Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 140 of 770
Found at i:41228354 original size:79 final size:79
Alignment explanation
Indices: 41228204--41228355 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
41228194 CTAAGATCCA
* ***
41228204 AAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAAATC
1 AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
41228269 CGGGTTAAGTCCCG
66 CGGGTTAAGTCCCG
* * * *
41228283 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
41228346 ATCC-GGTTAA
63 ATCCGGGTTAA
41228356 ATTTCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.60
80 23 0.37
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAGTCCCG
Found at i:41236254 original size:29 final size:28
Alignment explanation
Indices: 41236222--41236324 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
41236212 GTGACGAGAT
* *
41236222 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
41236251 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
41236280 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
41236309 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41236325 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:41238527 original size:40 final size:39
Alignment explanation
Indices: 41238345--41238528 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
41238335 CGAATGATGT
* * *
41238345 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41238385 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
41238425 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
41238463 TCATGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41238504 CCGGGCTATGTCCAGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41238529 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41238550 original size:79 final size:78
Alignment explanation
Indices: 41238378--41238562 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 78
41238368 GTGCTAAGTG
* * *
41238378 ACTATATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAG
1 ACTATATCCGG-TTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCAGAAG
**
41238442 GCATTGGTGCGAGTT
64 GCATTGGAACGAGTT
* * * *
41238457 ACTAAATCATGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCAGAA
1 ACTATATC-CGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAG-CCAGAA
*
41238521 GGCATTTGAACGAG-T
63 GGCATTGGAACGAGTT
*
41238536 AGCTATATCCGGTTAAATTCCCGAAGG
1 A-CTATATCCGGTT-AAGTCCCGAAGG
41238563 TACGTGATTC
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
78 3 0.03
79 49 0.56
80 35 0.40
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
ACTATATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCAGAAGGC
ATTGGAACGAGTT
Found at i:41245350 original size:2 final size:2
Alignment explanation
Indices: 41245343--41245373 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
41245333 AGATAGGGAA
*
41245343 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41245374 AAAGTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:41247822 original size:27 final size:28
Alignment explanation
Indices: 41247770--41247822 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
41247760 ATACTGTAAG
* * *
41247770 GGGCTATGGCCCAGATTAAGATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
41247798 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
41247823 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:41250798 original size:209 final size:209
Alignment explanation
Indices: 41250433--41250845 Score: 691
Period size: 209 Copynumber: 2.0 Consensus size: 209
41250423 GTTCGTACAC
* *
41250433 GGGCAAATTCTGTTTAATTTTTAAAATGGGCCAGAACTGAATCATGTAAGGTTTATAATTAATTA
1 GGGCAAATTCTGTTTAATTTTTAAAATGGGCCAGAACTGAAGCAGGTAAGGTTTATAATTAATTA
41250498 TGACCATATATTAATAAGGAAGGAAGCATGGTGCAGTGACCAGTAGCATGGGCATGGGCGCAAGG
66 TGACCATATATTAATAAGGAAGGAAGCATGGTGCAGTGACCAGTAGCATGGGCATGGGCGCAAGG
* * * *
41250563 CGGACGGAGGTCTATGGTTCGAGCTGCAGTTTGCGCACGGAAGGTTTGGATTTTTACTGCATGCG
131 CGGACGGAGGCCTAGGGTTCGAGCTGCAGTTCGCGCACGGAAGGTTTGGAGTTTTACTGCATGCG
41250628 TGGGGAATGAATTG
196 TGGGGAATGAATTG
* * *
41250642 GGGCGAATTCTGTTTAATTTTTAAAGTGGGCCAGAACTGAAGCAGGTAAGGTTTATAATTAATTG
1 GGGCAAATTCTGTTTAATTTTTAAAATGGGCCAGAACTGAAGCAGGTAAGGTTTATAATTAATTA
* * *
41250707 TGACCATATATTAGTAAGGAAGGAAGCATGGTGCAGTGGCCAGTAGCATGGGCGTGGGCGCAAGG
66 TGACCATATATTAATAAGGAAGGAAGCATGGTGCAGTGACCAGTAGCATGGGCATGGGCGCAAGG
* * *
41250772 CGGTCGGAGGCCTGGGGTTCGAGCTGCAGTTCGCGCACGGAAGGTTTGGAGTTTTGCTGCATGCG
131 CGGACGGAGGCCTAGGGTTCGAGCTGCAGTTCGCGCACGGAAGGTTTGGAGTTTTACTGCATGCG
41250837 TGGGGAATG
196 TGGGGAATG
41250846 CTGAAGTGGT
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
209 189 1.00
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (209 bp):
GGGCAAATTCTGTTTAATTTTTAAAATGGGCCAGAACTGAAGCAGGTAAGGTTTATAATTAATTA
TGACCATATATTAATAAGGAAGGAAGCATGGTGCAGTGACCAGTAGCATGGGCATGGGCGCAAGG
CGGACGGAGGCCTAGGGTTCGAGCTGCAGTTCGCGCACGGAAGGTTTGGAGTTTTACTGCATGCG
TGGGGAATGAATTG
Found at i:41252577 original size:27 final size:28
Alignment explanation
Indices: 41252525--41252577 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
41252515 ATACTGTAAG
* * *
41252525 GGGCTATGGCCCAGATTAAGATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
41252553 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
41252578 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:41254959 original size:19 final size:18
Alignment explanation
Indices: 41254935--41254979 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
41254925 TATATAATAA
*
41254935 AAATTTTAAGAATAAATTT
1 AAATTTTAACAAT-AATTT
* *
41254954 AAATTTTACCTATAATTT
1 AAATTTTAACAATAATTT
41254972 AAATTTTA
1 AAATTTTA
41254980 CTTATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
AAATTTTAACAATAATTT
Found at i:41254972 original size:18 final size:18
Alignment explanation
Indices: 41254949--41254988 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
41254939 TTTAAGAATA
41254949 AATTTAAATTTTACCTAT
1 AATTTAAATTTTACCTAT
*
41254967 AATTTAAATTTTACTTAT
1 AATTTAAATTTTACCTAT
41254985 AATT
1 AATT
41254989 CTATTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTTACCTAT
Found at i:41256501 original size:6 final size:6
Alignment explanation
Indices: 41256492--41256519 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
41256482 GGCTTCGGCT
41256492 TTGGCC TTGGCC TTGGCC TTGGCC TTGG
1 TTGGCC TTGGCC TTGGCC TTGGCC TTGG
41256520 TCCCTCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.36, T:0.36
Consensus pattern (6 bp):
TTGGCC
Found at i:41257566 original size:6 final size:6
Alignment explanation
Indices: 41257555--41257582 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
41257545 TAGTTTATTA
41257555 CACTTC CACTTC CACTTC CACTTC CACT
1 CACTTC CACTTC CACTTC CACTTC CACT
41257583 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
CACTTC
Found at i:41257844 original size:16 final size:15
Alignment explanation
Indices: 41257823--41257894 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
41257813 CGTTTGGTTT
* *
41257823 ACTGTAATAGAATAGG
1 ACTGTAATGGAATA-A
*
41257839 ACTGTAATTGAATAGA
1 ACTGTAATGGAATA-A
* *
41257855 GCTGTAACGGAATAAA
1 ACTGTAATGGAAT-AA
41257871 ACTGTAATGGAATATA
1 ACTGTAATGGAATA-A
41257887 ACTGTAAT
1 ACTGTAAT
41257895 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.02
16 45 0.96
17 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (15 bp):
ACTGTAATGGAATAA
Found at i:41258075 original size:25 final size:26
Alignment explanation
Indices: 41258042--41258091 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
41258032 TAGATAGATG
*
41258042 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
41258067 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
41258092 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:41258153 original size:61 final size:58
Alignment explanation
Indices: 41258067--41258192 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 58
41258057 TTTTAATAAT
* * * *
41258067 ATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATAAATTTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
41258128 ATTATTATTAAATACAATTTT-ATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATA-AATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
41258186 ATTATTA
1 ATTATTA
41258193 ATAATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
57 18 0.32
58 14 0.25
60 5 0.09
61 15 0.26
62 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAATAAATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:41258209 original size:13 final size:12
Alignment explanation
Indices: 41258155--41258217 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
41258145 TTTTATAAAA
41258155 TAATATATAA-TT
1 TAATA-ATAATTT
*
41258167 TAATAA-CATTCT
1 TAATAATAATT-T
41258179 TAAT-ATAATTAT
1 TAATAATAATT-T
41258191 TAATAAT-A-TT
1 TAATAATAATTT
41258201 TAATAATAATTT
1 TAATAATAATTT
41258213 TAATA
1 TAATA
41258218 TAAAATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.21
11 5 0.12
12 26 0.62
13 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:41269596 original size:29 final size:29
Alignment explanation
Indices: 41269564--41269725 Score: 243
Period size: 29 Copynumber: 5.5 Consensus size: 29
41269554 ATAGTGAATC
41269564 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
41269593 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
41269623 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
41269652 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * *
41269681 CGCACACTTAGTGCTATACAATTTTTAAACC
1 CGCACACTTAGTGCTATA-TA-TTTTCAGCT
41269712 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41269726 CAATCTTGTC
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
29 75 0.60
30 30 0.24
31 19 0.15
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:41269656 original size:59 final size:58
Alignment explanation
Indices: 41269564--41269725 Score: 243
Period size: 59 Copynumber: 2.7 Consensus size: 58
41269554 ATAGTGAATC
41269564 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
41269623 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
* * * *
41269681 CGCACACTTAGTGCTATACAATTTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TA-TTTTCAGCTCGCACACTTAGTGC
41269726 CAATCTTGTC
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
58 27 0.29
59 48 0.51
60 19 0.20
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:41272770 original size:51 final size:49
Alignment explanation
Indices: 41272646--41272840 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
41272636 TCTATTGTGA
** * *
41272646 GGTCACATGTGTAGTACTAAGTGCAGGGAACTACGTGTATCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
41272695 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT
* * *
41272745 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* *
41272795 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
41272841 GCATTGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 81 0.64
50 4 0.03
51 41 0.33
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Found at i:41272826 original size:100 final size:100
Alignment explanation
Indices: 41272648--41272840 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
41272638 TATTGTGAGG
* * *
41272648 TCACATGTGTAGTACTAAGTGCAGGGAACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCAACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
*
41272713 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* *
41272748 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCAACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
41272813 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
41272841 GCATTGGCTA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCAACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:41279759 original size:64 final size:64
Alignment explanation
Indices: 41279678--41279863 Score: 200
Period size: 67 Copynumber: 2.9 Consensus size: 64
41279668 AGACATTATG
* *
41279678 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
41279742 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
41279806 TAA
62 TAA
* * *
41279809 AT-TGGCTAGGTCACATGGGTGATACTGA-GTGTTCACCATGT-GTACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
41279864 AACTCTATGA
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 21 0.21
64 23 0.23
65 4 0.04
66 18 0.18
67 33 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41288717 original size:41 final size:41
Alignment explanation
Indices: 41288672--41288860 Score: 102
Period size: 41 Copynumber: 5.1 Consensus size: 41
41288662 TGAAAGATAA
41288672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41288713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41288743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41288784 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41288814 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41288855 ATGTAG
1 ATGTAG
41288861 ACAAGAGAGC
Statistics
Matches: 102, Mismatches: 20, Indels: 52
0.59 0.11 0.30
Matches are distributed among these distances:
29 2 0.02
30 16 0.16
31 18 0.18
32 2 0.02
33 6 0.06
34 2 0.02
35 2 0.02
36 2 0.02
37 2 0.02
38 6 0.06
39 2 0.02
40 18 0.18
41 22 0.22
42 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41288746 original size:71 final size:71
Alignment explanation
Indices: 41288642--41288874 Score: 443
Period size: 71 Copynumber: 3.3 Consensus size: 71
41288632 GAGATGTATC
*
41288642 CCATGTAGGCAAGAGAG--ACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41288705 AGGACA
66 AGGACA
41288711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41288776 AGGACA
66 AGGACA
41288782 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41288847 AGGACA
66 AGGACA
41288853 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41288875 AGACAAATTG
Statistics
Matches: 161, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
69 16 0.10
71 145 0.90
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41291545 original size:18 final size:18
Alignment explanation
Indices: 41291496--41291545 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
41291486 TACAAAACAG
41291496 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
41291513 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
41291532 ACCCACTAACCCAA
1 ACCCACTAACCCAA
41291546 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:41293967 original size:37 final size:37
Alignment explanation
Indices: 41293908--41293979 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
41293898 AGCTCAGACG
*
41293908 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
41293945 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
41293980 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:41294249 original size:48 final size:49
Alignment explanation
Indices: 41294125--41294261 Score: 224
Period size: 50 Copynumber: 2.8 Consensus size: 49
41294115 GCACATCGCC
*
41294125 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
*
41294175 TATATATTTCACATT-GACCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
41294223 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
41294262 TGCATGTTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
48 37 0.45
49 2 0.02
50 43 0.52
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:41294310 original size:47 final size:47
Alignment explanation
Indices: 41294231--41294424 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
41294221 CATACATATT
* * * *
41294231 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
41294278 CCGCATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
41294325 TCACATTGGCCATTCGGCCTTATCGCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
41294372 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
41294419 TCACAT
1 TCACAT
41294425 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:41297378 original size:2 final size:2
Alignment explanation
Indices: 41297334--41297363 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41297324 GCTGTCACAG
41297334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41297364 CTTTATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41297903 original size:24 final size:25
Alignment explanation
Indices: 41297875--41297939 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
41297865 TTTTTATATA
41297875 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
41297900 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
41297924 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
41297940 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:41307759 original size:107 final size:107
Alignment explanation
Indices: 41307573--41307786 Score: 383
Period size: 107 Copynumber: 2.0 Consensus size: 107
41307563 CGAGAAGAAA
* * * *
41307573 ACCAATTGGCTGATGCTTTGGCCACTTTGGCTTCAATGTTCAAAGTAAAAAGAGAAACAGAAATA
1 ACCAATTGACTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAAAAGAGAAACAGAAATA
41307638 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
*
41307680 ACCAATTGACTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGACTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAAAAGAGAAACAGAAATA
41307745 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
41307787 TTCAGCATTG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (107 bp):
ACCAATTGACTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAAAAGAGAAACAGAAATA
ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
Found at i:41310199 original size:73 final size:73
Alignment explanation
Indices: 41309952--41310431 Score: 349
Period size: 73 Copynumber: 6.3 Consensus size: 73
41309942 TGATGTTTTT
* * ** * ** * **
41309952 ATTTCTGTTT-TCAAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGTTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGG
41310016 TATTTTCA
66 TATTTTCA
* * *
41310024 ATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCTCAGGACATGCCG
1 ATTTCTGT-TTGTC--AAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCG
41310088 AGGTATTTTCA
63 AGGTATTTTCA
* * *
41310099 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGG
41310164 TATTTTCA
66 TATTTTCA
* * * *
41310172 ATTTTTGTTTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAA
1 ATTTCTG---------TT-TG--TCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAG
* **** *
41310237 GTCATATTGAGGTATTCTCA
54 GACACGCCGAGGTATTTTCA
* ** *** * * *
41310257 ATTTAT-CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTG
1 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCCG
41310320 AGGTATTTTCA
63 AGGTATTTTCA
* *
41310331 ATTTCTACTTT-TCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 ATTTCT-GTTTGTC------AAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
41310395 GCTGAGCTATTTTCA
59 GCCGAGGTATTTTCA
41310410 ATTTCTGTTTGTCAAAAATCAA
1 ATTTCTGTTTGTCAAAAATCAA
41310432 TATTTTTCAT
Statistics
Matches: 331, Mismatches: 48, Indels: 57
0.76 0.11 0.13
Matches are distributed among these distances:
71 1 0.00
72 45 0.14
73 73 0.22
74 22 0.07
75 59 0.18
76 1 0.00
78 3 0.01
79 26 0.08
81 37 0.11
82 4 0.01
83 2 0.01
85 58 0.18
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGG
TATTTTCA
Found at i:41310301 original size:72 final size:77
Alignment explanation
Indices: 41310197--41310386 Score: 239
Period size: 72 Copynumber: 2.5 Consensus size: 77
41310187 TTTATGTTTC
* *
41310197 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCATA-TTGAGGTATTCTCAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGCTCACACCTGAGGTATTCTCAATT
**
41310259 T-TA-TC-ATCAA
65 TCTATTCAAAAAA
* *
41310269 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAATT
41310334 TCTACTTTTCAAAAAA
65 TCTA---TTCAAAAAA
41310350 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
41310387 CAGGACACGC
Statistics
Matches: 102, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
71 1 0.01
72 42 0.41
74 13 0.13
75 2 0.02
76 2 0.02
80 2 0.02
81 40 0.39
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACCTGAGGTATTCTCAATTT
CTATTCAAAAAA
Found at i:41310408 original size:238 final size:232
Alignment explanation
Indices: 41309947--41310599 Score: 624
Period size: 238 Copynumber: 2.7 Consensus size: 232
41309937 TATTTTGATG
* * ** *
41309947 TTTTT-ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGT
1 TTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATAGAC-T
* * * *
41310011 TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCT
64 TGAGGTATTCTCAATTTCTATCTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
41310076 CAGGACATGCCGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAG
129 CAGGACACGCCGAGGTATTTTCAATTTCTCTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAG
* * * *
41310141 TTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
194 TTGAGCCTCAGGACACGCTGAGCTATTTTCAATTTCTGT
* *
41310180 TTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATA-T
1 TTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-T-AGACT
41310244 TGAGGTATTCTCAA-TT-TATC-ATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 TGAGGTATTCTCAATTTCTATCTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
41310306 -TGGCTCACACGCTGAGGTATTTTCAATTTCTACTTT-TCAAAAAAAAAAATCAACTCATATTGC
129 CAGG---ACACGCCGAGGTATTTTCAATTTCT-CTTTGTC------AAAAATCAACTCAAATTGC
41310369 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAATTTCTGT
184 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAATTTCTGT
** * * * * **
41310418 TTGTCAAAAATCAATATTTTTCATAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGCT-
1 TT-T--TTAAT--TTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AATA
* * *
41310482 CACATGCTGAGGTATT-TCCAATTTCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCG
60 GAC-T--TGAGGTATTCT-CAATTTCT-ATCTA--TCA---A---AAAAATCAACTCATATTGCG
** * *
41310546 AGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT-TCAA
112 AGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCTCTTTGTCAA
41310600 TTTATGTTTT
Statistics
Matches: 347, Mismatches: 36, Indels: 59
0.79 0.08 0.13
Matches are distributed among these distances:
229 2 0.01
230 40 0.12
231 3 0.01
232 27 0.08
233 61 0.18
234 7 0.02
235 2 0.01
238 65 0.19
239 1 0.00
241 4 0.01
243 44 0.13
244 1 0.00
245 12 0.03
246 2 0.01
247 1 0.00
248 3 0.01
249 1 0.00
251 3 0.01
254 6 0.02
255 25 0.07
257 35 0.10
258 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (232 bp):
TTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATAGACTTG
AGGTATTCTCAATTTCTATCTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGACACGCCGAGGTATTTTCAATTTCTCTTTGTCAAAAATCAACTCAAATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGCTATTTTCAATTTCTGT
Found at i:41310555 original size:86 final size:87
Alignment explanation
Indices: 41310269--41310688 Score: 445
Period size: 86 Copynumber: 4.9 Consensus size: 87
41310259 TTATCATCAA
*
41310269 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
** * ***
41310333 TTCT-ACTT--TTCA--AAAAA
66 TTCTGTTTTAATTCATGTATTC
*
41310350 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
* * *
41310412 TTCTGTTTGTCAAAAATCAATATTTTTC
66 TTCTGTTT-T---AATTC-AT-GTATTC
* * * *
41310440 ATAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTCCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
*
41310504 TTCTGTTTTACTTCATGTATTC
66 TTCTGTTTTAATTCATGTATTC
**
41310526 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
* *
41310588 TTCTGTTTTCAATTTATGTTTTTC
66 TTCTGTTTT-AATTCATG-TATTC
* * * *
41310612 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGCTATTTCCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
41310676 TTCTGCTTTTAAT
66 TTCTG-TTTTAAT
41310689 GTCTGTTTTA
Statistics
Matches: 283, Mismatches: 34, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
79 24 0.08
80 1 0.00
81 38 0.13
82 2 0.01
84 28 0.10
85 8 0.03
86 79 0.28
87 5 0.02
88 29 0.10
89 6 0.02
90 36 0.13
91 1 0.00
92 26 0.09
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTCACACGCTGAGGTATTTTCAAT
TTCTGTTTTAATTCATGTATTC
Found at i:41310613 original size:14 final size:13
Alignment explanation
Indices: 41310580--41310609 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41310570 CGCTGAGGTA
*
41310580 TTTTCAATTTCTG
1 TTTTCAATTTATG
41310593 TTTTCAATTTATG
1 TTTTCAATTTATG
41310606 TTTT
1 TTTT
41310610 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:41310676 original size:172 final size:171
Alignment explanation
Indices: 41310269--41310686 Score: 592
Period size: 172 Copynumber: 2.4 Consensus size: 171
41310259 TTATCATCAA
* *
41310269 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** **
41310334 TCT-ACTT-TTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
66 TCTGTTTTATTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
41310397 TGAGCTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 TGAGCTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * *
41310440 ATAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
* ***
41310505 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTTA-TTCA--AAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
* ** *
41310570 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
128 CGCTGAGCTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
41310612 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
41310677 TCTGCTTTTA
66 TCTG-TTTTA
41310687 ATGTCTGTTT
Statistics
Matches: 220, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
171 63 0.29
172 78 0.35
173 5 0.02
174 4 0.02
175 2 0.01
176 68 0.31
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (171 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
TCTGTTTTATTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
TGAGCTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Found at i:41310739 original size:172 final size:174
Alignment explanation
Indices: 41310269--41310739 Score: 539
Period size: 172 Copynumber: 2.7 Consensus size: 174
41310259 TTATCATCAA
* * * *
41310269 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATT
** * *** * * * ** *
41310334 TCT-ACTT--TTCA--AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TCTGTTTTAATTCATGTATTCAAAAACCAACTCAAATTGCAAGAAATGAATTGAGCCTCAGGACA
41310394 CGCTGAGCTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 CGCTGAGCTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * *
41310440 ATAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATT
* * * * *
41310505 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTTAATTCATGTATTCAAAAACCAACTCAAATTGCAAGAAATGAATTGAGCCTCAGGACA
* ** *
41310570 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
131 CGCTGAGCTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
41310612 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATT
* * *
41310677 TCTGCTTTTAATGTC-TGT-TTTAAAGAGCCAATTCAAATTGCAAGAAATGAATTGAG-CTCAGG
66 TCTG-TTTTAAT-TCATGTATTCAAA-AACCAACTCAAATTGCAAGAAATGAATTGAGCCTCAGG
41310739 A
128 A
41310740 TCACATGCTG
Statistics
Matches: 263, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
171 63 0.24
172 90 0.34
173 34 0.13
174 6 0.02
175 2 0.01
176 68 0.26
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (174 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTCCAATT
TCTGTTTTAATTCATGTATTCAAAAACCAACTCAAATTGCAAGAAATGAATTGAGCCTCAGGACA
CGCTGAGCTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Found at i:41311366 original size:18 final size:18
Alignment explanation
Indices: 41311317--41311366 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
41311307 TACAAAACAG
*
41311317 ACCCACT-ACACAAACCT
1 ACCCACTAACCCAAACCT
*
41311334 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
41311353 ACCCACTAACCCAA
1 ACCCACTAACCCAA
41311367 TACTAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.15
18 10 0.37
19 13 0.48
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:41311818 original size:2 final size:2
Alignment explanation
Indices: 41311811--41311848 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
41311801 TAAATCATAC
* *
41311811 AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41311849 AGAAAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:41312452 original size:14 final size:15
Alignment explanation
Indices: 41312435--41312469 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
41312425 ATTTAAGTTA
41312435 ATTATTTTAGTAT-T
1 ATTATTTTAGTATGT
*
41312449 ATTATTTTGGTATGT
1 ATTATTTTAGTATGT
41312464 ATTATT
1 ATTATT
41312470 AATCTCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (15 bp):
ATTATTTTAGTATGT
Found at i:41312514 original size:2 final size:2
Alignment explanation
Indices: 41312507--41312536 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41312497 ATTAACATTC
41312507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41312537 GTTTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41312628 original size:20 final size:20
Alignment explanation
Indices: 41312605--41312649 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
41312595 AGCTTCTAGG
41312605 TTTTAT-TATTACTATTATTA
1 TTTTATGTATTACTA-TATTA
*
41312625 TTTTATGTATTTCTATATTA
1 TTTTATGTATTACTATATTA
41312645 TTTTA
1 TTTTA
41312650 ATTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATGTATTACTATATTA
Found at i:41313488 original size:24 final size:25
Alignment explanation
Indices: 41313460--41313524 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
41313450 ATTTTATATA
41313460 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
41313485 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
41313509 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
41313525 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:41317769 original size:32 final size:32
Alignment explanation
Indices: 41317726--41317795 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
41317716 GTTGGCTTTG
*
41317726 AAGTTAGAGATGTACAAAAAAGAACATCCGGT
1 AAGTCAGAGATGTACAAAAAAGAACATCCGGT
*
41317758 AAGTCAGAGATGTACACAAAAGAACATCCGGT
1 AAGTCAGAGATGTACAAAAAAGAACATCCGGT
41317790 AAGTCA
1 AAGTCA
41317796 TTTTAGTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (32 bp):
AAGTCAGAGATGTACAAAAAAGAACATCCGGT
Found at i:41320745 original size:20 final size:20
Alignment explanation
Indices: 41320688--41320748 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41320678 TGATAAACAA
*
41320688 GACATGTATGATATGCAAAT
1 GACATGTATGATATGCACAT
41320708 GACATGTATGATATGCACAT
1 GACATGTATGATATGCACAT
*
41320728 GATATGTATGATATGCACAT
1 GACATGTATGATATGCACAT
41320748 G
1 G
41320749 GTGTATTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (20 bp):
GACATGTATGATATGCACAT
Found at i:41320829 original size:23 final size:23
Alignment explanation
Indices: 41320799--41320861 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
41320789 AGGAAGTGCA
41320799 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAATTATT
*
41320822 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATT
41320845 AAAGGGCTTATGCCCCA
1 AAAGGGCTTATGCCCCA
41320862 TGTAACACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAATTATT
Found at i:41322362 original size:40 final size:39
Alignment explanation
Indices: 41322318--41322443 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
41322308 GGGACTCAAC
*
41322318 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * *
41322358 CCGGATTTAGTAACTCGCACGTATGCCGTT-GGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCC-TTCGGATCTTAGT
*
41322398 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
41322438 CCGGAT
1 CCGGAT
41322444 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 60 0.83
41 10 0.14
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:41324146 original size:26 final size:25
Alignment explanation
Indices: 41324124--41324171 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
41324114 TAAGGCTGTC
41324124 ACACCCCAGTTATTAAAAG-GGCTT
1 ACACCCCAGTTATTAAAAGAGGCTT
**
41324148 TTACCCCAGTTATTAAAAGAGGCT
1 ACACCCCAGTTATTAAAAGAGGCT
41324172 AGGCCTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
ACACCCCAGTTATTAAAAGAGGCTT
Found at i:41324416 original size:31 final size:31
Alignment explanation
Indices: 41324378--41324441 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
41324368 CGTTTACAGT
*
41324378 AAAGGCTTCAGCCCAATAATATGAAATATGA
1 AAAGGCTTCAGCCCAATAATATCAAATATGA
* * **
41324409 AAAGGCTTCGGCCCAGTGTTATCAAATATGA
1 AAAGGCTTCAGCCCAATAATATCAAATATGA
41324440 AA
1 AA
41324442 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATAATATCAAATATGA
Found at i:41327727 original size:71 final size:71
Alignment explanation
Indices: 41327643--41327806 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41327633 CGATTTGTCT
41327643 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41327708 CTTTCA
66 CTTTCA
41327714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41327779 CTTTCA
66 CTTTCA
41327785 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41327807 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41327844 original size:71 final size:70
Alignment explanation
Indices: 41327643--41327840 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
41327633 CGATTTGTCT
* * * *
41327643 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41327708 CTTTCA
65 CTTTCA
* * * *
41327714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41327779 CTTTCA
65 CTTTCA
* *
41327785 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41327841 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41334631 original size:80 final size:79
Alignment explanation
Indices: 41334499--41334647 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
41334489 ATTGAATGAT
*
41334499 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
41334564 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
41334578 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
41334641 TTTGTGC
63 ATTGTGC
41334648 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:41334661 original size:40 final size:40
Alignment explanation
Indices: 41334497--41334663 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
41334487 AAATTGAATG
* * *
41334497 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGAGATT
* * * **
41334536 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
* *
41334576 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGAGATT
* * *
41334616 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GAGATT
41334656 ATATCCGG
1 ATATCCGG
41334664 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 17 0.17
40 83 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
Found at i:41334662 original size:80 final size:79
Alignment explanation
Indices: 41334497--41334663 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
41334487 AAATTGAATG
*
41334497 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
41334562 TTGTGCTAGTGGCT
66 TTGTGCTAGTGACT
* * * * *
41334576 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
41334639 CATTTGTGC-ACGTGATT
63 CAATTGTGCTA-GTGACT
41334656 ATATCCGG
1 ATATCCGG
41334664 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGACT
Found at i:41342571 original size:40 final size:40
Alignment explanation
Indices: 41342486--41342636 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
41342476 AATTGAATGA
* * *
41342486 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
41342526 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
41342567 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
41342606 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
41342637 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:41342650 original size:40 final size:40
Alignment explanation
Indices: 41342523--41342652 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
41342513 ATGCTGGAAA
* * * *
41342523 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
41342563 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
41342603 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
41342643 TTATATCCGG
1 TTATATCCGG
41342653 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:41345469 original size:26 final size:26
Alignment explanation
Indices: 41345423--41345541 Score: 161
Period size: 26 Copynumber: 4.7 Consensus size: 26
41345413 GCTCTTTAAT
* **
41345423 AACTGGGGCA-GAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
41345448 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
41345474 AAATGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
41345500 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
41345526 AACTAGGGCAT-AGCCC
1 AACTGGGGCATAAGCCC
41345542 ATTTGCACTT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 15 0.18
26 68 0.82
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:41345496 original size:52 final size:51
Alignment explanation
Indices: 41345426--41345541 Score: 196
Period size: 52 Copynumber: 2.3 Consensus size: 51
41345416 CTTTAATAAC
*
41345426 TGGGGCAGAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAA
1 TGGGGCATAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAA
*
41345477 TGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCAT-AGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAA
*
41345529 TAGGGCATAGCCC
1 TGGGGCATAGCCC
41345542 ATTTGCACTT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 12 0.20
52 49 0.80
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (51 bp):
TGGGGCATAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAA
Found at i:41345617 original size:9 final size:9
Alignment explanation
Indices: 41345603--41345659 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
41345593 ACATCATGTG
41345603 CATATCATA
1 CATATCATA
*
41345612 CATATCATGTG
1 CATATCA--TA
41345623 CATATCATA
1 CATATCATA
41345632 CATATCATGTA
1 CATATCA--TA
41345643 CATATCATA
1 CATATCATA
41345652 CATATCAT
1 CATATCAT
41345660 GTGCATATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 25 0.60
11 17 0.40
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:41345620 original size:20 final size:20
Alignment explanation
Indices: 41345595--41345671 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
41345585 TTATGAATAC
41345595 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41345615 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41345635 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
41345655 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
41345672 TCCTACGTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41345626 original size:11 final size:11
Alignment explanation
Indices: 41345595--41345670 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
41345585 TTATGAATAC
*
41345595 ATCATGTGCAT
1 ATCATGTACAT
41345606 ATCA--TACAT
1 ATCATGTACAT
*
41345615 ATCATGTGCAT
1 ATCATGTACAT
41345626 ATCA--TACAT
1 ATCATGTACAT
41345635 ATCATGTACAT
1 ATCATGTACAT
41345646 ATCA--TACAT
1 ATCATGTACAT
*
41345655 ATCATGTGCAT
1 ATCATGTACAT
41345666 ATCAT
1 ATCAT
41345671 ATCCTACGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 25 0.45
11 30 0.55
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:41353771 original size:26 final size:26
Alignment explanation
Indices: 41353703--41353847 Score: 197
Period size: 26 Copynumber: 5.7 Consensus size: 26
41353693 CTTTAATAAT
* **
41353703 TGGGGCA-GAGCCCTTTTCGGTAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
41353728 TGGGGCA-AAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
41353753 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
* * * *
41353779 TGGGGTATAAGCCATTTTCGATAAAT
1 TGGGGCATAAGCCCTTTTCAATAAAC
41353805 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
*
41353831 TAGGGCATAA-CCCTTTT
1 TGGGGCATAAGCCCTTTT
41353848 GCGCTTCCTC
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 36 0.34
26 71 0.66
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCAATAAAC
Found at i:41353922 original size:20 final size:20
Alignment explanation
Indices: 41353897--41353953 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
41353887 TTATGAATAC
41353897 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
41353916 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
41353937 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
41353954 CCATGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.28
20 24 0.67
21 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:41353935 original size:5 final size:5
Alignment explanation
Indices: 41353905--41353953 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
41353895 ACATCATGTG
* *
41353905 CATAT CATA- CATAT CATGT GCATAT CATAT CA-AT CATGT -ATAT CATAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CATAT
41353953 C
1 C
41353954 CCATGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:41353949 original size:9 final size:10
Alignment explanation
Indices: 41353897--41353950 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
41353887 TTATGAATAC
41353897 ATCATGTGCAT
1 ATCATGT-CAT
*
41353908 ATCAT-ACAT
1 ATCATGTCAT
41353917 ATCATGTGCAT
1 ATCATGT-CAT
*
41353928 ATCATATCA-
1 ATCATGTCAT
41353937 ATCATGT-AT
1 ATCATGTCAT
41353946 ATCAT
1 ATCAT
41353951 ATCCCATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.53
10 2 0.06
11 14 0.39
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:41362397 original size:21 final size:21
Alignment explanation
Indices: 41362364--41362406 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
41362354 GACAGATATC
*
41362364 CAACCCAATCCAAACAATACA
1 CAACCCAATCCAAACAACACA
*
41362385 CAACCCGAA-CCAACCAACACA
1 CAACCC-AATCCAAACAACACA
41362406 C
1 C
41362407 TATGTGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.44, G:0.02, T:0.05
Consensus pattern (21 bp):
CAACCCAATCCAAACAACACA
Found at i:41364764 original size:49 final size:49
Alignment explanation
Indices: 41364579--41364770 Score: 170
Period size: 49 Copynumber: 3.9 Consensus size: 49
41364569 TTGTGAGGTC
* * * ***
41364579 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTTCAA
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTA
* * * * **
41364628 TCACGTGTATAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTTAGGTTA
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GG-TA
* * * *
41364681 -CGTGTGTAGTACTAAATACAGGCTACTACGTGTACCGGATAATTGGTA
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTA
* **
41364729 GCATGTGTAGTACTATGTGCAGGCTACTATTTGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
41364771 GCTTTGGCTA
Statistics
Matches: 110, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
48 2 0.02
49 38 0.35
50 34 0.31
51 34 0.31
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTA
Found at i:41369006 original size:43 final size:43
Alignment explanation
Indices: 41368954--41369068 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
41368944 GCTGGTGAAT
* *
41368954 AATATTATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAATGA
* *
41368997 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAATGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAATGA
* * * *
41369040 AATGATATCGAGCGTCAAGCCTAGCAGGC
1 AATAATATCGGGCTTCGAGCCTAGCAGGC
41369069 GAAATTTCGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (43 bp):
AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAATGA
Found at i:41375249 original size:20 final size:18
Alignment explanation
Indices: 41375224--41375260 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
41375214 ACCTAACACG
41375224 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
41375244 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
41375261 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:41387054 original size:22 final size:22
Alignment explanation
Indices: 41387026--41387069 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41387016 AAATGAATAC
*
41387026 TTAAATTTTGGGGCGTTACAGG
1 TTAAATTTTAGGGCGTTACAGG
41387048 TTAAATTTTAGGGCGTTACAGG
1 TTAAATTTTAGGGCGTTACAGG
41387070 AATAATTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (22 bp):
TTAAATTTTAGGGCGTTACAGG
Found at i:41390387 original size:19 final size:20
Alignment explanation
Indices: 41390358--41390403 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
41390348 AGTTGTAAGT
41390358 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
41390378 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
41390397 ATA-ATAT
1 ATATATAT
41390404 AACATGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:41390880 original size:50 final size:50
Alignment explanation
Indices: 41390752--41391086 Score: 325
Period size: 50 Copynumber: 6.7 Consensus size: 50
41390742 ATTCGTTGTG
* * * * *
41390752 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACTTTG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CA-GATCGTTA
* * *
41390804 A-TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * * *
41390853 AGTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTACCAAATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * * * * * *
41390903 GGTCGCAG-GTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTA
1 AGTCAC-GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ATCGTTA
* * * *
41390955 A-TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * * * *
41391004 AGTCACGTGTGTAGTACTAAGTACAGGCTCCTACGCGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * *
41391054 GGTCACATGTGTAGTACTAAGTGTAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
41391087 TACATACTAG
Statistics
Matches: 228, Mismatches: 49, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
49 9 0.04
50 146 0.64
51 69 0.30
52 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
Found at i:41390965 original size:101 final size:100
Alignment explanation
Indices: 41390754--41391086 Score: 302
Period size: 101 Copynumber: 3.3 Consensus size: 100
41390744 TCGTTGTGAG
* * * * *
41390754 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACT--TTGA-TCACGTGTGTA
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTAC-CA--AA-TGGATAAGTCACGTGTGTA
* * * * **
41390816 TTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAA
62 GTACTAAGTACAGGCTACTACGCGTACCAGATTAATTAA
* * * * * *
41390854 GTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCAG-GTGTAGT
1 -TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATGGATAAGTCAC-GTGTGTAGT
* * *
41390918 ACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTTAA
64 ACTAAGTACAGGCTACTACGCGTACCAGATTAA--TTAA
* * *
41390956 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATGGATAAGTCACGTGTGTAGTAC
* * *
41391021 TAAGTACAGGCTCCTACGCGTACCAGATTGA-TAGG
66 TAAGTACAGGCTACTACGCGTACCAGATTAATTA-A
41391056 TCACATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACATGTGTAGTACTAAGTGTAGGCTACTA
41391087 TACATACTAG
Statistics
Matches: 194, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
97 1 0.01
98 2 0.01
99 3 0.02
100 68 0.35
101 113 0.58
102 7 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATGGATAAGTCACGTGTGTAGTAC
TAAGTACAGGCTACTACGCGTACCAGATTAATTAA
Found at i:41391038 original size:151 final size:151
Alignment explanation
Indices: 41390760--41391087 Score: 514
Period size: 151 Copynumber: 2.2 Consensus size: 151
41390750 TGAGTCACGT
* * * *
41390760 GTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACTTTGATCACGTGTGTATTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCATTAACTTTAATCACATGTGTAGTACTAAGT
* * *
41390825 GCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTG
66 GCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTACAGGCTACTACGCG
*
41390890 TACCAAATTGATAGGTCGCAG
131 TACCAAATTGATAGGTCACAG
*
41390911 GTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CTGTTAACTTTAATCACATGTGTAGTACTAAG
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-ATTAACTTTAATCACATGTGTAGTACTAAG
* *
41390975 TGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTACAGGCTCCTACGC
65 TGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTACAGGCTACTACGC
* *
41391040 GTACCAGATTGATAGGTCACAT
130 GTACCAAATTGATAGGTCACAG
*
41391062 GTGTAGTACTAAGTGTAGGCTACTAT
1 GTGTAGTACTAAGTGCAGGCTACTAT
41391088 ACATACTAGG
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 1 0.01
151 161 0.99
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCATTAACTTTAATCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTACAGGCTACTACGCG
TACCAAATTGATAGGTCACAG
Found at i:41393056 original size:16 final size:16
Alignment explanation
Indices: 41393035--41393065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41393025 GCATGGCTTT
41393035 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
41393051 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
41393066 TACTTTATTT
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:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:41395944 original size:27 final size:27
Alignment explanation
Indices: 41395908--41396364 Score: 285
Period size: 27 Copynumber: 17.0 Consensus size: 27
41395898 AAACATACAT
* *
41395908 CACATAAGGGTAAAACAATCATCTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* *
41395935 CATAAAAGGGTAAAACAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* *
41395962 CACATAAGGGCAAAACAATCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * * *
41395989 CTCATAACGGCAAAACAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * *
41396016 CACATAATGGCAAAACAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * * *
41396043 CTCATAAGGGCAAAACAGTCATTATAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * *
41396070 CTCATAAA-GGCAAAACAGTCATTATAC
1 CACA-AAAGGGTAAAACAATCATTTTAC
* * * *
41396097 CTCACAAGGGTAAAATAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * *
41396124 CA-AATAAGGGCAAAACAGTTATTTTAC
1 CACAA-AAGGGTAAAACAATCATTTTAC
* * * *
41396151 CA-AATAAGAGCAAAATAGTCATTTTAC
1 CACAA-AAGGGTAAAACAATCATTTTAC
* * *
41396178 CTCACAAA-GGCAAAATAATCATTTTAC
1 CACA-AAAGGGTAAAACAATCATTTTAC
* * * * *
41396205 CTCATAAGGGCAAAATAGTCA-TTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * *
41396231 CACATAAGGGCAAAATAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * * * *
41396258 CTCACAAGGGCAAAACAGTTATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* * *
41396285 CTCATAAGGGCAAAACAATCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
* *
41396312 CACAAAAGGGCAAAACAGTCATTTTAC
1 CACAAAAGGGTAAAACAATCATTTTAC
** * * *
41396339 CTTATAAGGGCAAAATAATCATTTTA
1 CACAAAAGGGTAAAACAATCATTTTA
41396365 TTAATTTGGG
Statistics
Matches: 373, Mismatches: 50, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
26 30 0.08
27 337 0.90
28 5 0.01
29 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (27 bp):
CACAAAAGGGTAAAACAATCATTTTAC
Found at i:41395977 original size:54 final size:54
Alignment explanation
Indices: 41395908--41396364 Score: 542
Period size: 54 Copynumber: 8.5 Consensus size: 54
41395898 AAACATACAT
* * *
41395908 CACATAAGGGTAAAACAATCATCTTACCAT-AAAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACC-TCAAAAGGGCAAAACAGTCATTTTAC
* *
41395962 CACATAAGGGCAAAACAATCATTTTACCTCATAACGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
* * * *
41396016 CACATAATGGCAAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTATAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
* * * * * * *
41396070 CTCATAAAGGCAAAACAGTCATTATACCTCACAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
* * * * * *
41396124 CAAATAAGGGCAAAACAGTTATTTTACC-AAATAAGAGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAA-AAGGGCAAAACAGTCATTTTAC
* * * * * *
41396178 CTCACAAAGGCAAAATAATCATTTTACCTCATAAGGGCAAAATAGTCA-TTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
* * * *
41396231 CACATAAGGGCAAAATAGTCATTTTACCTCACAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
* *
41396285 CTCATAAGGGCAAAACAATCATTTTACCACAAAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
** *
41396339 CTTATAAGGGCAAAATAATCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
41396365 TTAATTTGGG
Statistics
Matches: 349, Mismatches: 50, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
53 48 0.14
54 300 0.86
55 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC
Found at i:41396049 original size:81 final size:81
Alignment explanation
Indices: 41395908--41396364 Score: 567
Period size: 81 Copynumber: 5.7 Consensus size: 81
41395898 AAACATACAT
* * * * * *
41395908 CACATAAGGGTAAAACAATCATCTTACCAT-AAAAGGGTAAAACAGTCATTTTACCACATAAGGG
1 CACATAAGGGCAAAACAGTCATTTTACC-TCACAAGGGCAAAACAGTCATTTTACCTCATAAGGG
*
41395972 CAAAACAATCATTTTAC
65 CAAAACAGTCATTTTAC
* * * * *
41395989 CTCATAACGGCAAAACAGTCATTTTACCACATAATGGCAAAACAGTCATTTTACCTCATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
*
41396054 AAAACAGTCATTATAC
66 AAAACAGTCATTTTAC
* * * * * **
41396070 CTCATAAAGGCAAAACAGTCATTATACCTCACAAGGGTAAAATAGTCATTTTACCAAATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
*
41396135 AAAACAGTTATTTTAC
66 AAAACAGTCATTTTAC
* * * * * *
41396151 CAAATAAGAGCAAAATAGTCATTTTACCTCACAAAGGCAAAATAATCATTTTACCTCATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
*
41396216 AAAATAGTCA-TTTAC
66 AAAACAGTCATTTTAC
* *
41396231 CACATAAGGGCAAAATAGTCATTTTACCTCACAAGGGCAAAACAGTTATTTTACCTCATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
*
41396296 AAAACAATCATTTTAC
66 AAAACAGTCATTTTAC
* * * * *
41396312 CACAAAAGGGCAAAACAGTCATTTTACCTTATAAGGGCAAAATAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTA
41396365 TTAATTTGGG
Statistics
Matches: 323, Mismatches: 51, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
80 72 0.22
81 251 0.78
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
AAAACAGTCATTTTAC
Found at i:41399574 original size:44 final size:42
Alignment explanation
Indices: 41399485--41399590 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 42
41399475 TTCAATAAAC
* *
41399485 TCGCACACTTAGTGCCAATTAATTAGCCGAATCTATAATAGTA
1 TCGCACACTTAGTGCC-ATTAATAAACCGAATCTATAATAGTA
* *
41399528 TCGTACACTTAGTGCCATTACAATAAACCGAATTTAT-ATCAGTA
1 TCGCACACTTAGTGCCATT--AATAAACCGAATCTATAAT-AGTA
41399572 TCGCACA-TATAGTGCCATT
1 TCGCACACT-TAGTGCCATT
41399591 TATTTAGCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
42 3 0.06
43 18 0.33
44 33 0.61
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGCACACTTAGTGCCATTAATAAACCGAATCTATAATAGTA
Found at i:41402578 original size:81 final size:82
Alignment explanation
Indices: 41402490--41402680 Score: 276
Period size: 81 Copynumber: 2.3 Consensus size: 82
41402480 CGCTGACTCA
* * * * * *
41402490 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACATTGGCCCGAAGGCCCTTCGAAACTAGGTTCG
1 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
41402555 G-TTATGACACTGGCTC
66 GTTTATGACACTGGCTC
* * *
41402571 AAAAGCCCTTCAAGACCAAGATCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
*
41402636 GTTTATGACATTGGCTC
66 GTTTATGACACTGGCTC
*
41402653 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCAAGACCAAGCTCGGATT
41402681 TAAACCCCGA
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 57 0.59
82 40 0.41
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (82 bp):
AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
GTTTATGACACTGGCTC
Found at i:41402603 original size:41 final size:41
Alignment explanation
Indices: 41402490--41402680 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 41
41402480 CGCTGACTCA
* *
41402490 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCTC
* * * * *
41402531 GAAGGCCCTTCGAA-ACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTC-AAGACCAAGCTCGGATTATGACACTGGCTC
*
41402571 AAAAGCCCTTCAAGACCAAGATCGGATTATGACACTGGCTC
1 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCTC
* * *
41402612 AAAAGCCCTTCGAGACCAAGCTCGGTTTATGACATTGGCTC
1 AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCTC
*
41402653 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCAAGACCAAGCTCGGATT
41402681 TAAACCCCGA
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 30 0.23
41 96 0.74
42 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCAAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:41406641 original size:40 final size:40
Alignment explanation
Indices: 41406557--41406738 Score: 156
Period size: 40 Copynumber: 4.5 Consensus size: 40
41406547 ACATTCAAAT
* * * *
41406557 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACACGAAA
* * *
41406597 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCACTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACGAAA
* * * * *
41406637 GCCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCACACGAAA
* * * *
41406677 GCCGTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACGAAA
41406717 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
41406739 ATCATTCGAA
Statistics
Matches: 114, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 104 0.91
41 8 0.07
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACGAAA
Found at i:41406731 original size:80 final size:80
Alignment explanation
Indices: 41406552--41406738 Score: 195
Period size: 80 Copynumber: 2.3 Consensus size: 80
41406542 GCTACACATT
* *
41406552 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGGACTTAACCCG
*
41406616 GATTTAGTAGCTCACT
65 GATTTAGTAGCTCACA
* * * * **
41406632 CGAAAGCCTTC-AGATCTTAGTCCGGATT-TAGTAACTCGCACGTATGCCGTC-GGATCTTAGTC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGGA-CTTAACC
*
41406694 CGGATTTAGTCA-CTTAGCA
63 CGGATTTAGT-AGCTCA-CA
41406713 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
41406739 ATCATTCGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
79 5 0.06
80 73 0.83
81 10 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGG
ATTTAGTAGCTCACA
Found at i:41424729 original size:14 final size:16
Alignment explanation
Indices: 41424700--41424731 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
41424690 AAATTCACTT
41424700 ATTCAATCTCAAATTC
1 ATTCAATCTCAAATTC
41424716 ATTCAAT-T-AAATTC
1 ATTCAATCTCAAATTC
41424730 AT
1 AT
41424732 AACCACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTCAATCTCAAATTC
Found at i:41432840 original size:16 final size:16
Alignment explanation
Indices: 41432821--41432851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41432811 CTTCTTCACT
41432821 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41432837 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41432852 TCCAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41433295 original size:55 final size:52
Alignment explanation
Indices: 41433113--41433297 Score: 194
Period size: 55 Copynumber: 3.4 Consensus size: 52
41433103 CATGTGTCAA
*
41433113 CATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTA-GAACTCACCAATGCCATTCCTTGG
* * *
41433166 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCAGCAATGCCATGT-CTTGA
1 CATGGTCTTACATGGTATCC-TTGCC-T-TAG-AACTCACCAATGCCAT-TCCTTGG
* * * *
41433221 CATAGTCTTACATGGTATCCTTGACTTAGAAACCTTACCAATTGCAATTCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAG-AA-CTCACCAA-TGCCATTCCTTGG
*
41433276 CATGGTCTTACATGTTATCCTT
1 CATGGTCTTACATGGTATCCTT
41433298 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 26 0.24
54 10 0.09
55 69 0.63
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGGTCTTACATGGTATCCTTGCCTTAGAACTCACCAATGCCATTCCTTGG
Found at i:41436143 original size:25 final size:25
Alignment explanation
Indices: 41436107--41436170 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
41436097 ACCTGGGTGA
*
41436107 TAATCAATCACTAGCTCATAATCTT
1 TAATCAACCACTAGCTCATAATCTT
41436132 TAATCAACCACTAGCTCATAATCTT
1 TAATCAACCACTAGCTCATAATCTT
41436157 TAATCAACC-CTAGC
1 TAATCAACCACTAGC
41436171 CATCTTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 5 0.13
25 33 0.87
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (25 bp):
TAATCAACCACTAGCTCATAATCTT
Found at i:41440594 original size:16 final size:16
Alignment explanation
Indices: 41440575--41440605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41440565 CTTCTTCACT
41440575 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41440591 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41440606 CCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41440987 original size:55 final size:54
Alignment explanation
Indices: 41440865--41441051 Score: 182
Period size: 55 Copynumber: 3.4 Consensus size: 54
41440855 GCCATGTGTC
* * *
41440865 GACATGGTCATACATGGCATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 GACATAGTCTTACATGGGATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
* * * * *
41440918 GGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTT
1 GACATAGTCTTACATGGGATCC-TTGCCTTATAG-AACTCACCAATGCCATGCCTT
* * * *
41440973 GACATAGTTTTACATGGTATCCTTGCCTTATA-AACCTTACCAATAACCATGCCTT
1 GACATAGTCTTACATGGGATCCTTGCCTTATAGAA-CTCACCAAT-GCCATGCCTT
* * *
41441028 GCCATGGTCTTACATGGTATCCTT
1 GACATAGTCTTACATGGGATCCTT
41441052 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 27 0.24
54 9 0.08
55 72 0.64
56 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
GACATAGTCTTACATGGGATCCTTGCCTTATAGAACTCACCAATGCCATGCCTT
Found at i:41450161 original size:53 final size:53
Alignment explanation
Indices: 41449978--41450184 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
41449968 ATTAGGGTTT
* * * * *
41449978 AAGGATACCA-AGTAAGACCATGCCAAGGCATGACATTGGTAAGTATTACAAGGC
1 AAGGATACCATA-TAAGACCATGCCAAGACATGGCAATGGTAAGT-TCATAAGGC
* * * * * * * * *
41450032 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGGTAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
41450087 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
41450140 AAGGATACCACATAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTT
41450185 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 43 0.36
54 35 0.30
55 40 0.34
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:41455895 original size:40 final size:39
Alignment explanation
Indices: 41455850--41455979 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
41455840 CGGAATATAA
41455850 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
41455890 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
41455930 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
41455970 CCGGATATAA
1 CCGGATATAA
41455980 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:41455994 original size:40 final size:40
Alignment explanation
Indices: 41455866--41456017 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
41455856 ATAACCATGT
* * *
41455866 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
41455906 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
41455946 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
41455986 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
41456018 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:41456000 original size:80 final size:80
Alignment explanation
Indices: 41455866--41456015 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
41455856 ATAACCATGT
*
41455866 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
41455930 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
41455946 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
41456009 CCCGGAT
64 CCCGGAT
41456016 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:41463102 original size:40 final size:39
Alignment explanation
Indices: 41463057--41463186 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
41463047 CGGAATATAA
41463057 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
41463097 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
41463137 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
41463177 CCGGATATAA
1 CCGGATATAA
41463187 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:41463201 original size:40 final size:40
Alignment explanation
Indices: 41463073--41463223 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
41463063 ATAACCATGT
* * *
41463073 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
41463113 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
41463153 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
41463193 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
41463224 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:41463207 original size:80 final size:79
Alignment explanation
Indices: 41463073--41463221 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
41463063 ATAACCATGT
* *
41463073 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
41463138 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
41463153 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
41463216 CCGGAT
64 CCGGAT
41463222 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:41467555 original size:47 final size:47
Alignment explanation
Indices: 41467484--41467686 Score: 325
Period size: 47 Copynumber: 4.3 Consensus size: 47
41467474 CCCTTCGGGA
* * * * * *
41467484 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41467531 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41467578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41467625 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41467674 CTTATCACATATA
1 CTTATCACATATA
41467687 CTATCATGTA
Statistics
Matches: 146, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 99 0.68
49 47 0.32
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41467681 original size:96 final size:94
Alignment explanation
Indices: 41467484--41467686 Score: 325
Period size: 96 Copynumber: 2.1 Consensus size: 94
41467474 CCCTTCGGGA
* * * *
41467484 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
41467549 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
41467578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
41467643 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
41467674 CTTATCACATATA
1 CTTATCACATATA
41467687 CTATCATGTA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 48 0.48
96 52 0.52
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:41471772 original size:40 final size:40
Alignment explanation
Indices: 41471724--41472077 Score: 528
Period size: 40 Copynumber: 8.8 Consensus size: 40
41471714 GCCCGAATAC
* * * *
41471724 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * ** *
41471764 ATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
41471804 ACATCACTAGCACGAATGCTCTTCGAGACTTAGTCCAGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
41471844 ACATCACTAGCACAAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
41471884 ACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
41471924 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
41471964 ACATCACTGGCACGAATGCTCTTCAGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
41472004 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCTCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
41472044 ACATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGC
41472078 ACGAATGCTC
Statistics
Matches: 285, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:41472077 original size:23 final size:23
Alignment explanation
Indices: 41472011--41472100 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 23
41472001 GATACATCAC
41472011 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
41472034 TAGCTCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
41472051 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
*
41472074 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGGGACT
41472097 TAGC
1 TAGC
41472101 CCGGATACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
17 8 0.15
18 2 0.04
19 3 0.06
21 3 0.06
22 2 0.04
23 34 0.65
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:41472110 original size:63 final size:63
Alignment explanation
Indices: 41472011--41472140 Score: 233
Period size: 63 Copynumber: 2.1 Consensus size: 63
41472001 GATACATCAC
* * *
41472011 TAGCACGAATGCTCTTCGGGACTTAGCTCGGATACATCACTAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACT
41472074 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACT
41472137 TAGC
1 TAGC
41472141 CCAGATACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (63 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACT
Found at i:41472129 original size:40 final size:40
Alignment explanation
Indices: 41472074--41472234 Score: 304
Period size: 40 Copynumber: 4.0 Consensus size: 40
41472064 CTTCGGGACT
41472074 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
*
41472114 TAGCACGAATGCTCTTCGAGACTTAGCCCAGATACATCAC
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
41472154 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
*
41472194 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
41472234 T
1 T
41472235 CTCAATTCTC
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
Found at i:41472152 original size:103 final size:103
Alignment explanation
Indices: 41471973--41472180 Score: 364
Period size: 103 Copynumber: 2.0 Consensus size: 103
41471963 TACATCACTG
*
41471973 GCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 GCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGC
* * *
41472038 TCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
66 CCAGATACATCACTAGCACGAATGCTCTTCGAGACTTA
41472076 GCACGAATGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAG
1 GCACGAATGCTCTTCAG-GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAG
41472140 CCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTA
65 CCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTA
41472179 GC
1 GC
41472181 CCGGATACAT
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 1 0.01
103 99 0.99
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (103 bp):
GCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGC
CCAGATACATCACTAGCACGAATGCTCTTCGAGACTTA
Found at i:41472189 original size:143 final size:143
Alignment explanation
Indices: 41471931--41472220 Score: 519
Period size: 143 Copynumber: 2.0 Consensus size: 143
41471921 GATACATCAC
* *
41471931 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTGGCACGAATGCTCTTCAGGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGGACTTA
* * *
41471996 GCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCTCGGATACATCACTAGCACGAAT
66 GCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAAT
41472061 GCTCTTCGGGACT
131 GCTCTTCGGGACT
41472074 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAGACTT
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCAG-GACTT
41472138 AGCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
65 AGCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
41472203 TGCTCTTCGGGACT
130 TGCTCTTCGGGACT
41472217 TAGC
1 TAGC
41472221 CCGGATACAT
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
142 1 0.01
143 140 0.99
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (143 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGGACTTA
GCCCAGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAAT
GCTCTTCGGGACT
Found at i:41472205 original size:183 final size:183
Alignment explanation
Indices: 41471891--41472234 Score: 627
Period size: 183 Copynumber: 1.9 Consensus size: 183
41471881 GATACATCAC
* *
41471891 TAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
* *
41471956 GCCCGGATACATCACTGGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAAT
66 GCCCAGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAAT
*
41472021 GCTCTTCGGGACTTAGCTCGGATACATCACTAGCACGAATGCTCTTCGGGACT
131 GCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACT
41472074 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
1 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
41472139 GCCCAGATACATCACTAGCACGAATGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAA
66 GCCCAGATACATCACTAGCACGAATGCTCTTCAG-GACTTAGCCCGGATACATCACTAGCACGAA
41472203 TGCTCTTCGGGACTTAGCCCGGATACATCACT
130 TGCTCTTCGGGACTTAGCCCGGATACATCACT
41472235 CTCAATTCTC
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 1 0.01
183 154 0.99
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (183 bp):
TAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTA
GCCCAGATACATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAAT
GCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACT
Found at i:41473721 original size:47 final size:47
Alignment explanation
Indices: 41473650--41473852 Score: 325
Period size: 47 Copynumber: 4.3 Consensus size: 47
41473640 CCCTTCGGGA
* * * * * *
41473650 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41473697 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41473744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41473791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41473840 CTTATCACATATA
1 CTTATCACATATA
41473853 CTATCATGTA
Statistics
Matches: 146, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 99 0.68
49 47 0.32
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41473847 original size:96 final size:94
Alignment explanation
Indices: 41473650--41473852 Score: 325
Period size: 96 Copynumber: 2.1 Consensus size: 94
41473640 CCCTTCGGGA
* * * *
41473650 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
41473715 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
41473744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
41473809 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
41473840 CTTATCACATATA
1 CTTATCACATATA
41473853 CTATCATGTA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 48 0.48
96 52 0.52
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:41481220 original size:41 final size:41
Alignment explanation
Indices: 41481158--41481278 Score: 156
Period size: 41 Copynumber: 2.9 Consensus size: 41
41481148 ATGGTATCTC
41481158 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAATCAA
1 ATATCGATGCCA-TGTCCCAGACAGGGTCTTACACGAATCAA
* * *
41481200 ATAT-GATGCCGATGTCCCAGACATGGACTTACACGTAATCAC
1 ATATCGATGCC-ATGTCCCAGACAGGGTCTTACACG-AATCAA
41481242 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACGA
1 ATATCGATGCC-ATGTCCCAGACAG-GGTCTTACACGA
41481279 GAATACATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 27 0.39
42 15 0.22
43 27 0.39
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
ATATCGATGCCATGTCCCAGACAGGGTCTTACACGAATCAA
Found at i:41481287 original size:43 final size:43
Alignment explanation
Indices: 41481121--41481289 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
41481111 ATATCGTACA
* * * *
41481121 ATGCCAACGTCCCAGACGTGGTCTTACATGGTATCTCATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGGAATCACATATCG
* *
41481164 ATGCCACTGTCCCAGACAG-GGTCTTACAC-GAATCAAATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGGAATCACATATCG
* * * *
41481205 ATGCCGATGTCCCAGACATGGACTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGGAATCACATATCG
41481248 ATGCCAATGTCCCAGACGTGGTCTTACACGAGAAT-ACATATC
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-GAATCACATATC
41481290 AGAAACCCTA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 25 0.24
42 17 0.16
43 59 0.56
44 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGGAATCACATATCG
Found at i:41484293 original size:40 final size:40
Alignment explanation
Indices: 41484238--41484324 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
41484228 TAACGCTTAG
*
41484238 TAAGTCTGTCACACATAAACGATGCTTACCAATACAATGCA
1 TAAG-CTGTAACACATAAACGATGCTTACCAATACAATGCA
41484279 TAAGCTGTAACACATAAACGATGCTTACCAATACAATGCA
1 TAAGCTGTAACACATAAACGATGCTTACCAATACAATGCA
41484319 TAAGCT
1 TAAGCT
41484325 TAAAATAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (40 bp):
TAAGCTGTAACACATAAACGATGCTTACCAATACAATGCA
Found at i:41484579 original size:29 final size:29
Alignment explanation
Indices: 41484533--41484588 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
41484523 AATGGAATAA
*
41484533 TGATGGTCGTCACAATCCCTTTTCATAGT
1 TGATGGTCATCACAATCCCTTTTCATAGT
* *
41484562 TGATGGTCATCACCATCCTTTTTCATA
1 TGATGGTCATCACAATCCCTTTTCATA
41484589 ATCAATAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (29 bp):
TGATGGTCATCACAATCCCTTTTCATAGT
Found at i:41484608 original size:29 final size:29
Alignment explanation
Indices: 41484576--41484675 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
41484566 GGTCATCACC
* *
41484576 ATCCTTTTTCATAATCAATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * * * *
41484605 ATCCCTTTTCGTATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
41484634 ATCCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCC-TTTTCATAATCGATAGCCGAAGCT
41484664 ATCCCTTTTCAT
1 ATCCCTTTTCAT
41484676 CGGTCGATGA
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
29 31 0.60
30 21 0.40
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:41484623 original size:58 final size:59
Alignment explanation
Indices: 41484547--41484675 Score: 215
Period size: 59 Copynumber: 2.2 Consensus size: 59
41484537 GGTCGTCACA
41484547 ATCCCTTTTCATAGTTGATGGTCATCACCAT-CCTTTTTCATAATCAATAGCCGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTTCATAATCAATAGCCGAAGCT
* * * *
41484605 ATCCCTTTTCGTATTTGATGGTCGTCACCATCCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTTCATAATCAATAGCCGAAGCT
41484664 ATCCCTTTTCAT
1 ATCCCTTTTCAT
41484676 CGGTCGATGA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 28 0.43
59 37 0.57
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.38
Consensus pattern (59 bp):
ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTTCATAATCAATAGCCGAAGCT
Found at i:41484668 original size:30 final size:30
Alignment explanation
Indices: 41484578--41484672 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
41484568 TCATCACCAT
*
41484578 CCTTTTTCATAATCAATAGCCGAAGCTATC
1 CCTTTTTCATAATCGATAGCCGAAGCTATC
* * * * * * *
41484608 CC-TTTTCGTATTTGATGGTCGTCA-CCATC
1 CCTTTTTCATAATCGATAGCCG-AAGCTATC
41484637 CCTTTTTCATAATCGATAGCCGAAGCTATC
1 CCTTTTTCATAATCGATAGCCGAAGCTATC
41484667 CCTTTT
1 CCTTTT
41484673 CATCGGTCGA
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 20 0.43
30 27 0.57
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
CCTTTTTCATAATCGATAGCCGAAGCTATC
Found at i:41486953 original size:47 final size:47
Alignment explanation
Indices: 41486884--41486978 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
41486874 ACCAACAGAG
41486884 TAGGGAAAATAAAAGGGACTAAAGGGAGCATTGTAAAGAATTATCTA
1 TAGGGAAAATAAAAGGGACTAAAGGGAGCATTGTAAAGAATTATCTA
*
41486931 TAGGGAAAATAAAAGGGACTAAAGGGAGCATTGTAAATAATTATCTA
1 TAGGGAAAATAAAAGGGACTAAAGGGAGCATTGTAAAGAATTATCTA
41486978 T
1 T
41486979 TTTTAAACCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.23
Consensus pattern (47 bp):
TAGGGAAAATAAAAGGGACTAAAGGGAGCATTGTAAAGAATTATCTA
Found at i:41487336 original size:21 final size:21
Alignment explanation
Indices: 41487310--41487349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41487300 GGTGAAAATT
*
41487310 GTAACCCCATGTCGCAACACC
1 GTAACCCCATATCGCAACACC
*
41487331 GTAACCCCATATCGTAACA
1 GTAACCCCATATCGCAACA
41487350 TCAAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.38, G:0.12, T:0.17
Consensus pattern (21 bp):
GTAACCCCATATCGCAACACC
Found at i:41493019 original size:51 final size:49
Alignment explanation
Indices: 41492709--41493017 Score: 473
Period size: 49 Copynumber: 6.3 Consensus size: 49
41492699 CCCTTCGGGA
* * * * * *
41492709 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41492756 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41492803 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41492852 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41492901 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41492950 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41493001 CTTATCACATATATATA
1 CTTATCACATATATATA
41493018 TATATATCTC
Statistics
Matches: 242, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 45 0.19
49 148 0.61
51 48 0.20
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41499276 original size:23 final size:23
Alignment explanation
Indices: 41499246--41499321 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
41499236 TAGGTCATTG
41499246 GAGCTTACCATTTCAGCTCG-TA
1 GAGCTTACCATTTCAGCTCGATA
41499268 TGAGCTTA-C-TGTTCAGCTCGATA
1 -GAGCTTACCAT-TTCAGCTCGATA
* *
41499291 GAGCCTACCATTTCAGCTCAATA
1 GAGCTTACCATTTCAGCTCGATA
41499314 GAGCTTAC
1 GAGCTTAC
41499322 TGTTTATCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.35
23 28 0.61
24 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTCGATA
Found at i:41502084 original size:40 final size:40
Alignment explanation
Indices: 41501999--41502149 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
41501989 AATTGAATGA
* * *
41501999 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
41502039 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
41502080 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
41502119 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
41502150 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:41502163 original size:40 final size:40
Alignment explanation
Indices: 41502036--41502165 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
41502026 ATGCTGGAAA
* * * *
41502036 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
41502076 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
41502116 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
41502156 TTATATCCGG
1 TTATATCCGG
41502166 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Done.