189 26 0.06
190 23 0.05
191 5 0.01
192 16 0.04
193 13 0.03
194 36 0.08
195 4 0.01
196 13 0.03
197 26 0.06
198 57 0.13
199 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (188 bp):
AATAAATATTTTAAAATAAATCAATACATACTAATAAATTATATAAAATAAATCAATCCATATTT
TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAAATAAATC
AATCCATAATAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATC
Found at i:1994219 original size:20 final size:20
Alignment explanation
Indices: 1994194--1994238 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1994184 CCTCAGCTTT
*
1994194 GTGTGACCAAAACCCGATCA
1 GTGTGACCAAAACCCGACCA
*
1994214 GTGTGACCAGAACCCGACCA
1 GTGTGACCAAAACCCGACCA
1994234 GTGTG
1 GTGTG
1994239 GCTCTCTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (20 bp):
GTGTGACCAAAACCCGACCA
Found at i:1996053 original size:261 final size:260
Alignment explanation
Indices: 1995568--1996087 Score: 835
Period size: 261 Copynumber: 2.0 Consensus size: 260
1995558 TAGACCCAAG
* * *
1995568 GTGCTCTCTTAGGTTGGCACCTACGCACTTGGGGCCTAGGGTAAATCCTTATGGATGCAGTTATG
1 GTGCTCCCCTAGGTTGGCACCTACGCACTTGGGGCCTAGGGTAAATCCTTATGGATGCAGTTATA
*
1995633 TGGAATTGCATATAGTGATCGGTTAGATCTCGATTCTGAAATTTCAAACTAAAAACACTACTGAC
66 TGGAATTGCATATAGTGATCGGTTAGATCGCGATTCTGAAATTTCAAACTAAAAACACTACTGAC
* *
1995698 GTTTTCACAATTTGGTACTAAACTGATATTGAAACCTCTACTGACGTTTCGTGACTTTATTGATG
131 GTTTTCACAATTTGGTACTAAACTGATATTGAAACCTCTACCGACGTTTCATGACTTTATTGATG
* * * *
1995763 AACTAGTTTTGAAATCTAAATTGTATGTTTATTTATGCACTGTTGGAATAGTCCGAGCTCCCTAT
196 AAATAGTTTTGAAATCTAAATTGTATGTTTATTTAAGCACTGTTGGAACACTCCGAGCTCCCTAT
* * *
1995828 GTGCTCCCCTAGGTTGGCACCTACGCCCTTGGGGCCTAGGGTAAGTCCTTATGGATGCAGTTCTA
1 GTGCTCCCCTAGGTTGGCACCTACGCACTTGGGGCCTAGGGTAAATCCTTATGGATGCAGTTATA
*
1995893 TGGAACTT-CATATGGTGATCGGTTAGATCGCGATTCTGAAATTTCAAACTAAAAAACACTACTG
66 TGGAA-TTGCATATAGTGATCGGTTAGATCGCGATTCTGAAATTTCAAACT-AAAAACACTACTG
* * * * * *
1995957 ATGTTTTCACAATTTGGTAGTAAACTGATTTTGAAACCTCTACCGATGTTTTATGACTTTATTGT
129 ACGTTTTCACAATTTGGTACTAAACTGATATTGAAACCTCTACCGACGTTTCATGACTTTATTGA
1996022 TGAAATAGTTTTGAAATCTAAATTGTATGTTTATTTAAGCACTGTTGGAACACTCCGAGCTCCCT
194 TGAAATAGTTTTGAAATCTAAATTGTATGTTTATTTAAGCACTGTTGGAACACTCCGAGCTCCCT
1996087 A
259 A
1996088 GCTCACACCC
Statistics
Matches: 238, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
260 104 0.44
261 134 0.56
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (260 bp):
GTGCTCCCCTAGGTTGGCACCTACGCACTTGGGGCCTAGGGTAAATCCTTATGGATGCAGTTATA
TGGAATTGCATATAGTGATCGGTTAGATCGCGATTCTGAAATTTCAAACTAAAAACACTACTGAC
GTTTTCACAATTTGGTACTAAACTGATATTGAAACCTCTACCGACGTTTCATGACTTTATTGATG
AAATAGTTTTGAAATCTAAATTGTATGTTTATTTAAGCACTGTTGGAACACTCCGAGCTCCCTAT
Found at i:2002132 original size:20 final size:20
Alignment explanation
Indices: 2002078--2002144 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
2002068 ATTGGAAACC
* * *
2002078 AAAGTTTCGAAACTATAAGG
1 AAAGTTTCGAAACTCTTATG
*
2002098 GAAGTTTCGAAACTCTTATG
1 AAAGTTTCGAAACTCTTATG
*
2002118 AAAGTTTCGAAACTCTTGTG
1 AAAGTTTCGAAACTCTTATG
2002138 -AAGTTTC
1 AAAGTTTC
2002145 AAAAATCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
AAAGTTTCGAAACTCTTATG
Found at i:2002848 original size:24 final size:24
Alignment explanation
Indices: 2002821--2002872 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
2002811 AACTGCAACG
*
2002821 TAGAATTTGCACCGAAGTGCCACA
1 TAGAATATGCACCGAAGTGCCACA
2002845 TAGAATATGCACCGAAGTGCCACA
1 TAGAATATGCACCGAAGTGCCACA
2002869 TAGA
1 TAGA
2002873 TTTTTCTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (24 bp):
TAGAATATGCACCGAAGTGCCACA
Found at i:2002942 original size:23 final size:23
Alignment explanation
Indices: 2002864--2002934 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
2002854 CACCGAAGTG
* * *
2002864 CCACATAGATTTTTCTTGAAGGA
1 CCACATAGAATTATCTTAAAGGA
*
2002887 CCACATAGAATTATCTCAAAGGA
1 CCACATAGAATTATCTTAAAGGA
* *
2002910 TCACATAGAATTGTCTTAAAGGA
1 CCACATAGAATTATCTTAAAGGA
2002933 CC
1 CC
2002935 GCGTAGAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (23 bp):
CCACATAGAATTATCTTAAAGGA
Found at i:2003706 original size:19 final size:20
Alignment explanation
Indices: 2003667--2003706 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2003657 AATTCATATG
**
2003667 GTATCGATACTGTTCTTCTA
1 GTATCGATACCATTCTTCTA
2003687 GTATCGATACCATT-TTCTA
1 GTATCGATACCATTCTTCTA
2003706 G
1 G
2003707 AATTCACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACCATTCTTCTA
Found at i:2008989 original size:23 final size:23
Alignment explanation
Indices: 2008880--2008981 Score: 143
Period size: 23 Copynumber: 4.4 Consensus size: 23
2008870 AGAATATACA
*
2008880 CCGAAGTG-CCACATAGATTTGTC
1 CCGAAG-GACCACATAGAATTGTC
* *
2008903 CCGAAGGACCGCATAAAATTGTC
1 CCGAAGGACCACATAGAATTGTC
*
2008926 CCAAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
2008949 CCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
*
2008972 CCGAATGACC
1 CCGAAGGACC
2008982 GCGTAGAACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 69 0.99
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:2009138 original size:57 final size:56
Alignment explanation
Indices: 2009063--2009172 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 56
2009053 CATATAAGTG
** *
2009063 TTCAATAGCATTTTTCAAATT-GTCATTTATTCACATAGAACATATACGCATAATAT
1 TTCAATAGCATTACTCAAATTAAT-ATTTATTCACATAGAACATATACGCATAATAT
*
2009119 TTCACATAGCATTACTCAAATTAATGTTTATTCACATAGAACATATACGCATAA
1 TTCA-ATAGCATTACTCAAATTAATATTTATTCACATAGAACATATACGCATAA
2009173 CAATGAACTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 4 0.08
57 43 0.90
58 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (56 bp):
TTCAATAGCATTACTCAAATTAATATTTATTCACATAGAACATATACGCATAATAT
Found at i:2009659 original size:19 final size:20
Alignment explanation
Indices: 2009635--2009672 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2009625 TACCTTTTTC
2009635 ATTATT-GTATCGATACCCT
1 ATTATTAGTATCGATACCCT
2009654 ATTATTAGTATCGATACCC
1 ATTATTAGTATCGATACCC
2009673 CTAGTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
ATTATTAGTATCGATACCCT
Found at i:2023378 original size:20 final size:20
Alignment explanation
Indices: 2023342--2023379 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2023332 GGTGGGATTT
*
2023342 TTTTTATAACAACACATCCG
1 TTTTTATAACAAAACATCCG
2023362 TTTTTATAGA-AAAACATC
1 TTTTTATA-ACAAAACATC
2023380 ACGATTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTTTATAACAAAACATCCG
Found at i:2026179 original size:23 final size:23
Alignment explanation
Indices: 2026149--2026194 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2026139 TAACACACAT
2026149 ATGACTCTTTATACAATGTGTAG
1 ATGACTCTTTATACAATGTGTAG
2026172 ATGACTCTTTATACAATGTGTAG
1 ATGACTCTTTATACAATGTGTAG
2026195 GTCATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (23 bp):
ATGACTCTTTATACAATGTGTAG
Found at i:2028889 original size:19 final size:20
Alignment explanation
Indices: 2028840--2028891 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
2028830 TTTGAACCCA
*
2028840 AAGTTTCGAAACTATAAGTG
1 AAGTTTCGAAACTCTAAGTG
** *
2028860 AA-TTTTAAAACTCT-TGTG
1 AAGTTTCGAAACTCTAAGTG
2028878 AAGTTTCGAAACTC
1 AAGTTTCGAAACTC
2028892 AAAAGTTAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 5 0.20
19 18 0.72
20 2 0.08
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
AAGTTTCGAAACTCTAAGTG
Found at i:2029641 original size:39 final size:39
Alignment explanation
Indices: 2029597--2029672 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
2029587 ATTTAAAAAT
*
2029597 AATTTAGAATGTTAATA-TGA-AATAATTTAAGAAATTAAG
1 AATTTAGAATGTT-ATAGTGATAA-AACTTAAGAAATTAAG
2029636 AATTTAGAATGTTATAGTGATAAAACTTAAGAAATTA
1 AATTTAGAATGTTATAGTGATAAAACTTAAGAAATTA
2029673 GAAATATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 3 0.09
39 29 0.85
40 2 0.06
ACGTcount: A:0.50, C:0.01, G:0.13, T:0.36
Consensus pattern (39 bp):
AATTTAGAATGTTATAGTGATAAAACTTAAGAAATTAAG
Found at i:2047869 original size:139 final size:136
Alignment explanation
Indices: 2047701--2048099 Score: 426
Period size: 137 Copynumber: 2.9 Consensus size: 136
2047691 GGAGAAAAAG
* * * * * *
2047701 TTCATAATGAGAAGAAATAT-TTAAACCTTAGCTCTATTTATCGTATATGTAGTTGAATCAACAA
1 TTCATAATGAGAAGAACT-TGTTCAACCTTAGCTCGATTCATCGCATATG-AGTTGAATCAATAA
** * * *
2047765 CAATTCACTAGAGGGATCAATATCTT-AAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGA
64 CACCTCACTAGAGGTATCAACAT-TTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAATG-
*
2047829 AGGAAAAGAAG
127 A-GAAAAGAAA
* * * * *
2047840 TTTATAATTAGAATAACTTGTTCAACCTTAGCTCGATTCATTGCATATGGAGTTGAATCAGTAAC
1 TTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATAT-GAGTTGAATCAATAAC
* * * * * **
2047905 ACCTCACTCA-AGGTATTAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCGTCTGATGAG
65 ACCTCACT-AGAGGTATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAG
*
2047969 AGAAGAAA
129 AAAAGAAA
* *
2047977 TTCATAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCGCATATAGAGTTGAATCAATGAC
1 TTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATAT-GAGTTGAATCAATAAC
* * * *
2048042 ACGTCACTCGAGGTATCAACGTTTCAAATGGAGAGTTCATAATGAGATGAACTCATCC
65 ACCTCACTAGAGGTATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCC
2048100 GATAAGGGAC
Statistics
Matches: 212, Mismatches: 43, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
137 111 0.52
138 4 0.02
139 95 0.45
140 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (136 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGAGTTGAATCAATAACA
CCTCACTAGAGGTATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAA
AAGAAA
Found at i:2048030 original size:137 final size:136
Alignment explanation
Indices: 2047666--2048095 Score: 445
Period size: 139 Copynumber: 3.1 Consensus size: 136
2047656 GAAGGACACG
* * *
2047666 TAATGAGAAGAACTCGTCTGATAAGGGAGAA-AAAGTTCATAATGAGAAGAAATAT-TTAAACCT
1 TAATGAGAAGAACTCGTCTGAT--GAGAGAAGAAA-TTCATAATGAGAAGAACT-TGTTCAACCT
* * * * ** * *
2047729 TAGCTCTATTTATCGTATATGTAGTTGAATCAACAACAATTCACT-AGAGGGATCAATATCTT-A
62 TAGCTCGATTCATCGCATATG-AGTTGAATCAATAACACCTCACTCA-AGGTATCAACAT-TTCA
2047792 AATGGAGAGTTCA
124 AATGGAGAGTTCA
* * ** * * * * *
2047805 TAATAAGAAGAACTCATCCAATGAAGGAAAAGAAGTTTATAATTAGAATAACTTGTTCAACCTTA
1 TAATGAGAAGAACTCGTCTGATG-A-GAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTA
* * * * *
2047870 GCTCGATTCATTGCATATGGAGTTGAATCAGTAACACCTCACTCAAGGTATTAACATTTCCAGTG
64 GCTCGATTCATCGCATAT-GAGTTGAATCAATAACACCTCACTCAAGGTATCAACATTTCAAATG
2047935 GAGAGTTCA
128 GAGAGTTCA
* *
2047944 TAATGATAAGAACTCGTCTGATGAGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTAGA
1 TAATGAGAAGAACTCGTCTGATGAGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTAGC
* * * *
2048009 TCGATTCATCGCATATAGAGTTGAATCAATGACACGTCACTCGAGGTATCAACGTTTCAAATGGA
66 TCGATTCATCGCATAT-GAGTTGAATCAATAACACCTCACTCAAGGTATCAACATTTCAAATGGA
2048074 GAGTTCA
130 GAGTTCA
*
2048081 TAATGAGATGAACTC
1 TAATGAGAAGAACTC
2048096 ATCCGATAAG
Statistics
Matches: 236, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
137 111 0.47
138 4 0.02
139 117 0.50
140 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (136 bp):
TAATGAGAAGAACTCGTCTGATGAGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTAGC
TCGATTCATCGCATATGAGTTGAATCAATAACACCTCACTCAAGGTATCAACATTTCAAATGGAG
AGTTCA
Found at i:2048115 original size:22 final size:22
Alignment explanation
Indices: 2048090--2048136 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2048080 ATAATGAGAT
2048090 GAACTCATCCGATAAGGGACAA
1 GAACTCATCCGATAAGGGACAA
** *
2048112 GAACTTGTCCGATAAGGGAGAA
1 GAACTCATCCGATAAGGGACAA
2048134 GAA
1 GAA
2048137 GTTCATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (22 bp):
GAACTCATCCGATAAGGGACAA
Found at i:2048240 original size:159 final size:161
Alignment explanation
Indices: 2047968--2048260 Score: 410
Period size: 159 Copynumber: 1.8 Consensus size: 161
2047958 CGTCTGATGA
* * * * *
2047968 GAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCGCATATAGAGTTGA
1 GAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTAGATCAATTAATCACATATAGAGTTGA
** * * * *
2048033 ATCAATGACACGTCACTCGAGGTATCAACGTTTCAAATGGAGAGTTCATAATGAGATGAACTCAT
66 ATCAACAACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCAT
2048098 CCGATAAGGGACAAGAACTTGTCCGATAAGG
131 CCGATAAGGGACAAGAACTTGTCCGATAAGG
* *
2048129 GAGAAGAAGTTCATAATAAG-A-AACTTGTTCAACATTAGCTCAATTAATCACATATAGAGTTGA
1 GAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTAGATCAATTAATCACATATAGAGTTGA
* * * * *
2048192 ATTAGCAACACCTTACTCGAGGGATCAACATTTCCATTGGAGAGTTCATAATGAGAAGAACTCAT
66 ATCAACAACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCAT
2048257 CCGA
131 CCGA
2048261 ACAAGGAGAA
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
159 95 0.83
160 1 0.01
161 18 0.16
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (161 bp):
GAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTAGATCAATTAATCACATATAGAGTTGA
ATCAACAACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCAT
CCGATAAGGGACAAGAACTTGTCCGATAAGG
Found at i:2052393 original size:19 final size:20
Alignment explanation
Indices: 2052354--2052398 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2052344 GAAATCATTT
*
2052354 TGAAAATACATCATTTTTAA
1 TGAAAATACATCATATTTAA
*
2052374 TGAAAATACATGA-ATTTAA
1 TGAAAATACATCATATTTAA
2052393 TGAAAA
1 TGAAAA
2052399 GAAATGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (20 bp):
TGAAAATACATCATATTTAA
Found at i:2057419 original size:21 final size:21
Alignment explanation
Indices: 2057370--2057419 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2057360 TGCTGCCATG
*
2057370 ATATGTAAATGATCTGCAAAC
1 ATATGTAAATGATCTGAAAAC
*
2057391 ATA-ATAAATGAATCT-AAAAC
1 ATATGTAAATG-ATCTGAAAAC
2057411 ATATGTAAA
1 ATATGTAAA
2057420 ACATAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
ATATGTAAATGATCTGAAAAC
Found at i:2060554 original size:472 final size:473
Alignment explanation
Indices: 2059647--2060598 Score: 1410
Period size: 472 Copynumber: 2.0 Consensus size: 473
2059637 TTGTGCTTTC
*
2059647 AACTTCTTTTTATTTGCAATTTCTTTTTTTTCCTTTTTTTTCTAATTGAATACTTGCAATTTCTT
1 AACTTCTTTTTATTTGCAATTTCTTTTTTTT-CTTTTTTTTCTAATTGAATACTTGCAATTTATT
* * *
2059712 TGCTAAAATTTTGAACTTTCTACAGTTGTACTTATTTTTGTATTTTAGATATGTTGTTGTTGTTT
65 TGCTAAAATTTTGAACTTTCTACACTAGTA--TATTTTTGTATTTTAGATATGTTGTTGTTGTTG
* * * * * *
2059777 CACGATGCTTCTTCAACCAAAGCTCTGAATACCGCTTGATGTTAGGTACTCGTACATTAACTGGT
128 CACGATGCTTCTTCAACAAAAGATCTGAATACCGCTTGATGTAAGGCACTCATACATTAACTGAT
* *
2059842 TGTGGATCTAGGAAGGAAGCAAAACAACCTGCAATAAGTGAATGGTTCAAACATAATAGTTTGGT
193 TGTGAATCTAGGAAGGAAGCAAAACAACCTGCAATAAGTGAATGGTTCAAACAGAATAGTTTGGT
* ***
2059907 AGTTGATGTAAGGGTTGAAATGGTAGGCTTTTATAATGATTTAGAGTTGTGGAAGTTAGTTAAAG
258 AGTTGATGTAAGGGTTGAAATGGTAGGCTTTTATAATGATTCAGAGTTGCAAAAGTTAGTTAAAG
* * **
2059972 TGGTTGGCTATGGTGTAGGTTTAAGAAAGAAATGATGGTGAAGATAGTATCGTAGAAAGTCCAAG
323 TAGTTAGCTATGGTGTAGGTTTAAGAAAGAAATGATGGTGAAGATAGTATCGTAGAAAAACCAAG
* * * * *
2060037 GAAGAACTAGTGCTATAATGATCAAAGACCCAGTCTTACAAATCTCTCTAAGGGGTGGTAGAAAA
388 AAAGAACCAGTGCTATAATGAGCAAAGAACCAGCCTTACAAATCTCTCTAAGGGGTGGTAGAAAA
2060102 GGACTTGCACCCTCTATCTAT
453 GGACTTGCACCCTCTATCTAT
* * ** *
2060123 AACTTCTTTTTCTTTTCAATTT-TTTTCATTTT-TTTTGTTTTCTTCTTGAATGCTTGCAATTTA
1 AACTTCTTTTTATTTGCAATTTCTTTT--TTTTCTTTT-TTTTCTAATTGAATACTTGCAATTTA
* * * *
2060186 TTTGCT-AAATTTGTGAATTTTCTTCACTAGTA-GTTTTT-TATTTTGGATATGTTGTTGTTGTT
63 TTTGCTAAAATTT-TGAACTTTCTACACTAGTATATTTTTGTATTTTAGATATGTTGTTGTTGTT
* * *
2060248 GCACGTTGCTTCTTCAACAAAAGATCTGAATACCGCTTGATGTAAGGCACTCATACCTTAATTGA
127 GCACGATGCTTCTTCAACAAAAGATCTGAATACCGCTTGATGTAAGGCACTCATACATTAACTGA
* *
2060313 TTGTGAATCTAGGAAGGAAGCAAAACAACCTGCAATAAGTGAATGGTTCAAATAGAATGGTTTGG
192 TTGTGAATCTAGGAAGGAAGCAAAACAACCTGCAATAAGTGAATGGTTCAAACAGAATAGTTTGG
2060378 TAGTTGATGTAAGGGTTGAAATGGTAGGCTTTTATAATGATTCAGAGTTGCAAAAGTTAGTTAAA
257 TAGTTGATGTAAGGGTTGAAATGGTAGGCTTTTATAATGATTCAGAGTTGCAAAAGTTAGTTAAA
* * * *
2060443 GTATTTATCTATGGTGTAGGTTTATGAAAGAAATGATGGTGAAGATAGTATCTTAGAAAAACCAA
322 GTAGTTAGCTATGGTGTAGGTTTAAGAAAGAAATGATGGTGAAGATAGTATCGTAGAAAAACCAA
*
2060508 GAAAGGACCAGTGCTATAATGAGCAAAGAACCAGCCTTACAAATCTCTCTAAGGGGTGGTAGAAA
387 GAAAGAACCAGTGCTATAATGAGCAAAGAACCAGCCTTACAAATCTCTCTAAGGGGTGGTAGAAA
2060573 AGGACTTGCACCCTCTATCTAT
452 AGGACTTGCACCCTCTATCTAT
2060595 AACT
1 AACT
2060599 ATATACACTA
Statistics
Matches: 428, Mismatches: 44, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
472 342 0.80
473 5 0.01
475 14 0.03
476 63 0.15
477 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (473 bp):
AACTTCTTTTTATTTGCAATTTCTTTTTTTTCTTTTTTTTCTAATTGAATACTTGCAATTTATTT
GCTAAAATTTTGAACTTTCTACACTAGTATATTTTTGTATTTTAGATATGTTGTTGTTGTTGCAC
GATGCTTCTTCAACAAAAGATCTGAATACCGCTTGATGTAAGGCACTCATACATTAACTGATTGT
GAATCTAGGAAGGAAGCAAAACAACCTGCAATAAGTGAATGGTTCAAACAGAATAGTTTGGTAGT
TGATGTAAGGGTTGAAATGGTAGGCTTTTATAATGATTCAGAGTTGCAAAAGTTAGTTAAAGTAG
TTAGCTATGGTGTAGGTTTAAGAAAGAAATGATGGTGAAGATAGTATCGTAGAAAAACCAAGAAA
GAACCAGTGCTATAATGAGCAAAGAACCAGCCTTACAAATCTCTCTAAGGGGTGGTAGAAAAGGA
CTTGCACCCTCTATCTAT
Found at i:2061948 original size:3 final size:3
Alignment explanation
Indices: 2061940--2061995 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
2061930 CCATTAACCC
*
2061940 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
2061989 TAA TTA T
1 TTA TTA T
2061996 ATTTTTCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2062030 original size:17 final size:17
Alignment explanation
Indices: 2062008--2062058 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
2061998 TTTTCCATAA
2062008 AATTTCCATATTTTTTT
1 AATTTCCATATTTTTTT
** *
2062025 AATTTCTTTATTTTATT
1 AATTTCCATATTTTTTT
*
2062042 AATTTTCAT-TTTTTTT
1 AATTTCCATATTTTTTT
2062058 A
1 A
2062059 TCTAATACGT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTCCATATTTTTTT
Found at i:2063134 original size:5 final size:5
Alignment explanation
Indices: 2063126--2063154 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2063116 ATTTTCCCCT
2063126 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
2063155 TTATCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:2063503 original size:14 final size:14
Alignment explanation
Indices: 2063466--2063497 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2063456 AGTCCCTTCA
2063466 AAGACAACAAGAAC
1 AAGACAACAAGAAC
2063480 AAGACAACAAGAAC
1 AAGACAACAAGAAC
2063494 AAGA
1 AAGA
2063498 TGACAAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.19, G:0.16, T:0.00
Consensus pattern (14 bp):
AAGACAACAAGAAC
Found at i:2065125 original size:20 final size:20
Alignment explanation
Indices: 2065096--2065133 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2065086 TTAGTCTAAA
2065096 TAGTTTTAAG-TGTTTTAAT
1 TAGTTTTAAGATGTTTTAAT
2065115 TAGTATTTAAGATGTTTTA
1 TAGT-TTTAAGATGTTTTA
2065134 GCTTGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (20 bp):
TAGTTTTAAGATGTTTTAAT
Found at i:2065737 original size:17 final size:18
Alignment explanation
Indices: 2065715--2065756 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
2065705 CTTTAATTTG
*
2065715 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATAT
*
2065732 TTTATTTAATTCTTATAT
1 TTTATTTAATTATTATAT
2065750 TTTATTT
1 TTTATTT
2065757 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:2068345 original size:14 final size:15
Alignment explanation
Indices: 2068320--2068387 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 15
2068310 ACCCATTTCG
2068320 TTTTATTTTCATTTTA
1 TTTTA-TTTCATTTTA
**
2068336 -TTTATTTCATTCCA
1 TTTTATTTCATTTTA
2068350 -TTTATTT--TTTTA
1 TTTTATTTCATTTTA
2068362 TTTTTAATTTCAATTTTA
1 -TTTT-ATTTC-ATTTTA
2068380 TTTTATTT
1 TTTTATTT
2068388 TTCTCTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
12 3 0.07
14 18 0.43
15 8 0.19
16 4 0.10
17 4 0.10
18 5 0.12
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTCATTTTA
Found at i:2070811 original size:17 final size:18
Alignment explanation
Indices: 2070789--2070830 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
2070779 CTTTAATTTG
2070789 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
2070806 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
*
2070824 GTTATTT
1 TTTATTT
2070831 TTAAAACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:2071945 original size:95 final size:95
Alignment explanation
Indices: 2071840--2072101 Score: 323
Period size: 95 Copynumber: 2.7 Consensus size: 95
2071830 ATATTATAAT
* * * * *
2071840 ATTATAATATATAATAAAGCTTGAGATGTCCCTATAAAGAAATTGGTTAAATGCTCTGGCTTTAT
1 ATTATAATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGGCTTTAT
2071905 GGAT-ATGATTCAACTAACCTGATAAAGGTG
66 GGATAAT-ATTCAACTAACCTGATAAAGGTG
* * *
2071935 ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTAGAA-CAATTGGTTAAACGCCCCGGCTTTA
1 ATTATAATATATAATAAAGCTTGAGTTGTCCCTCTA-AAGCAATTGGTTAAATGCCCCGGCTTTA
* *
2071999 TGGATAATATTCAGCTAGCCTGATAAAGGTG
65 TGGATAATATTCAACTAACCTGATAAAGGTG
* * * *
2072030 ATTATAATATCT-ATACAATGATATTGAGTTATCCCTCTAGAGCAATTGGTTAAATGCCCCGGCT
1 ATTATAATATATAATA-AA-G--CTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGGCT
2072094 TTATGGAT
62 TTATGGAT
2072102 TCAGCTAGAC
Statistics
Matches: 143, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
94 3 0.02
95 91 0.64
96 5 0.03
97 1 0.01
98 43 0.30
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (95 bp):
ATTATAATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGGCTTTAT
GGATAATATTCAACTAACCTGATAAAGGTG
Found at i:2073492 original size:167 final size:167
Alignment explanation
Indices: 2073198--2073913 Score: 537
Period size: 167 Copynumber: 4.3 Consensus size: 167
2073188 GAAACTATTG
*
2073198 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
* * *
2073263 GTTCCAAGGCACATCATTTACAACATAGCTCAAGGAAAAAGGGCTATTTGCCAACAAAAGACCTT
66 GCTCCAAGGCACAACATTTACAACATAGCTCAAGGAAAAAGGGCTATCTGCCAACAAAAGACCTT
** * *
2073328 CGAGTTCGACTATGCTTAGCTCCAA-GGCACATCATTT
131 CGAGTTCGACTACACTCAGCT-CAACGACACATCATTT
*
2073365 GCAGCATAACTCAAGGCTAGAAGTGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
* * * *
2073430 GCTCCAAGGCATAACATTTGCAGCATAGCTCAAGGCAATAAGGGCTATCTGCCAAC-AAAGACCT
66 GCTCCAAGGCACAACATTTACAACATAGCTCAAGG-AAAAAGGGCTATCTGCCAACAAAAGACCT
* * *
2073494 TTGAGTTTGATTACACTCAGCTCAACGACACATCATTT
130 TCGAGTTCGACTACACTCAGCTCAACGACACATCATTT
* * * * * * * **
2073532 GCAGTATAACTCAAGGCTAG-AGAGGCTATCT----ACCAAAGACCCTC-ACGTTTGATTACACT
1 GCAGCATAACTCAAGGCTAGAAG-GGTTATCTGCCAACAAAAAACCTTCGA-GTTCGACTATGCT
* * ** * * ** * * * * * *** *
2073591 CAGATTCGGGGCACATCATTTGCAGTATAACTCAAGGCTAGAAGGGTTATATATTAAC-TAAGAC
64 CAGCTCCAAGGCACAACATTTACAACATAGCTCAAGG-AAAAAGGGCTATCTGCCAACAAAAGAC
* * *
2073655 CTAT-GAGTCCGATTACACTAAGCTCAACGACACATCATTT
128 CT-TCGAGTTCGACTACACTCAGCTCAACGACACATCATTT
* * * * * * * * * * **
2073695 GCAGTATAGCTCAAGGCTAGAAGGGTTATTTG-C--TAAAGAGCC-TCTATTTTGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
* * * * * * * * * * *
2073756 ACTTCGAGGGAACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACC
66 GC-TCCAAGGCACAACATTTACAACATAGCTCAAGG-AAAAAGGGCTATCTGCCAACAAAAGACC
* * * * * *
2073820 TTCGAATTTGATTACACTCAGCTCAAAGGCACCTCATTT
129 TTCGAGTTCGACTACACTCAGCTCAACGACACATCATTT
* * * * *
2073859 GTAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAATACCTTCGAGTTCGA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTCGAGTTCGA
2073914 TTCCATTCAG
Statistics
Matches: 450, Mismatches: 84, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
162 1 0.00
163 144 0.32
164 117 0.26
165 1 0.00
166 9 0.02
167 160 0.36
168 18 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (167 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
GCTCCAAGGCACAACATTTACAACATAGCTCAAGGAAAAAGGGCTATCTGCCAACAAAAGACCTT
CGAGTTCGACTACACTCAGCTCAACGACACATCATTT
Found at i:2073845 original size:164 final size:162
Alignment explanation
Indices: 2073444--2073889 Score: 547
Period size: 163 Copynumber: 2.7 Consensus size: 162
2073434 CAAGGCATAA
* * * * *
2073444 CATTTGCAGCATAGCTCAAGGCAATAAGGGCTATCTGCCAACAAAGACCTTTGAGTTTGATTACA
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACC-TTGAGTTTGATTACA
* *
2073509 CTCAGCTCAACGACACATCATTTGCAGTATAACTCAAGGCTAG-AGAGGCTATCTACCAAAGACC
65 CTCAGCTCAACGACACATCATTTGCAGTATAGCTCAAGGCTAGAAG-GGTTATCTACCAAAGACC
*
2073573 CTCACGTTTGATTACACTCAGATTCGGGGCACAT
129 CTCACGTTTGATTACACTCAGATTCGGGGAACAT
* * * * * **
2073607 CATTTGCAGTATAACTCAAGGCTAGAAGGGTTATATATTAACTAAGACCTATGAGTCCGATTACA
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCT-TGAGTTTGATTACA
* * * * *
2073672 CTAAGCTCAACGACACATCATTTGCAGTATAGCTCAAGGCTAGAAGGGTTATTTGCTAAAGAGCC
65 CTCAGCTCAACGACACATCATTTGCAGTATAGCTCAAGGCTAGAAGGGTTATCTACCAAAGACCC
*
2073737 TCTA-TTTTGATTACACTCA-ACTTCGAGGGAACAT
130 TC-ACGTTTGATTACACTCAGA-TTCG-GGGAACAT
* *
2073771 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAATTTGATTACA
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTT-GAGTTTGATTACA
* * * * * *
2073836 CTCAGCTCAAAGGCACCTCATTTGTAGCATAGCTCAAGGCGAGAAGGGTTATCT
65 CTCAGCTCAACGACACATCATTTGCAGTATAGCTCAAGGCTAGAAGGGTTATCT
2073890 GTCAACAAAT
Statistics
Matches: 239, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
162 2 0.01
163 127 0.53
164 110 0.46
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (162 bp):
CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTGAGTTTGATTACAC
TCAGCTCAACGACACATCATTTGCAGTATAGCTCAAGGCTAGAAGGGTTATCTACCAAAGACCCT
CACGTTTGATTACACTCAGATTCGGGGAACAT
Found at i:2073924 original size:83 final size:83
Alignment explanation
Indices: 2073198--2073933 Score: 639
Period size: 83 Copynumber: 8.9 Consensus size: 83
2073188 GAAACTATTG
* **
2073198 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* *
2073263 GTTCCAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * * * * * * * ** *
2073282 ACAACATAGCTCAAGG-AAAAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTATGCTTA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCA
*
2073346 GCTCCAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * * **
2073365 GCAGCATAACTCAAGGCTAGAAGTGTTATCTGCCAACAAAAAACCTTCGAGTTCGACTATGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* * *
2073430 GCTCCAAGGCATAACATTT
65 GCTCAAAGGCACATCATTT
* * * * * *
2073449 GCAGCATAGCTCAAGGCAATAAGGGCTATCTGCCAACAAAGACCTTTGAGTTTGATTACACTCAG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
* *
2073514 CTCAACGACACATCATTT
66 CTCAAAGGCACATCATTT
* * * * *
2073532 GCAGTATAACTCAAGGCTAG-AGAGGCTATCT---ACCAAAGACCCTC-ACGTTTGATTACACTC
1 GCAGCATAACTCAAGGCTAGAAG-GGTTATCTGCCAACAAAGACCTTCGA-GTTCGATTACACTC
* **
2073592 AGATTC-GGGGCACATCATTT
64 AG-CTCAAAGGCACATCATTT
* * *** * * *
2073612 GCAGTATAACTCAAGGCTAGAAGGGTTATATATTAACTAAGACCTAT-GAGTCCGATTACACTAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCT-TCGAGTTCGATTACACTCA
* *
2073676 GCTCAACGACACATCATTT
65 GCTCAAAGGCACATCATTT
* * * * * * * * *
2073695 GCAGTATAGCTCAAGGCTAGAAGGGTTATTTGCTAA-AGAG-CC-TCTATTTTGATTACACTCAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * *
2073757 CTTCGAGGGAACATCATTT
66 C-TCAAAGGCACATCATTT
* * * *
2073776 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAATTTGATTACACTCAG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
2073841 CTCAAAGGCACCTCATTT
66 CTCAAAGGCACATCATTT
* * * * * * *
2073859 GTAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTCCATTCAG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
2073924 CTCAAGGGCA
66 CTCAAAGGCA
2073934 TGTTAAATTT
Statistics
Matches: 536, Mismatches: 100, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
79 2 0.00
80 76 0.14
81 49 0.09
82 9 0.02
83 277 0.52
84 123 0.23
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (83 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTT
Found at i:2073928 original size:247 final size:247
Alignment explanation
Indices: 2073198--2073929 Score: 639
Period size: 247 Copynumber: 3.0 Consensus size: 247
2073188 GAAACTATTG
* * * * * **
2073198 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT-TCGAGTTCGACTATGCTC
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAC-AAAGACCTCT-GAGTTTGATTACACTC
** * * * * * * *
2073262 AGTTCCAA-GGCACATCATTTACAACATAGCTCAAGG-AAAAAGGGCTATTTGCCAACAAAAGAC
64 AACT-CAACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCAAC-AAAGAC
* * ** * *
2073325 CTTCGAGTTCGACTATGCTTAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGTG
127 CTTCGAGTTTGATTACACTCAGCT-CAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGG
* * * *
2073390 TTATCTGCCAACAAAAAACCTTCGAGTTCGA--CTATGCTCAGCTCCAAGGCATAACATTT
191 TTATCTGTCAAC-AAAAACCTTCGAGTTCGATTCCAT--TCAGCT-CAAGACACAACATTT
* * *
2073449 GCAGCATAGCTCAAGGCAATAAGGGCTATCTGCCAACAAAGACCTTTGAGTTTGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTCTGAGTTTGATTACACTCAA
* * * *
2073514 CTCAACGACACATCATTTGCAGTATAACTCAAGGCTAG-AGAGGCTATC--T-ACCAAAGACCCT
66 CTCAACGACACATCATTTACAGCATAACTCAAGGCTAGAAG-GGCTATCTGTCAACAAAGACCTT
* ** *
2073575 C-ACGTTTGATTACACTCAGATTCGGGGCACATCATTTGCAGTATAACTCAAGGCTAGAAGGGTT
130 CGA-GTTTGATTACACTCAG-CTCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTT
* * * * * * * * * *
2073639 ATATATTAACTAAGACCTAT-GAGTCCGATTACACTAAGCTCAACGACACATCATTT
193 ATCTGTCAACAAAAACCT-TCGAGTTCGATTCCATTCAGCTCAA-GACACAACATTT
* * * * * * *
2073695 GCAGTATAGCTCAAGGCTAGAAGGGTTATTTGCTAA-AGAG-CCTCT-ATTTTGATTACACTCAA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTCTGAGTTTGATTACACTCAA
** *
2073757 CTTCGAGGGA-ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCT
66 C-TC-AACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCAACAAAGACCT
* * * * *
2073821 TCGAATTTGATTACACTCAGCTCAAAGGCACCTCATTTGTAGCATAGCTCAAGGCGAGAAGGGTT
129 TCGAGTTTGATTACACTCAGCTC-AAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTT
*
2073886 ATCTGTCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCAAG
193 ATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAG
2073930 GGCATGTTAA
Statistics
Matches: 383, Mismatches: 79, Indels: 43
0.76 0.16 0.09
Matches are distributed among these distances:
243 16 0.04
244 39 0.10
245 11 0.03
246 63 0.16
247 157 0.41
248 5 0.01
249 3 0.01
250 48 0.13
251 41 0.11
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (247 bp):
GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTCTGAGTTTGATTACACTCAA
CTCAACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCAACAAAGACCTTC
GAGTTTGATTACACTCAGCTCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATC
TGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGACACAACATTT
Found at i:2075819 original size:3 final size:3
Alignment explanation
Indices: 2075811--2075856 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2075801 CCATTAACCC
2075811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2075857 ATTTAATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2075907 original size:17 final size:16
Alignment explanation
Indices: 2075881--2075929 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
2075871 TTCCATAAAT
*
2075881 TTTCTATATTTTTTTA
1 TTTCTTTATTTTTTTA
*
2075897 CTTTCTTTATTTTATTA
1 -TTTCTTTATTTTTTTA
*
2075914 ATT-TTTATTTTTTTA
1 TTTCTTTATTTTTTTA
2075929 T
1 T
2075930 CTAACACGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 11 0.41
16 2 0.07
17 14 0.52
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTATTTTTTTA
Found at i:2080275 original size:19 final size:20
Alignment explanation
Indices: 2080236--2080282 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2080226 GAAATCCCTT
*
2080236 TGAAAATACAAGATTTTTAA
1 TGAAAATACAAGATCTTTAA
*
2080256 TGAAAATACATGA-CTTTAA
1 TGAAAATACAAGATCTTTAA
2080275 TGAAAATA
1 TGAAAATA
2080283 GATGCTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (20 bp):
TGAAAATACAAGATCTTTAA
Found at i:2082651 original size:16 final size:16
Alignment explanation
Indices: 2082627--2082658 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2082617 TACTGCCTAA
2082627 CAGCAGCCCATGTTGC
1 CAGCAGCCCATGTTGC
*
2082643 CAGCCGCCCATGTTGC
1 CAGCAGCCCATGTTGC
2082659 TCAAAAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.41, G:0.25, T:0.19
Consensus pattern (16 bp):
CAGCAGCCCATGTTGC
Found at i:2091815 original size:54 final size:55
Alignment explanation
Indices: 2091732--2091843 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 55
2091722 GTGGAGATAG
* * *
2091732 GTTTTTGTTACTGTCGTGTTTGTGTTTGGAATTAGG-AGAAAGTTGAAGCTT-GTT
1 GTTTGTGTTACTATAGTGTTTGTGTTTGGAA-TAGGTAGAAAGTTGAAGCTTGGTT
* *
2091786 GTTTGTGTTACTATAGTGTTTGTGTTTGGAATAGGTTGAAAGTTGAAGTTTGGTT
1 GTTTGTGTTACTATAGTGTTTGTGTTTGGAATAGGTAGAAAGTTGAAGCTTGGTT
2091841 GTT
1 GTT
2091844 GGGTAGCACA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 4 0.08
54 41 0.80
55 6 0.12
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (55 bp):
GTTTGTGTTACTATAGTGTTTGTGTTTGGAATAGGTAGAAAGTTGAAGCTTGGTT
Found at i:2095211 original size:23 final size:23
Alignment explanation
Indices: 2095162--2095234 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
2095152 TATTCGTTTA
* * ** *
2095162 TTTATTGTTCATGAACATATTCA
1 TTTAATGTTCACGAACACGTTCG
* *
2095185 TTTAATGTTTACGAACGCGTTCG
1 TTTAATGTTCACGAACACGTTCG
* *
2095208 TTTAATGTTCGCGAACATGTTCG
1 TTTAATGTTCACGAACACGTTCG
2095231 TTTA
1 TTTA
2095235 TATCCTCACG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (23 bp):
TTTAATGTTCACGAACACGTTCG
Found at i:2095252 original size:24 final size:23
Alignment explanation
Indices: 2095195--2095253 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
2095185 TTTAATGTTT
* **
2095195 ACGAACGCGTTCGTTTAATGTTC
1 ACGAACGTGTTCGTTTAATCCTC
* *
2095218 GCGAACATGTTCGTTTATATCCTC
1 ACGAACGTGTTCGTTTA-ATCCTC
2095242 ACGAACGTGTTC
1 ACGAACGTGTTC
2095254 ATGAACATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (23 bp):
ACGAACGTGTTCGTTTAATCCTC
Found at i:2098265 original size:19 final size:18
Alignment explanation
Indices: 2098226--2098286 Score: 77
Period size: 18 Copynumber: 3.2 Consensus size: 18
2098216 ACCGGTCACA
*
2098226 ACCCGATCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2098244 ACCCGACCCGACCCGATTG
1 ACCCGACCCGACCCG-TTG
2098263 ACCCGACCCATGGACCCGTTG
1 ACCCGACCC---GACCCGTTG
2098284 ACC
1 ACC
2098287 GTTGACCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
18 14 0.37
19 12 0.32
21 6 0.16
22 6 0.16
ACGTcount: A:0.20, C:0.46, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2098280 original size:13 final size:14
Alignment explanation
Indices: 2098248--2098280 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2098238 CCGTTGACCC
*
2098248 GACCCGACCCGATT
1 GACCCGACCCGATG
2098262 GACCCGACCC-ATG
1 GACCCGACCCGATG
2098275 GACCCG
1 GACCCG
2098281 TTGACCGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.09
Consensus pattern (14 bp):
GACCCGACCCGATG
Found at i:2100790 original size:24 final size:24
Alignment explanation
Indices: 2100763--2100853 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
2100753 TCAAATTTGA
* *
2100763 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
2100787 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
2100810 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
2100834 ATTCTGATATAATACTTGAC
1 ATTCTGATATGATACTTGAC
2100854 TTAAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:2100978 original size:35 final size:35
Alignment explanation
Indices: 2100931--2101005 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
2100921 TGGAGGAAGA
* *
2100931 TTACTTGGAGGCTCCTCGGTTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
2100966 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
2101001 TTACT
1 TTACT
2101006 GTTCGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.09, C:0.28, G:0.28, T:0.35
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
Found at i:2102321 original size:22 final size:22
Alignment explanation
Indices: 2102285--2102351 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
2102275 TAAATGAATA
*
2102285 GTTCGCAAACGTTAAACAAACAT
1 GTTCACAAAC-TTAAACAAACAT
2102308 GTTCACAAACTTAAACAAACAT
1 GTTCACAAACTTAAACAAACAT
2102330 GTTCACAAACTTAAACAAACAT
1 GTTCACAAACTTAAACAAACAT
2102352 ATTCGTGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 34 0.79
23 9 0.21
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (22 bp):
GTTCACAAACTTAAACAAACAT
Found at i:2108357 original size:31 final size:31
Alignment explanation
Indices: 2108322--2108400 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
2108312 AAAAAATTTT
*
2108322 AAAGTTAAATGACCAAAGTATAAACTTTAGA
1 AAAGTTAAAGGACCAAAGTATAAACTTTAGA
* *
2108353 AAAGTTCAAGGACCAAAGTATAAACTTTTGA
1 AAAGTTAAAGGACCAAAGTATAAACTTTAGA
* * *
2108384 AATGTTTAGGGACCAAA
1 AAAGTTAAAGGACCAAA
2108401 ATGGTAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.25
Consensus pattern (31 bp):
AAAGTTAAAGGACCAAAGTATAAACTTTAGA
Found at i:2118891 original size:31 final size:31
Alignment explanation
Indices: 2118856--2118930 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
2118846 ACAAAATTTT
*
2118856 AAAGTTAAGTGA-TCAAAGTATAAACTTTGGA
1 AAAGTTAAGGGACT-AAAGTATAAACTTTGGA
*
2118887 AAAGTTTAGGGACTAAAGTATAAACTTTGGA
1 AAAGTTAAGGGACTAAAGTATAAACTTTGGA
* *
2118918 AATGTTTAGGGAC
1 AAAGTTAAGGGAC
2118931 CAAAATGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (31 bp):
AAAGTTAAGGGACTAAAGTATAAACTTTGGA
Found at i:2127112 original size:12 final size:12
Alignment explanation
Indices: 2127087--2127144 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
2127077 ACGGAGATAT
* *
2127087 CAGAAATCAAAA
1 CAGAATTCAGAA
2127099 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
2127111 CAGAATCCAGAT
1 CAGAATTCAGAA
*
2127123 CAGAAATCAGAA
1 CAGAATTCAGAA
2127135 CAGAATTCAG
1 CAGAATTCAG
2127145 GTCATGTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2135571 original size:20 final size:21
Alignment explanation
Indices: 2135546--2135585 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2135536 TGCATAAATG
2135546 TCTTTT-TGGAAGCCATGAAA
1 TCTTTTGTGGAAGCCATGAAA
* *
2135566 TCTTTTGTTGAGGCCATGAA
1 TCTTTTGTGGAAGCCATGAA
2135586 TTCCTGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (21 bp):
TCTTTTGTGGAAGCCATGAAA
Found at i:2140332 original size:86 final size:87
Alignment explanation
Indices: 2140180--2140341 Score: 281
Period size: 86 Copynumber: 1.9 Consensus size: 87
2140170 TGAGGAGACG
*
2140180 ATAACTCACTTACCCTATATTACTTGATTCGATTATGTATACTTGCACATAATTGTTTGCCTTAG
1 ATAACTCACTTACCCTATATTACTTGATTCGATTATGTATACTTGCACATAATTGCTTGCCTTAG
2140245 CATATACATTTACATGAGATCA
66 CATATACATTTACATGAGATCA
* *
2140267 ATAACT-ACTTACCCTTTATTACTTGATTCGATTGTGTATACTTGCACATAATTGCTTGCCTTAG
1 ATAACTCACTTACCCTATATTACTTGATTCGATTATGTATACTTGCACATAATTGCTTGCCTTAG
*
2140331 CATATATATTT
66 CATATACATTT
2140342 CCAAGCGATC
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
86 65 0.92
87 6 0.08
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (87 bp):
ATAACTCACTTACCCTATATTACTTGATTCGATTATGTATACTTGCACATAATTGCTTGCCTTAG
CATATACATTTACATGAGATCA
Found at i:2147974 original size:16 final size:16
Alignment explanation
Indices: 2147953--2147985 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2147943 CGAGCCCCAA
2147953 GCACTAAACGAACGAC
1 GCACTAAACGAACGAC
2147969 GCACTAAACGAACGAC
1 GCACTAAACGAACGAC
2147985 G
1 G
2147986 GGTCGTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.30, G:0.21, T:0.06
Consensus pattern (16 bp):
GCACTAAACGAACGAC
Found at i:2161273 original size:17 final size:17
Alignment explanation
Indices: 2161253--2161285 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2161243 ATATTTATTT
2161253 ATAT-AAAATATAATATA
1 ATATGAAAA-ATAATATA
2161270 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
2161286 TATGATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATA
Found at i:2163102 original size:40 final size:40
Alignment explanation
Indices: 2163049--2163125 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
2163039 TGAAAAGTAT
2163049 TTTTGCTTTGAGTAGGATCTACCGGATCTATATTTTTCTA
1 TTTTGCTTTGAGTAGGATCTACCGGATCTATATTTTTCTA
* * *
2163089 TTTTGCTTTGAGTAGGATTTACTGGATCTGTATTTTT
1 TTTTGCTTTGAGTAGGATCTACCGGATCTATATTTTT
2163126 TTCATTGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.12, G:0.19, T:0.51
Consensus pattern (40 bp):
TTTTGCTTTGAGTAGGATCTACCGGATCTATATTTTTCTA
Found at i:2189768 original size:59 final size:60
Alignment explanation
Indices: 2189673--2189826 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 60
2189663 GGATATTTTC
* * *
2189673 ACATTTCCTATTGCTCAATTCACGAAATTTCA-AATCAGCAACGCCTCACTTGAGGGGTCT-
1 ACATTTCCTATTGCTCAATTCACGACATTT-AGAATCAGCAACGCCCCACTTGAGGGAT-TA
* ** *
2189733 ACATTTCCT-TTGCTCGATTCACGACATTTAGAATCAGTGACGCCCCGCTTGAGGGATTA
1 ACATTTCCTATTGCTCAATTCACGACATTTAGAATCAGCAACGCCCCACTTGAGGGATTA
* *
2189792 ACATTTCCTATTGTTCAATTCACGACATTTCGAAT
1 ACATTTCCTATTGCTCAATTCACGACATTTAGAAT
2189827 AAGAAAAAGT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
59 48 0.59
60 31 0.38
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (60 bp):
ACATTTCCTATTGCTCAATTCACGACATTTAGAATCAGCAACGCCCCACTTGAGGGATTA
Found at i:2191813 original size:29 final size:29
Alignment explanation
Indices: 2191779--2191834 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
2191769 CTTTACTGTT
2191779 TTTTATTTT-GTTTAGATTTAGCCCTTACA
1 TTTTATTTTCGTTTA-ATTTAGCCCTTACA
*
2191808 TTTTATTTTCTTTTAATTTAGCCCTTA
1 TTTTATTTTCGTTTAATTTAGCCCTTA
2191835 TTGTACGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTTATTTTCGTTTAATTTAGCCCTTACA
Found at i:2193820 original size:3 final size:3
Alignment explanation
Indices: 2193814--2193841 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2193804 TAATATTTAT
2193814 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2193842 GTCCCAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2197066 original size:3 final size:3
Alignment explanation
Indices: 2197058--2197210 Score: 306
Period size: 3 Copynumber: 51.0 Consensus size: 3
2197048 TACTCGTAGG
2197058 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2197106 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2197154 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2197202 ATT ATT ATT
1 ATT ATT ATT
2197211 CATATTAGGA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 150 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2197750 original size:39 final size:39
Alignment explanation
Indices: 2197631--2197762 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 39
2197621 CTATGACTTA
* *
2197631 TAAGTCCTTACTGCATGCTCTTCGACTTTCTGCTCATAG
1 TAAGTCCTTACCGCATGCTCTTCGACTTTCTGCTCATGG
* *
2197670 TAAGTCCTTAACGCATGCTCTTTGACTTTCTGCTCATGG
1 TAAGTCCTTACCGCATGCTCTTCGACTTTCTGCTCATGG
* * ** * *
2197709 TAAGTCCTTACCGCATGCTCCTCGGCTTTGAGCTAAGGG
1 TAAGTCCTTACCGCATGCTCTTCGACTTTCTGCTCATGG
2197748 TAAGTCCTTACCGCA
1 TAAGTCCTTACCGCA
2197763 GGTCCTTATT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (39 bp):
TAAGTCCTTACCGCATGCTCTTCGACTTTCTGCTCATGG
Found at i:2203343 original size:17 final size:18
Alignment explanation
Indices: 2203310--2203343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2203300 CTATTTTAAA
*
2203310 TTTTTTATAATACTGATT
1 TTTTTTATAACACTGATT
2203328 TTTTTTATAACA-TGAT
1 TTTTTTATAACACTGAT
2203344 ACATGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTTTTATAACACTGATT
Found at i:2203645 original size:39 final size:39
Alignment explanation
Indices: 2203556--2203649 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
2203546 TCTATGACTT
* * *
2203556 GTAAGACCTTACTGTAGGCTCCTCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCAGCTTTGTGCTCAGG
* *
2203595 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTTAGG
1 GTAAGTCCTTACCGCAGGCTCCTCAGCTTTGTGCTCAGG
* *
2203634 GTAATTTCTTACCGCA
1 GTAAGTCCTTACCGCA
2203650 AGTCTTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCAGCTTTGTGCTCAGG
Found at i:2209966 original size:24 final size:24
Alignment explanation
Indices: 2209939--2209995 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
2209929 ACACAATGGT
*
2209939 ACTAATAC-GAGAATGCACGAATGC
1 ACTAATACAG-GAATCCACGAATGC
*
2209963 ACTAATACAGGATTCCACGAATGC
1 ACTAATACAGGAATCCACGAATGC
2209987 ACTAATACA
1 ACTAATACA
2209996 AGATCAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (24 bp):
ACTAATACAGGAATCCACGAATGC
Found at i:2210681 original size:15 final size:15
Alignment explanation
Indices: 2210661--2210691 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2210651 CACTGCTTTC
2210661 ACATGACAATTTCTA
1 ACATGACAATTTCTA
2210676 ACATGACAATTTCTA
1 ACATGACAATTTCTA
2210691 A
1 A
2210692 TTTCACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
ACATGACAATTTCTA
Found at i:2223058 original size:17 final size:16
Alignment explanation
Indices: 2222998--2223059 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 16
2222988 AATCAAATTT
2222998 AAGAAGAGAAG-AG-A
1 AAGAAGAGAAGAAGAA
* *
2223012 AAGGAGAGGAGAAGAA
1 AAGAAGAGAAGAAGAA
2223028 ATA-AAGA-AAG-AGAA
1 A-AGAAGAGAAGAAGAA
2223042 AAGAAGAAGAAGAAGAA
1 AAGAAG-AGAAGAAGAA
2223059 A
1 A
2223060 GAAATAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.03
14 17 0.46
15 5 0.14
16 8 0.22
17 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (16 bp):
AAGAAGAGAAGAAGAA
Found at i:2225478 original size:24 final size:24
Alignment explanation
Indices: 2225451--2225517 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
2225441 ATGATGGTTT
2225451 AATTCTGTTTAATTTATTTATGTA
1 AATTCTGTTTAATTTATTTATGTA
* * * *
2225475 AATTATATTTAATTTATGTATTTA
1 AATTCTGTTTAATTTATTTATGTA
* * *
2225499 AATTCCGCTTAATTCATTT
1 AATTCTGTTTAATTTATTT
2225518 CAAACCATAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (24 bp):
AATTCTGTTTAATTTATTTATGTA
Found at i:2225593 original size:32 final size:32
Alignment explanation
Indices: 2225557--2225618 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2225547 ATTAAAAAAT
2225557 AAATAGAAAAAA-CCAAAAATTCATTCAAATTG
1 AAATA-AAAAAATCCAAAAATTCATTCAAATTG
* *
2225589 AAATAAAAAAATTCAAATATTCATTCAAAT
1 AAATAAAAAAATCCAAAAATTCATTCAAAT
2225619 ACAAATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (32 bp):
AAATAAAAAAATCCAAAAATTCATTCAAATTG
Found at i:2225625 original size:32 final size:32
Alignment explanation
Indices: 2225557--2225625 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
2225547 ATTAAAAAAT
**
2225557 AAATAGAAAAAACCAAAAATTCATTCAAATTG
1 AAATAGAAAAAACCAAAAATTCATTCAAATAC
* *
2225589 AAATA-AAAAAATTCAAATATTCATTCAAATAC
1 AAATAGAAAAAA-CCAAAAATTCATTCAAATAC
2225621 AAATA
1 AAATA
2225626 TGATTACTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.25
Consensus pattern (32 bp):
AAATAGAAAAAACCAAAAATTCATTCAAATAC
Found at i:2234259 original size:11 final size:11
Alignment explanation
Indices: 2234243--2234274 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
2234233 TAAAGAGAAC
2234243 TAAACTAAATA
1 TAAACTAAATA
2234254 TAAACTAAATA
1 TAAACTAAATA
2234265 TAAACTAAAT
1 TAAACTAAAT
2234275 TCCATGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAACTAAATA
Done.