Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 76 of 433
Found at i:22075784 original size:10 final size:11
Alignment explanation
Indices: 22075763--22075813 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
22075753 ACTAAACCAC
22075763 TTTTCATATATA
1 TTTT-ATATATA
22075775 TATTTATATATA
1 T-TTTATATATA
*
22075787 TTTTAAAATAATA
1 TTTT-ATAT-ATA
22075800 TTTTATATATA
1 TTTTATATATA
22075811 TTT
1 TTT
22075814 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:22075822 original size:15 final size:15
Alignment explanation
Indices: 22075802--22075833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22075792 AAATAATATT
*
22075802 TTATATATATTTATC
1 TTATATACATTTATC
22075817 TTATATACATTTATC
1 TTATATACATTTATC
22075832 TT
1 TT
22075834 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:22084676 original size:29 final size:29
Alignment explanation
Indices: 22084616--22084713 Score: 166
Period size: 29 Copynumber: 3.4 Consensus size: 29
22084606 CAGTAAGTCT
22084616 GCACACTTAGTGCT-TA-ATATTCAAACTC
1 GCACACTTAGTGCTATACA-ATTCAAACTC
22084644 GCACACTTAGTGCTATACAATTCAAACTC
1 GCACACTTAGTGCTATACAATTCAAACTC
22084673 GCACACTTAGTGCTATACAATT-AAACTC
1 GCACACTTAGTGCTATACAATTCAAACTC
22084701 GCACACTTAGTGC
1 GCACACTTAGTGC
22084714 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 33 0.49
29 34 0.50
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCTATACAATTCAAACTC
Found at i:22085844 original size:17 final size:18
Alignment explanation
Indices: 22085807--22085844 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
22085797 CACTTTTTTT
22085807 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
22085826 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
22085843 TT
1 TT
22085845 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:22091162 original size:40 final size:39
Alignment explanation
Indices: 22090997--22091180 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22090987 AAATTGAATG
* * *
22090997 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22091037 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22091077 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22091117 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22091156 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22091181 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22091205 original size:80 final size:81
Alignment explanation
Indices: 22091037--22091225 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22091027 GCTGGAAATT
* * * *
22091037 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22091102 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22091118 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22091181 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22091197 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22091226 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22099281 original size:40 final size:39
Alignment explanation
Indices: 22099116--22099299 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22099106 AAATTGAATG
* * *
22099116 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22099156 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22099196 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22099236 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22099275 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22099300 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22099324 original size:80 final size:81
Alignment explanation
Indices: 22099156--22099344 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22099146 GCTGGAAATT
* * * *
22099156 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22099221 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22099237 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22099300 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22099316 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22099345 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22101985 original size:14 final size:14
Alignment explanation
Indices: 22101966--22102005 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22101956 ATTAAACCTG
* *
22101966 CTTAAACCATATAT
1 CTTAAACCATAAAC
22101980 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
22101994 CTTAAACTATAA
1 CTTAAACCATAA
22102006 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:22102226 original size:41 final size:41
Alignment explanation
Indices: 22102167--22102547 Score: 597
Period size: 41 Copynumber: 9.4 Consensus size: 41
22102157 GGTTATGGGA
* *
22102167 TTTTTAGCGGCGTGTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
22102208 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
*
22102249 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATACTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* * *
22102290 TTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT-A
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* *
22102330 TTTTTAGCGGCGTTTTACCGAAAGCACAGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
* * * *
22102371 TTTTTAGTGGCGTTTTACTGAAAGCACCGCTAATGCCCT-G
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
**
22102411 TTTTTAGCGGCGTTTTATAGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
*
22102452 TTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
*
22102493 TTTTTAGCGGTGTTTTACCGAAAGCGCCGCTAATGCTCT-G
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
22102533 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
22102548 GAGTGAAAAA
Statistics
Matches: 311, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
40 85 0.27
41 226 0.73
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGG
Found at i:22102374 original size:81 final size:82
Alignment explanation
Indices: 22102167--22102547 Score: 599
Period size: 81 Copynumber: 4.7 Consensus size: 82
22102157 GGTTATGGGA
* * *
22102167 TTTTTAGCGGCGTGTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
*
22102232 CGCCGCTAATGCTCTGG
66 CGCCGCTAATGCCCTGG
*
22102249 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATACTCTGGTTTTTAGCGGCGTTTTACCTAAAG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
*
22102314 CGCCGCTAATGCCCT-A
66 CGCCGCTAATGCCCTGG
* * *
22102330 TTTTTAGCGGCGTTTTACCGAAAGCACAGCTAATGCTCTGGTTTTTAGTGGCGTTTTA-CTGAAA
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCT-AAA
*
22102394 GCACCGCTAATGCCCT-G
65 GCGCCGCTAATGCCCTGG
**
22102411 TTTTTAGCGGCGTTTTATAGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
*
22102476 CGCCGCTAATGCTCTGG
66 CGCCGCTAATGCCCTGG
*
22102493 TTTTTAGCGGTGTTTTACCGAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTT
22102548 GAGTGAAAAA
Statistics
Matches: 274, Mismatches: 22, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
80 2 0.01
81 158 0.58
82 114 0.42
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (82 bp):
TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
CGCCGCTAATGCCCTGG
Found at i:22102385 original size:122 final size:122
Alignment explanation
Indices: 22102167--22102547 Score: 604
Period size: 122 Copynumber: 3.1 Consensus size: 122
22102157 GGTTATGGGA
*
22102167 TTTTTAGCGGCGTGTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAG
*
22102232 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATACTCTGG
66 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-G
* * *
22102290 TTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT-ATTTTTAGCGGCGTTTTACCGAAAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAG
* * * * * *
22102354 CACAGCTAATGCTCTGGTTTTTAGTGGCGTTTTACTGAAAGCACCGCTAATGCCCTG
66 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
* *
22102411 TTTTTAGCGGCGTTTTA-TAGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAA
1 TTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAA
*
22102475 GCGCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTACCGAAAGCGCCGCTAATGCTCTG
65 GCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
22102533 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
22102548 GAGTGAAAAA
Statistics
Matches: 233, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
121 36 0.15
122 161 0.69
123 36 0.15
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (122 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAG
CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
Found at i:22102602 original size:81 final size:82
Alignment explanation
Indices: 22102188--22102613 Score: 444
Period size: 81 Copynumber: 5.2 Consensus size: 82
22102178 GTGTTACCAA
* *
22102188 AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTT
1 AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACTGAAAGCACCGCTAATGCTCT-GTTTT
**
22102253 TAGCGGCG--TTTTACCG
65 TAGCGGCGTTTTTTATAG
* * * *
22102269 AAAGCGCCGCTAATACTCTGGTTTTTAGCGGCGTTTTACCT-AAAGCGCCGCTAATGCCCTATTT
1 -AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA-CTGAAAGCACCGCTAATGCTCTGTTT
**
22102333 TTAGCGGCG--TTTTACCG
64 TTAGCGGCGTTTTTTATAG
* * * *
22102350 AAAGCACAGCTAATGCTCTGGTTTTTAGTGGCGTTTTACTGAAAGCACCGCTAATGCCCTGTTTT
1 -AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACTGAAAGCACCGCTAATGCTCTGTTTT
22102415 TAGCGGCG--TTTTATAG
65 TAGCGGCGTTTTTTATAG
*
22102431 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCT-AAAGCGCCGCTAATGCTCTGGTT
1 -AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA-CTGAAAGCACCGCTAATGCTCT-GTT
* **
22102495 TTTAGC-G-GTGTTTTACCG
63 TTTAGCGGCGTTTTTTATAG
* * * ** *
22102513 AAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTGAGTGAAAAACACCGCTGTTGTTCTGTTT
1 -AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACTG-AAAGCACCGCTAATGCTCTGTTT
* *
22102577 TTACCGGCGTTTTTTTTAG
64 TTAGCGGCGTTTTTTATAG
*
22102596 AA-CGCCGCTATTGCTCTG
1 AAGCGCCGCTAATGCTCTG
22102614 AATTTTAAAA
Statistics
Matches: 301, Mismatches: 32, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
80 4 0.01
81 182 0.60
82 107 0.36
83 8 0.03
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (82 bp):
AAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACTGAAAGCACCGCTAATGCTCTGTTTTT
AGCGGCGTTTTTTATAG
Found at i:22102620 original size:122 final size:120
Alignment explanation
Indices: 22102167--22102613 Score: 483
Period size: 122 Copynumber: 3.7 Consensus size: 120
22102157 GGTTATGGGA
* * **
22102167 TTTTTAGCGGCGTGTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG--TTTTACCGAA
1 TTTTTAGCGGCGTTTTA-TAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTTTATAG-A
*
22102230 AGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATACTCTGG
63 A-CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-G
* * **
22102290 TTTTTAGCGGCGTTTTACCT-AAAGCGCCGCTAATGCCCTATTTTTAGCGGCG--TTTTACCGAA
1 TTTTTAGCGGCGTTTTA--TAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTTTATAGAA
* * * * *
22102352 AGCACAGCTAATGCTCTGGTTTTTAGTGGCGTTTTACTGAAAGCACCGCTAATGCCCTG
64 CGC-C-GCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
***
22102411 TTTTTAGCGGCGTTTTATAGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTA-AA
1 TTTTTAGCGGCGTTTTATA-AAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTTTATAGAA
*
22102475 GCGCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTACCGAAAGCGCCGCTAATGCTCTG
64 -CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
* * * ** * * *
22102533 TTTTTAGCGGCGTTTGAGTGAAAAACACCGCTGTTGTTCTGTTTTTACCGGCGTTTTTTTTAGAA
1 TTTTTAGCGGCGTTTTA-T-AAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTTTATAGAA
*
22102598 CGCCGCTATTGCTCTG
64 CGCCGCTAATGCTCTG
22102614 AATTTTAAAA
Statistics
Matches: 278, Mismatches: 34, Indels: 25
0.82 0.10 0.07
Matches are distributed among these distances:
119 1 0.00
120 2 0.01
121 39 0.14
122 176 0.63
123 54 0.19
124 6 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (120 bp):
TTTTTAGCGGCGTTTTATAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTTTATAGAACG
CCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
Found at i:22124965 original size:27 final size:26
Alignment explanation
Indices: 22124917--22124976 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
22124907 GCGAGGCTGC
*
22124917 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
22124944 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
22124970 TAGATAT
1 CAGATAT
22124977 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:22125755 original size:27 final size:27
Alignment explanation
Indices: 22125725--22125875 Score: 216
Period size: 27 Copynumber: 5.6 Consensus size: 27
22125715 TACCCCATGA
*
22125725 GGGTATCTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
22125752 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
22125779 GGGTATTTC-GATAATTCTACCCTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
22125806 AGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
22125833 GGGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
*
22125860 GGGTATTTCGGTAATT
1 GGGTATTTCAGTAATT
22125876 TTACAAACCA
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.02
27 108 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:22125851 original size:81 final size:81
Alignment explanation
Indices: 22125726--22125875 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
22125716 ACCCCATGAG
*
22125726 GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
22125791 AATTCTACCCTACAGA
66 AATTCTACCCTACAGA
* * * *
22125807 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCTTACAGGGGTATTTCGG
1 GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTTCGA
22125871 TAATT
65 TAATT
22125876 TTACAAACCA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGA
Found at i:22125887 original size:27 final size:27
Alignment explanation
Indices: 22125725--22125903 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 27
22125715 TACCCCATGA
* * * **
22125725 GGGTATCTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTTTACCAAACAG
* ** *
22125752 GGGTATTTCAGT-ATTTCTACCCTACAA
1 GGGTATTTCGGTAATTT-TACCAAACAG
* * **
22125779 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTTTACCAAACAG
* * * **
22125806 AGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTTTACCAAACAG
* * **
22125833 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGGTAATTTTACCAAACAG
22125860 GGGTATTTCGGTAATTTTA-CAAACCAG
1 GGGTATTTCGGTAATTTTACCAAA-CAG
* * *
22125887 GGTTATTTTGGTGATTT
1 GGGTATTTCGGTAATTT
22125904 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
26 5 0.04
27 120 0.94
28 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCAAACAG
Found at i:22125894 original size:81 final size:80
Alignment explanation
Indices: 22125724--22125894 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 80
22125714 TTACCCCATG
* *
22125724 AGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCG
1 AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCG
**
22125789 ATAATTCTACCCTAC
66 ATAATTCTACCAAAC
* *
22125804 AGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCTTACAGGGGTATTT
1 AG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTT
* *
22125868 CGGTAATTTTA-CAAACC
64 CGATAATTCTACCAAA-C
22125885 AGGGTTATTT
1 AGGG-TATTT
22125895 TGGTGATTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
80 7 0.09
81 72 0.91
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCG
ATAATTCTACCAAAC
Found at i:22127390 original size:71 final size:71
Alignment explanation
Indices: 22127306--22127469 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22127296 CGATTTGTCT
22127306 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22127371 CTTTCA
66 CTTTCA
22127377 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22127442 CTTTCA
66 CTTTCA
22127448 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22127470 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22127507 original size:71 final size:70
Alignment explanation
Indices: 22127306--22127503 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
22127296 CGATTTGTCT
* * * *
22127306 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22127371 CTTTCA
65 CTTTCA
* * * *
22127377 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22127442 CTTTCA
65 CTTTCA
* *
22127448 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
22127504 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22130849 original size:2 final size:2
Alignment explanation
Indices: 22130844--22130896 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
22130834 GTTGTATATA
22130844 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
22130886 TG TG CG TG TG T
1 TG TG TG TG TG T
22130897 ATAATAAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:22134996 original size:48 final size:48
Alignment explanation
Indices: 22134865--22135140 Score: 266
Period size: 48 Copynumber: 5.9 Consensus size: 48
22134855 ATGAGATCCC
* * * * * *
22134865 GTGTAAGACCATGTATGGGACATGGCATCGGCATCAGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACAT-TGATATGTGTGCCA
* *
22134914 GTGTAAG----T-T-TGGGACATGGCATC-AGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGATATGTGTGCCA
* *
22134956 GTGTAAGATCATGTCTAGGACATGAG-ATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATG-GCATCGACATTGATATGTGTGCCA
* * *
22135004 ATGTAAGACCATGTTTGGGACATGGCATC-AGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGATATGTGTGCCA
* *
22135052 GTGTAAGACCATGTCTGGGACATGGCATCGGCGA-TGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGAC-ATTGATATGTGTGCCA
* * * *
22135100 GTGTAAAACCATGCCTGGGACATGGCATCAACACTGATATG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATG
22135141 AGACTTCGTA
Statistics
Matches: 189, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
42 16 0.08
43 16 0.08
44 1 0.01
45 1 0.01
46 1 0.01
47 4 0.02
48 141 0.75
49 9 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
Found at i:22135035 original size:96 final size:96
Alignment explanation
Indices: 22134920--22135129 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
22134910 GCCAGTGTAA
* *
22134920 GTTTGGGACATGGCATCAGCGTTGATATGTGTGCTAGTGTAAGATCATGTCTAGGACATGAG-AT
1 GTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATG-GCAT
*
22134984 CGAC-ATTGATATGTGTGCCAATGTAAGACCAT
65 CGACGA-TGATATGTGTGCCAATGTAAAACCAT
*
22135016 GTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATC
* * *
22135081 GGCGATGATATGTGTGCTAGTGTAAAACCAT
66 GACGATGATATGTGTGCCAATGTAAAACCAT
**
22135112 GCCTGGGACATGGCATCA
1 GTTTGGGACATGGCATCA
22135130 ACACTGATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
95 1 0.01
96 101 0.98
97 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (96 bp):
GTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATC
GACGATGATATGTGTGCCAATGTAAAACCAT
Found at i:22135121 original size:144 final size:139
Alignment explanation
Indices: 22134866--22135140 Score: 338
Period size: 144 Copynumber: 1.9 Consensus size: 139
22134856 TGAGATCCCG
*
22134866 TGTAAGACCATGTATGGGACATGGCATCGGCATCAGAGATGAGAGCCAGTGTAAGTTTGGGACAT
1 TGTAAGACCATGTATGGGACATGGCATCAGCATCAGAGATGAGAGCCAGTGTAAGTTTGGGACAT
* * * * * *
22134931 GGCATCAGCGTTGATATGTGTGCTAGTGTAAGATCATGTCTAGGACATGAG-ATCGACATTGATA
66 GGCATCAGCGATGATATGTGTGCTAGTGTAAAACCATGCCTAGGACATG-GCATCAACACTGATA
22134995 TGTGTGCCAA
130 TGTGTGCCAA
* * * * * *
22135005 TGTAAGACCATGTTTGGGACATGGCATCAGCGT-TGATATGTGTGCCAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTATGGGACATGGCATCAGCATCAGAGATGAGAGCCAGTGTAAG----T-T-TG
* *
22135069 GGACATGGCATCGGCGATGATATGTGTGCTAGTGTAAAACCATGCCTGGGACATGGCATCAACAC
60 GGACATGGCATCAGCGATGATATGTGTGCTAGTGTAAAACCATGCCTAGGACATGGCATCAACAC
22135134 TGATATG
125 TGATATG
22135141 AGACTTCGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
138 17 0.15
139 30 0.26
142 1 0.01
143 2 0.02
144 64 0.56
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (139 bp):
TGTAAGACCATGTATGGGACATGGCATCAGCATCAGAGATGAGAGCCAGTGTAAGTTTGGGACAT
GGCATCAGCGATGATATGTGTGCTAGTGTAAAACCATGCCTAGGACATGGCATCAACACTGATAT
GTGTGCCAA
Found at i:22136754 original size:20 final size:20
Alignment explanation
Indices: 22136729--22136769 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
22136719 AAGAAAACCA
22136729 TGGTATAAGGGTATAAGTGG
1 TGGTATAAGGGTATAAGTGG
22136749 TGGTATAAGGGTATAAGTGG
1 TGGTATAAGGGTATAAGTGG
22136769 T
1 T
22136770 AGTGAAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (20 bp):
TGGTATAAGGGTATAAGTGG
Found at i:22141352 original size:22 final size:21
Alignment explanation
Indices: 22141327--22141371 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
22141317 ATATGATCAA
*
22141327 TTAA-TATGGAAATTATTGTATT
1 TTAATTAT-GAAATGATT-TATT
22141349 TTAATTATGAAATGATTTATT
1 TTAATTATGAAATGATTTATT
22141370 TT
1 TT
22141372 GTCATTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 12 0.57
23 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
TTAATTATGAAATGATTTATT
Found at i:22149263 original size:48 final size:47
Alignment explanation
Indices: 22149197--22149441 Score: 409
Period size: 48 Copynumber: 5.1 Consensus size: 47
22149187 GCGGAAATTG
22149197 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGAT-AGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
22149245 ATGTATGAGATCAGTATATATGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGAT-AGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
22149293 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGAT-AGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
22149341 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAAT
1 ATGTATGAGATA-GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
22149389 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATA-GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
22149437 ATGTA
1 ATGTA
22149442 GGCGATGTGT
Statistics
Matches: 189, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 1 0.01
48 188 0.99
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (47 bp):
ATGTATGAGATAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:22149638 original size:37 final size:37
Alignment explanation
Indices: 22149588--22149695 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
22149578 GGAAATATAT
*
22149588 TCTGGGTAAGACCCGACGACTACGTGTGGAGATTATG
1 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
22149625 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
22149662 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCTGGGTAAGACCCGATGACTACGTGTGGAGATT
22149696 TCATCTGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:22155822 original size:29 final size:29
Alignment explanation
Indices: 22155783--22155862 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
22155773 CTTAATAATC
*
22155783 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22155813 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22155842 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
22155863 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22163486 original size:2 final size:2
Alignment explanation
Indices: 22163479--22163518 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
22163469 ACCAGAACAG
22163479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22163519 GTGGCGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22170757 original size:27 final size:26
Alignment explanation
Indices: 22170709--22170760 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22170699 GCGAGGCTGC
*
22170709 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
22170735 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
22170761 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:22172740 original size:29 final size:29
Alignment explanation
Indices: 22172698--22172782 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
22172688 AGCAGACTAT
22172698 GAATGTGATTTGGGCCTAGTGGGCCATAC
1 GAATGTGATTTGGGCCTAGTGGGCCATAC
* *
22172727 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAGTGGGCCATAC
* * *
22172756 GAATGAG-GTTGGGCCTAGTAGGCCATA
1 GAATGTGATTTGGGCCTAGTGGGCCATA
22172783 TGCATGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 17 0.34
29 33 0.66
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAGTGGGCCATAC
Found at i:22175400 original size:47 final size:49
Alignment explanation
Indices: 22175329--22175464 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 49
22175319 TCGGCGTTCG
*
22175329 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-A
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCA
* * *
22175379 CAT-C-TCA-CGAACTCGGACTCAACTCATCGAGTTCGGA---CATTCG
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCA
*
22175422 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
22175465 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 28 0.39
47 28 0.39
48 2 0.03
49 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (49 bp):
CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCA
Found at i:22175453 original size:93 final size:92
Alignment explanation
Indices: 22175295--22175464 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
22175285 GCCCCTAAGT
*
22175295 GAACTCGGACTCAACTTAATGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTTAATGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
22175360 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
22175387 GAACTCGGACTCAAC-TCATCGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTTAAT-GAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22175451 ACGAGTTCGGATGC
64 ACGAGTTCGGATGC
22175465 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
91 3 0.04
92 22 0.30
93 48 0.66
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (92 bp):
GAACTCGGACTCAACTTAATGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22175480 original size:46 final size:44
Alignment explanation
Indices: 22175292--22175480 Score: 134
Period size: 46 Copynumber: 4.1 Consensus size: 44
22175282 CCCGCCCCTA
* * * * * * *
22175292 AGTGAACTCGGACTCAACTTAATGAGCTCGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CAACCATCT
22175337 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
22175384 CA-CGAACTCGGACTCAACTCATCGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
22175430 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
22175476 AGTGA
1 AGTGA
22175481 CATGTCACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 29 0.26
46 35 0.31
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:22180634 original size:40 final size:40
Alignment explanation
Indices: 22180468--22180652 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
22180458 TTCGAATGAT
* * *
22180468 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
* * *
22180508 ATCCGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
22180548 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
22180588 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
**
22180629 A-CCGGGCTGTGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
22180653 TGAATGTGTA
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.93
41 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:22197026 original size:46 final size:45
Alignment explanation
Indices: 22196959--22197127 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
22196949 AACCCGCCCC
*
22196959 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTT-GCATCCA
*
22197005 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G-C--GTTGCATCCA
* * *
22197053 TCA-CGAACT-GGACTCAACTCAACGAGTTCGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGC-GTTGCATCCA
22197096 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
22197128 GATGCTCAAC
Statistics
Matches: 106, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
41 6 0.06
42 2 0.02
43 2 0.02
44 5 0.05
45 23 0.22
46 50 0.47
47 7 0.07
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTGCATCCA
Found at i:22197126 original size:91 final size:93
Alignment explanation
Indices: 22196964--22197132 Score: 297
Period size: 91 Copynumber: 1.8 Consensus size: 93
22196954 GCCCCTAAGT
*
22196964 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22197029 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
22197057 GAACT-GGACTCAACTCAACGAGTTCGA-CATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22197120 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22197133 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 47 0.64
92 21 0.29
93 5 0.07
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22199420 original size:93 final size:93
Alignment explanation
Indices: 22199308--22199479 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
22199298 CGCCCATAAG
*
22199308 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22199373 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
22199401 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22199466 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
22199480 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:22199476 original size:46 final size:46
Alignment explanation
Indices: 22199301--22199476 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
22199291 TGTAACCCGC
* *
22199301 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
22199347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
22199397 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
22199440 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
22199477 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:22207686 original size:28 final size:29
Alignment explanation
Indices: 22207602--22207696 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
22207592 AAAGCATAAC
22207602 TATGAATGTGATTTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAGTGGGCCA
* *
22207631 TACGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAGTGGGCCA
* *
22207660 TATGAATGAGA-TTAGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAGTGGGCCA
*
22207688 TATGTATGT
1 TATGAATGT
22207697 ATGTAGACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 22 0.38
29 36 0.62
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAGTGGGCCA
Found at i:22209626 original size:14 final size:15
Alignment explanation
Indices: 22209607--22209644 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
22209597 AATCTTTAAG
22209607 GATATG-CAATCTTA
1 GATATGACAATCTTA
22209621 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
22209638 GATATGA
1 GATATGA
22209645 TATGAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:22209648 original size:36 final size:38
Alignment explanation
Indices: 22209607--22209696 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 38
22209597 AATCTTTAAG
*
22209607 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGAAATCTTAGATATGATAGCAATCTTAAGATAT
22209643 GATATGAAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGAAATCTTAGATATGATA-GCAATCTT-AAGATAT
*
22209683 GATATTGTAATCTT
1 GATA-TGAAATCTT
22209697 GGAGATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
36 22 0.47
38 7 0.15
40 10 0.21
41 8 0.17
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGAAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:22209655 original size:19 final size:19
Alignment explanation
Indices: 22209607--22209687 Score: 121
Period size: 19 Copynumber: 4.3 Consensus size: 19
22209597 AATCTTTAAG
22209607 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22209626 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22209643 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22209662 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
22209683 GATAT
1 GATAT
22209688 TGTAATCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 17 0.30
19 28 0.50
21 11 0.20
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22215275 original size:8 final size:8
Alignment explanation
Indices: 22215261--22215331 Score: 72
Period size: 8 Copynumber: 8.6 Consensus size: 8
22215251 TTCTATTTCA
22215261 AAAAAAAGG
1 AAAAAAA-G
*
22215270 AAAAAAGAA
1 AAAAAA-AG
22215279 AAGAAAAAG
1 AA-AAAAAG
*
22215288 AGAAAAAG
1 AAAAAAAG
*
22215296 AAAAAAAT
1 AAAAAAAG
22215304 AAAAAAAG
1 AAAAAAAG
*
22215312 AAAAAGAG
1 AAAAAAAG
22215320 -AAAAAAG
1 AAAAAAAG
22215327 AAAAA
1 AAAAA
22215332 TGGAGAGGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
7 6 0.12
8 30 0.59
9 10 0.20
10 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:22215294 original size:30 final size:29
Alignment explanation
Indices: 22215260--22215332 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
22215250 CTTCTATTTC
*
22215260 AAAAAAAAGGAAAA-AAGAAAAGAAAAAGAG
1 AAAAAAAA--AAAATAAAAAAAGAAAAAGAG
22215290 AAAAAGAAAAAAATAAAAAAAGAAAAAGAG
1 AAAAA-AAAAAAATAAAAAAAGAAAAAGAG
*
22215320 AAAAAAGAAAAAT
1 AAAAAAAAAAAAT
22215333 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 11 0.28
30 25 0.64
31 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAAAATAAAAAAAGAAAAAGAG
Found at i:22215302 original size:22 final size:23
Alignment explanation
Indices: 22215261--22215331 Score: 87
Period size: 22 Copynumber: 3.2 Consensus size: 23
22215251 TTCTATTTCA
22215261 AAAAAAAGGAAAAA-AG--AAAAG
1 AAAAAAA-GAAAAAGAGAAAAAAG
* *
22215282 AAAAAGAGAAAAAGA-AAAAAAT
1 AAAAAAAGAAAAAGAGAAAAAAG
22215304 AAAAAAAGAAAAAGAGAAAAAAG
1 AAAAAAAGAAAAAGAGAAAAAAG
22215327 AAAAA
1 AAAAA
22215332 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 6 0.14
21 7 0.17
22 18 0.43
23 11 0.26
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (23 bp):
AAAAAAAGAAAAAGAGAAAAAAG
Found at i:22216336 original size:44 final size:44
Alignment explanation
Indices: 22216286--22216383 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 44
22216276 AGTGCCTTAA
* *
22216286 TCCCCTAAGCAGTAGGGTAACAGGT-TAAATT-TGCAGATCTTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGTG-A-ATCCTATC
*
22216330 TCCCCTAAGTAGTAGGGTAACAGGTCAAAATTGTGAATCCTATC
1 TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGTGAATCCTATC
22216374 T-CCCTAAGCA
1 TCCCCTAAGCA
22216384 ATAGTGGAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 8 0.17
44 32 0.67
45 6 0.12
46 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGTGAATCCTATC
Found at i:22216750 original size:87 final size:89
Alignment explanation
Indices: 22216535--22216750 Score: 230
Period size: 87 Copynumber: 2.4 Consensus size: 89
22216525 CCAAGAAACA
* * * *
22216535 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTGGATGT
1 GATTTGGCATCTCTATATT-GTCAGAGAGCAAATCGAAGACATAGCAGATCTGACCTTTGGATGT
22216600 TTTCACATCGAAGCAGATCCAAGAT
65 TTTCACATCGAAGCAGATCCAAGAT
* * * *
22216625 GATTTGGAAT-TCT-TGTGTTTACA-AGGAGCAAATTGAAGACATAGCAGATCTGA-CTTTCAGG
1 GATTTGGCATCTCTATAT-TGT-CAGA-GAGCAAATCGAAGACATAGCAGATCTGACCTTT--GG
*
22216686 -TG-TTT-ACATTGAAGCAGATCCAAGAT
61 ATGTTTTCACATCGAAGCAGATCCAAGAT
**
22216712 GATTTGGCATCTCTATATTGTCAGAGAATAAATCGAAGA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAAATCGAAGA
22216751 AACAAATTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
87 42 0.41
88 16 0.16
89 34 0.33
90 11 0.11
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
GATTTGGCATCTCTATATTGTCAGAGAGCAAATCGAAGACATAGCAGATCTGACCTTTGGATGTT
TTCACATCGAAGCAGATCCAAGAT
Found at i:22216773 original size:220 final size:220
Alignment explanation
Indices: 22216458--22217238 Score: 1152
Period size: 220 Copynumber: 3.5 Consensus size: 220
22216448 GTAGATTTGG
* ** * *
22216458 CCTTCAGGTGTTCATGCTGAAGCAGATCCAAAATGATTTGGCATCTCTGTATTGTCAGAGAACAA
1 CCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
* * *
22216523 ATCCAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTG
66 ATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTG
*
22216588 ACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGAATTCTTGTGTTTACAAGGAG
131 ACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAG
*
22216653 CAAATTGAAGACATAGCAGATCTGA
196 CAAATCGAAGACATAGCAGATCTGA
* * * * *
22216678 CTTTCAGGTGTTTACATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGTCAGAGAATAA
1 CCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
* *
22216743 ATCGAAGAAACAAATTTGGCATCTCCATATTCGACGAAGAGTAGATCGAAGACATAGCAGATTTG
66 ATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTG
22216808 ACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAG
131 ACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAG
*
22216873 CAAATCGAAGACATAGAAGATCTGA
196 CAAATCGAAGACATAGCAGATCTGA
*
22216898 CCTTCAGGTGTTTACACTGAAGGAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
1 CCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
* * * *
22216963 ATTGAATAAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGTAGATCT-
66 ATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTG
* * * * *
22217027 AACTTTCGGATATTTTCACATTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGA
131 ACCTTT-GGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA
*
22217092 GCAAATCGAAGACATAGCAGATTTGA
195 GCAAATCGAAGACATAGCAGATCTGA
* * *
22217118 CCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATAATTTGACATCTCTGTATTGTCA-AGGAACG
1 CCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGA-GAACA
** * * ** * * *
22217182 AATCGAAGGTAGAAGATTTGACATCTCTGTATTCGACAGAGAGAAGATCGAAAACAT
65 AATCGAAGAAACAA-ATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACAT
22217239 CAACATGTCA
Statistics
Matches: 507, Mismatches: 51, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
219 6 0.01
220 465 0.92
221 36 0.07
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (220 bp):
CCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTGTCAGAGAACAA
ATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTG
ACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAG
CAAATCGAAGACATAGCAGATCTGA
Found at i:22217597 original size:36 final size:35
Alignment explanation
Indices: 22217557--22217642 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
22217547 ATGGAAATAT
22217557 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
*
22217593 AATC-TTAGATATGATACAATCTTATATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
22217629 AATC-TTAGATATGA
1 AATCTTTAGATATGA
22217643 TATGCATTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:22217643 original size:36 final size:36
Alignment explanation
Indices: 22217573--22217644 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
22217563 TAAGGATATG
22217573 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
*
22217609 CAATCTTATATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
22217645 TGCATTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:22217662 original size:16 final size:19
Alignment explanation
Indices: 22217567--22217664 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
22217557 AATCTTTAAG
22217567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22217586 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22217605 GATA--CAATCTTATATAT
1 GATATGCAATCTTAGATAT
22217622 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22217641 GATATGCATTCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
22217662 GAT
1 GAT
22217665 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22219080 original size:12 final size:12
Alignment explanation
Indices: 22219065--22219090 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22219055 TAAAACTCGA
22219065 TTTAAAAATGGT
1 TTTAAAAATGGT
22219077 TTTAAAAATGGT
1 TTTAAAAATGGT
22219089 TT
1 TT
22219091 CGACATCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTAAAAATGGT
Found at i:22221830 original size:14 final size:13
Alignment explanation
Indices: 22221810--22221841 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
22221800 TATATATGCT
22221810 AAATAAAATAATA
1 AAATAAAATAATA
22221823 ATAATAAAATAATA
1 A-AATAAAATAATA
22221837 AAATA
1 AAATA
22221842 TCATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:22224019 original size:18 final size:18
Alignment explanation
Indices: 22223996--22224031 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22223986 TTCCTAGGTG
22223996 GTAGTCAATTATCAACTC
1 GTAGTCAATTATCAACTC
**
22224014 GTAGTCTTTTATCAACTC
1 GTAGTCAATTATCAACTC
22224032 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
GTAGTCAATTATCAACTC
Found at i:22228854 original size:48 final size:48
Alignment explanation
Indices: 22228684--22228854 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 48
22228674 AGATGCCGAC
* * ** *
22228684 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCAAT
1 GCCATGTCCTAGACA-GGTCTTACACTGGCTATCATCTATC-GGGTCGAT
* * * *
22228732 GCCATGTCCTAGACAGGTCTTAGACTGACTTTCATATATCGAGG-CTGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTATCATCTATCG-GGTC-GAT
* *
22228781 GCCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTATCATCTATCGG-GTCGAT
22228830 GCCATGTCC-AGACAGGTCTTACACT
1 GCCATGTCCTAGACAGGTCTTACACT
22228855 AGCTTGTATA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
47 15 0.15
48 32 0.31
49 54 0.53
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (48 bp):
GCCATGTCCTAGACAGGTCTTACACTGGCTATCATCTATCGGGTCGAT
Found at i:22228873 original size:97 final size:97
Alignment explanation
Indices: 22228730--22228913 Score: 230
Period size: 97 Copynumber: 1.9 Consensus size: 97
22228720 ATCAAAGTCA
* * *
22228730 ATGCCATGTCCTAGACAGGTCTTAGACTGACTTTCATATATCGAGGCTGATGCCGTGTCCTAGAC
1 ATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATG-CATGTCCCAGAC
* *
22228795 AGGTCTTACACTGGCTCTCATCTATCGGTGTCG
65 AGATCTTACACTAGCTCTCATCTATCGGTGTCG
* * *
22228828 ATGCCATGTCC-AGACAGGTCTTACACT-AGCTTGT-ATATCTTGAGGCTGATGTATGTCCCAGA
1 ATGCCATGTCCTAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCTGATGCATGTCCCAGA
* *
22228890 CATATCTTATACTAGCTCTCATCT
64 CAGATCTTACACTAGCTCTCATCT
22228914 TAATGCCGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
96 29 0.39
97 33 0.45
98 12 0.16
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (97 bp):
ATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCATGTCCCAGACA
GATCTTACACTAGCTCTCATCTATCGGTGTCG
Found at i:22228889 original size:48 final size:47
Alignment explanation
Indices: 22228826--22228999 Score: 172
Period size: 48 Copynumber: 3.7 Consensus size: 47
22228816 CTATCGGTGT
*
22228826 CGATGCCATGT-CCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGC-TGTATATCTTGAGGC
* * * * * * * *
22228874 TGATGTATGTCCCAGACATATCTTATACTAGCTCT-CATCTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTGTATATCTTGAGGC
* * * *
22228920 CGATGCATGTCCCAGCCATGTTTTACACTAGCTGATATATCTCGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTG-TATATCTTGAGGC
* *
22228968 CAATGCATGTCCCAGATATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
22229000 ACACACATCA
Statistics
Matches: 98, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 35 0.36
47 7 0.07
48 56 0.57
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTGTATATCTTGAGGC
Found at i:22228898 original size:96 final size:96
Alignment explanation
Indices: 22228686--22228996 Score: 287
Period size: 94 Copynumber: 3.2 Consensus size: 96
22228676 ATGCCGACGC
** * *
22228686 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCAATGCCATGTCCTAGACAGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCC-AGACAGG
* *
22228749 TCTTAGACT-GACTT-TCATATATCGAGGCTGATG
64 TCTTACACTAG-CTTGT-ATATCTCGAGGCTGATG
* * * **
22228782 CCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCAGACAGGT
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCAGACAGGT
*
22228847 CTTACACTAGCTTGTATATCTTGAGGCTGATG
65 CTTACACTAGCTTGTATATCTCGAGGCTGATG
* * * * * * *
22228879 TATGTCCCAGACATATCTTATACTAGCTCTCATCT-T-AATGCCGATG-CATGTCCCAGCCATGT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGT-CCAGACAGGT
* * **
22228941 TTTACACTAGC-TGATATATCTCGTGGCCAATG
65 CTTACACTAGCTTG-TATATCTCGAGGCTGATG
*
22228973 CATGTCCCAGATATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
22228997 AGCACACACA
Statistics
Matches: 175, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
93 7 0.04
94 59 0.34
95 1 0.01
96 44 0.25
97 45 0.26
98 19 0.11
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCAGACAGGTC
TTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:22232711 original size:27 final size:28
Alignment explanation
Indices: 22232654--22232723 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22232644 AAATTTGTAC
**
22232654 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
22232682 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
22232709 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22232724 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:22232732 original size:27 final size:27
Alignment explanation
Indices: 22232654--22232735 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
22232644 AAATTTGTAC
* *
22232654 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
22232682 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
22232709 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
22232736 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:22240634 original size:27 final size:28
Alignment explanation
Indices: 22240577--22240646 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22240567 AAATTTGTAC
**
22240577 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
22240605 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
22240632 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22240647 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:22240655 original size:27 final size:27
Alignment explanation
Indices: 22240577--22240658 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
22240567 AAATTTGTAC
* *
22240577 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
22240605 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
22240632 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
22240659 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:22251058 original size:29 final size:29
Alignment explanation
Indices: 22251026--22251157 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
22251016 ATAGTGAATC
22251026 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
22251055 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
22251085 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
22251114 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
22251143 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22251158 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:22251167 original size:59 final size:59
Alignment explanation
Indices: 22251026--22251157 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
22251016 ATAGTGAATC
22251026 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
22251085 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
22251143 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22251158 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:22255704 original size:29 final size:29
Alignment explanation
Indices: 22255660--22255716 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
22255650 GATAGAAATG
22255660 ATTATTTTATGACTTTTATGCAGTCCATA
1 ATTATTTTATGACTTTTATGCAGTCCATA
*
22255689 ATTATTTTATGGCTTTTATGCAGTCCAT
1 ATTATTTTATGACTTTTATGCAGTCCAT
22255717 GATGTGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
ATTATTTTATGACTTTTATGCAGTCCATA
Found at i:22276623 original size:13 final size:13
Alignment explanation
Indices: 22276605--22276629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22276595 AACGAAGCTA
22276605 GACACGGCCGTGC
1 GACACGGCCGTGC
22276618 GACACGGCCGTG
1 GACACGGCCGTG
22276630 TGAACCCACA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:22278135 original size:40 final size:40
Alignment explanation
Indices: 22278063--22278206 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
22278053 CTCGCACAAG
* * * *
22278063 GCCTTCGGGTCTTAG-CCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
22278102 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
22278142 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
22278183 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGACTTAGCCCGGATAT
22278207 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 17 0.19
40 45 0.49
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:22278189 original size:41 final size:39
Alignment explanation
Indices: 22278036--22278199 Score: 163
Period size: 40 Copynumber: 4.2 Consensus size: 39
22278026 TCTTCGGGGT
** * * * *
22278036 TTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCGGATATAGTCGCTAGCACAAATGCCTTCGGATC
* * *
22278074 TTAGCCGGATATGGTCACTAGCATAAATGCCTTCGGGA-C
1 TTAGCCGGATATAGTCGCTAGCACAAATGCCTTC-GGATC
22278113 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGATC
1 TTAG-CCGGATATAGTCGCTAGCACAAATGCCTTCGGATC
* *
22278153 TTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGA-C
1 TTAG-CCGGATATAGTCGC-TAGCACAAATGCCTTC-GGATC
22278194 TTAGCC
1 TTAGCC
22278200 CGAATATCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
38 19 0.18
39 16 0.15
40 49 0.46
41 20 0.19
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
TTAGCCGGATATAGTCGCTAGCACAAATGCCTTCGGATC
Found at i:22286144 original size:38 final size:39
Alignment explanation
Indices: 22286064--22286206 Score: 191
Period size: 38 Copynumber: 3.6 Consensus size: 39
22286054 CTCGCACAAG
* * *
22286064 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-CTAGCACAAAT
22286104 GCCTTCGGGACTTAGCCCGGATATAGT-CTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCCTAGCACAAAT
* *
22286142 GCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTC-C-TAGCACAAAT
22286183 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
22286207 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
37 3 0.03
38 32 0.35
40 26 0.28
41 28 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCCTAGCACAAAT
Found at i:22289933 original size:30 final size:29
Alignment explanation
Indices: 22289839--22289940 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
22289829 TATAGTGAAT
* * *
22289839 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
22289868 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
22289896 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
22289926 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
22289941 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:22300871 original size:80 final size:80
Alignment explanation
Indices: 22300787--22300935 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22300777 TATGGTAACC
* * * *
22300787 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
22300851 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
22300867 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
22300932 CCGG
66 CCGG
22300936 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:22300877 original size:40 final size:38
Alignment explanation
Indices: 22300828--22300935 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
22300818 ATCACGATTT
*
22300828 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
22300868 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
22300908 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
22300936 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:22308271 original size:31 final size:31
Alignment explanation
Indices: 22308229--22308307 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
22308219 TTTAACGGTT
22308229 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
22308260 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
22308291 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
22308308 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:22308561 original size:25 final size:25
Alignment explanation
Indices: 22308527--22308596 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
22308517 CTCTTTTAAT
*
22308527 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
22308552 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
22308577 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
22308597 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:22309448 original size:27 final size:27
Alignment explanation
Indices: 22309386--22309472 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
22309376 GGGCATATTC
*
22309386 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACA
* *
22309413 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTACCATACAGGGG-TATTACA
* * * **
22309440 GTCTTTTTACTAT-TAGGGGTATTTTA
1 GTCATTTTACCATACAGGGGTATTACA
22309466 GTCATTT
1 GTCATTT
22309473 CATCCTACAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.02
26 14 0.30
27 31 0.66
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:22309768 original size:80 final size:80
Alignment explanation
Indices: 22309482--22309770 Score: 278
Period size: 83 Copynumber: 3.6 Consensus size: 80
22309472 TCATCCTACA
* * * * ** * * *
22309482 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTCG
* * *
22309547 ATAATTTTTAGAAAGTCA
66 ATAA-ATTTACAAA--CG
** * ** *
22309565 AGGGTATTTTGGTAATTTTACAAATTAATGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTCG
*
22309630 ATAAATTTACAAACT
66 ATAAATTTACAAACG
* *
22309645 AGGGGTATTTTGGTAATTTTACAAACC-AGGGTATTTTAGTAATTTTACAGACTAG-GGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTC
* * *
22309708 GGT-AATTTCACTGATCG
65 GATAAATTT-AC-AAACG
*
22309725 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
22309771 GTAAATCGAG
Statistics
Matches: 173, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
78 5 0.03
79 35 0.20
80 47 0.27
81 23 0.13
82 7 0.04
83 56 0.32
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTCG
ATAAATTTACAAACG
Found at i:22309775 original size:27 final size:27
Alignment explanation
Indices: 22309480--22309770 Score: 230
Period size: 27 Copynumber: 10.8 Consensus size: 27
22309470 TTTCATCCTA
* * *
22309480 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
22309507 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
22309534 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
*
22309563 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
22309590 TAATGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
22309616 CTAGTGGTATTTCGATAAATTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
22309644 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22309671 C-AGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * ** *
22309696 CTAGGGTATTTTGGTAATTTCACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22309723 CGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
22309750 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
22309771 GTAAATCGAG
Statistics
Matches: 209, Mismatches: 47, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.00
26 43 0.21
27 135 0.65
28 17 0.08
29 13 0.06
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:22309782 original size:27 final size:27
Alignment explanation
Indices: 22309565--22309838 Score: 164
Period size: 27 Copynumber: 10.2 Consensus size: 27
22309555 TAGAAAGTCA
* **
22309565 AGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
22309592 ATGGTATTTCGGTAATTTCACAAA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
22309618 AGTGGTATTTCGATAAATTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
22309645 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
22309672 AGGGTATTTTAGTAATTTTACAGA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
22309698 AGGGTATTTTGGTAATTTCACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* *
22309725 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
22309752 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** *
22309779 AGGGTAAAACGGTAATTTTTGTAAATCG
1 AGGGTATTTTGGTAA-TTTTATAAATCG
*** *
22309807 AGGGTAAAATGGTAATTCTAT-AATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
22309833 AGGGTA
1 AGGGTA
22309839 AAACGGTAAT
Statistics
Matches: 205, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
26 55 0.27
27 123 0.60
28 27 0.13
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:22309793 original size:54 final size:53
Alignment explanation
Indices: 22309735--22309891 Score: 136
Period size: 54 Copynumber: 2.9 Consensus size: 53
22309725 AGGGTATTTT
*** * *
22309735 GGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTAT-AATCGAGGGTAAAAC
* * * *
22309789 GGTAATTTTTGTAAATCGAGGGTAAAATGGTAATTCTATAATCGAGGGTAAAAC
1 GGTAA-TTTTATAAACCAAGGGTAAAATAGTAATTCTATAATCGAGGGTAAAAC
* * * ** * *
22309843 GGTAATTCTGTAAATCAA-GGTAAAACGGTAATTCTGTAAATTGAGGGTA
1 GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTAT-AATCGAGGGTA
22309892 CTTTGGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 17 0.20
53 21 0.24
54 25 0.29
55 24 0.28
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (53 bp):
GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAATCGAGGGTAAAAC
Found at i:22309838 original size:26 final size:27
Alignment explanation
Indices: 22309763--22309891 Score: 181
Period size: 26 Copynumber: 4.8 Consensus size: 27
22309753 GGGTATTTTA
*
22309763 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
22309790 GTAATTTTTGTAAATCGAGGGTAAAATG
1 GTAA-TTCTGTAAATCGAGGGTAAAACG
*
22309818 GTAATTCTAT-AATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22309844 GTAATTCTGTAAATC-AAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
22309870 GTAATTCTGTAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
22309892 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
26 48 0.53
27 17 0.19
28 26 0.29
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:22309902 original size:53 final size:53
Alignment explanation
Indices: 22309774--22309891 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 53
22309764 TAATTTTGTA
* * *
22309774 AATCGAGGGTAAAACGGTAATTTTTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 AATCGAGGGTAAAACGGTAA-TTCTGTAAATCGAAGGTAAAACGGTAATTCTAT
*
22309828 AATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGTAAAACGGTAATTCTGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTAT
*
22309880 AAATTGAGGGTA
1 -AATCGAGGGTA
22309892 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
52 18 0.31
53 20 0.34
54 20 0.34
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (53 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTAT
Found at i:22315811 original size:39 final size:39
Alignment explanation
Indices: 22315757--22315908 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
22315747 TATGGTAACC
* * *
22315757 CGCACAAATGCCTTCGGGACTTAACCCGGAT-TCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAGCT
* *
22315796 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
*
22315835 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
22315874 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
22315909 TCGAACATTC
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 10 0.10
39 95 0.90
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
Found at i:22325892 original size:13 final size:13
Alignment explanation
Indices: 22325866--22325906 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
22325856 AGAGAAATCG
*
22325866 GGGCACACGGCCGT
1 GGGC-CACGCCCGT
*
22325880 GGGTCACGCCCGT
1 GGGCCACGCCCGT
22325893 GGGCCACGCCCGT
1 GGGCCACGCCCGT
22325906 G
1 G
22325907 TGCTCTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.10, C:0.39, G:0.41, T:0.10
Consensus pattern (13 bp):
GGGCCACGCCCGT
Found at i:22329987 original size:19 final size:20
Alignment explanation
Indices: 22329963--22330000 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22329953 TAGTCGTAAA
*
22329963 ATAAAATAA-AAGTAAAAAC
1 ATAAAATAATAAATAAAAAC
22329982 ATAAAATAATAAATAAAAA
1 ATAAAATAATAAATAAAAA
22330001 TTTTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAATAAAAAC
Found at i:22337191 original size:38 final size:38
Alignment explanation
Indices: 22337095--22337269 Score: 199
Period size: 38 Copynumber: 4.6 Consensus size: 38
22337085 CGAGGTATAA
* * * *
22337095 AACCCAAACATAACACCAGCACGAAGCCTACGAGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGAGA-TTT
* * *
22337134 AAACTCAGATATAATACCAGCACTAGGCCTGCGAGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGAGATTT
*
22337173 AACCCGGATATAATACCAGCACGAAGCCTGC-AGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGA-GATTT
* ** *
22337211 AACCCGGATATGTTACCAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGAGATTT
*
22337249 AACCCAGATATAATTCCAGCA
1 AACCCAGATATAATACCAGCA
22337270 TATAGCCTGC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 83 0.72
39 3 0.03
40 28 0.24
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGAGATTT
Found at i:22337277 original size:76 final size:78
Alignment explanation
Indices: 22337148--22337298 Score: 200
Period size: 76 Copynumber: 2.0 Consensus size: 78
22337138 TCAGATATAA
* * *
22337148 TACCAGCACTAGGCCTGCGAGATTTAACCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTA
1 TACCAGCACGAAGCCTGCGAGATTTAACCCAGATATAATACCAGCACGAAGCCTGCAGGTATTTA
22337212 A-CCCGGATATGT
66 AGCCCGGATATGT
* * * * *
22337224 TACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATTCCAGCA-TATAGCCTGCGGGTCTTT
1 TACCAGCACGAAGCCTGCGAGATTTAACCCAGATATAATACCAGCACGA-AGCCTGCAGGTATTT
22337288 AAGCCCGGATA
65 AAGCCCGGATA
22337299 CACATCAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.02
76 50 0.78
77 5 0.08
78 8 0.12
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (78 bp):
TACCAGCACGAAGCCTGCGAGATTTAACCCAGATATAATACCAGCACGAAGCCTGCAGGTATTTA
AGCCCGGATATGT
Found at i:22338505 original size:2 final size:2
Alignment explanation
Indices: 22338488--22338521 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
22338478 AGCATCACTT
*
22338488 TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22338522 TGACTTTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22343380 original size:27 final size:28
Alignment explanation
Indices: 22343324--22343393 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
22343314 AAATTTGTAC
22343324 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22343352 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22343379 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22343394 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:22343404 original size:27 final size:27
Alignment explanation
Indices: 22343324--22343405 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
22343314 AAATTTGTAC
* *
22343324 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
22343352 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
22343379 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
22343406 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:22350896 original size:12 final size:12
Alignment explanation
Indices: 22350879--22350904 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22350869 CCACACACGC
22350879 CCGTGTGCTAGG
1 CCGTGTGCTAGG
22350891 CCGTGTGCTAGG
1 CCGTGTGCTAGG
22350903 CC
1 CC
22350905 ATGCCAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:22351231 original size:14 final size:14
Alignment explanation
Indices: 22351209--22351240 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22351199 TAATATATAC
*
22351209 CATGTTTATAAACT
1 CATGCTTATAAACT
22351223 CATGCTTATAAACT
1 CATGCTTATAAACT
22351237 CATG
1 CATG
22351241 TTTTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (14 bp):
CATGCTTATAAACT
Found at i:22357625 original size:40 final size:40
Alignment explanation
Indices: 22357498--22357627 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
22357488 ATGCTGGAAA
* *
22357498 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
22357538 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
22357578 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
22357618 TTATATCCGG
1 TTATATCCGG
22357628 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:22363480 original size:40 final size:40
Alignment explanation
Indices: 22363396--22363545 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
22363386 AAATTGAATG
* * *
22363396 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
22363434 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
22363474 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
22363514 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
22363546 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:22376486 original size:40 final size:40
Alignment explanation
Indices: 22376420--22376586 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
22376410 AAATTGAATG
* * *
22376420 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
22376459 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
22376499 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
22376539 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
22376579 ATATCCGG
1 ATATCCGG
22376587 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22384465 original size:40 final size:40
Alignment explanation
Indices: 22384399--22384565 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
22384389 AAATTGAATG
* * *
22384399 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
22384438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
22384478 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
22384518 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
22384558 ATATCCGG
1 ATATCCGG
22384566 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22391472 original size:14 final size:14
Alignment explanation
Indices: 22391453--22391491 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
22391443 ATATTTGACT
*
22391453 TGTTCTTACTTATG
1 TGTTCTTAATTATG
22391467 TGTTCTTAATTATG
1 TGTTCTTAATTATG
22391481 TGTTCTTAATT
1 TGTTCTTAATT
22391492 CTCATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:22398332 original size:28 final size:28
Alignment explanation
Indices: 22398286--22398347 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
22398276 ATCTACTAGA
* *
22398286 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATACAAAATGACCATT
* *
22398314 ATACCCCTATGTGTACAAAATGACCTTT
1 ATACCCCTATGTATACAAAATGACCATT
22398342 ATACCC
1 ATACCC
22398348 TTAGGGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATGACCATT
Found at i:22398554 original size:29 final size:28
Alignment explanation
Indices: 22398466--22398554 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 28
22398456 CTGGTGGCTA
* *
22398466 TGCCACAAATTATCTGTTCTGG-G-CCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
22398492 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
22398519 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
22398548 TGTCACA
1 TGCCACA
22398555 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 12 0.24
26 7 0.14
27 8 0.16
28 8 0.16
29 15 0.30
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:22411591 original size:22 final size:20
Alignment explanation
Indices: 22411564--22411608 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
22411554 AATTTTATTT
22411564 TTAATAAATAAGGTTATAATAA
1 TTAATAAATAA--TTATAATAA
* *
22411586 TTAATATATAATTATAATTA
1 TTAATAAATAATTATAATAA
22411606 TTA
1 TTA
22411609 TAATGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAATAAATAATTATAATAA
Found at i:22411604 original size:17 final size:17
Alignment explanation
Indices: 22411582--22411625 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
22411572 TAAGGTTATA
22411582 ATAATTAATATATAAT-T
1 ATAATTAAT-TATAATGT
22411599 ATAATT-ATTATAATGT
1 ATAATTAATTATAATGT
22411615 AT-ATTAATTAT
1 ATAATTAATTAT
22411626 TATCAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATAATTAATTATAATGT
Found at i:22411606 original size:26 final size:25
Alignment explanation
Indices: 22411577--22411625 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
22411567 ATAAATAAGG
22411577 TTATAATAAT-TAATATATAATTATAA
1 TTATAATAATGT-ATAT-TAATTATAA
*
22411603 TTATTATAATGTATATTAATTAT
1 TTATAATAATGTATATTAATTAT
22411626 TATCAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATAATAATGTATATTAATTATAA
Found at i:22413709 original size:27 final size:26
Alignment explanation
Indices: 22413665--22413716 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22413655 CTCGCTGCAA
*
22413665 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
22413692 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
22413717 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:22420662 original size:28 final size:29
Alignment explanation
Indices: 22420592--22420666 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
22420582 CTGGAAATAT
* *
22420592 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * *
22420621 ATGGCACTGTGTGTGCGGGCT-AAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
22420649 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
22420667 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:22428466 original size:29 final size:29
Alignment explanation
Indices: 22428434--22428509 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
22428424 CTGGAAATAT
* *
22428434 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
22428463 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
22428492 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
22428510 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:22439445 original size:29 final size:27
Alignment explanation
Indices: 22439405--22439459 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
22439395 TAGTCAAATA
* *
22439405 TTTCACATTTTAGTCCCTCAATTTCTCAT
1 TTTCACAATTTAG-CCC-AAATTTCTCAT
22439434 TTTCACAATTTAGCCCAAATTTCTCA
1 TTTCACAATTTAGCCCAAATTTCTCA
22439460 AATTCATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
28 3 0.12
29 12 0.50
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTCACAATTTAGCCCAAATTTCTCAT
Found at i:22439465 original size:27 final size:29
Alignment explanation
Indices: 22439406--22439465 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
22439396 AGTCAAATAT
* * **
22439406 TTCACATTTTAGTCCCTCAATTTCTCATT
1 TTCACAATTTAGTCCCTAAATTTCTCAAA
22439435 TTCACAATTTAG-CCC-AAATTTCTCAAA
1 TTCACAATTTAGTCCCTAAATTTCTCAAA
22439462 TTCA
1 TTCA
22439466 TCAAAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.48
28 3 0.11
29 11 0.41
ACGTcount: A:0.28, C:0.27, G:0.03, T:0.42
Consensus pattern (29 bp):
TTCACAATTTAGTCCCTAAATTTCTCAAA
Found at i:22440462 original size:30 final size:31
Alignment explanation
Indices: 22440422--22440484 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
22440412 CCTTTTCATA
22440422 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
22440453 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
22440483 TT
1 TT
22440485 ATGGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:22440725 original size:24 final size:24
Alignment explanation
Indices: 22440678--22440795 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
22440668 GCTTTATCAT
*
22440678 ATAACTGGAGGCCT-AGCCCCTTTTA
1 ATAACTGG-GGCATAAG-CCCTTTTA
22440703 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
22440727 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22440750 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22440773 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22440796 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 49 0.56
24 25 0.28
25 14 0.16
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22440872 original size:20 final size:20
Alignment explanation
Indices: 22440849--22440911 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22440839 GAACATCTCG
*
22440849 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
22440869 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22440889 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22440909 TGT
1 TGT
22440912 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:22440885 original size:9 final size:9
Alignment explanation
Indices: 22440853--22440909 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22440843 ATCTCGTGTG
22440853 CATATCATA
1 CATATCATA
* *
22440862 CATGTCATGTG
1 CATATCA--TA
22440873 CATATCATA
1 CATATCATA
*
22440882 CATATCATGTG
1 CATATCA--TA
22440893 CATATCATA
1 CATATCATA
22440902 CATATCAT
1 CATATCAT
22440910 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22440976 original size:25 final size:25
Alignment explanation
Indices: 22440948--22440995 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22440938 ATGTATAAAC
* * *
22440948 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22440973 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22440996 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22448520 original size:30 final size:31
Alignment explanation
Indices: 22448480--22448542 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
22448470 CCTTTTCATA
22448480 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
22448511 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
22448541 TT
1 TT
22448543 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:22448782 original size:24 final size:25
Alignment explanation
Indices: 22448755--22448829 Score: 129
Period size: 23 Copynumber: 3.1 Consensus size: 25
22448745 GCCTAGCCTC
22448755 TTTTAATAACTGGGGCA-AAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
22448779 TTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCT
22448803 -TTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
22448827 TTT
1 TTT
22448830 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
23 23 0.48
24 17 0.35
25 8 0.17
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
TTTTAATAACTGGGGCATAAGCCCT
Found at i:22448922 original size:20 final size:20
Alignment explanation
Indices: 22448883--22448943 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
22448873 GAACATCTCG
22448883 TGTGCATATCATAC--ATCA
1 TGTGCATATCATACATATCA
22448901 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22448921 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22448941 TGT
1 TGT
22448944 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.34
20 27 0.66
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:22449008 original size:25 final size:25
Alignment explanation
Indices: 22448980--22449027 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22448970 ATGTATAAAC
* * *
22448980 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22449005 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22449028 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22457389 original size:43 final size:43
Alignment explanation
Indices: 22457311--22457467 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
22457301 AGCTCGTACA
* *
22457311 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATTG
* *
22457354 ATGCCACTGTCCCAGACAG-GGTCTTACA-GAAAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATG-AAATCAAATATTG
** * * ** * *
22457396 ATGCTGATGTCCCAGGCATCATCTTACACAT-AAATCATAA-GTCG
1 ATGCCAATGTCCCAGACGTGGTCTT--ACATGAAATCA-AATATTG
*
22457440 ATGCCGATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
22457468 CGAGAACACA
Statistics
Matches: 89, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
42 22 0.25
43 39 0.44
44 28 0.31
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATTG
Found at i:22458030 original size:27 final size:29
Alignment explanation
Indices: 22457971--22458030 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
22457961 TTTCATTAAT
* * **
22457971 TTCACATTTTAGTCCCTCAATTTCTCATT
1 TTCACATTTTAGTCCCTAAATTACTCAAA
22458000 TTCACATTTTAG-CCC-AAATTACTCAAA
1 TTCACATTTTAGTCCCTAAATTACTCAAA
22458027 TTCA
1 TTCA
22458031 TCACAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.44
28 3 0.11
29 12 0.44
ACGTcount: A:0.28, C:0.27, G:0.03, T:0.42
Consensus pattern (29 bp):
TTCACATTTTAGTCCCTAAATTACTCAAA
Done.