Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 68 of 132
Found at i:19425271 original size:37 final size:37
Alignment explanation
Indices: 19425214--19425290 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
19425204 TTATTAGTTT
* *
19425214 TTTCTATTTTTAATTATTTTTTACAATA-TTTTACAA
1 TTTCTATTTTTAAATATTTTTGACAATATTTTTACAA
* *
19425250 TTTCTAATTTTTATAAT-TTTTTGATAGTATTTTTACAA
1 TTTCT-ATTTTTA-AATATTTTTGACAATATTTTTACAA
19425288 TTT
1 TTT
19425291 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 5 0.15
37 16 0.47
38 13 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTCTATTTTTAAATATTTTTGACAATATTTTTACAA
Found at i:19425672 original size:22 final size:22
Alignment explanation
Indices: 19425647--19425688 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19425637 TCATCCTATC
*
19425647 CAGATCTATT-TTTATTTTGAGT
1 CAGAT-TATTCTTTATATTGAGT
19425669 CAGATTATTCTTTATATTGA
1 CAGATTATTCTTTATATTGA
19425689 TTTAATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (22 bp):
CAGATTATTCTTTATATTGAGT
Found at i:19427194 original size:16 final size:16
Alignment explanation
Indices: 19427158--19427196 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19427148 ATAAAAATAT
19427158 AATTTTATTATTTTAA
1 AATTTTATTATTTTAA
*
19427174 TATTTTA-TATTTTATA
1 AATTTTATTATTTTA-A
19427190 AATTTTA
1 AATTTTA
19427197 AATAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTATTATTTTAA
Found at i:19429594 original size:17 final size:17
Alignment explanation
Indices: 19429572--19429612 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
19429562 AATAAACATG
19429572 TAATTTTATTAT-TTTAA
1 TAATTTTA-TATCTTTAA
19429589 TAA-TTTATATCTTTAA
1 TAATTTTATATCTTTAA
*
19429605 AAATTTTA
1 TAATTTTA
19429613 AATAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTTTATATCTTTAA
Found at i:19429640 original size:26 final size:24
Alignment explanation
Indices: 19429574--19429636 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
19429564 TAAACATGTA
*
19429574 ATTTTATTATTTT-AATAATTTAT
1 ATTTTATTATTTTAAATAAGTTAT
**
19429597 ATCTTTAAAAATTTTAAATAAGTTATT
1 AT-TTT-ATTATTTTAAATAAGTTA-T
19429624 ATTTTATTATTTT
1 ATTTTATTATTTT
19429637 TAAAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.06
24 3 0.10
25 12 0.39
26 11 0.35
27 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTATTATTTTAAATAAGTTAT
Found at i:19429650 original size:34 final size:35
Alignment explanation
Indices: 19429592--19429690 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 35
19429582 ATTTTAATAA
* * *
19429592 TTTA-TATCTTTAAAAATTTTAAATA-AGTTATTAT
1 TTTATTATATTTAAAAATTTAAAATATAATT-TTAT
*
19429626 TTTATTATTTTTAAAAA-TTAAAATATAATTTTAT
1 TTTATTATATTTAAAAATTTAAAATATAATTTTAT
*
19429660 TATTATTA-ATTTAAAATTTTATAAATTATAA
1 T-TTATTATATTTAAAAATTTA-AAA-TATAA
19429691 AAAATTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
34 23 0.43
35 23 0.43
36 3 0.06
37 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (35 bp):
TTTATTATATTTAAAAATTTAAAATATAATTTTAT
Found at i:19429666 original size:35 final size:34
Alignment explanation
Indices: 19429600--19429685 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
19429590 AATTTATATC
* * *
19429600 TTTAAAAATTTTAAATAAGTTATTATTTTATTATT
1 TTTAAAAATTTAAAATAAATTATTATTTTATTA-A
19429635 TTTAAAAA-TTAAAATATAATT-TTATTATTATTAA
1 TTTAAAAATTTAAAATA-AATTATTATT-TTATTAA
*
19429669 TTTAAAATTTTATAAAT
1 TTTAAAAATTTA-AAAT
19429686 TATAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 19 0.44
35 20 0.47
36 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TTTAAAAATTTAAAATAAATTATTATTTTATTAA
Found at i:19430249 original size:9 final size:9
Alignment explanation
Indices: 19430222--19430261 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
19430212 AAAATTTACG
19430222 AATAATTTT
1 AATAATTTT
*
19430231 ATATATTTTT
1 A-ATAATTTT
19430241 AATAATTTT
1 AATAATTTT
*
19430250 AATGATTTT
1 AATAATTTT
19430259 AAT
1 AAT
19430262 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
AATAATTTT
Found at i:19431605 original size:37 final size:37
Alignment explanation
Indices: 19431555--19431642 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
19431545 GCTATTGGGA
*
19431555 GTTGCGATATTAAAACAACGAACTCAAATAAACTTAG
1 GTTGCGATCTTAAAACAACGAACTCAAATAAACTTAG
* *
19431592 GTTGCGATCTTAAAACAGCGTACTCAAATAAACTTAG
1 GTTGCGATCTTAAAACAACGAACTCAAATAAACTTAG
*
19431629 GTTGTGATCTTAAA
1 GTTGCGATCTTAAA
19431643 TCAGCTAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (37 bp):
GTTGCGATCTTAAAACAACGAACTCAAATAAACTTAG
Found at i:19431701 original size:104 final size:104
Alignment explanation
Indices: 19431593--19431798 Score: 277
Period size: 104 Copynumber: 2.0 Consensus size: 104
19431583 TAAACTTAGG
* ** * *
19431593 TTGCGATCTTAAAACAGCGTACTCAAATAAACTTAGGTTGTGATCTTAAATCAGCTAACCTTAAT
1 TTGCGATCTTAAAACAGCGAACTCAAATAAACTTAAATTGCGATCTTAAATCAACTAACCTTAAT
* * * * **
19431658 AGTATTAATTGTGAACATAGGTCAACGAGCTGTTAGAGA
66 AATATAAATGGCGAACATAAATCAACGAGCTGTTAGAGA
* *
19431697 TTGCGATCTTAAATCAGCGAACTCAAATAAATTTAAATTGCGATCTTAAATCAACTAACCTTAAT
1 TTGCGATCTTAAAACAGCGAACTCAAATAAACTTAAATTGCGATCTTAAATCAACTAACCTTAAT
* *
19431762 AATATAAATGGCGATCTTAAATCAACGAGCTGTTAGA
66 AATATAAATGGCGAACATAAATCAACGAGCTGTTAGA
19431799 ATACCCAATG
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 87 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (104 bp):
TTGCGATCTTAAAACAGCGAACTCAAATAAACTTAAATTGCGATCTTAAATCAACTAACCTTAAT
AATATAAATGGCGAACATAAATCAACGAGCTGTTAGAGA
Found at i:19431709 original size:141 final size:141
Alignment explanation
Indices: 19431453--19431746 Score: 358
Period size: 141 Copynumber: 2.1 Consensus size: 141
19431443 ATTTGGAGGC
* ** *
19431453 TGCGATTTTAAATTAGCGAACTCAAATAAACTTAGGTTGCGATCTTAAATCATCTAACCTTAATA
1 TGCGATCTTAAAACAGCGAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATA
* * * * *
19431518 ATATCAGCTATGAACGTAGGCTAGCGGGCTATTGGGAGTTGCGATATTAAAACAACGAACTCAAA
66 ATATCAACTATGAACATAGGCTAACGAGCTATTGAGAGTTGCGATATTAAAACAACGAACTCAAA
**
19431583 TAAACTTAGGT
131 TAAACTTAAAT
* *
19431594 TGCGATCTTAAAACAGCGTACTCAAATAAACTTAGGTTGTGATCTTAAATCAGCTAACCTTAATA
1 TGCGATCTTAAAACAGCGAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATA
* * * * * * * *
19431659 GTATTAATTGTGAACATAGG-TCAACGAGCTGTT-AGAGATTGCGATCTTAAATCAGCGAACTCA
66 ATATCAACTATGAACATAGGCT-AACGAGCTATTGAGAG-TTGCGATATTAAAACAACGAACTCA
*
19431722 AATAAATTTAAAT
129 AATAAACTTAAAT
19431735 TGCGATCTTAAA
1 TGCGATCTTAAA
19431747 TCAACTAACC
Statistics
Matches: 129, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
140 4 0.03
141 125 0.97
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (141 bp):
TGCGATCTTAAAACAGCGAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATA
ATATCAACTATGAACATAGGCTAACGAGCTATTGAGAGTTGCGATATTAAAACAACGAACTCAAA
TAAACTTAAAT
Found at i:19431746 original size:37 final size:36
Alignment explanation
Indices: 19431696--19431789 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
19431686 GCTGTTAGAG
* *
19431696 ATTGCGATCTTAAATCAGCGAA-CTCAAATAAATTTAA
1 ATTGCGATCTTAAATCAACGAACCT-AAAT-AATATAA
* *
19431733 ATTGCGATCTTAAATCAACTAACCTTAATAATATAA
1 ATTGCGATCTTAAATCAACGAACCTAAATAATATAA
*
19431769 ATGGCGATCTTAAATCAACGA
1 ATTGCGATCTTAAATCAACGA
19431790 GCTGTTAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
36 25 0.50
37 23 0.46
38 2 0.04
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (36 bp):
ATTGCGATCTTAAATCAACGAACCTAAATAATATAA
Found at i:19434143 original size:28 final size:28
Alignment explanation
Indices: 19434100--19434246 Score: 163
Period size: 28 Copynumber: 5.2 Consensus size: 28
19434090 TCGTTTACAG
* *
19434100 ACAAAGGC-TCCTTTTAA-AAGGATCAGCC
1 ACAAAGGCTTCC-TTTAACAA-AATCAACC
*
19434128 ACGAAGGCTTCCTTTAACAAAATCAACC
1 ACAAAGGCTTCCTTTAACAAAATCAACC
** *
19434156 ACAAAGATTTCCTTTAACAATATCAACC
1 ACAAAGGCTTCCTTTAACAAAATCAACC
* *
19434184 ACAAATGCTTCCTTTAACAGAATCAACC
1 ACAAAGGCTTCCTTTAACAAAATCAACC
* * *
19434212 AAAAAGTCTTCCTTTAACAAAATCAGCC
1 ACAAAGGCTTCCTTTAACAAAATCAACC
19434240 ACAAAGG
1 ACAAAGG
19434247 TAGTTCCCTT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
28 93 0.95
29 5 0.05
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (28 bp):
ACAAAGGCTTCCTTTAACAAAATCAACC
Found at i:19434381 original size:27 final size:27
Alignment explanation
Indices: 19434318--19434417 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
19434308 CAAAGGTATT
* * *
19434318 CCACAAAGACACATTTTAAACGAAAACAA
1 CCACAAAGACTCACTTTACA-G-AAACAA
* *
19434347 CAATAAAGACTCACTTTACA-AAGACAA
1 CCACAAAGACTCACTTTACAGAA-ACAA
* *
19434374 CCACAAAGACTTACTTTATAGAAACAA
1 CCACAAAGACTCACTTTACAGAAACAA
*
19434401 CCATAAA-AGCTCACTTT
1 CCACAAAGA-CTCACTTT
19434418 TACGAAAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.05
27 37 0.65
28 2 0.04
29 15 0.26
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (27 bp):
CCACAAAGACTCACTTTACAGAAACAA
Found at i:19434424 original size:27 final size:27
Alignment explanation
Indices: 19434341--19434424 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
19434331 TTTTAAACGA
* *
19434341 AAACAACAATAAAGACTCAC-TTTACA
1 AAACAACCATAAAGACTCACTTTTACG
* *
19434367 AAGACAACCACAAAGACTTACTTTATA-G
1 AA-ACAACCATAAAGACTCACTTT-TACG
19434395 AAACAACCATAAA-AGCTCACTTTTACG
1 AAACAACCATAAAGA-CTCACTTTTACG
19434422 AAA
1 AAA
19434425 ATTGGTGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
26 5 0.11
27 36 0.77
28 4 0.09
29 2 0.04
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (27 bp):
AAACAACCATAAAGACTCACTTTTACG
Found at i:19443154 original size:26 final size:26
Alignment explanation
Indices: 19443125--19443209 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
19443115 CTAGACCTAC
*
19443125 TCATACAGTGATAACTCTGGACATGT
1 TCATACAGTGATAATTCTGGACATGT
** * *
19443151 TCATGTAGCGATAATTCTGGACAAGTT
1 TCATACAGTGATAATTCTGGACATG-T
* * * *
19443178 TC-TGCAGTGAAAATTCTGAACATGC
1 TCATACAGTGATAATTCTGGACATGT
19443203 TCATACA
1 TCATACA
19443210 ACGACATTAG
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
25 2 0.04
26 40 0.89
27 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TCATACAGTGATAATTCTGGACATGT
Found at i:19444456 original size:17 final size:16
Alignment explanation
Indices: 19444434--19444472 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
19444424 GCATGGTGCT
19444434 TTTTCTTCTTTCTCTTC
1 TTTTCTTCTTT-TCTTC
19444451 TTTTCTTCTTTTCTTC
1 TTTTCTTCTTTTCTTC
*
19444467 CTTTCT
1 TTTTCT
19444473 GTGCTTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCTTCTTTTCTTC
Found at i:19444459 original size:8 final size:8
Alignment explanation
Indices: 19444434--19444472 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
19444424 GCATGGTGCT
19444434 TTTTCTTC
1 TTTTCTTC
19444442 TTTCTCTTC
1 TTT-TCTTC
19444451 TTTTCTTC
1 TTTTCTTC
19444459 TTTTCTTC
1 TTTTCTTC
*
19444467 CTTTCT
1 TTTTCT
19444473 GTGCTTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTCTTC
Found at i:19453007 original size:30 final size:30
Alignment explanation
Indices: 19452967--19453162 Score: 141
Period size: 30 Copynumber: 6.6 Consensus size: 30
19452957 TGAGACTTTT
* * *
19452967 GGGGATAAAATGTAACTTTGGAAAAATTTA
1 GGGGTTAAAATGCAATTTTGGAAAAATTTA
* * * *
19452997 GGGGTCAAAATGCAATTTTAGAAAACTGTA
1 GGGGTTAAAATGCAATTTTGGAAAAATTTA
*** * *
19453027 -GGGTTAAAATGTGTTTTTTGAAAAGTTTA
1 GGGGTTAAAATGCAATTTTGGAAAAATTTA
*
19453056 GGGGTTAAAATGCAATTTTGGAAAGA-TTA
1 GGGGTTAAAATGCAATTTTGGAAAAATTTA
*
19453085 GGGTTTAAAATGCAATTTT--AAGAAAGTTTA
1 GGGGTTAAAATGCAATTTTGGAA-AAA-TTTA
** * **
19453115 -GGGTTAAAATGTGATTTTAGAAAAGCTTA
1 GGGGTTAAAATGCAATTTTGGAAAAATTTA
* * *
19453144 AGAGTTAAAATGTAATTTT
1 GGGGTTAAAATGCAATTTT
19453163 AAGAAAGTTT
Statistics
Matches: 130, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 61 0.47
30 63 0.48
31 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (30 bp):
GGGGTTAAAATGCAATTTTGGAAAAATTTA
Found at i:19453035 original size:29 final size:28
Alignment explanation
Indices: 19452989--19453194 Score: 137
Period size: 29 Copynumber: 7.0 Consensus size: 28
19452979 TAACTTTGGA
* *
19452989 AAAATTTAGGGGTCAAAATGCAATTTTAG
1 AAAACTTA-GGGTTAAAATGCAATTTTAG
*** *
19453018 AAAACTGTAGGGTTAAAATGTGTTTTTTG
1 AAAACT-TAGGGTTAAAATGCAATTTTAG
* *
19453047 AAAAGTTTAGGGGTTAAAATGCAATTTTGG
1 AAAA-CTTA-GGGTTAAAATGCAATTTTAG
19453077 AAAGA-TTAGGGTTTAAAATGCAATTTTAAG
1 AAA-ACTTAGGG-TTAAAATGCAATTTT-AG
** **
19453107 AAAGTTTAGGGTTAAAATGTGATTTTAG
1 AAAACTTAGGGTTAAAATGCAATTTTAG
* *
19453135 AAAAGCTTAAGAGTTAAAATGTAATTTTAAG
1 AAAA-CTT-AGGGTTAAAATGCAATTTT-AG
** * *
19453166 AAAGTTTGAGGG-TAAAATGTAACTTTAG
1 AAAACTT-AGGGTTAAAATGCAATTTTAG
19453194 A
1 A
19453195 GAAGTTCGAG
Statistics
Matches: 143, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
28 11 0.08
29 72 0.50
30 54 0.38
31 6 0.04
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.34
Consensus pattern (28 bp):
AAAACTTAGGGTTAAAATGCAATTTTAG
Found at i:19453162 original size:59 final size:59
Alignment explanation
Indices: 19452972--19453194 Score: 210
Period size: 59 Copynumber: 3.8 Consensus size: 59
19452962 CTTTTGGGGA
* *
19452972 TAAAATGTAACTTTGGAA-AAA-TTTAGGGGTCAAAATGCAATTTTAGAAAA-CTGTAGGGT
1 TAAAATGTAA-TTT-TAAGAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGCT-TAGGGT
* ** * *
19453031 TAAAATGT-GTTTTTTGAAAAGTTTAGGGGTTAAAATGCAATTTT-GGAAAGATTAGGGTT
1 TAAAATGTAATTTTAAG-AAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGCTTAGGG-T
* ** *
19453090 TAAAATGCAATTTTAAGAAAGTTTA-GGGTTAAAATGTGATTTTAGAAAAGCTTAAGAGT
1 TAAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGCTT-AGGGT
* *
19453149 TAAAATGTAATTTTAAGAAAGTTT-GAGGG-TAAAATGTAACTTTAGA
1 TAAAATGTAATTTTAAGAAAGTTTAG-GGGTTAAAATGCAATTTTAGA
19453195 GAAGTTCGAG
Statistics
Matches: 135, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
57 3 0.02
58 28 0.21
59 93 0.69
60 11 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.35
Consensus pattern (59 bp):
TAAAATGTAATTTTAAGAAAGTTTAGGGGTTAAAATGCAATTTTAGAAAAGCTTAGGGT
Found at i:19456998 original size:10 final size:10
Alignment explanation
Indices: 19456983--19457033 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
19456973 TTTTGAAACC
19456983 AAGAAAAAAG
1 AAGAAAAAAG
*
19456993 AAGAAAAAAAA
1 AAG-AAAAAAG
19457004 AAGAAAAAAAG
1 AAG-AAAAAAG
19457015 AA-AAAGAAAG
1 AAGAAA-AAAG
19457025 AA-AAAAAAG
1 AAGAAAAAAG
19457034 GAAAGTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.19
10 12 0.32
11 18 0.49
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:19457005 original size:14 final size:14
Alignment explanation
Indices: 19456986--19457032 Score: 69
Period size: 14 Copynumber: 3.3 Consensus size: 14
19456976 TGAAACCAAG
19456986 AAAAAAGAAGAAAA
1 AAAAAAGAAGAAAA
19457000 AAAAAAGAA-AAAA
1 AAAAAAGAAGAAAA
19457013 AGAAAAAGAAAGAAAA
1 A-AAAAAG-AAGAAAA
19457029 AAAA
1 AAAA
19457033 GGAAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.17
14 15 0.50
15 5 0.17
16 5 0.17
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAGAAAA
Found at i:19457037 original size:10 final size:9
Alignment explanation
Indices: 19456983--19457033 Score: 66
Period size: 10 Copynumber: 5.3 Consensus size: 9
19456973 TTTTGAAACC
19456983 AAGAAAAAA
1 AAGAAAAAA
19456992 GAAGAAAAAA
1 -AAGAAAAAA
*
19457002 AAAAGAAAAA
1 AAGA-AAAAA
19457012 AAGAAAAAGA
1 AAGAAAAA-A
19457022 AAGAAAAAA
1 AAGAAAAAA
19457031 AAG
1 AAG
19457034 GAAAGTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 11 0.30
10 26 0.70
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:19457037 original size:14 final size:14
Alignment explanation
Indices: 19456986--19457038 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
19456976 TGAAACCAAG
19456986 AAAAAAG-AAGAAAA
1 AAAAAAGAAAG-AAA
19457000 AAAAAAGAAA-AAA
1 AAAAAAGAAAGAAA
19457013 AGAAAAAGAAAGAAA
1 A-AAAAAGAAAGAAA
*
19457028 AAAAAGGAAAG
1 AAAAAAGAAAG
19457039 TTAAGACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 4 0.11
14 25 0.71
15 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:19457894 original size:10 final size:10
Alignment explanation
Indices: 19457879--19457927 Score: 62
Period size: 11 Copynumber: 4.6 Consensus size: 10
19457869 AAATTTCACC
19457879 AAAAAAAAAG
1 AAAAAAAAAG
19457889 AAAAAAAAGAAG
1 -AAAAAAA-AAG
*
19457901 AAAAAAGAAG
1 AAAAAAAAAG
19457911 AAAATAAAAAG
1 AAAA-AAAAAG
19457922 AAAAAA
1 AAAAAA
19457928 GAGTGGTCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 9 0.26
11 22 0.65
12 3 0.09
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:19457906 original size:21 final size:21
Alignment explanation
Indices: 19457879--19457929 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
19457869 AAATTTCACC
*
19457879 AAAAAAAAAGAAAAAAAAGAAG
1 AAAAAAGAAGAAAAAAAA-AAG
*
19457901 AAAAAAGAAGAAAATAAAAAG
1 AAAAAAGAAGAAAAAAAAAAG
19457922 AAAAAAGA
1 AAAAAAGA
19457930 GTGGTCGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAGAAAAAAAAAAG
Found at i:19458874 original size:13 final size:13
Alignment explanation
Indices: 19458856--19458880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19458846 AAGGAAACAC
19458856 GAAAAGATGAGGG
1 GAAAAGATGAGGG
19458869 GAAAAGATGAGG
1 GAAAAGATGAGG
19458881 TCATAATGGC
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:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (13 bp):
GAAAAGATGAGGG
Found at i:19459183 original size:39 final size:38
Alignment explanation
Indices: 19459127--19459771 Score: 548
Period size: 39 Copynumber: 16.6 Consensus size: 38
19459117 TAGTCAGTCA
* *
19459127 ATCTCTTACCCCAATCATGGTGCAGATTGCAACCATCCG
1 ATCTCTTACCCCGATCATGG-GCAGATTACAACCATCCG
* * ** *
19459166 ATCTCTTACCCCGATCATGAGGTAGATCACAGTCATCCA
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCATCCG
* **
19459205 ATCTCTTACCCCGATCATGAGACAGATTGTAACCATCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCATCCG
** *
19459244 ATCTCTTACCCCGATCATGGGGCAGATTGTAACCATCTG
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCATCCG
* * * ** *
19459283 ATCTCATACCCCGACCATGAGGCAGATCACAGTCAGT-CA
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCA-TCCG
* *
19459322 ATCTCTTACCCCGACCATGAGGCAGATTGCAACCATCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCATCCG
* * *
19459361 ATCTCTTACCCCGATCATGAGGCAGATCACAATCAGT-CA
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCA-TCCG
*
19459400 ATCTCTTACCCCGATCATGAGGCAGATTACAACCATTCG
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCATCCG
* * * * * *
19459439 ATCTCTTACCTCGATCATGGGGCATATCACAGTCAAT-CA
1 ATCTCTTACCCCGATCAT-GGGCAGATTACA-ACCATCCG
19459478 ATCTCTTACCCCGATCATGGGGCAGATTACAACCATCCG
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCATCCG
* * * *
19459517 ATCTCTTACCCCGATCATGGGGCAGGTCACAGCCAGTCAG
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCA-TCCG
* **
19459557 -TCTCTTA-CCCGATCATGGGGCAGATTGCAACCATTTG
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCATCCG
* * * * *
19459594 ATCTCTTACCCCGATCATGAGGTATATTACAGTCAAT-CA
1 ATCTCTTACCCCGATCATG-GGCAGATTACA-ACCATCCG
* * *
19459633 ATCTCTTACCCCGATCATGGGGCAGATTGCAACTATCCAA
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCATCC-G
* ** *
19459673 ATCTCTTACCCCGATCATGGGGCAGATCACAGTCAGT-CA
1 ATCTCTTACCCCGATCAT-GGGCAGATTACAACCA-TCCG
** *
19459712 ATCTCTTACCCCGATCATGAGGCAGATTGTAATCATCCG
1 ATCTCTTACCCCGATCATG-GGCAGATTACAACCATCCG
*
19459751 ATCTTTTACCCCGATCATGGG
1 ATCTCTTACCCCGATCATGGG
19459772 GCTACCCGAT
Statistics
Matches: 500, Mismatches: 85, Indels: 43
0.80 0.14 0.07
Matches are distributed among these distances:
37 2 0.00
38 43 0.09
39 407 0.81
40 47 0.09
41 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCCGATCATGGGCAGATTACAACCATCCG
Found at i:19459247 original size:78 final size:77
Alignment explanation
Indices: 19459127--19459769 Score: 678
Period size: 78 Copynumber: 8.2 Consensus size: 77
19459117 TAGTCAGTCA
* ** * *
19459127 ATCTCTTACCCCAATCATG-GTGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGTAG
1 ATCTCTTACCCCGATCATGAG-GCAGATCACAACCAT-CAATCTCTTACCCCGATCATGAGGCAG
* ** *
19459191 ATCACAGTCATCCA
64 ATTACAACCATCCG
* *** * *
19459205 ATCTCTTACCCCGATCATGAGACAGATTGTAACCATCCGATCTCTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACAACCAT-CAATCTCTTACCCCGATCATGAGGCAGA
** *
19459270 TTGTAACCATCTG
65 TTACAACCATCCG
* * ** *
19459283 ATCTCATACCCCGACCATGAGGCAGATCACAGTCAGTCAATCTCTTACCCCGACCATGAGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACAACCA-TCAATCTCTTACCCCGATCATGAGGCAGA
*
19459348 TTGCAACCATCCG
65 TTACAACCATCCG
*
19459361 ATCTCTTACCCCGATCATGAGGCAGATCACAATCAGTCAATCTCTTACCCCGATCATGAGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACAACCA-TCAATCTCTTACCCCGATCATGAGGCAGA
*
19459426 TTACAACCATTCG
65 TTACAACCATCCG
* * * * * *
19459439 ATCTCTTACCTCGATCATGGGGCATATCACAGTCAATCAATCTCTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACA-ACCATCAATCTCTTACCCCGATCATGAGGCAGA
19459504 TTACAACCATCCG
65 TTACAACCATCCG
* * * * *
19459517 ATCTCTTACCCCGATCATGGGGCAGGTCACAGCCAGTCAGTCTCTTA-CCCGATCATGGGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACAACCA-TCAATCTCTTACCCCGATCATGAGGCAGA
* **
19459581 TTGCAACCATTTG
65 TTACAACCATCCG
* * * * * *
19459594 ATCTCTTACCCCGATCATGAGGTATATTACAGTCAATCAATCTCTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACA-ACCATCAATCTCTTACCCCGATCATGAGGCAGA
* * *
19459659 TTGCAACTATCCAA
65 TTACAACCATCC-G
* **
19459673 ATCTCTTACCCCGATCATGGGGCAGATCACAGTCAGTCAATCTCTTACCCCGATCATGAGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATCACAACCA-TCAATCTCTTACCCCGATCATGAGGCAGA
** *
19459738 TTGTAATCATCCG
65 TTACAACCATCCG
*
19459751 ATCTTTTACCCCGATCATG
1 ATCTCTTACCCCGATCATG
19459770 GGGCTACCCG
Statistics
Matches: 484, Mismatches: 73, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
77 65 0.13
78 352 0.73
79 67 0.14
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (77 bp):
ATCTCTTACCCCGATCATGAGGCAGATCACAACCATCAATCTCTTACCCCGATCATGAGGCAGAT
TACAACCATCCG
Found at i:19459333 original size:117 final size:115
Alignment explanation
Indices: 19459124--19459988 Score: 734
Period size: 117 Copynumber: 7.3 Consensus size: 115
19459114 TCATAGTCAG
* * *
19459124 TCAATCTCTTACCCCAATCATGGTGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGT
1 TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGC
* * *
19459189 AGATCACAGTCATCCAATCTCTTACCCCGATCATGAGACAGATTGTAACCA
66 AGATCACAGTCAT-CAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
* * * * *
19459240 TCCGATCTCTTACCCCGATCATGGGGCAGATTGTAACCATCTGATCTCATACCCCGACCATGAGG
1 T-CAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGG
* *
19459305 CAGATCACAGTCAGTCAATCTCTTACCCCGACCATGAGGCAGATTGCAACCA
65 CAGATCACAGTCA-TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
* * ** * *
19459357 TCCGATCTCTTACCCCGATCATGAGGCAGATCACAATCAGT-CAATCTCTTACCCCGATCATGAG
1 T-CAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA-TCCGATCTCTTACCCCGATCATGAG
* ** * * * ** * *
19459421 GCAGATTACAACCATTCGATCTCTTACCTCGATCATGGGGCATATCACAGTCAA
64 GCAGATCACAGTCA-TCAATCTCTTACCCCGATCATGGGGCAGATTGCA-ACCA
* *
19459475 TCAATCTCTTACCCCGATCATGGGGCAGATTACAACCATCCGATCTCTTACCCCGATCATGGGGC
1 TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGC
* * *
19459540 AGGTCACAGCCAGTCAGTCTCTTA-CCCGATCATGGGGCAGATTGCAACCA
66 AGATCACAGTCA-TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
** * * * * * * * *
19459590 TTTGATCTCTTACCCCGATCATGAGGTATATTACAGTCAAT-CAATCTCTTACCCCGATCATGGG
1 -TCAATCTCTTACCCCGATCATGGGGCAGATTGCA-ACCATCCGATCTCTTACCCCGATCATGAG
* ** **
19459654 GCAGATTGCA-ACT-ATCCAAATCTCTTACCCCGATCATGGGGCAGATCACAGTCA
64 GCAGA-T-CACAGTCAT-C-AATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
* * * * *
19459708 GTCAATCTCTTACCCCGATCATGAGGCAGATTGTAATCATCCGATCTTTTACCCCGATCATGGGG
1 -TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGG
* * * * ** *
19459773 CTACCCGATCATGAGGCAGACTGCAACCATATGATCTCTTACCCCGATAATGAGGTAGATCACAG
65 C-A---GATC---A--CAG--T-C-ATC--A--ATCTCTTACCCCGATCATGGGGCAGATTGCAA
**
19459838 TTA
113 CCA
*
19459841 GTCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCCTACCCCGATCAT-AGG
1 -TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGA-G
* * * * *
19459905 GCTGATCACAGTCATCCAATCTCTTACCTCAATCATGGGACAGATTGCAGCCA
64 GCAGATCACAGTCAT-CAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
*
19459958 TCCAATCTCTTACCCCGATCATAGGGCAGAT
1 T-CAATCTCTTACCCCGATCATGGGGCAGAT
19459989 CTCTTACCCC
Statistics
Matches: 610, Mismatches: 105, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
115 3 0.00
116 78 0.13
117 335 0.55
118 80 0.13
119 2 0.00
120 2 0.00
121 3 0.00
122 3 0.00
123 1 0.00
124 3 0.00
126 2 0.00
128 1 0.00
129 4 0.01
130 1 0.00
131 2 0.00
133 90 0.15
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (115 bp):
TCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGC
AGATCACAGTCATCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCA
Found at i:19459411 original size:156 final size:156
Alignment explanation
Indices: 19459166--19459769 Score: 782
Period size: 156 Copynumber: 3.9 Consensus size: 156
19459156 CAACCATCCG
* * ** *
19459166 ATCTCTTACCCCGATCATGAGGTAGATCACAGTCATCCAATCTCTTACCCCGATCATGAGACAGA
1 ATCTCTTACCCCGATCATGAGGCAGATTACAACCATCCAATCTCTTACCCCGATCATGAGGCAGA
*** * * * *
19459231 TTGTAACCA-TCCGATCTCTTACCCCGATCATGGGGCAGATTGTAACCATCTGATCTCATACCCC
66 TCACAACCAGT-CAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCTGATCTCTTACCCC
* * *
19459295 GACCATGAGGCAGATCACAGTCAGTCA
130 GATCATGAGGCATATCACAGTCAATCA
* * *
19459322 ATCTCTTACCCCGACCATGAGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATGAGGCAGA
1 ATCTCTTACCCCGATCATGAGGCAGATTACAACCATCCAATCTCTTACCCCGATCATGAGGCAGA
* * *
19459387 TCACAATCAGTCAATCTCTTACCCCGATCATGAGGCAGATTACAACCAT-TCGATCTCTTACCTC
66 TCACAACCAGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCT-GATCTCTTACCCC
*
19459451 GATCATGGGGCATATCACAGTCAATCA
130 GATCATGAGGCATATCACAGTCAATCA
* * * *
19459478 ATCTCTTACCCCGATCATGGGGCAGATTACAACCATCCGATCTCTTACCCCGATCATGGGGCAGG
1 ATCTCTTACCCCGATCATGAGGCAGATTACAACCATCCAATCTCTTACCCCGATCATGAGGCAGA
* * * *
19459543 TCACAGCCAGTCAGTCTCTTA-CCCGATCATGGGGCAGATTGCAACCATTTGATCTCTTACCCCG
66 TCACAACCAGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCTGATCTCTTACCCCG
* *
19459607 ATCATGAGGTATATTACAGTCAATCA
131 ATCATGAGGCATATCACAGTCAATCA
* * * *
19459633 ATCTCTTACCCCGATCATGGGGCAGATTGCAACTATCCAAATCTCTTACCCCGATCATGGGGCAG
1 ATCTCTTACCCCGATCATGAGGCAGATTACAACCATCC-AATCTCTTACCCCGATCATGAGGCAG
** * * * *
19459698 ATCACAGTCAGTCAATCTCTTACCCCGATCATGAGGCAGATTGTAATCATCCGATCTTTTACCCC
65 ATCACAACCAGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCTGATCTCTTACCCC
19459763 GATCATG
130 GATCATG
19459770 GGGCTACCCG
Statistics
Matches: 395, Mismatches: 48, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
155 98 0.25
156 253 0.64
157 44 0.11
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (156 bp):
ATCTCTTACCCCGATCATGAGGCAGATTACAACCATCCAATCTCTTACCCCGATCATGAGGCAGA
TCACAACCAGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCTGATCTCTTACCCCG
ATCATGAGGCATATCACAGTCAATCA
Found at i:19459819 original size:39 final size:38
Alignment explanation
Indices: 19459776--19459901 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 38
19459766 CATGGGGCTA
19459776 CCCGATCATGAGGCAGACTGCAACCATATGATCTCTTAC
1 CCCGATCATGAGGCAGA-TGCAACCATATGATCTCTTAC
* * *
19459815 CCCGATAATGAGGTAGAT-C-A-CAGTTAGTCAATCTCTTAC
1 CCCGATCATGAGGCAGATGCAACCA--TA-T-GATCTCTTAC
* ** *
19459854 CCCGATCATGGGGCAGATTGCAACCATCCGATCTCCTAC
1 CCCGATCATGAGGCAGA-TGCAACCATATGATCTCTTAC
19459893 CCCGATCAT
1 CCCGATCAT
19459902 AGGGCTGATC
Statistics
Matches: 69, Mismatches: 10, Indels: 16
0.73 0.11 0.17
Matches are distributed among these distances:
35 2 0.03
36 1 0.01
37 3 0.04
38 2 0.03
39 55 0.80
40 1 0.01
41 2 0.03
42 1 0.01
43 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (38 bp):
CCCGATCATGAGGCAGATGCAACCATATGATCTCTTAC
Found at i:19459882 original size:133 final size:133
Alignment explanation
Indices: 19459642--19459907 Score: 381
Period size: 133 Copynumber: 2.0 Consensus size: 133
19459632 AATCTCTTAC
* * * * *
19459642 CCCGATCATGGGGCAGATTGCAACTATCCAAATCTCTTACCCCGATCATGGGGCAGATCACAGTC
1 CCCGATCATGAGGCAGACTGCAACCAT-CAAATCTCTTACCCCGATAATGAGGCAGATCACAGTC
* * ** *
19459707 AGTCAATCTCTTACCCCGATCATGAGGCAGATTGTAATCATCCGATCTTTTACCCCGATCATGGG
65 AGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCCGATCTCCTACCCCGATCATAGG
19459772 GCTA
130 GCTA
* * *
19459776 CCCGATCATGAGGCAGACTGCAACCAT-ATGATCTCTTACCCCGATAATGAGGTAGATCACAGTT
1 CCCGATCATGAGGCAGACTGCAACCATCA-AATCTCTTACCCCGATAATGAGGCAGATCACAGTC
*
19459840 AGTCAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATCCGATCTCCTACCCCGATCATAGG
65 AGTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCCGATCTCCTACCCCGATCATAGG
19459905 GCT
130 GCT
19459908 GATCACAGTC
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
132 1 0.01
133 92 0.79
134 24 0.21
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (133 bp):
CCCGATCATGAGGCAGACTGCAACCATCAAATCTCTTACCCCGATAATGAGGCAGATCACAGTCA
GTCAATCTCTTACCCCGATCATGAGGCAGATTGCAACCATCCGATCTCCTACCCCGATCATAGGG
CTA
Found at i:19459912 original size:78 final size:78
Alignment explanation
Indices: 19459776--19459989 Score: 263
Period size: 78 Copynumber: 2.7 Consensus size: 78
19459766 CATGGGGCTA
* * ** *
19459776 CCCGATCATGAGGCAGACTGCAACCATATGATCTCTTACCCCGATAAT-GAGG-TAGATCACAGT
1 CCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATAG-GGCT-GATCACAGT
*
19459839 TAGT-CAATCTCTTAC
64 CA-TCCAATCTCTTAC
*
19459854 CCCGATCATGGGGCAGATTGCAACCATCCGATCTCCTACCCCGATCATAGGGCTGATCACAGTCA
1 CCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATAGGGCTGATCACAGTCA
19459919 TCCAATCTCTTAC
66 TCCAATCTCTTAC
* * * * * *
19459932 CTCAATCATGGGACAGATTGCAGCCATCCAATCTCTTACCCCGATCATAGGGCAGATC
1 CCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATAGGGCTGATC
19459990 TCTTACCCCT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
77 1 0.01
78 116 0.97
79 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (78 bp):
CCCGATCATGGGGCAGATTGCAACCATCCGATCTCTTACCCCGATCATAGGGCTGATCACAGTCA
TCCAATCTCTTAC
Found at i:19459921 original size:39 final size:39
Alignment explanation
Indices: 19459843--19459989 Score: 179
Period size: 39 Copynumber: 3.8 Consensus size: 39
19459833 CACAGTTAGT
* * *
19459843 CAATCTCTTACCCCGATCATGGGGCAGATTGCAACCATC
1 CAATCTCTTACCCCGATCATAGGGCAGATCGCAGCCATC
* * * * *
19459882 CGATCTCCTACCCCGATCATAGGGCTGATCACAGTCATC
1 CAATCTCTTACCCCGATCATAGGGCAGATCGCAGCCATC
* * *
19459921 CAATCTCTTACCTCAATCAT-GGGACAGATTGCAGCCATC
1 CAATCTCTTACCCCGATCATAGGG-CAGATCGCAGCCATC
19459960 CAATCTCTTACCCCGATCATAGGGCAGATC
1 CAATCTCTTACCCCGATCATAGGGCAGATC
19459990 TCTTACCCCT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
38 3 0.03
39 81 0.93
40 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (39 bp):
CAATCTCTTACCCCGATCATAGGGCAGATCGCAGCCATC
Found at i:19459996 original size:25 final size:25
Alignment explanation
Indices: 19459962--19460013 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
19459952 CAGCCATCCA
19459962 ATCTCTTACCCCGATCATAGGGCAG
1 ATCTCTTACCCCGATCATAGGGCAG
*
19459987 ATCTCTTACCCCTATCATAGGGCAG
1 ATCTCTTACCCCGATCATAGGGCAG
19460012 AT
1 AT
19460014 TGAAACCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (25 bp):
ATCTCTTACCCCGATCATAGGGCAG
Found at i:19460028 original size:64 final size:64
Alignment explanation
Indices: 19459923--19460043 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
19459913 CAGTCATCCA
* * *
19459923 ATCTCTTACCTCAATCATGGGACAGATTGCAGCCATCCAATCTCTTACCCCGATCATAGGGCAG
1 ATCTCTTACCCCAATCATGGGACAGATTGAAACCATCCAATCTCTTACCCCGATCATAGGGCAG
* *
19459987 ATCTCTTACCCCTATCATAGGG-CAGATTGAAACCATTCAATCTCTTACCCCGATCAT
1 ATCTCTTACCCCAATCAT-GGGACAGATTGAAACCATCCAATCTCTTACCCCGATCAT
19460044 GGGACAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 48 0.94
65 3 0.06
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (64 bp):
ATCTCTTACCCCAATCATGGGACAGATTGAAACCATCCAATCTCTTACCCCGATCATAGGGCAG
Found at i:19462141 original size:60 final size:59
Alignment explanation
Indices: 19462047--19462253 Score: 182
Period size: 59 Copynumber: 3.5 Consensus size: 59
19462037 AAAGGTCCCT
* * * *
19462047 AAACTTTCCAAAAATTATATTTTGACCCCCAAACTTCTCCAAAGTTACATTTTTACCCCC
1 AAACTTTCCAAAAACTACATTTTGACCCCTAAACTTTTCCAAAGTTACA-TTTTACCCCC
* * * * **
19462107 AAACTTTCCAAAAACTACATTTTGACCCCTAAACTTTTTCAAAATCACATTTTAACCAT
1 AAACTTTCCAAAAACTACATTTTGACCCCTAAACTTTTCCAAAGTTACATTTTACCCCC
* * * * * * * * *
19462166 AAAATTTCCTAAAATTGCATTTTAACCCCTAAATTTTTCCAAAGCTACAGTTTGCCCCC
1 AAACTTTCCAAAAACTACATTTTGACCCCTAAACTTTTCCAAAGTTACATTTTACCCCC
** *
19462225 AAA-AGTCTCAAAAACTTCATTTTTGACCC
1 AAACTTTC-CAAAAACTACA-TTTTGACCC
19462254 TTTTTTATTT
Statistics
Matches: 114, Mismatches: 31, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
58 2 0.02
59 62 0.54
60 50 0.44
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (59 bp):
AAACTTTCCAAAAACTACATTTTGACCCCTAAACTTTTCCAAAGTTACATTTTACCCCC
Found at i:19462199 original size:29 final size:30
Alignment explanation
Indices: 19462043--19462208 Score: 149
Period size: 30 Copynumber: 5.5 Consensus size: 30
19462033 CCCAAAAGGT
* *
19462043 CCCTAAACTTTCCAAAAATTATATTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* * *
19462073 CCCCAAACTTCTCC-AAAGTTACATTTTTAC
1 CCCTAAACTT-TCCAAAAATTACATTTTAAC
* * *
19462103 CCCCAAACTTTCCAAAAACTACATTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* *
19462133 CCCTAAACTTTTTC-AAAATCACATTTTAA-
1 CCCTAAAC-TTTCCAAAAATTACATTTTAAC
* * * *
19462162 CCATAAAATTTCCTAAAATTGCATTTTAAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
*
19462192 CCCTAAATTTTTCCAAA
1 CCCTAAA-CTTTCCAAA
19462209 GCTACAGTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.04
29 22 0.20
30 70 0.64
31 14 0.13
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACATTTTAAC
Found at i:19470383 original size:20 final size:20
Alignment explanation
Indices: 19470342--19470382 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19470332 CTATCCTTTC
19470342 TTAGTTATTTTGTTTATGTT
1 TTAGTTATTTTGTTTATGTT
19470362 TTAGTTATCTTT-TTTA-GTT
1 TTAGTTAT-TTTGTTTATGTT
19470381 TT
1 TT
19470383 TTTTTGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 12 0.60
21 3 0.15
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (20 bp):
TTAGTTATTTTGTTTATGTT
Found at i:19472558 original size:20 final size:22
Alignment explanation
Indices: 19472521--19472563 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
19472511 TATTGATTAT
*
19472521 AAATAGGTTCAATAAAAGTTAA
1 AAATAGGTTCAATAAAAGCTAA
*
19472543 AAAT-GGTT-AATTAAAGCTAA
1 AAATAGGTTCAATAAAAGCTAA
19472563 A
1 A
19472564 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (22 bp):
AAATAGGTTCAATAAAAGCTAA
Found at i:19474397 original size:21 final size:19
Alignment explanation
Indices: 19474371--19474423 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
19474361 GGAGTTTTTA
*
19474371 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGAT-CA-AACTT
19474392 GTATCGGTAGTAATCAAACTT
1 GTATCGGTAG--ATCAAACTT
19474413 GTATCGGTAGA
1 GTATCGGTAGA
19474424 GCTAAGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
21 24 0.83
22 2 0.07
23 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (19 bp):
GTATCGGTAGATCAAACTT
Found at i:19484827 original size:18 final size:17
Alignment explanation
Indices: 19484800--19484838 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
19484790 TTTTTTTTTC
19484800 TTTT-TCATTTTCTTCCT
1 TTTTCTCATTTT-TTCCT
19484817 TTTTCTCATTTTTTCCT
1 TTTTCTCATTTTTTCCT
19484834 TTTTC
1 TTTTC
19484839 AGGTGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTCATTTTTTCCT
Found at i:19485201 original size:56 final size:56
Alignment explanation
Indices: 19485130--19485247 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 56
19485120 CAATCATTCA
*
19485130 TCCAAAAATAGAGGATTCGATATTCATTCATATTCACCCAATTCACATACCAGTAT
1 TCCAAAAATAGAGGATTCAATATTCATTCATATTCACCCAATTCACATACCAGTAT
*
19485186 TCCAAAAATATAGGATTCAATATTCATTCATATTCACCCAATTCACATACCAGTAT
1 TCCAAAAATAGAGGATTCAATATTCATTCATATTCACCCAATTCACATACCAGTAT
19485242 TCCAAA
1 TCCAAA
19485248 TAATTCAAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (56 bp):
TCCAAAAATAGAGGATTCAATATTCATTCATATTCACCCAATTCACATACCAGTAT
Found at i:19494587 original size:26 final size:26
Alignment explanation
Indices: 19494558--19494624 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
19494548 TGACAACTAT
*
19494558 GGACATGTTCATGCAGCGATAATTCG
1 GGACATGTTCATGCAGCGACAATTCG
* ** * *
19494584 GGACAAGTTTGTACAGCGACAATTCT
1 GGACATGTTCATGCAGCGACAATTCG
*
19494610 GGACATGCTCATGCA
1 GGACATGTTCATGCA
19494625 ACAACATTCG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
GGACATGTTCATGCAGCGACAATTCG
Found at i:19509620 original size:23 final size:23
Alignment explanation
Indices: 19509590--19509635 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19509580 TTGGCTCCTT
19509590 TATGGAAGATGGATAAATAAAAA
1 TATGGAAGATGGATAAATAAAAA
19509613 TATGGAAGATGGATAAATAAAAA
1 TATGGAAGATGGATAAATAAAAA
19509636 AAAGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (23 bp):
TATGGAAGATGGATAAATAAAAA
Found at i:19509645 original size:13 final size:15
Alignment explanation
Indices: 19509627--19509665 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
19509617 GAAGATGGAT
19509627 AAATAAA-AAAA-AG
1 AAATAAATAAAATAG
19509640 AAATAAATAAAATAG
1 AAATAAATAAAATAG
19509655 AATATAAATAA
1 AA-ATAAATAA
19509666 GATAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAATAAATAAAATAG
Found at i:19510603 original size:27 final size:28
Alignment explanation
Indices: 19510573--19510629 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
19510563 AAATGAATGG
*
19510573 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
19510600 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
19510628 AA
1 AA
19510630 AAATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:19510637 original size:31 final size:27
Alignment explanation
Indices: 19510573--19510638 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
19510563 AAATGAATGG
* *
19510573 AATAATTAGTTCTAGTTATTAAATATA
1 AATAATTAGTTCTAGCTATTAAATAAA
19510600 AATAATTAGTTCTAGCTATTATACTATAAAA
1 AATAATTAGTTCTAGCTATTA-A--AT-AAA
19510631 AATAATTA
1 AATAATTA
19510639 ATTTCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 20 0.61
28 1 0.03
30 2 0.06
31 10 0.30
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (27 bp):
AATAATTAGTTCTAGCTATTAAATAAA
Found at i:19511140 original size:18 final size:18
Alignment explanation
Indices: 19511113--19511155 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19511103 CACATAAAAA
* *
19511113 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
19511131 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
19511149 GAAAGAA
1 GAAAGAA
19511156 GGGGGAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:19516706 original size:42 final size:42
Alignment explanation
Indices: 19516639--19517335 Score: 694
Period size: 42 Copynumber: 17.1 Consensus size: 42
19516629 GCTTCTATGA
* *
19516639 GATGATAG-CTTCAATTTGCCCCATGATTGGGGTAAGAGATTG
1 GATGAT-GTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *
19516681 AATGGTGTCTTCAATCTGCTCCATGATCGGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *
19516723 GATGA---CTGCAATCTGCCCCATGATCAGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *
19516762 GATGATGCCTTCAATCTGCCCCATGATTGGGGTGAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *
19516804 GATGATGTCTTCAATCTGCCCAATAATCGGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
*
19516846 GATGATGTCTTCAATCTTCCCCATGATCGGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *** *
19516888 GATGATGTCTTTAATCTGCCTTC-TGATTAAGGTAAAAGATT-
1 GATGATGTCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTG
* *
19516929 G--GATG-CTTCAATCTACCTCATGATCGGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *
19516968 GATGATGCCTTCAATCTGCCCCATGATCAGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *** *
19517010 GATGATGTCTTCAATCTACCTTC-TGATTAAGGTAAAAGATT-
1 GATGATGTCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTG
19517051 G--GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * *** *
19517090 GATGATGTCTTTAATCTGCCTTC-TGATTAAGGTAAAAGATT-
1 GATGATGTCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTG
*
19517131 G--GATG-CTTCAATCTGCCCCATGATCGGGATAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *** *
19517170 G-TG-TGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATT-
1 GATGATGTCTTCAATCTGCC-CCATGATCGGGGTAAGAGATTG
* *
19517209 G--GATGT-TTCAATCTGCTCCATGATCGGGGTAAGGGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* * * *
19517248 GATGATGGCTGCAATCTACCCCATGATCGAGGTAAGAGATTG
1 GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
* *
19517290 GATGATGGT-TGT-AATTTGCCTCATGATCGGGGTAAGAGATTG
1 GATGAT-GTCT-TCAATCTGCCCCATGATCGGGGTAAGAGATTG
19517332 GATG
1 GATG
19517336 GTGATGTAAC
Statistics
Matches: 537, Mismatches: 88, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
37 5 0.01
38 97 0.18
39 58 0.11
40 26 0.05
41 17 0.03
42 330 0.61
43 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
GATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTG
Found at i:19517001 original size:122 final size:122
Alignment explanation
Indices: 19516689--19517335 Score: 621
Period size: 122 Copynumber: 5.3 Consensus size: 122
19516679 TGAATGGTGT
*
19516689 CTTCAATCTG-CTCCATGATCGGGGTAAGAGATTGGATGA---CTGCAATCTGCCCCATGATCAG
1 CTTCAATCTGCCT-CATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAG
* * ** * *
19516750 GGTAAGAGATTGGATGATGCCTTCAATCTGCC-CCATGATTGGGGTGAGAGATTGGATGATG
65 GGTAAGAGATTGGATGATGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATT-G--GATG
* * *
19516811 TCTTCAATCTGCC-CAATAATCGGGGTAAGAGATTGGATGATGTCTTCAATCTTCCCCATGATCG
1 -CTTCAATCTGCCTC-ATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCA
*
19516875 GGGTAAGAGATTGGATGATGTCTTTAATCTGCCTTCTGATTAAGGTAAAAGATTGGATG
64 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGATG
* *
19516934 CTTCAATCTACCTCATGATCGGGGTAAGAGATTGGATGATGCCTTCAATCTGCCCCATGATCAGG
1 CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGG
*
19516999 GTAAGAGATTGGATGATGTCTTCAATCTACCTTCTGATTAAGGTAAAAGATTGGATG
66 GTAAGAGATTGGATGATGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGATG
* * * * *
19517056 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTTAATCTGCCTTC-TGATTAA
1 CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCC-CCATGATCAG
* * ** * *
19517120 GGTAAAAGATT-G--GATG-CTTCAATCTGCC-CCATGA-TCGGGATAAGAGATTGGTGTG
65 GGTAAGAGATTGGATGATGTCTTCAATCTGCCTTC-TGATTAAGG-TAAAAGATTGG-ATG
*** * * *
19517175 TCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATT-G--GATGT-TTCAATCTGCTCCATGATCG
1 -CTTCAATCTGCC-TCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCA
* * * * * ** *
19517235 GGGTAAGGGATTGGATGATGGCTGCAATCTACC-CCATGATCGAGGTAAGAGATTGGATGATG
64 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATT-G--GATG
* * *
19517297 GTTGTAATTTGCCTCATGATCGGGGTAAGAGATTGGATG
1 CTT-CAATCTGCCTCATGATCGGGGTAAGAGATTGGATG
19517336 GTGATGTAAC
Statistics
Matches: 439, Mismatches: 58, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
115 1 0.00
116 22 0.05
117 10 0.02
118 24 0.05
119 11 0.03
120 51 0.12
121 9 0.02
122 202 0.46
123 42 0.10
124 1 0.00
125 2 0.00
126 63 0.14
127 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (122 bp):
CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCAGG
GTAAGAGATTGGATGATGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGATG
Found at i:19517060 original size:80 final size:82
Alignment explanation
Indices: 19516646--19517335 Score: 669
Period size: 80 Copynumber: 8.5 Consensus size: 82
19516636 TGAGATGATA
* * * * * * *
19516646 GCTTCAATTTGCCCCATGATTGGGGTAAGAGATTGAATGGTGTCTTCAATCTGCTCCATGATCGG
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCGA
19516711 GGTAAGAGATT-G-GAT
66 GGTAAGAGATTGGAGAT
* * * * *
19516726 GACTGCAATCTGCCCCATGATCAGGGTAAGAGATTGGATGATGCCTTCAATCTGCCCCATGATTG
1 G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCG
* *
19516791 GGGTGAGAGATTGGATGAT
65 AGGTAAGAGATTGGA-GAT
* * *
19516810 GTCTTCAATCTGCCCAATAATCGGGGTAAGAGATTGGATGATGTCTTCAATCTTCCCCATGATCG
1 G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCG
*
19516875 GGGTAAGAGATTGGATGAT
65 AGGTAAGAGATTGGA-GAT
* * *** * *
19516894 GTCTTTAATCTGCCTTC-TGATTAAGGTAAAAGATT-G--GATG-CTTCAATCTACCTCATGATC
1 G-CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATC
*
19516954 GGGGTAAGAGATTGGATGAT
64 GAGGTAAGAGATTGGA-GAT
* * *
19516974 GCCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCTTC-TGATT
1 G-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACC-CCATGATC
* *
19517038 AAGGTAAAAGATT-G-GAT
64 GAGGTAAGAGATTGGAGAT
* * * **
19517055 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTTAATCTGCCTTC-TGATTA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACC-CCATGATCG
*
19517119 AGGTAAAAGATT-G-GAT
65 AGGTAAGAGATTGGAGAT
* * * **
19517135 GCTTCAATCTGCCCCATGATCGGGATAAGAGATTGG-TG-TGTCTTCAATCTGCCTTC-TGATTA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACC-CCATGATCG
*
19517197 AGGTAAAAGATT-G-GAT
65 AGGTAAGAGATTGGAGAT
* * * * *
19517213 GTTTCAATCTGCTCCATGATCGGGGTAAGGGATTGGATGATGGCTGCAATCTACCCCATGATCGA
1 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCGA
19517278 GGTAAGAGATTGGATGAT
66 GGTAAGAGATTGGA-GAT
* * * *
19517296 GGTTGTAATTTGCCTCATGATCGGGGTAAGAGATTGGATG
1 GCTT-CAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
19517336 GTGATGTAAC
Statistics
Matches: 531, Mismatches: 61, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
78 71 0.13
79 6 0.01
80 204 0.38
81 75 0.14
82 1 0.00
83 12 0.02
84 160 0.30
85 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (82 bp):
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATCGA
GGTAAGAGATTGGAGAT
Found at i:19517792 original size:99 final size:98
Alignment explanation
Indices: 19517604--19518310 Score: 405
Period size: 99 Copynumber: 7.2 Consensus size: 98
19517594 TGGCTTTAAT
* *
19517604 CTTTCCTGTCATA-CTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTC
1 CTTTCCTATCATATCTTCTAAGGTACT-GGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
* * *
19517668 TTCATGGTACCGAGTTCG-TCATTGCGGCCTCAAC
65 TTCATAGTACCGGGTTCGCT-GTTGCGGCCTCAAC
* * *
19517702 CTTTCCTATCACATCTTCTAAGGTACCTGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCAAATC
1 CTTTCCTATCATATCTTCTAAGGTA-CTGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
*
19517767 TTCATAGTACCGGGTTCGCTGTTGCGACCTCAAC
65 TTCATAGTACCGGGTTCGCTGTTGCGGCCTCAAC
* * * * *
19517801 CTTTCCCATTATATCTTCTAAGGTATCAGGTTCGCCGTTGAGGCCTTAACCTTTCCCTTCATATC
1 CTTTCCTATCATATCTTCTAAGGTA-CTGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATC
* * *
19517866 TTC-TAAGCTACCAGGTTCGCCGTTGTGGCCTCAAC
65 TTCAT-AG-TACCGGGTTCGCTGTTGCGGCCTCAAC
* * * * *
19517901 CTTTCCCT-TCATATCTTCGT--GGTACCGGATTCGCTGTTGCGACCTCAATCC-TACCCATCAT
1 CTTT-CCTATCATATCTTC-TAAGGTACTGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCAT
* * ** * * *
19517962 GTCTT-TTAGGGTATAGGGTTCACCGTTGCAGCCTCAAC
62 ATCTTCATA--GTACCGGGTTCGCTGTTGCGGCCTCAAC
** * * * * *
19518000 CTTTCCCCTCATATCTTC-ATGGTACCAGATTCGCCGTTGTGGCCTCAATCC-TT-CCTATCATG
1 CTTTCCTATCATATCTTCTAAGGTA-CTGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCT-TCATA
* ** * * * *
19518062 TCTT-TTAAGGTACAAGGTTTGCCGTTGCAGCCTGAAC
63 TCTTCAT-A-GTACCGGGTTCGCTGTTGCGGCCTCAAC
* * * * * * * *
19518099 CTTTCC-CTCTATATCCTC-ATGGTACCAGATTCGCCGTTGCGGCCTTAATCCTTT-CCATCACA
1 CTTTCCTATC-ATATCTTCTAAGGTA-CTGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATA
* ** *
19518161 GCTTC-TAAGGTATTGGGTTCGCTGTTGTGGCCTCAAC
63 TCTTCAT-A-GTACCGGGTTCGCTGTTGCGGCCTCAAC
* * * * * * * * * * *
19518198 CTTTCCT-T-TTATTTTC-ATGGTAGTAGATCCACCGTTCCGGCCTCGATCTTT-CCTATCATGT
1 CTTTCCTATCATATCTTCTAAGGTACT-GGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCATAT
* *
19518259 CTTC-TAAGGTACCGGGTTCACTGTTGCGACCTCAAC
64 CTTCAT-A-GTACCGGGTTCGCTGTTGCGGCCTCAAC
19518295 CTTTCTCT-TCATATCT
1 CTTTC-CTATCATATCT
19518311 CTATGTTTCC
Statistics
Matches: 495, Mismatches: 88, Indels: 51
0.78 0.14 0.08
Matches are distributed among these distances:
96 6 0.01
97 66 0.13
98 26 0.05
99 345 0.70
100 49 0.10
101 3 0.01
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (98 bp):
CTTTCCTATCATATCTTCTAAGGTACTGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT
TCATAGTACCGGGTTCGCTGTTGCGGCCTCAAC
Found at i:19517890 original size:149 final size:146
Alignment explanation
Indices: 19517625--19518203 Score: 501
Period size: 149 Copynumber: 3.9 Consensus size: 146
19517615 TACTTCTAAG
* * * * * *
19517625 GTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATGTCTTCATGGTA-CCGAGTTCGTCA
1 GTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTT-ATATCTTCATGGTATCAG-GTTCGCCG
* * * *
19517689 TTGCGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCTGGTTCGTCGTTGCGGCCTCAACCT
64 TTGAGGCCTCAACCTTTCCT-TCACATCTTCTAAGGTACCAGGTTCGCCGTTGTGGCCTCAACCT
*
19517754 TTCCCTTCAAATCTTCATA
128 TTCCCTTCATATCTTCATA
* *
19517773 GTACCGGGTTCGCTGTTGCGACCTCAACCTTTCCCATTATATCTTCTAAGGTATCAGGTTCGCCG
1 GTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCC-TTATATCTTC-ATGGTATCAGGTTCGCCG
* * *
19517838 TTGAGGCCTTAACCTTTCCCTTCATATCTTCTAAGCTACCAGGTTCGCCGTTGTGGCCTCAACCT
64 TTGAGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCAGGTTCGCCGTTGTGGCCTCAACCT
* *
19517903 TTCCCTTCATATCTTCGTG
128 TTCCCTTCATATCTTCATA
* * * * * * * *
19517922 GTACCGGATTCGCTGTTGCGACCTCAATCC-TACCCATCATGTCTTTTAGGGTAT-AGGGTTCAC
1 GTACCGGGTTCGCCGTTGCGACCTCAA-CCTTTCCC-TTATATC-TTCATGGTATCA-GGTTCGC
* * * *
19517985 CGTTGCA-GCCTCAACCTTTCCCCTCATATCTTC-ATGGTACCAGATTCGCCGTTGTGGCCTCAA
62 CGTTG-AGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCAGGTTCGCCGTTGTGGCCTCAA
* *
19518048 TCC-TT-CCTATCATGTCTT-TTAA
125 -CCTTTCCCT-TCATATCTTCAT-A
** * * * * *
19518070 GGTACAAGGTTTGCCGTTGC-AGCCTGAACCTTTCCCTCTATATCCTCATGGTACCAGATTCGCC
1 -GTACCGGGTTCGCCGTTGCGA-CCTCAACCTTTCCCT-TATATCTTCATGGTATCAGGTTCGCC
* * * * *** *
19518134 GTTGCGGCCTTAATCCTTTCCATCACAGCTTCTAAGGTATTGGGTTCGCTGTTGTGGCCTCAACC
63 GTTGAGGCCTCAA-CCTTTCCTTCACATCTTCTAAGGTACCAGGTTCGCCGTTGTGGCCTCAACC
19518199 TTTCC
127 TTTCC
19518204 TTTTATTTTC
Statistics
Matches: 351, Mismatches: 59, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
147 4 0.01
148 115 0.33
149 221 0.63
150 11 0.03
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (146 bp):
GTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTATATCTTCATGGTATCAGGTTCGCCGTT
GAGGCCTCAACCTTTCCTTCACATCTTCTAAGGTACCAGGTTCGCCGTTGTGGCCTCAACCTTTC
CCTTCATATCTTCATA
Found at i:19518073 original size:248 final size:248
Alignment explanation
Indices: 19517599--19518154 Score: 610
Period size: 248 Copynumber: 2.2 Consensus size: 248
19517589 CATTATGGCT
* **
19517599 TTAATCTTT-CCTGTCATA-CTTCTAAGGTACTGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTT
1 TTAACCTTTCCCT-TCATATCTTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTT
* * * *
19517662 CATGTCTTCATGGTACCGAGTTCGTCATTGCGGCCTCAACCTTTCCTATCACATCTTCTAAGGTA
65 CATATCTTCATGGTACCGAGTTCGTCATTGCGACCTCAACCTTACCCATCACATCTTCTAAGGTA
** ** * * * * *
19517727 CCTGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATAGTACCGGGTTCGCTGTTGC
130 CAGGGTTCACCGTTGCAGCCTCAACCTTTCCCCTCAAATCTTCATAGTACCAGATTCGCCGTTGC
*
19517792 GACCTCAACCTTTCCCATTATATCTTCTAAGGTATC-AGGTTCGCCGTTG-AGGCC
195 GACCTCAACCTTTCCCATCATATCTTCTAAGGTA-CAAGGTTCGCCGTTGCA-GCC
* *
19517846 TTAACCTTTCCCTTCATATCTTCTAAGCTACCAGGTTCGCCGTTGTGGCCTCAACCTTTCCCTTC
1 TTAACCTTTCCCTTCATATCTTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC
* * ** * *
19517911 ATATCTTCGTGGTACCG-GATTCG-CTGTTGCGACCTCAATCC-TACCCATCATGTCTTTTAGGG
66 ATATCTTCATGGTACCGAG-TTCGTC-ATTGCGACCTCAA-CCTTACCCATCACATCTTCTAAGG
* * *
19517973 TATAGGGTTCACCGTTGCAGCCTCAACCTTTCCCCTCATATCTTCATGGTACCAGATTCGCCGTT
128 TACAGGGTTCACCGTTGCAGCCTCAACCTTTCCCCTCAAATCTTCATAGTACCAGATTCGCCGTT
* * * * * *
19518038 GTGGCCTCAATCC-TTCCTATCATGTCTTTTAAGGTACAAGGTTTGCCGTTGCAGCC
193 GCGACCTCAA-CCTTTCCCATCATATCTTCTAAGGTACAAGGTTCGCCGTTGCAGCC
* * * * *
19518094 TGAACCTTTCCC-TCTATATCCTC-ATGGTACCAGATTCGCCGTTGCGGCCTTAATCCTTTCC
1 TTAACCTTTCCCTTC-ATATCTTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAA-CCTTTCC
19518155 ATCACAGCTT
Statistics
Matches: 258, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
247 43 0.17
248 210 0.81
249 5 0.02
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (248 bp):
TTAACCTTTCCCTTCATATCTTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC
ATATCTTCATGGTACCGAGTTCGTCATTGCGACCTCAACCTTACCCATCACATCTTCTAAGGTAC
AGGGTTCACCGTTGCAGCCTCAACCTTTCCCCTCAAATCTTCATAGTACCAGATTCGCCGTTGCG
ACCTCAACCTTTCCCATCATATCTTCTAAGGTACAAGGTTCGCCGTTGCAGCC
Found at i:19518196 original size:198 final size:198
Alignment explanation
Indices: 19517633--19518309 Score: 547
Period size: 198 Copynumber: 3.4 Consensus size: 198
19517623 AGGTACTGGG
* * * * * *
19517633 TTCGCCGTTGCGGCCTCAA-CCTTTCCCT-TCATGTCTTC-ATGGTAC-CGAGTTCGTCATTGCG
1 TTCGCCGTTGAGGCCTCAATCC-TT-CCTATCATGTCTTCTAAGGTACAAG-GTTCGCCGTTGCA
* * * * * * * *
19517694 GCCTCAACCTTT-CCTATCACATCTTCTAAGGTACCTGGTTCGTCGTTGCGGCCTCAA-CCTTTC
63 GCCTCAACCTTTCCCT-TCATATCCTC-ATGGTACCAGATTCGCCGTTGCGACCTCAATCC-TAC
* * ** * *
19517757 CCTTCAAATCTTC-ATA-GTACCGGGTTCGCTGTTGCGACCTCAACCTTTCCCATTATATCTTCT
125 CCATCAAGTCTTCTA-AGGTATAGGGTTCGCTGTTGCGGCCTCAACCTTTCCCCTTATATCTTC-
* * *
19517820 AAGGTATCAGG
188 ATGGTACCAGA
* * * * **
19517831 TTCGCCGTTGAGGCCTTAA-CCTTTCCCT-TCATATCTTCTAAGCTACCAGGTTCGCCGTTGTGG
1 TTCGCCGTTGAGGCCTCAATCC-TT-CCTATCATGTCTTCTAAGGTACAAGGTTCGCCGTTGCAG
* * * *
19517894 CCTCAACCTTTCCCTTCATATCTTCGTGGTACCGGATTCGCTGTTGCGACCTCAATCCTACCCAT
64 CCTCAACCTTTCCCTTCATATCCTCATGGTACCAGATTCGCCGTTGCGACCTCAATCCTACCCAT
* * * * * * *
19517959 CATGTCTTTTAGGGTATAGGGTTCACCGTTGCAGCCTCAACCTTTCCCCTCATATCTTCATGGTA
129 CAAGTCTTCTAAGGTATAGGGTTCGCTGTTGCGGCCTCAACCTTTCCCCTTATATCTTCATGGTA
19518024 CCAGA
194 CCAGA
* * *
19518029 TTCGCCGTTGTGGCCTCAATCCTTCCTATCATGTCTTTTAAGGTACAAGGTTTGCCGTTGCAGCC
1 TTCGCCGTTGAGGCCTCAATCCTTCCTATCATGTCTTCTAAGGTACAAGGTTCGCCGTTGCAGCC
* * * **
19518094 TGAACCTTTCCC-TCTATATCCTCATGGTACCAGATTCGCCGTTGCGGCCTTAATCCTTTCCATC
66 TCAACCTTTCCCTTC-ATATCCTCATGGTACCAGATTCGCCGTTGCGACCTCAATCCTACCCATC
* * * *
19518158 ACAG-CTTCTAAGGTATTGGGTTCGCTGTTGTGGCCTCAACCTTT--CCTTTTATTTTCATGGTA
130 A-AGTCTTCTAAGGTATAGGGTTCGCTGTTGCGGCCTCAACCTTTCCCCTTATATCTTCATGGTA
**
19518220 GTAGA
194 CCAGA
* * ** * * ** * *
19518225 TCCACCGTTCCGGCCTCGATCTTTCCTATCATGTCTTCTAAGGTACCGGGTTCACTGTTGC-GAC
1 TTCGCCGTTGAGGCCTCAATCCTTCCTATCATGTCTTCTAAGGTACAAGGTTCGCCGTTGCAG-C
*
19518289 CTCAACCTTTCTCTTCATATC
65 CTCAACCTTTCCCTTCATATC
19518310 TCTATGTTTC
Statistics
Matches: 388, Mismatches: 79, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
195 1 0.00
196 84 0.22
197 7 0.02
198 212 0.55
199 80 0.21
200 4 0.01
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.35
Consensus pattern (198 bp):
TTCGCCGTTGAGGCCTCAATCCTTCCTATCATGTCTTCTAAGGTACAAGGTTCGCCGTTGCAGCC
TCAACCTTTCCCTTCATATCCTCATGGTACCAGATTCGCCGTTGCGACCTCAATCCTACCCATCA
AGTCTTCTAAGGTATAGGGTTCGCTGTTGCGGCCTCAACCTTTCCCCTTATATCTTCATGGTACC
AGA
Found at i:19518941 original size:112 final size:112
Alignment explanation
Indices: 19518752--19518956 Score: 347
Period size: 112 Copynumber: 1.8 Consensus size: 112
19518742 ACTAATCGTC
*
19518752 ATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTAAATTTTATTGGAGGCAA
1 ATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTAAATTTTATTGGAGGCAA
*
19518817 AGCTCGCGTGAATGAAAAGAATAAAAATCATTGGTCCACTAACTGTT
66 AGCTCGCATGAATGAAAAGAATAAAAATCATTGGTCCACTAACTGTT
* * *
19518864 ATTTCGATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTGTTGGAGGCAA
1 ATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTAAATTTTATTGGAGGCAA
* *
19518929 AGCTCGTATGAATGAAAAGATTAAAAAT
66 AGCTCGCATGAATGAAAAGAATAAAAAT
19518957 GACCCACATT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 86 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (112 bp):
ATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTAAATTTTATTGGAGGCAA
AGCTCGCATGAATGAAAAGAATAAAAATCATTGGTCCACTAACTGTT
Found at i:19519287 original size:13 final size:13
Alignment explanation
Indices: 19519269--19519298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19519259 CGACCTCTCC
19519269 TTTTTTT-TTTCT
1 TTTTTTTCTTTCT
19519281 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
19519294 TTTTT
1 TTTTT
19519299 CCTTTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:19519303 original size:12 final size:11
Alignment explanation
Indices: 19519266--19519315 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
19519256 CCTCGACCTC
19519266 TCCTTTTTTTT
1 TCCTTTTTTTT
*
19519277 TTC-TTTTTTT
1 TCCTTTTTTTT
19519287 T-CTTTCTTTTT
1 TCCTTT-TTTTT
* *
19519298 TCCTTTTCTCT
1 TCCTTTTTTTT
19519309 TCCTTTT
1 TCCTTTT
19519316 CTTATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 1 0.03
10 10 0.30
11 18 0.55
12 4 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TCCTTTTTTTT
Found at i:19519304 original size:19 final size:20
Alignment explanation
Indices: 19519268--19519315 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
19519258 TCGACCTCTC
* * *
19519268 CTTTTTTTTTTCTTTTTTTT
1 CTTTCTTTTTTCTCTTTTCT
19519288 CTTTCTTTTTTC-CTTTTCT
1 CTTTCTTTTTTCTCTTTTCT
*
19519307 CTTCCTTTT
1 CTTTCTTTT
19519316 CTTATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTCTTTTTTCTCTTTTCT
Found at i:19519891 original size:81 final size:81
Alignment explanation
Indices: 19519755--19519925 Score: 299
Period size: 81 Copynumber: 2.1 Consensus size: 81
19519745 CCCAACAAAA
* *
19519755 TCTTGATTGATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTC
1 TCTTGATTAATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTATAGGTC
19519820 TCGATCTTCTTGATAT
66 TCGATCTTCTTGATAT
* *
19519836 TCTTGATTAATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTTATGCTAATCTTTATAGGTC
1 TCTTGATTAATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTATAGGTC
19519901 TCGATCTTCTTGATAT
66 TCGATCTTCTTGATAT
19519917 TCTTG-TTAA
1 TCTTGATTAA
19519926 CTGCCTCTAT
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 4 0.05
81 82 0.95
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (81 bp):
TCTTGATTAATGTTCAATAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTATAGGTC
TCGATCTTCTTGATAT
Found at i:19530072 original size:16 final size:15
Alignment explanation
Indices: 19530051--19530080 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19530041 AAGGAAAATT
19530051 CAACTGAAGAATTTGA
1 CAACTGAAG-ATTTGA
19530067 CAACTGAAGATTTG
1 CAACTGAAGATTTG
19530081 GCGTAAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
CAACTGAAGATTTGA
Found at i:19530483 original size:34 final size:34
Alignment explanation
Indices: 19530445--19530510 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
19530435 GTTAGTAACC
19530445 ATTGTCA-TCACATTCT-CATTGTCATTACATTTTA
1 ATTGTCACT-ACATT-TGCATTGTCATTACATTTTA
* *
19530479 ATTGTCACTGCATTTGCATTGTCATTGCATTT
1 ATTGTCACTACATTTGCATTGTCATTACATTT
19530511 CCATTTGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.04
34 26 0.93
35 1 0.04
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.47
Consensus pattern (34 bp):
ATTGTCACTACATTTGCATTGTCATTACATTTTA
Found at i:19530515 original size:17 final size:17
Alignment explanation
Indices: 19530443--19530515 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
19530433 GTGTTAGTAA
*
19530443 CCATTGTCATCACA-TT
1 CCATTGTCATTACATTT
19530459 CTCATTGTCATTACATTT
1 C-CATTGTCATTACATTT
** * *
19530477 TAATTGTCACTGCATTT
1 CCATTGTCATTACATTT
* *
19530494 GCATTGTCATTGCATTT
1 CCATTGTCATTACATTT
19530511 CCATT
1 CCATT
19530516 TGACATTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 1 0.02
17 43 0.93
18 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (17 bp):
CCATTGTCATTACATTT
Found at i:19530830 original size:10 final size:10
Alignment explanation
Indices: 19530799--19530840 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
19530789 GTAAATGTAT
19530799 TTTGATTGAA
1 TTTGATTGAA
* *
19530809 TGTGTTTG-A
1 TTTGATTGAA
19530818 TTTGATTGAA
1 TTTGATTGAA
19530828 TTTGATTGAA
1 TTTGATTGAA
19530838 TTT
1 TTT
19530841 TTTTCAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (10 bp):
TTTGATTGAA
Found at i:19530836 original size:19 final size:19
Alignment explanation
Indices: 19530799--19530836 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19530789 GTAAATGTAT
*
19530799 TTTGATTGAATGTGTTTGA
1 TTTGATTGAATGTGATTGA
*
19530818 TTTGATTGAATTTGATTGA
1 TTTGATTGAATGTGATTGA
19530837 ATTTTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (19 bp):
TTTGATTGAATGTGATTGA
Found at i:19550331 original size:16 final size:17
Alignment explanation
Indices: 19550310--19550343 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
19550300 ATATCCTACT
19550310 AGCCCAAATTT-AACAA
1 AGCCCAAATTTAAACAA
19550326 AGCCCAAATTTAAACAA
1 AGCCCAAATTTAAACAA
19550343 A
1 A
19550344 AAAAAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (17 bp):
AGCCCAAATTTAAACAA
Found at i:19551481 original size:30 final size:30
Alignment explanation
Indices: 19551447--19551602 Score: 143
Period size: 30 Copynumber: 5.2 Consensus size: 30
19551437 AAAATTATGT
* * *
19551447 TTTGACCCCCAAATTTTCAAAAAATTCAAA
1 TTTGACCCTCAAACTTTCTAAAAATTCAAA
*
19551477 TTTGACCCTTCAAACTTTCTAAAATTTCAAA
1 TTTGACCC-TCAAACTTTCTAAAAATTCAAA
** * **
19551508 TTTGACCCTTGAACTTTCTAGAAATTTGAA
1 TTTGACCCTCAAACTTTCTAAAAATTCAAA
* ***
19551538 TTTGACCCTCAAATTTTCTAAAAATTTTGA
1 TTTGACCCTCAAACTTTCTAAAAATTCAAA
* * *
19551568 TTTGACCCCTGAAA-TTTCCAAAAATTAAAA
1 TTTGA-CCCTCAAACTTTCTAAAAATTCAAA
19551598 TTTGA
1 TTTGA
19551603 TCCAATTTTA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
30 70 0.68
31 33 0.32
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTGACCCTCAAACTTTCTAAAAATTCAAA
Found at i:19551583 original size:31 final size:31
Alignment explanation
Indices: 19551410--19551593 Score: 118
Period size: 30 Copynumber: 6.2 Consensus size: 31
19551400 CTTTATTTTT
*
19551410 AAATTTT--TTTGACTCC-CAAATTATT-TAA
1 AAATTTTGATTTGACCCCTCAAATT-TTCTAA
* * *
19551438 AAATTATGTTTTGACCCC-CAAATTTTCAAA
1 AAATTTTGATTTGACCCCTCAAATTTTCTAA
*** * *
19551468 AAATTCAAATTTGACCCTTCAAACTTTCT-A
1 AAATTTTGATTTGACCCCTCAAATTTTCTAA
** ** * *
19551498 AAATTTCAAATTTGA-CCCTTGAACTTTCTAG
1 AAATTT-TGATTTGACCCCTCAAATTTTCTAA
19551529 AAA-TTTGAATTTGA-CCCTCAAATTTTCTAA
1 AAATTTTG-ATTTGACCCCTCAAATTTTCTAA
* *
19551559 AAATTTTGATTTGACCCCTGAAA-TTTCCAA
1 AAATTTTGATTTGACCCCTCAAATTTTCTAA
19551589 AAATT
1 AAATT
19551594 AAAATTTGAT
Statistics
Matches: 124, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.05
29 2 0.02
30 86 0.69
31 30 0.24
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (31 bp):
AAATTTTGATTTGACCCCTCAAATTTTCTAA
Found at i:19551593 original size:60 final size:60
Alignment explanation
Indices: 19551417--19551602 Score: 173
Period size: 60 Copynumber: 3.1 Consensus size: 60
19551407 TTTAAATTTT
* * * *
19551417 TTTGACTCC-CAAATTATT-TAAAAATTATGTTTTGACCCC-CAAATTTTCAAAAAATTCAAA
1 TTTGAC-CCTCAAATT-TTCTAAAAATTTTGATTTGACCCCTGAAA-TTTCAAAAAATTAAAA
* ** * * * * **
19551477 TTTGACCCTTCAAACTTTCT-AAAATTTCAAATTTGACCCTTGAACTTTCTAGAAATTTGAA
1 TTTGACCC-TCAAATTTTCTAAAAATTT-TGATTTGACCCCTGAAATTTCAAAAAATTAAAA
*
19551538 TTTGACCCTCAAATTTTCTAAAAATTTTGATTTGACCCCTGAAATTTCCAAAAATTAAAA
1 TTTGACCCTCAAATTTTCTAAAAATTTTGATTTGACCCCTGAAATTTCAAAAAATTAAAA
19551598 TTTGA
1 TTTGA
19551603 TCCAATTTTA
Statistics
Matches: 99, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
59 2 0.02
60 54 0.55
61 41 0.41
62 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (60 bp):
TTTGACCCTCAAATTTTCTAAAAATTTTGATTTGACCCCTGAAATTTCAAAAAATTAAAA
Found at i:19563638 original size:39 final size:38
Alignment explanation
Indices: 19563492--19563725 Score: 170
Period size: 40 Copynumber: 6.0 Consensus size: 38
19563482 ACATCATCCG
** *
19563492 ATCTCTTACCCCGACCATGGGGCAGATTGAAG-CAATCA
1 ATCTCTTACCCTAACCA-GAGGCAGATTGAAGACAATCA
* * *
19563530 ATCTTTTACCCTAACCAGAGAGTAGATTGAAGATC-ATCCG
1 ATCTCTTACCCTAACCAGAG-GCAGATTGAAGA-CAAT-CA
* *
19563570 ATCTCTTACCCCAACCATGAGGTAGATTGAAGA-AATTCA
1 ATCTCTTACCCTAACCA-GAGGCAGATTGAAGACAA-TCA
* * *
19563609 ATCTCTTACCCTAACTAGAAGGCAAATTGAAGACCATCA
1 ATCTCTTACCCTAACCAG-AGGCAGATTGAAGACAATCA
* * * * *
19563648 GATCTTTTACCCTAACTAGAGGGTAGATTGAAAACCATCA
1 -ATCTCTTACCCTAACCAGA-GGCAGATTGAAGACAATCA
** *
19563688 GATCTCTTACCCCGACCATGTGGCAGATTGAA-ACAATC
1 -ATCTCTTACCCTAACCA-GAGGCAGATTGAAGACAATC
19563726 CAATATTTTA
Statistics
Matches: 159, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
37 2 0.01
38 25 0.16
39 40 0.25
40 88 0.55
41 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCTAACCAGAGGCAGATTGAAGACAATCA
Found at i:19563658 original size:79 final size:78
Alignment explanation
Indices: 19563449--19563679 Score: 241
Period size: 79 Copynumber: 2.9 Consensus size: 78
19563439 TACAACTCTG
* * * * * * *
19563449 AATCTTTTACCCTAATTAGAGGGCAAACTAAAAACATCATCCGATCTCTTACCCCGACCATGGGG
1 AATCTTTTACCCTAACTAGAAGGCAAATTGAAGAC--CATCCGATCTCTTACCCCAACCATGAGG
* *
19563514 CAGATTGAAGCAATC
64 TAGATTGAAGAAATC
* * * *
19563529 AATCTTTTACCCTAACCAG-AGAGTAGATTGAAGATCATCCGATCTCTTACCCCAACCATGAGGT
1 AATCTTTTACCCTAACTAGAAG-GCAAATTGAAGACCATCCGATCTCTTACCCCAACCATGAGGT
19563593 AGATTGAAGAAATTC
65 AGATTGAAGAAA-TC
* * * * *
19563608 AATCTCTTACCCTAACTAGAAGGCAAATTGAAGACCATCAGATCTTTTACCCTAACTA-GAGGGT
1 AATCTTTTACCCTAACTAGAAGGCAAATTGAAGACCATCCGATCTCTTACCCCAACCATGA-GGT
19563672 AGATTGAA
65 AGATTGAA
19563680 AACCATCAGA
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 39 0.31
79 60 0.48
80 26 0.21
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (78 bp):
AATCTTTTACCCTAACTAGAAGGCAAATTGAAGACCATCCGATCTCTTACCCCAACCATGAGGTA
GATTGAAGAAATC
Found at i:19564018 original size:101 final size:101
Alignment explanation
Indices: 19563878--19564060 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 101
19563868 GCTATGAAGG
* *
19563878 CAAATCCTTATCTCTCTGAAGTTGCAATAAAGCAGGATGAAGCTACAAGAACAAATCATATACCC
1 CAAATCCTTATCTCTCTGAAGTTGCAATAAAGCAAGATGAAGCTACAACAACAAATCATATACCC
19563943 CTGAAGTTGTAGTGGGTCGGATTAAAGTCATGAAAA
66 CTGAAGTTGTAGTGGGTCGGATTAAAGTCATGAAAA
* * ** ** * * *
19563979 CAAATCTTTATCTC-CTTGAAGTTGCAGTGGAGCAAGATGAAGCTATGACATCAAATCCTATATC
1 CAAATCCTTATCTCTC-TGAAGTTGCAATAAAGCAAGATGAAGCTACAACAACAAATCATATACC
19564043 CCTGAAGTTGTAGTGGGT
65 CCTGAAGTTGTAGTGGGT
19564061 TTGATTGAGG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 69 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (101 bp):
CAAATCCTTATCTCTCTGAAGTTGCAATAAAGCAAGATGAAGCTACAACAACAAATCATATACCC
CTGAAGTTGTAGTGGGTCGGATTAAAGTCATGAAAA
Found at i:19565522 original size:30 final size:30
Alignment explanation
Indices: 19565453--19565660 Score: 136
Period size: 30 Copynumber: 6.9 Consensus size: 30
19565443 CAAAATATCA
* * *
19565453 AATTTAACCCCTTAAACTTT-CTAAAATTTCA
1 AATTTGACCCC-TAAACTTTCCAAAAATTT-G
** *
19565484 AACATGACCCCTGAACTTTCCAAAAATTTG
1 AATTTGACCCCTAAACTTTCCAAAAATTTG
* * * *
19565514 AATGTGACCCCCAAACTTACCAAAAATTTT
1 AATTTGACCCCTAAACTTTCCAAAAATTTG
* * * **
19565544 AATTTGTCCCTTAAACTTT-CTAAAATTCA
1 AATTTGACCCCTAAACTTTCCAAAAATTTG
* * *
19565573 AATTTGA-CCCTCGAATTTTCCAAAAATCTG
1 AATTTGACCCCT-AAACTTTCCAAAAATTTG
* * *
19565603 AAATTGACCCTTAAATTTTCCAAAAATTTTG
1 AATTTGACCCCTAAACTTTCCAAAAA-TTTG
* * *
19565634 -ATTTGACCCTTGAAGTTTCCAAAAATT
1 AATTTGACCCCTAAACTTTCCAAAAATT
19565661 CAAATTTAAC
Statistics
Matches: 137, Mismatches: 35, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
28 3 0.02
29 20 0.15
30 92 0.67
31 22 0.16
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (30 bp):
AATTTGACCCCTAAACTTTCCAAAAATTTG
Found at i:19565611 original size:89 final size:89
Alignment explanation
Indices: 19565461--19565672 Score: 248
Period size: 89 Copynumber: 2.4 Consensus size: 89
19565451 CAAATTTAAC
** *
19565461 CCCTTAAACTTTCTAAAATTTCAAACATGACCCCTGAACTTTCCAAAAATTTGAATGTGACCCCC
1 CCCTTAAACTTTCTAAAA-TTCAAATTTGACCCCTGAACTTTCCAAAAATCTGAATGTGACCCCC
*
19565526 AAACTTACCAAAAATTTTAATTTGT
65 AAACTTACCAAAAATTTTAATTTGA
* *
19565551 CCCTTAAACTTTCTAAAATTCAAATTTGA-CCCTCGAATTTTCCAAAAATCTGAAAT-TGACCCT
1 CCCTTAAACTTTCTAAAATTCAAATTTGACCCCT-GAACTTTCCAAAAATCTG-AATGTGACCCC
* * * *
19565614 TAAATTTTCCAAAAATTTTGATTTGA
64 CAAACTTACCAAAAATTTTAATTTGA
* * * *
19565640 CCCTTGAAGTTTCCAAAAATTCAAATTTAACCC
1 CCCTTAAACTTT-CTAAAATTCAAATTTGACCC
19565673 GGTTTTATTA
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 4 0.04
89 62 0.60
90 36 0.35
91 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (89 bp):
CCCTTAAACTTTCTAAAATTCAAATTTGACCCCTGAACTTTCCAAAAATCTGAATGTGACCCCCA
AACTTACCAAAAATTTTAATTTGA
Found at i:19572512 original size:184 final size:184
Alignment explanation
Indices: 19572203--19572565 Score: 591
Period size: 184 Copynumber: 2.0 Consensus size: 184
19572193 CCAAGGACAT
** * * *
19572203 GAAGCGACGCAAGGAGAAGCTGAAACAAAAGAAGAAGAAGACCCATGCAGCCACATCTTCGACTA
1 GAAGCGACGCAAGGAGAAGCACAAACAAAAGAAAAAAAAGACCCATGCAGCCACATATTCGACTA
*
19572268 CAGCACACTAAGTTAGTTTTTATTTTCGGTACTTAGTTTAGTTTTCATGCATATCATATAGTTGT
66 CAGCACACTAAGTTAGTTTTTATTTTCGGTACTTAGTTTAGTTTTCATGCATATCATATAGCTGT
*
19572333 CATCACATTTCGTTTGTCATTGCATTTTTCTTGTCACTGCATCTTCATTGTTAA
131 CATCACATTTCGTTTGTCATTGCATTTTTCTTGTCACTACATCTTCATTGTTAA
* * * * * *
19572387 GAAGCGACGTAAGGAGGAGCACAAACGAAAGAAAAAAAAGACCCATGTAGCCACATATTCTACTG
1 GAAGCGACGCAAGGAGAAGCACAAACAAAAGAAAAAAAAGACCCATGCAGCCACATATTCGACTA
*
19572452 CAGCACACTGAGTTAGTTTTTATTTTCGGTACTTAGTTTAGTTTTCATGCATATCATATAGCTGT
66 CAGCACACTAAGTTAGTTTTTATTTTCGGTACTTAGTTTAGTTTTCATGCATATCATATAGCTGT
*
19572517 CATCACATTTCGTTTGTCGTTGCATTTTTCTTGTCACTACATCTTCATT
131 CATCACATTTCGTTTGTCATTGCATTTTTCTTGTCACTACATCTTCATT
19572566 ATCATTGCAT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
184 164 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (184 bp):
GAAGCGACGCAAGGAGAAGCACAAACAAAAGAAAAAAAAGACCCATGCAGCCACATATTCGACTA
CAGCACACTAAGTTAGTTTTTATTTTCGGTACTTAGTTTAGTTTTCATGCATATCATATAGCTGT
CATCACATTTCGTTTGTCATTGCATTTTTCTTGTCACTACATCTTCATTGTTAA
Found at i:19578147 original size:9 final size:9
Alignment explanation
Indices: 19578135--19578171 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
19578125 TTTTCTAATT
19578135 TTTAATTTA
1 TTTAATTTA
19578144 TTTAATTTA
1 TTTAATTTA
*
19578153 -TTAACTT-
1 TTTAATTTA
19578160 TTTAATTTA
1 TTTAATTTA
19578169 TTT
1 TTT
19578172 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTAATTTA
Found at i:19578151 original size:16 final size:15
Alignment explanation
Indices: 19578117--19578167 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
19578107 GGTAGTAAGA
*
19578117 AATTTTT-ATTTTCT
1 AATTTTTAATTTTTT
19578131 AATTTTTAATTTATTT
1 AATTTTTAATTT-TTT
*
19578147 AATTTATTAACTTTTT
1 AATTT-TTAATTTTTT
19578163 AATTT
1 AATTT
19578168 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
16 15 0.47
17 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:19578164 original size:8 final size:7
Alignment explanation
Indices: 19578117--19578167 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 7
19578107 GGTAGTAAGA
19578117 AATTTTT
1 AATTTTT
19578124 -ATTTTCT
1 AATTTT-T
19578131 AATTTTT
1 AATTTTT
19578138 AATTTATTT
1 AA-TT-TTT
19578147 AATTTATT
1 AATTT-TT
19578155 AACTTTTT
1 AA-TTTTT
19578163 AATTT
1 AATTT
19578168 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 5 0.13
7 8 0.21
8 17 0.45
9 8 0.21
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:19582361 original size:26 final size:27
Alignment explanation
Indices: 19582332--19582394 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
19582322 GGATGTTGTT
19582332 ATGCAGTGACAAC-TCTGGACACCTTC
1 ATGCAGTGACAACTTCTGGACACCTTC
* * **
19582358 ATGCATTGA-TACTTCTGGACAGGTTC
1 ATGCAGTGACAACTTCTGGACACCTTC
*
19582384 CTGCAGTGACA
1 ATGCAGTGACA
19582395 TTTCTAGGCA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (27 bp):
ATGCAGTGACAACTTCTGGACACCTTC
Found at i:19582986 original size:13 final size:13
Alignment explanation
Indices: 19582968--19582992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19582958 ATTAATTTAG
19582968 TTTAGATTAATAC
1 TTTAGATTAATAC
19582981 TTTAGATTAATA
1 TTTAGATTAATA
19582993 TCCTTCACAA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:19583989 original size:21 final size:21
Alignment explanation
Indices: 19583965--19584033 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
19583955 AGATTTATAT
19583965 CGATACAAGTGATAGTTCTAC
1 CGATACAAGTGATAGTTCTAC
*
19583986 CGATACAAGTG-TCACTTCTAC
1 CGATACAAGTGAT-AGTTCTAC
* **
19584007 CGACACAAGCCAT-GCTTCTAC
1 CGATACAAGTGATAG-TTCTAC
19584028 CGATAC
1 CGATAC
19584034 CAAAAACTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (21 bp):
CGATACAAGTGATAGTTCTAC
Found at i:19590598 original size:18 final size:18
Alignment explanation
Indices: 19590552--19590598 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
19590542 CCTCGAGATA
* *
19590552 TTCTTCTTCAGGATCTTC
1 TTCTTCTTTAAGATCTTC
*
19590570 TTCTTCCTTAAGATCTTC
1 TTCTTCTTTAAGATCTTC
19590588 TTCTTCTTTAA
1 TTCTTCTTTAA
19590599 CAGAATCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.53
Consensus pattern (18 bp):
TTCTTCTTTAAGATCTTC
Found at i:19596629 original size:18 final size:18
Alignment explanation
Indices: 19596606--19596656 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
19596596 TCTTCCTCGA
*
19596606 GATCTTCTTTTTCTTCAG
1 GATCTTCTTCTTCTTCAG
* *
19596624 GATCTTCTTCTTCCTCGG
1 GATCTTCTTCTTCTTCAG
19596642 GATCTTCTTCTTCTT
1 GATCTTCTTCTTCTT
19596657 TAATAGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.08, C:0.27, G:0.12, T:0.53
Consensus pattern (18 bp):
GATCTTCTTCTTCTTCAG
Found at i:19605791 original size:26 final size:25
Alignment explanation
Indices: 19605762--19605810 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
19605752 AGTAAAAATA
*
19605762 TTAACAATTTAAAATAAATTAAAAAC
1 TTAACAAATT-AAATAAATTAAAAAC
*
19605788 TTAATAAATTAAATAAATTAAAA
1 TTAACAAATTAAATAAATTAAAA
19605811 TTTAAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAACAAATTAAATAAATTAAAAAC
Found at i:19605804 original size:9 final size:9
Alignment explanation
Indices: 19605773--19605809 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
19605763 TAACAATTTA
19605773 AAATAAATT
1 AAATAAATT
*
19605782 AAA-AACTT
1 AAATAAATT
19605790 -AATAAATT
1 AAATAAATT
19605798 AAATAAATT
1 AAATAAATT
19605807 AAA
1 AAA
19605810 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 8 0.33
9 14 0.58
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:19613666 original size:33 final size:33
Alignment explanation
Indices: 19613624--19613686 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
19613614 CCCCTTAGGG
19613624 ATCATGGGGGCATTGTACAGGTTATGGAGAGGT
1 ATCATGGGGGCATTGTACAGGTTATGGAGAGGT
*
19613657 ATCATGGGGGCATTGTACAGGTTATTGAGA
1 ATCATGGGGGCATTGTACAGGTTATGGAGA
19613687 TGGAACTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.37, T:0.29
Consensus pattern (33 bp):
ATCATGGGGGCATTGTACAGGTTATGGAGAGGT
Found at i:19624145 original size:16 final size:16
Alignment explanation
Indices: 19624124--19624154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19624114 ATAATGTGAA
19624124 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
19624140 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
19624155 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:19641961 original size:30 final size:30
Alignment explanation
Indices: 19641895--19642067 Score: 158
Period size: 30 Copynumber: 5.7 Consensus size: 30
19641885 GTTAAAATTT
*
19641895 AATTTTTAGAAAGTTTAGGGGTCAAAGT-A
1 AATTTTTAGAAAGTTTAGGGGTCAAAATGA
*
19641924 TAGTTTTTAGAAAGTTTAGGGGTCAAAATGA
1 -AATTTTTAGAAAGTTTAGGGGTCAAAATGA
* *
19641955 AATTTTTTTAGAAA-TATTAAGGTTCAAAAATGA
1 AA--TTTTTAGAAAGT-TTAGGGGTC-AAAATGA
* *
19641988 AA-TTTAAGAAAG-TTAGAGGGCCAAAATGA
1 AATTTTTAGAAAGTTTAG-GGGTCAAAATGA
* *
19642017 AATTTTTAAAAAGTTTAGGGGTCAAATTTG-
1 AATTTTTAGAAAGTTTAGGGGTCAAA-ATGA
* *
19642047 AATTTTTGGAAAGTTTGGGGG
1 AATTTTTAGAAAGTTTAGGGG
19642068 CTGAAATATA
Statistics
Matches: 117, Mismatches: 16, Indels: 20
0.76 0.10 0.13
Matches are distributed among these distances:
29 12 0.10
30 71 0.61
31 8 0.07
32 17 0.15
33 9 0.08
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTAGGGGTCAAAATGA
Found at i:19641982 original size:62 final size:62
Alignment explanation
Indices: 19641897--19642042 Score: 149
Period size: 62 Copynumber: 2.4 Consensus size: 62
19641887 TAAAATTTAA
* * ** * *
19641897 TTTTTAGAAAGTTTAGGGGTCAAAGTAT-AGTTTTTAGAAAGTTTAG-GGGTCAAAATGAAATT
1 TTTTTAGAAAGTTTAAGGGTCAAA-AATGAAATTTAAGAAAG-TTAGAGGGCCAAAATGAAATT
*
19641959 TTTTTAGAAA-TATTAAGGTTCAAAAATGAAATTTAAGAAAGTTAGAGGGCCAAAATGAAA--
1 TTTTTAGAAAGT-TTAAGGGTCAAAAATGAAATTTAAGAAAGTTAGAGGGCCAAAATGAAATT
* *
19642019 TTTTTAAAAAGTTTAGGGGTCAAA
1 TTTTTAGAAAGTTTAAGGGTCAAA
19642043 TTTGAATTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
60 19 0.27
61 8 0.11
62 43 0.61
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (62 bp):
TTTTTAGAAAGTTTAAGGGTCAAAAATGAAATTTAAGAAAGTTAGAGGGCCAAAATGAAATT
Found at i:19642247 original size:35 final size:34
Alignment explanation
Indices: 19642182--19642248 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
19642172 AAATGAAATA
* *
19642182 AAATTATAGGATAAATTTTAAAAAATAAAAAAGG
1 AAATTAAAGGATAAATTTGAAAAAATAAAAAAGG
*
19642216 AAATTAAAGGATGAAATTGTGAAAACA-AAAAAA
1 AAATTAAAGGAT-AAATT-TGAAAAAATAAAAAA
19642249 TGCGAAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.39
35 11 0.39
36 6 0.21
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.22
Consensus pattern (34 bp):
AAATTAAAGGATAAATTTGAAAAAATAAAAAAGG
Found at i:19643561 original size:45 final size:46
Alignment explanation
Indices: 19643461--19643571 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 46
19643451 GCTTCTGTGA
* * ** * * *
19643461 GATGGTAGCTTCAATCTTTCCCTCTTGATTTAGGGGTAAAAGATTG
1 GATGGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGTAAAAGATTG
*
19643507 GATTGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGT-AAAGATTG
1 GATGGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGTAAAAGATTG
19643552 GATGGTGGCTTTAATCTGCC
1 GATGGTGGCTTTAATCTGCC
19643572 TCATGATCCA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
45 27 0.48
46 29 0.52
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (46 bp):
GATGGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGTAAAAGATTG
Found at i:19643705 original size:78 final size:78
Alignment explanation
Indices: 19643494--19644424 Score: 700
Period size: 78 Copynumber: 11.7 Consensus size: 78
19643484 CTTGATTTAG
* * *
19643494 GGGTAAAAGATTGGATTGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGTAA-AGATTGGATGGT
1 GGGTAAGAGATTGGA-TGT--CTTCAATCTG-CCCT-ATGA-TT-AGGGTAAGAGATTGGAT-GT
* * *
19643558 GGCTTTAATCTGCCTCATGATCCA
58 --CTTCAATCTGCCTTATGAT-TA
* **
19643582 -GGTAAGAGATTGGATGATGTCTTCAATCTACCCTATGATCGGGGTAAGAGATTGGATGTCTTCA
1 GGGTAAGAGATT-G--GATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATGTCTTCA
*
19643646 ATATGCCTTATGATTA
63 ATCTGCCTTATGATTA
* * *
19643662 GGGTAAGAGACTGGATGTCTTCAATGTGCCCTATGATTAGGGTAAGAGATTAGATG-CTTCAATC
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATGTCTTCAATC
** **
19643726 TGCCCCATGATCG
66 TGCCTTATGATTA
* *
19643739 GGGTAAGAGATTGGGTTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGGAT-TCTTCAAT
1 GGGTAAGAGATT-GGATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATGTCTTCAAT
* ** *
19643803 CTACCCCATGATTG
65 CTGCCTTATGATTA
* ** * *
19643817 GGGTAAGAGAATGGATGATGTCTTCAATCTGCCCTATGATCGGGGCAAGAGATTGGTGTGTCTTC
1 GGGTAAGAG-ATTG--GATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGG-ATGTCTTC
* * *
19643882 AATCTACCATATGATCA
62 AATCTGCCTTATGATTA
* **
19643899 GGGTAAGAGATTGG-TGTGCATCCAATCTGCTCC-ATGATCGGGGTAAGAGATTAGTG-TGTCTT
1 GGGTAAGAGATTGGATGT-C-TTCAATCTGC-CCTATGATTAGGGTAAGAGATT-G-GATGTCTT
19643961 CAATCTGCTCTT-TGATTA
61 CAATCTGC-CTTATGATTA
*
19643979 GGGTAAGCGATTGGAT-TCTTCAATCTGCTCC-ATGATTAGGGTAAGAGATTGGATGATGTCTTC
1 GGGTAAGAGATTGGATGTCTTCAATCTGC-CCTATGATTAGGGTAAGAGATT-G--GATGTCTTC
* ** *
19644042 AATCCGCCCAATGA-TC
62 AATCTGCCTTATGATTA
* * * * *
19644058 GAGGTAAGAGATTGGTGTGTCTTCAATCTTCCCTCTGATTAGGGTAAGCGATTGGATTATCTTCA
1 G-GGTAAGAGATTGG-ATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGA-TGTCTTCA
* * *
19644123 ATTTGCCTTCTAATTA
63 ATCTGCCTTATGATTA
* * * * * *
19644139 AGGT-A-AGATTAGA--TCTTGAATCTGCCCCATGA-TCGAGGTAAGAGATTGGTGTGTCTTCAA
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTAG-GGTAAGAGATTGG-ATGTCTTCAA
*
19644199 TCTGCCTTCTGATTA
64 TCTGCCTTATGATTA
* * * * * * *
19644214 AGGTAAAATATTGGATG-CTTCAATTTGCCCTATAATCAGGGTAAGAGATTGGTGTGTCTTCAAT
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGG-ATGTCTTCAAT
* * **
19644278 TTGCCTCATGATCG
65 CTGCCTTATGATTA
* * *
19644292 GGGTAAGATATTGG-TGTCTCTTCAATCTGCCC-ACTGATTAGAGTAAGCGATTGGATTGTCTTC
1 GGGTAAGAGATTGGATG--TCTTCAATCTGCCCTA-TGATTAGGGTAAGAGATTGGA-TGTCTTC
* *
19644355 AATCTTCCTTCTGATTA
62 AATCTGCCTTATGATTA
* * *
19644372 AGGT-A-AGATTGGATG-CTTCAATCTGCCCCATGACTAGGGTAAGAGATTGGATG
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
19644425 ATGTCTTCGC
Statistics
Matches: 689, Mismatches: 112, Indels: 97
0.77 0.12 0.11
Matches are distributed among these distances:
74 2 0.00
75 54 0.08
76 32 0.05
77 36 0.05
78 211 0.31
79 18 0.03
80 190 0.28
81 41 0.06
82 56 0.08
83 8 0.01
84 10 0.01
85 3 0.00
86 4 0.01
87 18 0.03
88 1 0.00
89 3 0.00
90 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (78 bp):
GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATGTCTTCAATC
TGCCTTATGATTA
Found at i:19643783 original size:40 final size:39
Alignment explanation
Indices: 19643494--19644424 Score: 675
Period size: 40 Copynumber: 23.4 Consensus size: 39
19643484 CTTGATTTAG
* * *
19643494 GGGTAAAAGATTGGATTGTGGCTTTAATCTGCCCCTCCTGACTTAA
1 GGGTAAGAGATTGGA-TGT--CTTCAATCTG-CCCT-ATGA-TT-A
* *
19643540 GGGTAA-AGATTGGATGGTGGCTTTAATCTG-CCTCATGATCCA
1 GGGTAAGAGATTGGAT-GT--CTTCAATCTGCCCT-ATGAT-TA
* **
19643582 -GGTAAGAGATTGGATGATGTCTTCAATCTACCCTATGATCG
1 GGGTAAGAGATT-G--GATGTCTTCAATCTGCCCTATGATTA
* *
19643623 GGGTAAGAGATTGGATGTCTTCAATATGCCTTATGATTA
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* *
19643662 GGGTAAGAGACTGGATGTCTTCAATGTGCCCTATGATTA
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* * **
19643701 GGGTAAGAGATTAGATG-CTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* *
19643739 GGGTAAGAGATTGGGTTGTCTTCAATCTGCCCTTTGATTA
1 GGGTAAGAGATT-GGATGTCTTCAATCTGCCCTATGATTA
* * *
19643779 GGGTAAGAGATTGGAT-TCTTCAATCTACCCCATGATTG
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* **
19643817 GGGTAAGAGAATGGATGATGTCTTCAATCTGCCCTATGATCG
1 GGGTAAGAG-ATTG--GATGTCTTCAATCTGCCCTATGATTA
* * * * *
19643859 GGGCAAGAGATTGGTGTGTCTTCAATCTACCATATGATCA
1 GGGTAAGAGATTGG-ATGTCTTCAATCTGCCCTATGATTA
* **
19643899 GGGTAAGAGATTGG-TGTGCATCCAATCTGCTCC-ATGATCG
1 GGGTAAGAGATTGGATGT-C-TTCAATCTGC-CCTATGATTA
* *
19643939 GGGTAAGAGATTAGTG-TGTCTTCAATCTGCTCTTTGATTA
1 GGGTAAGAGATT-G-GATGTCTTCAATCTGCCCTATGATTA
*
19643979 GGGTAAGCGATTGGAT-TCTTCAATCTGCTCC-ATGATTA
1 GGGTAAGAGATTGGATGTCTTCAATCTGC-CCTATGATTA
* * *
19644017 GGGTAAGAGATTGGATGATGTCTTCAATCCGCCCAATGA-TC
1 GGGTAAGAGATT-G--GATGTCTTCAATCTGCCCTATGATTA
* * *
19644058 GAGGTAAGAGATTGGTGTGTCTTCAATCTTCCCTCTGATTA
1 G-GGTAAGAGATTGG-ATGTCTTCAATCTGCCCTATGATTA
* * * * * *
19644099 GGGTAAGCGATTGGATTATCTTCAATTTGCCTTCTAATTA
1 GGGTAAGAGATTGGA-TGTCTTCAATCTGCCCTATGATTA
* * * * *
19644139 AGGT-A-AGATTAGA--TCTTGAATCTGCCCCATGA-TC
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* * *
19644173 GAGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTA
1 G-GGTAAGAGATTGG-ATGTCTTCAATCTGCCCTATGATTA
* * * * * *
19644214 AGGTAAAATATTGGATG-CTTCAATTTGCCCTATAATCA
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
* * **
19644252 GGGTAAGAGATTGGTGTGTCTTCAATTTG-CCTCATGATCG
1 GGGTAAGAGATTGG-ATGTCTTCAATCTGCCCT-ATGATTA
*
19644292 GGGTAAGATATTGG-TGTCTCTTCAATCTGCCC-ACTGATTA
1 GGGTAAGAGATTGGATG--TCTTCAATCTGCCCTA-TGATTA
* * * * *
19644332 GAGTAAGCGATTGGATTGTCTTCAATCTTCCTTCTGATTA
1 GGGTAAGAGATTGGA-TGTCTTCAATCTGCCCTATGATTA
* * *
19644372 AGGT-A-AGATTGGATG-CTTCAATCTGCCCCATGACTA
1 GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
19644408 GGGTAAGAGATTGGATG
1 GGGTAAGAGATTGGATG
19644425 ATGTCTTCGC
Statistics
Matches: 713, Mismatches: 121, Indels: 110
0.76 0.13 0.12
Matches are distributed among these distances:
34 1 0.00
35 16 0.02
36 20 0.03
37 9 0.01
38 141 0.20
39 99 0.14
40 263 0.37
41 29 0.04
42 90 0.13
43 11 0.02
44 3 0.00
45 25 0.04
46 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
GGGTAAGAGATTGGATGTCTTCAATCTGCCCTATGATTA
Found at i:19643870 original size:120 final size:118
Alignment explanation
Indices: 19643494--19644432 Score: 793
Period size: 120 Copynumber: 7.9 Consensus size: 118
19643484 CTTGATTTAG
* * *
19643494 GGGTAAAAGATTGGATTGTGGCTTTAATCTGCCCCTCCTGACTTAAGGGTAA-AGATTGGATGGT
1 GGGTAAGAGATTGG-TTGT--CTTCAATCTG-CCCT-TTGA-TT-AGGGTAAGAGATTGGAT-GT
* * ** * **
19643558 GGCTTTAATCTGCCTCATGATCCAGGTAAGAGATTGGATGATGTCTTCAATCTACCCTATGATCG
58 --CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTATGATTA
* * *
19643623 GGGTAAGAGATTGGATGTCTTCAATATG-CCTTATGATTAGGGTAAGAGACTGGATGTCTTCAAT
1 GGGTAAGAGATTGGTTGTCTTCAATCTGCCCTT-TGATTAGGGTAAGAGATTGGATGTCTTCAAT
* * ** * * * **
19643687 GTGCCCTATGATTAGGGTAAGAGATTAG-ATG-CTTCAATCTGCCCCATGATCG
65 CTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTATGATTA
19643739 GGGTAAGAGATTGGGTTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGGAT-TCTTCAAT
1 GGGTAAGAGATT-GGTTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGGATGTCTTCAAT
* * * **
19643803 CTACCCCATGATTGGGGTAAGAGAATGGATGATGTCTTCAATCTGCCCTATGATCG
65 CTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTATGATTA
* * * * * *
19643859 GGGCAAGAGATTGGTGTGTCTTCAATCTACCATATGATCAGGGTAAGAGATTGG-TGTGCATCCA
1 GGGTAAGAGATTGGT-TGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGGATGT-C-TTCA
* * * *
19643923 ATCTGCTCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATCTGCTCTTTGATTA
63 ATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTATGATTA
* * *
19643979 GGGTAAGCGATTGGAT-TCTTCAATCTGCTCC-ATGATTAGGGTAAGAGATTGGATGATGTCTTC
1 GGGTAAGAGATTGGTTGTCTTCAATCTGC-CCTTTGATTAGGGTAAGAGATT-G--GATGTCTTC
* * * * *
19644042 AATCCGCCCAATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTTCCCTCTGATTA
62 AATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTATGATTA
* * * * * * *
19644099 GGGTAAGCGATTGGATTATCTTCAATTTG-CCTTCTAATTAAGGT-A-AGATTAGA--TCTTGAA
1 GGGTAAGAGATTGG-TTGTCTTCAATCTGCCCTT-TGATTAGGGTAAGAGATTGGATGTCTTCAA
* * *
19644159 TCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTA
64 TCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTATGATTA
* * * * * * * * *
19644214 AGGTAAAATATTGGATG-CTTCAATTTGCCCTATAATCAGGGTAAGAGATTGGTGTGTCTTCAAT
1 GGGTAAGAGATTGGTTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGG-ATGTCTTCAAT
* * * *
19644278 TTGCCTCATGATCGGGGTAAGATATTGGTGTCTCTTCAATCTGCCC-ACTGATTA
65 CTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTA-TGATTA
* * * *
19644332 GAGTAAGCGATTGGATTGTCTTCAATCT-TCCTTCTGATTAAGGT-A-AGATTGGATG-CTTCAA
1 GGGTAAGAGATTGG-TTGTCTTCAATCTGCCCTT-TGATTAGGGTAAGAGATTGGATGTCTTCAA
*
19644393 TCTGCCCCATGA-CTAGGGTAAGAGATTGGATGATGTCTTC
64 TCTGCCCCATGATC-GGGGTAAGAGATTGG-TG-TGTCTTC
19644433 GCTTTGCTTT
Statistics
Matches: 670, Mismatches: 106, Indels: 79
0.78 0.12 0.09
Matches are distributed among these distances:
113 18 0.03
114 5 0.01
115 74 0.11
116 90 0.13
117 43 0.06
118 108 0.16
119 15 0.02
120 212 0.32
121 7 0.01
122 58 0.09
123 10 0.01
124 6 0.01
126 8 0.01
128 3 0.00
129 13 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (118 bp):
GGGTAAGAGATTGGTTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGGATGTCTTCAATC
TGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTATGATTA
Found at i:19644357 original size:233 final size:236
Alignment explanation
Indices: 19643921--19644432 Score: 689
Period size: 233 Copynumber: 2.2 Consensus size: 236
19643911 GGTGTGCATC
* * * * *
19643921 CAATCTGCTCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATCTGCTCTTTGATTAGGGTAAG
1 CAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCTCTTTGATTAAGGTAAA
* * * *
19643986 CGATTGGATTCTTCAATCTGCTCCATGATTAGGGTAAGAGATTGGATGATGTCTTCAATCCGCCC
66 AGATTGGATGCTTCAATCTGCTCCATAATCAGGGTAAGAGATTGGATGATGTCTTCAATCCGCCC
* * * *
19644051 AATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTTCCCTCTGATTAGGGTAAGCGATTGGATT
131 AATGATCGAGGTAAGAGATTGGTGTCTCTTCAATCTGCCCACTGATTAGAGTAAGCGATTGGATT
19644116 ATCTTCAAT-TTGCCTTCTAATTAAGGTAAGATTAGAT-CTT
196 ATCTTCAATCTT-CCTTCTAATTAAGGTAAGATTAGATGCTT
*
19644156 GAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGC-CTTCTGATTAAGGTAA
1 CAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCTCTT-TGATTAAGGTAA
* * **
19644220 AATATTGGATGCTTCAATTTGC-CCTATAATCAGGGTAAGAGATTGG-TG-TGTCTTCAATTTGC
65 AAGATTGGATGCTTCAATCTGCTCC-ATAATCAGGGTAAGAGATTGGATGATGTCTTCAATCCGC
* *
19644282 CTC-ATGATCGGGGTAAGATATTGGTGTCTCTTCAATCTGCCCACTGATTAGAGTAAGCGATTGG
129 C-CAATGATCGAGGTAAGAGATTGGTGTCTCTTCAATCTGCCCACTGATTAGAGTAAGCGATTGG
* * *
19644346 ATTGTCTTCAATCTTCCTTCTGATTAAGGTAAGATTGGATGCTT
193 ATTATCTTCAATCTTCCTTCTAATTAAGGTAAGATTAGATGCTT
*
19644390 CAATCTGCCCCATGA-CTAGGGTAAGAGATTGGATGATGTCTTC
1 CAATCTGCCCCATGATCGA-GGTAAGAGATTGG-TG-TGTCTTC
19644433 GCTTTGCTTT
Statistics
Matches: 244, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
233 104 0.43
234 40 0.16
235 93 0.38
236 7 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (236 bp):
CAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCAATCTGCTCTTTGATTAAGGTAAA
AGATTGGATGCTTCAATCTGCTCCATAATCAGGGTAAGAGATTGGATGATGTCTTCAATCCGCCC
AATGATCGAGGTAAGAGATTGGTGTCTCTTCAATCTGCCCACTGATTAGAGTAAGCGATTGGATT
ATCTTCAATCTTCCTTCTAATTAAGGTAAGATTAGATGCTT
Found at i:19644732 original size:50 final size:50
Alignment explanation
Indices: 19644663--19645340 Score: 600
Period size: 50 Copynumber: 13.7 Consensus size: 50
19644653 TGAGATTCAT
* * ** *
19644663 CGTTGCAGCCTCAATCTTTCCAATCACATCTTCTAAGGTATCGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * * * *
19644713 CGTTGTGGCCTCCACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCAC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
** * * * *
19644762 CGTTGTAGCCTCAATCC-TTCCCATCACATTTTCTAAGGTACCGGGTTTGT
1 CGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* *
19644812 CATTGCGGCCTCAACCTTTCCCTTTACATCTTCTAAGGTACCGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * *
19644862 CGTTGTGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
** ** * * * * * *
19644911 TATTGCAACCTCAATCTTTTCCATCACATTTTCTAAGGTACCAGGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * *
19644961 CGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTAAGGTACCGAGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * ** *
19645011 CGTTGCGGCCTCAACCTTTCGCTTCATATCTTC-ATGGTACCGAATTCAC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * * **
19645060 CGTTGCAGCCTCAATCC-TTCCCATCACATCTTCTAAGGTATCGAGTTCAT
1 CGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * * * * *
19645110 TGTTGCGGCGTCAACCTTTCCCTTAATATCTTC-ATGGTACCGGATTAGC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * *
19645159 CGTTACGGCCTCAATCC-TTCCCATAACATCTTCTAAGGTACCGAGTTCGC
1 CGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * * * **
19645209 CATTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATCGGATTCAT
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * * *
19645258 CATTGCGACCTCAATCC-TTCCCATCACATCTTCTAAGGTACTGGGTTCGC
1 CGTTGCGGCCTCAA-CCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
* * *
19645308 CATTGCGGTCTCAACCTTTCCCTTCATATCTTC
1 CGTTGCGGCCTCAACCTTTCCCTTCACATCTTC
19645341 ATGCTCCCTC
Statistics
Matches: 492, Mismatches: 123, Indels: 26
0.77 0.19 0.04
Matches are distributed among these distances:
49 192 0.39
50 300 0.61
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (50 bp):
CGTTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGC
Found at i:19644822 original size:99 final size:99
Alignment explanation
Indices: 19644656--19645343 Score: 767
Period size: 99 Copynumber: 6.9 Consensus size: 99
19644646 CAGAGTATGA
* * * * * *
19644656 GATTCATCGTTGCAGCCTCAATCTTTCCAATCACATCTTCTAAGGTATCGGGTTCGCCGTTGTGG
1 GATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCGG
*
19644721 CCTCCACCTTTCCCTTCATATCTTCATGGTACCG
66 CCTCAACCTTTCCCTTCATATCTTCATGGTACCG
* * * *
19644755 GATTCACCGTTGTAGCCTCAATCCTTCCCATCACATTTTCTAAGGTACCGGGTTTGTCATTGCGG
1 GATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCGG
* * *
19644820 CCTCAACCTTTCCCTTTACATCTTCTAAGGTACCG
66 CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCG
* * ** * * * * * *
19644855 GGTTCGCCGTTGTGGCCTCAA-CCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGCTATTGCA
1 GATTCACCGTTGCAGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCG
* * * * * * *
19644918 ACCTCAATCTTTTCCATCACATTTTCTAAGGTACCAG
65 GCCTCAACCTTTCCCTTCATATCTTC-ATGGTACC-G
* * * * * *
19644955 G-TTCACCGTTGCGGCCTCAA-CCTTTCCCTTTACATCTTTTAAGGTACCGAGTTCGCCGTTGCG
1 GATTCACCGTTGCAGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCG
*
19645018 GCCTCAACCTTTCGCTTCATATCTTCATGGTACCG
65 GCCTCAACCTTTCCCTTCATATCTTCATGGTACCG
* * * ****
19645053 AATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTATCGAGTTCATTGTTGCGG
1 GATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCGG
* *
19645118 CGTCAACCTTTCCCTTAATATCTTCATGGTACCG
66 CCTCAACCTTTCCCTTCATATCTTCATGGTACCG
* * * *
19645152 GATT-AGCCGTTACGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACCGAGTTCGCCATTGCG
1 GATTCA-CCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCG
*
19645216 GCCTCAACCTTTCCCTTCATATCTTCATGGTATCG
65 GCCTCAACCTTTCCCTTCATATCTTCATGGTACCG
* * *
19645251 GATTCATCATTGC-GACCTCAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTCGCCATTGCG
1 GATTCACCGTTGCAG-CCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCG
*
19645315 GTCTCAACCTTTCCCTTCATATCTTCATG
65 GCCTCAACCTTTCCCTTCATATCTTCATG
19645344 CTCCCTCGGT
Statistics
Matches: 498, Mismatches: 82, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
98 3 0.01
99 415 0.83
100 80 0.16
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (99 bp):
GATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCATTGCGG
CCTCAACCTTTCCCTTCATATCTTCATGGTACCG
Found at i:19644940 original size:149 final size:149
Alignment explanation
Indices: 19644658--19645343 Score: 772
Period size: 149 Copynumber: 4.6 Consensus size: 149
19644648 GAGTATGAGA
* * * ** * *
19644658 TTCATCGTTGCAGCCTCAATCTTTCCAATCACATCTTCTAAGGTATCGGGTTCGCCGTTGTGGCC
1 TTCATCATTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCC
* * *
19644723 TCCACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTGTAGCCTCAATCCTTCCCATCA
66 TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATTGCAGCCTCAATCCTTCCCATCA
*
19644788 CATTTTCTAAGGTACCGGG
131 CATCTTCTAAGGTACCGGG
** * *
19644807 TTTGTCATTGCGGCCTCAACCTTTCCCTTTACATCTTCTAAGGTACCGGGTTCGCCGTTGTGGCC
1 TTCATCATTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCC
* * * * *
19644872 TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTATTGCAACCTCAATCTTTTCCATCA
66 TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATTGCAGCCTCAATCCTTCCCATCA
* *
19644937 CATTTTCTAAGGTACCAGG
131 CATCTTCTAAGGTACCGGG
* * * * *
19644956 TTCACCGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTAAGGTACCGAGTTCGCCGTTGCGGCC
1 TTCATCATTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCC
* * *
19645021 TCAACCTTTCGCTTCATATCTTCATGGTACCGAATTCACCGTTGCAGCCTCAATCCTTCCCATCA
66 TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATTGCAGCCTCAATCCTTCCCATCA
* *
19645086 CATCTTCTAAGGTATCGAG
131 CATCTTCTAAGGTACCGGG
** * * * * * * *
19645105 TTCATTGTTGCGGCGTCAACCTTTCCCTTAATATCTTC-ATGGTACCGGATTAGCCGTTACGGCC
1 TTCATCATTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCC
* * * * * *
19645169 TCAATCC-TTCCCATAACATCTTCTAAGGTACC-GAGTTCGCCATTGCGGCCTCAA-CCTTTCCC
66 TCAA-CCTTTCCCTTCATATCTTC-ATGGTACCGGA-TTCACCATTGCAGCCTCAATCC-TTCCC
* * * * *
19645231 TTCATATCTTC-ATGGTATCGGA
127 ATCACATCTTCTAAGGTACCGGG
* * * * *
19645253 TTCATCATTGCGACCTCAATCC-TTCCCATCACATCTTCTAAGGTACTGGGTTCGCCATTGCGGT
1 TTCATCATTGCGGCCTCAA-CCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGC
19645317 CTCAACCTTTCCCTTCATATCTTCATG
65 CTCAACCTTTCCCTTCATATCTTCATG
19645344 CTCCCTCGGT
Statistics
Matches: 450, Mismatches: 80, Indels: 15
0.83 0.15 0.03
Matches are distributed among these distances:
148 80 0.18
149 370 0.82
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (149 bp):
TTCATCATTGCGGCCTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCC
TCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCATTGCAGCCTCAATCCTTCCCATCA
CATCTTCTAAGGTACCGGG
Found at i:19645928 original size:110 final size:114
Alignment explanation
Indices: 19645758--19645970 Score: 308
Period size: 110 Copynumber: 1.9 Consensus size: 114
19645748 ATCTTTAGAC
* * *
19645758 CACTAACCGTTATTTCAAATGCAAAAAATGCTTGGATCAAGGTTGTAAGGTGGATGAAATTTAAT
1 CACTAACCGTTATTTCAAATGCAAAAAATGCATGGA-CAAGGTTGTAAGGTGGATAAAATTGAAT
*
19645823 TTGATTAGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCATTAGTA
65 TTGATTAGAGGCAAAGCTCGCATGAATGAAAACATTAAAAATCATTAGTA
* *
19645873 CACTAACCGTTATTTC-AATGC-AAAAATGCAT-GA-ATGGTTGTGAGGTGGATAAAATTGAATT
1 CACTAACCGTTATTTCAAATGCAAAAAATGCATGGACAAGGTTGTAAGGTGGATAAAATTGAATT
* * *
19645934 TTATTGGAGGCAAAGCTCGCATGAATGCAAACATTAA
66 TGATTAGAGGCAAAGCTCGCATGAATGAAAACATTAA
19645971 TCAAAAGTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
110 57 0.64
112 2 0.02
113 9 0.10
114 5 0.06
115 16 0.18
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (114 bp):
CACTAACCGTTATTTCAAATGCAAAAAATGCATGGACAAGGTTGTAAGGTGGATAAAATTGAATT
TGATTAGAGGCAAAGCTCGCATGAATGAAAACATTAAAAATCATTAGTA
Found at i:19646306 original size:19 final size:18
Alignment explanation
Indices: 19646273--19646316 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19646263 TTCTTTTTCC
19646273 TTCTTTTTTCTTTTCCTTT
1 TTCTTTTTTCTTTT-CTTT
19646292 TTCTATTTTTC-TTTCTTT
1 TTCT-TTTTTCTTTTCTTT
*
19646310 TACTTTT
1 TTCTTTT
19646317 CCTCTTCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 7 0.30
20 6 0.26
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTTTTTTCTTTTCTTT
Found at i:19646332 original size:31 final size:31
Alignment explanation
Indices: 19646266--19646332 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
19646256 TCTCCTTTTC
* **
19646266 TTTTTCCTTCTTTTTTCTTTTCCTTTTTCTA
1 TTTTTCCTTCTTTTTACTTTTCCTTTCCCTA
* *
19646297 TTTTTCTTTC-TTTTACTTTTCCTCTTCCCTT
1 TTTTTCCTTCTTTTTACTTTTCCT-TTCCCTA
19646328 TTTTT
1 TTTTT
19646333 TATTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (31 bp):
TTTTTCCTTCTTTTTACTTTTCCTTTCCCTA
Found at i:19647085 original size:17 final size:16
Alignment explanation
Indices: 19647065--19647111 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
19647055 TCATCTTGAC
19647065 TTTCTTTTTTCTTCCTT
1 TTTCTTTTTT-TTCCTT
*
19647082 TTTCTTTTCTTTTCTTT
1 TTTCTTTT-TTTTCCTT
19647099 TTTCTCTTTTTTT
1 TTTCT-TTTTTTT
19647112 TAACATATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTTTTCCTT
Found at i:19647094 original size:10 final size:9
Alignment explanation
Indices: 19647069--19647112 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
19647059 CTTGACTTTC
19647069 TTTTTTCTT
1 TTTTTTCTT
*
19647078 CCTTTTTCTT
1 -TTTTTTCTT
19647088 TTCTTTTCTT
1 TT-TTTTCTT
*
19647098 TTTTCTCTT
1 TTTTTTCTT
19647107 TTTTTT
1 TTTTTT
19647113 AACATATGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:19649009 original size:17 final size:17
Alignment explanation
Indices: 19648987--19649019 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19648977 AGTTGTATAA
19648987 AAAAAGAGAAAAGAAAG
1 AAAAAGAGAAAAGAAAG
*
19649004 AAAAAGATAAAAGAAA
1 AAAAAGAGAAAAGAAA
19649020 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGAGAAAAGAAAG
Found at i:19656056 original size:15 final size:15
Alignment explanation
Indices: 19656036--19656074 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
19656026 TTCACCACTT
*
19656036 CTGGTTCTGGTCAAA
1 CTGGTTCTGGTAAAA
19656051 CTGGTTCTGGTAAAA
1 CTGGTTCTGGTAAAA
*
19656066 TTGGTTCTG
1 CTGGTTCTG
19656075 ATTCTAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (15 bp):
CTGGTTCTGGTAAAA
Found at i:19664049 original size:16 final size:16
Alignment explanation
Indices: 19664028--19664058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19664018 CTTGATGTCT
19664028 AAATGTCAAAGCAATC
1 AAATGTCAAAGCAATC
*
19664044 AAATGTCAATGCAAT
1 AAATGTCAAAGCAAT
19664059 ATGTCAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (16 bp):
AAATGTCAAAGCAATC
Found at i:19676931 original size:16 final size:17
Alignment explanation
Indices: 19676910--19676945 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19676900 GTCATTACAT
*
19676910 TTTTA-TTGTCACTGCA
1 TTTTATTTGTCAATGCA
19676926 TTTTATTTGTCAATGCA
1 TTTTATTTGTCAATGCA
19676943 TTT
1 TTT
19676946 GCATTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (17 bp):
TTTTATTTGTCAATGCA
Found at i:19691642 original size:26 final size:26
Alignment explanation
Indices: 19691613--19691689 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
19691603 TAACTCTGTT
19691613 TGGGCTCGTAAGAGCTAAATTCTATC
1 TGGGCTCGTAAGAGCTAAATTCTATC
* * * *
19691639 TGGGCTCATAAGAACTAAATTCTGTT
1 TGGGCTCGTAAGAGCTAAATTCTATC
* * *
19691665 TGAGCTCGCATGAGCTAAACTTCTA
1 TGGGCTCGTAAGAGCTAAA-TTCTA
19691690 GAACGACTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (26 bp):
TGGGCTCGTAAGAGCTAAATTCTATC
Found at i:19694324 original size:161 final size:158
Alignment explanation
Indices: 19693941--19694405 Score: 501
Period size: 161 Copynumber: 2.9 Consensus size: 158
19693931 ACAACAAATT
* * * * * * *
19693941 ATCATGCATTCAACCTAACACAACAGGAACACAGGTATATCGTAAACACCTTTTCATTGTCAATT
1 ATCATGCATTCAGCCTAACACAACTGGATCATAGGTATATCGTAAACACTTTTTTAATGTCAATT
** * * *
19694006 CCAAAATATAAAAATCTAATTT-TGGTTCTGATTTTTTTTGTTTTAGTCTAATACGAGTATAAGA
66 -CAAAATATTTAAATCTAATTTGAGGTTCTGATTTTTTTTGTCTTAGTCTAATACGAGTACAAGA
** *
19694070 ACTAGAAGCCCAAAAAATTACAACATAAC
130 ACTAGAAGCCCAAAAAAGAACAACAGAAC
* * * * *
19694099 ACCATGCATTCAGCCTAATACAACTGGATCGTAGGTATATCGTATACACTATTTTAATGTCAATT
1 ATCATGCATTCAGCCTAACACAACTGGATCATAGGTATATCGTAAACACTTTTTTAATGTCAATT
* * * * **
19694164 CAAAAGCATTTTAATCTAATTTGAGGTTTTGATTTTTTTTGTCTTAGTCTAGTACGAGTACGGGA
66 CAAAA-TATTTAAATCTAATTTGAGGTTCTGATTTTTTTTGTCTTAGTCTAATACGAGTACAAGA
*
19694229 ACTAGAAGCCACAAAAAAGGAACAATAGAAC
130 ACTAGAAGCC-CAAAAAA-GAACAACAGAAC
*
19694260 ATCATGCATTCAGCCTAACACAACTGGATCATAGGTATATCATAAA-ACATTTTTTAATGTCAAT
1 ATCATGCATTCAGCCTAACACAACTGGATCATAGGTATATCGTAAACAC-TTTTTTAATGTCAA-
* * * * * * *
19694324 TTTAAATTATTTAAATCTAATTTGGGGTTCTAATTTTTGTTT-TC-T-GTC-AGTATGAGTATAA
64 TTCAAAATATTTAAATCTAATTTGAGGTTCTGATTTTT-TTTGTCTTAGTCTAATACGAGTACAA
*
19694385 GAACTAGAAGCCGAAAAAAGA
128 GAACTAGAAGCCCAAAAAAGA
19694406 TGGCATATTA
Statistics
Matches: 255, Mismatches: 45, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
156 2 0.01
157 11 0.04
158 86 0.34
159 48 0.19
160 10 0.04
161 90 0.35
162 8 0.03
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (158 bp):
ATCATGCATTCAGCCTAACACAACTGGATCATAGGTATATCGTAAACACTTTTTTAATGTCAATT
CAAAATATTTAAATCTAATTTGAGGTTCTGATTTTTTTTGTCTTAGTCTAATACGAGTACAAGAA
CTAGAAGCCCAAAAAAGAACAACAGAAC
Found at i:19696387 original size:18 final size:18
Alignment explanation
Indices: 19696364--19696412 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
19696354 TAGTTATGGG
19696364 TTTTAAATTTTTTTTTAA
1 TTTTAAATTTTTTTTTAA
*
19696382 TTTT-AATTATTTTTTAA
1 TTTTAAATTTTTTTTTAA
*
19696399 GTTTAAATTCTTTT
1 TTTTAAATT-TTTT
19696413 GTTGATGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 8 0.31
19 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTAAATTTTTTTTTAA
Found at i:19697777 original size:57 final size:57
Alignment explanation
Indices: 19697685--19697796 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
19697675 TAACATGTAA
* *
19697685 TATCTAAACTTGACATTTTTTCTAATTTGATACCTAAA-TATTTTT-ACTCAATTTAG
1 TATCTAAACTTGAAATTTTTTCTAATTTAATACCTAAACT-TTTTTAACTCAATTTAG
*
19697741 TATCTAAACTTGAAACTCTTTTT-TAATTTAATACCTAAACTTTTTTAATTCAATTT
1 TATCTAAACTTGAAA-T-TTTTTCTAATTTAATACCTAAACTTTTTTAACTCAATTT
19697797 GATACCTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
56 14 0.29
57 21 0.43
58 14 0.29
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (57 bp):
TATCTAAACTTGAAATTTTTTCTAATTTAATACCTAAACTTTTTTAACTCAATTTAG
Found at i:19697820 original size:57 final size:57
Alignment explanation
Indices: 19697688--19697832 Score: 161
Period size: 58 Copynumber: 2.5 Consensus size: 57
19697678 CATGTAATAT
* *
19697688 CTAAACTTGACA-TTTTTTCTAATTTGATACCTAAATATTTTTACTCAATTTAGTAT
1 CTAAACTTGACACTTTTTTTTAATTTGATACCTAAATATTTTTACTCAATTTAGTAC
* * * *
19697744 CTAAACTTGAAACTCTTTTTTAATTTAATACCTAAACT-TTTTTAATTCAATTT-GATAC
1 CTAAACTTGACACTTTTTTTTAATTTGATACCTAAA-TATTTTT-ACTCAATTTAG-TAC
* * *
19697802 CTGAATTTGACATTTTTTTTTAATTTGATAC
1 CTAAACTTGACACTTTTTTTTAATTTGATAC
19697833 TTGAACTTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
56 11 0.15
57 26 0.36
58 36 0.49
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.49
Consensus pattern (57 bp):
CTAAACTTGACACTTTTTTTTAATTTGATACCTAAATATTTTTACTCAATTTAGTAC
Found at i:19697828 original size:31 final size:31
Alignment explanation
Indices: 19697792--19697858 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
19697782 TTTTTAATTC
* * *
19697792 AATTTGATACCTGAATTTGACATTTTTTTTT
1 AATTTGATACCTGAACTTAACACTTTTTTTT
* *
19697823 AATTTGATACTTGAACTTAATACTTTTTTTT
1 AATTTGATACCTGAACTTAACACTTTTTTTT
19697854 AATTT
1 AATTT
19697859 AGTATCTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.55
Consensus pattern (31 bp):
AATTTGATACCTGAACTTAACACTTTTTTTT
Found at i:19698108 original size:29 final size:31
Alignment explanation
Indices: 19698044--19698112 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
19698034 AAAAAATTAG
*
19698044 ATACCAAATTAAAAAAAATAATCAAATTCAT
1 ATACCAAATTAAAAAAAATAATCAAATTCAA
* * *
19698075 GTACCAAATT-AGAAAAAT-ATCAAATTTAA
1 ATACCAAATTAAAAAAAATAATCAAATTCAA
19698104 ATACCAAAT
1 ATACCAAAT
19698113 GATATGTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
30 7 0.21
31 9 0.27
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (31 bp):
ATACCAAATTAAAAAAAATAATCAAATTCAA
Found at i:19700046 original size:18 final size:18
Alignment explanation
Indices: 19700023--19700065 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19700013 ATTTAAAATA
19700023 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
19700041 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
19700059 TAATTAA
1 TAATTAA
19700066 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:19703099 original size:9 final size:9
Alignment explanation
Indices: 19703080--19703113 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19703070 AAATTTTATT
19703080 TTAAGTTAAA
1 TTAA-TTAAA
19703090 TTAATTAAA
1 TTAATTAAA
*
19703099 TTATTTAAA
1 TTAATTAAA
19703108 TTAATT
1 TTAATT
19703114 TTTTTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
TTAATTAAA
Found at i:19703453 original size:30 final size:31
Alignment explanation
Indices: 19703402--19703459 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
19703392 CTCTCAAATT
*
19703402 TTTTTAATATTTTTTCTTCAAAATTTTATTC
1 TTTTTAATATTTTTTCCTCAAAATTTTATTC
19703433 TTTTT-AT-TTTTTTCCCTCAAAATTTTA
1 TTTTTAATATTTTTT-CCTCAAAATTTTA
19703460 CATTTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 14 0.56
31 5 0.20
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTTAATATTTTTTCCTCAAAATTTTATTC
Done.