Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 22
Found at i:2914817 original size:20 final size:20
Alignment explanation
Indices: 2914792--2914833 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2914782 CATCGATATA
*
2914792 ATAAGTTAATATATCAATAC
1 ATAAGTGAATATATCAATAC
*
2914812 ATAAGTGAATGTATCAATAC
1 ATAAGTGAATATATCAATAC
2914832 AT
1 AT
2914834 GCTTGCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
ATAAGTGAATATATCAATAC
Found at i:2918517 original size:13 final size:13
Alignment explanation
Indices: 2918499--2918524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2918489 TACAGCAAGT
2918499 ATGTATCGATACA
1 ATGTATCGATACA
2918512 ATGTATCGATACA
1 ATGTATCGATACA
2918525 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2920772 original size:21 final size:21
Alignment explanation
Indices: 2920739--2920783 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2920729 TTGCAAGTTG
*
2920739 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2920761 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2920781 AAA
1 AAA
2920784 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2922607 original size:15 final size:15
Alignment explanation
Indices: 2922587--2922617 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2922577 TAAAAATGTC
*
2922587 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2922602 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2922617 C
1 C
2922618 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2924713 original size:13 final size:13
Alignment explanation
Indices: 2924695--2924733 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2924685 ACATTTTTCT
2924695 TTGTATCGATACA
1 TTGTATCGATACA
2924708 TTGTATCGATACA
1 TTGTATCGATACA
2924721 TTGTATCGATACA
1 TTGTATCGATACA
2924734 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2924897 original size:20 final size:20
Alignment explanation
Indices: 2924854--2924899 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2924844 AAATCTTTTG
2924854 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2924875 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2924895 CAAAA
1 CAAAA
2924900 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2927292 original size:13 final size:13
Alignment explanation
Indices: 2927274--2927299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2927264 TACAGCAAGT
2927274 ATGTATCGATACA
1 ATGTATCGATACA
2927287 ATGTATCGATACA
1 ATGTATCGATACA
2927300 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2936715 original size:10 final size:10
Alignment explanation
Indices: 2936699--2936766 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
2936689 AAGATCTAAG
2936699 AAAAAAATAGC
1 AAAAAAA-AGC
2936710 AAAAAAAAGC
1 AAAAAAAAGC
*
2936720 AAAGCAAAA-C
1 AAA-AAAAAGC
2936730 AAAAAAAAAGC
1 -AAAAAAAAGC
2936741 -AAAAAAA-C
1 AAAAAAAAGC
*
2936749 AAAAAAAAAAC
1 -AAAAAAAAGC
2936760 AAAAAAA
1 AAAAAAA
2936767 CCAACAAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 25 0.51
11 16 0.33
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.01
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:2936765 original size:21 final size:21
Alignment explanation
Indices: 2936710--2936766 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
2936700 AAAAAATAGC
**
2936710 AAAAAAAAGCAAAGCAAAACA
1 AAAAAAAAGCAAAAAAAAACA
2936731 AAAAAAAAGC--AAAAAAACA
1 AAAAAAAAGCAAAAAAAAACA
*
2936750 AAAAAAAAACAAAAAAA
1 AAAAAAAAGCAAAAAAA
2936767 CCAACAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGCAAAAAAAAACA
Found at i:2936774 original size:12 final size:11
Alignment explanation
Indices: 2936725--2936766 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
2936715 AAAGCAAAGC
2936725 AAAACAAAAAA
1 AAAACAAAAAA
*
2936736 AAAGC---AAA
1 AAAACAAAAAA
2936744 AAAACAAAAAA
1 AAAACAAAAAA
2936755 AAAACAAAAAA
1 AAAACAAAAAA
2936766 A
1 A
2936767 CCAACAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.27
11 19 0.73
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:2937972 original size:28 final size:28
Alignment explanation
Indices: 2937932--2938333 Score: 218
Period size: 28 Copynumber: 14.6 Consensus size: 28
2937922 CAGTTGTTGG
* * *
2937932 CATAAGTCAAAGCCCATATTTGTTCGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* *
2937960 CACAAGTTTAAGCCCATATTCGTTGGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* * *
2937988 CATAAGTCTAAGCCTACACTCGTTGGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* * *
2938016 CATAAGTCTAAGCCCATACTAGCTGGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* * * * *
2938044 CCTAGGTCAAAGCTCGTA--C-TT-GCTA
1 CATAAGTCTAAGCCCATATTCGTTGGC-A
* *
2938069 GCATAAGTCAAAGCCCATATTTGTTGGCA
1 -CATAAGTCTAAGCCCATATTCGTTGGCA
* **
2938098 CACTAA-TCTAAGCCCATATTCGCTAACA
1 CA-TAAGTCTAAGCCCATATTCGTTGGCA
** * *
2938126 TGTAAGTCTAAGCCCACA-CCAGTTGGCA
1 CATAAGTCTAAGCCCATATTC-GTTGGCA
* * * * *
2938154 CCTAGGTCAAACCCCATACTT-GCTGGCA
1 CATAAGTCTAAGCCCATA-TTCGTTGGCA
*
2938182 C--AAGT-TAAAGCCCACATTCGTTGGCA
1 CATAAGTCT-AAGCCCATATTCGTTGGCA
* *
2938208 CACCAA-TCTAAGCCCATAATCGTTGGCA
1 CA-TAAGTCTAAGCCCATATTCGTTGGCA
** * * *
2938236 TGTAAGTCAAAGCCCACATTCGCTGGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* * * *
2938264 C--AAGTCAAAGCCCACATTCATTAGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* * **
2938290 CACAAGTCTAAGCCCACATTCACTGGCA
1 CATAAGTCTAAGCCCATATTCGTTGGCA
* *
2938318 CGTAAGTCAAAGCCCA
1 CATAAGTCTAAGCCCA
2938334 CACTTACTGG
Statistics
Matches: 284, Mismatches: 70, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
24 2 0.01
25 4 0.01
26 54 0.19
27 6 0.02
28 207 0.73
29 9 0.03
30 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
CATAAGTCTAAGCCCATATTCGTTGGCA
Found at i:2938086 original size:54 final size:54
Alignment explanation
Indices: 2938016--2938195 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
2938006 CTCGTTGGCA
* * * *
2938016 CATAAGTCTAAGCCCATACTAGCTGGCACCTAGGTCAAAGCTCGTACTTGCTAG
1 CATAAGTCAAAGCCCATACTAGTTGGCACCTAGGTCAAAGCCCATACTTGCTAG
* * * * *
2938070 CATAAGTCAAAGCCCATATTTGTTGGCACACTA-ATCTAAGCCCATA-TTCGCTAA
1 CATAAGTCAAAGCCCATACTAGTTGGCAC-CTAGGTCAAAGCCCATACTT-GCTAG
* * * * *
2938124 CATGTAAGTCTAAGCCCACACCAGTTGGCACCTAGGTCAAACCCCATACTTGCTGG
1 CA--TAAGTCAAAGCCCATACTAGTTGGCACCTAGGTCAAAGCCCATACTTGCTAG
* *
2938180 CACAAGTTAAAGCCCA
1 CATAAGTCAAAGCCCA
2938196 CATTCGTTGG
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
53 2 0.02
54 51 0.52
55 6 0.06
56 37 0.38
57 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (54 bp):
CATAAGTCAAAGCCCATACTAGTTGGCACCTAGGTCAAAGCCCATACTTGCTAG
Found at i:2938109 original size:110 final size:110
Alignment explanation
Indices: 2937960--2938253 Score: 356
Period size: 110 Copynumber: 2.7 Consensus size: 110
2937950 TTTGTTCGCA
** * * * **
2937960 CACAAGTTTAAGCCCATATTCGTTGGCACA-TAAGTCTAAGCCTACACTCGTTGGCACATAAGTC
1 CACAAGTCAAAGCCCATATTCGTTGGCACACTAA-TCTAAGCCCATAATCGTTGGCATGTAAGTC
* * * * *
2938024 TAAGCCCATACTAGCTGGCACCTAGGTCAAAGCTCGTACTTGCTAG
65 TAAGCCCACACCAGCTGGCACCTAGGTCAAACCCCATACTTGCTAG
* * * * **
2938070 CATAAGTCAAAGCCCATATTTGTTGGCACACTAATCTAAGCCCATATTCGCTAACATGTAAGTCT
1 CACAAGTCAAAGCCCATATTCGTTGGCACACTAATCTAAGCCCATAATCGTTGGCATGTAAGTCT
* *
2938135 AAGCCCACACCAGTTGGCACCTAGGTCAAACCCCATACTTGCTGG
66 AAGCCCACACCAGCTGGCACCTAGGTCAAACCCCATACTTGCTAG
* * * *
2938180 CACAAGTTAAAGCCCACATTCGTTGGCACACCAATCTAAGCCCATAATCGTTGGCATGTAAGTCA
1 CACAAGTCAAAGCCCATATTCGTTGGCACACTAATCTAAGCCCATAATCGTTGGCATGTAAGTCT
2938245 AAGCCCACA
66 AAGCCCACA
2938254 TTCGCTGGCA
Statistics
Matches: 154, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
110 151 0.98
111 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (110 bp):
CACAAGTCAAAGCCCATATTCGTTGGCACACTAATCTAAGCCCATAATCGTTGGCATGTAAGTCT
AAGCCCACACCAGCTGGCACCTAGGTCAAACCCCATACTTGCTAG
Found at i:2938179 original size:138 final size:138
Alignment explanation
Indices: 2937931--2938182 Score: 355
Period size: 138 Copynumber: 1.8 Consensus size: 138
2937921 ACAGTTGTTG
* * **
2937931 GCATAAGTCAAAGCCCATATTTGTTCGCACACAAGTTTAAGCCCATATTCGTTGGCACATAAGTC
1 GCATAAGTCAAAGCCCATATTTGTTCGCACACAAGTCTAAGCCCATATTCGCTAACACATAAGTC
* * *
2937996 TAAGCCTACACTCGTTGGCACATAAGTCTAAGCCCATACTAGCTGGCACCTAGGTCAAAGCTCGT
66 TAAGCCCACACTCGTTGGCACATAAGTCAAACCCCATACTAGCTGGCACCTAGGTCAAAGCTCGT
2938061 ACTTGCTA
131 ACTTGCTA
* **
2938069 GCATAAGTCAAAGCCCATATTTGTTGGCACACTAA-TCTAAGCCCATATTCGCTAACATGTAAGT
1 GCATAAGTCAAAGCCCATATTTGTTCGCACAC-AAGTCTAAGCCCATATTCGCTAACACATAAGT
* * *
2938133 CTAAGCCCACAC-CAGTTGGCACCTAGGTCAAACCCCATACTTGCTGGCAC
65 CTAAGCCCACACTC-GTTGGCACATAAGTCAAACCCCATACTAGCTGGCAC
2938183 AAGTTAAAGC
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
137 1 0.01
138 96 0.97
139 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (138 bp):
GCATAAGTCAAAGCCCATATTTGTTCGCACACAAGTCTAAGCCCATATTCGCTAACACATAAGTC
TAAGCCCACACTCGTTGGCACATAAGTCAAACCCCATACTAGCTGGCACCTAGGTCAAAGCTCGT
ACTTGCTA
Found at i:2938220 original size:82 final size:82
Alignment explanation
Indices: 2938129--2938416 Score: 300
Period size: 82 Copynumber: 3.5 Consensus size: 82
2938119 GCTAACATGT
* * * * * *
2938129 AAGTCTAAGCCCACACCAGTTGGCACCTAGGTCAAACCCCATACTTGCTGGCACAAGTTAAAGCC
1 AAGTCTAAGCCCACATCAGTTGGCACGTAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGCC
2938194 CACATTCGTTGGCACACC
66 CACATTCGTTGGCACA-C
* *
2938212 AA-TCTAAGCCCATAATC-GTTGGCATGTAAGTCAAAGCCCACA-TTCGCTGGCACAAGTCAAAG
1 AAGTCTAAGCCCA-CATCAGTTGGCACGTAAGTCAAAGCCCACACTT-GCTGGCACAAGTCAAAG
* *
2938274 CCCACATTCATTAGCACAC
64 CCCACATTCGTTGGCACAC
* *
2938293 AAGTCTAAGCCCACATTCA-CTGGCACGTAAGTCAAAGCCCACACTTACTGGCACAAGTCAAAGC
1 AAGTCTAAGCCCACA-TCAGTTGGCACGTAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGC
** *
2938357 TTACATTTGTTGGCA-AC
65 CCACATTCGTTGGCACAC
* * * * * *
2938374 AAGTTTAAGCCTACATTC-GCTGGCGCATAAGTCAATGCCCACA
1 AAGTCTAAGCCCACA-TCAGTTGGCACGTAAGTCAAAGCCCACA
2938417 TTAGCCGGCA
Statistics
Matches: 174, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
81 45 0.26
82 123 0.71
83 6 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (82 bp):
AAGTCTAAGCCCACATCAGTTGGCACGTAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGCC
CACATTCGTTGGCACAC
Found at i:2938294 original size:110 final size:110
Alignment explanation
Indices: 2937934--2938310 Score: 308
Period size: 110 Copynumber: 3.4 Consensus size: 110
2937924 GTTGTTGGCA
* * * * *
2937934 TAAGTCAAAGCCCATATTTGTTCGCACACAAGTTTAAGCCCATATTCGTTGGCACA-TAAGTCTA
1 TAAGTCAAAGCCCACA-TTCTTAGCACACAAGTTAAAGCCCACATTCGTTGGCACACTAA-TCTA
* * * ** * *
2937998 AGCCTACACTCGTTGGCACATAAGTCTAAGCCCATACTAGCTGGCACC
64 AGCCCATAATCGTTGGCATGTAAGTCTAAGCCCACA-TCGCTGGCACC
* * * * * *
2938046 TAGGTCAAAGCTCGTAC-TTGC-TAG--CATAAGTCAAAGCCCATATTTGTTGGCACACTAATCT
1 TAAGTCAAAGC-C-CACATT-CTTAGCACACAAGTTAAAGCCCACATTCGTTGGCACACTAATCT
* * ** * *
2938107 AAGCCCATATTCGCTAACATGTAAGTCTAAGCCCACACCAGTTGGCACC
63 AAGCCCATAATCGTTGGCATGTAAGTCTAAGCCCACATC-GCTGGCACC
* * * *
2938156 TAGGTCAAA-CCC-CATACTT-GCTGGCACAAGTTAAAGCCCACATTCGTTGGCACACCAATCTA
1 TAAGTCAAAGCCCACATTCTTAGC--ACACAAGTTAAAGCCCACATTCGTTGGCACACTAATCTA
*
2938218 AGCCCATAATCGTTGGCATGTAAGTCAAAGCCCACATTCGCTGGCA-C
64 AGCCCATAATCGTTGGCATGTAAGTCTAAGCCCACA-TCGCTGGCACC
2938265 -AAGTCAAAGCCCACATTCATTAGCACACAAGTCT-AAGCCCACATTC
1 TAAGTCAAAGCCCACATTC-TTAGCACACAAGT-TAAAGCCCACATTC
2938311 ACTGGCACGT
Statistics
Matches: 210, Mismatches: 38, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
106 3 0.01
107 2 0.01
108 8 0.04
109 5 0.02
110 167 0.80
111 7 0.03
112 16 0.08
113 1 0.00
114 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (110 bp):
TAAGTCAAAGCCCACATTCTTAGCACACAAGTTAAAGCCCACATTCGTTGGCACACTAATCTAAG
CCCATAATCGTTGGCATGTAAGTCTAAGCCCACATCGCTGGCACC
Found at i:2938334 original size:28 final size:26
Alignment explanation
Indices: 2938176--2938356 Score: 148
Period size: 28 Copynumber: 6.7 Consensus size: 26
2938166 CCCATACTTG
* *
2938176 CTGGCACAAGTTAAAGCCCACATTCG
1 CTGGCACAAGTCAAAGCCCACATTCA
* * * * * *
2938202 TTGGCACACCAATCTAAGCCCATAATCG
1 CTGGCACA--AGTCAAAGCCCACATTCA
* * *
2938230 TTGGCATGTAAGTCAAAGCCCACATTCG
1 CTGGCA--CAAGTCAAAGCCCACATTCA
2938258 CTGGCACAAGTCAAAGCCCACATTCA
1 CTGGCACAAGTCAAAGCCCACATTCA
* * *
2938284 TTAGCACACAAGTCTAAGCCCACATTCA
1 CT-G-GCACAAGTCAAAGCCCACATTCA
2938312 CTGGCACGTAAGTCAAAGCCCACACTT-A
1 CTGGCAC--AAGTCAAAGCCCACA-TTCA
2938340 CTGGCACAAGTCAAAGC
1 CTGGCACAAGTCAAAGC
2938357 TTACATTTGT
Statistics
Matches: 126, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
26 39 0.31
27 2 0.02
28 82 0.65
29 2 0.02
30 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (26 bp):
CTGGCACAAGTCAAAGCCCACATTCA
Found at i:2938363 original size:54 final size:54
Alignment explanation
Indices: 2938239--2938356 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
2938229 GTTGGCATGT
* *
2938239 AAGTCAAAGCCCACATTCGCTGGCACAAGTCAAAGCCCACATTCATTAGCACAC
1 AAGTCAAAGCCCACATTCACTGGCACAAGTCAAAGCCCACATTCACTAGCACAC
* *
2938293 AAGTCTAAGCCCACATTCACTGGCACGTAAGTCAAAGCCCACACTT-ACT-G-GCAC
1 AAGTCAAAGCCCACATTCACTGGCAC--AAGTCAAAGCCCACA-TTCACTAGCACAC
2938347 AAGTCAAAGC
1 AAGTCAAAGC
2938357 TTACATTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 36 0.64
55 1 0.02
56 17 0.30
57 2 0.04
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.17
Consensus pattern (54 bp):
AAGTCAAAGCCCACATTCACTGGCACAAGTCAAAGCCCACATTCACTAGCACAC
Found at i:2938417 original size:28 final size:28
Alignment explanation
Indices: 2938239--2938418 Score: 129
Period size: 28 Copynumber: 6.6 Consensus size: 28
2938229 GTTGGCATGT
*
2938239 AAGTCAAAGCCCACATTCGCT-G-GCAC
1 AAGTCAAAGCCCACATTCACTGGCGCAC
* * *
2938265 AAGTCAAAGCCCACATTCATTAGCACAC
1 AAGTCAAAGCCCACATTCACTGGCGCAC
* * **
2938293 AAGTCTAAGCCCACATTCACTGGCACGT
1 AAGTCAAAGCCCACATTCACTGGCGCAC
2938321 AAGTCAAAGCCCACACTT-ACT-G-GCAC
1 AAGTCAAAGCCCACA-TTCACTGGCGCAC
** *** *
2938347 AAGTCAAAGCTTACATTTGTTGGC-AAC
1 AAGTCAAAGCCCACATTCACTGGCGCAC
** * * *
2938374 AAGTTTAAGCCTACATTCGCTGGCGCAT
1 AAGTCAAAGCCCACATTCACTGGCGCAC
*
2938402 AAGTCAATGCCCACATT
1 AAGTCAAAGCCCACATT
2938419 AGCCGGCATC
Statistics
Matches: 119, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
25 2 0.02
26 34 0.29
27 24 0.20
28 57 0.48
29 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
AAGTCAAAGCCCACATTCACTGGCGCAC
Found at i:2939357 original size:4 final size:4
Alignment explanation
Indices: 2939348--2939416 Score: 58
Period size: 4 Copynumber: 18.5 Consensus size: 4
2939338 ACAACAAACC
* * *
2939348 AAGA AAGA AAGG GA-A AATA AAG- AAGA AAGA AAG- AAGA AA-A AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* *
2939392 AAGA AA-A AAAA AAGA AGGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
2939417 AAAAAAGGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
3 13 0.25
4 39 0.75
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:2939380 original size:11 final size:11
Alignment explanation
Indices: 2939348--2939415 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
2939338 ACAACAAACC
2939348 AAGAAAGAAAG
1 AAGAAAGAAAG
* *
2939359 -GGAAAATAAAG
1 AAG-AAAGAAAG
2939370 AAGAAAGAAAG
1 AAGAAAGAAAG
2939381 AAGAAA-AAAG
1 AAGAAAGAAAG
* *
2939391 AAAGAAAAAAAA
1 -AAGAAAGAAAG
*
2939403 AAGAAGGAAAG
1 AAGAAAGAAAG
2939414 AA
1 AA
2939416 AAAAAAAGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 36 0.80
12 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (11 bp):
AAGAAAGAAAG
Found at i:2939390 original size:14 final size:15
Alignment explanation
Indices: 2939366--2939423 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
2939356 AAGGGAAAAT
*
2939366 AAAGAAGAAAGAAAG
1 AAAGAAAAAAGAAAG
2939381 -AAGAAAAAAGAAAG
1 AAAGAAAAAAGAAAG
* *
2939395 AAAAAAAAAAGAAGG
1 AAAGAAAAAAGAAAG
2939410 AAAGAAAAAA-AAAG
1 AAAGAAAAAAGAAAG
2939424 GAAAAATGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 16 0.43
15 21 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAAAG
Found at i:2939395 original size:22 final size:22
Alignment explanation
Indices: 2939348--2939423 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
2939338 ACAACAAACC
*
2939348 AAGAAAGAAAG-GGAAAATAA-A
1 AAGAAAGAAAGAAGAAAA-AAGA
2939369 GAAGAAAGAAAGAAGAAAAAAGA
1 -AAGAAAGAAAGAAGAAAAAAGA
* * *
2939392 AAGAAAAAAAAAAGAAGGAAAGA
1 AAGAAAGAAAGAAGAA-AAAAGA
2939415 AA-AAA-AAAG
1 AAGAAAGAAAG
2939424 GAAAAATGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.07
22 30 0.65
23 13 0.28
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (22 bp):
AAGAAAGAAAGAAGAAAAAAGA
Found at i:2939404 original size:15 final size:15
Alignment explanation
Indices: 2939373--2939429 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
2939363 AATAAAGAAG
*
2939373 AAAGAAAG-AAGAAA
1 AAAGAAAGAAAAAAA
2939387 AAAGAAAGAAAAAAA
1 AAAGAAAGAAAAAAA
*
2939402 AAAGAAGGAAAGAAAA
1 AAAGAAAGAAA-AAAA
*
2939418 AAA-AAGGAAAAA
1 AAAGAAAGAAAAA
2939430 TGGGGTGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.26
15 22 0.56
16 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAAAA
Found at i:2939405 original size:29 final size:29
Alignment explanation
Indices: 2939373--2939429 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2939363 AATAAAGAAG
2939373 AAAGAAAG-AAGAAAAAAGAAAGAAAAAAA
1 AAAGAAAGAAAGAAAAAA-AAAGAAAAAAA
* *
2939402 AAAGAAGGAAAGAAAAAAAAAGGAAAAA
1 AAAGAAAGAAAGAAAAAAAAAGAAAAAA
2939430 TGGGGTGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (29 bp):
AAAGAAAGAAAGAAAAAAAAAGAAAAAAA
Found at i:2939422 original size:18 final size:17
Alignment explanation
Indices: 2939361--2939423 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 17
2939351 AAAGAAAGGG
*
2939361 AAAATAAAGAAGAAAGA
1 AAAAAAAAGAAGAAAGA
2939378 AAGAAGAAAA-AAGAAAGAA
1 AA-AA-AAAAGAAGAAAG-A
2939397 AAAAAAAAGAAGGAAAGA
1 AAAAAAAAGAA-GAAAGA
2939415 AAAAAAAAG
1 AAAAAAAAG
2939424 GAAAAATGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 6 0.15
18 23 0.57
19 11 0.28
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAGAAAGA
Found at i:2939428 original size:10 final size:10
Alignment explanation
Indices: 2939360--2939429 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
2939350 GAAAGAAAGG
2939360 GAAAATAAAGAA
1 GAAAA-AAA-AA
*
2939372 GAAAGAAAGAA
1 GAAA-AAAAAA
2939383 GAAAAAAGAAA
1 GAAAAAA-AAA
2939394 GAAAAAAAAA
1 GAAAAAAAAA
* **
2939404 -AGAAGGAAA
1 GAAAAAAAAA
2939413 GAAAAAAAAA
1 GAAAAAAAAA
*
2939423 GGAAAAA
1 GAAAAAA
2939430 TGGGGTGGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 6 0.13
10 18 0.39
11 15 0.33
12 6 0.13
13 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:2940380 original size:109 final size:109
Alignment explanation
Indices: 2940237--2940646 Score: 531
Period size: 109 Copynumber: 3.8 Consensus size: 109
2940227 TTCGGGCATG
* * * * *
2940237 AAAAGATTAG-CCTCAAAATAGGTCATCGTTTAGAGTCATAAAGTGGCATACGAATGCCCTTTAT
1 AAAAGATTGGCCCT-AAAATAGGTCTTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTAT
*
2940301 ATAAGATAATTCATTTTTTGCATTAATTACATAGATTCGGGCACC
65 ATAAGATAATTCATTTTTTGCATTAATTACATAGATTCAGGCACC
* *
2940346 AAAAGATTGGCCCTAAAATAGGTGTTCATCTAGAGTCATAACGTGGCATACAAATGCCCTTTATA
1 AAAAGATTGGCCCTAAAATAGGTCTTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTATA
* * *
2940411 TAGGATAATTTC-TTTTTTGCATTACTTACATAGATTCAAGCACC
66 TAAGATAA-TTCATTTTTTGCATTAATTACATAGATTCAGGCACC
* * *
2940455 AAAAGATTGGCCCTAAAATAGGTCTTCATCTAGAGTCATAAAGTGGCGTACGAATTCCCTTTATA
1 AAAAGATTGGCCCTAAAATAGGTCTTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTATA
* * *
2940520 -AAGGATAATTCATTTTTTTACATTAATTACATAGATTAAGGTACC
66 TAA-GATAATTCA-TTTTTTGCATTAATTACATAGATTCAGGCACC
** * * * * *
2940565 AAAAGATTGGCGTTGAAATAGGTCATT-GTCTATATTCATAAAGTGGCATACAAATGCCCTTTAA
1 AAAAGATTGGCCCTAAAATAGGTC-TTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTAT
2940629 ATAAGATAATTCATTTTT
65 ATAAGATAATTCATTTTT
2940647 CGTGTAAATT
Statistics
Matches: 262, Mismatches: 32, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
108 4 0.02
109 160 0.61
110 94 0.36
111 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (109 bp):
AAAAGATTGGCCCTAAAATAGGTCTTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTATA
TAAGATAATTCATTTTTTGCATTAATTACATAGATTCAGGCACC
Found at i:2940639 original size:219 final size:218
Alignment explanation
Indices: 2940237--2940639 Score: 569
Period size: 219 Copynumber: 1.8 Consensus size: 218
2940227 TTCGGGCATG
* *
2940237 AAAAGATTAGCCTCAAAATAGGTCATCGTTTAGAGTCATAAAGTGGCATACGAATGCCCTTTATA
1 AAAAGATTAGCCTCAAAATAGGTCATCATCTAGAGTCATAAAGTGGCATACGAATGCCCTTTATA
* **
2940302 TAAGATAATTCATTTTTTGCATTAATTACATAGATTCGGGCACCAAAAGATTGGCCCTAAAATAG
66 TAAGATAATTCATTTTTTACATTAATTACATAGATTAAGGCACCAAAAGATTGGCCCTAAAATAG
* * * *
2940367 GTGTTCATCTAGAGTCATAACGTGGCATACAAATGCCCTTTATATAGGATAATTTCTTTTTTGCA
131 GTATTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTAAATAAGATAATTTCTTTTTTGCA
2940432 TTACTTACATAGATTCAAGCACC
196 TTACTTACATAGATTCAAGCACC
* * * *
2940455 AAAAGATTGGCC-CTAAAATAGGTCTTCATCTAGAGTCATAAAGTGGCGTACGAATTCCCTTTAT
1 AAAAGATTAGCCTC-AAAATAGGTCATCATCTAGAGTCATAAAGTGGCATACGAATGCCCTTTAT
* ** *
2940519 A-AAGGATAATTCATTTTTTTACATTAATTACATAGATTAAGGTACCAAAAGATTGGCGTTGAAA
65 ATAA-GATAATTCA-TTTTTTACATTAATTACATAGATTAAGGCACCAAAAGATTGGCCCTAAAA
* * *
2940583 TAGGTCATT-GTCTATATTCATAAAGTGGCATACAAATGCCCTTTAAATAAGATAATT
128 TAGGT-ATTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTAAATAAGATAATT
2940640 CATTTTTCGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
217 3 0.02
218 66 0.41
219 90 0.56
220 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (218 bp):
AAAAGATTAGCCTCAAAATAGGTCATCATCTAGAGTCATAAAGTGGCATACGAATGCCCTTTATA
TAAGATAATTCATTTTTTACATTAATTACATAGATTAAGGCACCAAAAGATTGGCCCTAAAATAG
GTATTCATCTAGAGTCATAAAGTGGCATACAAATGCCCTTTAAATAAGATAATTTCTTTTTTGCA
TTACTTACATAGATTCAAGCACC
Found at i:2942037 original size:43 final size:43
Alignment explanation
Indices: 2941943--2942024 Score: 148
Period size: 42 Copynumber: 1.9 Consensus size: 43
2941933 GATATTCTTC
*
2941943 CATTTCTTTACTATGGTGCCTATTGTTTTGTACAGTCACTTTG
1 CATTTCTTTACTATGGTGCCTATTGTTTTGTACAATCACTTTG
2941986 CATTTCTTTACTATGGT-CCTATTGTTTTGTACAATCACT
1 CATTTCTTTACTATGGTGCCTATTGTTTTGTACAATCACT
2942025 AATTTCTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 21 0.55
43 17 0.45
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (43 bp):
CATTTCTTTACTATGGTGCCTATTGTTTTGTACAATCACTTTG
Found at i:2942982 original size:301 final size:300
Alignment explanation
Indices: 2942404--2943009 Score: 1050
Period size: 301 Copynumber: 2.0 Consensus size: 300
2942394 TGGAACTCGA
*
2942404 CATATCGGTGTTTCACTTTTAATCATGAAGACTTGGCCCCACTATTGATGAATACACTACATTAC
1 CATATCAGTGTTTCACTTTTAATCATGAAGACTTGGCCCCACTATTGATGAATACACTACATTAC
* * *
2942469 TCAACATTGAGAGAGCAAAGGCTGATAAGATATATTGCAAGGCCTTGAACCCACTAACTTTCAAA
66 TCAACAGTGAGAGAGCAAAGGCTAATAAGATATACTGCAAGGCCTTGAACCCACTAACTTTCAAA
*
2942534 AAGAGATTAGCTCAAATCCTAAGGGCAACATGGTTTTGGATTGAGAGTCATACCAAAATGAAAAG
131 AAGAGATTAGCTCAAATCCTAAGGGCAACATGGTTTTGGATCGAGAGTCATACCAAAATGAAAAG
* * *
2942599 GAACAGTGAATGCATTTCATGGGCTAGTTTGAAAGAAGCGATGGCTAGTACCATTGCTGTCTAGA
196 GAACAGTGAATGCATTTCATGGGCTAGTTTGAAAGAAGCGATGACTAGTACCATTGCTATCCAGA
*
2942664 AAGTCCAAGACATTTATGCTCTGGCAATGTATGGTCTGGT
261 AAGTCCAAGACATTTATGCTCTGGCAATGTATGGTCTAGT
* *
2942704 CATATCAGTGTTTCACTTTTAATCATGAAGATTTGGCCCCCACTATTGATGAATACACTGCATTA
1 CATATCAGTGTTTCACTTTTAATCATGAAGACTTGG-CCCCACTATTGATGAATACACTACATTA
* * * *
2942769 CTTAATAGTGAGAGAGTAAAGGCTAATAAGATATACTGCAAGGCCTTGAACCCATTAACTTTCAA
65 CTCAACAGTGAGAGAGCAAAGGCTAATAAGATATACTGCAAGGCCTTGAACCCACTAACTTTCAA
2942834 AAAGAGATTAGCTCAAATCCTAAGGGCAACATGGTTTTGGATCGAGAGTCATACCAAAATGAAAA
130 AAAGAGATTAGCTCAAATCCTAAGGGCAACATGGTTTTGGATCGAGAGTCATACCAAAATGAAAA
*
2942899 GGAATAGTGAATGCATTTCATGGGCTAGTTTGAAAGAAGCGATGACTAGTACCATTGCTATCCAG
195 GGAACAGTGAATGCATTTCATGGGCTAGTTTGAAAGAAGCGATGACTAGTACCATTGCTATCCAG
*
2942964 AAAGTCCAAGACATTTATGCTTTGGCAATGTATGGTCTAGT
260 AAAGTCCAAGACATTTATGCTCTGGCAATGTATGGTCTAGT
2943005 CATAT
1 CATAT
2943010 TCTCGATGAC
Statistics
Matches: 288, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
300 34 0.12
301 254 0.88
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (300 bp):
CATATCAGTGTTTCACTTTTAATCATGAAGACTTGGCCCCACTATTGATGAATACACTACATTAC
TCAACAGTGAGAGAGCAAAGGCTAATAAGATATACTGCAAGGCCTTGAACCCACTAACTTTCAAA
AAGAGATTAGCTCAAATCCTAAGGGCAACATGGTTTTGGATCGAGAGTCATACCAAAATGAAAAG
GAACAGTGAATGCATTTCATGGGCTAGTTTGAAAGAAGCGATGACTAGTACCATTGCTATCCAGA
AAGTCCAAGACATTTATGCTCTGGCAATGTATGGTCTAGT
Found at i:2946902 original size:20 final size:21
Alignment explanation
Indices: 2946856--2946902 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
2946846 AATTTCAAGT
2946856 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTATGA
2946877 --ATTGTATCGATACATTA-GA
1 GCA-TGTATCGATACATTATGA
2946896 GCATGTA
1 GCATGTA
2946903 AGTGCGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (21 bp):
GCATGTATCGATACATTATGA
Found at i:2947326 original size:35 final size:36
Alignment explanation
Indices: 2947259--2947327 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
2947249 AGTGATTGTG
**
2947259 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAA
2947295 AGGTTCTATCTTAGCCCGTG-AAAAGATAGGGAG
1 AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAG
2947328 GTTTATATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (36 bp):
AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAA
Found at i:2947342 original size:32 final size:34
Alignment explanation
Indices: 2947258--2947342 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 34
2947248 AAGTGATTGT
* **
2947258 GAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGGTTATATCTTAGCCCGTGAAAAAGATAGGGA
*
2947292 GAAAGGTTCTATCTTAGCCCGTG-AAAAGATAGGGA
1 G--AGGTTATATCTTAGCCCGTGAAAAAGATAGGGA
*
2947327 G-GTTTATATCTTAGCC
1 GAGGTTATATCTTAGCC
2947343 TTGAAAGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 13 0.29
34 1 0.02
35 13 0.29
36 18 0.40
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (34 bp):
GAGGTTATATCTTAGCCCGTGAAAAAGATAGGGA
Found at i:2948949 original size:21 final size:21
Alignment explanation
Indices: 2948925--2948976 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
2948915 GAACTAGAGG
**
2948925 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTACAAA
2948946 AGAAAA-GAAATGAGTTACAAA
1 AGAAAATG-AATGAGTTACAAA
2948967 ATGAAAATGA
1 A-GAAAATGA
2948977 TGAATTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 6 0.23
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAAAATGAATGAGTTACAAA
Found at i:2951768 original size:28 final size:28
Alignment explanation
Indices: 2951724--2951805 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
2951714 TTTTGGAGAT
* *
2951724 AATAACGGGGTTAGAGTATCCCC-TTGAA
1 AATAACGGGGTTGGAGTATCCCCGATG-A
2951752 AATAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
2951780 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
2951806 TGTGAAAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 47 0.96
29 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:2951902 original size:51 final size:51
Alignment explanation
Indices: 2951785--2951902 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
2951775 GATGAAATAA
* *
2951785 CGAGGTTGGAGTATCCTCGATTGTGAAAAACTAGTGTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCTCGATTGTGAAAAACTAGTGTTTTAGAAATAAAAC
* * * * * *
2951836 CGAAGTTGGAATATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
1 CGAGGTTGGAGTATCCTCGATTGTGAAAAACTAGTGTTTTAGAAATAAAAC
* *
2951887 CGGGGTTCGAGTATCC
1 CGAGGTTGGAGTATCC
2951903 CCTCGAGAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCTCGATTGTGAAAAACTAGTGTTTTAGAAATAAAAC
Found at i:2951984 original size:52 final size:51
Alignment explanation
Indices: 2951916--2952208 Score: 242
Period size: 52 Copynumber: 5.6 Consensus size: 51
2951906 CGAGAATAAT
2951916 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * *** * *
2951967 GGGGGTTGGAGTATCCCC--TCA-AAAATAACGGGGTTGGA-GTATCCCCGATGAT-TAA-C
1 -GGGGTTGGAGTATCCCCGATTATGAAA-AA-----TT-GATGT-T-TTAGA-AATAAAACC
* * * *
2952023 GGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGATTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAAAACC
* * * *
2952075 GGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACC
1 GGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAG-AAATAAAACC
* *
2952127 GGGGTTGGAGTATCCCCGATTGTGGAAAATT-AGTGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACC
2952178 GGGGTTGGAGTATCCCCGATTATGAAAAATT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATT
2952209 AAGAAACTTA
Statistics
Matches: 193, Mismatches: 27, Indels: 43
0.73 0.10 0.16
Matches are distributed among these distances:
49 3 0.02
50 6 0.03
51 59 0.31
52 75 0.39
53 13 0.07
55 20 0.10
56 4 0.02
57 8 0.04
58 5 0.03
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
Found at i:2951999 original size:28 final size:27
Alignment explanation
Indices: 2951968--2952039 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2951958 AATAAAACCG
2951968 GGGGTTGGAGTATCCCCTCAAAAATAAC
1 GGGGTTGGAGTATCCCC-CAAAAATAAC
* ** *
2951996 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCAAAAATAAC
*
2952023 GGGGTTAGAGTATCCCC
1 GGGGTTGGAGTATCCCC
2952040 GATTATGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCCAAAAATAAC
Found at i:2952009 original size:80 final size:79
Alignment explanation
Indices: 2951840--2952015 Score: 253
Period size: 80 Copynumber: 2.2 Consensus size: 79
2951830 TAAAATCGAA
* * * * * *
2951840 GTTGGAATATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCC
* * *
2951905 TCGAGAATAATGGG
66 TCAAAAATAACGGG
*
2951919 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC-GGGGTTCGAGTATCCC
2951984 CTCAAAAATAACGGG
65 CTCAAAAATAACGGG
2951999 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
2952016 GATTAACGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 42 0.49
80 44 0.51
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCC
TCAAAAATAACGGG
Found at i:2952040 original size:107 final size:108
Alignment explanation
Indices: 2951887--2952091 Score: 299
Period size: 107 Copynumber: 1.9 Consensus size: 108
2951877 GAAATAAAAC
* *
2951887 CGGGGTTCGAGTATCCCCTCGAGAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-
1 CGGGGTTCGAGTATCCCCTCGAGAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGA
*
2951951 TTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCAAAAATAA
66 TTTTAGAAATAAAACC-GGAGTTGGAGTATCCCCTCAAAAATAA
* * *
2951995 CGGGGTTGGAGTAT-CCC-CGATGATTAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTG
1 CGGGGTTCGAGTATCCCCTCGA-GAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATG
* *
2952058 ATTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 ATTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
2952092 GATTAAAGGA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 3 0.03
107 57 0.66
108 27 0.31
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (108 bp):
CGGGGTTCGAGTATCCCCTCGAGAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGA
TTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAA
Found at i:2952163 original size:51 final size:51
Alignment explanation
Indices: 2952022--2952209 Score: 252
Period size: 51 Copynumber: 3.6 Consensus size: 51
2952012 CGATGATTAA
* * * *
2952022 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTGATTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTGAAAATAAAAC
* * * *
2952074 CGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAAC
* *
2952126 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGA-AAATAAAAC
2952177 CGGGGTTGGAGTATCCCCGATTATGAAAAATTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTA
2952210 AGAAACTTAA
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 55 0.45
52 54 0.44
53 12 0.10
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAAC
Found at i:2954582 original size:13 final size:13
Alignment explanation
Indices: 2954564--2954622 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
2954554 ACAAAGATCC
2954564 ATGTATCGATACA
1 ATGTATCGATACA
2954577 ATGTATCGATA-A
1 ATGTATCGATACA
*
2954589 ATGGA-C--T--A
1 ATGTATCGATACA
2954597 ATGTATCGATACA
1 ATGTATCGATACA
*
2954610 ATGTATTGATACA
1 ATGTATCGATACA
2954623 TGGAATAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
11 2 0.05
12 5 0.13
13 24 0.63
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2954585 original size:33 final size:34
Alignment explanation
Indices: 2954543--2954750 Score: 129
Period size: 32 Copynumber: 6.4 Consensus size: 34
2954533 AAATTTCCCA
*
2954543 AATGTATCGATACAA-AGA-TCCATGTATCGATAC
1 AATGTATCGATACAATAGACT-AATGTATCGATAC
*
2954576 AATGTATCGATA-AATGGACTAATGTATCGATAC
1 AATGTATCGATACAATAGACTAATGTATCGATAC
* * *
2954609 AATGTATTGATAC-ATGGAATAATGTATCGATAC
1 AATGTATCGATACAATAGACTAATGTATCGATAC
** * * *
2954642 -AT-T-TCCTTGGCAGTAG-CT-TTGTAGT-GATAC
1 AATGTATCGAT-ACAATAGACTAATGTA-TCGATAC
* * * *
2954672 ATTGTATCGATAC-A-ACACTTATATATCGATAC
1 AATGTATCGATACAATAGACTAATGTATCGATAC
* * *
2954704 ATTGTATCGATAC-A-ACACTTATGTATCGATAC
1 AATGTATCGATACAATAGACTAATGTATCGATAC
*
2954736 ATTGTATCGATACAA
1 AATGTATCGATACAA
2954751 ATCGTTGAAA
Statistics
Matches: 141, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
30 12 0.09
31 8 0.06
32 60 0.43
33 60 0.43
34 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (34 bp):
AATGTATCGATACAATAGACTAATGTATCGATAC
Found at i:2954700 original size:19 final size:19
Alignment explanation
Indices: 2954674--2954736 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2954664 AGTGATACAT
2954674 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
2954693 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2954706 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2954725 TGTATCGATACA
1 TGTATCGATACA
2954737 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.17
18 1 0.03
19 20 0.56
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2954708 original size:32 final size:32
Alignment explanation
Indices: 2954667--2954750 Score: 159
Period size: 32 Copynumber: 2.6 Consensus size: 32
2954657 GCTTTGTAGT
2954667 GATACATTGTATCGATACAACACTTATATATC
1 GATACATTGTATCGATACAACACTTATATATC
*
2954699 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATATATC
2954731 GATACATTGTATCGATACAA
1 GATACATTGTATCGATACAA
2954751 ATCGTTGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATATATC
Found at i:2954713 original size:13 final size:13
Alignment explanation
Indices: 2954695--2954749 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
2954685 AACACTTATA
2954695 TATCGATACATTG
1 TATCGATACATTG
2954708 TATCGATACAACACTTATG
1 TATCGAT---ACA--T-TG
2954727 TATCGATACATTG
1 TATCGATACATTG
2954740 TATCGATACA
1 TATCGATACA
2954750 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
16 6 0.17
18 1 0.03
19 9 0.25
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2955085 original size:17 final size:17
Alignment explanation
Indices: 2955063--2955097 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2955053 CCAGTCATTA
*
2955063 ATCTTTCAACATTTGGT
1 ATCTTTCAACAATTGGT
*
2955080 ATCTTTCATCAATTGGT
1 ATCTTTCAACAATTGGT
2955097 A
1 A
2955098 CTAATTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (17 bp):
ATCTTTCAACAATTGGT
Found at i:2956757 original size:24 final size:24
Alignment explanation
Indices: 2956728--2956805 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
2956718 ATAGTTTATT
* *
2956728 ACTGTTCATTTATAACTGTTCATC
1 ACTGTTCATGTATCACTGTTCATC
* *
2956752 TCTGTTCATGTATCATTGTTCATC
1 ACTGTTCATGTATCACTGTTCATC
*
2956776 ACTGTTCATGTATCACTATTCATC
1 ACTGTTCATGTATCACTGTTCATC
2956800 ACTGTT
1 ACTGTT
2956806 GATACAGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (24 bp):
ACTGTTCATGTATCACTGTTCATC
Found at i:2957340 original size:35 final size:36
Alignment explanation
Indices: 2957272--2957340 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
2957262 AGTGATTGTG
2957272 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
*
2957308 AGGTTCTATCTTAG-CTTGTG-AAAAGATGGGGAG
1 AGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGAG
2957341 GTTTATATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (36 bp):
AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
Found at i:2959209 original size:20 final size:20
Alignment explanation
Indices: 2959177--2959231 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2959167 GTTTGATCCA
* *
2959177 AATGTATCAATACATTTTTC
1 AATGTATCGATACATTCTTC
* *
2959197 ATTGTATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
2959217 AATGTATCGATACAT
1 AATGTATCGATACAT
2959232 CCAGTTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:2960811 original size:20 final size:21
Alignment explanation
Indices: 2960780--2960818 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2960770 AGGTCAAAAC
2960780 CCTAGAAAGTATTGATACAGA
1 CCTAGAAAGTATTGATACAGA
2960801 CCTAG-AAGTATTGATACA
1 CCTAGAAAGTATTGATACA
2960819 TATTACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (21 bp):
CCTAGAAAGTATTGATACAGA
Found at i:2966316 original size:71 final size:70
Alignment explanation
Indices: 2966072--2967073 Score: 393
Period size: 71 Copynumber: 14.8 Consensus size: 70
2966062 GGATGCTTTT
* * * *
2966072 CTTTTT-TTTTTTAAAGCCCATACAAGCTAGTGGCACCTTTTACCTTTTTAGTTCTCAAAGAGTA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
*
2966136 GGATG
66 GGATA
** * *
2966141 CTTTTTCTTTTTTAAAAGCCCACACAATTTAGTGGCACCCTTTA---TTTTAGTCCACAAAAAGT
1 CTTTTTCTTTTTT-AAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGT
2966203 A-GA-A
65 AGGATA
** * * * * * * *
2966207 --TGCT-TTTTTTAAAGCCTACACAAATTGGTGGCATCTTTTACATTTTTTAGTTCTTAAAAAGT
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTAC-CTTTTTAGTCCTCAAAAAGT
*
2966269 AGGACA
65 AGGATA
* * * * * * *
2966275 CTTTTACTTTTTTAAAGCCCACACAAGCTACTTGCACCTTTTTACCTTTTTAATCCTCAAAGAGC
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACC-TTTTACCTTTTTAGTCCTCAAAAAGT
*
2966340 AGGATG
65 AGGATA
* * * * * *
2966346 CTTTTTCTTTTTTAAAGCCCACATAAACTACTAGCACCATTTACCTATTTAGTCCTTAAAGAA-T
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAA-AAGT
2966410 AGG--A
65 AGGATA
* * * ** * ** * * *
2966414 ----TGC--TTTAAAAGCTCACACAAGTTGGTGGCATTTTTTA---TTTTAGTCCTTAAAGAG-C
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
*
2966469 GTGACA
66 G-GATA
** ** * * * * * *
2966475 C---TTCTTTTTTAAAGCCCACATTAGTTGGTGGCACCTTTTACCATTTTACTCCTTAAAGAGCA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
2966537 GGATGA
66 GGAT-A
**** ** * * * * * * *
2966543 -TTTTT-TTGAAAAAAAATCTACACAAGCTGGTCGCACCCTTTA---TTTTAGACCTCAAAAAGC
1 CTTTTTCTT-TTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGT
*
2966603 AGGACA
65 AGGATA
* * * * * * * * *
2966609 CTTTTT-ATTTTTAAAGCCCATACAAGCTAGTGGAACTTTTTAGCTTTTTTGTCCTCAAAGAGCA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
* **
2966673 AGACG
66 GGATA
* * * * * *
2966678 CTTTTTCTTTTTTAAAGCCTACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
** *
2966743 TAATG
66 GGATA
* * * * * * * * *
2966748 CTTTTTCCTTTCTCAAAGCTCACACAAGCTGGTGGCA-CATTTACC-TTTTAGTCTTTAAAAAGC
1 CTTTTT-CTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGT
** **
2966811 ATAACGC
65 AGGA-TA
* * * ** * * *
2966818 CTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGATACCCTTTATCTTTTTAGTCCTCAAAGAGTA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
2966883 GGATA
66 GGATA
* * * * * * *
2966888 ------C--TTTAAAAGCCCACACAAGCTGGTGGCACCCTTTA---TTTTAGTCCTTAAAGAGCA
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
***
2966942 GGGCG
66 GGATA
* * * * * *
2966947 CTTTTTCTTTTTTAAAGTCCACACAAGCTGGTGGCACTTTTTA-CTTTTGTAGTCCTCAAAGAGC
1 CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTT-TAGTCCTCAAAAAGT
2967011 AGGATA
65 AGGATA
* ** * * *
2967017 CTTTTTCTTTTTCCAAAGCCCATGCAAACTGGTGGCACCCTTTAACTTTTTAGTCCT
1 CTTTTTCTTTTT-TAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCT
2967074 TAAAGAGCAA
Statistics
Matches: 716, Mismatches: 166, Indels: 100
0.73 0.17 0.10
Matches are distributed among these distances:
58 2 0.00
59 33 0.05
61 1 0.00
62 81 0.11
63 6 0.01
64 33 0.05
65 1 0.00
66 38 0.05
67 76 0.11
68 19 0.03
69 82 0.11
70 157 0.22
71 176 0.25
72 11 0.02
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (70 bp):
CTTTTTCTTTTTTAAAGCCCACACAAACTAGTGGCACCTTTTACCTTTTTAGTCCTCAAAAAGTA
GGATA
Found at i:2966441 original size:204 final size:195
Alignment explanation
Indices: 2966078--2966547 Score: 500
Period size: 204 Copynumber: 2.4 Consensus size: 195
2966068 TTTTCTTTTT
* * * *
2966078 TTTTTTAAAGCCCATACAAGCTAGTGGCACCTTTTACCTTTTTAGTTCTCAAAGAGTAGGATGCT
1 TTTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTACCTTTTTAATCCTCAAAGAGCAGGATGCT
** * * *
2966143 TTTTCTTTTTTAAAAGCCCACACAATTTAGTGGCACCCTTTATTTTAGTCCACAAAAAGTAGAAT
66 TTTTCTTTTTTAAAAGCCCACACAAACTACTAGCACCATTTATTTTAGTCCACAAAAAGTAGAAT
* * *
2966208 GCTTTTTTTAAAGCCTACACAAATTGGTGGCATCTTTTACATTTTTTAGTTCTTAAAAAGTAG-G
131 GC--TTTTAAAAGCCTACACAAATTGGTGGCAT-TTTT---TATTTTAGTCCTTAAAAAG-AGTG
2966272 ACACTTTTAC
189 ACAC--TT-C
* *
2966282 TTTTTTAAAGCCCACACAAGCTACTTGCACCTTTTTACCTTTTTAATCCTCAAAGAGCAGGATGC
1 TTTTTTAAAGCCCACACAAGCTAGTGGCACC-TTTTACCTTTTTAATCCTCAAAGAGCAGGATGC
* **
2966347 TTTTTCTTTTTT-AAAGCCCACATAAACTACTAGCACCATTTACCTATTTAGTCCTTAAAGAA-T
65 TTTTTCTTTTTTAAAAGCCCACACAAACTACTAGCACCATTTA--T-TTTAGTCCACAAA-AAGT
* * * *
2966410 AGGATGC-TTTAAAAG-CTCACACAAGTTGGTGGCATTTTTTATTTTAGTCCTTAAAGAGCGTGA
126 AGAATGCTTTTAAAAGCCT-ACACAAATTGGTGGCATTTTTTATTTTAGTCCTTAAAAAGAGTGA
2966473 CACTTC
190 CACTTC
** * * * * * *
2966479 TTTTTTAAAGCCCACATTAGTTGGTGGCACCTTTTACCATTTTACTCCTTAAAGAGCAGGATGAT
1 TTTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTACCTTTTTAATCCTCAAAGAGCAGGATGCT
2966544 TTTT
66 TTTT
2966548 TTGAAAAAAA
Statistics
Matches: 228, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
196 34 0.15
197 26 0.11
198 2 0.01
199 1 0.00
200 21 0.09
203 6 0.03
204 75 0.33
205 42 0.18
206 1 0.00
207 18 0.08
208 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (195 bp):
TTTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTACCTTTTTAATCCTCAAAGAGCAGGATGCT
TTTTCTTTTTTAAAAGCCCACACAAACTACTAGCACCATTTATTTTAGTCCACAAAAAGTAGAAT
GCTTTTAAAAGCCTACACAAATTGGTGGCATTTTTTATTTTAGTCCTTAAAAAGAGTGACACTTC
Found at i:2967000 original size:129 final size:130
Alignment explanation
Indices: 2966762--2967020 Score: 344
Period size: 129 Copynumber: 2.0 Consensus size: 130
2966752 TTCCTTTCTC
* * *
2966762 AAAGCTCACACAAGCTGGTGGCACATTTACCTTTTAGTCTTTAAAAAGCATAACGCCTTTTTCTT
1 AAAGCCCACACAAGCTGGTGGCACATTTA-CTTTTAGTCCTTAAAAAGCAGAACGCCTTTTTCTT
* *
2966827 TTTCAAAGCCCACACAAGCTGGTGATACCCTTTATCTTTTTAGTCCTCAAAGAGTAGGATACTTT
65 TTTCAAAGCCCACACAAGCTGGTGACACCCTTTATCTTTTTAGTCCTCAAAGAGCAGGATACTTT
2966892 A
130 A
* * **
2966893 AAAGCCCACACAAGCTGGTGGCACCCTTTA-TTTTAGTCCTTAAAGAGCAGGGCG-CTTTTTCTT
1 AAAGCCCACACAAGCTGGTGGCA-CATTTACTTTTAGTCCTTAAAAAGCAGAACGCCTTTTTCTT
* * * **
2966956 TTTTAAAGTCCACACAAGCTGGTGGCACTTTTTA-CTTTTGTAGTCCTCAAAGAGCAGGATACTT
65 TTTCAAAGCCCACACAAGCTGGTGACACCCTTTATCTTTT-TAGTCCTCAAAGAGCAGGATACTT
2967020 T
129 T
2967021 TTCTTTTTCC
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
128 5 0.04
129 61 0.54
130 19 0.17
131 22 0.20
132 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (130 bp):
AAAGCCCACACAAGCTGGTGGCACATTTACTTTTAGTCCTTAAAAAGCAGAACGCCTTTTTCTTT
TTCAAAGCCCACACAAGCTGGTGACACCCTTTATCTTTTTAGTCCTCAAAGAGCAGGATACTTTA
Found at i:2967593 original size:20 final size:20
Alignment explanation
Indices: 2967568--2967619 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2967558 AAACCCTTGA
2967568 ATGTATCGATACTCACCTAG
1 ATGTATCGATACTCACCTAG
2967588 ATGTATCGATACTCACCTAG
1 ATGTATCGATACTCACCTAG
2967608 ATGTATCGATAC
1 ATGTATCGATAC
2967620 ATTATGCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACTCACCTAG
Found at i:2967719 original size:20 final size:20
Alignment explanation
Indices: 2967694--2967744 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2967684 CTACTATTTA
*
2967694 TATCGATACATGGT-ACAATG
1 TATCGATACATGATGA-AATG
*
2967714 TATCGATACATGATGAATTG
1 TATCGATACATGATGAAATG
2967734 TATCGATACAT
1 TATCGATACAT
2967745 TGCTTGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATGAAATG
Found at i:2973876 original size:13 final size:13
Alignment explanation
Indices: 2973858--2973884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2973848 ACAATATTCC
2973858 TTGTATCGATACA
1 TTGTATCGATACA
2973871 TTGTATCGATACA
1 TTGTATCGATACA
2973884 T
1 T
2973885 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2976454 original size:13 final size:13
Alignment explanation
Indices: 2976438--2976483 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
2976428 TGGTACAATA
2976438 TATCGATACATTG
1 TATCGATACATTG
2976451 TATCGATACA-TG
1 TATCGATACATTG
2976463 -AT-G--A-ATTG
1 TATCGATACATTG
2976471 TATCGATACATTG
1 TATCGATACATTG
2976484 CTTGTAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
7 1 0.04
8 3 0.11
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.11
13 14 0.52
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2978502 original size:22 final size:20
Alignment explanation
Indices: 2978447--2978508 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
2978437 GCATTCTGGA
2978447 AAGAAAATGTATCGATACAT
1 AAGAAAATGTATCGATACAT
2978467 AAGAAAATGTATCGATACAT
1 AAGAAAATGTATCGATACAT
* *
2978487 ACATACAATTGTATCGATACAT
1 A-AGA-AAATGTATCGATACAT
2978509 TTCTCATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 21 0.55
21 2 0.05
22 15 0.39
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (20 bp):
AAGAAAATGTATCGATACAT
Found at i:2982578 original size:80 final size:80
Alignment explanation
Indices: 2982377--2982579 Score: 229
Period size: 80 Copynumber: 2.5 Consensus size: 80
2982367 TCTAACCTTG
* * *
2982377 TTTTTACTTCTAAAACACTGAATTTTTCATCTCTA-GGATACTCCAACCCCACCATCTTTGAGAA
1 TTTTTACTTCTAAAACACTCAATTTTTCATCTCTACGGATACTCCAACCCCACCATATCTGAGAA
*
2982441 TATACTTCAACCCCA
66 GATACTTCAACCCCA
**
2982456 TTTTTACTTCTAAAA-TGTCACATTTTTCATCT-T-CGAGTATACTCCAACCCCACCATATCTGA
1 TTTTTACTTCTAAAACACTCA-ATTTTTCATCTCTACG-G-ATACTCCAACCCCACCATATCTGA
** *
2982518 GGGGATA-TTCCAATCCCA
63 GAAGATACTT-CAACCCCA
*
2982536 TTTTTATTTCTAAAACACT-ATATTTTTCATCTCTACGGATACTC
1 TTTTTACTTCTAAAACACTCA-ATTTTTCATCTCTACGGATACTC
2982580 TAACGCCCCT
Statistics
Matches: 103, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
78 4 0.04
79 29 0.28
80 65 0.63
81 3 0.03
82 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (80 bp):
TTTTTACTTCTAAAACACTCAATTTTTCATCTCTACGGATACTCCAACCCCACCATATCTGAGAA
GATACTTCAACCCCA
Found at i:2984884 original size:32 final size:32
Alignment explanation
Indices: 2984843--2984905 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2984833 TCTCTTTAAC
2984843 CGATTAAGGGGGAGAATTTTTTTTAACGAAAT
1 CGATTAAGGGGGAGAATTTTTTTTAACGAAAT
*
2984875 CGATTAAGGGGGAGAATTTTTTTTAATGAAA
1 CGATTAAGGGGGAGAATTTTTTTTAACGAAA
2984906 GCCCTAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (32 bp):
CGATTAAGGGGGAGAATTTTTTTTAACGAAAT
Found at i:2985531 original size:20 final size:19
Alignment explanation
Indices: 2985482--2985538 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2985472 TTGTATCGAT
* *
2985482 ACATTGTATCGATAAATGT
1 ACATTGTATCGATACATGG
* *
2985501 TCATTGCATCGATACATGG
1 ACATTGTATCGATACATGG
2985520 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2985539 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2988054 original size:466 final size:469
Alignment explanation
Indices: 2986367--2989076 Score: 3363
Period size: 466 Copynumber: 5.8 Consensus size: 469
2986357 TCAGCTTTGG
* * * * * * **
2986367 TTTCACAAGAAAGGTTTTTTTCCCTCCTATTTTTGTAAAGTCTAAGTTTGTGCCAAAAATGAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* *
2986432 AAATATGGATTCTATTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTC
66 AAACATGGATTCTAGTAATGATCTTCATT-ATTTTGTGATTAGGCACTATAAACACATTCTCCTC
* * * *
2986497 ATTAAGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTGTTTGCCCTATTTTTCTT
130 ATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTT
* * * * * * *
2986562 AAAATCAAAGTTCATCTCTTAAATATAACAAGCATCAATTCTCGTAACAGTCTCCGA-TCTTCTC
195 AAAATCAAAATTCATCCCTTAAATATGACAAGCATCTATTCTCATAAAAGTCTCC-ATTCTTTTC
* * * * * * *
2986626 AAGATTGGGAACCCATAACACTTTCCTTTAATTAGGATACACGACATTGATGCATTGGTGTCGCA
259 AAGATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCA
* * *
2986691 AGAAAAGCTTTTCTGTCCACCGTTTTTGATTGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
324 AGAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
* * ** * * * *
2986756 GAATAGTCATACTAATCTCAATT-TTTTCAGGATTAGATACCATAAGCAGAGTCTGCTCATTAGG
389 GAATAGTCATACTAA-CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAAGG
* * * *
2986820 ATAGATGATATTGTTGCTTTGG
453 ATACACGATA---TTG--ATGA
* *
2986842 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTATAAAGTCTATGTTCGTGCCTCAAATGAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* * * *
2986907 AAACATGAATTCTAGTAATGATCTTTATTCGTTTTGTGATAAGGCACTATAAACAC-TTCTCCTC
66 AAACATGGATTCTAGTAATGATCTTCATT-ATTTTGTGATTAGGCACTATAAACACATTCTCCTC
* * * * *
2986971 ATTAGAATAAATGATATTAATGATTTTCTTTTGCAAGGAAATCTTTT-TTTTCCCTATTTTCCTT
130 ATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTT
*
2987035 AAAATCAAAATTCATCCCTTAAATATGACAAGCAT-TGATTCTCGTAACAA-TCTCCATTCTTTT
195 AAAATCAAAATTCATCCCTTAAATATGACAAGCATCT-ATTCTCATAA-AAGTCTCCATTCTTTT
*** * * *
2987098 CAAGATTGGGAACCAAGAACACATTTTTTTCATTATGATACTTGACATTGATGCTTTGGTGTCAC
258 CAAGATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
** * *
2987163 AAGAAAAGCATTTCTTTCCACCGTTTTTAATAGAATCAAAGTTTATCTCTTAAATAAGACAAACA
323 AAGAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
* * * * * * * *
2987228 TGAATACTCATACTAATCCCCATTTATTTTTAGGATTACGCACCATAAAAATAGGCTTCTTACAA
388 TGAATAGTCATACTAA-CCCCA-TTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAA
* *
2987293 GGATACATGATATTGATGTTTGG
451 GGATACACGATATTGA----TGA
* * * * ** ** *
2987316 TTTCGCTAGAAAGGCTTTCTTCCAACCAGTTTTTGTAAAGTCCAAGTTCAAGCCTCTGATAAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* * * *
2987381 AAACATGGATTGTAGTAATGATGTTCATTCATTTTATGATTAGGCATTATAAACACATTCTCCTC
66 AAACATGGATTCTAGTAATGATCTTCATT-ATTTTGTGATTAGGCACTATAAACACATTCTCCTC
* *
2987446 ATTAGGATAAATGATATTGATGGTTTTCTTTTGCAAGAAAATCTTTTCTTTGCCCTATTTTCCTT
130 ATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTT
* * * * * * * *
2987511 AAAAACAAAGTTCAT-CTTGTAAATAAGGCAAACAT-TGATTCTCATAATAGTCTCCATCCTTTT
195 AAAATCAAAATTCATCCCT-TAAATATGACAAGCATCT-ATTCTCATAAAAGTCTCCATTCTTTT
* * **
2987574 CAAGATTAGGAACCAAGAACACTTTCCCTTCATTAGGATACATGACCCTGATGCTTTGGTGTCGC
258 CAAGATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
* * *
2987639 AAGAAAAGGTTTTCTTTCCACTGTTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAATA
323 AAGAAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
* * *
2987704 TGAATAGTTATACTAACCACCACTCCTTTCAGGATTAGGCACCAT-AA-ATAGTCTTCTCATAAG
388 TGAATAGTCATACTAACC-CCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAAG
2987767 GATACACGATATTGATGA
452 GATACACGATATTGATGA
* * * *
2987785 TTTTGCAAGAAAGGCTTTCTTCTCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTTAAATGAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* * *
2987850 AAACATGGATTCTAGTAATGATCTTCA-T-TTTTGTGCTTAGGCACTATAAACGCATTCTCCTCG
66 AAACATGGATTCTAGTAATGATCTTCATTATTTTGTGATTAGGCACTATAAACACATTCTCCTCA
* *
2987913 TTAGGATAAATGATATTGATGGTTTTCTTTTGCATGAAAATTTTTTCTTTGCCCTATTTTCCTTA
131 TTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTA
* * * *
2987978 AAATCAAAATTCATCACTTAAATATGATAAGCATCTATTCTCATAAAACTCTCCATTCTTTTCAG
196 AAATCAAAATTCATCCCTTAAATATGACAAGCATCTATTCTCATAAAAGTCTCCATTCTTTTCAA
* * *
2988043 GATTGGGAACCAAGAACACATTCCCTTCATTAGGATGCAAGACATTAATGCTTTGGTGTCGCAAG
261 GATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
* * * *
2988108 AAAAAGTTTT-TGTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAATCAAGA
326 AAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * *
2988172 ATAGTAATACTAACCCCATTCTTTTCAGGATTAGCCACCATAAACACAGTCTTCTCATAAGGATA
391 ATAGTCATACTAACCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
*
2988237 TACGATATTGATGA
456 CACGATATTGATGA
* * ** * * *
2988251 TTTCACAAAAAAGGCTTTCTTCTTACCAATTTTTGTGAAGTCTAAGTTCGTGCTTTAAATGAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* *
2988316 AAACATGGACTCTAGTAATGATCTTCATT-TTTT-TTATTAGGCACTATAAACACATTCTCCTCA
66 AAACATGGATTCTAGTAATGATCTTCATTATTTTGTGATTAGGCACTATAAACACATTCTCCTCA
* * *
2988379 GTAGGATAAATGATATTGATGGTTTTCTTTTGCATGAAAATCTTTTCTTTACCCTATTTTCCTTA
131 TTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTA
* *
2988444 AAATCAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAATAGTCTCCATTCTTTTCAA
196 AAATCAAAATTCATCCCTTAAATATGACAAGCATCTATTCTCATAAAAGTCTCCATTCTTTTCAA
* * * * * **
2988509 GATTAGGAACCAAGAACACATTCCCTTTATTAGGATGCATGACATTAATGCTCTAATGTCGCAAG
261 GATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
* * * * *
2988574 AAAAGTTTTTCTATCCATCGTTTTTGATAGAATTAAAGTTTATCTCTTAAATAAGACAAACATGA
326 AAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
* * *
2988639 ATAGCCATACTAACCCCATTCTTTTTAGGATTAAGG-ACCATAAACATAGTCTTCTCATAAAGAT
391 ATAGTCATACTAACCCCATTCTTTTCAGGATT-AGGCACCATAAACATAGTCTTCTCATAAGGAT
* ***
2988703 ATACGATATTGGCAA
455 ACACGATATTGATGA
* *
2988718 TTTCACAAGAAAGGCTTTCTTCCCACCAATCTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
1 TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
* * * * * *
2988783 AATCATGGACTT-TGGTTATGATCTTCATTTATTTTGTGATTAGGCACTATAATCACATTTTCCA
66 AAACATGGA-TTCTAGTAATGATCTTCA-TTATTTTGTGATTAGGCACTATAAACACATTCTCCT
* * *
2988847 CCTTAGGATAAATGATATTGATGATTTT-TTTTGGCATTATAATCTTTTCTTTGCCCTATTTTCC
129 CATTAGGATAAATGATATTGATGATTTTCTTTT-GCATGAAAATCTTTTCTTTGCCCTATTTTCC
* * * * *
2988911 TTAAAAT-ACAAATTCATCCCTTAAATATGACAAGCATCAACTCTCATAACAGTCTCTATTTTTT
193 TTAAAATCA-AAATTCATCCCTTAAATATGACAAGCATCTATTCTCATAAAAGTCTCCATTCTTT
* * *
2988975 TCAAGATTGGGAACCAAGAACACATTCCCATCATTAGGATACAAGACATTGATGCTTTGGTGTTG
257 TCAAGATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG
* *
2989040 CAAGAAATA-GTTTTCTTTCCACTGTCTTTGATAGAAT
322 CAAGAAA-AGGTTTTCTTTCCACCGTTTTTGATAGAAT
2989077 ACCCATACTA
Statistics
Matches: 1946, Mismatches: 261, Indels: 61
0.86 0.12 0.03
Matches are distributed among these distances:
464 23 0.01
465 64 0.03
466 539 0.28
467 201 0.10
468 6 0.00
469 88 0.05
470 219 0.11
471 1 0.00
472 4 0.00
473 227 0.12
474 161 0.08
475 217 0.11
476 196 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (469 bp):
TTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGAC
AAACATGGATTCTAGTAATGATCTTCATTATTTTGTGATTAGGCACTATAAACACATTCTCCTCA
TTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTA
AAATCAAAATTCATCCCTTAAATATGACAAGCATCTATTCTCATAAAAGTCTCCATTCTTTTCAA
GATTGGGAACCAAGAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAG
AAAAGGTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGA
ATAGTCATACTAACCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAAGGATA
CACGATATTGATGA
Found at i:2989638 original size:159 final size:159
Alignment explanation
Indices: 2989448--2990292 Score: 472
Period size: 159 Copynumber: 5.4 Consensus size: 159
2989438 ACAATCCCTA
* * * * *
2989448 CATTAGGATACATGACATTGATGCTTTGGTGTTGCAAGAAAAGGTTTTCTTTCCTCCATTTTTTA
1 CATTAGGATACATGATATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTCTTTCCACCATTATTGA
* * ** *
2989513 TAGAATCAAAGTTTGTTTTTTAAATAAGATAAACATGAATAGT-CACACTAATCCCCATTCTTTT
66 TAAAATCAAAGTTTGTCTCATAAATAAGACAAACATGAATA-TACACACTAATCCCCATTCTTTT
* * *
2989577 CAGGATTAGGCGCCATAAACATAGTGTTCT-
130 CAGGATTAGACACCATAAACATAGTCTT-TG
* * * *
2989607 CATTAGGATACAAGATATTGATGCTTTGGTGTCG-TA-AAAAGCTTTTCTTTCCACCGTTATTGA
1 CATTAGGATACATGATATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTCTTTCCACCATTATTGA
* *
2989670 TAAAATCAAAGTTTGTCTCATAAGTAAGACAAACATGAATATACATACTAATCCCCATTCTTTTC
66 TAAAATCAAAGTTTGTCTCATAAATAAGACAAACATGAATATACACACTAATCCCCATTCTTTTC
* *
2989735 ATGATTCGACACCATAAACATAGTCTTTG
131 AGGATTAGACACCATAAACATAGTCTTTG
* * * * *
2989764 CATAAGGATAGATGATATTGATGCTTTGGT-TTCGCAAGAAAAGC-TTTCTTCCCACTAATTTTT
1 CATTAGGATACATGATATTGATGCTTTGGTGTT-GCAAGAAAAGCTTTTCTTTCCAC-CATTATT
* ** * * * * * * * **
2989827 G-TAAAGTGTAAGTTCATGCCTC--AAATGAGATAAACATGGAT-T-CTAGTAATGATCTTCATT
64 GATAAAATCAAAGTT--TGTCTCATAAATAAGACAAACATGAATATAC-A-CACTAATCCCCATT
* * * * * *
2989887 CATTTT-GGGATTAGGCACTATAAACACATTGTTCT-
125 C-TTTTCAGGATTAGACACCATAAACATAGTCTT-TG
* * * * *
2989922 CATTAGGATAAATGATATTGAT--TTT-TTTTTGCATG-AAA--TTTTAAC-TTCGC-CCGATTT
1 CATTAGGATACATGATATTGATGCTTTGGTGTTGCAAGAAAAGCTTTT--CTTTC-CACC-ATTA
* * ** * * * * * * * * * *
2989979 TTCATAGAATCAAAGTTCATCCCTTAAGTAAGGCAATCATTGATTCT-CATAAC-AGTCTCCATT
62 TTGATAAAATCAAAGTTTGTCTCATAAATAAGACAAACA-TGAATATACA-CACTAATCCCCATT
* * * * * * ** *
2990042 CTTTTCAAGTTTGGGA-A-CAAAACACACATTCCCTA
125 CTTTTCAGGATT-AGACACCATAA-ACATAGTCTTTG
* * * * * *
2990077 CATTAAGATACATGACATTGATGCTTTGGTGTAGCAAG-AAAGCTTTTTTTTTTCACCGTTATTG
1 CATTAGGATACATGATATTGATGCTTTGGTGTTGCAAGAAAAGC-TTTTCTTTCCACCATTATTG
* * * * * *
2990141 ATAGAATCAAAATTTGTCTCTTAAATAAGACAACCATGAATAGT-CATACTAATCCCTATTCTTT
65 ATAAAATCAAAGTTTGTCTCATAAATAAGACAAACATGAATA-TACACACTAATCCCCATTCTTT
** *
2990205 TTTGGATTAGGCACCATAAACATAGTCTTCT-
129 TCAGGATTAGACACCATAAACATAGTCTT-TG
* * *
2990236 CATTAGGATACACGATATTGATGCTTTGGT-TTCGCAAGAAAGGCATTT-TTTCCACCA
1 CATTAGGATACATGATATTGATGCTTTGGTGTT-GCAAGAAAAGCTTTTCTTTCCACCA
2990293 ATTTTTGTGA
Statistics
Matches: 512, Mismatches: 132, Indels: 85
0.70 0.18 0.12
Matches are distributed among these distances:
153 5 0.01
154 20 0.04
155 63 0.12
156 15 0.03
157 135 0.26
158 111 0.22
159 141 0.28
160 18 0.04
161 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (159 bp):
CATTAGGATACATGATATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTCTTTCCACCATTATTGA
TAAAATCAAAGTTTGTCTCATAAATAAGACAAACATGAATATACACACTAATCCCCATTCTTTTC
AGGATTAGACACCATAAACATAGTCTTTG
Found at i:2990864 original size:34 final size:35
Alignment explanation
Indices: 2990826--2990892 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2990816 CCTTACAACA
2990826 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2990860 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2990893 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2991369 original size:13 final size:13
Alignment explanation
Indices: 2991351--2991376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2991341 ACAATTTTTG
2991351 TGTATCGATACAT
1 TGTATCGATACAT
2991364 TGTATCGATACAT
1 TGTATCGATACAT
2991377 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2991373 original size:32 final size:32
Alignment explanation
Indices: 2991332--2991394 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2991322 TACAAGCCAA
* *
2991332 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTCTGTATCGATACAT
2991364 TGTATCGATACATACTTTCTGTATCGATACA
1 TGTATCGATACATACTTTCTGTATCGATACA
2991395 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTCTGTATCGATACAT
Found at i:2991441 original size:21 final size:21
Alignment explanation
Indices: 2991415--2991490 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2991405 CTGCCAAGAA
*
2991415 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2991436 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2991456 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2991477 ATGTATCGATACAT
1 ATGTATCGATACAT
2991491 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2991461 original size:20 final size:20
Alignment explanation
Indices: 2991436--2991508 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2991426 CATCTTTTTT
2991436 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2991456 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2991477 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2991497 ATGTATCGATAC
1 ATGTATCGATAC
2991509 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2991472 original size:41 final size:41
Alignment explanation
Indices: 2991415--2991508 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2991405 CTGCCAAGAA
*
2991415 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2991456 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2991497 ATGTATCGATAC
1 ATGTATCGATAC
2991509 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2993154 original size:13 final size:13
Alignment explanation
Indices: 2993136--2993160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2993126 ACTGAAGCAA
2993136 TGTATCGATACAT
1 TGTATCGATACAT
2993149 TGTATCGATACA
1 TGTATCGATACA
2993161 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2996201 original size:34 final size:35
Alignment explanation
Indices: 2996163--2996229 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2996153 CCTTACAACA
2996163 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2996197 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2996230 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2996706 original size:13 final size:13
Alignment explanation
Indices: 2996688--2996713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2996678 ACAATTTTTG
2996688 TGTATCGATACAT
1 TGTATCGATACAT
2996701 TGTATCGATACAT
1 TGTATCGATACAT
2996714 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2996710 original size:32 final size:32
Alignment explanation
Indices: 2996669--2996731 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2996659 TACAAGCCAA
* *
2996669 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTCTGTATCGATACAT
2996701 TGTATCGATACATACTTTCTGTATCGATACA
1 TGTATCGATACATACTTTCTGTATCGATACA
2996732 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTCTGTATCGATACAT
Found at i:2996778 original size:21 final size:21
Alignment explanation
Indices: 2996752--2996827 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2996742 CTGCCAAGAA
*
2996752 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2996773 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2996793 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2996814 ATGTATCGATACAT
1 ATGTATCGATACAT
2996828 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2996798 original size:20 final size:20
Alignment explanation
Indices: 2996773--2996845 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2996763 CATCTTTTTT
2996773 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2996793 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2996814 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2996834 ATGTATCGATAC
1 ATGTATCGATAC
2996846 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2996809 original size:41 final size:41
Alignment explanation
Indices: 2996752--2996845 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2996742 CTGCCAAGAA
*
2996752 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2996793 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2996834 ATGTATCGATAC
1 ATGTATCGATAC
2996846 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2997920 original size:21 final size:20
Alignment explanation
Indices: 2997875--2997921 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2997865 GACATTTATT
* *
2997875 GATATATTCACTTATGTATC
1 GATACATTCACTTATATATC
*
2997895 AATACATTCACTTATTATATC
1 GATACATTCACTTA-TATATC
2997916 GATACA
1 GATACA
2997922 AATTTTAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.40
Consensus pattern (20 bp):
GATACATTCACTTATATATC
Found at i:2998901 original size:21 final size:21
Alignment explanation
Indices: 2998863--2998902 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2998853 AAAATTTATT
*
2998863 TAAATAATATCACCTTAATAA
1 TAAATAATATCACATTAATAA
2998884 TAAATAATAATCA-ATTAAT
1 TAAATAAT-ATCACATTAAT
2998903 TATCTTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATAATATCACATTAATAA
Found at i:2999268 original size:22 final size:22
Alignment explanation
Indices: 2999225--2999297 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
2999215 TCAATCTGAG
2999225 TTATTATTT-ATTTAA-TAAAAA
1 TTATT-TTTAATTTAATTAAAAA
2999246 TTATTTTTAATTTAATTAAAAA
1 TTATTTTTAATTTAATTAAAAA
*
2999268 -TA-TTTAAATATTAATATAAAAA
1 TTATTTTTAAT-TTAAT-TAAAAA
*
2999290 TAATTTTT
1 TTATTTTT
2999298 TAAATATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
20 9 0.21
21 18 0.42
22 12 0.28
23 1 0.02
24 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTTTTAATTTAATTAAAAA
Found at i:3001181 original size:25 final size:25
Alignment explanation
Indices: 3001140--3001190 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
3001130 GAAATCTAAA
*
3001140 AAATAATATAAGCATATATAAATAT
1 AAATAATATAAGAATATATAAATAT
*
3001165 AAATACATATAA-AATATATATATAT
1 AAATA-ATATAAGAATATATAAATAT
3001190 A
1 A
3001191 TAATTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAATATAAGAATATATAAATAT
Found at i:3001293 original size:22 final size:22
Alignment explanation
Indices: 3001267--3001308 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3001257 TCAAAAACTC
* *
3001267 CCCTTTTTATCTTTTCTTCTCT
1 CCCTTTGTATCTCTTCTTCTCT
*
3001289 CCCTTTGTCTCTCTTCTTCT
1 CCCTTTGTATCTCTTCTTCT
3001309 TTTTCCCTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.36, G:0.02, T:0.60
Consensus pattern (22 bp):
CCCTTTGTATCTCTTCTTCTCT
Found at i:3001613 original size:22 final size:24
Alignment explanation
Indices: 3001586--3001639 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
3001576 TAAAAATATA
*
3001586 TATTTTATATATAAAATAGA-T-T
1 TATTTTATATATAAAATAAATTAT
*
3001608 TATTTTAAATATAAAATAAATTAT
1 TATTTTATATATAAAATAAATTAT
3001632 TATTTTAT
1 TATTTTAT
3001640 GAATAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 18 0.67
23 1 0.04
24 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTTATATATAAAATAAATTAT
Found at i:3002333 original size:22 final size:21
Alignment explanation
Indices: 3002295--3002344 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3002285 ATTTTATTTT
3002295 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
3002316 TAAATATTAA-TATAAAA-ATA
1 TAAAT-TTAATTATAAAATATA
*
3002336 -AATTTTAAT
1 TAAATTTAAT
3002345 AAAATGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.15
19 3 0.12
20 3 0.12
21 12 0.46
22 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:3002534 original size:9 final size:10
Alignment explanation
Indices: 3002508--3002539 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
3002498 CGAATACAAC
3002508 ATAAAAAATA
1 ATAAAAAATA
3002518 ATAAAAAATA
1 ATAAAAAATA
3002528 TATAAAAAATA
1 -ATAAAAAATA
3002539 A
1 A
3002540 ATGAATACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:3003505 original size:21 final size:21
Alignment explanation
Indices: 3003481--3003565 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
3003471 GAGATTAATT
3003481 TAATAAAATTAAAAATAATAA
1 TAATAAAATTAAAAATAATAA
** ** **
3003502 TAATATTATTAATGATTGTAA
1 TAATAAAATTAAAAATAATAA
* * *
3003523 TGATAAAATTAAATATTATAA
1 TAATAAAATTAAAAATAATAA
*
3003544 TAATAATATT-AAAATAAATAA
1 TAATAAAATTAAAAAT-AATAA
3003565 T
1 T
3003566 GAAATATACT
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
20 4 0.09
21 43 0.91
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
TAATAAAATTAAAAATAATAA
Found at i:3003566 original size:42 final size:42
Alignment explanation
Indices: 3003483--3003567 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
3003473 GATTAATTTA
* * **
3003483 ATAAAATTAAAAATAATAATAATATTATTAATGATTGTAATG
1 ATAAAATTAAAAATAATAATAATAATATTAATAATAATAATG
* *
3003525 ATAAAATTAAATATTATAATAATAATATTAA-AATAAATAATG
1 ATAAAATTAAAAATAATAATAATAATATTAATAAT-AATAATG
3003567 A
1 A
3003568 AATATACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (42 bp):
ATAAAATTAAAAATAATAATAATAATATTAATAATAATAATG
Found at i:3003674 original size:20 final size:19
Alignment explanation
Indices: 3003649--3003697 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
3003639 TTTTATTATG
3003649 TAATTATTTTTAAATAATAA
1 TAATTATTTTTAAA-AATAA
*
3003669 TAATTATATTTAAAAATAA
1 TAATTATTTTTAAAAATAA
3003688 TAATATATTT
1 TAAT-TATTT
3003698 ATATATCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTATTTTTAAAAATAA
Found at i:3003678 original size:22 final size:22
Alignment explanation
Indices: 3003653--3003737 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
3003643 ATTATGTAAT
3003653 TATTTTTAAATAATAATAATTA
1 TATTTTTAAATAATAATAATTA
**
3003675 TATTTAAAAATAATAATATATTTA
1 TATTTTTAAATAATAATA-A-TTA
* * **
3003699 TATATCTTAAATTAAAAATAAAAA
1 TAT-TTTTAAA-TAATAATAATTA
*
3003723 TAATTATTAAATAAT
1 T-ATTTTTAAATAAT
3003738 CACAAATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
22 16 0.33
23 4 0.08
24 14 0.29
25 7 0.15
26 7 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTTTTAAATAATAATAATTA
Found at i:3003798 original size:20 final size:20
Alignment explanation
Indices: 3003773--3003813 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3003763 TTATTTAAAT
*
3003773 AATTTA-TTAAATAATTATAA
1 AATTTATTTAAAAAATT-TAA
3003793 AATTTATTTAAAAAATTTAA
1 AATTTATTTAAAAAATTTAA
3003813 A
1 A
3003814 TATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTATTTAAAAAATTTAA
Found at i:3003806 original size:12 final size:12
Alignment explanation
Indices: 3003720--3003788 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
3003710 TTAAAAATAA
3003720 AAATAA-TTATT
1 AAATAATTTATT
* *
3003731 AAATAA-TCA-C
1 AAATAATTTATT
*
3003741 AAATAATTTGATA
1 AAATAATTT-ATT
3003754 AAATAATAATTATTT
1 AAATAAT--TTA-TT
3003769 AAATAATTTATT
1 AAATAATTTATT
3003781 AAATAATT
1 AAATAATT
3003789 ATAAAATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.13
11 9 0.19
12 11 0.23
13 10 0.21
14 1 0.02
15 10 0.21
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (12 bp):
AAATAATTTATT
Found at i:3004274 original size:28 final size:27
Alignment explanation
Indices: 3004220--3004275 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
3004210 ATTTTTAAAT
* *
3004220 ATATTTTAAAATAAATATTAATTATAA
1 ATATTTTAAAATAAAAATTAATCATAA
3004247 ATATTTTAAAAATAAAAAATTAA-CATAA
1 ATATTTT-AAAAT-AAAAATTAATCATAA
3004275 A
1 A
3004276 ATACGTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 10 0.40
29 8 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATTTTAAAATAAAAATTAATCATAA
Found at i:3004277 original size:29 final size:26
Alignment explanation
Indices: 3004215--3004278 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
3004205 GTTATATTTT
* *
3004215 TAAATATATTTTAAAATAAATATTAAT
1 TAAA-ATATTTTAAAATAAAAATTAAA
3004242 TATAAATATTTTAAAAATAAAAAATTAACA
1 TA-AAATATTTT-AAAAT-AAAAATTAA-A
3004272 TAAAATA
1 TAAAATA
3004279 CGTACAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 9 0.29
28 7 0.23
29 13 0.42
30 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAATATTTTAAAATAAAAATTAAA
Found at i:3014612 original size:20 final size:21
Alignment explanation
Indices: 3014569--3014615 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3014559 CATATTTTAA
*
3014569 TTTTTAAAAAGAGAATCGACC
1 TTTTTAAAAAGAGAATCGAAC
3014590 TTTTTAATAAA-AGAATC-AAC
1 TTTTTAA-AAAGAGAATCGAAC
3014610 TTTTTA
1 TTTTTA
3014616 GATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
TTTTTAAAAAGAGAATCGAAC
Found at i:3015476 original size:26 final size:25
Alignment explanation
Indices: 3015440--3015488 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
3015430 TTACTATATA
*
3015440 TGTTTTGACTCAATATTAATTTCATT
1 TGTTTCGACTCAATATT-ATTTCATT
*
3015466 TGTTTCGACTCGATATTATTTCA
1 TGTTTCGACTCAATATTATTTCA
3015489 ATATAATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (25 bp):
TGTTTCGACTCAATATTATTTCATT
Found at i:3018253 original size:20 final size:20
Alignment explanation
Indices: 3018223--3018277 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
3018213 TAACTAGATG
* **
3018223 AATGCATCGATACATTCATC
1 AATGTATCGATACATTCAAA
* * *
3018243 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
3018263 AATGTATCGATACAT
1 AATGTATCGATACAT
3018278 CTAGGTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:3019125 original size:28 final size:28
Alignment explanation
Indices: 3019081--3020308 Score: 698
Period size: 28 Copynumber: 44.2 Consensus size: 28
3019071 GAGAAAGTTT
3019081 CCACTGACTTGTGTGGGCTTTAAAAGGATG
1 CCACTGAC-T-TGTGGGCTTTAAAAGGATG
* * **
3019111 CCAATGACTCGTGGGCTTTGGAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* **
3019139 ACACTGACTTGTGGG-TTTTGAAGAGATG
1 CCACTGACTTGTGGGCTTTAAAAG-GATG
* * *
3019167 CCACTAACTTGTGGACTTTGAAATGG-TG
1 CCACTGACTTGTGGGCTTT-AAAAGGATG
* * *
3019195 CTATTGACTTGTGGGCTTT-GAAGAGATG
1 CCACTGACTTGTGGGCTTTAAAAG-GATG
*
3019223 CCACTGACTTGTGGGCTTTAAAATGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
**
3019251 CCACTGACTCATGGGCTTTGAAAAGG-TG
1 CCACTGACTTGTGGGCTTT-AAAAGGATG
* * * * * *
3019279 CCAGTAACTTGTAGGCTATGAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
3019307 CCACTGA-TTCGTGGGCTTTGAAAAGGATG
1 CCACTGACTT-GTGGGCTTT-AAAAGGATG
*
3019336 CCACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * *
3019364 CCATTGACTTATGGGCTTT-GAAGAGATG
1 CCACTGACTTGTGGGCTTTAAAAG-GATG
* *
3019392 CCACTTACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3019420 TCAATGACTTATGGGCTATGAAAAGG-TG
1 CCACTGACTTGTGGGCT-TTAAAAGGATG
*
3019448 CCACTGACTTGTGGGCTATGAAAAGG-TG
1 CCACTGACTTGTGGGCT-TTAAAAGGATG
3019476 CCACTGACTTGTGGGCTATGT-AAAGG-TG
1 CCACTGACTTGTGGGCT-T-TAAAAGGATG
* *
3019504 CCACTGACTTGTAGGC-TTAGAAAAGATG
1 CCACTGACTTGTGGGCTTTA-AAAGGATG
*
3019532 CCACTAACTTGTGGG-TTTAAAA-GAGTG
1 CCACTGACTTGTGGGCTTTAAAAGGA-TG
*
3019559 CCACTGA-TTCATGGGCTTTGAAAAGGATG
1 CCACTGACTT-GTGGGCTTT-AAAAGGATG
*
3019588 CCACTGACTTGTGGGC-TTAGAAAAGATG
1 CCACTGACTTGTGGGCTTTA-AAAGGATG
** *
3019616 CCACCAACTTGTGGG-TTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
3019643 CCACTGA-TTCGTGGGCTTTGAAAAGGATG
1 CCACTGACTT-GTGGGCTTT-AAAAGGATG
* * *
3019672 CCACTAACTTGTGGGCTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* *
3019700 CCACTGACTTGTGGAC-TTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * *
3019727 CCA-TGGAGTTGTGGAC-TTAAAATGATG
1 CCACT-GACTTGTGGGCTTTAAAAGGATG
* *
3019754 CCACTGACTTGTGGGCTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
**** *
3019782 CCACTGACTTGAAAAC-TTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3019809 CCACGGAGTTGTGGAC-TTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * * * *
3019836 CCA-TGGAGTTATAGACATTAAAAGGGTG
1 CCACT-GACTTGTGGGCTTTAAAAGGATG
* * *
3019864 CCA-TAGAGTTGTGGTCTTTAAAAGGGTG
1 CCACT-GACTTGTGGGCTTTAAAAGGATG
* * * *
3019892 CCACGGAGTTGTGGACTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * * *
3019920 CCACGGAGTTATGGAC-TTAAAAGGTTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * * *
3019947 CTACAGAGTTGTGGACTTCAAAAGG-TG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * *
3019974 CTAC-GAAGC-TGTGGAC-CTAAAAGGATG
1 CCACTG-A-CTTGTGGGCTTTAAAAGGATG
* * * * *
3020001 CCACGGAGTTATGGAC-TTAAAAGGTTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3020028 CCACGGAGTTGTGGACTTAAAAAGGAATG
1 CCACTGACTTGTGGGCTTTAAAAGG-ATG
* * * * * *
3020057 CCACTAAATCGTGGACTTTGAAAGGTTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3020085 CCACGGAGTTGTGGAC-TTAAAAGGTTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * *
3020112 CCA-TAGAGTTGTGGAC-TTAAAAGGGTG
1 CCACT-GACTTGTGGGCTTTAAAAGGATG
* ** * *
3020139 CTAAGGAGTTGTGGACTTTAAAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * ** * *
3020167 CCACAGAGTTGT-GGAATTCAAAGGGTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3020194 CCA-AGAAGTTGTGGAC-TTAAAAAGATG
1 CCACTG-ACTTGTGGGCTTTAAAAGGATG
* * * *
3020221 CCA-TGACGTTGTGGAC-TTAAAAAGTTA
1 CCACTGAC-TTGTGGGCTTTAAAAGGATG
* * * *
3020248 CCACGGAGTTGTGGAC-TTAAAAGGTTG
1 CCACTGACTTGTGGGCTTTAAAAGGATG
* * * *
3020275 CCACGGAGTTGTGGACTTAAAAAGGAATG
1 CCACTGACTTGTGGGCTTTAAAAGG-ATG
3020304 CCACT
1 CCACT
3020309 AAATCGTGGA
Statistics
Matches: 977, Mismatches: 167, Indels: 109
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.00
26 20 0.02
27 342 0.35
28 485 0.50
29 112 0.11
30 17 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTAAAAGGATG
Found at i:3019738 original size:27 final size:27
Alignment explanation
Indices: 3019698--3020296 Score: 572
Period size: 27 Copynumber: 21.9 Consensus size: 27
3019688 TTTGAAATGA
* *
3019698 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
3019725 TGCCATGGAGTTGTGGACTTAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * * * *
3019752 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * ***
3019780 TGCCACTGACTTGAAAACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
3019807 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
3019834 TGCCATGGAGTTATAGACATTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** *
3019862 TGCCATAGAGTTGTGGTCTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
3019890 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
3019918 TGCCACGGAGTTATGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3019945 TGCTACAGAGTTGTGGACTTCAAAA-GG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* * * * *
3019972 TGCTACGAAGCTGTGGACCTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3019999 TGCCACGGAGTTATGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3020026 TGCCACGGAGTTGTGGACTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTT-AAAAGG-G
** * * * *
3020055 TGCCACTAAATCGTGGACTTTGAAAGGT
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
3020083 TGCCACGGAGTTGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
**
3020110 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
3020137 TGCTAAGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
3020165 TGCCACAGAGTTGTGGAATTCAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
3020192 TGCCAAGAAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
3020219 TGCCA-TGACGTTGTGGACTTAAAAAGT
1 TGCCACGGA-GTTGTGGACTTAAAAGGG
* *
3020246 TACCACGGAGTTGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
3020273 TGCCACGGAGTTGTGGACTTAAAA
1 TGCCACGGAGTTGTGGACTTAAAA
3020297 AGGAATGCCA
Statistics
Matches: 472, Mismatches: 90, Indels: 20
0.81 0.15 0.03
Matches are distributed among these distances:
26 5 0.01
27 302 0.64
28 144 0.31
29 19 0.04
30 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:3019958 original size:220 final size:217
Alignment explanation
Indices: 3019632--3020284 Score: 613
Period size: 220 Copynumber: 3.0 Consensus size: 217
3019622 ACTTGTGGGT
* * * *
3019632 TTAAAAGGGTGCCACTGA-TTCGTGGGCTTTGAAAAGGATGCCACTA-ACTTGTGGGCTTTGAAA
1 TTAAAAGGGTGCCA-TGAGTT-GTGGACTTT-AAAAGGATGCCAC-AGAGTTGTGGACTTTAAAA
* * * * * ** *
3019695 TGATGCCACTGACTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAATGATGCCACTG
62 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAA-GGTGCCAC-G
* * * ** *
3019760 -ACTTGTGGGCTTTGAAATGATGCCACTGACTTGAAAACTTAAAAGGGTGCCACGGAGTTGTGGA
125 AACTTGTGGAC-TTAAAAAGATGCCACTGACTTGAGGACTTAAAAGGTTGCCACGGAGTTGTGGA
*
3019824 CTTAAAAGGGTGCCATGGAGTTATAGACA
189 CTTAAAAGGATGCCATGGAGTTATAGACA
* * *
3019853 TTAAAAGGGTGCCATAGAGTTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGG
1 TTAAAAGGGTGCCAT-GAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGG
* * * *
3019918 TGCCACGGAGTTATGGACTTAAAAGGTTGCTACAGAGTTGTGGACTTCAAAAGGTGCTACGAAGC
65 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT-AAAAGGTGCCACGAA-C
* * * *
3019983 -TGTGGACCTAAAAGGATGCCACGGAGTT-ATGGACTTAAAAGGTTGCCACGGAGTTGTGGACTT
128 TTGTGGACTTAAAAAGATGCCACTGACTTGA-GGACTTAAAAGGTTGCCACGGAGTTGTGGACTT
* * ** * *
3020046 AAAAAGGAATGCCACT-AAATCGTGGACT
192 -AAAAGG-ATGCCA-TGGAGTTATAGACA
* * * * *
3020074 TTGAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCATAGAGTTGTGGAC-TTAAAAGGG
1 TTAAAAGGGTGCCA-TGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGG
* * * * * *
3020137 TGCTAAGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAATTCAAAGGGTGCCAAGAAG
65 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT-AAAAGGTGCCACGAAC
* * *
3020202 TTGTGGACTTAAAAAGATGCCA-TGACGTTGTGGACTTAAAAAGTTACCACGGAGTTGTGGACTT
128 TTGTGGACTTAAAAAGATGCCACTGAC-TTGAGGACTTAAAAGGTTGCCACGGAGTTGTGGACTT
* *
3020266 AAAAGGTTGCCACGGAGTT
192 AAAAGGATGCCATGGAGTT
3020285 GTGGACTTAA
Statistics
Matches: 354, Mismatches: 62, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
218 8 0.02
219 79 0.22
220 202 0.57
221 62 0.18
222 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (217 bp):
TTAAAAGGGTGCCATGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGGT
GCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGTGCCACGAACTTG
TGGACTTAAAAAGATGCCACTGACTTGAGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAA
GGATGCCATGGAGTTATAGACA
Found at i:3020011 original size:165 final size:162
Alignment explanation
Indices: 3019708--3020296 Score: 646
Period size: 165 Copynumber: 3.6 Consensus size: 162
3019698 TGCCACTGAC
* * * * * * *
3019708 TTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAATGATGCCACTGACTTGTGGGCTTT
1 TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-TT
* * * * * *** * *
3019773 GAAATGATGCCACTGACTTGAAAACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
65 AAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGATGCC
* *
3019838 ATGGAGTTATAGACATTAAAAGGGTGCCATAGAG
130 ACGGAGTTATGGACATTAAAAGGGTGCCA-AGAG
* * * *
3019872 TTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACT
1 TTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACT
* * * *
3019937 TAAAAGGTTGCTACAGAGTTGTGGACTTCAAAA-GGTGCTACGAAGCTGTGGACCTAAAAGGATG
64 TAAAAGGTTGCCACAGAGTTGTGGACTT-AAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGATG
* *
3020001 CCACGGAGTTATGGAC-TTAAAAGGTTGCCACGGAG
128 CCACGGAGTTATGGACATTAAAAGGGTGCCA-AGAG
** * * *
3020036 TTGTGGACTTAAAAAGGAATGCCACTAAATCGTGGACTTTGAAAGGTTGCCACGGAGTTGTGGAC
1 TTGTGGACTT-AAAAGG-ATGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGAC
* *
3020101 TTAAAAGGTTGCCATAGAGTTGTGGACTTAAAAGGGTGCTAAGGAGTTGTGGACTTTAAAAGGAT
63 TTAAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGAC-TTAAAAGGAT
* * *
3020166 GCCACAGAGTTGTGGA-ATTCAAAGGGTGCCAAGAAG
127 GCCACGGAGTTATGGACATTAAAAGGGTGCCAAG-AG
* * * *
3020202 TTGTGGACTTAAAAAGATGCCA-TGACGTTGTGGACTTAAAAAGTTACCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGATGCCACGGA-GTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTT
*
3020266 AAAAGGTTGCCACGGAGTTGTGGACTTAAAA
65 AAAAGGTTGCCACAGAGTTGTGGACTTAAAA
3020297 AGGAATGCCA
Statistics
Matches: 359, Mismatches: 56, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
163 59 0.16
164 53 0.15
165 175 0.49
166 72 0.20
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (162 bp):
TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTA
AAAGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGATGCCA
CGGAGTTATGGACATTAAAAGGGTGCCAAGAG
Found at i:3020134 original size:247 final size:249
Alignment explanation
Indices: 3019819--3020331 Score: 737
Period size: 247 Copynumber: 2.1 Consensus size: 249
3019809 CCACGGAGTT
* * * *
3019819 GTGGAC-TTAAAAGGGTGCCATGGAGTTATAGACATTAAAAGGGTGCCATAGAGTTGTGGTCTTT
1 GTGGACTTTGAAAGGTTGCCACGGAGTTATAGACATTAAAAGGGTGCCATAGAGTTGTGGACTTT
* * * * *
3019883 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGTTGC
66 AAAAGGGTGCCAAGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTATGGAATTAAAAGGGTGC
* * * * * *
3019948 TACAG-AGTTGTGGACTTCAAAAGGTGCTACGAAGCTGTGGACCTAAAAGGATGCCACGGAGTTA
131 CA-AGAAGTTGTGGACTTAAAAAGATGCCACGAAGCTGTGGACCTAAAAAGATACCACGGAGTTA
3020012 TGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACTAAATC
195 TGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACTAAATC
* * *
3020067 GTGGACTTTGAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCATAGAGTTGTGGAC-TT
1 GTGGACTTTGAAAGGTTGCCACGGAGTTATAGACATTAAAAGGGTGCCATAGAGTTGTGGACTTT
* * *
3020130 AAAAGGGTGCTAAGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAATTCAAAGGGTGC
66 AAAAGGGTGCCAAGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTATGGAATTAAAAGGGTGC
* * * * * *
3020195 CAAGAAGTTGTGGACTTAAAAAGATGCCATGACGTTGTGGACTTAAAAAGTTACCACGGAGTTGT
131 CAAGAAGTTGTGGACTTAAAAAGATGCCACGAAGCTGTGGACCTAAAAAGATACCACGGAGTTAT
3020260 GGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACTAAATC
196 GGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACTAAATC
3020314 GTGGACTTTGAAGAGGTT
1 GTGGACTTTGAA-AGGTT
3020332 ACACTACTAG
Statistics
Matches: 235, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
246 2 0.01
247 175 0.74
248 36 0.15
249 22 0.09
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (249 bp):
GTGGACTTTGAAAGGTTGCCACGGAGTTATAGACATTAAAAGGGTGCCATAGAGTTGTGGACTTT
AAAAGGGTGCCAAGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTATGGAATTAAAAGGGTGC
CAAGAAGTTGTGGACTTAAAAAGATGCCACGAAGCTGTGGACCTAAAAAGATACCACGGAGTTAT
GGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACTAAATC
Found at i:3023935 original size:19 final size:20
Alignment explanation
Indices: 3023891--3023983 Score: 109
Period size: 19 Copynumber: 4.8 Consensus size: 20
3023881 CTGCTAGTTT
**
3023891 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
3023911 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
* **
3023930 CATGTATCGATATAATTGTC
1 CATGTATCGATACAATTGAA
**
3023950 CATGTATATATACAA-TGAA
1 CATGTATCGATACAATTGAA
3023969 CATGTATCGATACAA
1 CATGTATCGATACAA
3023984 AGCATAATGT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
19 31 0.52
20 29 0.48
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:3023941 original size:39 final size:39
Alignment explanation
Indices: 3023891--3023983 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
3023881 CTGCTAGTTT
*
3023891 CATGTATCGATACAATTGTCCATGTATCGATACAATGAA
1 CATGTATCGATACAATTGTCCATGTATAGATACAATGAA
* *
3023930 CATGTATCGATATAATTGTCCATGTATATATACAATGAA
1 CATGTATCGATACAATTGTCCATGTATAGATACAATGAA
3023969 CATGTATCGATACAA
1 CATGTATCGATACAA
3023984 AGCATAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (39 bp):
CATGTATCGATACAATTGTCCATGTATAGATACAATGAA
Found at i:3024002 original size:39 final size:39
Alignment explanation
Indices: 3023891--3024002 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
3023881 CTGCTAGTTT
* * *
3023891 CATGTATCGATACAATTGTCCATGTATCGATACAATGAA
1 CATGTATCGATACAATAGTCAATGTATCAATACAATGAA
* * *
3023930 CATGTATCGATATAATTGTCCATGTAT-ATATACAATGAA
1 CATGTATCGATACAATAGTCAATGTATCA-ATACAATGAA
3023969 CATGTATCGATACAA-AG-CATAATGTATCAATACA
1 CATGTATCGATACAATAGTC--AATGTATCAATACA
3024003 TCTGGGTGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 61 0.95
40 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (39 bp):
CATGTATCGATACAATAGTCAATGTATCAATACAATGAA
Found at i:3031716 original size:21 final size:21
Alignment explanation
Indices: 3031683--3031727 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3031673 TTGCAAGATG
*
3031683 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3031705 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3031725 AAA
1 AAA
3031728 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3033551 original size:15 final size:15
Alignment explanation
Indices: 3033531--3033561 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3033521 TAAAAATGTC
*
3033531 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3033546 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3033561 C
1 C
3033562 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3035645 original size:20 final size:20
Alignment explanation
Indices: 3035574--3035653 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
3035564 AATGTCCAAA
*
3035574 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
3035594 GTGTATCGATACATTTGGAAATTCA
1 ATGTATCGATACATTT-----TTCT
3035619 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
3035639 TTGTATCGATACATT
1 ATGTATCGATACATT
3035654 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:3035657 original size:13 final size:13
Alignment explanation
Indices: 3035639--3035664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3035629 ACATTTTTCT
3035639 TTGTATCGATACA
1 TTGTATCGATACA
3035652 TTGTATCGATACA
1 TTGTATCGATACA
3035665 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3037502 original size:36 final size:36
Alignment explanation
Indices: 3037455--3037526 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
3037445 GTGCAAATAA
3037455 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
1 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
3037491 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
1 ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
3037527 TATTAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (36 bp):
ATTTTTGATATGAATTACTTGATTAAGGGGGAGAAT
Found at i:3037605 original size:38 final size:40
Alignment explanation
Indices: 3037550--3037629 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
3037540 GGGAGATAAA
* *
3037550 GGGGAGAATGCATAAA-TTGCTACAATTATCTT-ATTAAG
1 GGGGAGAATGCACAAATTTGCTAAAATTATCTTGATTAAG
* * *
3037588 GGGGAGAATGTACAAATTTGTTAAAATTATTTTGATTAAG
1 GGGGAGAATGCACAAATTTGCTAAAATTATCTTGATTAAG
3037628 GG
1 GG
3037630 AGAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 14 0.40
39 13 0.37
40 8 0.23
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (40 bp):
GGGGAGAATGCACAAATTTGCTAAAATTATCTTGATTAAG
Found at i:3038270 original size:13 final size:13
Alignment explanation
Indices: 3038252--3038277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3038242 TACACCAAGT
3038252 ATGTATCGATACA
1 ATGTATCGATACA
3038265 ATGTATCGATACA
1 ATGTATCGATACA
3038278 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3038275 original size:32 final size:33
Alignment explanation
Indices: 3038234--3038297 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3038224 TAGCCAAACT
* **
3038234 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
3038266 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3038298 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3041936 original size:13 final size:13
Alignment explanation
Indices: 3041918--3041947 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3041908 ACAATTCATT
3041918 ATGTATCGATACA
1 ATGTATCGATACA
3041931 ATGTATCGATACA
1 ATGTATCGATACA
3041944 ATGT
1 ATGT
3041948 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3041955 original size:33 final size:32
Alignment explanation
Indices: 3041896--3041964 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
3041886 CCCTTTAAAG
*
3041896 CAATGTATCGATACAATTCATTATGTATCGATA
1 CAATGTATCGATACAATTCA-CATGTATCGATA
3041929 CAATGTATCGATACAATGTGC-CATGTATCGATA
1 CAATGTATCGATACAAT-T-CACATGTATCGATA
3041962 CAA
1 CAA
3041965 ACAGGGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACAATTCACATGTATCGATA
Found at i:3043001 original size:28 final size:28
Alignment explanation
Indices: 3042967--3044071 Score: 719
Period size: 28 Copynumber: 39.8 Consensus size: 28
3042957 CACCGACTTG
* *
3042967 TGTGGGCTTTAAAAGGATGCCATTGTCT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
**
3042995 CATGGGCTTTAGAAA-GATGCCACTGACT
1 TGTGGGCTTTA-AAAGGATGCCACTGACT
* * ** *
3043023 CGTGAGCTTTGGAAGGATGCCCCTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* **
3043051 TATGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3043079 TGTGGGCTTT-GAAGAGATGCCACTAACT
1 TGTGGGCTTTAAAAG-GATGCCACTGACT
* * *
3043107 TGTGGGCTTTGAAAGGATGCTACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3043135 TGTAGGCTTTGAAAA-GATGCCACT-TCT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * * *
3043162 TATGGGCTTTGAAACGATGCCACTGAAT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3043190 CGTGGTCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * *
3043218 TGTGGGCTATGAAAGGGTGCCACTGA-T
1 TGTGGGCTTTAAAAGGATGCCACTGACT
*
3043245 TCGTGGGCTTTGAAAAAGATGCCACTGACT
1 T-GTGGGCTTT-AAAAGGATGCCACTGACT
*
3043275 TGTGGGCTTTGAAAA-GATGCCATTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
3043303 TATGGGCTTT-GAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAG-GATGCCACTGACT
3043331 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
** * *
3043359 TGTGGGCTACGAAATGG-TGCCACTAACT
1 TGTGGGCT-TTAAAAGGATGCCACTGACT
3043387 TGTGGGCTATGT-AAAGG-TGCCACTGACT
1 TGTGGGCT-T-TAAAAGGATGCCACTGACT
*
3043415 TGTGGGCTTGGAAAA-GATGCCACTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACT
* * *
3043443 TATGGGC-TTAGAAAAGATGCCATTGACT
1 TGTGGGCTTTA-AAAGGATGCCACTGACT
* * *
3043471 TGTGGGTTTTGAAAGGGTGCCACTGA-T
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
3043498 TCATGGGCTTTGAAAAAGATGCTACTGACT
1 T-GTGGGCTTT-AAAAGGATGCCACTGACT
* *
3043528 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
3043556 TGTGGGCTTTGAAATGATGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
3043584 TGTGGACTTAAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3043611 TGT-GGATTTAAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3043638 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
3043666 TGAGGAC-TTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * * *
3043693 TGT-GGATTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
3043720 TGTGGACTTTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * *
3043748 TGTGGACTTTAGAAAGG-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGATGCCACTGACT
* * *
3043776 TGTGGACTTTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
* * * *
3043804 TGTGGAC-TTAAAAGGTTGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
3043831 TATGGAC-TTCAAAGGGTGCCAC-GAAGC-
1 TGTGGGCTTTAAAAGGATGCCACTG-A-CT
* * *
3043858 TATGGAC-TTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * * **
3043885 TGTGGAC-TTAAAAGGTTACCAC-GGGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
3043911 TGTGGACTTAAAAAGGAATGCCACTAAAT
1 TGTGGGCTTTAAAAGG-ATGCCACTGACT
* * * * * *
3043940 CGTGGACTTTGAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
3043968 TGTGGAC-TTGAAAGGTTGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
3043995 TGTGGACTTAAAAAGG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
3044022 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
3044050 TGTGGACTTCAAAAGG-TGCCAC
1 TGTGGGCTTTAAAAGGATGCCAC
3044072 GAAGCTATGG
Statistics
Matches: 891, Mismatches: 138, Indels: 97
0.79 0.12 0.09
Matches are distributed among these distances:
26 27 0.03
27 245 0.27
28 526 0.59
29 89 0.10
30 4 0.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:3043613 original size:27 final size:27
Alignment explanation
Indices: 3043583--3044144 Score: 508
Period size: 27 Copynumber: 20.6 Consensus size: 27
3043573 TGCCATTGAC
*
3043583 TTGTGGACTTAAAAAAGTGCCACGGAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* * * * *
3043610 TTGTGGATTTAAAATGATGCCACTGAC
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* * * * * *
3043637 TTGTGGGCTTTGAAATGATGCCACTGAC
1 TTGTGGAC-TTAAAAAGGTGCCACGGAG
* * *
3043665 TTGAGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* * *
3043692 TTGTGGATTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* *
3043719 TTGTGGACTTTAAAAGGGTGCCATGGAG
1 TTGTGGAC-TTAAAAAGGTGCCACGGAG
*
3043747 TTGTGGACTTTAGAAAGGTGCCACGGAG
1 TTGTGGAC-TTAAAAAGGTGCCACGGAG
* *
3043775 TTGTGGACTTTAAAAGGGTGCCACGAAG
1 TTGTGGAC-TTAAAAAGGTGCCACGGAG
*
3043803 TTGTGGACTT-AAAAGGTTGCCACAGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
* * * *
3043830 TTATGGACTTCAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* * *
3043857 CTATGGACTT-AAAAGGATGCCATGGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
*
3043884 TTGTGGACTT-AAAAGGTTACCACGG-G
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
** *
3043910 TTGTGGACTTAAAAAGGAATGCCACTAAA
1 TTGTGGACTTAAAAAGG--TGCCACGGAG
* * *
3043939 TCGTGGACTTTGAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAAGGTGCCACGGAG
* *
3043967 TTGTGGACTT-GAAAGGTTGCCACAGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
3043994 TTGTGGACTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* *
3044021 TTGTGGACTTTAAAAGGATGCCACAGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
* *
3044049 TTGTGGACTTCAAAAGGTGCCACGAAG
1 TTGTGGACTTAAAAAGGTGCCACGGAG
* *
3044076 CTATGGACTT-AAAAGGATGCCACGGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
* * *
3044103 TTTTAGACTT-ATAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAAGG-TGCCACGGAG
3044130 TTGTGGACTTAAAAA
1 TTGTGGACTTAAAAA
3044145 AGAATGTCAC
Statistics
Matches: 442, Mismatches: 79, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
26 31 0.07
27 241 0.55
28 156 0.35
29 7 0.02
30 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TTGTGGACTTAAAAAGGTGCCACGGAG
Found at i:3043945 original size:55 final size:52
Alignment explanation
Indices: 3043583--3044143 Score: 480
Period size: 55 Copynumber: 10.3 Consensus size: 52
3043573 TGCCATTGAC
* * * * * *
3043583 TTGTGGACTTAAAA-AAGTGCCACGGAGTTGTGGATTTAAAATGATGCCACTGAC
1 TTGTGGACTTAAAAGGA-TGCCAC-AAGTTGTGGACTTAAAA-GGTGCCACGGAG
* * * * * * *
3043637 TTGTGGGCTTTGAAATGATGCCACTGACTTGAGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGAC-TTAAAAGGATGCCAC-AAGTTGTGGACTTAAAA-GGTGCCACGGAG
* * *
3043692 TTGTGGATTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGATGCCACA-AGTTGTGGAC-TTAAAA-GGTGCCACGGAG
* *
3043747 TTGTGGACTTTAGAAAGG-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGAAG
1 TTGTGGAC-TTA-AAAGGATGCCAC-AAGTTGTGGAC-TTAAAA-GGTGCCACGGAG
* * * *
3043803 TTGTGGACTTAAAAGGTTGCCACAGAGTTATGGACTTCAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAGGATGCCACA-AGTTGTGGACTT-AAAAGGTGCCACGGAG
* * ** *
3043857 CTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGTTACCACGG-G
1 TTGTGGACTTAAAAGGATGCCA-CAAGTTGTGGACTTAAAAGG-TGCCACGGAG
* * *
3043910 TTGTGGACTTAAAAAGGAATGCCACTAAATCGTGGACTTTGAAAGGGTGCCACGGAG
1 TTGTGGACTT-AAAAGG-ATGCCAC-AAGTTGTGGAC-TT-AAAAGGTGCCACGGAG
* *
3043967 TTGTGGACTTGAAAGGTTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACA-AGTTGTGGACTT-AAAAGGTGCCACGGAG
*
3044021 TTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTCAAAAGGTGCCACGAAG
1 TTGTGGAC-TTAAAAGGATGCCACA-AGTTGTGGACTT-AAAAGGTGCCACGGAG
* * * * * *
3044076 CTATGGACTTAAAAGGATGCCACGGAGTTTTAGACTTATAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCAC-AAGTTGTGGACTTAAAAGG-TGCCACGGAG
3044130 TTGTGGACTTAAAA
1 TTGTGGACTTAAAA
3044144 AAGAATGTCA
Statistics
Matches: 422, Mismatches: 63, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
53 19 0.05
54 160 0.38
55 162 0.38
56 60 0.14
57 21 0.05
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (52 bp):
TTGTGGACTTAAAAGGATGCCACAAGTTGTGGACTTAAAAGGTGCCACGGAG
Found at i:3044036 original size:219 final size:221
Alignment explanation
Indices: 3043653--3044172 Score: 748
Period size: 219 Copynumber: 2.4 Consensus size: 221
3043643 GCTTTGAAAT
* * * * * * *
3043653 GATGCCACTGACTTGAGGACTTAAAAGGGTGCCATGGAGTTGTGGA-TTTAAAAGG-GTGCCAC-
1 GATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACT
* * * *
3043715 AGAGTTGTGGACTTTAAAAGGGTGCCATGGAGTTGTGGACTTTAGAAAGGTGCCACGGAGTTGTG
66 A-AATTGTGGACTTTGAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGGTGCCACAGAGTTGTG
* * *
3043780 GACTTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCACAGAGTTATGGACTTCAAAG
130 GACTTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTCAAAA
3043845 GGTGCCACGAAGCTATGGACTTAAAAG
195 GGTGCCACGAAGCTATGGACTTAAAAG
* *
3043872 GATGCCATGGAGTTGTGGACTTAAAAGGTTACCACGG-GTTGTGGACTTAAAAAGGAATGCCACT
1 GATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACT
*
3043936 AAATCGTGGACTTTGAAAGGGTGCCACGGAGTTGTGGAC-TT-GAAAGGTTGCCACAGAGTTGTG
66 AAATTGTGGACTTTGAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGG-TGCCACAGAGTTGTG
* *
3043999 GAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTCAAA
130 GACTTTAAAAAGGTGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTATGGACTTCAAA
3044063 AGGTGCCACGAAGCTATGGACTTAAAAG
194 AGGTGCCACGAAGCTATGGACTTAAAAG
* * * * *
3044091 GATGCCACGGAGTTTTAGACTTATAAGGTTGCCACGGAGTTGTGGACTTAAAAAAGAATGTCACT
1 GATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACT
3044156 AAATTGTGGACTTTGAA
66 AAATTGTGGACTTTGAA
3044173 GAGGTTACAC
Statistics
Matches: 268, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
218 39 0.15
219 147 0.55
220 81 0.30
221 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (221 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGAATGCCACT
AAATTGTGGACTTTGAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGGTGCCACAGAGTTGTGG
ACTTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTCAAAAG
GTGCCACGAAGCTATGGACTTAAAAG
Found at i:3044055 original size:82 final size:81
Alignment explanation
Indices: 3043583--3044143 Score: 594
Period size: 82 Copynumber: 6.9 Consensus size: 81
3043573 TGCCATTGAC
* * * * *
3043583 TTGTGGACTTAAAAAAGTGCCACGGAGTTGTGGA-TTTAAAATGATGCCACTGACTTGTGGGCTT
1 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-T
* * * *
3043647 TGAAATGATGCCACTGAC
65 TAAAAGGTTGCCAC-GAG
* * * * *
3043665 TTGAGGACTTAAAAGGGTGCCATGGAGTTGTGGA-TTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-T
* *
3043729 TAAAAGGGTGCCATGGAG
65 TAAAAGGTTGCCA-CGAG
* * *
3043747 TTGTGGACTTTAGAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACT
1 TTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
3043812 TAAAAGGTTGCCACAGAG
65 TAAAAGGTTGCCAC-GAG
* * * * * * *
3043830 TTATGGACTTCAAAGGGTGCCACGAAGCTATGGAC-TTAAAAGGATGCCATGGAGTTGTGGACTT
1 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* *
3043894 AAAAGGTTACCACGGG
66 AAAAGGTTGCCACGAG
** * * * *
3043910 TTGTGGACTTAAAAAGGAATGCCACTAAATCGTGGACTTTGAAAGGGTGCCACGGAGTTGTGGAC
1 TTGTGGACTTAAAAAGG--TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
*
3043975 TTGAAAGGTTGCCACAGAG
64 TTAAAAGGTTGCCAC-GAG
*
3043994 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTT
1 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
3044059 CAAAAGG-TGCCACGAAG
66 -AAAAGGTTGCCACG-AG
* * * * * *
3044076 CTATGGACTT-AAAAGGATGCCACGGAGTTTTAGAC-TTATAAGGTTGCCACGGAGTTGTGGACT
1 TTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
3044139 TAAAA
65 TAAAA
3044144 AAGAATGTCA
Statistics
Matches: 405, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
80 20 0.05
81 71 0.18
82 181 0.45
83 88 0.22
84 45 0.11
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (81 bp):
TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
AAAAGGTTGCCACGAG
Done.