Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011112.1 Corchorus capsularis cultivar CVL-1 contig11133, whole genome shotgun sequence
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: 72863
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:123 original size:2 final size:2
Alignment explanation
Indices: 116--147 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
106 ATCTATAACC
116 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
148 AAATTATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8352 original size:17 final size:18
Alignment explanation
Indices: 8326--8360 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8316 TAAATAATAT
*
8326 ATTTTAATATTTTTATAA
1 ATTTTAATATTTATATAA
8344 ATTTT-ATATTTATATAA
1 ATTTTAATATTTATATAA
8361 CTAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTAATATTTATATAA
Found at i:22462 original size:331 final size:324
Alignment explanation
Indices: 21614--22858 Score: 919
Period size: 331 Copynumber: 3.8 Consensus size: 324
21604 ATGGCCACAT
* * * * * *
21614 TACTCGTAAAAAATATATAATTCAATGCCAAAAACATTGAAGGGATTTTCACACTTCTAATATCG
1 TACTCATAAAAAATATATAATTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAAT-TCG
* * ** ** *
21679 TTTTTCCTATTTTTTTCAAATTAAATTCTAACAAAATCGAAACAAGATTTTGA-GTCTCACAAAA
65 TTTTTCC--TTTTTTTCTAATTAATTTCT-ATTAAATCGAAACAAGATCAT-ATG-CTCATAAAA
** * * * * * * *
21743 ACAAATAATTAAATAAATTATGGCTGAGATTTGGA-TACATGGATGTAGATATTTCAAGGAGTGT
125 ACAAATTCTTAAATCAATTGTGGCTAAGATTT-GATTAGATGAATATAGATATTTCAAGGAGTCT
* * * * ** ***** *** *
21807 TAGAGTCAAAAATCATGCAAAACTGAACTAGGGCCTCGGAACGCAAAAAAAAAAAAAAAGAACCG
189 TGGTGCCAAAAATCATGCAAAACTGAGCCGGGGCC-CGGAA--CACTTTTAGCCAAAAA-TA--G
* * * * ** ** * * ** *
21872 TAAT-G-TAGTACACAATTTCGGGTAATTTTTTTTGTAAAAACTGAACC-GAAATATTTTTCCAC
248 TGATGGTTAGTAAACAATTTCAGCTAA--AATTTTACAAAAACTG-ACCAAAAAAAAATTTCCTC
* * *
21934 AATTTTTGGCCACAA
310 AATTCTTGGACAAAA
* * * *
21949 TACTCAGAAAAAATATATAATTCAAAGCCAA-AAAACTTG-AAGAGTTTTTCACGCTTCTAATTT
1 TACTCATAAAAAATATATAATTCAATGCCAAGAAGA-TTGAAAG-GCTTTTCACGCTTCTAA-TT
* * * * *
22012 TGTTTTTCCTTTTTTTCTAAATTAATTTATAATAAAACGAAACAAGATTCAGATGCTCATAAAAA
63 CGTTTTTCCTTTTTTTCT-AATTAATTTCTATTAAATCGAAACAAGA-TCATATGCTCATAAAAA
* * * * *
22077 GAAATCCTTAAATCAATTTTGGCTAAGATTTGATTAGATGGATATAGATATTTCAATGAGTCTTG
126 CAAATTCTTAAATCAATTGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTG
*
22142 GTGCCAAAAATCATGCAAAACTGAGCCGGAGCCCGGAACACGTTTTTAGCCAAAAATAGTGATGG
191 GTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCGGAACAC--TTTTAGCCAAAAATAGTGATGG
* * * * * * *****
22207 TTAGTACACGATTTCGGCTAAAATTTTACAAAAATTGAGCAGAATTTTTTTTCCT-AATTCTTGG
254 TTAGTAAACAATTTCAGCTAAAATTTTACAAAAACTGACCAAAAAAAAATTTCCTCAATTCTTGG
22271 ACAAAA
319 ACAAAA
*
22277 TAGTCATAAAAAATATATAATTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCG
1 TACTCATAAAAAATATATAATTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAAT-TCG
** * *
22342 TTTTTCCTAATTTTCTGACTTAATTTCTCATTAAATTGAAACAAGAGTCAAATATGCTCATAAAA
65 TTTTTCCTTTTTTTCT-AATTAATTTCT-ATTAAATCGAAACAAGA-TC--ATATGCTCATAAAA
* * * * *
22407 ACAAATTCTTAAATTCAA-TGTGGTTGAGATTTAATTAGATAAATATAAATATTTCAAGGAGT-T
125 ACAAATTCTTAAA-TCAATTGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCT
* *
22470 TAGGTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTC-G---A-----AGCCAAAAATTGTGAT
189 T-GGTGCCAAAAATCATGCAAAACTGAGCCGGGGCC-CGGAACACTTTTAGCCAAAAATAGTGAT
* * * *
22526 TGTTAGTAAACAATTTTAGCTAAAATTTTGCAAAAACTGACCAAAAAAAAATTTCCTCAATTTTT
252 GGTTAGTAAACAATTTCAGCTAAAATTTTACAAAAACTGACCAAAAAAAAATTTCCTCAATTCTT
*
22591 GGACACAA
317 GGACAAAA
** * * * * * * **
22599 TACTTGTAAAAATTATATAATTCAATGTCAAGAAGATTGAAGGGCTTTTCATGCTTTTAATGCCA
1 TACTCATAAAAAATATATAATTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATTCGT
* * * * *
22664 TTTTCCTTTTTTTTCCTAATTATTTTCTAATAAAATCGAAACAAGATTATGATACTCGTAAAAAC
66 TTTTCC-TTTTTTT-CTAATTAATTTCT-ATTAAATCGAAACAAGATCAT-ATGCTCATAAAAAC
* * * *
22729 -AAGTCTTTAAATCAATTGTGGCTAAAATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTG
127 AAATTC-TTAAATCAATTGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTG
* * **
22793 GCGCCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAACACCTTTCTAGCCAAAAACCGTGATG
191 GTGCCAAAAATCATGCAAAACTGAGCCGGGGC-CCGGAACA-CTTT-TAGCCAAAAATAGTGATG
22858 G
253 G
22859 ATTACATGAT
Statistics
Matches: 730, Mismatches: 140, Indels: 84
0.77 0.15 0.09
Matches are distributed among these distances:
319 10 0.01
320 84 0.12
321 70 0.10
322 95 0.13
323 2 0.00
324 1 0.00
327 1 0.00
328 87 0.12
329 48 0.07
330 5 0.01
331 127 0.17
332 18 0.02
333 110 0.15
334 16 0.02
335 55 0.08
336 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (324 bp):
TACTCATAAAAAATATATAATTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATTCGT
TTTTCCTTTTTTTCTAATTAATTTCTATTAAATCGAAACAAGATCATATGCTCATAAAAACAAAT
TCTTAAATCAATTGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCC
AAAAATCATGCAAAACTGAGCCGGGGCCCGGAACACTTTTAGCCAAAAATAGTGATGGTTAGTAA
ACAATTTCAGCTAAAATTTTACAAAAACTGACCAAAAAAAAATTTCCTCAATTCTTGGACAAAA
Found at i:23729 original size:330 final size:329
Alignment explanation
Indices: 23119--28016 Score: 4684
Period size: 330 Copynumber: 14.8 Consensus size: 329
23109 TTCCCTCATG
* * * * * * *
23119 AAATCGAAACAAGAGTCAGATGCTTC-TAAAAACAAATCCTTATATCCAATGTGTCTGAGATCTA
1 AAATCGAAACAAGATTCAGATGC-TCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTG
* * * * * *
23183 GTTAGATGAATATAGATACTTCAAGGAGTCTAGG-GCTAATAATCATGCAAAACTAAGTCGGGGT
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG-
*
23247 CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGC-AAAATTTTACAA
129 CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAA
* * * * * *
23311 AAACTGATCCAAAATTTTTTTCCTTAGTTTTTGGACATAATACTCGTAAAAAATATATATTTCAA
194 AAACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTCAA
* * * * * *
23376 GGCCAAAAAGATT-AAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCCTTTATTTCTCAATAAAA
259 TGCCAAGAAGATTGAAA-GGCTTTTCACGCTTCTAATATCGTTTTTCCTTT-TTTCTCAATTAAT
*
23440 TTCTGATT
322 TTCTAATT
* * * *
23448 AAATCGAAATATGATTCATATGGTCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTGG
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTGG
* * * *
23513 TTAGACGAATATAGATATTTCAACGAGTCTTGGCGCCAAAAATCATGCAAAACTGTGCTGGGGCC
66 TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCC
* * * * * *
23578 CAGAACGCGTTTTTAGCCAAAAATTGTGATTGGTTAGTACATGATTTCGGCTAAAATTTTGAAAA
131 CGGAACACGTTTTTAGCCAAAAACTGTGA-TGGTTAGTACACGATTTCAGCTAAAATTTTGCAAA
* * * *
23643 AACTGAGCCGAAATTTTTTTCCT-AATTTTTTGACACAATACTCGTAAAAAATATATAATTCAAT
195 AACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTCAAT
* *
23707 GCCAAAAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTCTGAATTAATTT
260 GCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCT-TTTTTCTCAATTAATTT
*
23772 CTAAAT
324 CTAATT
* * * * * * *
23778 AAAGTCGAAACAAGATTCTA-ATACTCGTAAAAACAACTCTTTAAA-ACAATTCTGACTGAGATT
1 AAA-TCGAAACAAGATTC-AGATGCTCGTAAAAACAAATCCTCAAATTCAA-TGTGGCTGAGATT
* * * * *
23841 TGATTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCTAGAAATCATGCAAAACTGAGTCGGG
63 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGG
* * * * * * *
23906 CCTCCGAAACATGTTTTTAGACAAAAACCGTGATGGTTAGTATACGGTTTCAGCTAAAATTTTGC
128 GC-CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGC
* * * * *
23971 AAAAA-TAGACCCAAAAGTTCTTTCCTCAATTCTTGGCCAAAATAGTCGTAAAAAATATATAATT
192 AAAAACT-GACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATT
* * * * **
24035 CAACGCCAAGAGGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTT--TTTTTACAAAATTAA
256 CAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCTTTTTTCTCAATTAA
* *
24098 TTTCTCACT
321 TTTCTAATT
* * * * * *
24107 AAATCAAAACAAGAGTCAGATGCTTC-TAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTA
1 AAATCGAAACAAGATTCAGATGC-TCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTG
* * * *
24171 GTTAGATGAATATAGATATTTGAAGGAGTCTAGGCTCCAAAAATCATGCAAAACTGAGCCGGGAC
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGC
** * *
24236 CCAAAACACGTTTTTAGCC-AAAACTATGATGGTTAGTACACGGTTTCAGCTAAAATTTTGCAAA
130 CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAA
* *
24300 AACTAACCCAAAA-TTTTTTCCTCAATTTTTGGACACAATATTCGTAAAAAATATATAATTCAAT
195 AACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTCAAT
* * * * *
24364 GCCAAAAAGATTAAAAGGCTTTTCACGTTTCTAATATCGTTTTTCCTATTTTTTTGAATTAATTT
260 GCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCT-TTTTTCTCAATTAATTT
*
24429 CTAATA
324 CTAATT
* * * *
24435 AAATCGAAACAATATTCTA-ATGCTCGTAAAAACAAGTCTTTAAA-TCAATAGTGGCTGAGATTT
1 AAATCGAAACAAGATTC-AGATGCTCGTAAAAACAAATCCTCAAATTCAAT-GTGGCTGAGATTT
* * * *
24498 GATTTGATAAATATAGATATTTCAAGAAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG
64 GGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG
* * * *
24563 CTCCGGAACACCTTTTTATCCAAAAA-TCGTGATGGATAGTACACGATTTCAGCTAAAAGTTTGC
129 C-CCGGAACACGTTTTTAGCCAAAAACT-GTGATGGTTAGTACACGATTTCAGCTAAAATTTTGC
* * * * * *
24627 AAAAA-TAGACCCAAAAATTCTTTCCTCAATTCTTGGCCACAATAGTCATAAAAAAATAGATAAT
192 AAAAACT-GACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGT-AAAAAATATATAAT
* * * ** *
24691 CCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCG-TTTT--TTTAATCTAAATTA
255 TCAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCTTTTTTCTCAATTA
*
24753 ATTTCTCATT
320 ATTTCTAATT
** * * * * * *
24763 AAATATAAACAAG--TCAGATGCTCCT-AAAA-AAATCCTTC-AATCCATTTTGGTTGAGATTTA
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC-TCAAATTCAATGTGGCTGAGATTTG
* * * * *
24823 GTTAGATGAATATAGATATTTCAAGGAGTCTAGGC-TCATTAAATCTTG-AAAACTGAGTCGGGG
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCA-AAAATCATGCAAAACTGAGCCGGGG
* *
24886 CTTCGGAACACGTTTTAAGCC-AAAAC--TG-T-G--A-T----G-TTTCAGCTAAAATTTTGCA
129 C-CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCA
* * * * *
24938 AAATCTGACCGAAAA--TTTTTCCTCAATTTTTGGACAAAATAATCGTGAAAAACTATATAATTC
193 AAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGT-AAAAAATATATAATTC
* * * * * *
25001 AATGCCGAGAAGATTAAAAGACTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTGAACTAA
257 AATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCT-TTTTTCTCAATTAA
25066 TTTCTAA-T
321 TTTCTAATT
* * * * * * * *
25074 AAAACTGAAACAAGATTCTGATACTCAT-AAAA-AAGTCTTTAAA-TCAATTGTGGCTGAAATTT
1 AAATC-GAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAA-TGTGGCTGAGATTT
* * * *
25136 GATTAGATGAATATAAATATTTCAAGGAGTCTTGACACCAAAAATCATGCAAAACTGAGCCGGGG
64 GGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG
* * * * *
25201 CCCCTGAACACCTTTTTATCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCA
129 -CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCA
* ** * * * **
25266 AAAACTGACCCAACATAAATTTTCCTCAATTATTGGCCACAATAGTCATAAAAAATATATAGCTC
193 AAAACTGACCCAAAAT-TTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTC
* * * * *
25331 AATTCCAAGAAGATTGAAGGGCTTCTCACGCTTCTAATTTCGTGGTTT--TTTTTTCTCAATTAA
257 AATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGT-TTTTCCTTTTTTCTCAATTAA
*
25394 TTTCTGATTT
321 TTTCT-AATT
* * * * *
25404 AAATCGAAATATGATTCAGATGCTCGCCAAAAA-AAAACCTCAAATAT-AGTGTGGCTGAGATTT
1 AAATCGAAACAAGATTCAGATGCTCG-TAAAAACAAATCCTCAAAT-TCAATGTGGCTGAGATTT
* *
25467 GGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGGAAAACTGAGCCGGGG
64 GGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG
* * * *
25532 CCCCAGAACACGTTTTTAGCCAAAAACTATGATGGTTCGTACACGATTTCGGCTAAAATTTTGCA
129 -CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCA
* * * * * **
25597 AAAAATGACCCAAAA-ATTTTTCCACAATTTTCGGACATAATACACGTAAAAAAATATATAATTC
193 AAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGT-AAAAAATATATAATTC
* * * * * *
25661 AATGCCAAGAAGATTG-AAGGATTTTTTATGCTTTTAATGTCG-TTTTCCGTTTTTATTTTCCAA
257 AATGCCAAGAAGATTGAAAGG-CTTTTCACGCTTCTAATATCGTTTTTCC--TTTT-TTCT-C-A
*
25724 ATTAATTTCTAATA
316 ATTAATTTCTAATT
* * * * * ** * * *
25738 AAATTGAAACAAGATTCTGATACTCGTAAAAATAAGT-CTTTAAGTCAATTGTGGTTGAGATTCG
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAA-TGTGGCTGAGATTTG
* * * * *
25802 GTTTGATGAATATAGATATTTGAAGGAGTCTTGGCGCCAAAAATCATTCAAAACTGAGCAGGGTC
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGC
* * * * * *
25867 CCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAATACACGATTTCAACTAAAATTTTGTAAA
130 CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAA
* *
25932 AACTGACCCTAAAATTTTTTTTCCTTAATTCTTTGCA-ACAATAGTCGTAAAAAATATATAATTC
195 AACTGACCC-AAAA-TTTTTTTCCTCAATT-TTTGGACACAATAGTCGTAAAAAATATATAATTC
** * *
25996 AACACCAAGAAGATTG-AAGGGTTTTCCACGCTTCTAATTTCGTTTTTCCTTTTTTTCTCAATTA
257 AATGCCAAGAAGATTGAAAGGCTTTT-CACGCTTCTAATATCGTTTTTCC-TTTTTTCTCAATTA
*
26060 ATTTCTGATT
320 ATTTCTAATT
* * * * * * *
26070 AAATCGAAATATGATTCAGATGCTCGTAAAAACAAATTCTTAAATCCAATATGGCTAAGATTTGG
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTGG
* * * ** *
26135 TTA-ACTGAATATAGATATTTCAATGAGCCTAGGCGCCAAAAATCATGTGAAACTGAGTCGGGGC
66 TTAGA-TGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGC
* ** * * * *
26199 CCGAAATGCGTTTTTGGCCAAAAACTGTGATAGATAGTACACGATTTCGGCTAAAATTTTGCAAA
130 CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGC-AA
* * * *
26264 AAACTGAACCGAAAATTTTTCTT-CTCAATTTTTGTACACAATACTCGTAAAAAATATACAATTC
194 AAACTG-ACCCAAAATTTTT-TTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTC
* * * * * *
26328 AATGCCAAGAAGATTTAAGGGCTTTTCATGCTTTTAATGTCG-CTTTCCTTTCTTTCTTCCCTAA
257 AATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCTTT-TTTC-T--C-AA
*
26392 TTAATTTCTAATA
317 TTAATTTCTAATT
* * * *
26405 AAATCGAAACAAAATTCTA-ATACTCGTAAAAACAAGTCTTTC-AA-TCAATTGTGGCTGAGATT
1 AAATCGAAACAAGATTC-AGATGCTCGTAAAAACAAATC-CTCAAATTCAA-TGTGGCTGAGATT
* * * * *
26467 TGATTAGATGAATATAGATATTTCAAGAAGTCTTGGCACCAGAAATCATGCAAAACAGAGCCGGG
63 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGG
* * * * * * *
26532 GCTCCGAAACACGTTTTTAGACAAAAACCGTGATGGATAGTACCCGGTTTTAGCTAAAATTTTGC
128 GC-CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGC
* * * * * *
26597 AAAAATTG--CCGAAATTTTTTTCCTAAATTTTTGGACAAAATAATCATAAAAAAATATATAATT
192 AAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGT-AAAAAATATATAATT
* * * * * *
26660 CAATGCCAAGAAGATTAAAAGACTTTTCACACTTCTAATATCGTTTTTCCTATTTTTTTGAAATA
256 CAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCT-TTTTTCTCAATTA
*
26725 ATTTCTAATA
320 ATTTCTAATT
* * * * *
26735 AAATTGAAACAAGATTCCGATGCTCGTAAAAACAAGTCATCAAA-TCAATTGTGACTGAGATTTG
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAA-TGTGGCTGAGATTTG
* ** * *
26799 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAAATCATATAAAACTGAGTCGGTGC
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGG-GG
* * * **
26864 CCCGGAACACCTTTTTATCCAAAAACTGTGATGGATACCACACGATTTCAGCTAAAATTTTGCAA
129 CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAA
* ** * * *
26929 AAACTGACCTAAAATAAATTTTCCTCAATTATTGGCCACAATAGTCGTAAAAAATATATAGTTCA
194 AAACTGACCCAAAAT-TTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTCA
* * * * * *
26994 ATTCCAAGAATATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCCTTTTTTTTTCTCCATTA
258 ATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCC---TTTTTTCTCAATTA
* *
27059 ATTTCGGATTT
320 ATTTC-TAATT
* * * * * * *
27070 AAATAGAAATATA-ATTCAGATGCTCGCAAAAAAAAATCCTCAAATACAGTGTGGCTGAGATTTT
1 AAATCGAAACA-AGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTG
* *
27134 GTTAGATGAATATAGATATTTCAAGGAGGCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGGGC
65 GTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG-
* *
27199 CCCGGAACAC-TTTTTATCCAAAAACTGTGATGGATATAGTACATGATTTCAGCTAAAATTTTGC
129 CCCGGAACACGTTTTTAGCCAAAAACTGTGATGG-T-TAGTACACGATTTCAGCTAAAATTTTGC
** ** * * **
27263 AAAAACTGACCCAAAATAAATTTTCCTCAATAATTAGCCACAATAGTCGTAAAAAATATATTTTT
192 AAAAACTGACCCAAAAT-TTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATT
* * * * * * * ** *
27328 TAATTCCAAGGAGATTGAAGGGCTTCTCACGCTTCTAATTTTGTGTTTCATTTTTTTTTATCAAT
256 CAATGCCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGT-TTT--TCCTTTTTTCTCAAT
*
27393 TAATTTCTGATTT
318 TAATTTCT-AATT
* * * * * * * *
27406 AAATCGAAATATGATTTAGATGCTCGCAAAAAAAAAAAAAAAAACCCCTCAAATACAGTGTGGCT
1 AAATCGAAACAAGATTCAGATGCTCG--------TAAAAACAAA-TCCTCAAATTCAATGTGGCT
* * * * * * *
27471 GAAATTTGGTTAGATGAATATAGATATTTCAATGAGTTTTGGCTCCAAAAAACATGGAAAACTAA
57 GAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* * *
27536 GGCGGGGCCCAGGAACACGTTTTTAGCCAAAAACTATGATGGTTAGTACACGATTTCAGCCAAAA
122 GCCGGGGCCC-GGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAA
* * * *
27601 TTTTGCAAAAAATGACCCAAAAATTTTTTTCCACTATTTTTGGACACAATAGACGTAAAAGAATA
186 TTTTGCAAAAACTGACCC-AAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAA-AATA
* * *
27666 TATAATTCAATGCCAAGAAGATTG-AAGGACTTTTCATGCTTTTAATGTCG-TTTTCCGTTTTAT
249 TATAATTCAATGCCAAGAAGATTGAAAGG-CTTTTCACGCTTCTAATATCGTTTTTCC-TTTT-T
* * *
27729 TTTCCAAATTAATTTATAATA
311 TCT-C-AATTAATTTCTAATT
* * * * * ** * *
27750 AAATTGAAACAAGATGCTGATACTCGTAAAAATAGGTCTTTC-AA-TCAATTGTGGCTGAGATTC
1 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC-CTCAAATTCAA-TGTGGCTGAGATTT
* * * * * * * *
27813 AGTTTGATGAATATGGATGTTTCAAGGAGTCTTGACACTAAAAATCATGCAGAACTGAGCCGGGG
64 GGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGG
* * * * * *
27878 CGCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAATACACGATTTTAGCTAAAATTTTGCA
129 C-CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCA
** * * * *
27943 AAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCACAATAGTCGT-AAAAATATGTAGTTC
193 AAAACTGACCCAAAAT-TTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTC
*
28007 AATTCCAAGA
257 AATGCCAAGA
28017 GGATGCGCCA
Statistics
Matches: 3746, Mismatches: 673, Indels: 296
0.79 0.14 0.06
Matches are distributed among these distances:
308 75 0.02
309 4 0.00
310 29 0.01
311 7 0.00
312 22 0.01
313 3 0.00
314 68 0.02
315 31 0.01
316 7 0.00
318 3 0.00
319 2 0.00
320 3 0.00
322 5 0.00
323 34 0.01
324 54 0.01
325 93 0.02
326 61 0.02
327 26 0.01
328 297 0.08
329 199 0.05
330 473 0.13
331 415 0.11
332 467 0.12
333 202 0.05
334 171 0.05
335 453 0.12
336 260 0.07
337 6 0.00
339 1 0.00
341 1 0.00
342 4 0.00
343 6 0.00
344 101 0.03
345 142 0.04
346 21 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (329 bp):
AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTCAAATTCAATGTGGCTGAGATTTGG
TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCC
CGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAA
ACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATAGTCGTAAAAAATATATAATTCAATG
CCAAGAAGATTGAAAGGCTTTTCACGCTTCTAATATCGTTTTTCCTTTTTTCTCAATTAATTTCT
AATT
Found at i:26221 original size:665 final size:660
Alignment explanation
Indices: 23119--27996 Score: 4993
Period size: 665 Copynumber: 7.4 Consensus size: 660
23109 TTCCCTCATG
* * * * * * * *
23119 AAATCGAAACAAGAGTCAGATGCTTC-TAAAAACAAATCCTTATATCCAA-TGTGTCTGAGATCT
1 AAATCGAAACAAGATTCTGATAC-TCGTAAAAACAAGTCTTTAAAT-CAATTGTGGCTGAGATTT
* * * * * * *
23182 -AGTTAGATGAATATAGATACTTCAAGGAGTCTAGG-GCTAATAATCATGCAAAACTAAGTCGGG
64 GA-TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGG
* * * * *
23245 GTC-CCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGC-AAAATTTTA
128 GCCTCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTG
* * * * * * * *
23308 CAAAAACTGATCCAAAATTTTTTTCCTTAGTTTTTGG-ACATAATACTCGTAAAAAATATATATT
193 CAAAAACTGACCCAAAAATTTTTTCCTCAATTATTGGCA-ACAATAGTCGTAAAAAATATATAAT
* * * * *
23372 TCAAGGCCAAAAAGATTAAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCCTTTATTTCTCAATA
257 TCAACGCCAAGAAGATTGAAGGG-TTTTCACGCTTCTAATTTCGTGTTT-CTTTTTTTCTCAATT
* * * *
23437 AAATTCTGATTAAATCGAAATATGATTCATATGGTCGTAAAAACAAATCCTCAAATTCAATGTGG
320 AATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGG
* * **
23502 CTGAGATTTGGTTAGACGAATATAGATATTTCAACGAGTCTTGGCGCCAAAAATCATGCAAAACT
385 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTGAAACT
* * * * *
23567 GTG-CTGGGGCCC-AGAACGCGTTTTTAGCCAAAAATTGTGATTGGTTAGTACATGATTTCGGCT
450 GAGTC-GGGGCCCGA-AACACGTTTTTAGCCAAAAACTGTGA-TGGTTAGTACACGATTTCAGCT
* ** *
23630 AAAATTTTG-AAAAAACTGAGCCGAAATTTTTTTCCT-AATTTTTTGACACAATACTCGTAAAAA
512 AAAATTTTGCAAAAAA-TGA-CCCAAAAATTTTTCCTCAATTTTTGGACACAATACTCGTAAAAA
* * *
23693 ATATATAATTCAATGCCAAAAAGATTGAAAGG-CTTTTCACGCTTCTAATATCGTTTTTCC--TA
575 ATATATAATTCAATGCCAAGAAGATTG-AAGGACTTTTCACGCTTTTAATATCG-TTTTCCTTTT
*
23755 TTTTTCTGAATTAATTTCTAAATA
638 TTTTTCCGAATTAATTTCT-AATA
* * * * * *
23779 AAGTCGAAACAAGATTCTAATACTCGTAAAAACAACTCTTTAAAACAATTCTGACTGAGATTTGA
1 AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
* * * *
23844 TTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCTAGAAATCATGCAAAACTGAG-TCGGGCC
66 TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGCC
* ** * * * *
23908 TCCGAAACATGTTTTTAGACAAAAACCGTGATGGTTAGTATACGGTTTCAGCTAAAATTTTGCAA
131 TCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCAA
* * *
23973 AAA-TAGACCCAAAAGTTCTTTCCTCAATTCTTGGCCAA-AATAGTCGTAAAAAATATATAATTC
196 AAACT-GACCCAAAAATTTTTTCCTCAATTATTGG-CAACAATAGTCGTAAAAAATATATAATTC
* * * **
24036 AACGCCAAGAGGATTGAAGGGCTTTTCACGCTTCTAATATCGT-TTT-TTTTTTACAAAATTAAT
259 AACGCCAAGAAGATTGAAGGG-TTTTCACGCTTCTAATTTCGTGTTTCTTTTTTTCTCAATTAAT
* * * * * * * *
24099 TTCTCACTAAATCAAAACAAGAGTCAGATGCTTC-TAAAAACAAATCCTTAAATCCAATGTGCCT
323 TTCTGATTAAATCGAAATATGATTCAGATGC-TCGTAAAAACAAATCCTCAAATCCAATGTGGCT
* * * * **
24163 GAGATTTAGTTAGATGAATATAGATATTTGAAGGAGTCTAGGCTCCAAAAATCATGCAAAACTGA
387 GAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTGAAACTGA
* * * * *
24228 GCCGGGACCCAAAACACGTTTTTAGCC-AAAACTATGATGGTTAGTACACGGTTTCAGCTAAAAT
452 GTCGGGGCCCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAAT
* * * *
24292 TTTGCAAAAACTAACCCAAAATTTTTTCCTCAATTTTTGGACACAATATTCGTAAAAAATATATA
517 TTTGCAAAAAATGACCCAAAAATTTTTCCTCAATTTTTGGACACAATACTCGTAAAAAATATATA
* * *
24357 ATTCAATGCCAAAAAGATTAAAAGG-CTTTTCACG-TTTCTAATATCGTTTTTCCTATTTTTTT-
582 ATTCAATGCCAAGAAGATT-GAAGGACTTTTCACGCTTT-TAATATCG-TTTTCCTTTTTTTTTC
24419 -GAATTAATTTCTAATA
644 CGAATTAATTTCTAATA
* * * *
24435 AAATCGAAACAATATTCTAATGCTCGTAAAAACAAGTCTTTAAATCAATAGTGGCTGAGATTTGA
1 AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
* * * *
24500 TTTGATAAATATAGATATTTCAAGAAGTCTTGGCGCCAAAAATCATGCAAAACTGAG-CCGGGGC
66 TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGCC
* * *
24564 TCCGGAACACCTTTTTATCCAAAAATCGTGATGGATAGTACACGATTTCAGCTAAAAGTTTGCAA
131 TCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCAA
* * * * * *
24629 AAA-TAGACCCAAAAATTCTTTCCTCAATTCTTGGCCACAATAGTCATAAAAAAATAGATAATCC
196 AAACT-GACCCAAAAATTTTTTCCTCAATTATTGGCAACAATAGTCGT-AAAAAATATATAATTC
* ** *
24693 AACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATC--GTTT-TTTTAATCTAAATTAAT
259 AACGCCAAGAAGATTGAAGGG-TTTTCACGCTTCTAATTTCGTGTTTCTTTTTTTCTCAATTAAT
* ** * * * * * *
24755 TTCTCATTAAATATAAACA--AGTCAGATGCTCCT-AAAA-AAATCCTTC-AATCCATTTTGGTT
323 TTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATCC-TCAAATCCAATGTGGCT
* * * *
24815 GAGATTTAGTTAGATGAATATAGATATTTCAAGGAGTCTAGGC-TCATTAAATC-T-TGAAAACT
387 GAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCA-AAAATCATGTG-AAACT
* * *
24877 GAGTCGGGGCTTCGGAACACGTTTTAAGCC-AAAAC--TG-T-G--A-T----G-TTTCAGCTAA
450 GAGTCGGGGC-CCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAA
** * * * *
24929 AATTTTGCAAAATCTGA-CCGAAAATTTTTCCTCAATTTTTGGACAAAATAATCGTGAAAAACTA
514 AATTTTGCAAAAAATGACCCAAAAATTTTTCCTCAATTTTTGGACACAATACTCGT-AAAAAATA
* * * * *
24993 TATAATTCAATGCCGAGAAGATTAAAAGACTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTT
578 TATAATTCAATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATATCG-TTTTCCTTTTTTTT
*
25058 T--GAACTAATTTCTAATA
642 TCCGAATTAATTTCTAATA
* *
25075 AAA-CTGAAACAAGATTCTGATACTCAT-AAAA-AAGTCTTTAAATCAATTGTGGCTGAAATTTG
1 AAATC-GAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTG
* * * *
25137 ATTAGATGAATATAAATATTTCAAGGAGTCTTGACACCAAAAATCATGCAAAACTGAGCCGGGGC
65 ATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGC
* *
25202 C-CCTGAACACCTTTTTATCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCA
130 CTCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCA
* * * **
25266 AAAACTGACCCAACATAA-ATTTTCCTCAATTATTGGCCACAATAGTCATAAAAAATATATAGCT
195 AAAACTGACCCAA-A-AATTTTTTCCTCAATTATTGGCAACAATAGTCGTAAAAAATATATAATT
** * *
25330 CAATTCCAAGAAGATTGAAGGGCTTCTCACGCTTCTAATTTCGTGGTT-TTTTTTTCTCAATTAA
258 CAACGCCAAGAAGATTGAAGGG-TTTTCACGCTTCTAATTTCGTGTTTCTTTTTTTCTCAATTAA
* * ** *
25394 TTTCTGATTTAAATCGAAATATGATTCAGATGCTCGCCAAAAA-AAAACCTCAAATATAGTGTGG
322 TTTCTGA-TTAAATCGAAATATGATTCAGATGCTCG-TAAAAACAAATCCTCAAATCCAATGTGG
*
25458 CTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATG-GAAAAC
385 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTG-AAAC
* * * * *
25522 TGAGCCGGGGCCCCAGAACACGTTTTTAGCCAAAAACTATGATGGTTCGTACACGATTTCGGCTA
449 TGAGTCGGGGCCCGA-AACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTA
* * * *
25587 AAATTTTGCAAAAAATGACCCAAAAATTTTTCCACAATTTTCGGACATAATACACGTAAAAAAAT
513 AAATTTTGCAAAAAATGACCCAAAAATTTTTCCTCAATTTTTGGACACAATACTCGT-AAAAAAT
* * * *
25652 ATATAATTCAATGCCAAGAAGATTGAAGGATTTTTTATGCTTTTAATGTCGTTTTCCGTTTTTAT
577 ATATAATTCAATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTCC-TTTTT-T
*
25717 TTTCCAAATTAATTTCTAATA
640 TTTCCGAATTAATTTCTAATA
* * * * * *
25738 AAATTGAAACAAGATTCTGATACTCGTAAAAATAAGTCTTTAAGTCAATTGTGGTTGAGATTCGG
1 AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
* * * * *
25803 TTTGATGAATATAGATATTTGAAGGAGTCTTGGCGCCAAAAATCATTCAAAACTGAG-CAGGGTC
66 TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGCC
* * *
25867 -CCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAATACACGATTTCAACTAAAATTTTGTAA
131 TCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCAA
* * * *
25931 AAACTGACCCTAAAATTTTTTTTCCTTAATTCTTTGCAACAATAGTCGTAAAAAATATATAATTC
196 AAACTGACCC-AAAA-ATTTTTTCCTCAATTATTGGCAACAATAGTCGTAAAAAATATATAATTC
* *
25996 AACACCAAGAAGATTGAAGGGTTTTCCACGCTTCTAATTTCGTTTTTCCTTTTTTTCTCAATTAA
259 AACGCCAAGAAGATTGAAGGGTTTT-CACGCTTCTAATTTCGTGTTT-CTTTTTTTCTCAATTAA
* * *
26061 TTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATTCTTAAATCCAATATGGCT
322 TTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCT
* * * *
26126 AAGATTTGGTTA-ACTGAATATAGATATTTCAATGAGCCTAGGCGCCAAAAATCATGTGAAACTG
387 GAGATTTGGTTAGA-TGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTGAAACTG
** * * * *
26190 AGTCGGGGCCCGAAATGCGTTTTTGGCCAAAAACTGTGATAGATAGTACACGATTTCGGCTAAAA
451 AGTCGGGGCCCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAA
* * *
26255 TTTTGCAAAAAACTGAACCGAAAATTTTTCTTCTCAATTTTTGTACACAATACTCGTAAAAAATA
516 TTTTGCAAAAAA-TGACCCAAAAATTTTTC--CTCAATTTTTGGACACAATACTCGTAAAAAATA
* * * * * *
26320 TACAATTCAATGCCAAGAAGATTTAAGGGCTTTTCATGCTTTTAATGTCGCTTTCCTTTCTTTCT
578 TATAATTCAATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTCCTTT-TTT-T
* *
26385 TCCCTAATTAATTTCTAATA
641 TTCCGAATTAATTTCTAATA
* * *
26405 AAATCGAAACAAAATTCTAATACTCGTAAAAACAAGTCTTTCAATCAATTGTGGCTGAGATTTGA
1 AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
* * * * *
26470 TTAGATGAATATAGATATTTCAAGAAGTCTTGGCACCAGAAATCATGCAAAACAGAG-CCGGGGC
66 TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGCC
* * * * * *
26534 TCCGAAACACGTTTTTAGACAAAAACCGTGATGGATAGTACCCGGTTTTAGCTAAAATTTTGCAA
131 TCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCAA
* * * * * * *
26599 AAATTG--CCGAAATTTTTTTCCTAAATTTTTGGACAA-AATAATCATAAAAAAATATATAATTC
196 AAACTGACCCAAAAATTTTTTCCTCAATTATTGG-CAACAATAGTCGT-AAAAAATATATAATTC
* * ** * * * * *
26661 AATGCCAAGAAGATTAAAAGACTTTTCACACTTCTAATATCGTTTTTCCTATTTTTT-TGAAATA
259 AACGCCAAGAAGATT-GAAGGGTTTTCACGCTTCTAATTTCGTGTTT-CT-TTTTTTCTCAATTA
* * * * * * * * *
26725 ATTTCTAATAAAATTGAAACAAGATTCCGATGCTCGTAAAAACAAGTCATCAAAT-CAATTGTGA
321 ATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATCCTCAAATCCAA-TGTGG
* * *
26789 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAAATCATATAAAACT
385 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTGAAACT
* * * * * **
26854 GAGTCGGTGCCCCGGAACACCTTTTTATCCAAAAACTGTGATGGATACCACACGATTTCAGCTAA
450 GAGTCGG-GGCCCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAA
* * * * * *
26919 AATTTTGCAAAAACTGACCTAAAATAAATTTTCCTCAATTATTGGCCACAATAGTCGTAAAAAAT
514 AATTTTGCAAAAAATGACC-CAAA-AATTTTTCCTCAATTTTTGGACACAATACTCGTAAAAAAT
* * * * * *
26984 ATATAGTTCAATTCCAAGAATATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCCTTTTTTT
577 ATATAATTCAATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATATCGT-TTTCCTTTTTTT
* * * *
27049 TTCTC-CATTAATTTCGGATTT
641 TTC-CGAATTAATTTC-TAATA
* * * * * * * * * *
27070 AAATAGAAATATA-ATTCAGATGCTCGCAAAAAAAAATCCTCAAAT-ACAGTGTGGCTGAGATTT
1 AAATCGAAACA-AGATTCTGATACTCGTAAAAACAAGTCTTTAAATCA-ATTGTGGCTGAGA-TT
* * *
27133 TG-TTAGATGAATATAGATATTTCAAGGAGGCTTGGTGCCAAAAATCATGCAAAACTGAGCCGGG
63 TGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGG
* * *
27197 GCC-CCGGAACA-CTTTTTATCCAAAAACTGTGATGGATATAGTACATGATTTCAGCTAAAATTT
128 GCCTCCGGAACACCTTTTTAGCCAAAAACCGTGATGG--ATAGTACACGATTTCAGCTAAAATTT
** * * * *
27260 TGCAAAAACTGACCCAAAATAAATTTTCCTCAATAATTAGCCACAATAGTCGTAAAAAATATATT
191 TGCAAAAACTGACCCAAAA-ATTTTTTCCTCAATTATTGGCAACAATAGTCGTAAAAAATATATA
* * ** * * * *
27325 TTTTAATTCCAAGGAGATTGAAGGGCTTCTCACGCTTCTAATTTTGTGTTTCATTTTTTTTTATC
255 ATTCAACGCCAAGAAGATTGAAGGG-TTTTCACGCTTCTAATTTCGTGTTTC---TTTTTTTCTC
* * * *
27390 AATTAATTTCTGATTTAAATCGAAATATGATTTAGATGCTCGCAAAAAAAAAAAAAAAAACCCCT
316 AATTAATTTCTGA-TTAAATCGAAATATGATTCAGATGCTCG--------TAAAAACAAA-TCCT
* * * * * *
27455 CAAATACAGTGTGGCTGAAATTTGGTTAGATGAATATAGATATTTCAATGAGTTTTGGCTCCAAA
371 CAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAA
* * * * *
27520 AAACATG-GAAAACTAAGGCGGGGCCCAGGAACACGTTTTTAGCCAAAAACTATGATGGTTAGTA
436 AATCATGTG-AAACTGAGTCGGGGCCC-GAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTA
* * *
27584 CACGATTTCAGCCAAAATTTTGCAAAAAATGACCCAAAAATTTTTTTCCACTATTTTTGGACACA
499 CACGATTTCAGCTAAAATTTTGCAAAAAATGACCCAAAAA--TTTTTCCTCAATTTTTGGACACA
** * *
27649 ATAGACGTAAAAGAATATATAATTCAATGCCAAGAAGATTGAAGGACTTTTCATGCTTTTAATGT
562 ATACTCGTAAAA-AATATATAATTCAATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATAT
* * *
27714 CGTTTTCCGTTTTATTTTCCAAATTAATTTATAATA
626 CGTTTTCC-TTTTTTTTTCCGAATTAATTTCTAATA
* * * * * *
27750 AAATTGAAACAAGATGCTGATACTCGTAAAAATAGGTCTTTCAATCAATTGTGGCTGAGA-TTCA
1 AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
* * * * * * * *
27814 GTTTGATGAATATGGATGTTTCAAGGAGTCTTGACACTAAAAATCATGCAGAACTGAG-CCGGGG
66 -TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGC
* * * *
27878 CGCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAATACACGATTTTAGCTAAAATTTTGCA
130 CTCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCA
** *
27943 AAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCACAATAGTCGTAAAAA
195 AAAACTGACCCAAAA-ATTTTTTCCTCAATTATTGGCAACAATAGTCGTAAAAA
27997 TATGTAGTTC
Statistics
Matches: 3555, Mismatches: 530, Indels: 247
0.82 0.12 0.06
Matches are distributed among these distances:
638 201 0.06
639 78 0.02
640 146 0.04
641 13 0.00
643 11 0.00
644 2 0.00
645 65 0.02
646 34 0.01
647 5 0.00
648 1 0.00
649 3 0.00
650 3 0.00
651 17 0.00
652 83 0.02
653 7 0.00
654 12 0.00
655 2 0.00
656 261 0.07
657 175 0.05
658 14 0.00
659 181 0.05
660 168 0.05
661 74 0.02
662 98 0.03
663 40 0.01
664 143 0.04
665 576 0.16
666 258 0.07
667 225 0.06
668 133 0.04
669 26 0.01
670 13 0.00
671 22 0.01
678 4 0.00
679 99 0.03
680 271 0.08
681 91 0.03
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (660 bp):
AAATCGAAACAAGATTCTGATACTCGTAAAAACAAGTCTTTAAATCAATTGTGGCTGAGATTTGA
TTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCCGGGCC
TCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATAGTACACGATTTCAGCTAAAATTTTGCAA
AAACTGACCCAAAAATTTTTTCCTCAATTATTGGCAACAATAGTCGTAAAAAATATATAATTCAA
CGCCAAGAAGATTGAAGGGTTTTCACGCTTCTAATTTCGTGTTTCTTTTTTTCTCAATTAATTTC
TGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGA
TTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGTGAAACTGAGTCG
GGGCCCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTG
CAAAAAATGACCCAAAAATTTTTCCTCAATTTTTGGACACAATACTCGTAAAAAATATATAATTC
AATGCCAAGAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTCCTTTTTTTTTCCGAATTA
ATTTCTAATA
Found at i:28142 original size:174 final size:175
Alignment explanation
Indices: 27852--28191 Score: 601
Period size: 174 Copynumber: 1.9 Consensus size: 175
27842 TCTTGACACT
* * *
27852 AAAAATCATGCAGAACTGAGCCGGGGCGCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAA
1 AAAAATCATGCAAAACTGAGCCAGGGCCCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAA
*
27917 TACACGATTTTAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCA
66 TACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCA
*
27982 CAATAGTCGT-AAAAATATGTAGTTCAATTCCAAGAGGATGCGCC
131 CAATAGTCGTAAAAAATATATAGTTCAATTCCAAGAGGATGCGCC
* *
28026 AAAAATCATTCAAAACTGAGCCAGGGCCCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAG
1 AAAAATCATGCAAAACTGAGCCAGGGCCCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAA
*
28091 TACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTATTTGCCA
66 TACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCA
28156 CAATAGTCGTAAAAAATATATAGTTCAATTCCAAGA
131 CAATAGTCGTAAAAAATATATAGTTCAATTCCAAGA
28192 AGATTGAAGG
Statistics
Matches: 157, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
174 133 0.85
175 24 0.15
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (175 bp):
AAAAATCATGCAAAACTGAGCCAGGGCCCCGGAACACCTTTTTATCCAAAAACCGTGATGGATAA
TACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTATTGGCCA
CAATAGTCGTAAAAAATATATAGTTCAATTCCAAGAGGATGCGCC
Found at i:29447 original size:333 final size:333
Alignment explanation
Indices: 28021--30753 Score: 2814
Period size: 333 Copynumber: 8.3 Consensus size: 333
28011 CCAAGAGGAT
* * *
28021 GCGCCAAAAATCATTCAAAACTGAGCC-AGGGCCCCGGAACACCTTTTTATCCAAAAACCGTGAT
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
**
28085 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATAAATTTTCCTCAATTAT
66 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAA-ATTTTTTCCTCAATT-T
* * *
28150 TT-GCCACAATAGTCGTAAAAAATATATAGTTCAATTCCAAGAAGATTGAAGGGC-TTTCATGCT
129 TTGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCT
* * * * * *
28213 TCTAATTTCGTGTTTCC-TTCTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGAT
194 TCTAATATCGT-TTTCCTTTTTTTTTCTCAATTAATTTCTAATAAAATCGAAACAAGATTCAGAT
* *
28277 GCTCGTAAAAAAAAAT-CTTCAAATACAA-TGTGACTGAGATTTGGTTAGATGAATATAGATATT
258 GCTCGTAAAAACAAATCCTT-AAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATT
*
28340 TCAACGAGTCTTG
321 TCAAGGAGTCTTG
*** * * * * **
28353 ATTCCAAAAATCATGGAAAATTGTGCCG-GGGCCCCCGGAACACGTTTTTAGCAAAAAACTATGA
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGG-CCCCGGAACACGTTTTTAGCCAAAAACCGTGA
* * * *
28417 TGGTTAGTAGACGTTTTCAGCTAAAATTTTGCAAAAACTGA-CCACAAAATTTTTTCCACAATTT
65 TGGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCA-AAAATTTTTTCCTCAATTT
** ** * * *
28481 TTGGACACAATACACAAAAAAAAAATATAATTTAATGCCAAGAATATTGAAGGGCTTTTCATGC-
129 TTGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCT
*
28545 TCTTAATGTCGTTTTCCGTTTTTCTTTT-TCCAAATTAATTTCTAATAAAATCGAAACAAGATTC
194 TC-TAATATCGTTTTCC-TTTTT-TTTTCT-C-AATTAATTTCTAATAAAATCGAAACAAGATTC
* * * * * * * *
28609 TGATGCTCGTAAAAATAAGTCTTTAAATTAATTGTGGTTGAGATTCGGTTTGATGAATATAGATA
254 AGATGCTCGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATA
*
28674 CTTCAAGGAGTCTTG
319 TTTCAAGGAGTCTTG
* * **
28689 ACGCCAAAAATCATGCAAAACTGAGCCG-GGGCCCCTGAACACGTTTTTAGCCAAAAACTATGAT
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
* * * *
28753 GGTTAGTACACGATTTCAGCTAAAATTTTGTAAAAACTAACCTAAAAATTTTTTCCAT-AATTTT
66 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCC-TCAATTTT
* * *
28817 TGGACGCAATA--C--AAAAAGAAATA-AATTCAATGCCAAGAATATTGAAGGGCTTTTCATGCT
130 TGGACACAATAGTCGTAAAAA-ATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCT
* *
28877 TTTAATGTCGTTTTCCATTTTTTTTT-TCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTA
194 TCTAATATCGTTTTCC-TTTTTTTTTCT-C-AATTAATTTCTAATAAAATCGAAACAAGATTC-A
* * * * *
28941 -ATGCTCGTAAAAATAAGTCTTTAAATCAATTGTGGCTGAGATTCGGTGT-GATAAATATAGATA
255 GATGCTCGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGT-TAGATGAATATAGATA
29004 -TT----GAGTCTTG
319 TTTCAAGGAGTCTTG
*
29014 GCGCCAAAAATCATGCAAAACTGAGCCG-GAGCCCCGGAACATC-TTTTTAGCCAAAAACCGTGA
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACA-CGTTTTTAGCCAAAAACCGTGA
** * * *
29077 TGGATAGTACACGATTTCAGCTAAAATTTACCAAAAACTAACCCAAAATTTTTTTTCCTCAATTC
65 TGGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAA-ATTTTTTCCTCAATTT
* * ** * * *
29142 TTGGCCACAATTGTCGTAAAAAATATATAATTCAACACCATGAAGATTGAAGGTCTTTTCACGCT
129 TTGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCT
* * * *
29207 TCTAATATCGTTTTTCCTTTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGAT
194 TCTAATATCG-TTTTCCTTTTTTTTTCTCAATTAATTTCTAATAAAATCGAAACAAGATTCAGAT
* * * * *
29272 GCTCGTAAAAAGAAATCCTTAAGTCCAA-TGAGGCTAAGATTTGGTTAGATGAATATTGATATTT
258 GCTCGTAAAAACAAATCCTTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
*
29336 CAACGAGTCTAT-
322 CAAGGAGTCT-TG
* * * * * * * *
29348 GCTCTAAAAATAATGCAAAACTGAG-CGAGGG-ACCGGAACGCGTTTTTAGCCCAAAACTGTCAT
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
* * * *
29411 AGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGAGCCGAAAATTTTTCTCCTCAATTTT
66 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTT-TCCTCAATTTT
* * * * * * *
29476 TGAACATAATACTCGTAAAAAACATACAATTCAATGCCAAGAAGATTTAAGGGGTTTTCATGCTT
130 TGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTT
* * * *
29541 TTAATGTCGCTTTCCTTTCTTTTTTTCGCTAATTAATTTCTAATAAAATCGAAACAAGATTCTA-
195 CTAATATCGTTTTCC-TT-TTTTTTTCTC-AATTAATTTCTAATAAAATCGAAACAAGATTC-AG
* * * * *
29605 ATACTCGTAAAAATAAGTCTTTAAATCAATTGTGGCTGAGATTTGATTAGATGAATATAGATATT
256 ATGCTCGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATT
*
29670 TTAAGGAGTCTTG
321 TCAAGGAGTCTTG
** * * * * *
29683 GCAACACAAATCATGCAAAA-TAGAGCC-AGGGCTCCGAAACATGTTTTTAGACAAAAACCGTGA
1 GCGCCAAAAATCATGCAAAACT-GAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGA
* * * * * ** * * *
29746 TGGATAATAC-CTGGTTTCAGTTAAAATTTTGCAAACATTGACCTTAAAATTCTCTCCTCAATTC
65 TGGATAGTACAC-GATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTT
* * * * * *
29810 TTGGCCATAATAGTCGTAAAAAATATATAATTCAATGCCACGAAGATTGAAAGACTTTTCACGCT
129 TTGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCT
* * * * * *
29875 TCTAATA-----TT-GTTTTTTTTTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTCAAATG
194 TCTAATATCGTTTTCCTTTTTTTTTCTCAATTAATTTCTAATAAAATCGAAACAAGATTCAGATG
* * * * * *
29934 CTCCTAAAAACAAATCCTTAAATCCAGTGTGACTGAGATTTAGTTAGATGAATATAGATATCTCA
259 CTCGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCA
*
29999 AGGAGTCTAG
324 AGGAGTCTTG
* *
30009 GCTCCAAAAATCTTGCAAAACTGAGCCGA-GGCCCCGGAACACGTTTTTAGCC-AAAA---T--T
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
* * *
30067 -G-T-GTACACGATTTCAGCTAAAATTTTGCAAACACTGACCCAAAAAGTTTTTCCTCAATTTTC
66 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTT
* * * * * **
30129 GGACACAATACTCGTAAAAAATATATAATTAAATTCCAAGAAGATTGAAAGGTTTTTCACACTTC
131 GGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTC
* * * *
30194 TAATATCGTTTTTCC-TATTTTTT-TGAATTAATTTCTAATAAAATCGAAACAAGATTCTGATAC
196 TAATATCG-TTTTCCTTTTTTTTTCTCAATTAATTTCTAATAAAATCGAAACAAGATTCAGATGC
* * * * * * *
30257 TCGTAAAAACAAGTCTTTAAATCAATTGTAGCTAAGATTTGGTAAGACGAATATAGATATATCAA
260 TCGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAA
30322 GGAGTCTTG
325 GGAGTCTTG
* ** **
30331 GCGCCAAAAATCATGCAAAACTAAG-TTAGGGCCCCGGAACACCATTTTAGCCAAAAACCGTGAT
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
** * * * * *
30395 AAATAGTACATGATTTCTGCTAAAATTTTGAAAAAACTGACCCAAAATTTTTTTTCCTCAATTAT
66 GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAA-ATTTTTTCCTCAATTTT
* * * * * *
30460 TGGCCATAATAGTTGTAAAAAAAATATAGTTCAATTCCAAGAAGATTGAAGGGCTTTTCATGCTT
130 TGGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTT
* * * * * *
30525 CTAATTTAGTGTTTCC-TTTTTTTTCTC-ATTAAATTTCTGATTAAATCGATATAAGATTCAGAT
195 CTAATATCGT-TTTCCTTTTTTTTTCTCAATT-AATTTCTAATAAAATCGAAACAAGATTCAGAT
* *
30588 GCTCGTAAAAACAAATCCTAAAATGGAA-TGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
258 GCTCGTAAAAACAAATCCTTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
*
30652 CAACGAGTCTTG
322 CAAGGAGTCTTG
* ** * * *
30664 GCACCAAAAATCATTAAAAACTTAGCCG-GGGCCCCGGAATACGTTTTTAGCCAAAAACTGTGAT
1 GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
* * *
30728 -AAT-GTACACGATTTGAACTAAAATTT
66 GGATAGTACACGATTTCAGCTAAAATTT
30754 CCAAAAAATG
Statistics
Matches: 2000, Mismatches: 323, Indels: 157
0.81 0.13 0.06
Matches are distributed among these distances:
317 108 0.05
318 2 0.00
319 1 0.00
320 1 0.00
321 1 0.00
322 138 0.07
323 13 0.01
325 113 0.06
326 157 0.08
327 10 0.00
328 6 0.00
329 82 0.04
330 160 0.08
331 128 0.06
332 196 0.10
333 365 0.18
334 50 0.03
335 283 0.14
336 184 0.09
337 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (333 bp):
GCGCCAAAAATCATGCAAAACTGAGCCGAGGGCCCCGGAACACGTTTTTAGCCAAAAACCGTGAT
GGATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTT
GGACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTC
TAATATCGTTTTCCTTTTTTTTTCTCAATTAATTTCTAATAAAATCGAAACAAGATTCAGATGCT
CGTAAAAACAAATCCTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAG
GAGTCTTG
Found at i:31317 original size:322 final size:320
Alignment explanation
Indices: 30834--31471 Score: 739
Period size: 320 Copynumber: 2.0 Consensus size: 320
30824 TTTTTTCCCT
* * * * * *
30834 AATTAATTTCTAATAAAATTGAAACAAGATTCCGATGCTCGTAAAAACAAGTCTTCAAATCAATT
1 AATTAATTTCTAATAAAATCGAAACAAGAGTCAGATACTCCTAAAAACAAATCTTCAAATCAATT
* * *
30899 GTGGCTGAGATTTGGTTAGATAAATATAGATATTTCAAGGAGTCTTGGCGCCAGAAATCATGCAA
66 GTGGCTGAGATTTAGTTAGATAAATATAGATATTTCAAAGAGTCTTGGCGCCAAAAATCATGCAA
* * * * *
30964 AACTAAGTCGGGGCTTCGAAACACGTTTTTAGACAAAAATCGTAATAAATAGTACATGGGTTCAG
131 AACTAAGCCGGGGCTCCGAAACACGTTTTTAGACAAAAAT-GTAAT-AATAATACACGAGTTCAG
* * * * *
31029 CTAAAATTTTGCAAAAACTGACCCAAAA-ATTCTTTCCTCAATTATTGGCCGCAATAGTCGTAAA
194 CTAAAATTTTGCAAAAACTGA-CCAAAATATTCTTTCCTAAATTATTGGACACAATAATCATAAA
* * *
31093 AAATATATAATTCAACACCATCAATATTAAAGGACTTTTCACGCTTCTAAAATCGTTTTTTTTA
258 AAATATATAATTCAACACCAACAA-ATTAAAAGACTTTTCACGCTTCTAAAATCATTTTTTTTA
* *
31157 AATTAATTTCTCATTAAATCGAAACAAGAGTCAGATACTCCTAAAAACAAATCCTT-AAATTCAA
1 AATTAATTTCTAATAAAATCGAAACAAGAGTCAGATACTCCTAAAAACAAAT-CTTCAAA-TCAA
* * * *
31221 -TGTGGCTGAGA-TTAGTTAGATGAATATGGATATTTCAAAGTGT-TTAGGCTCCAAAAATCATG
64 TTGTGGCTGAGATTTAGTTAGATAAATATAGATATTTCAAAGAGTCTT-GGCGCCAAAAATCATG
* * * * * * * * *
31283 CAAAACTTAGCCATGGGC-CCGGAATACGTTTTTAGCCAAAACTGTGATAGTAATACACGATTTC
128 CAAAACTAAGCC-GGGGCTCCGAAACACGTTTTTAGACAAAAATGTAATAATAATACACGAGTTC
* * * *
31347 AGCTAAAATTTTGCAAAAATTGACCAAAATTTTTTTTCCTAAATTTTTGGACACAATAATCATAA
192 AGCTAAAATTTTGCAAAAACTGACCAAAATATTCTTTCCTAAATTATTGGACACAATAATCATAA
** * * * *
31412 AAAATATATAATTCAATGCCAAGAAGTTAAAAGACTTTTCACGTTTCTAATATCATTTTT
257 AAAATATATAATTCAACACCAACAAATTAAAAGACTTTTCACGCTTCTAAAATCATTTTT
31472 CCTATTTTTT
Statistics
Matches: 263, Mismatches: 47, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
319 36 0.14
320 81 0.31
321 6 0.02
322 71 0.27
323 62 0.24
324 7 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (320 bp):
AATTAATTTCTAATAAAATCGAAACAAGAGTCAGATACTCCTAAAAACAAATCTTCAAATCAATT
GTGGCTGAGATTTAGTTAGATAAATATAGATATTTCAAAGAGTCTTGGCGCCAAAAATCATGCAA
AACTAAGCCGGGGCTCCGAAACACGTTTTTAGACAAAAATGTAATAATAATACACGAGTTCAGCT
AAAATTTTGCAAAAACTGACCAAAATATTCTTTCCTAAATTATTGGACACAATAATCATAAAAAA
TATATAATTCAACACCAACAAATTAAAAGACTTTTCACGCTTCTAAAATCATTTTTTTTA
Found at i:31611 original size:593 final size:599
Alignment explanation
Indices: 30895--32041 Score: 1469
Period size: 593 Copynumber: 1.9 Consensus size: 599
30885 TCTTCAAATC
*
30895 AATTGTGGCTGAGATTTGGTTAGATAAATATAGATATTTCAAGGAGTCTTGGCGCCAGAAATCAT
1 AATTGTGGCTGAGATTTGGTTAGATAAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* ** * * * *
30960 GCAAAACTAAGTCGGGGCTTCGAAACACGTTTTTAGACAAAAATCGTAATAAATAGTACATGGGT
66 GCAAAACTAAGCCGGGGCCCCGAAACACCTTTTTAGACAAAAACCGTAATAAATAGTACA-CGAT
* *
31025 -TCAGCTAAAATTTTGCAAAAACTGACCCAAAAATT-CTTTCCTCAATTATTGGCCGCAATAGTC
130 ATCAGCTAAAATTTTGCAAAAACTAACCC-AAAATTGCTTTCCTCAATTATTGGCCACAATAGTC
* * *
31088 GTAAAAAATATATAATTCAACACCATCAATATTAAAGGACTTTTCACGCTTCTAA-AAT-CGTTT
194 GTAAAAAACATATAATTCAACACCAACAAGATTAAAGGACTTTTCACG-TTCTAATAATCCGTTT
*
31151 TT-TT-TAAATTAATTTCTCATTAAATCGAAACAAGAGTCAGATACTCCTAAAAACAAATCCTTA
258 TTCTTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTCAGATACTCATAAAAACAAATCCTTA
* * * ** *
31214 AATTCAATGTGGCTGAGA-TTAGTTAGATGAATATGGATATTTCAAAGTGT-TTAGGCTCCAAAA
323 AATGCAATGCGGCTGAGATTTAGTTAGATGAATATAGATATTTCAAAGACTCTT-GGCACCAAAA
* * * *
31277 ATCATGCAAAACT-TAGCCATGGG-CCCGGAATACGTTTTTAGCC-AAAACTGTGATAG-TAATA
387 ATCATGAAAAACTGT-GCC-GGGGCCCCGGAACACG-TTTCAGCCAAAAACTGTGATAGTTAATA
* * *
31338 CACGATTTCA-GCTAAAATTTTGCAAAAATTGA-CCAA-AATTTTTTTTCCTAAATTTTTGGACA
449 CACGATAT-AGGCTAAAATTTTGCAAAAACTGACCCAACAA-TTTTTTTACTAAATTTTTGGACA
31400 CAATAATCATAAAAAATATATAATTCAATGCCAAGAAGTTAAAAGACTTTTCACGTTTCTAATAT
512 CAATAATCATAAAAAATATATAATTCAATGCCAAGAAGTTAAAAGACTTTTCACGTTTCTAATAT
31465 CATTTTTCCTATTTTTTTGAATT
577 CATTTTTCCTATTTTTTTGAATT
* *
31488 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATGAT
1 AATTGTGGCTGAGATTTGGTTAGATAAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* * ** * **
31553 GCAAAACTGAGCCGGGGCCCCGGAACACCTTTTTAGGTAAAAACCGTGATGGATAGTACACGATA
66 GCAAAACTAAGCCGGGGCCCCGAAACACCTTTTTAGACAAAAACCGTAATAAATAGTACACGATA
* *
31618 TCAGCTAAAATTTTGCAAAAATTAACCCAAAATTGTTTTCCTCAATTATTGGCCACAATAGTCGT
131 TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTGCTTTCCTCAATTATTGGCCACAATAGTCGT
* ** * * * * ** *
31683 AAAAAACATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCACGTTTTAATTTTGTGTTTCCT
196 AAAAAACATATAATTCAACACCAACAAGATTAAAGGACTTTTCACGTTCTAA-----T-AATCCG
** * * * * *
31748 TTTTTCTTCTCTATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAATCC
255 TTTTTCTTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTCAGATACTCATAAAAACAAATCC
* *
31813 TTAAATGCAATGCGGCTGAGATTTGGTTAGATGAATATAGATATTTCAACGACTCTTGGCACCAA
320 TTAAATGCAATGCGGCTGAGATTTAGTTAGATGAATATAGATATTTCAAAGACTCTTGGCACCAA
* * **
31878 AAATCATGAAAAACTGTGTCGGGGCCCCGGAACACGTTTCAGCCAAAAACTGTGATGGTTTGTAC
385 AAATCATGAAAAACTGTGCCGGGGCCCCGGAACACGTTTCAGCCAAAAACTGTGATAGTTAATAC
* *
31943 ACGATATAGGCTAAAATTTTGCAAAAGCTGACCCAACAATTTTTTTACTCAATTTTTGGACACAA
450 ACGATATAGGCTAAAATTTTGCAAAAACTGACCCAACAATTTTTTTACTAAATTTTTGGACACAA
* *
32008 TACTCTTAAAAAATATATAATTCAATGCCAAGAA
515 TAATCATAAAAAATATATAATTCAATGCCAAGAA
32042 TATTGAAGGG
Statistics
Matches: 468, Mismatches: 65, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
592 13 0.03
593 201 0.43
599 1 0.00
600 6 0.01
601 2 0.00
602 77 0.16
603 73 0.16
604 33 0.07
605 60 0.13
606 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (599 bp):
AATTGTGGCTGAGATTTGGTTAGATAAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
GCAAAACTAAGCCGGGGCCCCGAAACACCTTTTTAGACAAAAACCGTAATAAATAGTACACGATA
TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTGCTTTCCTCAATTATTGGCCACAATAGTCGT
AAAAAACATATAATTCAACACCAACAAGATTAAAGGACTTTTCACGTTCTAATAATCCGTTTTTC
TTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTCAGATACTCATAAAAACAAATCCTTAAAT
GCAATGCGGCTGAGATTTAGTTAGATGAATATAGATATTTCAAAGACTCTTGGCACCAAAAATCA
TGAAAAACTGTGCCGGGGCCCCGGAACACGTTTCAGCCAAAAACTGTGATAGTTAATACACGATA
TAGGCTAAAATTTTGCAAAAACTGACCCAACAATTTTTTTACTAAATTTTTGGACACAATAATCA
TAAAAAATATATAATTCAATGCCAAGAAGTTAAAAGACTTTTCACGTTTCTAATATCATTTTTCC
TATTTTTTTGAATT
Found at i:32290 original size:332 final size:329
Alignment explanation
Indices: 31491--33950 Score: 2642
Period size: 331 Copynumber: 7.4 Consensus size: 329
31481 TTGAATTAAT
*
31491 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATGATGCA
1 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCA
* ** * *
31556 AAACTGAGCCGGGGCCCCGGAACACCTTTTTAGGTAAAAACCGTGATGGATAGTACACGATATCA
66 AAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTCA
* * * * * *
31621 GCTAAAATTTTGCAAAAATTAACCCAAAATTGTTTTCCTCAATTATTGGCCACAATAGTCGTAAA
131 GCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTCTTAAA
* * * *
31686 AAACATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCACG-TTTTAATTTTGTGTTTCCTTT
196 AAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGT-TTT-CATT
* * * * *
31750 TTTCTTCTCT-ATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAATCCT
259 TTT-TTC-CTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCTT
31814 TAAATGCAA
322 TAAAT-CAA
* * * * *
31823 TGCGGCTGAGATTTGGTTAGATGAATATAGATATTTCAACGACTCTTGGCACCAAAAATCATGAA
1 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCA
* * * * * *
31888 AAACTGTGTCGGGGCCCCGGAACACG-TTTCAGCCAAAAACTGTGATGGTTTGTACACGATAT-A
66 AAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTCA
* * *
31951 GGCTAAAATTTTGCAAAAGCTGACCCAACAATTTTTTTACTCAATTTTTGGACACAATACTCTTA
131 -GCTAAAATTTTGCAAAAACTGACCCAA-AATTTTTTTCCTCAATTTTTGGCCACAATACTCTTA
* * *
32016 AAAAATATATAATTCAATGCCAAGAATATTGAAGGGCTATTCATGCTTTTAATTTCGTTTTCATT
194 AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGTTTTCATT
* * * *
32081 TTTTTCCTAATTAATTTCTAATGAAATCGAAACAAGATTCTGGTGCTCGTAAAAAACAAGTCTTT
259 TTTTTCCTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAACAAATCTTT
32146 AAATCAA
323 AAATCAA
* * * *
32153 TTTTGGCTGAGATTTGGTTAGATGAATATATATATTTCAAGGAGTCTTGGCGCCACAAATCGTGC
1 -TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGC
* * * * * * * *
32218 AAAACTGCA-TCGGTGCTCCGAAATACGTTTTTAGACAAAAACTGTGATGGACAGTACACGGTTT
65 AAAACTG-AGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTT
* * * * *
32282 CAGCTAAAATTTTGCAAAAACTGACCCAAAAATTCTTTCCTCAATTCTTGGCCACAATAATCGT-
129 CAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTCTTA
* * * ** * *
32346 AAAAATATATAATTCAACGCCAGGAAAATTGAAGGAATTTTCACGCTTCTAATATCGTTTTTCA-
194 AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCG-TTTTCAT
* * * *
32410 ----TT-CTAAATTAATTTCTCATTAAATCGAAACAAGAGTTC-GATGCTCCTATAAACAAATCC
258 TTTTTTCCT-AATTAATTTCTAATTAAATCGAAACAAGA-TTCAGATGCTCGTAAAAACAAATCT
32469 TTAAATTCAA
321 TTAAA-TCAA
* ** * *
32479 TATGGCTGAGATTCAGTTAGATGAGA-ATAGATATTTCAAGGAGTCTAGGCTCCAAAAATCATGC
1 TGTGGCTGAGATTTGGTTAGATGA-ATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGC
* * *
32543 AAAAGTGAGCCGAGGCCCCGGAATACGTTTTTAGCC-AAAACTGTGATGG-T--TACACGATTTC
65 AAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTC
* * * * *
32604 AGCTAAAATTTTACAAAAACTGACCCGAAAATTTTTTTCCTTAATTTTTGGACGCAATACTCGTA
130 AGCTAAAATTTTGCAAAAACTGACCC-AAAATTTTTTTCCTCAATTTTTGGCCACAATACTC-TT
* * ** *
32669 AAAAAATATATAATTCAATGCCAAGAAGATTTAAAGGCTTTTCACGCCATTAATATCGTTTTCCC
193 AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGTTTT--C
* * * * * *
32734 TATTTTTTT--GAATTAATTTTTAA--AAAACGAAACAAGATTCTGATGCTCCTAAAAACAAGTC
256 -ATTTTTTTCCTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC
*
32795 TTCAAATCAA
320 TTTAAATCAA
** * * *
32805 TTGTGGCTGAGATTTGGTTAGATGAATGCAGATATTTCAAGGACTCCTGGCGCCAAAAATCATGT
1 -TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGC
*** * ** * * *
32870 AAAACTGAGCTAAGACCCCAAAACACCTTTTTAGCCAAAACCGTGAATGATGGATAGTAAACGAT
65 AAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAAC-TG--TGATGGATAGTACACGAT
* * * * * * ** * * *
32935 TTTAGTTAAAATTTTGTAAAAAATTACCCAAATTTTTTTTTGTCAATTATTGGCCACGATAGT-T
127 TTCAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTCT
* * * ** *
32999 GTAAAAAATATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCTCGATTCCAAGTTCGTGTTT
192 -TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGT-TTT
* * * * * *
33064 CCTTTTTTT-CTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGGTCATAAAAACAAAT
255 CATTTTTTTCCT-AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAAT
*
33128 AC-TCAAATGCAA
319 -CTTTAAAT-CAA
* * * *
33140 TGTGGTTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGACAAAAATCATGGA
1 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCA
* * *
33205 AAACTGAGCCGGGGCCCCAGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACATGATTTCA
66 AAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTCA
* * * * *
33270 GCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCACAATTTTTGGACACAGTACACGTAAA
131 GCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTC-TTAA
* * *
33335 AAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAATGTCGTTTTCCGTT
195 AAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGTTTT-C--A
* * * * * *
33400 TTTATTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATACTCGTAAAAATAAGTCT
257 TTT-TTTTCCTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCT
33465 TTAAATCAA
321 TTAAATCAA
* * * * *
33474 TTGTGACTGAGATTCGGTTTGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAAATCATTC
1 -TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGC
* * *
33539 AAAACTGAGCCGGGGCCCCGGAACA-GCTTTTTAGGCAAAAA-TCGTGATGTAAAGTACACGATT
65 AAAACTGAGCCGGGGCCCCGGAACACG-TTTTTAGCCAAAAACT-GTGATGGATAGTACACGATT
* * * * **
33602 TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTCTTGGCCACTATAGTAGT
128 TCAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTCTT
** * *
33667 AAAAAATATATAATTCAACACCAAGAAGATTGAATGGCTTTTCACGCTTCTAATTTCGTTTTTC-
193 AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCG-TTTTCA
* * *
33731 TTTTTTTCCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAAAT-
257 TTTTTTTCCT-AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC-AAATC
*
33795 ATTAAATCCAA
320 TTTAAAT-CAA
* * * * * *
33806 TGAGGCTAAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCACCAAGAATCATGGA
1 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCA
* * * * * *
33871 AAACTAAGTCGGGGCCCCGGGACACGTTTTTAGCCAAAAACTATGAT-AAT-GTACACAATTTCA
66 AAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTCA
33934 GCTAAAATTTTGCAAAA
131 GCTAAAATTTTGCAAAA
33951 GGTATACAAT
Statistics
Matches: 1763, Mismatches: 304, Indels: 125
0.80 0.14 0.06
Matches are distributed among these distances:
321 35 0.02
322 28 0.02
323 4 0.00
324 61 0.03
325 98 0.06
326 50 0.03
327 118 0.07
328 4 0.00
329 44 0.02
330 103 0.06
331 404 0.23
332 330 0.19
333 43 0.02
334 219 0.12
335 221 0.13
336 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (329 bp):
TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCA
AAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGATAGTACACGATTTCA
GCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGCCACAATACTCTTAAA
AAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTTTAATTTCGTTTTCATTTT
TTTCCTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCTTTAAA
TCAA
Found at i:33638 original size:986 final size:972
Alignment explanation
Indices: 31484--33880 Score: 2365
Period size: 986 Copynumber: 2.4 Consensus size: 972
31474 TATTTTTTTG
*
31484 AATT-AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAA
1 AATTCAATTGT-GCTGAGATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAA
* * *
31548 ATGATGCAAAACTGAGCCGGGGCCCCGGAACACCTTTTTAGGTAAAAACCGTGATGGATAGTACA
65 ATCATGCAAAACTGAGCCGGGGCCCCGGAACA-CTTTTTAGGCAAAAATCGTGAT-GA-AGTACA
* * *
31613 CGATATCAGCTAAAATTTTGCAAAAATTAACCCAAAATTGTTTTCCTCAATTATTGGCCACAATA
127 CGATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAA---------T---TT-TTGGACACAATA
* * ** * *
31678 GTCGTAAAAAACATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCACGTTTTAATTTTGTGT
179 CTCGTAAAAAACATATATTTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCATTAATATCGTGT
* * * * * *
31743 TTCCTTTTTTCTTCTCTATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACA
244 TTCCTATTTTCTTCTCAATTAATTTCTGATAAAAACGAAACAAGATTCAGATGCTCATAAAAACA
* *
31808 AATCCTTAAATGCAATGCGGCTGAGATTTGGTTAGATGAATATAGATATTTCAACGACTCTTGGC
309 AATCCTTAAATGCAATGCGGCTGAGATTTGGTTAGATGAATACAGATATTTCAACGACTCCTGGC
* ** * ** *
31873 ACCAAAAATCATGAAAAACTGTGTCGGGGCCCCGGAACACGTTTCAGCCAAAAACTGTGATGGTT
374 ACCAAAAATCATGAAAAACTGAGTCAAGACCCCAAAACACGTTTCAGCCAAAAACTGTGATGGAT
* * ** *
31938 TGTACACGATATAGGCTAAAATTTTGCAAAAGCTGACCCAACAATTTTTTTACTCAATTTTTGGA
439 AGTAAACGATATAGGCTAAAATTTTGCAAAAAATGACCCAACAATTTTTTTACTCAATTATTGGA
* * **
32003 CACAATACTCTTAAAAAATATATAATTCAATGCCAAGAATATTGAAGGGCTATTCATGCTTTTAA
504 CACAATACTCTTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTATTCATGATTCCAA
* * * *
32068 TTTCGTTTTCATTTTTTTCCTAATTAATTTCTAATGAAATCGAAACAAGATTCTGGTGCTCGTAA
569 GTTCGTTTTCATTTTTTTCCTAATTAATTTCTAATGAAATCGAAACAAGATTCAGATGCTCATAA
* * * *
32133 AAAACAAGTCTTTAAATCAATTTTGGCTGAGATTTGGTTAGATGAATATATATATTTCAAGGAGT
634 AAAACAAATCTTCAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGT
* * * * * * *
32198 CTTGGCGCCACAAATCGTGCAAAACTGCATCGGTGCTCCGAAATACGTTTTTAGACAAAAACTGT
699 CTTGGCGACAAAAATCATGCAAAACTGCACCGGGGCCCCGAAACACGTTTTTAGACAAAAACTGT
* *
32263 GATGGACAGTACACGGTTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTCTTTCCTCAATT
764 GATGGACAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTCTTTCCACAATT
* *
32328 CTTGGCCACAATAATCGTAAAAATATATAATTCAACGCCAGGAAAATTGAAGGAATTTTCACGCT
829 CTTGGACACAATAATCGTAAAAATATATAATTCAACGCCAAGAAAATTGAAGGAATTTTCACGCT
* * * *
32393 TCTAATATCGTTTTTCATTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTTCGATGCTCCTA
894 TCTAATATCGTTTTTCATTCCAAATTAATTTCTAATAAAATCGAAACAAGAGTTCGATACTCCTA
*
32458 TAAACAAATCCTTA
959 AAAACAAATCCTTA
* * *
32472 AATTCAATATG-GCTGAGATTCAGTTAGATGAGA-ATAGATATTTCAAGGAGTCTAGGCTCCAAA
1 AATTCAAT-TGTGCTGAGATTCGGTTAGATGA-ATATAGATATTTCAAGGAGTCTTGGCGCCAAA
* * * * *
32535 AATCATGCAAAAGTGAGCCGAGGCCCCGGAATACGTTTTTAGCCAAAACT-GTGATG--GTTACA
64 AATCATGCAAAACTGAGCCGGGGCCCCGGAACAC-TTTTTAGGCAAAAATCGTGATGAAG-TACA
* * *
32597 CGATTTCAGCTAAAATTTTACAAAAACTGACCCGAAAATTTTTTTCCTTAATTTTTGGACGCAAT
127 CGATTTCAGCTAAAATTTTGCAAAAACTAACCC---AA-----------AATTTTTGGACACAAT
*
32662 ACTCGTAAAAAA-ATATATAATTCAATGCCAAGAAGATTTAAAGGCTTTTCACGCCATTAATATC
178 ACTCGTAAAAAACATATAT--TTCAATGCCAAGAAGATTGAAAGGCTTTTCACG-CATTAATATC
* * * *
32726 GT-TTTCCCTATTTT-TT-TGAATTAATTT-TTA-AAAAACGAAACAAGATTCTGATGCTCCTAA
240 GTGTTT-CCTATTTTCTTCTCAATTAATTTCTGATAAAAACGAAACAAGATTCAGATGCTCATAA
* * * *
32786 AAACAAGT-CTTCAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATGCAGATATTTCAAGGAC
304 AAACAAATCCTT-AAATGCAA-TGCGGCTGAGATTTGGTTAGATGAATACAGATATTTCAACGAC
* * * * *
32849 TCCTGGCGCCAAAAATCATGTAAAACTGAG-CTAAGACCCCAAAACACCTTTTTAGCCAAAACCG
367 TCCTGGCACCAAAAATCATGAAAAACTGAGTC-AAGACCCCAAAACA-CGTTTCAGCCAAAAAC-
* * * * * *
32913 TGAATGATGGATAGTAAACGATTTTA-GTTAAAATTTTGTAAAAAATTACCCAA-ATTTTTTTTT
429 TG--TGATGGATAGTAAACGA-TATAGGCTAAAATTTTGCAAAAAATGACCCAACAATTTTTTTA
* * * * *
32976 GTCAATTATTGGCCACGATAGT-TGTAAAAAATATATATTTCAATGCCAAGAAGATTGAAGGGCT
491 CTCAATTATTGGACACAATACTCT-TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCT
* * * * * *
33040 TTTC-TCGATTCCAAGTTCGTGTTTCCTTTTTTT-CTCAATTAATTTCTGATTAAATCGAAATAT
555 ATTCAT-GATTCCAAGTTCGT-TTTCATTTTTTTCCT-AATTAATTTCTAATGAAATCGAAACAA
* *
33103 GATTCAGATGGTCAT-AAAAACAAATAC-TCAAATGCAA-TGTGGTTGAGATTTGGTTAGATGAA
617 GATTCAGATGCTCATAAAAAACAAAT-CTTCAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAA
* *
33165 TATAGATATTTCAATGAGTCTTGGCGACAAAAATCATGGAAAACTG-AGCCGGGGCCCC-AGAAC
680 TATAGATATTTCAAGGAGTCTTGGCGACAAAAATCATGCAAAACTGCA-CCGGGGCCCCGA-AAC
* ** *
33228 ACGTTTTTAGCCAAAAACTGTGATGGTTAGTACATGATTTCAGCTAAAATTTTGCAAAAACTGAC
743 ACGTTTTTAGACAAAAACTGTGATGGACAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGAC
* * * * *
33293 CCAAAATTTTTTTCCACAATTTTTGGACACAGTACA-CGTAAAAAAATATATAATTCAATGCCAA
808 CCAAAAATTCTTTCCACAATTCTTGGACACAATA-ATCGT--AAAAATATATAATTCAACGCCAA
* ** * * * *
33357 GAAGATTGAAGGGCTTTTCATGCTTTTAATGTCGTTTTCCGTTTTTATTTTCCAAATTAATTTCT
870 GAAAATTGAAGGAATTTTCACGCTTCTAATATCG---T---TTTTCA--TTCCAAATTAATTTCT
* * * *
33422 AATAAAATCGAAACAAGA-TTCTGATACTCGTAAAAATAAGTCTTTA
927 AATAAAATCGAAACAAGAGTTC-GATACTCCTAAAAACAAATCCTTA
* *
33468 AA-TCAATTGTGACTGAGATTCGGTTTGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAA
1 AATTCAATTGTG-CTGAGATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAA
*
33532 ATCATTCAAAACTGAGCCGGGGCCCCGGAACAGCTTTTTAGGCAAAAATCGTGATGTAAAGTACA
65 ATCATGCAAAACTGAGCCGGGGCCCCGGAACA-CTTTTTAGGCAAAAATCGTGATG--AAGTACA
* *
33597 CGATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTCTTGGCCACTATA
127 CGATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAA---------T---TT-TTGGACACAATA
* * * * ** * * *
33662 GTAGTAAAAAATATATAATTCAACACCAAGAAGATTGAATGGCTTTTCACGCTTCTAATTTCGT-
179 CTCGTAAAAAACATATATTTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCAT-TAATATCGTG
* * * * * *
33726 TTTTCT-TTTT-TTCCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAA
243 TTTCCTATTTTCTT-CTCAATTAATTTCTGATAAAAACGAAACAAGATTCAGATGCTCATAAAAA
* * * * * * * *
33789 CAAAAT-ATTAAATCCAATGAGGCTAAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTT
307 C-AAATCCTTAAATGCAATGCGGCTGAGATTTGGTTAGATGAATACAGATATTTCAACGACTCCT
* * *
33853 GGCACCAAGAATCATGGAAAACTAAGTC
371 GGCACCAAAAATCATGAAAAACTGAGTC
33881 GGGGCCCCGG
Statistics
Matches: 1153, Mismatches: 174, Indels: 151
0.78 0.12 0.10
Matches are distributed among these distances:
982 7 0.01
983 110 0.10
984 54 0.05
985 35 0.03
986 296 0.26
987 109 0.09
988 142 0.12
989 5 0.00
990 2 0.00
991 1 0.00
994 7 0.01
995 11 0.01
996 143 0.12
997 13 0.01
998 54 0.05
999 20 0.02
1000 134 0.12
1001 10 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (972 bp):
AATTCAATTGTGCTGAGATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGCCGGGGCCCCGGAACACTTTTTAGGCAAAAATCGTGATGAAGTACACGAT
TTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTGGACACAATACTCGTAAAAAACATATA
TTTCAATGCCAAGAAGATTGAAAGGCTTTTCACGCATTAATATCGTGTTTCCTATTTTCTTCTCA
ATTAATTTCTGATAAAAACGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATGCAATG
CGGCTGAGATTTGGTTAGATGAATACAGATATTTCAACGACTCCTGGCACCAAAAATCATGAAAA
ACTGAGTCAAGACCCCAAAACACGTTTCAGCCAAAAACTGTGATGGATAGTAAACGATATAGGCT
AAAATTTTGCAAAAAATGACCCAACAATTTTTTTACTCAATTATTGGACACAATACTCTTAAAAA
ATATATAATTCAATGCCAAGAAGATTGAAGGGCTATTCATGATTCCAAGTTCGTTTTCATTTTTT
TCCTAATTAATTTCTAATGAAATCGAAACAAGATTCAGATGCTCATAAAAAACAAATCTTCAAAT
CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGACAAAAATCA
TGCAAAACTGCACCGGGGCCCCGAAACACGTTTTTAGACAAAAACTGTGATGGACAGTACACGAT
TTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTCTTTCCACAATTCTTGGACACAATAATCG
TAAAAATATATAATTCAACGCCAAGAAAATTGAAGGAATTTTCACGCTTCTAATATCGTTTTTCA
TTCCAAATTAATTTCTAATAAAATCGAAACAAGAGTTCGATACTCCTAAAAACAAATCCTTA
Found at i:33755 original size:666 final size:663
Alignment explanation
Indices: 31488--33950 Score: 3171
Period size: 666 Copynumber: 3.7 Consensus size: 663
31478 TTTTTGAATT
*
31488 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATGAT
1 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* * *
31553 GCAAAACTGAGCCGGGGCCCCGGAACACCTTTTTAGGTAAAAACCGTGATGGATAGTACACGATA
66 GCAAAACTGAGCCGGGGCCCCGAAACACCTTTTTAGGCAAAAACCGTGATGGATAGTACACGATT
* *
31618 TCAGCTAAAATTTTGCAAAAATTAACCCAAAATTGTTTTCCTCAATTATTGGCCACAATAGTCGT
131 TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGCCACAATAGTCGT
* * * * *
31683 AAAAAACATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCACG-TTTTAATTTTGTGTTTCC
196 AAAAAATATATAATTCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCC
* *
31747 TTTTTTCTTCTCTATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAATC
261 -TTTTT-TTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAATA
* * *
31812 CTTAAATGCAATGCGGCTGAGATTTGGTTAGATGAATATAGATATTTCAACGACTCTTGGCACCA
324 CTTAAATGCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCACCA
* * * *
31877 AAAATCATGAAAAACTGTGTCGGGGCCCCGGAACACG-TTTCAGCCAAAAACTGTGATGGTTTGT
389 AAAATCATGGAAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGG-TTGT
* * *
31941 ACACGATAT-AGGCTAAAATTTTGCAAAAGCTGACCCAACAATTTTTTTACTCAATTTTTGGACA
453 ACACGATTTCA-GCTAAAATTTTGCAAAAACTGACCCAA-AATTTTTTTCCTCAATTTTTGGACA
* * *
32005 CAATACTC-TTAAAAAATATATAATTCAATGCCAAGAATATTGAAGGGCTATTCATGCTTTTAAT
516 CAATACTCGTAAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAAT
* * * *
32069 TTCGTTTT-C-ATTTTTTTCCTAATTAATTTCTAATGAAATCGAAACAAGATTCTGGTGCTCGTA
581 ATCGTTTTCCTATTTTTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGT-
32132 AAAAACAAGTCTTTAAATC
645 AAAAACAAGTCTTTAAATC
* * * *
32151 AATTTTGGCTGAGATTTGGTTAGATGAATATATATATTTCAAGGAGTCTTGGCGCCACAAATCGT
1 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* * * * * * * * *
32216 GCAAAACTGCA-TCGGTGCTCCGAAATACGTTTTTAGACAAAAACTGTGATGGACAGTACACGGT
66 GCAAAACTG-AGCCGGGGCCCCGAAACACCTTTTTAGGCAAAAACCGTGATGGATAGTACACGAT
* * * * *
32280 TTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTCTTTCCTCAATTCTTGGCCACAATAATCG
130 TTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGCCACAATAGTCG
* * ** *
32345 T-AAAAATATATAATTCAACGCCAGGAAAATTGAAGGAATTTTCACGCTTCTAATATC--G-TT-
195 TAAAAAATATATAATTCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTC
** * * * * * * *
32405 -TTTCATTCTAAATTAATTTCTCATTAAATCGAAACAAGAGTTC-GATGCTCCTATAAACAAATC
260 CTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGA-TTCAGATGCTCATAAAAACAAATA
* * ** * * *
32468 CTTAAATTCAATATGGCTGAGATTCAGTTAGATGAGA-ATAGATATTTCAAGGAGTCTAGGCTCC
324 CTTAAATGCAATGTGGCTGAGATTTGGTTAGATGA-ATATAGATATTTCAATGAGTCTTGGCACC
* * * *
32532 AAAAATCATGCAAAAGTGAGCCGAGGCCCCGGAATACGTTTTTAGCC-AAAACTGTGATGG-T-T
388 AAAAATCATGGAAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTGT
* * *
32594 ACACGATTTCAGCTAAAATTTTACAAAAACTGACCCGAAAATTTTTTTCCTTAATTTTTGGACGC
453 ACACGATTTCAGCTAAAATTTTGCAAAAACTGACCC-AAAATTTTTTTCCTCAATTTTTGGACAC
* * * **
32659 AATACTCGTAAAAAAATATATAATTCAATGCCAAGAAGATTTAAAGGCTTTTCACGCCATTAATA
517 AATACTCGTAAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAATA
* * *
32724 TCGTTTTCCCTATTTTTTT--GAATTAATTTTTAA-AAAA-CGAAACAAGATTCTGATGCTCCTA
582 TCGTTTT-CCTATTTTTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTA
*
32785 AAAACAAGTCTTCAAATC
646 AAAACAAGTCTTTAAATC
** * *
32803 AATTGTGGCTGAGATTTGGTTAGATGAATGCAGATATTTCAAGGACTCCTGGCGCCAAAAATCAT
1 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* *** * * * *
32868 GTAAAACTGAGCTAAGACCCCAAAACACCTTTTTA-GCCAAAACCGTGAATGATGGATAGTAAAC
66 GCAAAACTGAGCCGGGGCCCCGAAACACCTTTTTAGGCAAAAACC--G--TGATGGATAGTACAC
* * * * * * ** *
32932 GATTTTAGTTAAAATTTTGTAAAAAATTACCCAAATTTTTTTTTGTCAATTATTGGCCACGATAG
127 GATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGCCACAATAG
* * * * * * *
32997 TTGTAAAAAATATATATTTCAATGCCAAGAAGATTGAAGGGCTTTTCTCGATTCCAAGTTCGTGT
192 TCGTAAAAAATATATAATTCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTGT
*
33062 TTCCTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGGTCATAAAAACAAA
257 TTCCTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAA
* *
33127 TACTCAAATGCAATGTGGTTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGA
322 TACTTAAATGCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGC-A
*
33192 -CAAAAATCATGGAAAACTGAGCCGGGGCCCCAGAACACGTTTTTAGCCAAAAACTGTGATGGTT
386 CCAAAAATCATGGAAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTT
* *
33256 AGTACATGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCACAATTTTTGGAC
451 -GTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGAC
* *
33321 ACAGTACACGTAAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAA
515 ACAATACTCGTAAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAA
* * *
33386 TGTCGTTTTCCGTTTTTATTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATACTC
580 TATCGTTTTCC-TATTT-TTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATGCTC
*
33451 GTAAAAATAAGTCTTTAAATC
643 GTAAAAACAAGTCTTTAAATC
* * * *
33472 AATTGTGACTGAGATTCGGTTTGATGAATATAGATATTTCAAGGAGTCTTGGCGCAAAAAATCAT
1 AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
* * * * * *
33537 TCAAAACTGAGCCGGGGCCCCGGAACAGCTTTTTAGGCAAAAATCGTGATGTAAAGTACACGATT
66 GCAAAACTGAGCCGGGGCCCCGAAACACCTTTTTAGGCAAAAACCGTGATGGATAGTACACGATT
* * *
33602 TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTCTTGGCCACTATAGTAGT
131 TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGCCACAATAGTCGT
* * *
33667 AAAAAATATATAATTCAACACCAAGAAGATTGAATGGCTTTTCACGCTTCTAATTTCGT-TTTTC
196 AAAAAATATATAATTCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCC
*
33731 TTTTTTTCCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAACAAAATA
261 TTTTTTT-CTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAAC-AAATA
* * *
33796 -TTAAATCCAATGAGGCTAAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCACCA
324 CTTAAATGCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCACCA
* * * * * **
33860 AGAATCATGGAAAACTAAGTCGGGGCCCCGGGACACGTTTTTAGCCAAAAACTATGAT-AATGTA
389 AAAATCATGGAAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTGTA
*
33924 CACAATTTCAGCTAAAATTTTGCAAAA
454 CACGATTTCAGCTAAAATTTTGCAAAA
33951 GGTATACAAT
Statistics
Matches: 1528, Mismatches: 233, Indels: 77
0.83 0.13 0.04
Matches are distributed among these distances:
651 7 0.00
652 97 0.06
653 84 0.05
654 62 0.04
655 79 0.05
656 191 0.12
657 22 0.01
658 1 0.00
659 2 0.00
660 6 0.00
661 144 0.09
662 51 0.03
663 179 0.12
664 122 0.08
665 52 0.03
666 279 0.18
667 17 0.01
668 5 0.00
669 121 0.08
670 7 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (663 bp):
AATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
GCAAAACTGAGCCGGGGCCCCGAAACACCTTTTTAGGCAAAAACCGTGATGGATAGTACACGATT
TCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGCCACAATAGTCGT
AAAAAATATATAATTCAACGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTGTTTCC
TTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCATAAAAACAAATACT
TAAATGCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGGCACCAAA
AATCATGGAAAACTGAGCCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTGTACA
CGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAATTTTTTTCCTCAATTTTTGGACACAATA
CTCGTAAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCATGCTTTTAATATCGT
TTTCCTATTTTTTTCCAAATTAATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAAC
AAGTCTTTAAATC
Found at i:37518 original size:80 final size:80
Alignment explanation
Indices: 37396--37563 Score: 336
Period size: 80 Copynumber: 2.1 Consensus size: 80
37386 AAAATCATGC
37396 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCCAAAACTGTGATGGTTATTACACGATTTTC
1 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCCAAAACTGTGATGGTTATTACACGATTTTC
37461 AGCTAAAATTTTACA
66 AGCTAAAATTTTACA
37476 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCCAAAACTGTGATGGTTATTACACGATTTTC
1 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCCAAAACTGTGATGGTTATTACACGATTTTC
37541 AGCTAAAATTTTACA
66 AGCTAAAATTTTACA
37556 AAAACTGA
1 AAAACTGA
37564 CCCAAAAGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 88 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (80 bp):
AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCCAAAACTGTGATGGTTATTACACGATTTTC
AGCTAAAATTTTACA
Found at i:38458 original size:332 final size:331
Alignment explanation
Indices: 37476--41033 Score: 3724
Period size: 333 Copynumber: 10.8 Consensus size: 331
37466 AAATTTTACA
* ** *
37476 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCC-AAAACTGTGATGGTTATTACACGATTTT
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGA-TTT
* * *
37540 CAGCTAAAATTTTACAAAAACTGACCCAAAAGAATTTTTT-CTTAATTTTTGGACACAATACTCG
65 CAGCTAAAATTTTGCAAAAACTGACCCAAAA-ATTTTTTTCCTCAATTTTTGGACACAATACTCG
* * * * *
37604 TAAAAAATATATGATTCAATGCCAAGAAGATTTAAAGGCTTTTCACGCCTCTAATATCGTTTTTC
129 TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCG-TTTTC
* *
37669 CTATTTTTT-TGAATTAATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGT-AAAAACAAGT
193 CT-TTTTTTCTCAATTAATTTCTAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAGT
* * * * *
37732 CTTTAAATCAATTGTGACTGAGATTTGGTTAGATGAATATCGATATTTCAAGGAATCCTGACGCC
256 CTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCC
37797 AAAAATCATGC
321 AAAAATCATGC
* * * *
37808 AAAACTGAGTTGGGGCTCCC-GAACACCTTTTTAGCCAAAAACCGTGAATGTGGATAGTACACGA
1 AAAACTGAGTCGGGGC-CCCGGAACACGTTTTTAGCCAAAAACTGTG-A--TGGTTAGTACACGA
* * * *
37872 TTTCAGCTAAAATTTTGCAAAAACTTA-AC-AAAATTTTTTTCCTCAATTATT-GACCACAATAG
62 TTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGA-CACAATAC
* * * * *
37934 TCGTAAAAAATATATAGTTCAATGCCAAGAAGATTGAAGGGCTTTTCTCGATTCCAA-GTTCATG
126 TCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATG-TCGT-
* * * * * * * *
37998 TTTCCTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGTTGGCAAAAACAA
189 TTTCCTTTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAAA
* * * * *
38063 A-TCCTCAAATGCAA-TGTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAATGAATCTTGG
253 AGTCTTTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGG
* *
38126 CGCCAAAAATAATGG
317 CGCCAAAAATCATGC
* * * * * * *
38141 GAAAGTGTGTAGGGGCCCCGGAACACGTTTTTAGCCAAAAACTATGACT-GTTAGTATACGATAT
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGA-TGGTTAGTACACGATTT
*
38205 CAGCTAAAATTTTGCAAAAATTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTC-T
65 CAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGT
* * *
38269 GAAAAAATATATAATTCAATGCCAACAAGATTGAAGGGCTTTTCATGCTTTTAATGTCGTTTTCC
130 -AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGTTTTCC
*
38334 TTTTTTTC-CTAATTAATTTCTAATAAATTCGAAACAAGATTCTGATACTCGTAAAAAAATAAGT
194 TTTTTTTCTC-AATTAATTTCTAATAAA-TCGAAACAAGATTCTGATGCTCGTAAAAAAA-AAGT
* *
38398 CTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGCTATTTC-AGGAGTCTTGGCGTC
256 CTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCC
38462 AAAAATCATGC
321 AAAAATCATGC
* * * ** ** *
38473 AAAACTGAG-CTGGGG-CCCAGAACACCTGTTTAGCCAAAATTTGTGATGAATAGTACATGATTT
1 AAAACTGAGTC-GGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
* * * * * *
38536 TAGCTAAAATTTTGCAAAAACTAACCC-AAAATTTTTTTCCTCAATTATTAGCCACAATAGTCGT
65 CAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGT
* * **
38600 AAAAAACATATAGTTCAATGCCAAGAAGATTGAAGGGC-TTTCACAATTCTAAT-TCCGTTTTTT
130 AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGT-CG---TTT
* * * * * *
38663 TCCTTTTTTTCTCAATTAAGTTATGATTAAATCGAAATATGATT-TAGATGCTCGTAAAAACAAA
191 TCCTTTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCT-GATGCTCGTAAAAAAAAA
* * * * * * *
38727 -TCCTCAAATGCAATT-CGGCTAAGATTTGGTTAGATAAATATAGATATTACAACGAGTCTTGGC
254 GTCTTTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGC
* *
38790 GTCAAAAATCATGG
318 GCCAAAAATCATGC
* * *
38804 AAAACTGTGTCGGGGCCCTGGAACACAG-TTTTAGCCAAAAACTGTGATTGTTAGTACACGATTT
1 AAAACTGAGTCGGGGCCCCGGAACAC-GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
* * * *
38868 CGGCTAAAATTTTGAAAAAAACTGACCCAAAAA-TTTTTTCCTCAATTTTTGGATACAATACTCT
65 CAGCTAAAATTTTG-CAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCG
* * * * *
38932 TAAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTATTCATGCTTTTAATGTCATTTTCC
129 TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGTTTTCC
* * * *
38997 TTTTTTTC-CTAATTAATTTCTAATAAAAACGAAACAAGATTCTGATACTCATAAAAGAACAAGT
194 TTTTTTTCTC-AATTAATTTCTAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAA-AAAAAGT
* * *
39061 CTTTAAATCAATTGTGGCTGAGATTTGGTTAAATGATTATAGATATTTCAAGGAGTCTTGGTGCC
256 CTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCC
39126 AAAAATCATGC
321 AAAAATCATGC
* * ** ** * **** *
39137 AAAACTGAGCCGAGGTTCCAAAACACGTTTTTAGACAAAAACAT-TGATTAACAGTACACGATAT
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAAC-TGTGATGGTTAGTACACGATTT
* * * * * *
39201 CAGCTAAAATTTTGCAAAAACTGTCCCAAAAA-TTCTTTCCTCAATTCTTGGTCTCAATAGTCGT
65 CAGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGT
* * * ** * * *
39265 AAAAAATATATAATTCAACGCCATGAAAATTGAAGATCTTTTCACGCTTCTAATATAG-TTT--A
130 AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGTTTTCCT
* * * * * * * * * * * * *
39327 ATTTTTCTAAATTGAGTTCTCATTAAGTCGAAACAAAAGTCAGATGCTCCTAAAAACACA-TTTT
195 TTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAGTCTT
* * * *
39391 TAAATCCAA-TGTGGCTGAGATTTAGTTAGATGGATATAGATATTTCAAGGAGTCTAGGCTCCAA
259 TAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAA
**
39455 TTATCATGC
323 AAATCATGC
* * * *
39464 AATATTGAGCCGGGG-CCCGGAAC-CGTTTTTAGCC-AAAACTGTGATGGTTAGTA-ATGATTTC
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
* * * **
39525 AACTAAAATTTTGCAAAAACTTAACCAAAAA-CCTTTTCCTCAATTTTTGGACACAATACTCGTA
66 AGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGTA
* * **
39589 AAAATTATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTTCACGCTTCTAATTTCGTTTTTTA
131 AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGC-TTTTCACGCTTCTAATGTCG-TTTTCC
* * * * * *
39654 TTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATT-TAGATGTTTGTAAAAACAAA-TC
194 TTTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCT-GATGCTCGTAAAAAAAAAGTC
* * * * * * *
39717 CTCAAATGCAA-TGTGACTGAGATTTGGTTTGATAAATATAGATATTTCAACGAGTCATGGCGCC
257 TTTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCC
39781 AAAAATCATAG-
321 AAAAATCAT-GC
* * * *
39792 AAAACTGTGTCGTGGCTCCGGAACACGATTTTTTGCCAAAAACTGTGATGGTTAGTACACGATTT
1 AAAACTGAGTCGGGGCCCCGGAACACG-TTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
* * *
39857 TAGCTAAAATTTTGCGAAAACTGACCCAAAAATTTTTTTTCCTCACTTTTTGGACACAATACTCG
65 CAGCTAAAATTTTGCAAAAACTGACCCAAAAA-TTTTTTTCCTCAATTTTTGGACACAATACTCG
* * *
39922 TAAAAAATATATAATTCAATG-C--GAAGGTTGAAGGGCTTTTCATGCTTTTAATGTCGTTTTCC
129 TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGTTTTCC
* * *
39984 TTTTCTTTTTCCTAATTATTTTCTAATAAAATCGAAACAAGATTCTGATGCTCGT-AAAAACAAG
194 TTTT-TTTCT-C-AATTAATTTCTAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAG
* * *
40048 TCTTTAAATCAATTGTGGATTAGATTTGGTTAGATGAATATAGATATTTCAAGGATTCTTGGCGC
255 TCTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGC
40113 CAAAAATCATGC
320 CAAAAATCATGC
** * * *** * *
40125 AAAACTGAACCGGGGCTCCGAAACACGTTTTTTAAAAAAAAAACAGTGATGGATAGTACACGATT
1 AAAACTGAGTCGGGGCCCCGGAACACG-TTTTT-AGCCAAAAACTGTGATGGTTAGTACACGATT
* * * *
40190 TCAGCTAAAATTTTGCAAAAACT-AACCAAAATTTTTTTTTCCTCAATTCTTGG-CACAATAGTC
64 TCAGCTAAAATTTTGCAAAAACTGACCCAAAA-ATTTTTTTCCTCAATTTTTGGACACAATACTC
** * *
40253 GTAAAAAATATATAATTCAACACCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTTGTTTTT
128 GTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCG-TTTT
** * * * *
40318 CCTTTTTTTCTCAATTAATTTCTGGTTAAATCGAAATATGATTCAGATGCTCGTAAAAATAAA-T
192 CCTTTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAGT
* * * * **
40382 CCTTAAACCCAA-TGTGGCTAAGATTTGGTTAGATGAGTATAGATATTTCAAGGAG--TT-GCTT
256 CTTTAAA-TCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGC
*
40443 CGAAAATCATGC
320 CAAAAATCATGC
* * ** *
40455 AAAACTGAGCCAGGGCCCCGGAACATATTTTTAGCC-AAAACTGTGATGGTTAATACACGATTTC
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
* * *** *
40519 AGCTAAAATTTTGCAAAAACTTATCCAAAAAAAATTTTCCTCAATTTTTGGACACAGTACTCGTA
66 AGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGTA
* * ** * *
40584 AAAAATATATAATTGAATGCCAATAAGATTGAAATGATTTTCACGCTTCTAATATCGTTTTTCCT
131 AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCG-TTTTCCT
* * * *
40649 ATTTTTT-TGAATTAATTTCTAATAAAATCGAAGCAAGATTCTAATGCTCGT-AAAAATAAGTCT
195 -TTTTTTCTCAATTAATTTCTAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAGTCT
* *
40712 TTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTCTTGGCTCCAA
258 TTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAA
40777 AAATCATGC
323 AAATCATGC
* * * * *
40786 AAAACTGAGTCGGGGCCCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATATTACACAATTTC
1 AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
* * * * * * *
40851 AGCTAAAATTTTGCAAAAACTGA-CCTAAAA-TTTTTTCCTCAAATATTGGGCAAAATAGTAGTA
66 AGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGTA
* * * *
40914 AAAAATATATAGTTCAATTCCAAGAAGATTGAAGGGCTTTTCATGCTTCTAATTTCGTGTTTCC-
131 AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGT-TTTCCT
* * * *
40978 TTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAA
195 TTTTTTCTCAATTAATTTCT-AATAAATCGAAACAAGATTCTGATGCTCGTAAAAA
41034 CAAACCATCA
Statistics
Matches: 2652, Mismatches: 474, Indels: 202
0.80 0.14 0.06
Matches are distributed among these distances:
323 91 0.03
324 31 0.01
325 10 0.00
326 8 0.00
327 147 0.06
328 282 0.11
329 106 0.04
330 278 0.10
331 287 0.11
332 478 0.18
333 717 0.27
334 88 0.03
335 107 0.04
336 22 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (331 bp):
AAAACTGAGTCGGGGCCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
AGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTCGTA
AAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATGTCGTTTTCCTT
TTTTTCTCAATTAATTTCTAATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAAAAGTCTTTA
AATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAA
TCATGC
Found at i:38829 original size:663 final size:659
Alignment explanation
Indices: 37476--41033 Score: 3750
Period size: 663 Copynumber: 5.4 Consensus size: 659
37466 AAATTTTACA
* ** *
37476 AAAACTGAGTCGAGGCCCCATAACACGTTTTTAGCC-AAAACTGTGATGGTTATTACACGATTTT
1 AAAACTGAGTCG-GGGCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGA-TTT
* *
37540 CAGCTAAAATTTTACAAAAACTGACCCAAAAGAATTTTTT-CTTAATTTTTGGACACAATACTCG
64 CAGCTAAAATTTTGCAAAAACTGACCC-AAA-AATTTTTTCCTCAATTTTTGGACACAATACTCG
* * * * *
37604 TAAAAAATATATGATTCAATGCCAAGAAGATTTAAAGGCTTTTCACGCCTCTAATATCGTTTTTC
127 TAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCG-TTTTC
*
37669 CTATTTTTT-TGAATTAATTTCT-AATAAAATCGAAACAAGATTCTGATGCTCGT--AAAAACAA
191 CT-TTTTTTCTCAATTAATTTCTGAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAAAAACAA
* * * * *
37730 GTCTTTAAATCAATTGTGACTGAGATTTGGTTAGATGAATATCGATATTTCAAGGAATCCTGACG
254 GTCTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCG
* * * *
37795 CCAAAAATCATGCAAAACTGAGTTGGGGCTCCCGAACACCTTTTTAGCCAAAAACCGTGAATGTG
319 CCAAAAATCATGCAAAACTGAGCTGGGGC-CCAGAACACATTTTTAGCCAAAAACTGTG-A--TG
37860 GATAGTACACGATTTCAGCTAAAATTTTGCAAAAACTTAA--CAAAATTTTTTTCCTCAATTATT
380 GATAGTACACGATTTCAGCTAAAATTTTGCAAAAAC-TAACCCAAAATTTTTTTCCTCAATTATT
* * *
37923 -GACCACAATAGTCGTAAAAAATATATAGTTCAATGCCAAGAAGATTGAAGGGCTTTTCTCGATT
444 GGA-CACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTT
* * * * * * * *
37987 CCAAGT-TCATGTTTCCTTTTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGT
508 CTAA-TATCGTTTTTCCTTTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGC
* * * * *
38051 TGGCAAAAACAAATCCTCAAATGCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATGTCAA
572 TCGTAAAAACAAATCTTTAAAT-CAAT-TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAA
* * * * *
38116 TGAATCTTGGCGCCAAAAATAATGG
635 GGAGTCTTGGCGTCAAAAATCATGC
* * * * * * *
38141 GAAAGTGTGTAGGGGCCCCGGAACACGTTTTTAGCCAAAAACTATGACT-GTTAGTATACGATAT
1 AAAACTGAGTCGGGG-CCCGGAACACGTTTTTAGCCAAAAACTGTGA-TGGTTAGTACACGATTT
*
38205 CAGCTAAAATTTTGCAAAAATTGACCCAAAAATTTTTTTCCTCAATTTTTGGACACAATACTC-T
64 CAGCTAAAATTTTGCAAAAACTGACCCAAAAA-TTTTTTCCTCAATTTTTGGACACAATACTCGT
* * * *
38269 GAAAAAATATATAATTCAATGCCAACAAGATTGAAGGGCTTTTCATGCTTTTAATGTCGTTTTCC
128 -AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTTTTCC
* *
38334 TTTTTTTC-CTAATTAATTTCT-AATAAATTCGAAACAAGATTCTGATACTCGTAAAAAAATAAG
192 TTTTTTTCTC-AATTAATTTCTGAATAAA-TCGAAACAAGATTCTGATGCTCGTAAAAAAACAAG
* *
38397 TCTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGCTATTTC-AGGAGTCTTGGCGT
255 TCTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGC
* * ** *
38461 CAAAAATCATGCAAAACTGAGCTGGGGCCCAGAACACCTGTTTAGCCAAAATTTGTGATGAATAG
320 CAAAAATCATGCAAAACTGAGCTGGGGCCCAGAACACATTTTTAGCCAAAAACTGTGATGGATAG
* * * *
38526 TACATGATTTTAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTAGCCAC
385 TACACGATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGACAC
* * **
38591 AATAGTCGTAAAAAACATATAGTTCAATGCCAAGAAGATTGAAGGGC-TTTCACAATTCTAAT-T
450 AATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATAT
* * * * *
38654 CCGTTTTTTTCCTTTTTTTCTCAATTAAGTTATGATTAAATCGAAATATGATTTAGATGCTCGTA
515 -CG--TTTTTCCTTTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTA
* * * * * *
38719 AAAACAAATCCTCAAATGCAATTCGGCTAAGATTTGGTTAGATAAATATAGATATTACAACGAGT
577 AAAACAAATCTTTAAAT-CAATT-GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGT
*
38784 CTTGGCGTCAAAAATCATGG
640 CTTGGCGTCAAAAATCATGC
* *
38804 AAAACTGTGTCGGGGCCCTGGAACACAG-TTTTAGCCAAAAACTGTGATTGTTAGTACACGATTT
1 AAAACTGAGTCGGGGCCC-GGAACAC-GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTT
* * * *
38868 CGGCTAAAATTTTGAAAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTGGATACAATACTCTT
64 CAGCTAAAATTTTG-CAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTGGACACAATACTCGT
* * * * * *
38933 AAAAAATATATAATTCAATGCCAAAAAGATTGAAGGGCTATTCATGCTTTTAATGTCATTTTCCT
128 AAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTTTTCCT
* * * *
38998 TTTTTTC-CTAATTAATTTCT-AATAAAAACGAAACAAGATTCTGATACTCATAAAAGAACAAGT
193 TTTTTTCTC-AATTAATTTCTGAAT-AAATCGAAACAAGATTCTGATGCTCGTAAAAAAACAAGT
* * *
39061 CTTTAAATCAATTGTGGCTGAGATTTGGTTAAATGATTATAGATATTTCAAGGAGTCTTGGTGCC
256 CTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCC
* ** * * * ** *
39126 AAAAATCATGCAAAACTGAGCCGAGGTTCCAAAACACGTTTTTAGACAAAAACAT-TGATTAACA
321 AAAAATCATGCAAAACTGAGCTG-GGGCCCAGAACACATTTTTAGCCAAAAAC-TGTGATGGATA
* ** * * * * *
39190 GTACACGATATCAGCTAAAATTTTGCAAAAACTGTCCCAAAAATTCTTTCCTCAATTCTTGGTCT
384 GTACACGATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGACA
* * * **
39255 CAATAGTCGTAAAAAATATATAATTCAACGCCATGAAAATTGAAGATCTTTTCACGCTTCTAATA
449 CAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATA
* ** * * * * * * * * *
39320 TAG--TTT--AATTTTTCTAAATTGAGTTCTCATTAAGTCGAAACAAAAGTCAGATGCTCCTAAA
514 TCGTTTTTCCTTTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAA
* * * *
39381 AACACATTTTTAAATCCAATGTGGCTGAGATTTAGTTAGATGGATATAGATATTTCAAGGAGTCT
579 AACAAATCTTTAAAT-CAAT-TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCT
* **
39446 AGGC-TCCAATTATCATGC
642 TGGCGT-CAAAAATCATGC
* * * *
39464 AATATTGAGCCGGGGCCCGGAAC-CGTTTTTAGCC-AAAACTGTGATGGTTAGTA-ATGATTTCA
1 AAAACTGAGTCGGGGCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCA
* * * **
39526 ACTAAAATTTTGCAAAAACTTAACCAAAAACCTTTTCCTCAATTTTTGGACACAATACTCGTAAA
66 GCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTGGACACAATACTCGTAAA
* **
39591 AATTATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTTCACGCTTCTAATTTCGTTTTTTATT
131 AAATATATAATTCAATGCCAAGAAGATTGAAGGGC-TTTTCACGCTTCTAATTTCG-TTTTCCTT
* * * * * * *
39656 TTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATT-TAGATGTTTGT--AAAAACAAATCC
194 TTTTTCTCAATTAATTTCTGAATAAATCGAAACAAGATTCT-GATGCTCGTAAAAAAACAAGTCT
* * * * * *
39718 TCAAATGCAA-TGTGACTGAGATTTGGTTTGATAAATATAGATATTTCAACGAGTCATGGCGCCA
258 TTAAAT-CAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCA
* * * * *
39782 AAAATCATAG-AAAACTGTG-TCGTGGCTCCGGAACACGATTTTTTGCCAAAAACTGTGATGGTT
322 AAAATCAT-GCAAAACTGAGCT-GGGGC-CCAGAACAC-ATTTTTAGCCAAAAACTGTGATGGAT
* * * * *
39845 AGTACACGATTTTAGCTAAAATTTTGCGAAAACTGACCCAAAAATTTTTTTTCCTCACTTTTTGG
383 AGTACACGATTTCAGCTAAAATTTTGCAAAAACTAACCC-AAAA-TTTTTTTCCTCAATTATTGG
* * * *
39910 ACACAATACTCGTAAAAAATATATAATTCAATG-C--GAAGGTTGAAGGGCTTTTCATGCTTTTA
446 ACACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTA
* * * *
39972 ATGTCG-TTTTCCTTTTCTTTTTCCTAATTATTTTCTAATAAAATCGAAACAAGATTCT-GATGC
511 ATATCGTTTTTCCTTTT-TTTCT-C-AATTAATTTCTAATTAAATCGAAACAAGATT-TAGATGC
* * *
40035 TCGTAAAAACAAGTCTTTAAATCAATTGTGGATTAGATTTGGTTAGATGAATATAGATATTTCAA
572 TCGTAAAAACAAATCTTTAAATCAA-T-TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAA
* *
40100 GGATTCTTGGCGCCAAAAATCATGC
635 GGAGTCTTGGCGTCAAAAATCATGC
** * *** * *
40125 AAAACTGAACCGGGGCTCCGAAACACGTTTTTTAAAAAAAAAACAGTGATGGATAGTACACGATT
1 AAAACTGAGTCGGGGC-CCGGAACACG-TTTTT-AGCCAAAAACTGTGATGGTTAGTACACGATT
* * * *
40190 TCAGCTAAAATTTTGCAAAAACT-AACCAAAATTTTTTTTTCCTCAATTCTTGG-CACAATAGTC
63 TCAGCTAAAATTTTGCAAAAACTGACCCAAAA--ATTTTTTCCTCAATTTTTGGACACAATACTC
** *
40253 GTAAAAAATATATAATTCAACACCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTTGTTTTT
126 GTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCG-TTTT
** * * * *
40318 CCTTTTTTTCTCAATTAATTTCTGGTTAAATCGAAATATGATTCAGATGCTCGTAAAAATA-AA-
190 CCTTTTTTTCTCAATTAATTTCTGAATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAACAAG
* * * * *
40381 TCCTTAAACCCAA-TGTGGCTAAGATTTGGTTAGATGAGTATAGATATTTCAAGGAG--TT-GCT
255 TCTTTAAA-TCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCG
* * * * * * *
40442 TCGAAAATCATGCAAAACTGAGCCAGGGCCCCGGAACATATTTTTAGCC-AAAACTGTGATGGTT
319 CCAAAAATCATGCAAAACTGAG-CTGGGGCCCAGAACACATTTTTAGCCAAAAACTGTGATGGAT
* * * *** *
40506 AATACACGATTTCAGCTAAAATTTTGCAAAAACTTATCCAAAAAAAATTTTCCTCAATTTTTGGA
383 AGTACACGATTTCAGCTAAAATTTTGCAAAAAC-TAACCCAAAATTTTTTTCCTCAATTATTGGA
* * * * ** *
40571 CACAGTACTCGTAAAAAATATATAATTGAATGCCAATAAGATTGAAATGATTTTCACGCTTCTAA
447 CACAATAGTCGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAA
* * *
40636 TATCGTTTTTCCTATTTTTT-TGAATTAATTTCTAATAAAATCGAAGCAAGATTCTA-ATGCTCG
512 TATCGTTTTTCCT-TTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATT-TAGATGCTCG
* * *
40699 TAAAAATAAGTCTTTAAATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTTAAGGA
575 TAAAAACAAATCTTTAAATCAA-T-TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGA
40764 GTCTTGGC-TCCAAAAATCATGC
638 GTCTTGGCGT-CAAAAATCATGC
* * * * *
40786 AAAACTGAGTCGGGGCCCCGGAACACCTTTTTAGCCAAAAACCGTGATGGATATTACACAATTTC
1 AAAACTGAGTCGGGG-CCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
* * * * * * *
40851 AGCTAAAATTTTGCAAAAACTGA-CCTAAAATTTTTTCCTCAAATATTGGGCAAAATAGTAGTAA
65 AGCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTGGACACAATACTCGTAA
* * *
40915 AAAATATATAGTTCAATTCCAAGAAGATTGAAGGGCTTTTCATGCTTCTAATTTCGTGTTTCC-T
130 AAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGT-TTTCCTT
* * * *
40979 TTTTTCTCAATTAATTTCTGATTAAATCGAAATATGATTCAGATGCTCGTAAAAA
194 TTTTTCTCAATTAATTTCTGAATAAATCGAAACAAGATTCTGATGCTCGTAAAAA
41034 CAAACCATCA
Statistics
Matches: 2468, Mismatches: 344, Indels: 170
0.83 0.12 0.06
Matches are distributed among these distances:
654 1 0.00
655 190 0.08
656 93 0.04
657 138 0.06
658 127 0.05
659 63 0.03
660 181 0.07
661 350 0.14
662 100 0.04
663 452 0.18
664 155 0.06
665 289 0.12
666 232 0.09
667 77 0.03
668 20 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (659 bp):
AAAACTGAGTCGGGGCCCGGAACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCA
GCTAAAATTTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTGGACACAATACTCGTAAA
AAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATTTCGTTTTCCTTTT
TTTCTCAATTAATTTCTGAATAAATCGAAACAAGATTCTGATGCTCGTAAAAAAACAAGTCTTTA
AATCAATTGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGCTGGGGCCCAGAACACATTTTTAGCCAAAAACTGTGATGGATAGTACACG
ATTTCAGCTAAAATTTTGCAAAAACTAACCCAAAATTTTTTTCCTCAATTATTGGACACAATAGT
CGTAAAAAATATATAATTCAATGCCAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTT
TCCTTTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAAT
CTTTAAATCAATTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGTCAA
AAATCATGC
Found at i:42037 original size:15 final size:15
Alignment explanation
Indices: 42017--42047 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42007 AAAACGAAAG
42017 AAACATAGGTTAATT
1 AAACATAGGTTAATT
42032 AAACATAGGTTAATT
1 AAACATAGGTTAATT
42047 A
1 A
42048 TGGTTTTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (15 bp):
AAACATAGGTTAATT
Found at i:42331 original size:4 final size:4
Alignment explanation
Indices: 42322--42347 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
42312 AAATTTGAGA
42322 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
42348 CATGGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:43147 original size:11 final size:11
Alignment explanation
Indices: 43131--43173 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
43121 GATGATGAAT
*
43131 GAAAAAAAAAA
1 GAAAAAAGAAA
43142 GAAAAAAGAAA
1 GAAAAAAGAAA
*
43153 GAAAGAAGAAA
1 GAAAAAAGAAA
43164 GAAAAGAAGA
1 GAAAA-AAGA
43174 TGTAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 24 0.86
12 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:44100 original size:21 final size:22
Alignment explanation
Indices: 44060--44100 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44050 AGCTCAAATA
44060 CTATACAAACTGATGGAATACT
1 CTATACAAACTGATGGAATACT
* *
44082 CTATCCAACCTGA-GGAATA
1 CTATACAAACTGATGGAATA
44101 GCACAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (22 bp):
CTATACAAACTGATGGAATACT
Found at i:45144 original size:3 final size:3
Alignment explanation
Indices: 45136--45176 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
45126 GGCAGGTAAG
* *
45136 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
45177 CCATGCATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:66461 original size:22 final size:21
Alignment explanation
Indices: 66410--66603 Score: 70
Period size: 22 Copynumber: 8.9 Consensus size: 21
66400 ATGATTTCAT
*
66410 TATGAAATTTTGATAACCTCC
1 TATGAAATTTTGATAACCTAC
*
66431 TATGAAATTTTGATAACGGTAC
1 TATGAAATTTTGATAAC-CTAC
* ** * **
66453 TATGGAATTTCAAGAATCCTTT
1 TATGAAATTTTGATAA-CCTAC
* * *
66475 TAT-AAATTTT-TTAAACTTTC
1 TATGAAATTTTGAT-AACCTAC
* * *
66495 TTATGAAATTTTGTTAATCTCCC
1 -TATGAAATTTTGATAACCT-AC
* * *
66518 TAAGGAATTTTGA-AGACCTCAA
1 TATGAAATTTTGATA-ACCT-AC
* *
66540 TATGAAATTTTGATAACTTCCC
1 TATGAAATTTTGATAACCT-AC
* * *
66562 AATGAAGTTTTGATAACCAACAC
1 TATGAAATTTTGATAACC--TAC
*
66585 TATGAAATGTTGATAACCT
1 TATGAAATTTTGATAACCT
66604 CCATATATGA
Statistics
Matches: 124, Mismatches: 38, Indels: 22
0.67 0.21 0.12
Matches are distributed among these distances:
20 3 0.02
21 28 0.23
22 72 0.58
23 21 0.17
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
TATGAAATTTTGATAACCTAC
Found at i:66573 original size:44 final size:46
Alignment explanation
Indices: 66496--66605 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 46
66486 TAAACTTTCT
* *
66496 TATGAAATTTTGTTAA-TCTCCCTAAGGAATTTTGA-AGACC-TCAA
1 TATGAAATTTTGATAACTCTCCCTAAGGAATTTTGATA-ACCAACAA
* *
66540 TATGAAATTTTGATAACT-TCCC-AATGAAGTTTTGATAACCAACAC
1 TATGAAATTTTGATAACTCTCCCTAAGGAA-TTTTGATAACCAACAA
*
66585 TATGAAATGTTGATAAC-CTCC
1 TATGAAATTTTGATAACTCTCC
66606 ATATATGATA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
43 5 0.09
44 28 0.50
45 23 0.41
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (46 bp):
TATGAAATTTTGATAACTCTCCCTAAGGAATTTTGATAACCAACAA
Found at i:66735 original size:23 final size:22
Alignment explanation
Indices: 66704--66788 Score: 82
Period size: 23 Copynumber: 3.8 Consensus size: 22
66694 GATAACCTCG
*
66704 CTATGAAATTTTGATAAATCTTT
1 CTATAAAATTTTGATAAA-CTTT
* **
66727 CTATAAAATTTTAATAAACCTCC
1 CTATAAAATTTTGATAAA-CTTT
66750 CTATAAAATTTTGAT-AACTTT
1 CTATAAAATTTTGATAAACTTT
* *
66771 CTTATGAAATCTTGATAA
1 C-TATAAAATTTTGATAA
66789 CTACAAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 3 0.06
22 14 0.28
23 33 0.66
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (22 bp):
CTATAAAATTTTGATAAACTTT
Found at i:66843 original size:22 final size:22
Alignment explanation
Indices: 66680--66981 Score: 184
Period size: 22 Copynumber: 14.0 Consensus size: 22
66670 CAGATAATCA
*
66680 CACTATGAAATTGTGATAACCT
1 CACTATGAAATTTTGATAACCT
* *
66702 CGCTATGAAATTTTGATAAATCT
1 CACTATGAAATTTTGAT-AACCT
** * *
66725 TTCTATAAAATTTTAATAAACCT
1 CACTATGAAATTTTGAT-AACCT
* * *
66748 CCCTATAAAATTTTGATAACTTT
1 CACTATGAAATTTTGATAAC-CT
* *
66771 C-TTATGAAATCTTGATAA-CT
1 CACTATGAAATTTTGATAACCT
*
66791 -AC----AAATTTTGATAAACT
1 CACTATGAAATTTTGATAACCT
**
66808 C-CTTATGATTTTTTGATAACCT
1 CAC-TATGAAATTTTGATAACCT
* * *
66830 CATTATGAAATTTTGTTAATCT
1 CACTATGAAATTTTGATAACCT
* * *
66852 CCCTATGAAATTTTGATCTACAT
1 CACTATGAAATTTTGAT-AACCT
66875 -ACTATGAAATTTTGATAACCCT
1 CACTATGAAATTTTGATAA-CCT
* *
66897 C-TTATGAAATTTTGA-AAACT
1 CACTATGAAATTTTGATAACCT
* *
66917 AAACTATGAAAATTTGATAACCTT
1 -CACTATGAAATTTTGATAACC-T
*
66941 CA-TATGAAATTTTGATATCCT
1 CACTATGAAATTTTGATAACCT
*
66962 CAC--TG-AATTTTGATATCCT
1 CACTATGAAATTTTGATAACCT
66981 C
1 C
66982 CCTGAATTTT
Statistics
Matches: 217, Mismatches: 44, Indels: 41
0.72 0.15 0.14
Matches are distributed among these distances:
16 11 0.05
17 3 0.01
19 15 0.07
20 5 0.02
21 6 0.03
22 132 0.61
23 44 0.20
24 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
CACTATGAAATTTTGATAACCT
Found at i:66972 original size:19 final size:19
Alignment explanation
Indices: 66948--66999 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
66938 CTTCATATGA
66948 AATTTTGATATCCTCACTG
1 AATTTTGATATCCTCACTG
*
66967 AATTTTGATATCCTCCCTG
1 AATTTTGATATCCTCACTG
*
66986 AATTTTGGTATCCT
1 AATTTTGATATCCT
67000 TCCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (19 bp):
AATTTTGATATCCTCACTG
Found at i:67011 original size:20 final size:19
Alignment explanation
Indices: 66947--67014 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
66937 CCTTCATATG
*
66947 AAATTTTGATATCCTCACT
1 AAATTTTGATATCCTCCCT
*
66966 GAATTTTGATATCCTCCCT
1 AAATTTTGATATCCTCCCT
* * *
66985 GAATTTTGGTATCCTTCCT
1 AAATTTTGATATCCTCCCT
67004 AAAATTTTGAT
1 -AAATTTTGAT
67015 TACTCCATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 34 0.81
20 8 0.19
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.44
Consensus pattern (19 bp):
AAATTTTGATATCCTCCCT
Found at i:67170 original size:43 final size:42
Alignment explanation
Indices: 67096--67261 Score: 133
Period size: 44 Copynumber: 3.9 Consensus size: 42
67086 AAAATACCAC
* * *
67096 TATGAAATTTTTG-TAATCAGATTTTGAAAATTTAATAACCTCTT
1 TATGAAA-TTTTGATAA-CACATTAT-AAAATTTGATAACCTCTT
* * * *
67140 TATGAAATTTTGATAACATCTTTATAAAATTTTGTTGACCCCTT
1 TATGAAATTTTGATAACA-CATTATAAAA-TTTGATAACCTCTT
* * *
67184 TATGAAATTTTGATAATCACATTATGAATTTTGATAACCTCGCT
1 TATGAAATTTTGATAA-CACATTATAAAATTTGATAACCTC-TT
*
67228 T-TGAAATTTTGATAACAC--TATGAAATTTTGATAA
1 TATGAAATTTTGATAACACATTAT-AAAATTTGATAA
67262 TTTTCATATA
Statistics
Matches: 101, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
40 3 0.03
41 11 0.11
42 3 0.03
43 34 0.34
44 48 0.48
45 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (42 bp):
TATGAAATTTTGATAACACATTATAAAATTTGATAACCTCTT
Found at i:67172 original size:22 final size:22
Alignment explanation
Indices: 67120--67329 Score: 136
Period size: 22 Copynumber: 9.7 Consensus size: 22
67110 AATCAGATTT
* * *
67120 TGAAAATTTAATAACCTCTTTA
1 TGAAATTTTGATAACATCTTTA
67142 TGAAATTTTGATAACATCTTTA
1 TGAAATTTTGATAACATCTTTA
* * * **
67164 TAAAATTTTGTTGACCCCTTTA
1 TGAAATTTTGATAACATCTTTA
*
67186 TGAAATTTTGATAATCA-CATTA
1 TGAAATTTTGATAA-CATCTTTA
* *
67208 TG-AATTTTGATAACCTCGCTT-
1 TGAAATTTTGATAACATC-TTTA
67229 TGAAATTTTGATAACA-C--TA
1 TGAAATTTTGATAACATCTTTA
67248 TGAAATTTTGAT-A-AT-TTTCA
1 TGAAATTTTGATAACATCTTT-A
*
67268 TATAAATTTTGATAATCATATCTTTA
1 T-GAAATTTTGATAA-C--ATCTTTA
* *
67294 TGAAATTTCGATAATCA-CTCTA
1 TGAAATTTTGATAA-CATCTTTA
*
67316 TGAGA-TTTGATAAC
1 TGAAATTTTGATAAC
67330 CTTCTATCAA
Statistics
Matches: 150, Mismatches: 22, Indels: 34
0.73 0.11 0.17
Matches are distributed among these distances:
17 1 0.01
18 2 0.01
19 13 0.09
20 4 0.03
21 32 0.21
22 76 0.51
23 2 0.01
25 13 0.09
26 4 0.03
27 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (22 bp):
TGAAATTTTGATAACATCTTTA
Found at i:67395 original size:22 final size:22
Alignment explanation
Indices: 67184--67476 Score: 91
Period size: 22 Copynumber: 13.4 Consensus size: 22
67174 TTGACCCCTT
* *
67184 TATGAAATTTTGATAATC-ACA
1 TATGAAATTTTGATAACCTTCA
*
67205 TTATG-AATTTTGATAACC-TCGC
1 -TATGAAATTTTGATAACCTTC-A
* *
67227 TTTGAAATTTTGATAA-C-AC-
1 TATGAAATTTTGATAACCTTCA
**
67246 TATGAAATTTTGATAATTTTCA
1 TATGAAATTTTGATAACCTTCA
* *
67268 TAT-AAATTTTGATAATCATATCTT
1 TATGAAATTTTGATAA-CCT-TC-A
*
67292 TATGAAATTTCGATAATCAC-TC-
1 TATGAAATTTTGATAA-C-CTTCA
*
67314 TATGAGA-TTTGATAACCTTC-
1 TATGAAATTTTGATAACCTTCA
* * * * *
67334 TATCAAATATTGGT-A-CTCCT
1 TATGAAATTTTGATAACCTTCA
67354 TATGAAATTGAGACTT-ATAACCTTCA
1 TATGAAATT-----TTGATAACCTTCA
*
67380 TATGAAATTTTGATAACC-ACA
1 TATGAAATTTTGATAACCTTCA
* * *
67401 CTATAAAATTTTGATAACCTCCC
1 -TATGAAATTTTGATAACCTTCA
* * *
67424 GATGAAGTATT-AGTAACCTTC-
1 TATGAAATTTTGA-TAACCTTCA
* *
67445 TAATGAAATTTTGTTAACC-ACA
1 T-ATGAAATTTTGATAACCTTCA
67467 CTATGAAATT
1 -TATGAAATT
67477 CGTATAACCT
Statistics
Matches: 204, Mismatches: 39, Indels: 56
0.68 0.13 0.19
Matches are distributed among these distances:
19 19 0.09
20 16 0.08
21 48 0.24
22 83 0.41
23 4 0.02
24 6 0.03
25 16 0.08
26 12 0.06
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCA
Found at i:67572 original size:22 final size:22
Alignment explanation
Indices: 67540--67700 Score: 141
Period size: 22 Copynumber: 7.2 Consensus size: 22
67530 TTGTGATAAT
* **
67540 TAACCACCCTATGAAATTTCAA
1 TAACCAACCTATGAAATTTTGA
* *
67562 TAACCAACCTAAGAAATTTTAA
1 TAACCAACCTATGAAATTTTGA
* *
67584 TAACCTGATCCTATGAAATTTTGG
1 TAACC--AACCTATGAAATTTTGA
*
67608 TAACC-ACTCTATGAAATTTTGG
1 TAACCAAC-CTATGAAATTTTGA
*
67630 TAA-CTACACTATGAAATTTTGA
1 TAACCAAC-CTATGAAATTTTGA
*
67652 TAACCATA-CTATGAAATTTTGG
1 TAACCA-ACCTATGAAATTTTGA
*
67674 TAACCAGA-CTATGGAATTTTGA
1 TAACCA-ACCTATGAAATTTTGA
67696 TAACC
1 TAACC
67701 TCCTCATGGA
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
21 2 0.02
22 96 0.81
23 1 0.01
24 19 0.16
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (22 bp):
TAACCAACCTATGAAATTTTGA
Found at i:67656 original size:44 final size:44
Alignment explanation
Indices: 67540--67700 Score: 166
Period size: 44 Copynumber: 3.6 Consensus size: 44
67530 TTGTGATAAT
* ** * **
67540 TAACCACCCTATGAAATTTCAATAACCA-ACCTAAGAAATTTTAA
1 TAACCACACTATGAAATTTTGATAACCATA-CTATGAAATTTTGG
*
67584 TAACCTGATC-CTATGAAATTTTGGTAACCACT-CTATGAAATTTTGG
1 TAACC--A-CACTATGAAATTTTGATAACCA-TACTATGAAATTTTGG
*
67630 TAACTACACTATGAAATTTTGATAACCATACTATGAAATTTTGG
1 TAACCACACTATGAAATTTTGATAACCATACTATGAAATTTTGG
* *
67674 TAACCAGACTATGGAATTTTGATAACC
1 TAACCACACTATGAAATTTTGATAACC
67701 TCCTCATGGA
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.02
44 63 0.64
46 33 0.33
47 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (44 bp):
TAACCACACTATGAAATTTTGATAACCATACTATGAAATTTTGG
Found at i:67686 original size:66 final size:67
Alignment explanation
Indices: 67540--67699 Score: 189
Period size: 68 Copynumber: 2.4 Consensus size: 67
67530 TTGTGATAAT
* ** * * *
67540 TAACCACCCTATGAAATTTCAATAACCA-ACCTAAGAAATTTTAATAACCTGATCCTATGAAATT
1 TAACCACACTATGAAATTTTGATAACTACA-CTATGAAATTTTAATAACC-GATACTATGAAATT
67604 TTGG
64 TTGG
* * *
67608 TAACCACTCTATGAAATTTTGGTAACTACACTATGAAATTTTGATAACC-ATACTATGAAATTTT
1 TAACCACACTATGAAATTTTGATAACTACACTATGAAATTTTAATAACCGATACTATGAAATTTT
67672 GG
66 GG
* *
67674 TAACCAGACTATGGAATTTTGATAAC
1 TAACCACACTATGAAATTTTGATAAC
67700 CTCCTCATGG
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
66 38 0.48
68 40 0.51
69 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (67 bp):
TAACCACACTATGAAATTTTGATAACTACACTATGAAATTTTAATAACCGATACTATGAAATTTT
GG
Found at i:67709 original size:22 final size:22
Alignment explanation
Indices: 67576--67723 Score: 111
Period size: 22 Copynumber: 6.6 Consensus size: 22
67566 CAACCTAAGA
* * *
67576 AATTTTAATAACCTGATCCTATGA
1 AATTTTGATAACC--ATACTATGG
* *
67600 AATTTTGGTAACCACT-CTATGA
1 AATTTTGATAACCA-TACTATGG
* * * *
67622 AATTTTGGTAACTACACTATGA
1 AATTTTGATAACCATACTATGG
*
67644 AATTTTGATAACCATACTATGA
1 AATTTTGATAACCATACTATGG
* *
67666 AATTTTGGTAACCAGACTATGG
1 AATTTTGATAACCATACTATGG
*
67688 AATTTTGATAACC-TCCTCATGG
1 AATTTTGATAACCATACT-ATGG
* *
67710 AATTATAATAACCA
1 AATTTTGATAACCA
67724 AAGTAAAATA
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.02
22 91 0.87
23 1 0.01
24 11 0.10
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (22 bp):
AATTTTGATAACCATACTATGG
Found at i:67722 original size:44 final size:44
Alignment explanation
Indices: 67548--67723 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 44
67538 ATTAACCACC
** * * *
67548 CTATGAAATTTCAATAACCA-ACCTAAGAAATTTTAATAACCTGA
1 CTATGAAATTTTGATAACCATA-CTATGAAATTATAATAACCAGA
* * ** * *
67592 TCCTATGAAATTTTGGTAACCACT-CTATGAAATTTTGGTAACTACA
1 --CTATGAAATTTTGATAACCA-TACTATGAAATTATAATAACCAGA
* **
67638 CTATGAAATTTTGATAACCATACTATGAAATTTTGGTAACCAGA
1 CTATGAAATTTTGATAACCATACTATGAAATTATAATAACCAGA
* * *
67682 CTATGGAATTTTGATAACC-TCCTCATGGAATTATAATAACCA
1 CTATGAAATTTTGATAACCATACT-ATGAAATTATAATAACCA
67724 AAGTAAAATA
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
43 4 0.04
44 71 0.66
46 33 0.31
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (44 bp):
CTATGAAATTTTGATAACCATACTATGAAATTATAATAACCAGA
Found at i:67848 original size:30 final size:32
Alignment explanation
Indices: 67814--67878 Score: 107
Period size: 30 Copynumber: 2.1 Consensus size: 32
67804 GGCAATTTAG
*
67814 AAATATGTTTTAAAAA-AAGGGTATAATT-GA
1 AAATATGTTTTAAAAATAAGGGTACAATTGGA
67844 AAATATGTTTTAAAAATAAGGGTACAATTGGA
1 AAATATGTTTTAAAAATAAGGGTACAATTGGA
67876 AAA
1 AAA
67879 CATAAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 16 0.50
31 11 0.34
32 5 0.16
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (32 bp):
AAATATGTTTTAAAAATAAGGGTACAATTGGA
Found at i:69133 original size:16 final size:16
Alignment explanation
Indices: 69112--69143 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69102 TGGTTTAAGT
69112 TTAACTTGACCACTCA
1 TTAACTTGACCACTCA
69128 TTAACTTGACCACTCA
1 TTAACTTGACCACTCA
69144 ATTATATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
TTAACTTGACCACTCA
Found at i:71633 original size:2 final size:2
Alignment explanation
Indices: 71626--71658 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
71616 GACTTGCAAC
*
71626 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71659 CCTGGAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.