Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 98 of 135
Found at i:30488723 original size:40 final size:40
Alignment explanation
Indices: 30488672--30488804 Score: 232
Period size: 40 Copynumber: 3.4 Consensus size: 40
30488662 GAGAATATTA
*
30488672 TTAAAAAGGAAGAATTATGACTCGGTAGAGCATAAGATTG
1 TTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGATTG
*
30488712 TTAAAAGGGAAGACTTATGACTCGGTAGAGCATAAGATTG
1 TTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGATTG
*
30488752 GTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGATTG
1 TTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGATTG
30488792 TT-AAAAGGAAGAC
1 TTAAAAAGGAAGAC
30488805 ACATGAACCT
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 11 0.12
40 77 0.88
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.23
Consensus pattern (40 bp):
TTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAGATTG
Found at i:30493575 original size:16 final size:18
Alignment explanation
Indices: 30493546--30493585 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
30493536 ATATTAAATA
30493546 AATAAAATTAATAA-CAC
1 AATAAAATTAATAATCAC
*
30493563 AATAAAA-TAATAATGAC
1 AATAAAATTAATAATCAC
30493580 AATAAA
1 AATAAA
30493586 TGTAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAAATTAATAATCAC
Found at i:30493814 original size:15 final size:15
Alignment explanation
Indices: 30493787--30493845 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
30493777 CCATGCAAAT
*
30493787 TAAT-CAAATTAAAA
1 TAATGCAAAATAAAA
*
30493801 TAATGGAAAAT-AAA
1 TAATGCAAAATAAAA
*
30493815 TAAATACATAAATAAAA
1 T-AATGCA-AAATAAAA
*
30493832 TCATGCAAAATAAA
1 TAATGCAAAATAAA
30493846 TAAATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
14 8 0.23
15 15 0.43
16 8 0.23
17 4 0.11
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (15 bp):
TAATGCAAAATAAAA
Found at i:30494812 original size:97 final size:97
Alignment explanation
Indices: 30494646--30494839 Score: 280
Period size: 97 Copynumber: 2.0 Consensus size: 97
30494636 AACCTTGCAA
* *
30494646 AAGGGTATTCGATTATCCCAATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGATACAAATCTTCA
1 AAGGGTATTCGATTATCCCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATCTTCA
* *
30494711 AAACCATAGATAAAGAAACATTGCCTCGATTT
66 AAACCAGAAATAAAGAAACATTGCCTCGATTT
* * * *
30494743 AAGGGTATTCTATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATCTTCA
* * * *
30494808 AAACCCGAAATAACGGAATATTGCCTCGATTT
66 AAACCAGAAATAAAGAAACATTGCCTCGATTT
30494840 TAAATATTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATCTTCA
AAACCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:30495301 original size:57 final size:58
Alignment explanation
Indices: 30495101--30495422 Score: 296
Period size: 57 Copynumber: 5.6 Consensus size: 58
30495091 AAAAGTTTTA
* * * * * * *
30495101 GGGGTAAAAATGTCATTTTGGGAAAATTC-GAGGTAAAAAAGTG-ATTTTTGGAAGTTCG
1 GGGGCAAAAATGTGATTTTTGG-AAGTTCAGGGGTAAAAATG-GAATTTTTGGAAGTTTG
** * *
30495159 GGGGCAAAAATGTGATTTTTGGAAGTTCAACGGTAAAAATGGAATTTTTTGAAGTTCG
1 GGGGCAAAAATGTGATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTG
* *
30495217 AGGGGCAAAAAATGTGATTTTTAGAAGTTTAGGGGT-AAAATGGAATTTTTGGAAGTTTG
1 -GGGGC-AAAAATGTGATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTG
* *
30495276 GGGGCAAAAATGTGATTTTTGGAAGTTCAAGGG-AAAAATGGAATTTTTGGAAGTTTA
1 GGGGCAAAAATGTGATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTG
* * * * * * * * * **
30495333 AGGGTAAAATTGTAATTTTT-TAAGTTCGGGGGTCAGAATGTAATTTTTAAAAAGTTTG
1 GGGGCAAAAATGTGATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTT-GGAAGTTTG
* *
30495391 GGGTC-AAAATGTGATTTTTGGACAGTTTAGGG
1 GGGGCAAAAATGTGATTTTTGGA-AGTTCAGGG
30495423 ACCTTTTGGG
Statistics
Matches: 216, Mismatches: 39, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
56 9 0.04
57 93 0.43
58 56 0.26
59 33 0.15
60 25 0.12
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (58 bp):
GGGGCAAAAATGTGATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTG
Found at i:30495365 original size:28 final size:29
Alignment explanation
Indices: 30495100--30495422 Score: 233
Period size: 29 Copynumber: 11.1 Consensus size: 29
30495090 AAAAAGTTTT
* * *
30495100 AGGGGTAAAAATGTCATTTTGGGAAAATTC
1 AGGGGTAAAAATGTAATTTTTGG-AAGTTC
* * *
30495130 -GAGGTAAAAAAGTGATTTTTGGAAGTTC
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * *
30495158 GGGGGCAAAAATGTGATTTTTGGAAGTTC
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
** * *
30495187 AACGGTAAAAATGGAATTTTTTGAAGTTC
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * * *
30495216 GAGGGGCAAAAAATGTGATTTTTAGAAGTTT
1 -AGGGG-TAAAAATGTAATTTTTGGAAGTTC
* *
30495247 AGGGGT-AAAATGGAATTTTTGGAAGTTT
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * *
30495275 GGGGGCAAAAATGTGATTTTTGGAAGTTC
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * *
30495304 AAGGG-AAAAATGGAATTTTTGGAAGTTT
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * *
30495332 AAGGGTAAAATTGTAATTTTT-TAAGTTC
1 AGGGGTAAAAATGTAATTTTTGGAAGTTC
* * * **
30495360 GGGGGTCAGAATGTAATTTTTAAAAAGTT-
1 AGGGGTAAAAATGTAATTTTT-GGAAGTTC
* * * *
30495389 TGGGGTCAAAATGTGATTTTTGGACAGTTT
1 AGGGGTAAAAATGTAATTTTTGGA-AGTTC
30495419 AGGG
1 AGGG
30495423 ACCTTTTGGG
Statistics
Matches: 232, Mismatches: 52, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
28 75 0.32
29 122 0.53
30 16 0.07
31 19 0.08
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
AGGGGTAAAAATGTAATTTTTGGAAGTTC
Found at i:30495373 original size:85 final size:85
Alignment explanation
Indices: 30495101--30495380 Score: 217
Period size: 85 Copynumber: 3.2 Consensus size: 85
30495091 AAAAGTTTTA
* * * * * * * * *** *
30495101 GGGGTAAAAATGTCATTTTGGGAAAATTCGAGGTAAAAAAGTGATTTTTGGAAGTTCGGGGGCAA
1 GGGGCAAAAATGTAATTTTTGG-AAGTTCAAGGGAAAAATGTGATTTTTAGAAGTTTAAGGG-TA
*
30495166 AAATGTG-ATTTTTGGAAGTTCA
64 AAATG-GAATTTTTGGAAGTTCG
** * * * * *
30495188 ACGGTAAAAATGGAATTTTTTGAAGTTCGAGGGGCAAAAAATGTGATTTTTAGAAGTTTAGGGGT
1 GGGGCAAAAATGTAATTTTTGGAAGTTC-AAGGG--AAAAATGTGATTTTTAGAAGTTTAAGGGT
*
30495253 AAAATGGAATTTTTGGAAGTTTG
63 AAAATGGAATTTTTGGAAGTTCG
* *
30495276 GGGGCAAAAATGTGATTTTTGGAAGTTCAAGGGAAAAATG-GAATTTTTGGAAGTTTAAGGGTAA
1 GGGGCAAAAATGTAATTTTTGGAAGTTCAAGGGAAAAATGTG-ATTTTTAGAAGTTTAAGGGTAA
* *
30495340 AATTGTAATTTTT-TAAGTTCG
65 AA-TGGAATTTTTGGAAGTTCG
*
30495361 GGGGTC-AGAATGTAATTTTT
1 GGGG-CAAAAATGTAATTTTT
30495381 AAAAAGTTTG
Statistics
Matches: 155, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
84 1 0.01
85 51 0.33
86 15 0.10
87 23 0.15
88 41 0.26
89 24 0.15
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (85 bp):
GGGGCAAAAATGTAATTTTTGGAAGTTCAAGGGAAAAATGTGATTTTTAGAAGTTTAAGGGTAAA
ATGGAATTTTTGGAAGTTCG
Found at i:30498000 original size:209 final size:209
Alignment explanation
Indices: 30497625--30498636 Score: 1399
Period size: 209 Copynumber: 4.8 Consensus size: 209
30497615 TCTCTCGGTC
**
30497625 TACTTCTCTA-TATCTCATC-AGAAGGATGACCGCATCACTTGTTTTAATTTGCTTCTCTGTATC
1 TACTTCTCTAGTATCTCATCAAGAA-GATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATC
** * * * **
30497688 TCATCAGGAAGATGGATTCAGTCCACTTCTCTATACCTCATCAGGAAGACGACCGCTTTATTGCT
65 TCATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGACGACCATTTTATTGCT
* * * *
30497753 TCAACCCGCTTCTCAGTATCTCATTAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTGAGCTTTG
130 TCGACCTGCTTCTCAGTA-CTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTG
* *
30497818 TTTCCTTGATTTGGTT
194 TTTCATTGATTTGGTA
* * * *
30497834 TACTTCT-TAGTATCTCATCAGGAAGATGACCACATCACTTGTTTTAATCTGCTTCTATGTATCT
1 TACTTCTCTAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCT
* * *
30497898 CATTAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGATGACCATTTTATTGCTT
66 CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGACGACCATTTTATTGCTT
* * * *
30497963 CGACCTGTTTCTCAGTACGTCATCAGAAAGTTGGGGTTCGAAGTTTCGCTCATATTGAGCCTTGT
131 CGACCTGCTTCTCAGTAC-TCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGT
30498028 TTCATTGATTTGGTA
195 TTCATTGATTTGGTA
* *
30498043 TACTTCTCTA-TATCTTATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTTTGTATCT
1 TACTTCTCTAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCT
* **
30498107 CATCAGGAAGATGGATTTGGTCCACTTCTTTGTATCTCATCAGCAAGACGACCATTTTAAGGCTT
66 CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGACGACCATTTTATTGCTT
* * *
30498172 CGACCTGCTTCTCAATACCTCATCAAGAAGCTGGGGTTCGAAGTTTCGCTCATATTGGGCTTTGT
131 CGACCTGCTTCTCAGTA-CTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGT
30498237 TTCATTGATTTGGTA
195 TTCATTGATTTGGTA
* *
30498252 TACTTCTCT-GTATCTCATCAAGAAGATGACCACCTCACTTGTTTTAATCCGCTTCTCTGTATCT
1 TACTTCTCTAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCT
* *** * *
30498316 CATCAAGAAGACAAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGACGACCATTTTATTGCTT
66 CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGACGACCATTTTATTGCTT
* * * * *
30498381 CAACCTGCTTCTCAGTACCTCATTAGGAAGCTGAGGTTCAAAGTTTCGCTCATACTGAGCTTTTG
131 CGACCTGCTTCTCAGTA-CTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGC-TTTG
30498446 TTTCATTGATTTGGTA
194 TTTCATTGATTTGGTA
* * * * *
30498462 TACTTCT-TTGTATCTCATCAGGAAGATGACCGCCTCACTTATTTTAATCCCCTTCTCTGTATCT
1 TACTTCTCTAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCT
*
30498526 CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAAG-AAGACGACCATTTTATTCCT
66 CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATC-AGCAAGACGACCATTTTATTGCT
* * *
30498590 GCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGTTT
130 TCGACCTGCTTCTCAGTA-CTCATCAGGAAGCTGGGGTTCGAAGTTT
30498637 TGAACTTCTC
Statistics
Matches: 715, Mismatches: 79, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
208 3 0.00
209 530 0.74
210 180 0.25
211 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (209 bp):
TACTTCTCTAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATCCGCTTCTCTGTATCT
CATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGCAAGACGACCATTTTATTGCTT
CGACCTGCTTCTCAGTACTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTT
TCATTGATTTGGTA
Found at i:30499611 original size:44 final size:45
Alignment explanation
Indices: 30499518--30499658 Score: 248
Period size: 45 Copynumber: 3.2 Consensus size: 45
30499508 TTGCGGTGTT
* *
30499518 TTTTTTTAAATCGAGACGCCCTTTTGCGGGTTTTCATCCCAATCC
1 TTTTTTTAAATCGAGATGCCCTTTTGCGGGTTTTCATCTCAATCC
30499563 TTTTTTTAAATCGAGATGCCCTTTTGCGGGTTTTCATCTCAAT-C
1 TTTTTTTAAATCGAGATGCCCTTTTGCGGGTTTTCATCTCAATCC
*
30499607 TTTTTTTAAATCGAGATGCCCTTTGGCGGGTTTTCATCTCAATCC
1 TTTTTTTAAATCGAGATGCCCTTTTGCGGGTTTTCATCTCAATCC
30499652 TTTTTTT
1 TTTTTTT
30499659 TAGGTGAAGT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
44 43 0.47
45 49 0.53
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (45 bp):
TTTTTTTAAATCGAGATGCCCTTTTGCGGGTTTTCATCTCAATCC
Found at i:30500732 original size:3 final size:3
Alignment explanation
Indices: 30500724--30500765 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
30500714 GGTCATCTCT
*
30500724 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
30500766 GATATCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:30504096 original size:97 final size:97
Alignment explanation
Indices: 30503909--30504100 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 97
30503899 CCTTGGAAAA
*
30503909 GGGTATTCGATTATCCCGGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATCTTCAAA
1 GGGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATCTTCAAA
* *
30503974 ACCAAAGATCAATAAACATTGCCTCGATTTAG
66 ACCAAAGATCAAAAAACATTACCTCGATTTAG
* *
30504006 GGGTATTCGATTATCCCTGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAA
1 GGGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATCTTCAAA
* *
30504071 ACCCGAA-AT-AAAAGAATATTACCTCGATTT
66 A-CCAAAGATCAAAA-AACATTACCTCGATTT
30504101 TAAATATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 3 0.03
97 79 0.92
98 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (97 bp):
GGGTATTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATCTTCAAA
ACCAAAGATCAAAAAACATTACCTCGATTTAG
Found at i:30504633 original size:29 final size:29
Alignment explanation
Indices: 30504361--30504689 Score: 251
Period size: 29 Copynumber: 11.4 Consensus size: 29
30504351 TTTGAGGTTG
* **
30504361 AAATGTAATTTTGGAAAGTTTTAAGGGTAA
1 AAATGTAATTTTTGAAAG-TTCGAGGGTAA
* *
30504391 AAATGTCATTTTTGGAAA-TTC-AAGGTAA
1 AAATGTAATTTTT-GAAAGTTCGAGGGTAA
** * *
30504419 AAACATGATTTTTGGAAGTTCG-GGGTAA
1 AAATGTAATTTTTGAAAGTTCGAGGGTAA
* *
30504447 AAATGTGATTTTTGGAAGTTCGAGGGTAA
1 AAATGTAATTTTTGAAAGTTCGAGGGTAA
* *
30504476 AAATGGAATTTTTGGAAGTTCGAGGGGTAA
1 AAATGTAATTTTTGAAAGTTCGA-GGGTAA
* *
30504506 AAATATGATTTTTAGAAA-TTCG-GGGATAA
1 AAATGTAATTTTT-GAAAGTTCGAGGG-TAA
* * * *
30504535 AAATGTGATTTTTGAAAGTTTGGGGGCAA
1 AAATGTAATTTTTGAAAGTTCGAGGGTAA
* * * *
30504564 AAATATGATGTTTGAAAGTTCGAGGGCAA
1 AAATGTAATTTTTGAAAGTTCGAGGGTAA
*
30504593 AAAT-TGAATTTTTGAAAGTTCGAGGGCAA
1 AAATGT-AATTTTTGAAAGTTCGAGGGTAA
* * * *
30504622 AAATGT-TTTTTTTAAAGTTCGGGGGTCA
1 AAATGTAATTTTTGAAAGTTCGAGGGTAA
* * *
30504650 GAATGTAATTTTTGAAAAGTTC-AAGGTCA
1 AAATGTAATTTTTG-AAAGTTCGAGGGTAA
*
30504679 AAATGTGATTT
1 AAATGTAATTT
30504690 CTGGACAGTT
Statistics
Matches: 248, Mismatches: 38, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.01
28 74 0.30
29 122 0.49
30 42 0.17
31 7 0.03
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
AAATGTAATTTTTGAAAGTTCGAGGGTAA
Found at i:30508341 original size:30 final size:29
Alignment explanation
Indices: 30508298--30508397 Score: 139
Period size: 29 Copynumber: 3.4 Consensus size: 29
30508288 TTTGAAAATT
*
30508298 AAAATAA-TTTAATAATTTTATTATTTCAA
1 AAAATAATTTTAATAATTTTA-TATTTTAA
30508327 AAAATAATTTTAATAATTTTATATTTTAA
1 AAAATAATTTTAATAATTTTATATTTTAA
* * * *
30508356 AAAATAATTTAAAAAATGTTACATTTTAA
1 AAAATAATTTTAATAATTTTATATTTTAA
30508385 AAAATAATTTTAA
1 AAAATAATTTTAA
30508398 AATCATTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 51 0.80
30 13 0.20
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (29 bp):
AAAATAATTTTAATAATTTTATATTTTAA
Found at i:30508386 original size:16 final size:14
Alignment explanation
Indices: 30508331--30508399 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 14
30508321 TTTCAAAAAA
*
30508331 TAATTTTAATAATTT
1 TAATTTTAA-AAATT
*
30508346 TATATTTTAAAAA-A
1 TA-ATTTTAAAAATT
*
30508360 TAATTTAAAAAATGT
1 TAATTTTAAAAAT-T
*
30508375 TACATTTTAAAAA-A
1 TA-ATTTTAAAAATT
30508389 TAATTTTAAAA
1 TAATTTTAAAA
30508400 TCATTTACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 18 0.41
14 4 0.09
15 6 0.14
16 16 0.36
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (14 bp):
TAATTTTAAAAATT
Found at i:30511977 original size:13 final size:13
Alignment explanation
Indices: 30511959--30511983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30511949 TCGTTGATTG
30511959 TTGACCATTGACT
1 TTGACCATTGACT
30511972 TTGACCATTGAC
1 TTGACCATTGAC
30511984 CGTTGACTTT
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:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGACCATTGACT
Found at i:30518712 original size:14 final size:13
Alignment explanation
Indices: 30518679--30518713 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
30518669 GTTATAATGC
30518679 ATTTTTAAAAGTA
1 ATTTTTAAAAGTA
30518692 ATTTTTAAAAGTA
1 ATTTTTAAAAGTA
30518705 ATTGTTTAA
1 ATT-TTTAA
30518714 TAGACAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (13 bp):
ATTTTTAAAAGTA
Found at i:30526766 original size:15 final size:14
Alignment explanation
Indices: 30526739--30526765 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30526729 CTTTGTAGGA
30526739 TTTTATTTTTTTTC
1 TTTTATTTTTTTTC
30526753 TTTTATTTTTTTT
1 TTTTATTTTTTTT
30526766 TTCCAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTATTTTTTTTC
Found at i:30528464 original size:13 final size:14
Alignment explanation
Indices: 30528434--30528469 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30528424 ATATCCCTAG
30528434 TTTTGCACTACCCT
1 TTTTGCACTACCCT
*
30528448 TTTTGTACTACCCT
1 TTTTGCACTACCCT
30528462 TTTTGCAC
1 TTTTGCAC
30528470 GTTTCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.31, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTTGCACTACCCT
Found at i:30529885 original size:17 final size:17
Alignment explanation
Indices: 30529850--30529887 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
30529840 ATATGATAAG
*
30529850 ATATGATTTGCATCAAA
1 ATATGATTTGCATAAAA
30529867 ATATGATTTG-ATAAGAA
1 ATATGATTTGCATAA-AA
30529884 ATAT
1 ATAT
30529888 TATGGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (17 bp):
ATATGATTTGCATAAAA
Found at i:30532574 original size:10 final size:10
Alignment explanation
Indices: 30532559--30532595 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
30532549 ACCTTTCCCC
30532559 TTTATTTTTA
1 TTTATTTTTA
30532569 TTTA--TTTA
1 TTTATTTTTA
*
30532577 TTTATTTTTG
1 TTTATTTTTA
30532587 TTTATTTTT
1 TTTATTTTT
30532596 CTTTCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:30532582 original size:18 final size:18
Alignment explanation
Indices: 30532559--30532593 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30532549 ACCTTTCCCC
30532559 TTTATTTTTATTTATTTA
1 TTTATTTTTATTTATTTA
*
30532577 TTTATTTTTGTTTATTT
1 TTTATTTTTATTTATTT
30532594 TTCTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTATTTTTATTTATTTA
Found at i:30536736 original size:15 final size:15
Alignment explanation
Indices: 30536697--30536738 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
30536687 CTCCCTAAAA
*
30536697 TAAAAATTTTATTTT
1 TAAAAATTTTAATTT
**
30536712 TAAATTTTTTAATTT
1 TAAAAATTTTAATTT
30536727 TAAAAATTTTAA
1 TAAAAATTTTAA
30536739 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAAAATTTTAATTT
Found at i:30537306 original size:17 final size:19
Alignment explanation
Indices: 30537274--30537308 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
30537264 TTGTTAACAT
30537274 TTTTAAAATATTTATATTA
1 TTTTAAAATATTTATATTA
30537293 TTTT-AAAT-TTTATATT
1 TTTTAAAATATTTATATT
30537309 TAAAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAAATATTTATATTA
Found at i:30541921 original size:21 final size:19
Alignment explanation
Indices: 30541895--30541947 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
30541885 ACCCGGCAGG
30541895 TTCTTTCATTTCATTCTCTTC
1 TTCTTTC-TTTC-TTCTCTTC
30541916 TTCTTTTTCTTTCTTCTCTTC
1 TTC--TTTCTTTCTTCTCTTC
30541937 TTC-TTCTTTCT
1 TTCTTTCTTTCT
30541948 CCTTCTGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.27
21 14 0.47
22 4 0.13
23 4 0.13
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTTCTTTCTTCTCTTC
Found at i:30541924 original size:18 final size:18
Alignment explanation
Indices: 30541903--30541953 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
30541893 GGTTCTTTCA
*
30541903 TTTCATTCTCTTCTTCTT
1 TTTCTTTCTCTTCTTCTT
30541921 TTTCTTTCT-TCTCTTCTT
1 TTTCTTTCTCT-TCTTCTT
*
30541939 CTTCTTTCTCCTTCT
1 TTTCTTTCT-CTTCT
30541954 GCTGGTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.04
18 23 0.82
19 3 0.11
20 1 0.04
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCTCTTCTTCTT
Found at i:30541952 original size:21 final size:21
Alignment explanation
Indices: 30541908--30541953 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
30541898 TTTCATTTCA
*
30541908 TTCTCTTCTTCTTTTTCTTTC
1 TTCTCTTCTTCTTTTTCTTCC
30541929 TTCTCTTCTTCTTCTTTC-TCC
1 TTCTCTTCTTCTT-TTTCTTCC
30541950 TTCT
1 TTCT
30541954 GCTGGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTCTTCTTCTTTTTCTTCC
Found at i:30551776 original size:23 final size:23
Alignment explanation
Indices: 30551749--30551941 Score: 287
Period size: 23 Copynumber: 8.4 Consensus size: 23
30551739 ATCTTAATTC
30551749 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
30551772 TTTAAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
30551795 TTTAAACACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
30551818 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
30551841 TTTGAGCACAAATTATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
30551864 TTTAATCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
30551887 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
30551910 TTTAAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
30551933 TTTAAGCAC
1 TTTAAGCAC
30551942 GGATATAAGA
Statistics
Matches: 149, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 149 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:30551860 original size:69 final size:69
Alignment explanation
Indices: 30551749--30551937 Score: 324
Period size: 69 Copynumber: 2.7 Consensus size: 69
30551739 ATCTTAATTC
30551749 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAACACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAACACAAATCACATT
30551814 AATA
66 AATA
* * * * *
30551818 TTTAAGCATAAATCACATTAATATTTGAGCACAAATTATATTAATATTTAATCACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAACACAAATCACATT
30551883 AATA
66 AATA
*
30551887 TTTGAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAA
1 TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAA
30551938 GCACGGATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 110 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.35
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAAGCATAAATCATATTAATATTTAAACACAAATCACATT
AATA
Found at i:30555548 original size:23 final size:23
Alignment explanation
Indices: 30555518--30555612 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
30555508 AAAAACGCAT
*
30555518 AAAAATAACATCAAAACAACAAC
1 AAAAATAACAACAAAACAACAAC
*
30555541 AAAAATAACAACAAAACAACAAT
1 AAAAATAACAACAAAACAACAAC
* * *
30555564 AAAAATAAC-A-AAAATAGCAGC
1 AAAAATAACAACAAAACAACAAC
* *
30555585 AAAAATAACAACAATAATAACAGC
1 AAAAATAACAACAA-AACAACAAC
30555609 AAAA
1 AAAA
30555613 GCAACACCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
21 16 0.26
22 2 0.03
23 32 0.52
24 12 0.19
ACGTcount: A:0.71, C:0.17, G:0.03, T:0.09
Consensus pattern (23 bp):
AAAAATAACAACAAAACAACAAC
Found at i:30555587 original size:12 final size:12
Alignment explanation
Indices: 30555518--30555612 Score: 65
Period size: 12 Copynumber: 8.3 Consensus size: 12
30555508 AAAAACGCAT
*
30555518 AAAAATAACATC
1 AAAAATAACAGC
* *
30555530 -AAAACAACAAC
1 AAAAATAACAGC
*
30555541 AAAAATAACAAC
1 AAAAATAACAGC
* **
30555553 -AAAACAACAAT
1 AAAAATAACAGC
30555564 AAAAAT-A-A-C
1 AAAAATAACAGC
*
30555573 AAAAATAGCAGC
1 AAAAATAACAGC
*
30555585 AAAAATAACAAC
1 AAAAATAACAGC
*
30555597 AATAATAACAGC
1 AAAAATAACAGC
30555609 AAAA
1 AAAA
30555613 GCAACACCAA
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
9 6 0.09
10 1 0.02
11 20 0.31
12 38 0.58
ACGTcount: A:0.71, C:0.17, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAAATAACAGC
Found at i:30555606 original size:9 final size:9
Alignment explanation
Indices: 30555532--30555606 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
30555522 ATAACATCAA
*
30555532 AACAACAAC
1 AACAATAAC
*
30555541 AAAAATAAC
1 AACAATAAC
30555550 AACAA-AAC
1 AACAATAAC
30555558 AACAAT-A-
1 AACAATAAC
30555565 AA-AATAAC
1 AACAATAAC
*
30555573 AAAAATAGCAGC
1 AACAATA--A-C
*
30555585 AAAAATAAC
1 AACAATAAC
*
30555594 AACAATAAT
1 AACAATAAC
30555603 AACA
1 AACA
30555607 GCAAAAGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 11 0.20
9 27 0.50
10 1 0.02
11 1 0.02
12 8 0.15
ACGTcount: A:0.71, C:0.17, G:0.03, T:0.09
Consensus pattern (9 bp):
AACAATAAC
Found at i:30555618 original size:24 final size:23
Alignment explanation
Indices: 30555518--30555626 Score: 78
Period size: 23 Copynumber: 4.8 Consensus size: 23
30555508 AAAAACGCAT
* * * *
30555518 AAAAATAACATCAAAACAACAAC
1 AAAAACAACAACAAAATAACAGC
* * **
30555541 AAAAATAACAACAAAACAACAAT
1 AAAAACAACAACAAAATAACAGC
* *
30555564 AAAAATAAC-A-AAAATAGCAGC
1 AAAAACAACAACAAAATAACAGC
*
30555585 AAAAATAACAACAATAATAACAGC
1 AAAAACAACAACAA-AATAACAGC
* *
30555609 AAAAGCAACACCAAAATA
1 AAAAACAACAACAAAATA
30555627 GTAAAAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.22
22 2 0.03
23 36 0.49
24 19 0.26
ACGTcount: A:0.69, C:0.18, G:0.04, T:0.09
Consensus pattern (23 bp):
AAAAACAACAACAAAATAACAGC
Found at i:30555633 original size:56 final size:55
Alignment explanation
Indices: 30555516--30555633 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 55
30555506 GTAAAAACGC
* *
30555516 ATAAAAATAACATCAAAACAACAACAAAAATAACAACAAAACAACAATAAAAATA
1 ATAAAAATAACAGCAAAACAACAACAAAAATAACAACAAAACAACAACAAAAATA
* * * * * *
30555571 ACAAAAATAGCAGCAAAAATAACAACAATAATAACAGCAAAAGCAAC-ACCAAAATA
1 ATAAAAATAACAGC-AAAACAACAACAAAAATAACAACAAAA-CAACAACAAAAATA
*
30555627 GTAAAAA
1 ATAAAAA
30555634 AAAACCAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
55 11 0.22
56 36 0.71
57 4 0.08
ACGTcount: A:0.69, C:0.17, G:0.04, T:0.10
Consensus pattern (55 bp):
ATAAAAATAACAGCAAAACAACAACAAAAATAACAACAAAACAACAACAAAAATA
Found at i:30556138 original size:13 final size:13
Alignment explanation
Indices: 30556120--30556169 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
30556110 TTTTATTTTC
30556120 AATTAAAATTATA
1 AATTAAAATTATA
*
30556133 AATTAAAATAATA
1 AATTAAAATTATA
* *
30556146 ATTTTAAAAATTATG
1 A-ATT-AAAATTATA
30556161 AATTAAAAT
1 AATTAAAAT
30556170 AATATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 18 0.60
14 4 0.13
15 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:30559995 original size:24 final size:22
Alignment explanation
Indices: 30559968--30560020 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
30559958 ATGTCATATC
*
30559968 AATAAATATTTTTAAAAATATAAA
1 AATAAATATATTT-AAAAT-TAAA
*
30559992 AATAAAAATATTTAAAATTAAA
1 AATAAATATATTTAAAATTAAA
*
30560014 AAAAAAT
1 AATAAAT
30560021 TGCATGAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 9 0.36
23 5 0.20
24 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATATATTTAAAATTAAA
Found at i:30561309 original size:6 final size:6
Alignment explanation
Indices: 30561300--30561324 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30561290 TGCATCTGCT
30561300 CTTGCA CTTGCA CTTGCA CTTGCA C
1 CTTGCA CTTGCA CTTGCA CTTGCA C
30561325 CTCATTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CTTGCA
Found at i:30562928 original size:497 final size:498
Alignment explanation
Indices: 30561943--30562937 Score: 1814
Period size: 497 Copynumber: 2.0 Consensus size: 498
30561933 GAGTTCTATC
30561943 GAAACAAGTATGCAGAATTCTCAAATTCACAAAAGTTCATTTACAAAACTTCATTCATAGACATA
1 GAAACAAGTATGCAGAATTCTCAAATTCACAAAAGTTCATTTACAAAACTTCATTCATAGACATA
*
30562008 AGGTGCAATGGACAACACATTTGTGTTCAAGTACAACACTTAGCATAGCATTTAAGTACTAGATG
66 AGGTGCAATGGACAACACATTTGTGTTCAAGTACAACACTTAGCATAACATTTAAGTACTAGATG
30562073 TCACATACAACATTGATCAAGCATTAAAAGTTCAACATTTAACCAAGGTACTACAAGTATCATAG
131 TCACATACAACATTGATCAAGCATTAAAAGTTCAACATTTAACCAAGGTACTACAAGTATCATAG
*
30562138 TCTCAAAATAAGCATATATATAAATAACATCATCCTAGTACATGCCTATATAACCAAGTGATGTA
196 TCTCAAAATAAGCATATACATAAATAACATCATCCTAGTACATGCCTATATAACCAAGTGATGTA
* * * *
30562203 AGAACTATAGAACCAGCTCCTGGATAGTGTGATGTCTTCGAGGTAATCCGATCTTCAACTAGCCA
261 AGAACTATAGAACCAGCTCCTGGATAGTGTGATGTCTTCGAGCTAATCCAATCTTCAACCAACCA
* *
30562268 AAACGAAATCTACAAAACAGCAACAATACACAGATAAGCTTTCTAGCCTAGTAAGTTCGTAAATA
326 AAACGAAATCTACAAAACAGCAACAATACACAGATAAGCTTTCTAACCTAGTAAGTTCGCAAATA
* *
30562333 GGGTGTCATATCTCAACATTAAGCATAGTAACGACAATTATCATTAGAGTCGTAAATACTTCCTC
391 GGGTGTCATAGCTCAACATTAAGCATAGTAACGAAAATTATCATTAGAGTCGTAAATACTTCCTC
30562398 TTAAACCGATTTCATACTTCATAGGTTCATAAGTCTTCCTTTT
456 TTAAACCGATTTCATACTTCATAGGTTCATAAGTCTTCCTTTT
*
30562441 GAAACAAGTATGTAGAATTCTCAAATTCACAAAAGTTCATTTACAAAACTTCATTCATAGACATA
1 GAAACAAGTATGCAGAATTCTCAAATTCACAAAAGTTCATTTACAAAACTTCATTCATAGACATA
* *
30562506 AGGTGCAATGGACAAC-CTATTTGTGTTCAAGTACAACACTTAGCATAACATTTAAGTATTATAT
66 AGGTGCAATGGACAACAC-ATTTGTGTTCAAGTACAACACTTAGCATAACATTTAAGTACTAGAT
* *
30562570 GTCACGTACAACATTGATCAAGCATTCAAAGTTCAACATTTAACCAAGGTACTACAAGTATCATA
130 GTCACATACAACATTGATCAAGCATTAAAAGTTCAACATTTAACCAAGGTACTACAAGTATCATA
30562635 GTCTCAAAATAAGCATATACATAAATAACATCATCCTAGTACATGCC-ATATAACCAAGTGATGT
195 GTCTCAAAATAAGCATATACATAAATAACATCATCCTAGTACATGCCTATATAACCAAGTGATGT
*
30562699 AAGAACTATAGAACCAGCTCTTGGATAGTGTGATGTCTTCGAGCTAATCCAATCTTCAACCAACC
260 AAGAACTATAGAACCAGCTCCTGGATAGTGTGATGTCTTCGAGCTAATCCAATCTTCAACCAACC
30562764 AAAACGAAATCTACAAAACAGCAACAATACACAGATAAGCTTTCTAACCTAGTAAGTTCGCAAAT
325 AAAACGAAATCTACAAAACAGCAACAATACACAGATAAGCTTTCTAACCTAGTAAGTTCGCAAAT
30562829 AGGGTGTCATAGCTCAACATTAAGCATAGTAACGAAAATTATCATTAGAGTCGTAAATACTTCCT
390 AGGGTGTCATAGCTCAACATTAAGCATAGTAACGAAAATTATCATTAGAGTCGTAAATACTTCCT
*
30562894 CTTAAATCGATTTCATACTTCATAGGTTCATAAGTCTTCCTTTT
455 CTTAAACCGATTTCATACTTCATAGGTTCATAAGTCTTCCTTTT
30562938 AATCAATCTT
Statistics
Matches: 479, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
497 247 0.52
498 232 0.48
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (498 bp):
GAAACAAGTATGCAGAATTCTCAAATTCACAAAAGTTCATTTACAAAACTTCATTCATAGACATA
AGGTGCAATGGACAACACATTTGTGTTCAAGTACAACACTTAGCATAACATTTAAGTACTAGATG
TCACATACAACATTGATCAAGCATTAAAAGTTCAACATTTAACCAAGGTACTACAAGTATCATAG
TCTCAAAATAAGCATATACATAAATAACATCATCCTAGTACATGCCTATATAACCAAGTGATGTA
AGAACTATAGAACCAGCTCCTGGATAGTGTGATGTCTTCGAGCTAATCCAATCTTCAACCAACCA
AAACGAAATCTACAAAACAGCAACAATACACAGATAAGCTTTCTAACCTAGTAAGTTCGCAAATA
GGGTGTCATAGCTCAACATTAAGCATAGTAACGAAAATTATCATTAGAGTCGTAAATACTTCCTC
TTAAACCGATTTCATACTTCATAGGTTCATAAGTCTTCCTTTT
Found at i:30562966 original size:40 final size:40
Alignment explanation
Indices: 30562921--30563017 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
30562911 CTTCATAGGT
*
30562921 TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCGAG
1 TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCAAG
* * *
30562961 TCATAAGTCTTCCTTTTAATCACTCTTATGCTTTACTAAG
1 TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCAAG
*
30563001 TTATAAGTCTTCCTTTT
1 TCATAAGTCTTCCTTTT
30563018 TAAAAACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (40 bp):
TCATAAGTCTTCCTTTTAATCAATCTTATGCTCTACCAAG
Found at i:30563122 original size:84 final size:86
Alignment explanation
Indices: 30563029--30563184 Score: 235
Period size: 84 Copynumber: 1.8 Consensus size: 86
30563019 AAAAACAAAC
* * *
30563029 CTCACGCTCATCCCGAGACATGAGTCTTCCTTTAATAT-AA-TCTCATTCTCATCCCGAGACATG
1 CTCACGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATTCTCATACTCAACCCGAGACATG
30563092 AGTCTTCCTTTAATATAAATT
66 AGTCTTCCTTTAATATAAATT
* * * *
30563113 CTCATGCTCAACCTGAGACATGAGTCTTCCTTTTATATAAATTCTCATACTCAACTCGAGACATG
1 CTCACGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATTCTCATACTCAACCCGAGACATG
30563178 AGTCTTC
66 AGTCTTC
30563185 AATTTCAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
84 34 0.54
85 2 0.03
86 27 0.43
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (86 bp):
CTCACGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATTCTCATACTCAACCCGAGACATG
AGTCTTCCTTTAATATAAATT
Found at i:30563131 original size:43 final size:43
Alignment explanation
Indices: 30563029--30563184 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 43
30563019 AAAAACAAAC
* *
30563029 CTCACGCTCATCCCGAGACATGAGTCTTCCTTTAATAT-AA-T
1 CTCATGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATT
* *
30563070 CTCATTCTCATCCCGAGACATGAGTCTTCCTTTAATATAAATT
1 CTCATGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATT
* *
30563113 CTCATGCTCAACCTGAGACATGAGTCTTCCTTTTATATAAATT
1 CTCATGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATT
* *
30563156 CTCATACTCAACTCGAGACATGAGTCTTC
1 CTCATGCTCAACCCGAGACATGAGTCTTC
30563185 AATTTCAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 36 0.35
42 2 0.02
43 66 0.63
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (43 bp):
CTCATGCTCAACCCGAGACATGAGTCTTCCTTTAATATAAATT
Found at i:30581409 original size:21 final size:21
Alignment explanation
Indices: 30581354--30581409 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
30581344 CTTGTGATAG
*
30581354 TTCTACCGATACAAGTGTAAC
1 TTCTACCGATACTAGTGTAAC
* * * *
30581375 ATCTATCGAAACTAGT-TATGC
1 TTCTACCGATACTAGTGTA-AC
30581396 TTCTACCGATACTA
1 TTCTACCGATACTA
30581410 AAAACTCCAG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (21 bp):
TTCTACCGATACTAGTGTAAC
Found at i:30582128 original size:40 final size:40
Alignment explanation
Indices: 30582073--30582165 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
30582063 ATAGGTTCAT
*
30582073 AAGTCTTCCTTTTAATCAATATTATGCTCTACCAAGTCAC
1 AAGTCTTCCTTTTAATCAATATTATACTCTACCAAGTCAC
* * *
30582113 AAGTCTTCCTTTTAATCACTCTTATACTCTACCAAGTCAT
1 AAGTCTTCCTTTTAATCAATATTATACTCTACCAAGTCAC
30582153 AAGTCTTCCTTTT
1 AAGTCTTCCTTTT
30582166 TAAAAAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (40 bp):
AAGTCTTCCTTTTAATCAATATTATACTCTACCAAGTCAC
Found at i:30582279 original size:43 final size:43
Alignment explanation
Indices: 30582192--30582347 Score: 244
Period size: 43 Copynumber: 3.6 Consensus size: 43
30582182 CTCTTATTTT
* *
30582192 GAGACATGAGTCTTCCTTTAATAT-AA-TCTCATTCTCATCCC
1 GAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACCC
30582233 GAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACCC
1 GAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACCC
* *
30582276 GAGACATGAGTCTTCCTTTTATATAAATTCTCATGCTCAACCT
1 GAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACCC
30582319 GAGACATGAGTCTTCCATTTAAATATAAA
1 GAGACATGAGTCTTCC-TTT-AATATAAA
30582348 GTTTCTCAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
41 24 0.23
42 2 0.02
43 70 0.66
44 3 0.03
45 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (43 bp):
GAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACCC
Found at i:30595761 original size:30 final size:30
Alignment explanation
Indices: 30595619--30595869 Score: 231
Period size: 30 Copynumber: 8.4 Consensus size: 30
30595609 ATACGGGATC
* * * *
30595619 AAAACGTAAATTTGGAAAAGTTTAAGGGGTG
1 AAAATGTAATTTTAGAAAAGTTT-AGGGGTT
* * * * *
30595650 AGAATGTAATTTTAGGAAAGCTT-GGGATC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* *
30595679 AAAATGTGATTTTGGAGAAAG-TTA-GGGTT
1 AAAATGTAATTTTAGA-AAAGTTTAGGGGTT
* * *
30595708 -AAATGTGATTTCAGAGAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* * *
30595737 AAAATGCAATTTTGGAAAATTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
*
30595767 AAAATGTAATTTTAGAAAATTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* * * *
30595797 AAAATGTAATTTTAGAGAAGTTCAAGTGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
* *
30595827 AAAATGTAATTTTTGAGAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTT
*
30595857 AAAATGTGATTTT
1 AAAATGTAATTTT
30595870 TGGAAGTTCA
Statistics
Matches: 180, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
27 3 0.02
28 16 0.09
29 26 0.14
30 118 0.66
31 17 0.09
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTT
Found at i:30597311 original size:29 final size:28
Alignment explanation
Indices: 30597245--30597440 Score: 160
Period size: 29 Copynumber: 6.8 Consensus size: 28
30597235 CATATTTCGA
* *
30597245 CCCCTAAACTTTTTCAAAATTTCA-TTTT
1 CCCCTAAAC-TTTTAAAAATTACATTTTT
*
30597273 CACCCTTAAACTTTTGAAAAATTATATTTTT
1 C-CCC-TAAACTTTT-AAAAATTACATTTTT
** *
30597304 CCCCTAAACTTCCAAAAATTACATTTTG
1 CCCCTAAACTTTTAAAAATTACATTTTT
* ** *
30597332 CCCCTTAACTTCCAAAAATTGCATTTTT
1 CCCCTAAACTTTTAAAAATTACATTTTT
* * * *
30597360 GCCCTTAAACTTCTAAAAATCACATTCTTG
1 -CCCCTAAACTTTTAAAAATTACATT-TTT
*
30597390 CCCCTAAACTTTTAAAAATCACATTTTT
1 CCCCTAAACTTTTAAAAATTACATTTTT
**
30597418 ACCCCTAAAACTTTCCAAAATTA
1 -CCCCT-AAACTTTTAAAAATTA
30597441 TGTTTTAACC
Statistics
Matches: 138, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
28 41 0.30
29 62 0.45
30 30 0.22
31 5 0.04
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
CCCCTAAACTTTTAAAAATTACATTTTT
Found at i:30597338 original size:58 final size:58
Alignment explanation
Indices: 30597260--30597437 Score: 193
Period size: 58 Copynumber: 3.1 Consensus size: 58
30597250 AAACTTTTTC
* *
30597260 AAAATTTCATTTT-CACCCTTAAACTTTTGAAAAATTATATTTTT-CCCCTAAACTTCCA
1 AAAATTACATTTTGC-CCCTTAAACTTTT-AAAAATTACATTTTTACCCCTAAACTTCCA
** * * * *
30597318 AAAATTACATTTTGCCCCTT-AACTTCCAAAAATTGCATTTTTGCCCTTAAACTTCTA
1 AAAATTACATTTTGCCCCTTAAACTTTTAAAAATTACATTTTTACCCCTAAACTTCCA
* *
30597375 AAAATCACATTCTTGCCCC-TAAACTTTTAAAAATCACATTTTTACCCCTAAAACTTTCCA
1 AAAATTACATT-TTGCCCCTTAAACTTTTAAAAATTACATTTTTACCCCT-AAAC-TTCCA
30597435 AAA
1 AAA
30597438 TTATGTTTTA
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
56 13 0.13
57 28 0.28
58 46 0.46
59 5 0.05
60 7 0.07
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (58 bp):
AAAATTACATTTTGCCCCTTAAACTTTTAAAAATTACATTTTTACCCCTAAACTTCCA
Found at i:30597438 original size:30 final size:29
Alignment explanation
Indices: 30597218--30597438 Score: 112
Period size: 29 Copynumber: 7.6 Consensus size: 29
30597208 CAGAAGGTCT
* * *
30597218 CTAAACTGTACAAAAATCATATT-TCGACCC
1 CTAAACT-TTCAAAAATCACATTCT-TACCC
**
30597248 CTAAACTTTTTC-AAAATTTCATT-TTCACCC
1 CTAAAC--TTTCAAAAATCACATTCTT-ACCC
* * * * *
30597278 TTAAACTTTTGAAAAATTATATT-TTTCCC
1 CTAAAC-TTTCAAAAATCACATTCTTACCC
* * *
30597307 CTAAACTTCCAAAAATTACATT-TTGCCC
1 CTAAACTTTCAAAAATCACATTCTTACCC
* * ** * *
30597335 CTTAACTTCCAAAAATTGCATTTTTGCCC
1 CTAAACTTTCAAAAATCACATTCTTACCC
* *
30597364 TTAAAC-TTCTAAAAATCACATTCTTGCCC
1 CTAAACTTTC-AAAAATCACATTCTTACCC
* *
30597393 CTAAACTTTTAAAAATCACATTTTTACCC
1 CTAAACTTTCAAAAATCACATTCTTACCC
*
30597422 CTAAAACTTTCCAAAAT
1 CT-AAACTTTCAAAAAT
30597439 TATGTTTTAA
Statistics
Matches: 154, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
28 40 0.26
29 62 0.40
30 49 0.32
31 2 0.01
32 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
CTAAACTTTCAAAAATCACATTCTTACCC
Found at i:30597655 original size:19 final size:19
Alignment explanation
Indices: 30597631--30597671 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30597621 AACTTTATCA
30597631 TTAA-TTGCATAGCTCATAT
1 TTAATTTGCAT-GCTCATAT
*
30597650 TTAATTTGCATGCTCATTT
1 TTAATTTGCATGCTCATAT
30597669 TTA
1 TTA
30597672 TCTCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (19 bp):
TTAATTTGCATGCTCATAT
Found at i:30597888 original size:97 final size:97
Alignment explanation
Indices: 30597722--30598012 Score: 501
Period size: 97 Copynumber: 3.0 Consensus size: 97
30597712 AAAATATTTA
* *
30597722 AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTCGTGCCTTAACTTACTAGGCGCAAT
1 AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCAAC
*
30597787 TTTTCTTCAAACTGGGATAATCGAATACCCTT
66 TTTTCTTCAAACCGGGATAATCGAATACCCTT
* *
30597819 AAATCGAGGCAATATTCCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC
1 AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCAAC
*
30597884 TTTTCTTCAAACCGGGATAATCGAATACCTTT
66 TTTTCTTCAAACCGGGATAATCGAATACCCTT
* * *
30597916 AAATCAAGGAAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCCCAAC
1 AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCAAC
30597981 TTTTCTTCAAACCGGGATAATCGAATACCCTT
66 TTTTCTTCAAACCGGGATAATCGAATACCCTT
30598013 TTCAAGGTTA
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 182 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCAAC
TTTTCTTCAAACCGGGATAATCGAATACCCTT
Found at i:30600018 original size:35 final size:35
Alignment explanation
Indices: 30599979--30600137 Score: 120
Period size: 35 Copynumber: 4.4 Consensus size: 35
30599969 CAGTTAATCT
30599979 GACTAGTGCTGGGCACATAAATCGTCGGTTTATCC
1 GACTAGTGCTGGGCACATAAATCGTCGGTTTATCC
* * ** *
30600014 GACTAGTGCTGGGCTCAAAAATAATTGGTTTATCC
1 GACTAGTGCTGGGCACATAAATCGTCGGTTTATCC
* * * * * * *
30600049 AATTAGAGCTGGGCTCACCTTTTATATCGTCAGTTTATCT
1 GACTAGTGCTGGG--CA-C--ATAAATCGTCGGTTTATCC
* * * *
30600089 GACTAGTGCTGGGCACACAACTTGTCGGTTTATCT
1 GACTAGTGCTGGGCACATAAATCGTCGGTTTATCC
*
30600124 GACTAGCGCTGGGC
1 GACTAGTGCTGGGC
30600138 GCAATATTTA
Statistics
Matches: 92, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
35 66 0.72
37 2 0.02
38 3 0.03
40 21 0.23
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (35 bp):
GACTAGTGCTGGGCACATAAATCGTCGGTTTATCC
Found at i:30600135 original size:75 final size:75
Alignment explanation
Indices: 30599999--30600137 Score: 170
Period size: 75 Copynumber: 1.9 Consensus size: 75
30599989 GGGCACATAA
* * * *
30599999 ATCGTCGGTTTATCCGACTAGTGCTGGGCTCAAAAATAATTGGTTTATCCAATTAGAGCTGGGCT
1 ATCGTCAGTTTATCCGACTAGTGCTGGGCACAAAAATAATCGGTTTATCCAACTAGAGCTGGGCT
30600064 CACCTTTTAT
66 CACCTTTTAT
* * * ** ** *
30600074 ATCGTCAGTTTATCTGACTAGTGCTGGGCACACAACTTGTCGGTTTATCTGACTAGCGCTGGGC
1 ATCGTCAGTTTATCCGACTAGTGCTGGGCACAAAAATAATCGGTTTATCCAACTAGAGCTGGGC
30600138 GCAATATTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 52 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (75 bp):
ATCGTCAGTTTATCCGACTAGTGCTGGGCACAAAAATAATCGGTTTATCCAACTAGAGCTGGGCT
CACCTTTTAT
Found at i:30600166 original size:110 final size:110
Alignment explanation
Indices: 30599965--30600212 Score: 343
Period size: 110 Copynumber: 2.3 Consensus size: 110
30599955 GGCATAATCT
* * * *
30599965 TCATCAGTTAATCTGACTAGTGCTGGGCACATAAATCGTCGGTTTATCCGACTAGTGCTGGGCTC
1 TCATCAGTTTATCTGACTAGTGCTGGGCACACAAATCGTCGGTTTATCCGACTAGCGCTGGGCGC
* * *
30600030 AAAAATAATTGGTTTATCCAATTAGAGCTGGGCTCACCTTTTATA
66 AAAAATAATTGGTATATCCAACTAGAGCAGGGCTCACCTTTTATA
* * * *
30600075 TCGTCAGTTTATCTGACTAGTGCTGGGCACACAACTTGTCGGTTTATCTGACTAGCGCTGGGCGC
1 TCATCAGTTTATCTGACTAGTGCTGGGCACACAAATCGTCGGTTTATCCGACTAGCGCTGGGCGC
* * * *
30600140 AATATTTATTGGTATATCCAACTAGAGCAGGGCTTACCTTTTATA
66 AAAAATAATTGGTATATCCAACTAGAGCAGGGCTCACCTTTTATA
* *
30600185 TCATCGGTTTATCCGACTAGTGCTGGGC
1 TCATCAGTTTATCTGACTAGTGCTGGGC
30600213 GCAAATTCTT
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 120 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (110 bp):
TCATCAGTTTATCTGACTAGTGCTGGGCACACAAATCGTCGGTTTATCCGACTAGCGCTGGGCGC
AAAAATAATTGGTATATCCAACTAGAGCAGGGCTCACCTTTTATA
Found at i:30602430 original size:12 final size:12
Alignment explanation
Indices: 30602413--30602453 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
30602403 TCAAACAACC
30602413 TTCTTTTTCCTT
1 TTCTTTTTCCTT
*
30602425 TTCTTTTCCCTT
1 TTCTTTTTCCTT
*
30602437 TTCCTTTTTCTTT
1 TT-CTTTTTCCTT
30602450 TTCT
1 TTCT
30602454 CTCTTCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTCTTTTTCCTT
Found at i:30607022 original size:34 final size:34
Alignment explanation
Indices: 30606978--30607070 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
30606968 CTTTTCATCT
* *
30606978 TTTAACCTTCCATCTTCCTTAACTTCCTTTGACC
1 TTTAATCTTCCATCTTCCTTAACTTCCCTTGACC
*
30607012 TTTAATCTTCCATCTTCCTTAACTTCCCTTGATC
1 TTTAATCTTCCATCTTCCTTAACTTCCCTTGACC
*
30607046 TTTAATCTTCTATCTTCCTTAACTT
1 TTTAATCTTCCATCTTCCTTAACTT
30607071 TTCATATTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.18, C:0.31, G:0.02, T:0.48
Consensus pattern (34 bp):
TTTAATCTTCCATCTTCCTTAACTTCCCTTGACC
Found at i:30612521 original size:34 final size:34
Alignment explanation
Indices: 30612483--30612575 Score: 159
Period size: 34 Copynumber: 2.7 Consensus size: 34
30612473 CCTTTCATCT
*
30612483 TTTAACCTTCCATCTTCCTTAACTTCCTTTGACC
1 TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
* *
30612517 TTTAACCTTCCATCTTCCTTAACCTCCCTTGATC
1 TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
30612551 TTTAACCTTCCATCTTCCTTAACTT
1 TTTAACCTTCCATCTTCCTTAACTT
30612576 TTCATATTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.44
Consensus pattern (34 bp):
TTTAACCTTCCATCTTCCTTAACTTCCCTTGACC
Found at i:30612538 original size:17 final size:17
Alignment explanation
Indices: 30612471--30612573 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
30612461 ATGGATGTTC
*
30612471 AACCTTTCATCTT--TT
1 AACCTTCCATCTTCCTT
30612486 AACCTTCCATCTTCCTT
1 AACCTTCCATCTTCCTT
30612503 AA-CTTCC-T-TTGACCTTT
1 AACCTTCCATCTT--CC-TT
30612520 AACCTTCCATCTTCCTT
1 AACCTTCCATCTTCCTT
* * ** *
30612537 AACCTCCCTTGATCTTT
1 AACCTTCCATCTTCCTT
30612554 AACCTTCCATCTTCCTT
1 AACCTTCCATCTTCCTT
30612571 AAC
1 AAC
30612574 TTTTCATATT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
14 2 0.03
15 13 0.19
16 7 0.10
17 37 0.54
18 7 0.10
19 1 0.01
20 2 0.03
ACGTcount: A:0.19, C:0.36, G:0.02, T:0.43
Consensus pattern (17 bp):
AACCTTCCATCTTCCTT
Found at i:30613222 original size:29 final size:27
Alignment explanation
Indices: 30613148--30613232 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 27
30613138 ATTTTTTAAA
30613148 ATTTTAAAAATTAAAAAATATAAAAATT
1 ATTTTAAAAATT-AAAAATATAAAAATT
** *
30613176 ATTTTTATTAATTAAAAATCATTAAAATT
1 A-TTTTAAAAATTAAAAAT-ATAAAAATT
30613205 ATTTTAAAAAGTATAAAAATTATAAAAA
1 ATTTTAAAAA-T-TAAAAA-TATAAAAA
30613233 AATAAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 14 0.30
29 19 0.41
30 12 0.26
31 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
ATTTTAAAAATTAAAAATATAAAAATT
Found at i:30618936 original size:29 final size:29
Alignment explanation
Indices: 30618871--30618936 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
30618861 AAAAAAATCT
*
30618871 AAATTTTTTTTTTAATTTTTAATGAGCTC
1 AAATTTTTTTTTTAATTTTTAATGAGCTA
* * *
30618900 AAACTTTTTTTTAAATTTTT-AT-AGGTTA
1 AAATTTTTTTTTTAATTTTTAATGA-GCTA
30618928 AAATTTTTT
1 AAATTTTTT
30618937 ATCAACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.03
28 12 0.39
29 18 0.58
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (29 bp):
AAATTTTTTTTTTAATTTTTAATGAGCTA
Found at i:30624271 original size:18 final size:18
Alignment explanation
Indices: 30624248--30624304 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
30624238 AAAAGCAATC
30624248 AAACATAATCAAAGTAAA
1 AAACATAATCAAAGTAAA
** * **
30624266 AAACAT-CCCAAAGCATTT
1 AAACATAATCAAAGTA-AA
30624284 AAACATAATCAAAGTAAA
1 AAACATAATCAAAGTAAA
30624302 AAA
1 AAA
30624305 ACATCCCAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
17 6 0.22
18 15 0.56
19 6 0.22
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (18 bp):
AAACATAATCAAAGTAAA
Found at i:30624288 original size:36 final size:37
Alignment explanation
Indices: 30624239--30624325 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
30624229 TGTTGAACCA
30624239 AAAGCAATCAAACATAATCAAAGT-AAAAAACATCCC
1 AAAGCAATCAAACATAATCAAAGTAAAAAAACATCCC
* *
30624275 AAAGCATTTAAACATAATCAAAGTAAAAAAACATCCC
1 AAAGCAATCAAACATAATCAAAGTAAAAAAACATCCC
*
30624312 AAAGCAACCAAACA
1 AAAGCAATCAAACA
30624326 AGAAAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 22 0.49
37 23 0.51
ACGTcount: A:0.59, C:0.22, G:0.06, T:0.14
Consensus pattern (37 bp):
AAAGCAATCAAACATAATCAAAGTAAAAAAACATCCC
Found at i:30647193 original size:158 final size:158
Alignment explanation
Indices: 30646958--30647379 Score: 630
Period size: 158 Copynumber: 2.7 Consensus size: 158
30646948 TTGGTTGCGA
* *
30646958 ATTCTCCACAGCTCGTGTGAGCAGCGTCGCGTAGCCTAACATCTCAACCCACAGCTCGTGTGAGC
1 ATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
* *
30647023 AGGCCCATTTCACAGCTTGTGTGAGTATTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACC
66 AGGCCCATTTCACAGCTCGTGTGAGCATTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACC
* * *
30647088 GATGGCTGAGGTCCGACATTTATTACGG
131 AATGGCTAAGGTCCGACATTGATTACGG
* *
30647116 ATTCTCCACAGCTCGTGTAAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGT
1 ATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
* * *
30647181 AGGCCTATTTCACAGCTCATGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACC
66 AGGCCCATTTCACAGCTCGTGTGAGCATTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACC
**
30647246 AATGGCTAAGGTCCGACATTGATTGTGG
131 AATGGCTAAGGTCCGACATTGATTACGG
* * * * * * *
30647274 ATTCCCCACAACTCGTGTGAGCAGCATTGTGTAGCCTCACATCTCGACCCACAACTCGTGTGAAC
1 ATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
*
30647339 AGGCCCATTTCACAGCTCGTGTGAGCATATA-TGGTTATATG
66 AGGCCCATTTCACAGCTCGTGTGAGCAT-TACAGGTTATATG
30647380 TTATAGTCAC
Statistics
Matches: 237, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
158 235 0.99
159 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (158 bp):
ATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
AGGCCCATTTCACAGCTCGTGTGAGCATTACAGGTTATATGGGTGCTGATCTTAGATGTCCTACC
AATGGCTAAGGTCCGACATTGATTACGG
Found at i:30647745 original size:14 final size:14
Alignment explanation
Indices: 30647726--30647783 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
30647716 AATTGAGACA
30647726 TTGAATATAAATAT
1 TTGAATATAAATAT
* *
30647740 TTGAAT-TGAGACA-
1 TTGAATAT-AAATAT
30647753 TTGAATATAAATAT
1 TTGAATATAAATAT
30647767 TTGAATATAAATAT
1 TTGAATATAAATAT
30647781 TTG
1 TTG
30647784 GTTTATATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 10 0.27
14 27 0.73
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (14 bp):
TTGAATATAAATAT
Found at i:30647745 original size:27 final size:27
Alignment explanation
Indices: 30647713--30647772 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
30647703 CAAATATGTG
30647713 TTGAATTGAGACATTGAATATAAATAT
1 TTGAATTGAGACATTGAATATAAATAT
30647740 TTGAATTGAGACATTGAATATAAATAT
1 TTGAATTGAGACATTGAATATAAATAT
30647767 TTGAAT
1 TTGAAT
30647773 ATAAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.38
Consensus pattern (27 bp):
TTGAATTGAGACATTGAATATAAATAT
Found at i:30650851 original size:15 final size:15
Alignment explanation
Indices: 30650833--30650864 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30650823 TTGAATTATC
30650833 AATTTTGCAATTAGA
1 AATTTTGCAATTAGA
30650848 AATTTTGCAATTAGA
1 AATTTTGCAATTAGA
30650863 AA
1 AA
30650865 CACCAGGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (15 bp):
AATTTTGCAATTAGA
Found at i:30654303 original size:21 final size:20
Alignment explanation
Indices: 30654270--30654313 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
30654260 TTTGTGCTTA
30654270 CAAAAAAAATATCGATAC-C
1 CAAAAAAAATATCGATACTC
30654289 CAAAACAAAATTATCGATACTC
1 CAAAA-AAAA-TATCGATACTC
30654311 CAA
1 CAA
30654314 GGAAATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 9 0.41
22 4 0.18
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (20 bp):
CAAAAAAAATATCGATACTC
Found at i:30654687 original size:308 final size:311
Alignment explanation
Indices: 30654249--30654878 Score: 1045
Period size: 308 Copynumber: 2.0 Consensus size: 311
30654239 ATATTTTGTT
*
30654249 AATATTTAGAATTTGTGCTTACAAAAAAAATATCGATACCCAAAACAAAATTATCGATACTCCAA
1 AATATTTAGAATCTGTGCTTACAAAAAAAATATCGATACCCAAAACAAAATTATCGATACTCCAA
*
30654314 GGAAATTTGGTAAACTTATATTTTTCAAAGTTGCAACTTTTAGCTAGTCTCCAAATGACTCAAAG
66 GGAAATTTGGTAAACTTATATTTTTCAAAGTTGCAACTTTTACCTAGTCTCCAAATGACTCAAAG
*
30654379 CTTAACATAAATGCATCTAGAAACAAGTTAAATTCAAACCTACACTAAAATCAACTAATTTGATC
131 CTTAACATAAATGCATCTAGAAACAAGTCAAATTCAAACCTACACTAAAATCAACTAATTTGATC
30654444 TCCCATCAATAAATCACTCTAAATACCTCATACTTAGACATTTAAGCATAGAAATCATTCAAC-T
196 TCCCATCAAT-AATCACTCTAAATACCTCATACTTAGACATTTAAGCATAGAAATCATTCAACAT
*
30654508 ATA-A-ATATATACTGCCATCATGAGGACTACTAGTATCATATTCACACATC
260 ATATATATATATACTACCATCATGAGGACTACTAGTATCATATTCACACATC
*
30654558 AATATTTAGAATCTGTGCTTAC-AAAAAAATATCGATA-CCAAAACAAAATTATCGATACTCCGA
1 AATATTTAGAATCTGTGCTTACAAAAAAAATATCGATACCCAAAACAAAATTATCGATACTCCAA
* *
30654621 GGAAATTTGGTAAAACTTATATTTTTCAAAGTTGCAACTTTTACCTAGTCTCTAAATGATTCAAA
66 GGAAATTTGGT-AAACTTATATTTTTCAAAGTTGCAACTTTTACCTAGTCTCCAAATGACTCAAA
*
30654686 GCTTAACATAAATGCATCTAGAAACATGTCAAATTCAAACCTACACTAAAATCAACTAATTTGAT
130 GCTTAACATAAATGCATCTAGAAACAAGTCAAATTCAAACCTACACTAAAATCAACTAATTTGAT
*
30654751 CTCTCATCAATAATCACTCTAAATACCTCATACTTAGACATTTAAGCATAGAAATCATTCAACTA
195 CTCCCATCAATAATCACTCTAAATACCTCATACTTAGACATTTAAGCATAGAAATCATTCAAC--
* *
30654816 GATATATATATATATATATACTACCATCATGAGGACTATTAGTATCATATTCATACATC
258 -----ATATATATATATATACTACCATCATGAGGACTACTAGTATCATATTCACACATC
30654875 AATA
1 AATA
30654879 CGTTCTTAAC
Statistics
Matches: 299, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
307 88 0.29
308 138 0.46
309 21 0.07
315 4 0.01
316 1 0.00
317 47 0.16
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (311 bp):
AATATTTAGAATCTGTGCTTACAAAAAAAATATCGATACCCAAAACAAAATTATCGATACTCCAA
GGAAATTTGGTAAACTTATATTTTTCAAAGTTGCAACTTTTACCTAGTCTCCAAATGACTCAAAG
CTTAACATAAATGCATCTAGAAACAAGTCAAATTCAAACCTACACTAAAATCAACTAATTTGATC
TCCCATCAATAATCACTCTAAATACCTCATACTTAGACATTTAAGCATAGAAATCATTCAACATA
TATATATATATACTACCATCATGAGGACTACTAGTATCATATTCACACATC
Found at i:30656033 original size:20 final size:21
Alignment explanation
Indices: 30656001--30656040 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
30655991 TAGTTACGGA
*
30656001 ATTAAATACACAACATATTTC
1 ATTAAATACACAACAAATTTC
30656022 ATTAAA-ACACAACAAATTT
1 ATTAAATACACAACAAATTT
30656041 TATTTTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTAAATACACAACAAATTTC
Found at i:30673057 original size:51 final size:51
Alignment explanation
Indices: 30672984--30673320 Score: 433
Period size: 51 Copynumber: 6.6 Consensus size: 51
30672974 TAAACGAAAG
30672984 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
*
30673035 GGTCCGATGACTAAGAGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * *
30673086 GGTCTGATGACTAAGAGTCATCGTGAGTAAATGAATACTTTACGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
*
30673137 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * *** * * * * *
30673188 GGTCCAATGACTAAGTGTCATCTTGAGTAAATTTTTCCATGATGAATTAAG
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * * ** *
30673239 GGTCCGATGACTCAGTGTCATCGTGAGTATATGAATTCCTATACGGAACAAG
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAAA
* *
30673291 GGCTCCAATGACTATA-CGTCATCGTGAGTA
1 GG-TCCGATGACTA-AGTGTCATCGTGAGTA
30673321 TTAAATGCAA
Statistics
Matches: 248, Mismatches: 35, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
51 214 0.86
52 11 0.04
53 22 0.09
54 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
Found at i:30675047 original size:21 final size:21
Alignment explanation
Indices: 30675021--30675066 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30675011 AGTTTTATCG
30675021 ATACAAGT-ATAAATTCTACCA
1 ATACAAGTCATAAA-TCTACCA
**
30675042 ATACAAGTCATGCATCTACCA
1 ATACAAGTCATAAATCTACCA
30675063 ATAC
1 ATAC
30675067 TAAAAACTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (21 bp):
ATACAAGTCATAAATCTACCA
Found at i:30682446 original size:21 final size:21
Alignment explanation
Indices: 30682417--30682491 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
30682407 GGAGTTTTTA
*
30682417 GTATCGGTAGAAGTA-AGACTT
1 GTATCGGTAGAAG-AGACACTT
*
30682438 GTTTCGGTAGAAGAGACACTT
1 GTATCGGTAGAAGAGACACTT
** *
30682459 GTATCGGTAGAACTGTCACTT
1 GTATCGGTAGAAGAGACACTT
*
30682480 GTATTGGTAGAA
1 GTATCGGTAGAA
30682492 TTCTACACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGAGACACTT
Found at i:30683351 original size:171 final size:170
Alignment explanation
Indices: 30683015--30683362 Score: 429
Period size: 171 Copynumber: 2.0 Consensus size: 170
30683005 TCACAATGAC
*
30683015 ATAATTTATGCCACGTGTCACAATATTATAAAGCCACGGTGTCCCAAACTTAACGACGTTAGATT
1 ATAATTTATGCCACATGTCACAATATTATAAAGCCACGGTGTCCCAAACTTAACGACGTTAGATT
* * * * *
30683080 CAGATATCAAACTAGTGGACGAAAAAAAATTAGGGTACCAATCTTGGACAAAGAAAATTATAAGT
66 CAGACACCAAACCAGTGGACAAAAAAAAATTAGGGTACCAATCTTGGACAAAGAAAACTATAAGT
* * * *
30683145 ACCAATATGGGAGAAGTGGACAAGTTTAGGTACTAATTTT
131 ACCAATATAGGAGAAATAGACAAGTTCAGGTACTAATTTT
* * *
30683185 ATAA-TTATGCCACATGTCACAATATTAGT-ATGCCAC-GTGTCCCAGACTTAACGATGTTTTAG
1 ATAATTTATGCCACATGTCACAATATTA-TAAAGCCACGGTGTCCCAAACTTAACGACG--TTAG
* * *
30683247 ATTTAGGCACCAAACCAGTGGACAAAAAAAAAAGTTCGGGTACCAATC-TGAGACAAA-AAAACT
63 ATTCAGACACCAAACCAGTGGAC-AAAAAAAAA-TTAGGGTACCAATCTTG-GACAAAGAAAACT
* * *
30683310 ATAGGTACCAATCTAGGAGAAATAGACAAGTTCATGTACTAATTTT
125 ATAAGTACCAATATAGGAGAAATAGACAAGTTCAGGTACTAATTTT
30683356 AT-ATTTA
1 ATAATTTA
30683363 AGCCTAATAT
Statistics
Matches: 152, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
168 18 0.12
169 28 0.18
170 28 0.18
171 59 0.39
172 19 0.12
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (170 bp):
ATAATTTATGCCACATGTCACAATATTATAAAGCCACGGTGTCCCAAACTTAACGACGTTAGATT
CAGACACCAAACCAGTGGACAAAAAAAAATTAGGGTACCAATCTTGGACAAAGAAAACTATAAGT
ACCAATATAGGAGAAATAGACAAGTTCAGGTACTAATTTT
Found at i:30685355 original size:15 final size:15
Alignment explanation
Indices: 30685335--30685363 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30685325 ACATGAATTA
30685335 AAAATAAAATATTTG
1 AAAATAAAATATTTG
30685350 AAAATAAAATATTT
1 AAAATAAAATATTT
30685364 ATTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATAAAATATTTG
Found at i:30686080 original size:3 final size:3
Alignment explanation
Indices: 30686072--30686138 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
30686062 GCTAATATAG
30686072 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30686120 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
30686139 TATGTCTTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30686372 original size:16 final size:16
Alignment explanation
Indices: 30686321--30686389 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 16
30686311 ACCTTAATGT
* *
30686321 TAGCTCGCCACCCTAC
1 TAGCTCGCCACTCTGC
* * *
30686337 TAGCTCACCTCAT-TAC
1 TAGCTCGCCAC-TCTGC
*
30686353 TAGCTCGCCACTCTGG
1 TAGCTCGCCACTCTGC
*
30686369 TAGCTCGTCACTCTGC
1 TAGCTCGCCACTCTGC
30686385 TAGCT
1 TAGCT
30686390 TGTGAGGTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
15 1 0.02
16 41 0.98
ACGTcount: A:0.17, C:0.39, G:0.16, T:0.28
Consensus pattern (16 bp):
TAGCTCGCCACTCTGC
Found at i:30687393 original size:18 final size:17
Alignment explanation
Indices: 30687354--30687407 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
30687344 CCTATTAAAG
30687354 AAATAAAATACAAGTAA
1 AAATAAAATACAAGTAA
30687371 AAATAAAATAC-AGTGATA
1 AAATAAAATACAAGT-A-A
*
30687389 AAATAAAATAAAAGTAA
1 AAATAAAATACAAGTAA
30687406 AA
1 AA
30687408 TCCAAATAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 12 0.36
19 3 0.09
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.19
Consensus pattern (17 bp):
AAATAAAATACAAGTAA
Found at i:30690203 original size:49 final size:50
Alignment explanation
Indices: 30690132--30690229 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 50
30690122 TCCAAATAGA
*
30690132 ACTACACTTTTTTTTCTTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTTTTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
30690182 ACTACAC-TTTTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCT
1 ACTACACTTTTTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCT
30690230 ATAAATAGAC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 40 0.85
50 7 0.15
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (50 bp):
ACTACACTTTTTTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
Found at i:30693898 original size:17 final size:18
Alignment explanation
Indices: 30693861--30693913 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
30693851 AAATTAAAAT
*
30693861 TTAATATAAAGATAATAATA
1 TTAATA-AAA-ATATTAATA
*
30693881 TTAATTAAAAT-TTAATA
1 TTAATAAAAATATTAATA
*
30693898 TTCATAAAAATATTAA
1 TTAATAAAAATATTAA
30693914 ACATTACCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.50
18 6 0.21
19 3 0.11
20 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAATAAAAATATTAATA
Found at i:30717054 original size:31 final size:31
Alignment explanation
Indices: 30717010--30717115 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 31
30717000 CTTAAATAAG
*
30717010 ATTTGATACTTAAACTTGATACTTTTTCTTA
1 ATTTGGTACTTAAACTTGATACTTTTTCTTA
* *
30717041 ATTTTGTACTTAAACTT--T--TTTTAT-TCA
1 ATTTGGTACTTAAACTTGATACTTTT-TCTTA
* * *
30717068 ATTTGGTACTTGAATTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGATACTTTTTCTTA
*
30717099 ATTTGGTACCTAAACTT
1 ATTTGGTACTTAAACTT
30717116 TTTTGTGCCC
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
27 20 0.34
28 1 0.02
29 1 0.02
30 1 0.02
31 35 0.60
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.52
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGATACTTTTTCTTA
Found at i:30717100 original size:58 final size:58
Alignment explanation
Indices: 30717010--30717203 Score: 190
Period size: 58 Copynumber: 3.2 Consensus size: 58
30717000 CTTAAATAAG
* * *
30717010 ATTTGATACTTAAACTTGATACTTTTTCTTAATTTTGTACTTAAACTTTTTTTATTCA
1 ATTTGATACTTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTATTCA
* * * ***
30717068 ATTTGGTACTTGAATTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTGTGCCCA
1 ATTTGATACTTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTT-TATTCA
* * * * * *
30717127 ATTTGATACCTGAACTTGGCATTCTTTTTCCTAATTTGGTATCTAAGCTTTTTTTTAGATTCA
1 ATTTGATACTTAAACTTGACA--CTTTTTCTTAATTTGGTACCTAAAC-TTTTTTT--ATTCA
*
30717190 ATTTGATACCTAAA
1 ATTTGATACTTAAA
30717204 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
58 46 0.42
59 20 0.18
61 23 0.21
62 6 0.05
63 15 0.14
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (58 bp):
ATTTGATACTTAAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTATTCA
Found at i:30717441 original size:31 final size:31
Alignment explanation
Indices: 30717403--30717490 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
30717393 GGACCTCAAA
* *
30717403 AAGTTTAAGTACCAACTTAAAAAAAAG-AGTT
1 AAGTTTAAGTACCAAATTAAAAAAAAGTA-TC
*
30717434 AAGTTTAAGTACCAAATTAAGAAAAAGTATC
1 AAGTTTAAGTACCAAATTAAAAAAAAGTATC
* *
30717465 AAGTTTGAGTACTAAATTAAAAAAAA
1 AAGTTTAAGTACCAAATTAAAAAAAA
30717491 ATTTAGACAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 49 0.98
32 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAAAAAAAGTATC
Found at i:30718205 original size:29 final size:27
Alignment explanation
Indices: 30718163--30718217 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
30718153 CTCAACTCTC
30718163 TGTTCTCACAATTTGATTCTCAATTTTCT
1 TGTTCTCACAATTT--TTCTCAATTTTCT
*
30718192 TGTTCTCA-ATATTTTTCTTAATTTTC
1 TGTTCTCACA-ATTTTTCTCAATTTTC
30718218 AATTCTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.46
28 1 0.04
29 12 0.50
ACGTcount: A:0.20, C:0.18, G:0.05, T:0.56
Consensus pattern (27 bp):
TGTTCTCACAATTTTTCTCAATTTTCT
Found at i:30723733 original size:31 final size:30
Alignment explanation
Indices: 30723626--30723750 Score: 121
Period size: 29 Copynumber: 4.2 Consensus size: 30
30723616 GACCCTTGAT
* *
30723626 CTTTT-TAAAAATTGTACTTTGACCCC-AA
1 CTTTTCTAAAAATTGCATTTTGACCCCAAA
* *
30723654 CCTTTCTAAAAATTGCATTTTGACACCAAA
1 CTTTTCTAAAAATTGCATTTTGACCCCAAA
* *
30723684 C-TTTCTCAAACTTGCATTTTGACCCCCAAA
1 CTTTTCTAAAAATTGCATTTTGA-CCCCAAA
* * *
30723714 CTTTTCTAAAATTTACATTTTAACCCCTAAA
1 CTTTTCTAAAAATTGCATTTTGACCCC-AAA
*
30723745 ATTTTC
1 CTTTTC
30723751 AAATCTTGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
28 4 0.05
29 37 0.46
30 14 0.17
31 25 0.31
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
CTTTTCTAAAAATTGCATTTTGACCCCAAA
Found at i:30723753 original size:60 final size:59
Alignment explanation
Indices: 30723643--30723769 Score: 143
Period size: 60 Copynumber: 2.2 Consensus size: 59
30723633 AAAATTGTAC
* * *
30723643 TTTGA-CCCCAACCTTTCTAAAAATTGCATTTTGACACCAAACTTTCTCAAA-CTTGCAT
1 TTTGACCCCCAACCTTTCTAAAAATTACATTTTAACACCAAAATTTCTCAAATCTTG-AT
* * * *
30723701 TTTGACCCCCAAACTTTTCTAAAATTTACATTTTAACCCCTAAAATTT-TCAAATCTTGTT
1 TTTGACCCCC-AACCTTTCTAAAAATTACATTTTAACACC-AAAATTTCTCAAATCTTGAT
30723761 TTTGACCCC
1 TTTGACCCC
30723770 TTTTTTCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 5 0.09
59 4 0.07
60 39 0.67
61 10 0.17
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (59 bp):
TTTGACCCCCAACCTTTCTAAAAATTACATTTTAACACCAAAATTTCTCAAATCTTGAT
Found at i:30723967 original size:29 final size:29
Alignment explanation
Indices: 30723930--30723990 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
30723920 ATTTTTTAAA
*
30723930 TTTCATCCTCATACGTTTTTAAATTATAT
1 TTTCATCCTCATACATTTTTAAATTATAT
* *
30723959 TTTCGTCCTCATGCATTTTTAAATTATAT
1 TTTCATCCTCATACATTTTTAAATTATAT
30723988 TTT
1 TTT
30723991 TTTCTTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTCATCCTCATACATTTTTAAATTATAT
Found at i:30727404 original size:24 final size:24
Alignment explanation
Indices: 30727372--30727426 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
30727362 GATCTTCAAC
30727372 AATAGATGAATCTACAAAATAGTA
1 AATAGATGAATCTACAAAATAGTA
30727396 AATAGATGAATCTACAAAATAGTA
1 AATAGATGAATCTACAAAATAGTA
30727420 AATAGAT
1 AATAGAT
30727427 ACAAAATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (24 bp):
AATAGATGAATCTACAAAATAGTA
Found at i:30727608 original size:24 final size:24
Alignment explanation
Indices: 30727538--30727609 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
30727528 TCATTCAAGC
* *
30727538 CCAGATAAAATTAGCTCATACGAGC
1 CCAGAT-AAGTTAGCTCATACGAGA
* * **
30727563 CCAGATAGGTTACCTCCCACGAGA
1 CCAGATAAGTTAGCTCATACGAGA
*
30727587 CCAGATAAGTTAGCTCTTACGAG
1 CCAGATAAGTTAGCTCATACGAG
30727610 CCTAGAATCA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 31 0.84
25 6 0.16
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (24 bp):
CCAGATAAGTTAGCTCATACGAGA
Found at i:30727651 original size:27 final size:27
Alignment explanation
Indices: 30727599--30727761 Score: 245
Period size: 27 Copynumber: 6.0 Consensus size: 27
30727589 AGATAAGTTA
*
30727599 GCTCTTACGAGCCTAGAATCAGAATAAC
1 GCTCTTTCGAGCC-AGAATCAGAATAAC
30727627 GCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
*
30727654 GCTCTTTCGAGCCAGAATCAGACTAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
*
30727681 GCTCTTTCGAGCCAGAATCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
* * *
30727708 GCTCTTTCGAGCTAAAATCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
* *
30727735 GATCTTTCGAGCCAAAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
30727762 TCCTCAAGCC
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
27 114 0.90
28 12 0.10
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAC
Found at i:30739792 original size:68 final size:68
Alignment explanation
Indices: 30739682--30739813 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 68
30739672 CCAAACTTTT
* * * * *
30739682 ACCCTAATTAGAGGACAGATTAAAGACTCGCCAATCTCTTACCCCGATTATGGGGCTGATTAAAG
1 ACCCTAATCAGAGGACAGATTAAAGACACACCAATCTCTTACCCCGATCATGGGGCAGATTAAAG
30739747 CAA
66 CAA
* * *
30739750 ACCCTAATCAGAGGACAGATTAAAGACACACCAATTTTTTACCCTGATCATGGGGCAGATTAAA
1 ACCCTAATCAGAGGACAGATTAAAGACACACCAATCTCTTACCCCGATCATGGGGCAGATTAAA
30739814 ACACCCAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (68 bp):
ACCCTAATCAGAGGACAGATTAAAGACACACCAATCTCTTACCCCGATCATGGGGCAGATTAAAG
CAA
Found at i:30739794 original size:40 final size:41
Alignment explanation
Indices: 30739750--30740201 Score: 332
Period size: 38 Copynumber: 11.6 Consensus size: 41
30739740 ATTAAAGCAA
* * *
30739750 ACCCTAATCA-GAGGACAGATTAAAGACACACCAATTTTTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
* * *
30739790 ACCCTGATCATG-GGGCAGATT-AAAACAC-CCAATCTCTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
**** *
30739828 ACCCTAATCA-GAGGGCAGATTGAAGACTTGTCAATCTCTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
* *
30739868 A-CCTCGATCATGA-GGTAGATTGAAGACACACCAATCTTTT
1 ACCCT-AATCATGAGGGCAGATTGAAGACACACCAATCTTTT
** *
30739908 ACCCCGATCATG-GGGCAGATTGAAG-CA-TCCAATCTTTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
* * * *
30739946 ACCCTAATCA-AAGGGCAGATTGGAGACTCGCCAATCTTTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
** *
30739986 ACCCTGCTCATG-GGGCAGATTGAAG-CA-TCCAATCTTTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
*
30740024 ACCCTAATCA-GAGGGCAGATTGAAGACATACCAAT-TTCTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTT-TT
** * * *
30740064 ACCCCGATCAT-AGGGTAAATTGAA-ACAC-CCAATCTCTT
1 ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
* *
30740102 A-CCTCGATCATG-GGGCAGATTGAA-ACAC-CCAATCTATT
1 ACCCT-AATCATGAGGGCAGATTGAAGACACACCAATCTTTT
* *
30740140 A-CCTCGATCATG-GGGCAGATT---GACACACTCAATCTCTT
1 ACCCT-AATCATGAGGGCAGATTGAAGACACAC-CAATCTTTT
* **
30740178 ACCCTGATTGTG-GGGCAGATTGAA
1 ACCCTAATCATGAGGGCAGATTGAA
30740202 AATGCCATTC
Statistics
Matches: 337, Mismatches: 48, Indels: 53
0.77 0.11 0.12
Matches are distributed among these distances:
36 4 0.01
37 5 0.01
38 168 0.50
39 28 0.08
40 127 0.38
41 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
ACCCTAATCATGAGGGCAGATTGAAGACACACCAATCTTTT
Found at i:30739879 original size:78 final size:78
Alignment explanation
Indices: 30739750--30740201 Score: 374
Period size: 78 Copynumber: 5.8 Consensus size: 78
30739740 ATTAAAGCAA
* * * * * *
30739750 ACCCTAATCAGAGGACAGATTAAAGACACACCAATTTTTTACCCTGATCATGGGGCAGATT-AAA
1 ACCCTGATCAGAGGGCAGATTGAAGACA-TCCAATCTTTTACCCTGATCATGGGGCAGATTGAAG
30739814 ACACCCAATCTCTT
65 ACACCCAATCTCTT
* * * * * *
30739828 ACCCTAATCAGAGGGCAGATTGAAGACTTGTCAATCTCTTA-CCTCGATCATGAGGTAGATTGAA
1 ACCCTGATCAGAGGGCAGATTGAAGACAT-CCAATCTTTTACCCT-GATCATGGGGCAGATTGAA
*
30739892 GACACACCAATCTTTT
64 GACAC-CCAATCTCTT
* * ** *
30739908 ACCCCGATCATG-GGGCAGATTGAAG-CATCCAATCTTTTACCCTAATCAAAGGGCAGATTGGAG
1 ACCCTGATCA-GAGGGCAGATTGAAGACATCCAATCTTTTACCCTGATCATGGGGCAGATTGAAG
* *
30739971 ACTCGCCAATCTTTT
65 ACAC-CCAATCTCTT
* *
30739986 ACCCTGCTCATG-GGGCAGATTGAAG-CATCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAA
1 ACCCTGATCA-GAGGGCAGATTGAAGACATCCAATCTTTTACCCTGATCATG-GGGCAGATTGAA
* *
30740048 GACATACCAATTTCTT
64 GACA-CCCAATCTCTT
* * * * * *
30740064 ACCCCGATCATAGGGTAAATTGAA-ACACCCAATCTCTTA-CCTCGATCATGGGGCAGATTGAA-
1 ACCCTGATCAGAGGGCAGATTGAAGACATCCAATCTTTTACCCT-GATCATGGGGCAGATTGAAG
*
30740126 ACACCCAATCTATT
65 ACACCCAATCTCTT
* * **
30740140 A-CCTCGATCATG-GGGCAGATTG-ACACA-CTCAATCTCTTACCCTGATTGTGGGGCAGATTGA
1 ACCCT-GATCA-GAGGGCAGATTGAAGACATC-CAATCTTTTACCCTGATCATGGGGCAGATTGA
30740201 A
63 A
30740202 AATGCCATTC
Statistics
Matches: 308, Mismatches: 49, Indels: 36
0.78 0.12 0.09
Matches are distributed among these distances:
75 4 0.01
76 52 0.17
77 12 0.04
78 197 0.64
79 12 0.04
80 30 0.10
81 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (78 bp):
ACCCTGATCAGAGGGCAGATTGAAGACATCCAATCTTTTACCCTGATCATGGGGCAGATTGAAGA
CACCCAATCTCTT
Found at i:30739981 original size:118 final size:118
Alignment explanation
Indices: 30739765--30740162 Score: 445
Period size: 118 Copynumber: 3.4 Consensus size: 118
30739755 AATCAGAGGA
* * * * * * *
30739765 CAGATTAAAGACACACCAATTTTTTACCCTGATCATGGGGCAGATTAAAACACCCAATCTCTTAC
1 CAGATTGAAGACACACCAATCTTTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTAC
* * * * *
30739830 CCTAATCAGAGGGCAGATTGAAGACTTGTCAATCTCTTACCTCGATCATGAGG
66 CCTAATCAAAGGGCAGATTGGAGACTCGCCAATCTCTTACCTCGATCATGGGG
*
30739883 TAGATTGAAGACACACCAATCTTTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTAC
1 CAGATTGAAGACACACCAATCTTTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTAC
* *
30739948 CCTAATCAAAGGGCAGATTGGAGACTCGCCAATCTTTTACC-CTGCTCATGGGG
66 CCTAATCAAAGGGCAGATTGGAGACTCGCCAATCTCTTACCTC-GATCATGGGG
* **
30740001 CAGATTGAAG-CA-TCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGACATACCAAT-TTC
1 CAGATTGAAGACACACCAATCTTTTACCCCGATCATG-GGGCAGATTGAAG-CAT-CCAATCTT-
** * * * * *
30740062 TTACCCCGATCATAGGGTAAATT-GAAACAC-CCAATCTCTTACCTCGATCATGGGG
62 TTACCCTAATCAAAGGGCAGATTGGAGACTCGCCAATCTCTTACCTCGATCATGGGG
* *
30740117 CAGATTGAA-ACAC-CCAATCTATTACCTCGATCATGGGGCAGATTGA
1 CAGATTGAAGACACACCAATCTTTTACCCCGATCATGGGGCAGATTGA
30740163 CACACTCAAT
Statistics
Matches: 239, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
115 1 0.00
116 90 0.38
117 15 0.06
118 133 0.56
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (118 bp):
CAGATTGAAGACACACCAATCTTTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTAC
CCTAATCAAAGGGCAGATTGGAGACTCGCCAATCTCTTACCTCGATCATGGGG
Found at i:30741872 original size:31 final size:30
Alignment explanation
Indices: 30741738--30741888 Score: 115
Period size: 31 Copynumber: 5.0 Consensus size: 30
30741728 CTATTTTAGT
* * * *
30741738 TAAAAACTACATTTTGACCCCCCGATCTTTC
1 TAAAAATTGCATTTTGA-CCCCCAAACTTTC
* * * **
30741769 TAAAAATTGTACTTTGA-CACCATGCTTTC
1 TAAAAATTGCATTTTGACCCCCAAACTTTC
*
30741798 TAAAAATTGCATTTTGACCCCCAAACATTC
1 TAAAAATTGCATTTTGACCCCCAAACTTTC
* * * *
30741828 TCAAACTTGCATTTTGACCCTCGAACTTTTC
1 TAAAAATTGCATTTTGACCCCCAAAC-TTTC
* * * *
30741859 TAAAATTTGCATTTTAACCCCTAAAATTTC
1 TAAAAATTGCATTTTGACCCCCAAACTTTC
30741889 CAAATCTTAT
Statistics
Matches: 92, Mismatches: 26, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
29 23 0.25
30 34 0.37
31 35 0.38
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
TAAAAATTGCATTTTGACCCCCAAACTTTC
Found at i:30742992 original size:31 final size:29
Alignment explanation
Indices: 30742952--30743052 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 29
30742942 ACAACGTACA
30742952 CCAATTTATTTTACACCAGCACCATAGCAC
1 CCAATTTATTTTACACCAGCA-CATAGCAC
* * *
30742982 CCACATTTATTCCTACACCAACACAGTCATCA-
1 CCA-ATTTATT-TTACACCAGCACA-T-AGCAC
* *
30743014 CCAATTTATTTTACACGAGCAACGTAGCAC
1 CCAATTTATTTTACACCAGC-ACATAGCAC
30743044 GCTCAATTT
1 -C-CAATTT
30743053 GTAACACCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
29 3 0.05
30 11 0.20
31 19 0.35
32 19 0.35
33 3 0.05
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.28
Consensus pattern (29 bp):
CCAATTTATTTTACACCAGCACATAGCAC
Found at i:30743680 original size:37 final size:37
Alignment explanation
Indices: 30743630--30743706 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
30743620 CCCATGTCAC
30743630 ATAAGTAACCATATACCAATTTAATACTATTCAAAGA
1 ATAAGTAACCATATACCAATTTAATACTATTCAAAGA
30743667 ATAAGTAACCATATACCAATTTAATACTATTCAAAGA
1 ATAAGTAACCATATACCAATTTAATACTATTCAAAGA
30743704 ATA
1 ATA
30743707 TCGTTATACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (37 bp):
ATAAGTAACCATATACCAATTTAATACTATTCAAAGA
Found at i:30748325 original size:40 final size:40
Alignment explanation
Indices: 30748270--30748345 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
30748260 TGGGACATTA
*
30748270 TCGAGTGATGCACTTGACACTCCTCCATTCCCCACGGTTG
1 TCGAGTGATACACTTGACACTCCTCCATTCCCCACGGTTG
*
30748310 TCGAGTGCTACACTTGACACTCCTCCATTCCCCACG
1 TCGAGTGATACACTTGACACTCCTCCATTCCCCACG
30748346 ACTGCTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.38, G:0.17, T:0.26
Consensus pattern (40 bp):
TCGAGTGATACACTTGACACTCCTCCATTCCCCACGGTTG
Found at i:30750060 original size:25 final size:25
Alignment explanation
Indices: 30750026--30750099 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
30750016 TCAAGACTTT
*
30750026 CAGAGTTTAGCTCATAAGAGCCCAAA
1 CAGAG-TTAGCTCTTAAGAGCCCAAA
* * * * *
30750052 TAGGGTTAGCTCTTACGAGCCTAGA
1 CAGAGTTAGCTCTTAAGAGCCCAAA
*
30750077 CAGAGTTAGCTCTTATGAGCCCA
1 CAGAGTTAGCTCTTAAGAGCCCA
30750100 GATGGAGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 35 0.92
26 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
CAGAGTTAGCTCTTAAGAGCCCAAA
Found at i:30750107 original size:25 final size:25
Alignment explanation
Indices: 30750032--30750108 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
30750022 CTTTCAGAGT
* *
30750032 TTAGCTCATAAGAGCCCAAATAGG-G
1 TTAGCTCTTAAGAGCCCAGAT-GGAG
* * **
30750057 TTAGCTCTTACGAGCCTAGACAGAG
1 TTAGCTCTTAAGAGCCCAGATGGAG
*
30750082 TTAGCTCTTATGAGCCCAGATGGAG
1 TTAGCTCTTAAGAGCCCAGATGGAG
30750107 TT
1 TT
30750109 TAACCAGTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
TTAGCTCTTAAGAGCCCAGATGGAG
Found at i:30752598 original size:32 final size:32
Alignment explanation
Indices: 30752557--30752630 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
30752547 ATATTTCTAT
30752557 TATTATTTATTCAAGTTTT-TTTTATTTTTTAAA
1 TATT-TTTATTCAA-TTTTATTTTATTTTTTAAA
** *
30752590 TATTTTTATTTTATTTTATTTTATTTTTTGAA
1 TATTTTTATTCAATTTTATTTTATTTTTTAAA
30752622 T-TTTTTATT
1 TATTTTTATT
30752631 ATTAAACCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 12 0.32
32 21 0.57
33 4 0.11
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (32 bp):
TATTTTTATTCAATTTTATTTTATTTTTTAAA
Found at i:30755666 original size:157 final size:157
Alignment explanation
Indices: 30755368--30755827 Score: 566
Period size: 157 Copynumber: 2.9 Consensus size: 157
30755358 TTACAGTTTC
* *
30755368 GGGTGTTGGTTTTGGATGTCCTACCGATGGCTAAGGTCTGCATTGGTTGCGGATTCTCCACAGCT
1 GGGTGTTGGTCTTGGATGTCCTACCGATGGCTGAGGTCTGCATTGGTTGCGGATTCTCCACAGCT
* * * * * *
30755433 CGTGTGAGCAGCATCGTATAGCCTAATATTTTGACCCATAACTCGTGTGAGTAAGCCCATTTCAC
66 CGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCATAGCTCGTGTGAGCAAGCCCATTTCAC
*
30755498 AGCTTGTGTGAGCATTACAGGTTATAT
131 AGCTCGTGTGAGCATTACAGGTTATAT
* * * *
30755525 GGGTGTTGGTCTTGGATGTCCTACCGATGGTTGAGGTACTGCATTGGTTGTGGATTCTCCATAAC
1 GGGTGTTGGTCTTGGATGTCCTACCGATGGCTGAGGT-CTGCATTGGTTGCGGATTCTCCACAGC
* * * * *
30755590 TCGTGTGAGAAGCATCGCGTAGCCTAACATCTCAACCCA-AGC-CAATGTGAGCAGGCGCC-TTT
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCATAGCTC-GTGTGAGCAAGC-CCATTT
30755652 CACAGCTCGTGTGAGCATTACAGGTTATAT
128 CACAGCTCGTGTGAGCATTACAGGTTATAT
* * ** ** * ** * *
30755682 GGGTGCTGGTCCTAAATGTTTTACCGATGGCTGAGGTTCGGCATTTATTACAGATTCTCCACAGC
1 GGGTGTTGGTCTTGGATGTCCTACCGATGGCTGAGG-TCTGCATTGGTTGCGGATTCTCCACAGC
* **
30755747 TCATGTGAGCAGCATCGTGTAGCCCCACATCTCGACCCATAGCTCGTGTGAGCAAGCCCATTTCA
65 TCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCATAGCTCGTGTGAGCAAGCCCATTTCA
*
30755812 CAGTTCGTGTGAGCAT
130 CAGCTCGTGTGAGCAT
30755828 ATATGGTTAC
Statistics
Matches: 254, Mismatches: 42, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
156 1 0.00
157 160 0.63
158 92 0.36
159 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (157 bp):
GGGTGTTGGTCTTGGATGTCCTACCGATGGCTGAGGTCTGCATTGGTTGCGGATTCTCCACAGCT
CGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCATAGCTCGTGTGAGCAAGCCCATTTCAC
AGCTCGTGTGAGCATTACAGGTTATAT
Found at i:30766053 original size:19 final size:19
Alignment explanation
Indices: 30766001--30766053 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 19
30765991 CTTTTTTTTC
30766001 ATTTTTTAAATATATATTA
1 ATTTTTTAAATATATATTA
30766020 ATTCTTAAATTAAATATATATT-
1 ATT-TT---TTAAATATATATTA
30766042 ATTTTTTCAAAT
1 ATTTTTT-AAAT
30766054 TCTACTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
18 2 0.07
19 7 0.24
20 2 0.07
21 2 0.07
22 3 0.10
23 13 0.45
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAATATATATTA
Found at i:30766362 original size:61 final size:60
Alignment explanation
Indices: 30766290--30766403 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
30766280 CTTGGGTATT
*
30766290 GAAAAAAGTGGT-ACAAGCCATCTATAGGCCAAAATACCAAGAAAAAAAAATTTTGGGTTCC
1 GAAAAAAGTGGTGAC-AGCCATCTATAAGCCAAAATACC-AGAAAAAAAAATTTTGGGTTCC
* * * **
30766351 GAAAAATGTGGTGTCAGCCATTTATAAGCCAAAATACCAGTTAAAAAAATTTT
1 GAAAAAAGTGGTGACAGCCATCTATAAGCCAAAATACCAGAAAAAAAAATTTT
30766404 CTGGGGTACT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 13 0.28
61 32 0.70
62 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.24
Consensus pattern (60 bp):
GAAAAAAGTGGTGACAGCCATCTATAAGCCAAAATACCAGAAAAAAAAATTTTGGGTTCC
Found at i:30771620 original size:2 final size:2
Alignment explanation
Indices: 30771613--30771649 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30771603 TATTATCTTT
30771613 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30771650 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:30771654 original size:2 final size:2
Alignment explanation
Indices: 30771649--30771681 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30771639 TCTCTCTCTC
30771649 TA TA TA TA TA 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 T
30771682 CTGAGCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30780488 original size:20 final size:19
Alignment explanation
Indices: 30780460--30780498 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30780450 CTCTATAATT
*
30780460 GTTGCAAATGGGAAACGATG
1 GTTGCAAATGAGAAA-GATG
*
30780480 GTTGGAAATGAGAAAGATG
1 GTTGCAAATGAGAAAGATG
30780499 AGAACAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (19 bp):
GTTGCAAATGAGAAAGATG
Found at i:30784149 original size:42 final size:42
Alignment explanation
Indices: 30784094--30784240 Score: 186
Period size: 42 Copynumber: 3.5 Consensus size: 42
30784084 TATGCTCTAA
* * *
30784094 CGAGTCATAAGTCTTCCTTTAATCATATTCTCATTCTCGTCC
1 CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
* *
30784136 CGAGACATGAGTCTTCCTTTAATCATAATCTCATTCTCATCT
1 CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
* * * * *
30784178 CGAGACATGAGTCTTCCTTTAATACAAATCCTCATGCTTAACC
1 CGAGACATGAGTCTTCCTTTAAT-CATATTCTCATTCTCATCC
*
30784221 CGAGACACGAGTCTTCCTTT
1 CGAGACATGAGTCTTCCTTT
30784241 TATACATCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 60 0.66
43 31 0.34
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (42 bp):
CGAGACATGAGTCTTCCTTTAATCATATTCTCATTCTCATCC
Found at i:30785932 original size:157 final size:157
Alignment explanation
Indices: 30785636--30785942 Score: 352
Period size: 157 Copynumber: 2.0 Consensus size: 157
30785626 TTATATATAT
* ** * * *
30785636 TATATTTAAGTCTCTAATTAAGTTGGTGTCACGGTTCAACTAGACATTAACTCAATAGAGAAATG
1 TATATTTAAGTCTCAAACCAAGTTAGTGTCACGGTTCAACCAGACATTAACTCAATAGAAAAATG
* * ** * *
30785701 ACTAAAAACCAAGTTTTTCATAATTGAACCAGTGGTTGAATCAATCAGACCACTAATTCTTGCTC
66 ACTAAAAACCAAGTTTTTCAGAATTAAAAAAATGGTTGAATCAATCAGACCACCAATTCTTGCTC
*
30785766 CGACCAATTTGT-TCGGTTCATCTACAC
131 CAACCAATTTGTGT-GGTTCATCTACAC
* *
30785793 TATATTTAAGTCTCAAACCGAGTTAGTGTCACGAG-TCAACCAGACATTAACTCAATTGAAAAAT
1 TATATTTAAGTCTCAAACCAAGTTAGTGTCACG-GTTCAACCAGACATTAACTCAATAGAAAAAT
** * *
30785857 GACTAAAAACCAAGGTTTTT-AGAA-TAAAAAATATGGTTGAATCGGTTAGATCACCAATTCTTG
65 GACTAAAAACCAA-GTTTTTCAGAATTAAAAAA-ATGGTTGAATCAATCAGACCACCAATTCTTG
* * *
30785920 GTCTAACTAATTTGTGTGGTTCA
128 CTCCAACCAATTTGTGTGGTTCA
30785943 ATTGAATAAA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
156 4 0.03
157 112 0.90
158 8 0.06
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (157 bp):
TATATTTAAGTCTCAAACCAAGTTAGTGTCACGGTTCAACCAGACATTAACTCAATAGAAAAATG
ACTAAAAACCAAGTTTTTCAGAATTAAAAAAATGGTTGAATCAATCAGACCACCAATTCTTGCTC
CAACCAATTTGTGTGGTTCATCTACAC
Found at i:30786299 original size:29 final size:27
Alignment explanation
Indices: 30786257--30786310 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
30786247 TCTTATAATA
* *
30786257 TTTGAAATTTAGTTTTTTTACTTTTAT
1 TTTGAAATTTAGTTCTTATACTTTTAT
30786284 TTTGAAAATTTTAGTTCTTATACTTTT
1 TTTG-AAA-TTTAGTTCTTATACTTTT
30786311 TAGATTCCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 3 0.13
29 16 0.70
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (27 bp):
TTTGAAATTTAGTTCTTATACTTTTAT
Found at i:30787639 original size:2 final size:2
Alignment explanation
Indices: 30787632--30787695 Score: 87
Period size: 2 Copynumber: 33.0 Consensus size: 2
30787622 CTCCCTCCTC
* *
30787632 CT CT CT CT CT CT CT CT CC CT -T C- CC CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
30787672 CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
30787696 TATCTCTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:30792300 original size:35 final size:35
Alignment explanation
Indices: 30792254--30792324 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
30792244 TAATATTCCG
*
30792254 TAACTTTAATCTGGCAACGGATTAGAGATGTTACA
1 TAACTTTAATCTGGCAACAGATTAGAGATGTTACA
30792289 TAACTTTAATCTGGCAACAGATTAGAGATGTTACA
1 TAACTTTAATCTGGCAACAGATTAGAGATGTTACA
30792324 T
1 T
30792325 TTAGTGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (35 bp):
TAACTTTAATCTGGCAACAGATTAGAGATGTTACA
Found at i:30796198 original size:18 final size:18
Alignment explanation
Indices: 30796175--30796211 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30796165 CCTATAAGAT
30796175 ATAATAAA-ATATTAAAAA
1 ATAATAAATATA-TAAAAA
30796193 ATAATAAATATATAAAAA
1 ATAATAAATATATAAAAA
30796211 A
1 A
30796212 AATGAGACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAATAAATATATAAAAA
Found at i:30796876 original size:20 final size:18
Alignment explanation
Indices: 30796830--30796869 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30796820 TTTAAAAAAA
30796830 AATTAAAATATACTTGAC
1 AATTAAAATATACTTGAC
* *
30796848 AATTAAAATATATTTGAT
1 AATTAAAATATACTTGAC
30796866 AATT
1 AATT
30796870 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (18 bp):
AATTAAAATATACTTGAC
Found at i:30802845 original size:13 final size:13
Alignment explanation
Indices: 30802827--30802852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30802817 ATCACTTAAG
30802827 GCGCAATGACAAA
1 GCGCAATGACAAA
30802840 GCGCAATGACAAA
1 GCGCAATGACAAA
30802853 CCCCAAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (13 bp):
GCGCAATGACAAA
Found at i:30803447 original size:6 final size:6
Alignment explanation
Indices: 30803436--30803470 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
30803426 CAAACTTTCA
30803436 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCA
1 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCA
30803471 TCTTCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAC
Found at i:30805467 original size:12 final size:12
Alignment explanation
Indices: 30805450--30805476 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30805440 TTGTTATCAC
30805450 AAAAAAAAAAAG
1 AAAAAAAAAAAG
30805462 AAAAAAAAAAAG
1 AAAAAAAAAAAG
30805474 AAA
1 AAA
30805477 TTATGAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:30812921 original size:3 final size:3
Alignment explanation
Indices: 30812913--30812956 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
30812903 ATTCGATCTT
*
30812913 TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30812957 TTAAAGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30813240 original size:52 final size:52
Alignment explanation
Indices: 30813162--30813268 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
30813152 ATCTACAAAA
* *
30813162 ATCATTAGTTTTAATCTTGAACAAAGTCCTAAAGAATATTTGCATAATAATT
1 ATCATTAATTTTAATCTTGAACAAAGTCCTAAAGAATATTTACATAATAATT
30813214 ATCATTAATTTTAATCTTGAACAAAGTCCTAAAGAATATTTACATAATAATT
1 ATCATTAATTTTAATCTTGAACAAAGTCCTAAAGAATATTTACATAATAATT
30813266 ATC
1 ATC
30813269 CTATACTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (52 bp):
ATCATTAATTTTAATCTTGAACAAAGTCCTAAAGAATATTTACATAATAATT
Found at i:30813928 original size:28 final size:28
Alignment explanation
Indices: 30813888--30813944 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30813878 GTTGACGTAG
30813888 AATTAACTTTAAGGGACGAATTTGTACT
1 AATTAACTTTAAGGGACGAATTTGTACT
*
30813916 AATTAACTTTAAGGGATGAATTTGTACT
1 AATTAACTTTAAGGGACGAATTTGTACT
30813944 A
1 A
30813945 TCTCATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (28 bp):
AATTAACTTTAAGGGACGAATTTGTACT
Found at i:30815283 original size:59 final size:60
Alignment explanation
Indices: 30815152--30815298 Score: 179
Period size: 61 Copynumber: 2.5 Consensus size: 60
30815142 CAAGTTAGGG
* * ** * **
30815152 AAAAAAATGTTAAGTTCAAGTACCAAATTGGGTCAAAAAAAATTTAAGTACCGGATTAAA
1 AAAAAAATGTCAAGTTCAAGTACCAAAATAAGTCAAAAAAAATTTAAATACCAAATTAAA
* * *
30815212 AAAATAAATGTCAAGTTCAAGTATCAAAATAAGTCAAAAAAAGTTTAAATATCAAATT-AA
1 AAAA-AAATGTCAAGTTCAAGTACCAAAATAAGTCAAAAAAAATTTAAATACCAAATTAAA
*
30815272 AAAAAAATGTCAAATTCAAGTACCAAA
1 AAAAAAATGTCAAGTTCAAGTACCAAA
30815299 TGTTATATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
59 21 0.28
60 10 0.14
61 43 0.58
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.24
Consensus pattern (60 bp):
AAAAAAATGTCAAGTTCAAGTACCAAAATAAGTCAAAAAAAATTTAAATACCAAATTAAA
Found at i:30815345 original size:3 final size:3
Alignment explanation
Indices: 30815337--30815373 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
30815327 ATATAAGTAC
* *
30815337 ATT ATT ATT ATC ATC ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30815374 AATGATATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:30822539 original size:17 final size:18
Alignment explanation
Indices: 30822509--30822542 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30822499 AATTTCTATT
30822509 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
30822527 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
30822543 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Done.