Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 12
Found at i:403117 original size:28 final size:28
Alignment explanation
Indices: 403082--403155 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
403072 AAAATAAAAT
*
403082 CGGGGTTAGAGTATCCCCTCGAAAATAA
1 CGGGGTTAGAGTATCCCCTCAAAAATAA
*
403110 CGGGGTTAGAGTATCCTCTCAAAAATAA
1 CGGGGTTAGAGTATCCCCTCAAAAATAA
* *
403138 TGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
403156 AATTGTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (28 bp):
CGGGGTTAGAGTATCCCCTCAAAAATAA
Found at i:405289 original size:40 final size:39
Alignment explanation
Indices: 405245--405353 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
405235 TGGAAAGGGT
* * *
405245 GTCCTGCTTTTTGAGGACAAAGGAAAAGAGAATGAAATGA
1 GTCCTGCTTCTTGAGGACAAAGGAAAAGAAAAGGAAA-GA
* * *
405285 GTCCTACTCCTTGAGGACAAAGGAAGAAAGAAAAGGAAAGT
1 GTCCTGCTTCTTGAGGACAAAGG-A-AAAGAAAAGGAAAGA
*
405326 GTCTTGCTTCTTGAGGACAAAGTGAAAA
1 GTCCTGCTTCTTGAGGACAAAG-GAAAA
405354 AAGAGTACGT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
40 23 0.40
41 22 0.39
42 12 0.21
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (39 bp):
GTCCTGCTTCTTGAGGACAAAGGAAAAGAAAAGGAAAGA
Found at i:405779 original size:62 final size:61
Alignment explanation
Indices: 405578--406209 Score: 683
Period size: 62 Copynumber: 10.4 Consensus size: 61
405568 AGTTAAGTGT
* * * * ** *
405578 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTGAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGC
* * ** *
405639 GTCCTGCTCTTTGAGGACGAGAAGGTGCCACCAACTTATGTGGGCTTT-AAAAAAAATGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGC
* * * *
405699 TTCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGGTTTGAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAA-AAAAAAGGC
* * * * **
405761 ATCCTGCTTTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAAAC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAAAAGGC
405823 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGCAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA--AAAAAGGC
* * * *
405885 GTCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAAAAGGC
* * * ** * *
405947 ATCCTCCTCTTTG-GAGACTGAAAGGCACCACCAACTCATGTGGGCTTTG-AAAAAAAA--T
1 GTCCTGCTCTTTGAG-GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGC
* * **
406005 GTCCTGCTCTTTGAGGACT-AAAGGATGCCACTAACTCGTGTAGGCTTT-AAGAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGG-TGCCACCAACTCGTGTGGGCTTTGAA-AAAAAAAGGC
* *
406066 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAGGAAA-GC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAA-AAAAGGC
* * * * *
406126 GTCTTGCTCTTTAAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTT-AAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAA--AAAAGGC
*
406188 GTCCTGCTCTTTGAAGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
406210 GGGCTAAAAG
Statistics
Matches: 482, Mismatches: 73, Indels: 31
0.82 0.12 0.05
Matches are distributed among these distances:
57 5 0.01
58 34 0.07
59 6 0.01
60 102 0.21
61 105 0.22
62 226 0.47
63 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGC
Found at i:410155 original size:140 final size:140
Alignment explanation
Indices: 409903--410185 Score: 566
Period size: 140 Copynumber: 2.0 Consensus size: 140
409893 TTGAAATGTG
409903 GTAGAGAAAATGGAATTCAATTTTTGGTTGAAAACGGGGTTGGAGTGTCCCCTCGGAGGAATGGG
1 GTAGAGAAAATGGAATTCAATTTTTGGTTGAAAACGGGGTTGGAGTGTCCCCTCGGAGGAATGGG
409968 GTTGGAGTGTCCCCGGTGAATAAAATTTTTGATATTTTTGTTGTGGGAAACGATGTGAATAAAGA
66 GTTGGAGTGTCCCCGGTGAATAAAATTTTTGATATTTTTGTTGTGGGAAACGATGTGAATAAAGA
410033 CGCTAAAGAT
131 CGCTAAAGAT
410043 GTAGAGAAAATGGAATTCAATTTTTGGTTGAAAACGGGGTTGGAGTGTCCCCTCGGAGGAATGGG
1 GTAGAGAAAATGGAATTCAATTTTTGGTTGAAAACGGGGTTGGAGTGTCCCCTCGGAGGAATGGG
410108 GTTGGAGTGTCCCCGGTGAATAAAATTTTTGATATTTTTGTTGTGGGAAACGATGTGAATAAAGA
66 GTTGGAGTGTCCCCGGTGAATAAAATTTTTGATATTTTTGTTGTGGGAAACGATGTGAATAAAGA
410173 CGCTAAAGAT
131 CGCTAAAGAT
410183 GTA
1 GTA
410186 AAAGCATTTG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 143 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (140 bp):
GTAGAGAAAATGGAATTCAATTTTTGGTTGAAAACGGGGTTGGAGTGTCCCCTCGGAGGAATGGG
GTTGGAGTGTCCCCGGTGAATAAAATTTTTGATATTTTTGTTGTGGGAAACGATGTGAATAAAGA
CGCTAAAGAT
Found at i:414484 original size:79 final size:79
Alignment explanation
Indices: 414366--414583 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
414356 AACGGAGCTG
* * *
414366 GAGTATCCTCGA-TATGGAAAATCAATA-TTCTAGAAATAAAATCGAGGTTGGAGTATCCCCTC-
1 GAGTATCCCCGACTATGAAAAATCGATACTT-TAGAAATAAAATCGAGGTTGGAGTATCCCCTCG
*
414428 AGAAATAACACGGTTG
65 A-AAATAACACGGTTA
* * * * * **
414444 GAGTATCCCTGACTAT-AGAAAATCGGTA-TTTTGAAAATAAAATCGGGGTTGGACTATCTTCTC
1 GAGTATCCCCGACTATGA-AAAATCGATACTTTAG-AAATAAAATCGAGGTTGGAGTATCCCCTC
**
414507 GAAAATAACGGGGTTA
64 GAAAATAACACGGTTA
* * **
414523 GAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAAGCCGAGGTTGGAGTA-CCCCT
1 GAGTATCCCCGACTATGAAAAATCGATACTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT
414584 GATTGTGAGA
Statistics
Matches: 110, Mismatches: 24, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
78 15 0.14
79 89 0.81
80 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCGACTATGAAAAATCGATACTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGA
AAATAACACGGTTA
Found at i:414650 original size:158 final size:159
Alignment explanation
Indices: 414488--414817 Score: 393
Period size: 158 Copynumber: 2.1 Consensus size: 159
414478 AAATAAAATC
* *
414488 GGGGTTGGACTATCTTCTCGA-AAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGC
1 GGGGTTGGAGTATCTTCTCGAGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATGC
* * * * *
414552 TTTAGAAATAAAGCCGAGGTTGGAGTA-CCCCTGATTGT-GAGAAGTCAATATTTTGGAAATAAA
66 TTTAGAAATAAAACCAAAGTTGGAGTATCCCC-GATTGTGGA-AAATCAATATTTTAGAAATAAA
*
414615 GTCGGGGTTGGAGTATCCCCTC-GAAAATAAT
129 ATCGGGGTTGGAGTATCCCCTCAG-AAATAAT
* * * *
414646 GGGGTTGGAGTA--TTCTCGATGAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGATG
1 GGGGTTGGAGTATCTTCTCGA-GAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATG
* * * *** *
414709 TTTTGGAAATAAAATCAAAGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAA
65 CTTTAGAAATAAAACCAAAGTTGGAGTATCCCCGATTGTGGAAAATCAATATTTTAGAAATAAAA
*
414774 TCGGGGTTTGAGTATCCCCTCAGAAATAAT
130 TCGGGGTTGGAGTATCCCCTCAGAAATAAT
*
414804 GGGATTGGAGTATC
1 GGGGTTGGAGTATC
414818 CCTGATTATG
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
156 7 0.05
158 130 0.90
159 7 0.05
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (159 bp):
GGGGTTGGAGTATCTTCTCGAGAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATGC
TTTAGAAATAAAACCAAAGTTGGAGTATCCCCGATTGTGGAAAATCAATATTTTAGAAATAAAAT
CGGGGTTGGAGTATCCCCTCAGAAATAAT
Found at i:414691 original size:28 final size:27
Alignment explanation
Indices: 414619--414693 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
414609 AATAAAGTCG
**
414619 GGGTTGGAGTATCCCCTCGA-AAATAATG
1 GGGTTGGAGTAT--CCTCGATAAATAACA
*
414647 GGGTTGGAGTATTCTCGATGAAATAACA
1 GGGTTGGAGTATCCTCGAT-AAATAACA
414675 GGGTTGGAGTATCCTCGAT
1 GGGTTGGAGTATCCTCGAT
414694 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
28 36 0.88
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (27 bp):
GGGTTGGAGTATCCTCGATAAATAACA
Found at i:414787 original size:51 final size:51
Alignment explanation
Indices: 414673--414792 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
414663 GATGAAATAA
* *
414673 CAGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAT
** * *
414724 CAAAGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAT
* *
414775 CGGGGTTTGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
414793 TCAGAAATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.32
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAT
Found at i:419887 original size:79 final size:79
Alignment explanation
Indices: 419812--420107 Score: 237
Period size: 79 Copynumber: 3.8 Consensus size: 79
419802 GAAAAATTTA
* *
419812 ATATTTTGGAGATAAAAAT-GGGGTCGGAGTACCCCCTCAGAAATAATGGGGTTAGAGTATCC-C
1 ATATTTTGGAAATAAAAATCGGGGTCGGAGTACCCCCTCAGAAATAACGGGGTTAGAGTATCCTC
419875 AATGGTGGAAAATTG
66 AATGGT-GAAAATTG
* * * * * *
419890 ATGTATTAGAAAT-AAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTTGAGTATCCTC
1 ATATTTTGGAAATAAAAATCGGGGTCGGAGTACCCCCTCAGAAATAACGGGGTTAGAGTATCCTC
* *
419954 AATTGTGAAAAATCG
66 AATGGTG-AAAATTG
* * * ** * * * * *
419969 ATATTTTGGAAAT-AAAACCGAGGTTGGAGTATTCCCTCAAAAATAACGAGATTGGAGTATCCCC
1 ATATTTTGGAAATAAAAATCGGGGTCGGAGTACCCCCTCAGAAATAACGGGGTTAGAGTATCCTC
* **
420033 GATTATGAAAAATTG
66 AATGGTG-AAAATTG
*** ** * * *
420048 GCGTTTTGGAAAT--AAATCGGGGTTAGAGTA-TCCCTCAGAAATAACAGGGTTGGAGTATCC
1 ATATTTTGGAAATAAAAATCGGGGTCGGAGTACCCCCTCAGAAATAACGGGGTTAGAGTATCC
420108 CTTCGAAAAT
Statistics
Matches: 181, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
77 31 0.17
78 63 0.35
79 87 0.48
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
ATATTTTGGAAATAAAAATCGGGGTCGGAGTACCCCCTCAGAAATAACGGGGTTAGAGTATCCTC
AATGGTGAAAATTG
Found at i:420006 original size:157 final size:156
Alignment explanation
Indices: 419812--420107 Score: 360
Period size: 157 Copynumber: 1.9 Consensus size: 156
419802 GAAAAATTTA
* * * * * * *
419812 ATATTTTGGAGATAAAAATGGGGTCGGAGTACCCCCTCAGAAATAATGGGGTTAGAGTAT-CCCA
1 ATATTTTGGAAATAAAAACGAGGTCGGAGTACCCCCTCAAAAATAACGAGATTAGAGTATCCCCA
* * * * *
419876 ATGGTGGAAAATTGATGTATTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
66 ATGATGAAAAATTGACGTATTAGAAAT-AAATCGGGGTTAGAGTAT-CCCTCAGAAATAACAGGG
*
419941 TTTGAGTATCCTCAATTGTGAAAAATCG
129 TTGGAGTATCCTCAATTGTGAAAAATCG
* * ** * *
419969 ATATTTTGGAAATAAAACCGAGGTTGGAGTATTCCCTCAAAAATAACGAGATTGGAGTATCCCCG
1 ATATTTTGGAAATAAAAACGAGGTCGGAGTACCCCCTCAAAAATAACGAGATTAGAGTATCCCCA
* * * *
420034 ATTATGAAAAATTGGCGTTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACAGGGTT
66 ATGATGAAAAATTGACGTATTAGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACAGGGTT
420099 GGAGTATCC
131 GGAGTATCC
420108 CTTCGAAAAT
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
156 27 0.23
157 65 0.57
158 23 0.20
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (156 bp):
ATATTTTGGAAATAAAAACGAGGTCGGAGTACCCCCTCAAAAATAACGAGATTAGAGTATCCCCA
ATGATGAAAAATTGACGTATTAGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACAGGGTT
GGAGTATCCTCAATTGTGAAAAATCG
Found at i:420099 original size:105 final size:106
Alignment explanation
Indices: 419990--420214 Score: 296
Period size: 105 Copynumber: 2.1 Consensus size: 106
419980 ATAAAACCGA
*
419990 GGTTGGAGTATTCCC-TCAAAAATAACGAGATTGGAGTATCCCCGATTATGAAAAATTGGCGTTT
1 GGTTGGAGTA-TCCCTTCAAAAATAACGAGATTGGAGTATCCCCGATTATGAAAAATTGGCGTTG
420054 TGGAAAT-AAATCGGGGTTAGAGTATCCCTCAGAAATAACAG
65 TGGAAATAAAATCGGGGTTAGAGTATCCCTCAGAAATAACAG
* * * * * * *
420095 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCGATTGTGGAAAATTGGTGTTGT
1 GGTTGGAGTATCCCTTCAAAAATAACGAGATTGGAGTATCCCCGATTATGAAAAATTGGCGTTGT
* **
420160 GGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAA-TT
66 GGAAATAAAATCGGGGTTAGAGTAT-CCCTCAG-AAATAACAG
420201 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
420215 CGATTATGAA
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
104 4 0.04
105 58 0.55
106 32 0.30
107 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (106 bp):
GGTTGGAGTATCCCTTCAAAAATAACGAGATTGGAGTATCCCCGATTATGAAAAATTGGCGTTGT
GGAAATAAAATCGGGGTTAGAGTATCCCTCAGAAATAACAG
Found at i:420126 original size:28 final size:27
Alignment explanation
Indices: 420056--420134 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 27
420046 TGGCGTTTTG
*
420056 GAAATAAATCGGGGTTAGAGTATCCCTCA
1 GAAAT-AA-CGGGGTTGGAGTATCCCTCA
*
420085 GAAATAACAGGGTTGGAGTATCCCTTC-
1 GAAATAACGGGGTTGGAGTATCCC-TCA
420112 GAAAATAACGGGGTTGGAGTATC
1 G-AAATAACGGGGTTGGAGTATC
420135 TCCGATTGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.36
28 24 0.53
29 5 0.11
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (27 bp):
GAAATAACGGGGTTGGAGTATCCCTCA
Found at i:420267 original size:183 final size:184
Alignment explanation
Indices: 419910--420585 Score: 921
Period size: 183 Copynumber: 3.7 Consensus size: 184
419900 AATAAAATCG
* * * * *
419910 GGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTTGAGTATC-CTCAATTGTGAAAAATCGATAT
1 GGGTTGGAGTATCCCTTCGA-AAATAACGGGGTTGGAGTATCTC-CAATTGTGAAAAATTGGTGT
* * * * * * *
419973 TTTGGAAATAAAACCGAGGTTGGAGTATTCCCTCAAAAATAACGAGATTGGAGTATCCCCGATTA
64 TGTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTA
420038 TGAAAAATTGGCGTTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACA
129 TGAAAAATTGGCGTTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACA
* *
420094 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCGATTGTGGAAAATTGGTGTTG
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTG
**
420159 TGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA-TTGGTTGGAGTATCCCCGATTATG
66 TGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATG
* *
420223 AAAAATTGGCATTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACG
131 AAAAATTGGCGTTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACA
* * *
420277 GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCTCCGATTGTGGAAAATTGGTGTTG
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTG
* * *
420342 TGGAAATAAAATCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGCATCCACGATTATG
66 TGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATG
* * * * *
420407 AAAATTTTGTGTTTT-GAAGATAAAATCGGGTTTAGAGTATCCCCTCAGAAATAAAA
131 AAAAATTGGCGTTTTGGAA-AT-AAATCGGGGTTAGAGTAT-CCCTCAGAAATAACA
* * * * *
420463 GGGTTTGAGTATTCCTTCAAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAATTGGTGTTG
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTG
* * * *
420528 TGGAAATAAAA-CTGTGGTTTGAGTATCCCTTTGAAAATAACGGGGTTGGAGTATCCCC
66 TGGAAATAAAATC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
420586 TCGGAAATAA
Statistics
Matches: 440, Mismatches: 45, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
183 179 0.41
184 122 0.28
185 20 0.05
186 119 0.27
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (184 bp):
GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTG
TGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATG
AAAAATTGGCGTTTTGGAAATAAATCGGGGTTAGAGTATCCCTCAGAAATAACA
Found at i:420282 original size:77 final size:78
Alignment explanation
Indices: 420094--420291 Score: 267
Period size: 78 Copynumber: 2.5 Consensus size: 78
420084 AGAAATAACA
* * * **
420094 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTCCGATTGTGGAAAATTGGTGTTG
1 GGGTTGGAGTATCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGCATTG
420159 TGGAAATAAAATCG
65 TGGAAATAAAATCG
** *
420173 GGGTTGGAGTATCCCCTCGAAAATAA-TTGGTTGGAGTATCCCCGATTATGAAAAATTGGCATTT
1 GGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGCATTG
420237 TGGAAAT-AAATCG
65 TGGAAATAAAATCG
*
420250 GGGTTAGAGTATCCCTC-AGAAATAACGGGGTTGGAGTATCCC
1 GGGTTGGAGTATCCCTCGA-AAATAACGGGGTTGGAGTATCCC
420292 TTCGAAAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 11 0.10
77 31 0.30
78 37 0.35
79 22 0.21
80 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGCATTGT
GGAAATAAAATCG
Found at i:420309 original size:28 final size:27
Alignment explanation
Indices: 420239--420317 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 27
420229 TGGCATTTTG
*
420239 GAAATAAATCGGGGTTAGAGTATCCCTCA
1 GAAAT-AAT-GGGGTTGGAGTATCCCTCA
*
420268 GAAATAACGGGGTTGGAGTATCCCTTC-
1 GAAATAATGGGGTTGGAGTATCCC-TCA
420295 GAAAATAATGGGGTTGGAGTATC
1 G-AAATAATGGGGTTGGAGTATC
420318 TCCGATTGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.36
28 24 0.53
29 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (27 bp):
GAAATAATGGGGTTGGAGTATCCCTCA
Found at i:420367 original size:79 final size:80
Alignment explanation
Indices: 420275--420457 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
420265 TCAGAAATAA
* * *
420275 CGGGGTTGGAGTATCCCT-TCGAAAATAATGGGGTTGGAGTATCTC-CGATTGTGGAAAA-TTGG
1 CGGGGTTGGAGTATCCCTCTCGAAAATAACGGGGTTGGAGCATC-CACGATTAT-GAAAATTTGG
420337 TGTTGTGGAA-ATAAAAT
64 TGTT-TGGAAGATAAAAT
*
420354 CGGGGTTGGAGTAT-CCTCTCGAAAATAACGGGGTTGGAGCATCCACGATTATGAAAATTTTGTG
1 CGGGGTTGGAGTATCCCTCTCGAAAATAACGGGGTTGGAGCATCCACGATTATGAAAATTTGGTG
*
420418 TTTTGAAGATAAAAT
66 TTTGGAAGATAAAAT
* *
420433 CGGGTTTAGAGTATCCC-CTCAGAAA
1 CGGGGTTGGAGTATCCCTCTC-GAAA
420458 TAAAAGGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
78 13 0.14
79 72 0.79
80 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCTCTCGAAAATAACGGGGTTGGAGCATCCACGATTATGAAAATTTGGTG
TTTGGAAGATAAAAT
Found at i:420467 original size:107 final size:107
Alignment explanation
Indices: 420356--420690 Score: 308
Period size: 107 Copynumber: 3.1 Consensus size: 107
420346 AATAAAATCG
* * * *
420356 GGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGCATCCACGATTATGAAAATTTTGTGTT-
1 GGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTG
*
420420 TTGAAGATAAAA-TCG-GGTTTAGAGTATCCCCTCAG-AAATAAAA
66 TGGAA-ATAAAACT-GTGGTTT-GAGTAT-CCCTCAGAAAATAAAA
* * * * *
420463 GGGTTTGAGTATTCCT-TCAAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAATTGGTGTT
1 GGGTTGGAGTA-TCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTT
** **
420527 GTGGAAATAAAACTGTGGTTTGAGTATCCCTTTGAAAATAACG
65 GTGGAAATAAAACTGTGGTTTGAGTATCCCTCAGAAAATAAAA
* * * * * *
420570 GGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGAAGTATCCCCGATTGTGGAAAA-TCGATGTT
1 GGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAATTTGGTGTT
* ** * *
420634 CTCAAAATAAAACTGAT-GTTAGAGTATCGCCTC-GAAAATAACA
65 GTGGAAATAAAACTG-TGGTTTGAGTATC-CCTCAGAAAATAAAA
*
420677 GGGTTAGAGTATCC
1 GGGTTGGAGTATCC
420691 CCGATTGTGG
Statistics
Matches: 188, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
106 8 0.04
107 157 0.84
108 23 0.12
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (107 bp):
GGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTG
TGGAAATAAAACTGTGGTTTGAGTATCCCTCAGAAAATAAAA
Found at i:420474 original size:28 final size:28
Alignment explanation
Indices: 420434--420506 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
420424 AGATAAAATC
*
420434 GGGTTTAGAGTATCCCCTCAGAAATAAAA
1 GGGTTT-GAGTATCCCCTCAAAAATAAAA
* * **
420463 GGGTTTGAGTATTCCTTCAAAAATAACG
1 GGGTTTGAGTATCCCCTCAAAAATAAAA
*
420491 GGGTTAGAGTATCCCC
1 GGGTTTGAGTATCCCC
420507 AATTGTGAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (28 bp):
GGGTTTGAGTATCCCCTCAAAAATAAAA
Found at i:420579 original size:28 final size:28
Alignment explanation
Indices: 420543--420613 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
420533 ATAAAACTGT
* * *
420543 GGTTTGAGTATCCCTTTGAAAATAACGG
1 GGTTGGAGTATCCCCTCGAAAATAACGG
* *
420571 GGTTGGAGTATCCCCTCGGAAATAATGG
1 GGTTGGAGTATCCCCTCGAAAATAACGG
*
420599 GGTTGAAGTATCCCC
1 GGTTGGAGTATCCCC
420614 GATTGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:420660 original size:79 final size:79
Alignment explanation
Indices: 420576--420724 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 79
420566 AACGGGGTTG
* ** *
420576 GAGTATCCCCTCGGAAATAATGGGGTT-GAAGTATCCCCGATTGTGGAAAATCGATGTTCTCAAA
1 GAGTATCCCCTCGAAAATAACAGGGTTAG-AGTATCCCCGATTGTGGAAAATCGATGTTCTAAAA
420640 ATAAAACTGATGTTA
65 ATAAAACTGATGTTA
* * *
420655 GAGTATCGCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCGGTGTTTTAAAAA
1 GAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCGATGTTCTAAAAA
420720 TAAAA
66 TAAAA
420725 ACATGAATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAATCGATGTTCTAAAAA
TAAAACTGATGTTA
Found at i:423134 original size:20 final size:21
Alignment explanation
Indices: 423079--423134 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
423069 AAAAATGCCT
423079 AAATGTATCGATAC-ATCAAA
1 AAATGTATCGATACAATCAAA
*
423099 AAATGTATCGATACAAT-GAA
1 AAATGTATCGATACAATCAAA
*
423119 CAATGTATCGATACAA
1 AAATGTATCGATACAA
423135 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (21 bp):
AAATGTATCGATACAATCAAA
Found at i:423834 original size:14 final size:14
Alignment explanation
Indices: 423802--423833 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
423792 CTCATCCTTC
423802 CTTTTTCTTTTCTT
1 CTTTTTCTTTTCTT
423816 CTTTTTC-TTTCTT
1 CTTTTTCTTTTCTT
423829 -TTTTT
1 CTTTTT
423834 TGACAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTCTTTTCTT
Found at i:424185 original size:8 final size:8
Alignment explanation
Indices: 424174--424226 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
424164 AATTTTTCAA
424174 TTTTTTCT
1 TTTTTTCT
424182 TTTTTGT-T
1 TTTTT-TCT
424190 TTTTTTGCT
1 TTTTTT-CT
*
424199 GTTTTTCT
1 TTTTTTCT
*
424207 TTCTTTCT
1 TTTTTTCT
*
424215 TTCTTTCT
1 TTTTTTCT
424223 TTTT
1 TTTT
424227 CAAAATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 1 0.03
8 30 0.79
9 7 0.18
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTTTTCT
Found at i:431623 original size:13 final size:13
Alignment explanation
Indices: 431605--431642 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
431595 ATGTTGCATA
431605 GTATCGATACATT
1 GTATCGATACATT
431618 GTATCGATACATT
1 GTATCGATACATT
431631 GTATCGATACAT
1 GTATCGATACAT
431643 GTTGCATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:431751 original size:13 final size:13
Alignment explanation
Indices: 431733--431758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
431723 TACACATAGT
431733 ATGTATCGATACA
1 ATGTATCGATACA
431746 ATGTATCGATACA
1 ATGTATCGATACA
431759 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:431775 original size:33 final size:32
Alignment explanation
Indices: 431715--431777 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
431705 TAGCTAAACT
**
431715 TGTATCGATACACATAGTATGTATCGATACAA
1 TGTATCGATACACATAAAATGTATCGATACAA
431747 TGTATCGATACACCATAAAATGTATCGATAC
1 TGTATCGATACA-CATAAAATGTATCGATAC
431778 TTTGGCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACATAAAATGTATCGATACAA
Found at i:437952 original size:13 final size:13
Alignment explanation
Indices: 437934--437959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
437924 ACAGAATTCT
437934 TTGTATCGATACA
1 TTGTATCGATACA
437947 TTGTATCGATACA
1 TTGTATCGATACA
437960 GGGGGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:440467 original size:13 final size:13
Alignment explanation
Indices: 440449--440473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
440439 ATATTGCATA
440449 GTATCGATACATT
1 GTATCGATACATT
440462 GTATCGATACAT
1 GTATCGATACAT
440474 GTTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:440468 original size:33 final size:33
Alignment explanation
Indices: 440426--440491 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
440416 TACACAGTTA
440426 ATTGTATCGATACATATTGCA-TAGTATCGATAC
1 ATTGTATCGATACATATTGCATTA-TATCGATAC
*
440459 ATTGTATCGATACATGTTGCATTATATCGATAC
1 ATTGTATCGATACATATTGCATTATATCGATAC
440492 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACATATTGCATTATATCGATAC
Found at i:440582 original size:13 final size:13
Alignment explanation
Indices: 440564--440589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
440554 TACACACAGT
440564 ATGTATCGATACA
1 ATGTATCGATACA
440577 ATGTATCGATACA
1 ATGTATCGATACA
440590 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:440606 original size:33 final size:32
Alignment explanation
Indices: 440546--440609 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
440536 TAGCTAAACT
**
440546 TGTATCGATACACACAGTATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
440578 TGTATCGATACACCATAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
440610 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:443192 original size:2 final size:2
Alignment explanation
Indices: 443179--443210 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
443169 GGTAAGCTTT
*
443179 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
443211 GACTTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:448134 original size:52 final size:52
Alignment explanation
Indices: 448053--448179 Score: 229
Period size: 52 Copynumber: 2.5 Consensus size: 52
448043 TGAAAAGTTA
*
448053 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
448105 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
448157 CTGCATGTATCGATACA-TTAATA
1 CTGCATGTATCGATACATTTAATA
448180 CATCTGCAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 5 0.07
52 67 0.93
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:448312 original size:13 final size:13
Alignment explanation
Indices: 448294--448318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
448284 CAAAAAAATA
448294 TGTATCGATACAT
1 TGTATCGATACAT
448307 TGTATCGATACA
1 TGTATCGATACA
448319 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:448314 original size:33 final size:33
Alignment explanation
Indices: 448272--448338 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
448262 AGTAGCTTAA
448272 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
448305 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
448338 A
1 A
448339 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:448417 original size:21 final size:21
Alignment explanation
Indices: 448376--448417 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
448366 GTTGGGACCT
*
448376 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
448397 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
448418 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:454117 original size:51 final size:50
Alignment explanation
Indices: 453983--454097 Score: 187
Period size: 49 Copynumber: 2.3 Consensus size: 50
453973 AATTAACTAG
453983 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTAAAAAAAACAAA
1 ATGTATCGATACATTGAA-AATGTATCGATACATCTGGGT-AAAAAAACAAA
* *
454035 ATGTATTGATACATTGAAAATGTATCGATACATCTGGGT-AAAAAACATA
1 ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAAACAAA
454084 ATGTATCGATACAT
1 ATGTATCGATACAT
454098 GTACTGTTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
49 22 0.37
51 21 0.35
52 17 0.28
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAATGTATCGATACATCTGGGTAAAAAAACAAA
Found at i:459081 original size:19 final size:21
Alignment explanation
Indices: 459029--459084 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
459019 AATTTATACA
459029 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** * *
459050 AAATGTATGGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
459070 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
459085 TGTATTGATA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:459189 original size:20 final size:20
Alignment explanation
Indices: 459144--459199 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
459134 CGTTAATAAA
459144 TGTATCGATACATGCTTCAAAT
1 TGTATCGATACAT--TTCAAAT
**
459166 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCAAAT
*
459186 TGTATCGTTACATT
1 TGTATCGATACATT
459200 CTGGGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.58
22 13 0.42
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTCAAAT
Found at i:463757 original size:20 final size:21
Alignment explanation
Indices: 463726--463764 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
463716 AGGTCAAAAC
463726 CCTAGAATGTATCAATACACA
1 CCTAGAATGTATCAATACACA
*
463747 CCTAG-ATGTATTAATACA
1 CCTAGAATGTATCAATACA
463765 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (21 bp):
CCTAGAATGTATCAATACACA
Found at i:464661 original size:33 final size:32
Alignment explanation
Indices: 464619--464686 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
464609 CATTACAAGC
**
464619 CAATGTATCGATACATTTTATGATGTATCAATA
1 CAATGTATCGATACATACTATG-TGTATCAATA
*
464652 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCAATA
464684 CAA
1 CAA
464687 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCAATA
Found at i:464776 original size:13 final size:13
Alignment explanation
Indices: 464758--464786 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
464748 ACATTTGGTC
464758 ATGTATCGATACA
1 ATGTATCGATACA
464771 ATGTATCGATACA
1 ATGTATCGATACA
464784 ATG
1 ATG
464787 CAATCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:465364 original size:21 final size:20
Alignment explanation
Indices: 465338--465386 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
465328 TTTTCTTTTC
465338 TCTCCCGCTTAATCAAAAATT
1 TCTCCC-CTTAATCAAAAATT
**
465359 TCTCCCCTTTAATCAAACGTT
1 TCTCCCC-TTAATCAAAAATT
465380 TCTCCCC
1 TCTCCCC
465387 CTTAGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.35
Consensus pattern (20 bp):
TCTCCCCTTAATCAAAAATT
Found at i:465419 original size:37 final size:37
Alignment explanation
Indices: 465378--465451 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
465368 TAATCAAACG
465378 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCA
1 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCA
*
465415 TTTCTTCCCCTTAGTAAAATAATTTAACACTTTCGCA
1 TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCA
465452 CATTAACCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (37 bp):
TTTCTCCCCCTTAGTAAAATAATTTAACACTTTCGCA
Found at i:471879 original size:9 final size:9
Alignment explanation
Indices: 471855--471890 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
471845 TCTGATTCAC
*
471855 CATCATCAT
1 CATCATCTT
*
471864 CAACATCTT
1 CATCATCTT
471873 CATCATCTT
1 CATCATCTT
471882 CATCATCTT
1 CATCATCTT
471891 TGATGGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:473499 original size:13 final size:13
Alignment explanation
Indices: 473481--473506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
473471 ACATTTTATG
473481 ATGTATCGATACA
1 ATGTATCGATACA
473494 ATGTATCGATACA
1 ATGTATCGATACA
473507 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:473616 original size:13 final size:13
Alignment explanation
Indices: 473598--473622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
473588 AGATTTGGTC
473598 ATGTATCGATACG
1 ATGTATCGATACG
473611 ATGTATCGATAC
1 ATGTATCGATAC
473623 AATGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACG
Found at i:473637 original size:20 final size:20
Alignment explanation
Indices: 473612--473662 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
473602 ATCGATACGA
*
473612 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
473632 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
473652 TGTATCGATAC
1 TGTATCGATAC
473663 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:477352 original size:13 final size:13
Alignment explanation
Indices: 477334--477358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
477324 CAATTCAAGC
477334 ATGTATCGATACA
1 ATGTATCGATACA
477347 ATGTATCGATAC
1 ATGTATCGATAC
477359 TGAGTGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:477444 original size:13 final size:13
Alignment explanation
Indices: 477426--477450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
477416 TACCAATAAC
477426 ATGTATCGATACA
1 ATGTATCGATACA
477439 ATGTATCGATAC
1 ATGTATCGATAC
477451 TAAGCAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:477449 original size:32 final size:32
Alignment explanation
Indices: 477408--477470 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
477398 CAATTCAGTG
*
477408 TGTATCGATACCAA-TAACATGTATCGATACAA
1 TGTATCGATACCAAGCAA-ATGTATCGATACAA
*
477440 TGTATCGATACTAAGCAAATGTATCGATACA
1 TGTATCGATACCAAGCAAATGTATCGATACA
477471 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACCAAGCAAATGTATCGATACAA
Found at i:490452 original size:79 final size:79
Alignment explanation
Indices: 490366--490538 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
490356 ATAAAGACGA
* * * * * * * *
490366 GGTTGGAGTATCCCCTCAGAAATAAGGAGGCTGGAGTATCCTCGATTTTGGAAAATCGGTGTTCT
1 GGTTGGAGTATCCCCTCAAAAATAACGAGACTAGAGTATCCCCAATTGTGGAAAATCGATGTTCT
490431 AGAAATAAAACCAG
66 AGAAATAAAACCAG
* *
490445 GGTTGGAGTATCACTTCAAAAATAACGAGACTAGAGTATCCCCAATTGTGGAAAATCGATGTTCT
1 GGTTGGAGTATCCCCTCAAAAATAACGAGACTAGAGTATCCCCAATTGTGGAAAATCGATGTTCT
* * *
490510 GGAAATAAAATCGG
66 AGAAATAAAACCAG
*
490524 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
490539 GATGATGGAA
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCAAAAATAACGAGACTAGAGTATCCCCAATTGTGGAAAATCGATGTTCT
AGAAATAAAACCAG
Found at i:490537 original size:51 final size:51
Alignment explanation
Indices: 490476--490589 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
490466 ATAACGAGAC
*
490476 TAGAGTATCCCCAATTG-TGGAAAATCGATGTTCTGGAAATAAAATCGGGGT
1 TAGAGTATCCCCAA-TGATGGAAAATCGATGTTCTAGAAATAAAATCGGGGT
* * * *
490527 TAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAGAAATAAAATCGGGGT
1 TAGAGTATCCCCAATGATGGAAAATCGATGTTCTAGAAATAAAATCGGGGT
* *
490578 TGGAGTGTCCCC
1 TAGAGTATCCCC
490590 TCAAAAGTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.04
51 53 0.96
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
TAGAGTATCCCCAATGATGGAAAATCGATGTTCTAGAAATAAAATCGGGGT
Found at i:490726 original size:209 final size:209
Alignment explanation
Indices: 490366--490747 Score: 468
Period size: 209 Copynumber: 1.8 Consensus size: 209
490356 ATAAAGACGA
* ** *
490366 GGTTGGAGTATCCCCTCAGAAATAAGGAGGCTGGAGTATCCTCGATTTTGGAAAATCGGTGTTCT
1 GGTTGGAGTATCCCCTCAGAAATAAAGAGGCTGGAGTATCCTCGATGATGGAAAATCGATGTTCT
* * *
490431 AGAAATAAAACCAGGGTTGGAGTATCACTTCAAAAATAACGAGACTAGAGTATCCCCAATTGTGG
66 AGAAATAAAACCAGGGTTAGAGTATCACCTCAAAAATAACGAGACTAGAGTATCCCCAATTATGG
* *
490496 AAAATCGATGTTCTGGAAATAAAATCGGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTT
131 AAAATCGATGTTCTAGAAATAAAATCAGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTT
490561 AGAAATAAAATCGG
196 AGAAATAAAATCGG
* * * *
490575 GGTTGGAGTGTCCCCTCA-AAAGTAATAG-GGTTGGAGTATCCTTGATGATGGAAAATTGATGTT
1 GGTTGGAGTATCCCCTCAGAAA-TAA-AGAGGCTGGAGTATCCTCGATGATGGAAAATCGATGTT
* * * * * * * *
490638 -TTGAAAATAAAACC-GAGGTTAGAGTATCCCCTCGAAAATAATGAG-GTTGTAGTATCCTCGAT
64 CTAG-AAATAAAACCAG-GGTTAGAGTATCACCTCAAAAATAACGAGACTAG-AGTATCCCCAAT
* * *
490700 TATGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCCCC
126 TATGGAAAATCGATGTTCTAGAAATAAAATCAGGGTTAGAGTATCCCC
490748 TCAAAAATAA
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
208 8 0.06
209 135 0.94
210 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (209 bp):
GGTTGGAGTATCCCCTCAGAAATAAAGAGGCTGGAGTATCCTCGATGATGGAAAATCGATGTTCT
AGAAATAAAACCAGGGTTAGAGTATCACCTCAAAAATAACGAGACTAGAGTATCCCCAATTATGG
AAAATCGATGTTCTAGAAATAAAATCAGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTT
AGAAATAAAATCGG
Found at i:490748 original size:158 final size:156
Alignment explanation
Indices: 490524--490966 Score: 602
Period size: 158 Copynumber: 2.8 Consensus size: 156
490514 ATAAAATCGG
* * * *
490524 GGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTGTCCC
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
** * * *
490589 CTCAAAAGTAATAGGGTTGGAGTATCCTTGATGATGGAAAATTGATGTTTTGAAAATAAAACCGA
66 CTCAAAA-TAACGGGGTTGGAGTATCCTCGATGATGAAAAATTGATGTTTTGGAAATAAAACCGA
*
490654 GGTTAGAGTATCCCCTCGAAAATAATGA
130 GGTTAGAGTATCCCCTCG-AAATAACGA
* * * **
490682 GGTTGTAGTATCCTCGATTATGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
* *
490747 CTCAAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGG
66 CTC-AAAATAACGGGGTTGGAGTATCCTCGATGATGAAAAATTGATGTTTTGGAAATAAAACCGA
490812 GGTTAGAGTATCCCCTCGAAATAACGA
130 GGTTAGAGTATCCCCTCGAAATAACGA
* * * * *
490839 GGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAA-AAAATCGGGGTTGGAGTATTCC
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
* * *
490903 CTCGAAAATAACGGGGTGGGAGCATCCTCGATTG-TGAAAAATTGGTGTTTTGGAAATAAAACCG
66 CTC-AAAATAACGGGGTTGGAGTATCCTCGA-TGATGAAAAATTGATGTTTTGGAAATAAAACCG
490967 GATAATGGGG
Statistics
Matches: 251, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
156 76 0.30
157 44 0.18
158 127 0.51
159 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (156 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
CTCAAAATAACGGGGTTGGAGTATCCTCGATGATGAAAAATTGATGTTTTGGAAATAAAACCGAG
GTTAGAGTATCCCCTCGAAATAACGA
Found at i:490857 original size:78 final size:78
Alignment explanation
Indices: 490524--490967 Score: 496
Period size: 79 Copynumber: 5.7 Consensus size: 78
490514 ATAAAATCGG
* * * * * * * *
490524 GGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTGTCCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
* *
490589 CTCAAAAGTAA-TA
66 CTCGAAA-TAACGA
* * * * * *
490602 GGGTTGGAGTATCCTTGATGATGGAAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCC
1 -GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
*
490667 CCTCGAAAATAATGA
65 CCTCG-AAATAACGA
* * * * ***
490682 GGTTGTAGTATCCTCGATTATGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
* *
490747 CTCAAAAATAACGG
66 CTC-GAAATAACGA
*
490761 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
490826 CTCGAAATAACGA
66 CTCGAAATAACGA
* * * * *
490839 GGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAA-AAAATCGGGGTTGGAGTATTCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
*
490903 CTCGAAAATAACGG
66 CTCG-AAATAACGA
* * * *
490917 GGTGGGAGCATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGG
490968 ATAATGGGGT
Statistics
Matches: 311, Mismatches: 49, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
77 23 0.07
78 92 0.30
79 192 0.62
80 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (78 bp):
GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAATAACGA
Found at i:491001 original size:57 final size:58
Alignment explanation
Indices: 490910--491022 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 58
490900 TCCCTCGAAA
* *
490910 ATAACGGGGTGGGAGCATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
1 ATAACGGGGTGGGAGCATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * *
490968 ATAATGGGGT-GGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGGAAATAAAACC
1 ATAACGGGGTGGGAGCATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACC
491023 AGGGTTAGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 41 0.82
58 9 0.18
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (58 bp):
ATAACGGGGTGGGAGCATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:493502 original size:30 final size:28
Alignment explanation
Indices: 493465--493559 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 28
493455 ATACAATGAA
493465 AAATGTATCGATACATCTGGGTAAAATCC
1 AAATGTATCGATACATCT-GGTAAAATCC
*
493494 ATAATGTATCGATACA-AT-G---AA--C
1 A-AATGTATCGATACATCTGGTAAAATCC
493516 -AATGTATCGATACATCTGTGTAAAATCC
1 AAATGTATCGATACATCTG-GTAAAATCC
493544 AGAATGTATCGATACA
1 A-AATGTATCGATACA
493560 ATGAACAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
20 14 0.26
21 1 0.02
22 1 0.02
23 1 0.02
24 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
29 2 0.04
30 28 0.53
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (28 bp):
AAATGTATCGATACATCTGGTAAAATCC
Found at i:493521 original size:20 final size:20
Alignment explanation
Indices: 493496--493580 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
493486 TAAAATCCAT
493496 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
493516 AATGTATCGATACATCTGTGTAAAATCC
1 AATGTATCGATACA---ATG---AA--C
493544 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
493566 AATGTATCGATACAA
1 AATGTATCGATACAA
493581 ATTATGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
20 29 0.55
22 1 0.02
23 2 0.04
24 2 0.04
26 2 0.04
27 2 0.04
28 1 0.02
30 14 0.26
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:493591 original size:50 final size:50
Alignment explanation
Indices: 493396--493579 Score: 266
Period size: 50 Copynumber: 3.7 Consensus size: 50
493386 AAAATGCCTA
** *
493396 AATGTATCGATACCTTGAGA-AATGTATCGATACATTTG-GCTAAAA-CCAAG
1 AATGTATCGATACAATGA-ACAATGTATCGATACATCTGTG-TAAAATCC-AG
* * *
493446 AATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAATCCAT
1 AATGTATCGATACAATGAACAATGTATCGATACATCTGTGTAAAATCCAG
493496 AATGTATCGATACAATGAACAATGTATCGATACATCTGTGTAAAATCCAG
1 AATGTATCGATACAATGAACAATGTATCGATACATCTGTGTAAAATCCAG
493546 AATGTATCGATACAATGAACAATGTATCGATACA
1 AATGTATCGATACAATGAACAATGTATCGATACA
493580 AATTATGAAA
Statistics
Matches: 124, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
49 1 0.01
50 120 0.97
51 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (50 bp):
AATGTATCGATACAATGAACAATGTATCGATACATCTGTGTAAAATCCAG
Found at i:496321 original size:51 final size:51
Alignment explanation
Indices: 496236--496353 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
496226 TTATTTCCGA
** * * * * *
496236 GGGATACTCCAACCTTGGTTTTATTTCTAGAACATTAATTTTCCATAATTG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATCG
* * *
496287 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACCATCG
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATCG
*
496338 GGGATACTCTAACCCC
1 GGGATACTCCAACCCC
496354 ATTATTTCCA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCACAATCG
Found at i:496416 original size:130 final size:129
Alignment explanation
Indices: 496182--496490 Score: 440
Period size: 130 Copynumber: 2.4 Consensus size: 129
496172 ATGTTCTTAC
* * * * *
496182 TTCCAAAACACCAATTTTTTATAATCGGGGATACTCCAACTCCGTTATTTCCGAGGGATACTCCA
1 TTCCAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGATACTCCA
** * * * *
496247 ACCTTGGTTTTATTTCTAGAACATTAATTTTCCATAATTGGGGATACTCCAACCCCGGTTTTAT
66 ACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCCCGATTTTAT
* ** *
496311 TTCCAAAACATCGATTTTTCACCATCGGGGATACTCTAACCCCATTATTTCCAAGGAGATACTCC
1 TTCCAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCAAGG-GATACTCC
*
496376 AACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACTCCGATTTTAT
65 AACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCCCGATTTTAT
*
496441 TTCCAAAACATCAATTTTTCATAATCGGAGATACT-TCAACCCCGTTATTT
1 TTCCAAAACATCAATTTTTCATAATCGGGGATACTCT-AACCCCGTTATTT
496491 TATTAGAGAT
Statistics
Matches: 157, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
129 48 0.31
130 109 0.69
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
TTCCAAAACATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGATACTCCA
ACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCCCGATTTTAT
Found at i:496424 original size:51 final size:51
Alignment explanation
Indices: 496365--496494 Score: 170
Period size: 51 Copynumber: 2.5 Consensus size: 51
496355 TTATTTCCAA
* * *
496365 GGAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATT
1 GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
* * * *
496416 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATC
1 GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
*
496467 GGAGATACTTCAACCCCGTTATTTTATT
1 GGAGATACTCCAACCCCG--ATTTTATT
496495 AGAGATACTC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
51 59 0.88
53 8 0.12
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
GGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:496589 original size:51 final size:51
Alignment explanation
Indices: 496523--496640 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
496513 TTATTTCTGA
* * * *
496523 GGGGATACTCTAACCCC-GACTTTATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAG-CCTTATTTCCAAAACATCGATTTCTCACAATC
* * *
496574 GGGGATACTCCAACCCCAGCCTTATTTCTAAAGCATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAACATCGATTTCTCACAATC
*
496625 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
496641 AATTATTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCCTTATTTCCAAAACATCGATTTCTCACAATC
Found at i:496632 original size:158 final size:158
Alignment explanation
Indices: 496340--496669 Score: 362
Period size: 158 Copynumber: 2.1 Consensus size: 158
496330 CACCATCGGG
* ** *
496340 GATACTCTAACCCCATTATTTCCAAGGAGATACTCCAACCCCGGTTTTATTTCTAAAACATCAAT
1 GATACTCCAACCCCATTATTTCCAAGGAGATACTCCAACCCCGACTTTATTTCCAAAACATCAAT
* * ** *
496405 TTTCCACAATTGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGA
66 TTTCCACAATCGGGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTTTCACAATCGGA
* ** *
496470 GATACTTCAACCCCGTTATTTTATTA-GA
131 GATACTCCAACCCAATTATTTT-CTAGGA
** ** * * * **
496498 GATACTCCAACCCTGTTATTTCTGAGGGGATACTCTAACCCCGACTTTATTTCCAAAATATTGA-
1 GATACTCCAACCCCATTATTTCCAAGGAGATACTCCAACCCCGACTTTATTTCCAAAACATCAAT
* * *
496562 TTTCTCACAATCGGGGATACTCCAACCCC-AGCCTTATTTCTAAAGCATCGATTTTTCACAATC-
66 TTTC-CACAATCGGGGATACTCCAACCCCGA-CCTTATTTCCAAAACATCAATTTTTCACAATCG
*
496625 GAGGATACTCCAACCCAATTATTTTCTAGGG
129 GA-GATACTCCAACCCAATTATTTTCTAGGA
496656 GATACTCCAACCCC
1 GATACTCCAACCCC
496670 GATTTTATTT
Statistics
Matches: 141, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
157 9 0.06
158 132 0.94
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (158 bp):
GATACTCCAACCCCATTATTTCCAAGGAGATACTCCAACCCCGACTTTATTTCCAAAACATCAAT
TTTCCACAATCGGGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTTTCACAATCGGA
GATACTCCAACCCAATTATTTTCTAGGA
Found at i:496800 original size:79 final size:79
Alignment explanation
Indices: 496574--496802 Score: 282
Period size: 79 Copynumber: 2.9 Consensus size: 79
496564 TCTCACAATC
** * * * * *
496574 GGGGATACTCCAACCCC-AGCCTTATTTCTAAAGCATCGATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAA
** *
496638 CCCAATTATTTTCTA
65 CCCTGTTATTTTCGA
* * * *
496653 GGGGATACTCCAACCCCGATTTTATTT-TCAAAATATCAATTTTCTATAATCAGGGATACTCTAA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTTCCATAATCGGGGATACTCCAA
496717 CCCTGTTATTTTCGA
65 CCCTGTTATTTTCGA
* *
496732 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCATAATCGGGGATACTCCAGC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAAC
496797 CCTGTT
66 CCTGTT
496803 GTTATCTCGA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 124 0.98
80 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAAC
CCTGTTATTTTCGA
Found at i:507408 original size:52 final size:52
Alignment explanation
Indices: 507330--507478 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
507320 CGAAATATGA
507330 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
** *
507382 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
507434 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTAA-AT-AGTGTATCGATACA
507479 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
Found at i:507485 original size:13 final size:13
Alignment explanation
Indices: 507467--507491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
507457 CAAAGATCAG
507467 TGTATCGATACAA
1 TGTATCGATACAA
507480 TGTATCGATACA
1 TGTATCGATACA
507492 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:507569 original size:33 final size:33
Alignment explanation
Indices: 507532--507598 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
507522 AGTAGCTTAA
*
507532 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
* ***
507565 ATTGTATCAATACAACACTGTATGTATCGATAC
1 ATTGTATCAATACAAAAAAATATGTATCGATAC
507598 A
1 A
507599 AATCATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTATCAATACAAAAAAATATGTATCGATAC
Found at i:508473 original size:52 final size:55
Alignment explanation
Indices: 508344--508494 Score: 164
Period size: 52 Copynumber: 2.8 Consensus size: 55
508334 AAGTGATAAA
* * * * * ** *
508344 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTAAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* * *
508399 GATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATG-G-AAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* *
508452 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAG
508495 GTGATGAAGA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 37 0.46
53 6 0.08
54 1 0.01
55 36 0.45
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
Found at i:508800 original size:34 final size:36
Alignment explanation
Indices: 508762--508843 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 36
508752 TGGGCTTTTG
* *
508762 AAAAGGGTGCCACTA-ACTTGTGGGCTTA-AAAAGA
1 AAAAGAGTGCCACTAGACTTGTGAGCTTACAAAAGA
* *
508796 AAAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACTAGACTTGTGAGCTTACAAAAGA
508831 AAAAGAGTGCCAC
1 AAAAGAGTGCCAC
508844 GGAGTTGTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.05
34 21 0.52
35 17 0.43
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (36 bp):
AAAAGAGTGCCACTAGACTTGTGAGCTTACAAAAGA
Found at i:508849 original size:35 final size:34
Alignment explanation
Indices: 508762--508852 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 34
508752 TGGGCTTTTG
* * *
508762 AAAAGGGTGCCACTA-ACTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCAC-AGAGTTGTGAGCTTAAAAAGA
* *
508796 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGAGCTTA-AAAAGA
*
508831 AAAAGAGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAGAGTTGTG
508853 GACTTTGGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 21 0.45
35 25 0.53
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGAGCTTAAAAAGA
Found at i:508880 original size:29 final size:29
Alignment explanation
Indices: 508831--509004 Score: 163
Period size: 29 Copynumber: 5.9 Consensus size: 29
508821 TTACAAAAGA
* * *
508831 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
508861 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
508890 AAAAGGTTGCCACTGATTTGTGCGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * **
508919 -AAGGTTGCCACTGACCTGTGGGCTTTTAAA
1 AAAAGATGCCACTGACTTGTGGGC-TTT-GG
* *
508949 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
508978 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
509005 TGAAGGGTGA
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
27 17 0.14
28 5 0.04
29 51 0.43
30 27 0.23
31 19 0.16
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:508938 original size:27 final size:27
Alignment explanation
Indices: 508892--508944 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
508882 GGCTTCGGAA
**
508892 AAGGTTGCCACTGATTTGTGCGCTTTG
1 AAGGTTGCCACTGACCTGTGCGCTTTG
*
508919 AAGGTTGCCACTGACCTGTGGGCTTT
1 AAGGTTGCCACTGACCTGTGCGCTTT
508945 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (27 bp):
AAGGTTGCCACTGACCTGTGCGCTTTG
Found at i:510469 original size:12 final size:12
Alignment explanation
Indices: 510448--510497 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
510438 ACCCTTTTTG
*
510448 TTGTTGTTTGTT
1 TTGTTTTTTGTT
510460 TTGTTTTTTG-T
1 TTGTTTTTTGTT
510471 TT-TTTTTTGTT
1 TTGTTTTTTGTT
*
510482 TTGTTTTTTTTT
1 TTGTTTTTTGTT
510494 TTGT
1 TTGT
510498 GGAGGACGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 7 0.21
11 6 0.18
12 21 0.62
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTGTTTTTTGTT
Found at i:510470 original size:16 final size:14
Alignment explanation
Indices: 510451--510495 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 14
510441 CTTTTTGTTG
510451 TTGTTTGTTTTGTTTT
1 TTGTTT-TTTT-TTTT
510467 TTGTTTTTTTTTGTT
1 TTGTTTTTTTTT-TT
510482 TTGTTTTTTTTTTT
1 TTGTTTTTTTTTTT
510496 GTGGAGGACG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.14
15 18 0.64
16 6 0.21
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTGTTTTTTTTTTT
Found at i:510473 original size:27 final size:27
Alignment explanation
Indices: 510442--510497 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
510432 ATCCGGACCC
510442 TTTTTGTTGTTGTTTGTTTTGTTTTTTGT
1 TTTTTGTTG-T-TTTGTTTTGTTTTTTGT
* *
510471 TTTTTTTTGTTTTGTTTTTTTTTTTGT
1 TTTTTGTTGTTTTGTTTTGTTTTTTGT
510498 GGAGGACGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.64
28 1 0.04
29 8 0.32
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (27 bp):
TTTTTGTTGTTTTGTTTTGTTTTTTGT
Found at i:510495 original size:22 final size:22
Alignment explanation
Indices: 510442--510495 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
510432 ATCCGGACCC
* *
510442 TTTTTGTTGTTGTTTGTTTTGT
1 TTTTTGTTTTTTTTTGTTTTGT
510464 TTTTTGTTTTTTTTTGTTTTGT
1 TTTTTGTTTTTTTTTGTTTTGT
510486 TTTTT-TTTTT
1 TTTTTGTTTTT
510496 GTGGAGGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (22 bp):
TTTTTGTTTTTTTTTGTTTTGT
Found at i:512392 original size:33 final size:33
Alignment explanation
Indices: 512374--512452 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
512364 ATTATTTATG
512374 ATGTATCGATACACTGTATCGATACACACAAAT
1 ATGTATCGATACACTGTATCGATACACACAAAT
512407 ATGTATCGATACACTGTATCGATACACACAAAT
1 ATGTATCGATACACTGTATCGATACACACAAAT
512440 ATGTATCGATACA
1 ATGTATCGATACA
512453 TGAATAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACACTGTATCGATACACACAAAT
Found at i:512393 original size:13 final size:13
Alignment explanation
Indices: 512375--512433 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
512365 TTATTTATGA
512375 TGTATCGATACAC
1 TGTATCGATACAC
512388 TGTATCGATACAC
1 TGTATCGATACAC
* *
512401 ---A-C-AAATA-
1 TGTATCGATACAC
512408 TGTATCGATACAC
1 TGTATCGATACAC
512421 TGTATCGATACAC
1 TGTATCGATACAC
512434 ACAAATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
8 3 0.08
9 1 0.03
10 2 0.06
11 1 0.03
12 3 0.08
13 26 0.72
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:512413 original size:20 final size:20
Alignment explanation
Indices: 512388--512452 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
512378 ATCGATACAC
512388 TGTATCGATACACACAAATA
1 TGTATCGATACACACAAATA
512408 TGTATCGAT--ACAC-----
1 TGTATCGATACACACAAATA
512421 TGTATCGATACACACAAATA
1 TGTATCGATACACACAAATA
512441 TGTATCGATACA
1 TGTATCGATACA
512453 TGAATAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
18 4 0.11
20 21 0.55
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACACAAATA
Found at i:512507 original size:21 final size:21
Alignment explanation
Indices: 512476--512573 Score: 142
Period size: 21 Copynumber: 4.5 Consensus size: 21
512466 GTGAACAGTG
512476 TGAACAGTGATGTATTGATACA
1 TGAA-AGTGATGTATTGATACA
*
512498 TGAAAGTGATGAATTGATACA
1 TGAAAGTGATGTATTGATACA
*
512519 TGAGCAGTGATGTATTGATACA
1 TGA-AAGTGATGTATTGATACA
*
512541 TGAAAGTGATGTATCGATACA
1 TGAAAGTGATGTATTGATACA
512562 TGAACAGTGATG
1 TGAA-AGTGATG
512574 AACAGTGATG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
21 39 0.57
22 30 0.43
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.30
Consensus pattern (21 bp):
TGAAAGTGATGTATTGATACA
Found at i:512535 original size:43 final size:43
Alignment explanation
Indices: 512476--512573 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
512466 GTGAACAGTG
*
512476 TGAACAGTGATGTATTGATACATGAAAGTGATGAATTGATACA
1 TGAACAGTGATGTATTGATACATGAAAGTGATGAATCGATACA
* *
512519 TGAGCAGTGATGTATTGATACATGAAAGTGATGTATCGATACA
1 TGAACAGTGATGTATTGATACATGAAAGTGATGAATCGATACA
512562 TGAACAGTGATG
1 TGAACAGTGATG
512574 AACAGTGATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.30
Consensus pattern (43 bp):
TGAACAGTGATGTATTGATACATGAAAGTGATGAATCGATACA
Found at i:512576 original size:10 final size:10
Alignment explanation
Indices: 512561--512591 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
512551 GTATCGATAC
512561 ATGAACAGTG
1 ATGAACAGTG
512571 ATGAACAGTG
1 ATGAACAGTG
512581 ATGAACAGTG
1 ATGAACAGTG
512591 A
1 A
512592 AAATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.19
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:512677 original size:34 final size:34
Alignment explanation
Indices: 512634--512719 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
512624 ACATATTTTG
512634 TGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACAAATTTGGCTACTGCCAATGACC
*
512668 TGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACAAATTTGGCTACTGCCAATGACC
*
512702 TGTATCGATACATATTTG
1 TGTATCGATACAAATTTG
512720 TGTGTATCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (34 bp):
TGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:512765 original size:20 final size:20
Alignment explanation
Indices: 512702--512772 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
512692 GCCAATGTCC
**
512702 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
512722 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
512742 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
*
512762 TGTATTGATAC
1 TGTATCGATAC
512773 TTTTCAGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 37 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:512838 original size:21 final size:21
Alignment explanation
Indices: 512812--512852 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
512802 GTCAACCTTG
512812 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
512833 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
512853 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:526390 original size:52 final size:51
Alignment explanation
Indices: 526312--526460 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
526302 CGAAATATGA
526312 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
526364 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
526416 AAATTTGCCTGCATGTATCGATAAAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
526461 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:526467 original size:13 final size:13
Alignment explanation
Indices: 526449--526473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
526439 AAAAGATCAG
526449 TGTATCGATACAA
1 TGTATCGATACAA
526462 TGTATCGATACA
1 TGTATCGATACA
526474 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:526551 original size:33 final size:33
Alignment explanation
Indices: 526514--526580 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
526504 AGTAGCTTAA
526514 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
526547 ATTGTATTGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
526580 A
1 A
526581 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:529650 original size:61 final size:62
Alignment explanation
Indices: 529453--529671 Score: 287
Period size: 62 Copynumber: 3.5 Consensus size: 62
529443 CTTATGCCAC
** * *
529453 TAGTCCTCAAAGAGCAAGAAACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCT
1 TAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
* * * * * *
529515 TAGTCCTCAAATAGCAAGATGCCTTTTTCTTTCCGAAGTCCACATGAGTTGGTGGCACCTTG
1 TAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
* * * *
529577 TAGTCCTTAAAGAGCAGGATGCC-TTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACTTTT
1 TAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
* *
529638 TAGTGCTCAAAGAGCAAGATGCCTTTTCCTTTTC
1 TAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTC
529672 TCCTTTATCC
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
61 51 0.39
62 81 0.61
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (62 bp):
TAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
Found at i:529907 original size:42 final size:43
Alignment explanation
Indices: 529661--529960 Score: 191
Period size: 43 Copynumber: 6.8 Consensus size: 43
529651 GCAAGATGCC
* * * *
529661 TTTTCCTTTTCTCCTTTATCCTCAAAGAGTAGGACACATTTCA
1 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
* * *
529704 -TTTCCTTATTTTCCCTTTTGTCTTCAAAGAACAGGACGGACTTT-A
1 TTTTCCTT-TTTT-CC-TTTGTCCTCAAAGAGCAGGACGCA-TTTCA
* * * * *
529749 TTTTCCTCTTCTCCTTTGTCCTCAAAGAGCATGACACATTCCA
1 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
* * * * * * * *
529792 -TTTCCTTATCTTCCCCTTTTTATCCTTAAAAAGTAGCACACATGTCA
1 TTTTCCTT-T-TT-TCC--TTTGTCCTCAAAGAGCAGGACGCATTTCA
* * *
529839 -TTTCCTTCATTTCCCTTTTTTCCTCAAAGAGCAGGGCGCACTTT-A
1 TTTTCCTT--TTTTCC-TTTGTCCTCAAAGAGCAGGACGCA-TTTCA
* *
529884 TTTTCC-TTTTTCCTTTGTCCTCAAAGAGTAGGACGCATTTCG
1 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
*
529926 TTTTCCTTTTTTCCTTTGTCCTTGAAA-AGCAGGAC
1 TTTTCCTTTTTTCCTTTGTCC-TCAAAGAGCAGGAC
529961 ATACTCTTTT
Statistics
Matches: 199, Mismatches: 41, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
41 3 0.02
42 42 0.21
43 50 0.25
44 9 0.05
45 44 0.22
46 19 0.10
47 30 0.15
48 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (43 bp):
TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
Found at i:529933 original size:135 final size:135
Alignment explanation
Indices: 529675--529922 Score: 356
Period size: 135 Copynumber: 1.8 Consensus size: 135
529665 CCTTTTCTCC
* * * *
529675 TTTATCCTCAAAGAGTAGGACACATTTCATTTCCTTATTTTCCCTTTTGTCTTCAAAGAACAGGA
1 TTTATCCTCAAAAAGTAGCACACATGTCATTTCCTTATTTTCCCTTTTGTCCTCAAAGAACAGGA
* *
529740 CGGACTTTATTTTCCTCTTCTCCTTTGTCCTCAAAGAGCATGACACATTCCATTTCCTTATCTTC
66 CGCACTTTATTTTCCTCTTCTCCTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTATCTTC
529805 CCCTT
131 CCCTT
* * *
529810 TTTATCCTTAAAAAGTAGCACACATGTCATTTCCTTCA-TTTCCCTTTTTTCCTCAAAGAGCAGG
1 TTTATCCTCAAAAAGTAGCACACATGTCATTTCCTT-ATTTTCCCTTTTGTCCTCAAAGAACAGG
* * * *
529874 GCGCACTTTATTTTCCT-TTTTCCTTTGTCCTCAAAGAGTAGGACGCATT
65 ACGCACTTTATTTTCCTCTTCTCCTTTGTCCTCAAAGAGCAGGACACATT
529923 TCGTTTTCCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
134 28 0.28
135 70 0.71
136 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (135 bp):
TTTATCCTCAAAAAGTAGCACACATGTCATTTCCTTATTTTCCCTTTTGTCCTCAAAGAACAGGA
CGCACTTTATTTTCCTCTTCTCCTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTATCTTC
CCCTT
Found at i:529972 original size:42 final size:42
Alignment explanation
Indices: 529884--530032 Score: 99
Period size: 43 Copynumber: 3.7 Consensus size: 42
529874 GCGCACTTTA
* *
529884 TTTTCC-TTTTTCCTTTGTCCTCAAAGAGTAGGACGCATTTCG
1 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGAC-CATCTCG
* *
529926 TTTTCCTTTTTTCCTTTGTCCTTGAAA-AGCAGGA-CAT-AC-
1 TTTTCCTTTTTTCCTTTGTCC-TCAAAGAGCAGGACCATCTCG
*
529965 ---T-C-TTTTTCACTTTGTCCTC-AAGAAGCAGGA-CATTCTCC
1 TTTTCCTTTTTTC-CTTTGTCCTCAAAG-AGCAGGACCA-TCTCG
* *
530003 TTTT-CTTTCTTCCTTTGTCCTCAAGGAGCA
1 TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCA
530033 AGGCCCATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
33 2 0.02
34 7 0.08
35 18 0.21
36 2 0.02
37 1 0.01
40 1 0.01
41 19 0.22
42 13 0.15
43 20 0.23
44 4 0.05
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACCATCTCG
Found at i:529978 original size:35 final size:34
Alignment explanation
Indices: 529933--530007 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 34
529923 TCGTTTTCCT
*
529933 TTTTTCCTTTGTCCTTGAA-AAGCAGGACATACTC
1 TTTTTCCTTTGTCC-TCAAGAAGCAGGACATACTC
*
529967 TTTTTCACTTTGTCCTCAAGAAGCAGGACATTCTC
1 TTTTTC-CTTTGTCCTCAAGAAGCAGGACATACTC
*
530002 CTTTTC
1 TTTTTC
530008 TTTCTTCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 9 0.25
35 27 0.75
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (34 bp):
TTTTTCCTTTGTCCTCAAGAAGCAGGACATACTC
Found at i:533253 original size:51 final size:50
Alignment explanation
Indices: 533145--533265 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 50
533135 TTATTTCCGA
* * **
533145 GGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCGTAATCC
1 GGGATACTCCAACC-CCGTTTTATTTCCAAAACATCAATTTTTCACAATCC
* * * * *
533196 GAGATACTCCAACCCCTTTTATATTTCCAAAACATCGATTTTTCACCATCG
1 GGGATACTCCAACCCCGTTT-TATTTCCAAAACATCAATTTTTCACAATCC
*
533247 GGGATACTCTAACCCCGTT
1 GGGATACTCCAACCCCGTT
533266 ATTTCTAAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 4 0.07
51 53 0.93
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (50 bp):
GGGATACTCCAACCCCGTTTTATTTCCAAAACATCAATTTTTCACAATCC
Found at i:533348 original size:51 final size:51
Alignment explanation
Indices: 533276--533391 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
533266 ATTTCTAAGA
* * * * *
533276 GGATACTCAAACCCCGGTTTTATTTCTAAAATATCAATTTTCCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCAG
* * *
533327 GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCAG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCAG
*
533378 GGAAACTCCAACCC
1 GGATACTCCAACCC
533392 TGTTATTTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCAG
Found at i:533351 original size:130 final size:128
Alignment explanation
Indices: 533085--533421 Score: 406
Period size: 130 Copynumber: 2.6 Consensus size: 128
533075 TCATTCATGT
* * * * *
533085 TTTTACTTCCAAAACACCAATTTTTTACAATCGGGGATACTCCAATCCCGTTATTTC-CGAGGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCAAGA-GGA
* * * ** *
533149 TACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCGTAATCCGAGATACTCCAACCCCT
65 TACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCCGAGATACTCCAACCCCA
* * *
533213 TTTATATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCTAAGAGG
1 TTT-TATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTC-AAGAGG
* * * * *
533278 ATACTCAAACCCCGGTTTTATTTCTAAAATATCAATTTTCCACAATCGGGGATACTCCAACTCCG
64 ATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCCGAGATACTCCAAC-CCC
533343 A
128 A
* * * * *
533344 TTTTATTTCCAAAACATCAATTTTTCATAATCAGGGAAACTCCAACCCTGTTATTTCATCGAGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCA-AGAGGA
533409 TACTCCAACCCCG
65 TACTCCAACCCCG
533422 TTATTTTTGA
Statistics
Matches: 176, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
128 3 0.02
129 48 0.27
130 118 0.67
131 7 0.04
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (128 bp):
TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCAAGAGGAT
ACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCCGAGATACTCCAACCCCA
Found at i:533491 original size:50 final size:49
Alignment explanation
Indices: 533432--533547 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 49
533422 TTATTTTTGA
* * *
533432 GGGGATACTCTAACCTGACTTTATGTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCTG-CTTTATGTCCAAAACATCGATTTCTCACAATC
* * * *
533482 GGGGATACTCCAACCCCTGCTTTATTTCTAAAGCATCGATTTTTCACAATC
1 GGGGATACTCCAA--CCTGCTTTATGTCCAAAACATCGATTTCTCACAATC
533533 GGGGATACTCCAACC
1 GGGGATACTCCAACC
533548 CCGTTATTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.04
50 12 0.21
51 39 0.68
52 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (49 bp):
GGGGATACTCCAACCTGCTTTATGTCCAAAACATCGATTTCTCACAATC
Found at i:533543 original size:157 final size:158
Alignment explanation
Indices: 533242--533578 Score: 396
Period size: 157 Copynumber: 2.1 Consensus size: 158
533232 GATTTTTCAC
* * ** * *
533242 CATCGGGGATACTCTAACCCCGTTATTTCTAAGAGGATACTCAAACCCCGGTTTTATTTCTAAAA
1 CATCGAGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCAAACCCCGACTTTATGTCCAAAA
* * *
533307 TATCAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCAT
66 TATCAATTTTCCACAATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACATCAATTTTTCAC
*
533372 AATCAGGGAAACTCCAACCCTGTTATTT
131 AATCAGGGAAACTCCAACCCCGTTATTT
* * * * *
533400 CATCGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAA-CCTGACTTTATGTCCAAAA
1 CATCGAGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCAAACCCCGACTTTATGTCCAAAA
** * * *
533464 TATTGA-TTTCTCACAATCGGGGATACTCCAACCCCTG-CTTTATTTCTAAAGCATCGATTTTTC
66 TATCAATTTTC-CACAATCGGGGATACTCCAACCCC-GACTTTATTTCCAAAACATCAATTTTTC
* *
533527 ACAATCGGGGATACTCCAACCCCGTTATTT
129 ACAATCAGGGAAACTCCAACCCCGTTATTT
*
533557 --TTGAGGGGATACTCCAACCCCG
1 CATCGA--GGATACTCCAACCCCG
533579 ATTTTATTTT
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
155 3 0.02
156 4 0.03
157 105 0.69
158 40 0.26
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (158 bp):
CATCGAGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCAAACCCCGACTTTATGTCCAAAA
TATCAATTTTCCACAATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACATCAATTTTTCAC
AATCAGGGAAACTCCAACCCCGTTATTT
Found at i:533575 original size:79 final size:77
Alignment explanation
Indices: 533482--533696 Score: 279
Period size: 79 Copynumber: 2.7 Consensus size: 77
533472 TCTCACAATC
* *
533482 GGGGATACTCCAACCCCTGCTTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCC-GTTTTATTTCTAAA-CATCGATTTTTCATAATCGGGGATACTCCAAC
*
533547 CCCGTTATTTTTGA
64 CCCGTTATTTTCGA
* * ** *
533561 GGGGATACTCCAACCCCGATTTTATTTTCAAAATATCGA-TTTTCTATAATCAAGGATACTGCAA
1 GGGGATACTCCAACCCCG-TTTTA-TTTCTAAACATCGATTTTTC-ATAATCGGGGATACTCCAA
*
533625 CCCTGTTATTTTCGA
63 CCCCGTTATTTTCGA
533640 GGGGATACTCCAACCCCGGTTTTATTTCTAGAACATCGATTTTTCATAATCGGGGAT
1 GGGGATACTCCAACCCC-GTTTTATTTCTA-AACATCGATTTTTCATAATCGGGGAT
533697 CCACTCTAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
78 11 0.09
79 93 0.79
80 13 0.11
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (77 bp):
GGGGATACTCCAACCCCGTTTTATTTCTAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
CGTTATTTTCGA
Found at i:536663 original size:36 final size:36
Alignment explanation
Indices: 536622--536701 Score: 117
Period size: 35 Copynumber: 2.2 Consensus size: 36
536612 GAATGAAGTT
*
536622 ATATTTTTTTCATGAATGCAAAGAATGTTTACCTTG
1 ATATTTTTTTCATGAATACAAAGAATGTTTACCTTG
* * *
536658 CTA-TTTTTTCATGATTACAAAGAATGTTTCCCTTG
1 ATATTTTTTTCATGAATACAAAGAATGTTTACCTTG
536693 ATATTTTTT
1 ATATTTTTT
536702 GTTATGGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (36 bp):
ATATTTTTTTCATGAATACAAAGAATGTTTACCTTG
Found at i:537723 original size:21 final size:20
Alignment explanation
Indices: 537697--537750 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
537687 AATCGATACT
*
537697 TTGTATCGATACATACTTGAA
1 TTGTATCGATACAT-CGTGAA
* *
537718 TTGTATCAATACATGGTGAA
1 TTGTATCGATACATCGTGAA
537738 TTGTATCGATACA
1 TTGTATCGATACA
537751 ATAAGCCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATCGTGAA
Found at i:549010 original size:21 final size:21
Alignment explanation
Indices: 548983--549032 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
548973 ATGATTAATT
*
548983 TGATTAAATCTTGAGCTTACA
1 TGATTAAATCTTGAGCTTAAA
* * *
549004 TGTTTAATTGTTGAGCTTAAA
1 TGATTAAATCTTGAGCTTAAA
549025 TGATTAAA
1 TGATTAAA
549033 AGCATGTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (21 bp):
TGATTAAATCTTGAGCTTAAA
Found at i:555975 original size:20 final size:19
Alignment explanation
Indices: 555949--556021 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
555939 CTGCCAGTTT
555949 CATGTATCGATACAAGTGAG
1 CATGTATCGATACAA-TGAG
* * *
555969 TATGTATTGACACAATGAG
1 CATGTATCGATACAATGAG
* *
555988 CATGTATCGATACAAAGCAT
1 CATGTATCGATACAATG-AG
*
556008 AATGTATCGATACA
1 CATGTATCGATACA
556022 TATAGATATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
19 17 0.40
20 26 0.60
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:555992 original size:19 final size:20
Alignment explanation
Indices: 555949--556002 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
555939 CTGCCAGTTT
*
555949 CATGTATCGATACAAGTGAG
1 CATGTATCGACACAAGTGAG
* *
555969 TATGTATTGACACAA-TGAG
1 CATGTATCGACACAAGTGAG
*
555988 CATGTATCGATACAA
1 CATGTATCGACACAA
556003 AGCATAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (20 bp):
CATGTATCGACACAAGTGAG
Found at i:556787 original size:42 final size:42
Alignment explanation
Indices: 556729--556825 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
556719 AAATAAAAAT
*
556729 AATTTCTCCCCCTTTGTCAAATGGCAAAATTTAT-TTTTCAAA
1 AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATATTTT-AAA
** *
556771 AATTTCTCCCTTTTTGTTAAATGCCAAAATTTATATTTTAAA
1 AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATATTTTAAA
*
556813 AATTTCTCTCCCT
1 AATTTCTCCCCCT
556826 ATTTGTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (42 bp):
AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATATTTTAAA
Found at i:556841 original size:42 final size:41
Alignment explanation
Indices: 556729--556841 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
556719 AAATAAAAAT
** *
556729 AATTTCTCCCCCTTTGTCAAATGGCAAAATTTATTTTTCAAA
1 AATTTCTCCCTATTTGTTAAAT-GCAAAATTTATTTTTCAAA
*
556771 AATTTCTCCCTTTTTGTTAAATGCCAAAATTTATATTTT-AAA
1 AATTTCTCCCTATTTGTTAAATG-CAAAATTTAT-TTTTCAAA
*
556813 AATTTCTCTCCCTATTTGTTATA-GCAAAA
1 AA-TT-TCTCCCTATTTGTTAAATGCAAAA
556842 AAGAGATCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 39 0.63
43 7 0.11
44 15 0.24
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (41 bp):
AATTTCTCCCTATTTGTTAAATGCAAAATTTATTTTTCAAA
Found at i:560363 original size:13 final size:13
Alignment explanation
Indices: 560345--560369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
560335 CATAAAGTGT
560345 TGTATCGATACAA
1 TGTATCGATACAA
560358 TGTATCGATACA
1 TGTATCGATACA
560370 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:560369 original size:33 final size:33
Alignment explanation
Indices: 560327--560391 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
560317 CAACGATTTA
560327 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
*** *
560360 TATCGATACATATTTTTTTGTATCGATACAAT
1 TATCGATACATAAAGTGTTGTATCGATACAAT
560392 TTAAGCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:560450 original size:13 final size:13
Alignment explanation
Indices: 560432--560492 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
560422 ATTACTCAAA
*
560432 TGTATCGATACAT
1 TGTATCAATACAT
560445 TGTATCAATACAT
1 TGTATCAATACAT
560458 TG-AT--A-A-A-
1 TGTATCAATACAT
*
560465 TGTATCGATACAT
1 TGTATCAATACAT
560478 TGTATCAATACAT
1 TGTATCAATACAT
560491 TG
1 TG
560493 ATAAATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
9 1 0.03
10 2 0.05
11 1 0.03
12 3 0.08
13 28 0.70
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:560470 original size:20 final size:20
Alignment explanation
Indices: 560445--560510 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
560435 ATCGATACAT
560445 TGTATCAATACATTGATAAA
1 TGTATCAATACATTGATAAA
*
560465 TGTATCGATAC----AT---
1 TGTATCAATACATTGATAAA
560478 TGTATCAATACATTGATAAA
1 TGTATCAATACATTGATAAA
*
560498 TGTATCGATACAT
1 TGTATCAATACAT
560511 GCAGGCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 10 0.28
16 2 0.06
17 2 0.06
20 22 0.61
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTATCAATACATTGATAAA
Found at i:560471 original size:33 final size:33
Alignment explanation
Indices: 560411--560510 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 33
560401 TGCCAAAAAA
*
560411 TGTATCGATACATT-ACTCAAATGTATCGATACAT
1 TGTATCAATACATTGA-T-AAATGTATCGATACAT
560445 TGTATCAATACATTGATAAATGTATCGATACAT
1 TGTATCAATACATTGATAAATGTATCGATACAT
560478 TGTATCAATACATTGATAAATGTATCGATACAT
1 TGTATCAATACATTGATAAATGTATCGATACAT
560511 GCAGGCAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
33 49 0.77
34 14 0.22
35 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCAATACATTGATAAATGTATCGATACAT
Found at i:560542 original size:52 final size:51
Alignment explanation
Indices: 560478--560622 Score: 236
Period size: 52 Copynumber: 2.8 Consensus size: 51
560468 ATCGATACAT
* *
560478 TGTATCAATACATTGATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-ATAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
560530 TGTATCGATACATTATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACATTAT-AAATGTATCGATACATGCAAGCAAATTTGCCCAGA
*
560582 TGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACATTA-TAAATGTATCGATACATGCAAGCAA
560623 CTTTTCATAT
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.97
53 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (51 bp):
TGTATCGATACATTATAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
Found at i:567570 original size:12 final size:12
Alignment explanation
Indices: 567555--567579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
567545 ACACACAAAT
567555 AAAAGTCAAAAA
1 AAAAGTCAAAAA
567567 AAAAGTCAAAAA
1 AAAAGTCAAAAA
567579 A
1 A
567580 CAAACAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAGTCAAAAA
Found at i:568909 original size:31 final size:31
Alignment explanation
Indices: 568871--569027 Score: 169
Period size: 31 Copynumber: 5.0 Consensus size: 31
568861 CAATTCTTCA
* *
568871 AATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 AATCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
568902 AATCTCTTCTCAGAGTCCACGACTCAGTGGC
1 AATCTTTTCTCAAAGTCCACGACTCAGTGGC
568933 -ATCCTTTTCTTCAAAGTCCACGACTCAGT-GC
1 AAT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
*
568964 CAT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 AATCTTT-TCTCAAAGTCCACGACTCAGTGGC
* * *
568995 -ATCCTTTTCTTCAAAGCCCACAACTCCGTGGC
1 AAT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
569027 A
1 A
569028 CCTTTTTCTT
Statistics
Matches: 110, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
30 26 0.24
31 42 0.38
32 42 0.38
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (31 bp):
AATCTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:568956 original size:32 final size:31
Alignment explanation
Indices: 568877--569033 Score: 187
Period size: 32 Copynumber: 5.1 Consensus size: 31
568867 TTCAAATCTC
* *
568877 TTCTCAAAGCCCACGACTCAGTGGCAAT-CTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
*
568908 TTCTCAGAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCCTT
*
568939 TTCTTCAAAGTCCACGACTCAGTGCCAT--TT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCCTT
568969 TGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATCCTT
* * *
569001 TTCTTCAAAGCCCACAACTCCGTGGCA-CCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCCTT
569032 TT
1 TT
569034 TCTTTTTAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
30 28 0.25
31 38 0.34
32 45 0.41
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCCTT
Found at i:568990 original size:62 final size:63
Alignment explanation
Indices: 568880--569027 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 63
568870 AAATCTCTTC
*
568880 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAGAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
* * *
568943 TCAAAGTCCACGACTCAGT-GCCAT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
* *
569005 TCAAAGCCCACAACTCCGTGGCA
1 TCAAAGCCCACGACTCAGTGGCA
569028 CCTTTTTCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 2 0.03
62 53 0.71
63 20 0.27
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (63 bp):
TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
Found at i:569050 original size:34 final size:34
Alignment explanation
Indices: 569007--569628 Score: 586
Period size: 34 Copynumber: 18.8 Consensus size: 34
568997 CCTTTTCTTC
569007 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
569041 AAAGCCCACAACTTCGTGGCACTTTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
569077 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569110 -AAGTCCACAACTCCGTGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
569137 AAAGCCCACAATTCCATGGCAACCTTTTTCTTCTC
1 AAAGCCCACAACTCCGTGGC-ACCTTTTTCTTTTT
*
569172 AAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569205 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
569242 AAAGCCCACAACTCCGTGGCACTCTTTTTCCATTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * *
569278 AAAGTCCACGACTCTGTGGCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
569309 AAAGCCCATAACTCCATGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
569337 -AGGCCCACAACTCCGTGGCA-TTTTCTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT-TTC-TTTTT
*
569371 -AAGTCCACAACTCCGTGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
569398 -AAGCCCACAACTCCATGGCACCTTTCTC-CTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569430 GAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569464 AAAGCCCACAACTCCATGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569498 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
569535 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
569568 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* *
569604 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
569629 CTCCCTTCCC
Statistics
Matches: 496, Mismatches: 56, Indels: 72
0.79 0.09 0.12
Matches are distributed among these distances:
27 44 0.09
28 20 0.04
29 5 0.01
31 22 0.04
32 6 0.01
33 109 0.22
34 114 0.23
35 76 0.15
36 39 0.08
37 61 0.12
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:569156 original size:28 final size:27
Alignment explanation
Indices: 569104--569164 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
569094 GCACCTTGTT
* * *
569104 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCAA
*
569131 CCTTTTAAAGCCCACAATTCCATGGCAA
1 CCTTTT-AAGCCCACAACTCCATGGCAA
569159 CCTTTT
1 CCTTTT
569165 TCTTCTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCATGGCAA
Done.